DOI Date Subjects License Title Authors Affiliations
http://dx.doi.org/10.1101/049031 2016-04-16 Microbiology CC BY-NC Alternative Growth Behavior of Mycobacterium Avium Subspecies and Staphylococci with Implications for Clinical Microbiology and Blood Culture Peilin Zhang|Lawrence M Minardi|J. Todd Kuenstner|Steve M Zekan PZM Diagnostics, LLC
http://dx.doi.org/10.1101/049049 2016-04-16 Genomics CC BY-NC-ND Lateral genetic transfers between eukaryotes and bacteriophages Sarah R Bordenstein|Seth R Bordenstein Vanderbilt University
http://dx.doi.org/10.1101/048553 2016-04-16 Cancer Biology CC BY Wild-type Splicing Factor U2AF1 inhibits splicing associated with a recurrent U2AF1 mutant in human lung cancers and is required for cell survival Dennis Liang Fei|Hayley Motowski|Rakesh Chatrikhi|Sameer Prasad|Jovian Yu|Shaojian Gao|Clara Kielkopf|Robert K Bradley|Harold Varmus Weill Cornell Medicine;|National Human Genome Research Institute;|University of Rochester Medical Center;|National Cancer Institute;|FHCRC
http://dx.doi.org/10.1101/049015 2016-04-16 Bioinformatics CC BY-ND Network-based Computational Drug Combination Prediction Fuhai Li|Lei Huang|Jianting Sheng|Stephen TC Wong Houston Methodist Research Institute
http://dx.doi.org/10.1101/048892 2016-04-16 Evolutionary Biology CC BY-NC-ND A statistical guide to the design of deep mutational scanning experiments Sebastian Matuszewski|Marcel Eckhardt Hildebrandt|Ana-Hermina Ghenu|Jeffrey D. Jensen|Claudia Bank EPFL;|Instituto Gulbenkian de Ciência;|École Polytechnique Fédérale de Lausanne (EPFL);|Instituto Gulbenkian de Ciéncia
http://dx.doi.org/10.1101/048991 2016-04-16 Genetics CC BY Analysis of shared heritability in common disorders of the brain Verneri Anttila|Brendan Bulik-Sullivan|Hilary Kiyo Finucane|Jose Bras|Laramie Duncan|Valentina Escott-Price|Guido Falcone|Padhraig Gormley|Rainer Malik|Nikolaos Patsopoulos|Stephan Ripke|Raymond Walters|Zhi Wei|Dongmei Yu|Phil Lee|Gerome Breen|Cynthia Bulik|Mark Daly|Martin Dichgans|Stephen Faraone|Rita Guerreiro|Peter Holmans|Kenneth Kendler|Bobby Koeleman|Carol Mathews|Jeremiah Scharf|Pamela Sklar|Julie Williams|Nick Wood|Chris Cotsapas|Aarno Palotie|Jordan Smoller|Patrick Sullivan|Jonathan Rosand|Aiden Corvin|Benjamin Neale Broad Institute of MIT and Harvard;|MIT;|UCL, Institute of Neurology;|Broad Institute;|Cardiff University;|Center for Human Genetic Research, Department of Neurology, Massachusetts General Hospital;|Ludwig Maximilian University of Munich;|Charite Universitatsmedizin Berlin;|New Jersey Institute of Technology;|Psychiatric and Neurodevelopmental Genetics Unit (PNGU), Center for Human Genetics Research, Massach;|Kings College London;|University of North Carolina at Chapel Hill;|SUNY Upstate Medical University;|University College London;|Virginia Commonwealth University;|University Medical Center Utrecht;|University of Florida;|Icahn School of Medicine at Mount Sinai;|Yale School of Medicine;|University of North Carolina School of Medicine;|Department of Neurology, Massachusetts General Hospital;|Trinity College Dublin
http://dx.doi.org/10.1101/049007 2016-04-16 Neuroscience CC BY-NC-ND Cortical rhythms are modulated by respiration Detlef H Heck|Samuel S McAfee|Yu Liu|Abbas Babajani-Feremi|Roozbeh Rezaie|Walter J Freeman|James W Wheless|Andrew C Papanicolaou|Miklos Ruszinko|Robert Kozma Dept. of Anatomy and Neurobiology, University of Tennessee Health Science Center, Memphis, TN, 38163;|Dept. of Pediatrics, University of Tennessee Health Science Center and Le Bonheur Childrens Hospital;|Department of Molecular & Cell Biology, Division of Neurobiology, UC at Berkeley;|Renyi Institute of Mathematics, Hungarian Academy of Sciences, Budapest, Realtanoda u., Hungary;|Dept. of Mathematical Sciences, University of Memphis, Memphis, TN 38152
http://dx.doi.org/10.1101/048934 2016-04-16 Evolutionary Biology CC BY-NC-ND An experimental evaluation of drug-induced mutational meltdown as an antiviral treatment strategy Claudia Bank|Nicholas Renzette|Ping Liu|Sebastian Matuszewski|Hyunjin Shim|Matthieu Foll|Daniel N.A. Bolon|Konstantin B. Zeldovich|Timothy F. Kowalik|Robert W. Finberg|Jennifer P. Wang|Jeffrey D. Jensen Instituto Gulbenkian de CIencia;|University of Massachusetts Medical School;|Ecole Polytechnique Federale de Lausanne;|International Agency for Research on Cancer;|Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/048983 2016-04-16 Bioinformatics CC BY-NC Metavisitor, a suite of Galaxy tools for simple and rapid detection and discovery of viruses in deep sequence data Guillaume Carissimo|Marius van den Beek|Juliana Pegoraro|Kenneth D Vernick|Christophe Antoniewski Institut Pasteur, CNRS;|IBPS CNRS, Universite Pierre et Marie Curie;|CNRS IBPS, Universite Pierre et Marie Curie
http://dx.doi.org/10.1101/048736 2016-04-16 Genomics CC BY-NC-ND Deep sequencing analysis of the circadian transcriptome of the jewel wasp Nasonia vitripennis Nathaniel J Davies|Eran Tauber University of Leicester
http://dx.doi.org/10.1101/044057 2016-04-16 Bioengineering Membrane insertion of- and membrane potential sensing by semiconductor voltage nanosensors: feasibility demonstration Kyoungwon Park|Yung Kuo|Volodymyr Shvadchak|Antonino Ingargiola|Xinghong Dai|Lawrence Hsiung|Wookyeom Kim|Hong Zhou|Peng Zou|Alex Levine|Jack Li|Shimon Weiss Dept. of Chemistry & Biochemistry, University of California, Los Angeles;|Institute of Organic Chemistry and Biochemistry AS CR;|Department of Microbiology, Immunology, and Molecular Genetic, University of California, Los Angeles;|Chemical and Biomolecular Engineering Department, University of California, Los Angeles;|Department of Ecology and Evolutionary Biology, University of California, Los Angeles;|California NanoSystems Institute, University of California, Los Angeles;|College of Chemistry and Molecular Engineering, Peking University;|Dept. of Chemistry, Dept. of Physics, University of California, Los Angeles
http://dx.doi.org/10.1101/018499 2016-04-16 Zoology CC BY Acute and chronic gregarisation are associated with distinct DNA methylation fingerprints in desert locusts Eamonn B Mallon|Harindra E Amarasinghe|Swidbert R Ott University of Leicester;|University of Southampton
http://dx.doi.org/10.1101/048942 2016-04-15 Bioinformatics plasmidSPAdes: Assembling Plasmids from Whole Genome Sequencing Data Dmitry Antipov|Nolan Hartwick|Max Shen|Mikhail Raiko|Alla Lapidus|Pavel Pevzner St. Petersburg State University;|Department of Computer Science and Engineering, University of California, San Diego, USA;|Bioinformatics and Systems Biology Program, Massachusetts Institute of Technology, USA
http://dx.doi.org/10.1101/048835 2016-04-15 Genetics A simple offspring-to-mother size ratio predicts post-reproductive lifespan George Maliha|Coleen T Murphy Princeton University
http://dx.doi.org/10.1101/048975 2016-04-15 Evolutionary Biology CC BY-NC-ND On the importance of skewed offspring distributions and background selection in viral population genetics Kristen K. Irwin|Stefan Laurent|Sebastian Matuszewski|Severine Vuilleumier|Louise Ormond|Hyunjin Shim|Claudia Bank|Jeffrey D. Jensen Ecole Polytechnique Federale de Lausanne (EPFL);|Instituto Gulbenkian de Ciencia
http://dx.doi.org/10.1101/048959 2016-04-15 Microbiology CC BY-NC Time-resolved dual RNA-Seq reveals extensive rewiring of lung epithelial and pneumococcal transcriptomes during early infection Rieza Aprianto|Jelle Slager|Siger Holsappel|Jan-Willem Veening University of Groningen
http://dx.doi.org/10.1101/048686 2016-04-15 Biophysics CC BY-NC Contact statistics highlight distinct organizing principles of proteins and RNA Lei Liu|Changbong Hyeon Korea Institute for Advanced Study
http://dx.doi.org/10.1101/048819 2016-04-15 Genetics CC BY-NC-ND The Genetic Architecture of a Complex Trait is more Sensitive to Genetic Model than Population Growth Jaleal Sanjak|Anthony D Long|Kevin R Thornton University of California Irvine
http://dx.doi.org/10.1101/023200 2016-04-15 Neuroscience CC BY Dendrites enable a robust mechanism for neuronal stimulus selectivity Romain D. Caze|Sarah Jarvis|Amanda Joy Foust|Simon R Schultz Center for Neurotechnology and Dpt. of Bioengineering, Imperial College London;|Imperial College London
http://dx.doi.org/10.1101/048173 2016-04-15 Plant Biology CC BY-NC-ND The Interaction of Genotype and Environment Determines Variation in the Maize Kernel Ionome Alexandra B Asaro|Gregory R Ziegler|Cathrine Ziyomo|Owen A Hoekenga|Brian P Dilkes|Ivan Baxter Washington University in St. Louis, Donald Danforth Plant Science Center;|Donald Danforth Plant Science Center, USDA-Agricultural Research Service;|Donald Danforth Plant Science Center;|Genomic Consulting;|Purdue University
http://dx.doi.org/10.1101/046789 2016-04-15 Evolutionary Biology CC BY-NC-ND The Bcl10/paracaspase signalling complex is functionally conserved since the last common ancestor of planulozoa. Jens Staal|Yasmine Driege|Paco Hulpiau|Rudi Beyaert Ghent University
http://dx.doi.org/10.1101/038992 2016-04-15 Bioinformatics CC BY-NC-ND Convert Your Favorite Protein Modeling Program Into A Mutation Predictor: "MODICT" Ibrahim Tanyalcin|Katrien Stouffs|Dorien Daneels|Carla Al Assaf|Willy Lissens|Anna Jansen|Alexander Gheldof Vrije Universiteit Brussel;|UZ Brussel, VUB;|KU Leuven;|UZ Brussel
http://dx.doi.org/10.1101/040410 2016-04-15 Cell Biology CC BY-NC-ND Distinct stages in the recognition, sorting and packaging of proTGFα into COPII coated transport vesicles Pengcheng Zhang|Randy Schekman University of California, Berkeley;|University of California, Berkeley and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/038380 2016-04-15 Genomics CC BY Short template switch events in human evolution cause complex mutation patterns Ari Loytynoja|Nick Goldman Institute of Biotechnology, University of Helsinki;|EMBL-European Bioinformatics Institute
http://dx.doi.org/10.1101/038604 2016-04-15 Evolutionary Biology CC BY-NC-ND The stasis that wasn't: Adaptive body mass evolution is opposite to phenotypic selection in a wild rodent population Timothee Bonnet|Peter Wandeler|Glauco Camenisch|Erik Postma University of Zurich;|Naturhistorisches Museum Freiburg
http://dx.doi.org/10.1101/048850 2016-04-15 Genomics CC BY-NC-ND Enrichment of long DNA fragments from mixed samples for Nanopore sequencing Sabine E Eckert|Jackie Z-M Chan|Darren Houniet|Judy Breuer|Graham Speight Oxford Gene Technology;|UCL Division of Infection & Immunity
http://dx.doi.org/10.1101/048710 2016-04-15 Synthetic Biology CC BY-NC-ND Development of prokaryotic cell-free systems for synthetic biology Abel C Chiao|Richard M Murray|Zachary Z Sun Synvitrobio, Inc.;|Caltech
http://dx.doi.org/10.1101/048744 2016-04-15 Bioinformatics CC BY Ten Simple Rules for Taking Advantage of git and GitHub Yasset Perez-Riverol|Laurent Gatto|Rui Wang|Timo Sachsenberg|Julian Uszkoreit|Felipe da Veiga Leprevost|Christian Fufezan|Tobias Ternent|Stephen J Eglen|Daniel S Katz|Tom J Pollard|Alexander Konovalov|Robert M Flight|Kai Blin|Juan Antonio Vizcaino European Bioinformatics Institute;|University of Cambridge;|University of Tubingen;|Ruhr-Universitat Bochum;|University of Michigan;|University of Muenster;|University of Illinois;|Massachusetts Institute of Technology;|University of St Andrews;|University of Kentucky;|Technical University of Denmark
http://dx.doi.org/10.1101/048918 2016-04-15 Neuroscience CC BY-NC-ND Adaptation-induced blindness is orientation-tuned and monocular Deborah Apthorp|Scott Griffiths|David Alais|John Cass Australian National University;|University of Sydney;|Western Sydney University
http://dx.doi.org/10.1101/048827 2016-04-15 Genomics CC BY-NC Evidence of a recombination rate valley in human regulatory domains Yaping Liu|Abhishek Sarkar|Manolis Kellis Massachusetts Institute of Technology, Broad Institute of MIT and Harvard;|MIT
http://dx.doi.org/10.1101/048843 2016-04-15 Bioinformatics CC BY k-BOOM: A Bayesian approach to ontology structure inference, with applications in disease ontology construction Christopher J Mungall|Sebastian Koehler|Peter Robinson|Ian Holmes|Melissa Haendel LBNL;|Charite;|University of California at Berkeley;|OHSU
http://dx.doi.org/10.1101/048785 2016-04-15 Genomics CC BY-NC-ND Levels and patterns of genetic diversity differ between two closely related endemic Arabidopsis species Julie Jacquemin|Nora Hohmann|Matteo Buti|Alberto Selvaggi|Thomas Muller|Marcus A Koch|Karl J Schmid University Hohenheim, Stuttgart, Germany;|Ruprecht-Karls-University Heidelberg, Germany;|Istituto Agrario di San Michele all'Adige, Italy;|Istituto Piante da Legno e l'Ambiente, Torino, Italy;|University of Zurich, Switzerland
http://dx.doi.org/10.1101/048884 2016-04-15 Genomics CC BY-NC-ND A comparative analysis of 5-azacytidine and zebularine induced DNA demethylation Patrick T Griffin|Chad E Niederhuth|Robert J. Schmitz University of Georgia, United States
http://dx.doi.org/10.1101/048801 2016-04-15 Biophysics CC BY-NC-ND Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension Naoto Hori|Natalia A. Denesyuk|Dave Thirumalai University of Texas at Austin;|University of Maryland
http://dx.doi.org/10.1101/048900 2016-04-15 Evolutionary Biology CC BY Selective pressures on C4 photosynthesis evolution in grasses through the lens of optimality Haoran Zhou|Brent Helliker|Erol Akcay University of Pennsylvania;|University of Pennsylvania, Department of Biology
http://dx.doi.org/10.1101/048769 2016-04-15 Evolutionary Biology CC BY-NC-ND On the (un-)predictability of a large intragenic fitness landscape Claudia Bank|Sebastian Matuszewski|Ryan T. Hietpas|Jeffrey Jensen Instituto Gulbenkian de Ciencia;|Ecole Polytechnique Federale de Lausanne (EPFL);|Eli Lilly & Company
http://dx.doi.org/10.1101/048876 2016-04-15 Ecology CC BY Emergence of increased frequency and severity of multiple infections by viruses due to spatial clustering of hosts Bradford P Taylor|Catherine J Penington|Joshua S Weitz Georgia Institute of Technology;|Queensland University of Technology
http://dx.doi.org/10.1101/046797 2016-04-14 Evolutionary Biology CC BY-NC-ND Potential pitfalls in estimating viral load heritability Gabriel E Leventhal|Sebastian Bonhoeffer Massachusetts Institute of Technology (MIT);|ETH Zurich
http://dx.doi.org/10.1101/042507 2016-04-14 Immunology CC BY Diurnal variation of circulating interleukin-6 in humans: a meta-analysis Gustav Nilsonne|Mats Lekander|Torbjorn Akerstedt|John Axelsson|Michael Ingre Stockholm University;|Karolinska Institutet
http://dx.doi.org/10.1101/037549 2016-04-14 Neuroscience The basis of sharp spike onset in standard biophysical models Maria Telenczuk|Bertrand Fontaine|Romain Brette UPMC;|University of Leuven
http://dx.doi.org/10.1101/036558 2016-04-14 Bioinformatics CC BY SC3 - consensus clustering of single-cell RNA-Seq data Vladimir Yu. Kiselev|Kristina Kirschner|Michael T. Schaub|Tallulah Andrews|Tamir Chandra|Kedar N Natarajan|Wolf Reik|Mauricio Barahona|Anthony R Green|Martin Hemberg Wellcome Trust Sanger Institute, Cambridge, Hinxton, UK;|Cambridge Institute for Medical Research, Cambridge, UK;|Universite catholique de Louvain, Belgium;|Babraham Institute, Cambridge, UK;|EMBL-European Bioinformatics Institute, Hinxton, Cambridge, UK;|Imperial College London, London, UK
http://dx.doi.org/10.1101/048728 2016-04-14 Microbiology CC BY-NC-ND mazEF mediated programmed cell death in Escherichia coli: is it? Bhaskar Chandra Mohan Ramisetty|Swati Raj|Dimpy Ghosh SCHOOL OF CHEMICAL AND BIOTECHNOLOGY, SASTRA UNIVERSITY
http://dx.doi.org/10.1101/048512 2016-04-13 Genetics Network-based metabolite ratios for an improved functional characterization of genome-wide association study results Jan Krumsiek|Ferdinand Stueckler|Karsten Suhre|Christian Gieger|Tim D Spector|Nicole Soranzo|Gabi Kastenmueller|Fabian J Theis Helmholtz Zentrum Muenchen;|Weill Cornell Medical College in Qatar;|King's College London;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/048660 2016-04-13 Bioinformatics CC BY Variance Adaptive Shrinkage (vash): Flexible Empirical Bayes estimation of variances Mengyin Lu|Matthew Stephens University of Chicago;|Univ. of Chicago
http://dx.doi.org/10.1101/047266 2016-04-13 Genomics Transient structural variations alter gene expression and quantitative traits in Schizosaccharomyces pombe. Daniel Charlton Jeffares|Clemency Jolly|Mimoza Hoti|Doug Speed|Charalampos Rallis|Christophe Dessimoz|Jurg Bahler|Fritz Sedlazeck University College London;|Johns Hopkins University
http://dx.doi.org/10.1101/048454 2016-04-13 Ecology CC BY-NC-ND Zika virus, a new threat for Europe? Henri JUPILLE|Goncalo SEIXAS|Laurence MOUSSON|Carla SOUSA|Anna-Bella FAILLOUX Institut Pasteur;|Instituto de Higiene e Medicina Tropical, Unidade de Parasitologia Medical
http://dx.doi.org/10.1101/048413 2016-04-13 Bioinformatics CC BY-NC-ND Assembly of Long Error-Prone Reads Using de Bruijn Graphs Yu Lin|Jeffrey Yuan|Mikhail Kolmogorov|Max W. Shen|Pavel A. Pevzner University of California, San Diego
http://dx.doi.org/10.1101/048322 2016-04-13 Genetics CC BY-NC-ND Meta-GWAS Accuracy and Power (MetaGAP) calculator shows that hiding heritability is partially due to imperfect genetic correlations across studies R. de Vlaming|A. Okbay|C.A. Rietveld|M. Johannesson|P.K.E. Magnusson|A.G. Uitterlinden|F.J.A. van Rooij|A. Hofman|P.J.F. Groenen|A.R. Thurik|P.D. Koellinger Erasmus University Rotterdam Institute for Behavior and Biology;|Department of Economics, Stockholm School of Economics;|Department of Medical Epidemiology and Biostatistics, Karolinska Institutet;|Department of Epidemiology, Erasmus University Medical Center Rotterdam
http://dx.doi.org/10.1101/048645 2016-04-13 Neuroscience CC BY-ND Unsupervised spike sorting for large scale, high density multielectrode arrays Gerrit Hilgen|Martino Sorbaro|Sahar Pirmoradian|Jens-Oliver Muthmann|Ibolya Kepiro|Simona Ullo|Cesar Juarez Ramirez|Alessandro Maccione|Luca Berdondini|Vittorio Murino|Diego Sona|Francesca Cella Zanacchi|Upinder Bhalla|Evelyne Sernagor|Matthias H Hennig Newcastle University;|University of Edinburgh;|NCBS Bangalore;|IIT Genova
http://dx.doi.org/10.1101/048538 2016-04-13 Pharmacology CC BY-NC-ND A Possible Link Between Pyriproxyfen and Microcephaly Dan Evans|Fred Nijhout|Raphael Parens|Alfredo J. Morales|Yaneer Bar-Yam New England Complex Systems Institute;|Duke University
http://dx.doi.org/10.1101/048629 2016-04-13 Genomics CC BY Bidirectional transcription marks accessible chromatin and is not specific to enhancers Robert S Young|Yatendra Kumar|Wendy A Bickmore|Martin S Taylor MRC HGU, Unversity of Edinburgh;|University of Edinburgh;|Unversity of Edinburgh
http://dx.doi.org/10.1101/048439 2016-04-13 Biophysics A Transferable Model For Chromosome Architecture Michele Di Pierro|Bin Zhang|Erez Lieberman Aiden|Peter G. Wolynes|Jose N. Onuchic Rice University;|Baylor College of Medicine
http://dx.doi.org/10.1101/048405 2016-04-13 Neuroscience CC BY-NC-ND Concordance Among Indices of Intrinsic Brain Function: Inter-Individual Variation and Temporal Dynamics Perspectives Chao-Gan Yan|Zhen Yang|Stanley Colcombe|Xi-Nian Zuo|Michael Milham Institute of Psychology, Chinese Academy of Sciences, Beijing, China;|Child Mind Institute, New York, NY, USA;|Nathan Kline Institute for Psychiatric Research, Orangeburg, NY, USA
http://dx.doi.org/10.1101/048561 2016-04-13 Neuroscience CC BY-NC-ND Posterior inferotemporal cortex cells use multiple visual pathways to complement fine and coarse discriminations Carlos R Ponce|Stephen G. Lomber|Margaret S Livingstone Harvard Medical School;|University of Western Ontario
http://dx.doi.org/10.1101/048611 2016-04-13 Microbiology CC BY-NC Inventory of cultivatable populations of S-cycling, fermentative, Fe-reducing, and aerobic heterotrophic bacteria from salt marsh sediments. David Emerson|Cynthia Lydell Bigelow Laboratory;|American Type Culture Collection
http://dx.doi.org/10.1101/048579 2016-04-13 Bioengineering CC BY-NC Long Range Force Transmission in Fibrous Matrices Enabled by Tension-Driven Alignment of Fibers Hailong Wang|Abhilash AS|Christopher S Chen|Rebecca G Wells|Vivek B Shenoy University of Pennsylvania;|Boston University
http://dx.doi.org/10.1101/048595 2016-04-13 Evolutionary Biology CC BY-ND Variation and evolution of the glutamine-rich repeat region of Drosophila Argonaute-2 William H Palmer|Darren J Obbard University of Edinburgh
http://dx.doi.org/10.1101/048470 2016-04-13 Bioinformatics CC BY-NC-ND Assessment of pharmacogenomic agreement Zhaleh Safikhani|Nehme El-Hachem|Rene Quevedo|Petr Smirnov|Anna Goldenberg|Nicolai Juul Birkbak|Christopher E Mason|Christos Hatzis|Leming Shi|Hugo JWL Aerts|John Quackenbush|Benjamin Haibe-Kains University Health Network;|Universite de Montreal;|University of Toronto;|SickKids Research Institute/University of Toronto;|University College London;|Weill Cornell Medical College;|Yale University;|Fudan University;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/048520 2016-04-13 Neuroscience CC BY-NC-ND Temperature-dependent changes in neuronal dynamics in a patient with an SCN1A mutation and hyperthermia induced seizures Colin Peters|Richard E Rosch|Elaine Hughes|Peter C Ruben Simon Fraser University;|University College London;|Evelina London Children's Hospital, Guy's and St. Thomas' NHS Foundation Trust
http://dx.doi.org/10.1101/048397 2016-04-13 Ecology CC BY Using Google Earth to improve management of threatened limestone karst ecosystems in Peninsular Malaysia Thor-Seng Liew|Liz Price|Reuben Clements Gopalasamy Universiti Malaysia Sabah;|NA;|Kenyir Research Institute, Universiti Malaysia Terengganu
http://dx.doi.org/10.1101/048496 2016-04-13 Bioinformatics CC BY-NC-ND Reversible Polymorphism-Aware Phylogenetic Models and their Application to Tree Inference Dominik Schrempf|Bui Quang Minh|Nicola De Maio|Arndt von Haeseler|Carolin Kosiol Institute of Population Genetics, Vetmeduni Vienna;|Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories, University of Vienna;|Nuffield Department of Medicine, University of Oxford, UK;|Center for Integrative Bioinformatics Vienna
http://dx.doi.org/10.1101/048462 2016-04-13 Evolutionary Biology CC BY-ND Retrotransposon proliferation coincident with the evolution of dioecy in Asparagus Alex Harkess|Francesco Mercati|Loredana Abbate|Michael McKain|J. Chris Pires|Tea Sala|Francesco Sunseri|Agostino Falavigna|Jim Leebens-Mack University of Georgia;|Universita Mediterranea di Reggio Calabria;|Institute of Biosciences and BioResources, Division of Palermo;|Donald Danforth Plant Science Center;|University of Missouri;|Consiglio per la Ricerca in Agricoltura e lanalisi delleconomia agraria (CREA)
http://dx.doi.org/10.1101/048603 2016-04-13 Bioinformatics CC BY-NC Third-generation sequencing and the future of genomics Hayan Lee|James Gurtowski|Shinjae Yoo|Maria Nattestad|Shoshana Marcus|Sara Goodwin|W. Richard McCombie|Michael Schatz Cold Spring Harbor Laboratory;|Brookhaven National Laboratory;|City University of New York
http://dx.doi.org/10.1101/023705 2016-04-13 Bioinformatics CC BY-ND Fast Bayesian Inference of Copy Number Variants using Hidden Markov Models with Wavelet Compression John Wiedenhoeft|Eric Brugel|Alexander Schliep Rutgers, The State University of New Jersey
http://dx.doi.org/10.1101/048363 2016-04-13 Ecology CC BY-NC-ND Life on the edge: diet preferences reflect adaptation to drought in Neotoma fuscipes Brendan J Barrett|Arielle Crews|Mary Brooke McElreath University of California, Davis;|Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/047563 2016-04-13 Evolutionary Biology CC BY-NC-ND Why Mutant Allele Frequencies in Oncogenes Peak Around 0.40 and Rapidly Decrease? Kasthuri Kannan|Adriana Heguy New York University
http://dx.doi.org/10.1101/048421 2016-04-13 Genomics CC BY-ND Effects of variable mutation rates and epistasis on the distribution of allele frequencies in humans Arbel Harpak|Anand Bhaskar|Jonathan K Pritchard Stanford University
http://dx.doi.org/10.1101/048132 2016-04-13 Genomics Medical subject heading (MeSH) annotations illuminate maize genetics and evolution Timothy Beissinger|Gota Morota USDA-ARS, University of Missouri;|University of Nebraska-Lincoln
http://dx.doi.org/10.1101/045666 2016-04-13 Genetics CC BY Decision Making by Drosophila Flies Julius Adler|Lar L Vang Univeresity of Wisconsin-Madison;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/026146 2016-04-13 Evolutionary Biology CC BY-NC Limits to adaptation in partially selfing species Matthew Hartfield|Sylvain Glemin University of Toronto / University of Aarhus;|Universite Montpellier II
http://dx.doi.org/10.1101/048256 2016-04-13 Systems Biology CC BY-NC Transcriptome data analysis reveals correlation between developmentally altered gene expression and offspring phenotype in epigenetic inheritance Abhay Sharma CSIR-Institute of Genomics and Integrative Biology
http://dx.doi.org/10.1101/048355 2016-04-13 Evolutionary Biology CC BY-NC-ND The effects of population size histories on estimates of selection coefficients from time-series genetic data Ethan M Jewett|Matthias Steinrucken|Yun S. Song UC, Berkeley;|UMass Amherst;|University of California, Berkeley
http://dx.doi.org/10.1101/048272 2016-04-13 Neuroscience CC BY-NC-ND Detecting distortions of peripherally-presented letter stimuli under crowded conditions Thomas S. A. Wallis|Saskia Tobias|Matthias Bethge|Felix A. Wichmann Eberhard Karls Universitaet Tuebingen
http://dx.doi.org/10.1101/047621 2016-04-13 Neuroscience CC BY-NC-ND A switching cost for motor planning Jean-Jacques Orban de Xivry|Philippe Lefevre KU Leuven;|Universite catholique de Louvain
http://dx.doi.org/10.1101/048371 2016-04-13 Biophysics Real-time observation of DNA recognition and rejection by the RNA-guided endonuclease Cas9 Digvijay Singh|Samuel H. Sternberg|Jingyi Fei|Taekjip Ha|Jennifer A. Doudna Johns Hopkins Medical Institute;|University of California, Berkeley;|University of Chicago
http://dx.doi.org/10.1101/048207 2016-04-13 Bioinformatics Allele-Specific Quantification of Structural Variations in Cancer Genomes Yang Li|Shiguo Zhou|David C. Schwartz|Jian Ma University of Illinois at Urbana-Champaign;|University of Wisconsin-Madison;|Carnegie Mellon University
http://dx.doi.org/10.1101/048264 2016-04-13 Bioinformatics CC BY-NC-ND GenRank: an R/Bioconductor package for prioritization of candidate genes Chakravarthi Kanduri|Irma Jarvela University of Helsinki
http://dx.doi.org/10.1101/048215 2016-04-13 Systems Biology CC BY-NC-ND Extracting a low-dimensional description of multiple gene expression datasets reveals a potential driver for tumor-associated stroma in ovarian cancer Safiye Celik|Benjamin A Logsdon|Stephanie Battle|Charles W Drescher|Mara Rendi|David Hawkins|Su-In Lee University of Washington;|Sage Bionetworks;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/041798 2016-04-13 Neuroscience CC BY NIDM‐Results: a Neuroimaging Data Model to share brain mapping statistical results Camille Maumet|Tibor Auer|Alexander Bowring|Gang Chen|Samir Das|Guillaume Flandin|Satrajit Ghosh|Tristan Glatard|Krzysztof J. Gorgolewski|Karl G. Helmer|Mark Jenkinson|David Keator|B. Nolan Nichols|Jean-Baptiste Poline|Richard Reynolds|Vanessa Sochat|Jessica Turner|Thomas E. Nichols University of Warwick;|MRC Cognition and Brain Sciences Unit, Cambridge, United Kingdom;|Warwick Manufacturing Group, University of Warwick, Coventry, United Kingdom;|Scientific and Statistical Computing Core, NIMH, NIH, USA;|McGill Centre for Integrative Neuroscience, Ludmer Centre, Montreal Neurological Institute, Montreal;|Wellcome Trust Centre for Neuroimaging, UCL Institute of Neurology, London, United Kingdom;|McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA;|Department of Psychology, Stanford University, Stanford, CA, USA;|Martinos Center for Biomedical Imaging, Massachusetts General Hospital; Dept. of Radiology, Boston;|University of Oxford, UK;|Dept. of Psychiatry and Human Behavior, niversity of California, Irvine, CA, USA;|Center for Health Sciences, SRI International, Menlo Park, CA, USA;|Helen Wills Neuroscience Institute, H. Wheeler Jr. Brain Imaging Center, University of California at;|Psychology and Neuroscience, Georgia State University, Atlanta, GA, USA;|Dept. of Statistics, University of Warwick, Coventry, United Kingdom
http://dx.doi.org/10.1101/048181 2016-04-13 Genetics CC BY-NC-ND Subtle stratification confounds estimates of heritability from rare variants Gaurav Bhatia|Alexander Gusev|Po-Ru Loh|Hilary Kiyo Finucane|Bjarni J Vilhjalmsson|Stephan Ripke|Shaun Purcell|Eli Stahl|Mark Daly|Teresa R de Candia|Sang Hong Lee|Benjamin M Neale|Matthew C Keller|Noah A Zaitlen|Bogdan Pasaniuc|Nick Patterson|Jian Yang|Alkes L Price Harvard School of Public Health;|Harvard T.H. Chan School of Public Health;|MIT;|Aarhus University;|MGH;|Broad Instititute;|Broad Institute;|University of Colorado;|University of New England;|UCSF;|UCLA;|University of Queensland
http://dx.doi.org/10.1101/045062 2016-04-13 Animal Behavior and Cognition|Genetics CC BY Drosophila Mutants that Are Motile but Respond Poorly to All Stimuli Tested: Mutants that have a large defect in interaction with stimuli or in executive function Lar L Vang|Julius Adler University of Wisconsin-Madison
http://dx.doi.org/10.1101/048348 2016-04-13 Genomics CC BY Characterization of a Male Reproductive Transcriptome for Peromyscus eremicus (Cactus mouse) Lauren L Kordonowy|Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/048330 2016-04-13 Plant Biology Rapid hyperosmotic-induced Ca2+ responses in Arabidopsis thaliana exhibit sensory potentiation and establish involvement of plastidial KEA transporters Aaron Benjamin Stephan|Eric Yang|Hans-Henning Kunz|Julian I. Schroeder University of California San Diego;|Washington State University
http://dx.doi.org/10.1101/041087 2016-04-13 Evolutionary Biology CC BY-NC The role of isoforms in the evolution of cryptic coloration in Peromyscus mice Ricardo Mallarino|Tess A Linden|Catherine R Linnen|Hopi E Hoekstra Harvard University;|University of Kentucky
http://dx.doi.org/10.1101/048082 2016-04-12 Evolutionary Biology Microevolution of Bank Voles (Myodes glareolus) at Neutral and Immune Related Genes During Multiannual Dynamic Cycles: Consequences for Puumala hantavirus Epidemiology Adelaide Dubois|Maxime Galan|Jean-François Cosson|Bertrand Gauffre|Heikki Henttonen|Jukka Niemimaa|Maria Razzauti|Liina Voutilainen|Renaud Vitalis|Emmanuel Guivier|Nathalie Charbonnel ANSES / INRA, UMR CBGP;|INRA, UMR CBGP;|INRA, UMR CBGP / INRA-ANSES-EVA, UMR BIPAR;|INRA, USC1339;|Natural Resources Institute Finland;|Natural Resources Institute Finland / University of Helsinki;|CNRS, UMR 6282
http://dx.doi.org/10.1101/048280 2016-04-12 Bioinformatics CC BY Fast haplotype matching in very large cohorts using the Li and Stephens model Gerton Lunter University of Oxford
http://dx.doi.org/10.1101/048116 2016-04-12 Biophysics CC BY-NC-ND Chromosome-wide simulations uncover folding pathway and 3D organization of interphase chromosomes Davide Michieletto|Davide Marenduzzo|Ajazul Wani University of Edinburgh;|School of Physics and Astronomy;|University of Kashmir
http://dx.doi.org/10.1101/048389 2016-04-12 Microbiology CC BY DNA from fecal immunochemical test can replace stool for microbiota-based colorectal cancer screening Nielson T Baxter|Charles C Koumpouras|Mary AM Rogers|Mack T Ruffin|Patrick Schloss University of Michigan
http://dx.doi.org/10.1101/048249 2016-04-12 Neuroscience CC BY Minimal Data Needed for Valid & Accurate Image-Based fMRI Meta-Analysis Camille Maumet|Thomas E. Nichols University of Warwick
http://dx.doi.org/10.1101/039354 2016-04-12 Neuroscience CC BY A practical guide for improving transparency and reproducibility in neuroimaging research Krzysztof J. Gorgolewski|Russell Poldrack Stanford University
http://dx.doi.org/10.1101/048199 2016-04-12 Plant Biology Conformal growth of Arabidopsis leaves Graeme Mitchison The Sainsbury Laboratory, Cambridge
http://dx.doi.org/10.1101/029504 2016-04-12 Genetics Molecular genetic contributions to self-rated health Sarah E Harris|Saskia P Hagenaars|Gail Davies|William David Hill|David CM Liewald|Stuart J Ritchie|Riccardo E Marioni|Cathie LM Sudlow|Joanna M Wardlaw|Andrew M McIntosh|Catharine R Gale|Ian J Deary University of Edinburgh
http://dx.doi.org/10.1101/030411 2016-04-12 Genetics CC BY-NC-ND Genome-wide association studies suggest limited immune gene enrichment in schizophrenia compared to five autoimmune diseases Jennie G Pouget|Vanessa F Goncalves|Sarah L Spain|Hilary K Finucane|Soumya Raychaudhuri|James L Kennedy|Jo Knight Centre for Addiction and Mental Health;|Wellcome Trust Sanger Institute;|Massachusetts Institute of Technology;|Harvard Medical School;|Lancaster Medical School and Data Science Institute, Lancaster University
http://dx.doi.org/10.1101/038976 2016-04-12 Bioinformatics CC BY-NC-ND Implementation of an Open Source Software solution for Laboratory Information Management and automated RNAseq data analysis in a large-scale Cancer Genomics initiative using BASE with extension package Reggie. Jari Hakkinen|Nicklas Nordborg|Olle Mansson|Johan Vallon-Christersson Lund University
http://dx.doi.org/10.1101/039198 2016-04-11 Biophysics CC BY FRETBursts: An Open Source Toolkit for Analysis of Freely-Diffusing Single-Molecule FRET Antonino Ingargiola|Eitan Lerner|SangYoon Chung|Shimon Weiss|Xavier Michalet University of California Los Angeles
http://dx.doi.org/10.1101/027649 2016-04-11 Evolutionary Biology CC BY-NC Evolutionary assembly patterns of prokaryotic genomes Maximilian Press|Christine Queitsch|Elhanan Borenstein University of Washington
http://dx.doi.org/10.1101/048157 2016-04-11 Cancer Biology CC BY-NC-ND Reconstructing phylogenies of metastatic cancers Johannes G Reiter|Alvin P Makohon-Moore|Jeffrey M Gerold|Ivana Bozic|Krishnendu Chatterjee|Christine A Iacobuzio-Donahue|Bert Vogelstein|Martin A Nowak Harvard University;|Memorial Sloan Kettering Cancer Center;|IST Austria;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/048124 2016-04-11 Systems Biology The contribution of alternative splicing probability to the coding expansion of the genome Fernando Carrillo Oesterreich|Hugo Bowne-Anderson|Jonathon Howard Yale University
http://dx.doi.org/10.1101/043158 2016-04-11 Bioinformatics CC BY-NC-ND A method for downstream analysis of gene set enrichment results facilitates the biological interpretation of vaccine efficacy studies Yan Tan|Jernej Godec|Felix Wu|Pablo Tamayo|Jill P Mesirov|W Nicholas Haining Broad Institute of MIT and Harvard;|Department of Pediatric Oncology, Dana-Farber Cancer Institute;|Department of Medicine, University of California, San Diego
http://dx.doi.org/10.1101/048165 2016-04-11 Evolutionary Biology CC BY-NC-ND Do aye-ayes echolocate? Studying convergent genomic evolution in a primate auditory specialist Richard J Bankoff|Michael Jerjos|Baily Hohman|Elise Lauterbur|Logan Kistler|George H Perry Pennsylvania State University;|Stony Brook University;|University of Warwick
http://dx.doi.org/10.1101/048108 2016-04-11 Neuroscience Unconscious integration of multisensory bodily inputs in the peripersonal space shapes bodily self-consciousness Roy Salomon|Jean Paul Noel|Marta Lukowska|Nathan Faivre|Thomas Metzinger|Andrea Serino|Olaf Blanke UNIGE;|Vanderbilt University;|Jagiellonian University;|EPFL;|Johannes Gutenberg-Universitat
http://dx.doi.org/10.1101/048074 2016-04-11 Genomics CC BY Benchmarking of the Oxford Nanopore MinION sequencing for quantitative and qualitative assessment of cDNA populations Spyros Oikonomopoulos|Yu Chang Wang|Haig Djambazian|Dunarel Badescu|Jiannis Ragoussis McGill University and Genome Quebec Innovation Centre
http://dx.doi.org/10.1101/048066 2016-04-11 Genetics Functional enrichments of disease variants across thousands of independent loci in eight diseases Abhishek K Sarkar|Lucas D. Ward|Manolis Kellis MIT
http://dx.doi.org/10.1101/036772 2016-04-11 Neuroscience Revisiting the assessment of inter-individual differences in fMRI activations-behavior relationships. Mael Lebreton|Stefano Palminteri Universiteit van Amsterdam;|University College London
http://dx.doi.org/10.1101/046219 2016-04-11 Bioinformatics CC BY-NC-ND Integrative pharmacogenomics to infer large-scale drug taxonomy Nehme El-Hachem|Deena M.A. Gendoo|Laleh Soltan Ghoraie|Zhaleh Safikhani|Petr Smirnov|Ruth Isserlin|Gary D. Bader|Anna Goldenberg|Benjamin Haibe-Kains Institut de Recherches Cliniques de Montreal & Biomedical Sciences of Universite de Montreal, Canada;|Princess Margaret Cancer Centre, University Health Network & University of Toronto, Canada;|Princess Margaret Cancer Centre, University Health Network;|The Donnelly Centre, Toronto, Ontario, Canada;|The Donnelly Centre & The Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Canada;|Department of Computer Science, University of Toronto & Hospital for Sick Children, Toronto, Canada;|University Health Network
http://dx.doi.org/10.1101/048058 2016-04-11 Cancer Biology CC BY-NC The mutational landscape of EGFR-, MYC-, and Kras- driven genetically-engineered mouse models of lung adenocarcinoma David McFadden|Katerina Politi|Arjun Bhutkar|Frances K Chen|Xiaoling Song|Mono Pirun|Philip M Santiago|Caroline Kim|James T Platt|Emily Lee|Emily Hodges|Adam P Rosebrock|Roderick Bronson|Nicholas D Socci|Gregory Hannon|Tyler Jacks|Harold Varmus David H. Koch Institute for Integrative Cancer Research at MIT;|Yale Cancer Center, Yale University School of Medicine;|Memorial Sloan Kettering Cancer Center;|Cold Spring Harbor Laboratory;|Tufts University School of Medicine and Veterinary Medicine;|Cancer Biology and Genetics Program, Sloan-Kettering Institute
http://dx.doi.org/10.1101/047985 2016-04-10 Bioinformatics Analyzing Repast Symphony models in R with RRepast package Antonio Prestes Garcia|Alfonso Rodriguez-Paton Universidad Politécnica de Madrid
http://dx.doi.org/10.1101/047829 2016-04-10 Bioinformatics CC BY-NC-ND AKT: Ancestry and Kinship Toolkit Rudy Arthur|Ole Schulz-Trieglaff|Anthony J Cox|Jared Michael O'Connell Illumina
http://dx.doi.org/10.1101/048009 2016-04-10 Bioinformatics In-silico analysis of Salmonella typhimurium and E.coli Methionyl tRNA synthetase at primary, secondary, tertiary level with protein disorder and functional association of differences Prabhakar B. Ghorpade|Pooja V. Kadu|Amit Pandey|Yogesh Banger|Bhaskar Sharma College of Veterinary and Animal Sciences, Parbhani;|Padmashree Dr.Vithalrao Vikhe Patil Foundations College of Pharmacy;|Directorate of Coldwater Fisheries Research;|MPKV, Rahuri;|Indian Veterinary Research Institute
http://dx.doi.org/10.1101/047910 2016-04-10 Genomics Phenotypic and genomic analysis of P elements in natural populations of Drosophila melanogaster Iryna Kozeretska|Vladyslav Bondarenko|Vadym Shulga|Svitlana Serga|Andrii Rozhok|Oleksandra Protsenko|Michael G. Nelson|Casey Bergman Taras Shevchenko National University of Kyiv;|University of Colorado Denver;|University of Manchester
http://dx.doi.org/10.1101/047936 2016-04-10 Neuroscience The thalamus is a gateway for stimulus-evoked activity in the habenula Ruey Kuang Cheng|Seetha Krishnan|Qian Lin|David G. C. Hildebrand|Isaac H. Bianco|Caroline Kibat|Suresh Jesuthasan Institute of Molecular and Cell Biology;|National University of Singapore;|Harvard University
http://dx.doi.org/10.1101/047969 2016-04-10 Zoology CC BY-NC-ND All alloparents are not equally valuable: Primary breeders and group size explain group reproductive success in cooperatively breeding primates Mrinalini Watsa|Gideon A. Erkenswick|Efstathia Robakis Washington University in Saint Louis;|University of Missouri-St. Louis
http://dx.doi.org/10.1101/048033 2016-04-10 Evolutionary Biology CC BY-NC-ND Phylogenetic incongruence and the origins of cardenolide-resistant forms of Na+,K+-ATPase in North American Danaus butterflies Matthew L Aardema|Peter Andolfatto American Museum of Natural History;|Princeton University
http://dx.doi.org/10.1101/024604 2016-04-10 Synthetic Biology CC BY GreA and GreB enhance Escherichia coli RNA polymerase transcription rate in a reconstituted transcription-translation system Lea L. De Maddalena|Henrike Niederholtmeyer|Matti Turtola|Zoe Swank|Georgiy A. Belogurov|Sebastian J. Maerkl EPFL;|University of Turku
http://dx.doi.org/10.1101/024950 2016-04-09 Evolutionary Biology A resurrection experiment finds evidence of both reduced genetic diversity and potential adaptive evolution in the agricultural weed Ipomoea purpurea Adam Kuester|Ariana Wilson|Shu-mei Chang|Regina Baucom University of Michigan;|University of Georgia
http://dx.doi.org/10.1101/034173 2016-04-09 Genetics Novel protective associations with age-related macular degeneration: A common variant near CTRB1 and a rare variant in PELI3 Erin K Wagner|Yi Yu|Eric H Souied|Sanna Seitsonen|Ilkka J Immonen|Paavo Happola|Soumya Raychaudhuri|Mark J Daly|Johanna M. Seddon Tufts Medical Center;|Hopital Intercommunal de Creteil;|Helsinki University Eye Clinic;|Institute for Molecular Medicine Finland;|Brigham and Women's Hospital;|Broad Institute
http://dx.doi.org/10.1101/036590 2016-04-09 Genomics Population-Scale Sequencing Data Enables Precise Estimates of Y-STR Mutation Rates Thomas Willems|Melissa Gymrek|G. David Poznik|Chris Tyler-Smith|Yaniv Erlich MIT;|Stanford University;|The Wellcome Trust Sanger Institute;|New York Genome Center
http://dx.doi.org/10.1101/047803 2016-04-09 Evolutionary Biology Formation of novel PRDM9 allele by indel events as possible trigger for tarsier-anthropoid split Sacha Heerschop|Hans Zischler|Stefan Merker|Dyah Perwitasari-Farajallah|Christine Driller Johannes Gutenberg-University Mainz;|State Museum of Natural History Stuttgart;|Bogor Agricultural University
http://dx.doi.org/10.1101/047795 2016-04-09 Cancer Biology Tree inference for single-cell data Katharina Jahn|Jack Kuipers|Niko Beerenwinkel ETH Zurich, D-BSSE
http://dx.doi.org/10.1101/047811 2016-04-09 Evolutionary Biology Complex heterochrony underlies the evolution of hermaphrodite self-fertility and sex allocation in experimental C. elegans populations Nausicaa Poullet|Anne Vielle|Clotilde Gimond|Sara Carvalho|Henrique Teotonio|Christian Braendle Institute of Biology Valrose;|IGC;|ENS
http://dx.doi.org/10.1101/047902 2016-04-09 Ecology CC BY-NC-ND Multi-scale responses of scattering layers to environmental variability in Monterey Bay, California Samuel S Urmy|John K Horne Stony Brook University;|University of Washington
http://dx.doi.org/10.1101/047886 2016-04-09 Genomics CC BY-NC-ND Analysis of clinical Bordetella pertussis isolates using whole genome sequences reveals novel genomic regions associated with recent outbreaks in the United States of America Glen Otero|Benjamin M Althouse|Samuel Scarpino Independent;|Institute for Disease Modeling;|Department of Mathematics and Statistics, University of Vermont
http://dx.doi.org/10.1101/047837 2016-04-09 Genomics CC BY-NC-ND Insights into telomerase action from high-throughput sequencingof S. pombe telomeres Henrietta W Bennett|Na Liu|Yan Hu|Megan C King Yale School of Medicine
http://dx.doi.org/10.1101/047860 2016-04-09 Genomics CC BY-NC-ND Nucleosome fragility is associated with future transcriptional response to developmental cues and stress in C. elegans Tess E Jeffers|Jason D Lieb Princeton University
http://dx.doi.org/10.1101/047878 2016-04-09 Plant Biology CC BY-ND Prediction of glyphosate resistance level based on EPSPS gene copy number in Kochia scoparia Todd A. Gaines|Abigail L. Barker|Eric L. Patterson|Philip Westra|Eric P. Westra|Robert G. Wilson|Andrew R. Kniss Colorado State University;|University of Nebraska;|University of Wyoming
http://dx.doi.org/10.1101/047845 2016-04-09 Bioinformatics SLICER: Inferring Branched, Nonlinear Cellular Trajectories from Single Cell RNA-seq Data Joshua Welch|Alexander Hartemink|Jan F Prins The University of North Carolina at Chapel Hill;|Duke University
http://dx.doi.org/10.1101/047720 2016-04-08 Microbiology CC BY Discovery of a Natural Microsporidian Pathogen with a Broad Tissue Tropism in Caenorhabditis elegans Robert J Luallen|Aaron W Reinke|Linda Tong|Michael R Botts|Marie-Anne Felix|Emily R Troemel University of California at San Diego;|University of Wisconsin- Madison School of Medicine and Public Health;|Ecole Normale Superieure, Institut de Biologie de lENS (IBENS)
http://dx.doi.org/10.1101/047787 2016-04-08 Animal Behavior and Cognition CC BY-NC-ND Approach-induced biases in human information sampling Laurence T Hunt|Robb B Rutledge|Nishantha Malalasekera|Steven W Kennerley|Raymond J Dolan University College London
http://dx.doi.org/10.1101/047761 2016-04-08 Developmental Biology Live Imaging of muscle histolysis in Drosophila metamorphosis Yadav Kuleesha|Wee Choo Puah|Martin Wasser Bioinformatics Institute/A*STAR;|BioImagingMW
http://dx.doi.org/10.1101/047779 2016-04-08 Biophysics PIFE meets FRET - a molecular ruler goes 2D Evelyn Ploetz|Eitan Lerner|Florence Husada|Martin Roelfes|SangYoon Chung|Johannes Hohlbein|Shimon Weiss|Thorben Cordes University of Groningen;|University of California, Los Angeles;|Wageningen University and Research Centre
http://dx.doi.org/10.1101/047753 2016-04-08 Genomics CC BY-NC-ND Immune DNA signature of T-cell infiltration in breast tumor exomes Eric Levy|Rachel Marty|Valentina Garate-Calderon|Brian Woo|Michelle Dow|Ricardo Armisen|Hannah Carter|Olivier Harismendy UC San Diego;|Universidad de Chile
http://dx.doi.org/10.1101/045856 2016-04-08 Neuroscience Prevalent Presence of Periodic Actin-spectrin-based Membrane Skeleton in a Broad Range of Neuronal Cell Types and Animal Species Jiang He|Ruobo Zhou|Zhuhao Wu|Monica Carrasco|Peri Kurshan|Jonathan Farley|David Simon|Guiping Wang|Boran Han|Junjie Hao|Evan Heller|Marc Freeman|Kang Shen|Tom Maniatis|Marc Tessier-Lavigne|Xiaowei Zhuang Howard Hughes Medical Institute, Harvard University;|Rockefeller University;|University of Talca;|Howard Hughes Medical Institute, Stanford University;|Howard Hughes Medical Institute, University of Massachusetts Medical School;|Columbia University Medical Center
http://dx.doi.org/10.1101/047605 2016-04-08 Biochemistry CC BY-NC-ND Assembly and Activation of Dynein-Dynactin by the Cargo Adaptor Protein Hook3 Courtney M. Schroeder|Ronald D. Vale University of California, San Francisco
http://dx.doi.org/10.1101/047589 2016-04-08 Biophysics CC BY-NC-ND Crossover in the dynamics of cell wall growth controls bacterial division times Shiladitya Banerjee|Klevin Lo|Thomas Kuntz|Matthew K Daddysman|Aaron R Dinner|Norbert F Scherer University of Chicago
http://dx.doi.org/10.1101/047654 2016-04-08 Zoology Fate of glair glands and oocytes in unmated crayfish: a comparison between gonochoristic slough crayfish and parthenogenetic marbled crayfish Gunter Vogt University of Heidelberg
http://dx.doi.org/10.1101/047613 2016-04-08 Bioinformatics CC BY Comparison of Clustering Methods for High-Dimensional Single-Cell Flow and Mass Cytometry Data Lukas M Weber|Mark D Robinson University of Zurich
http://dx.doi.org/10.1101/047274 2016-04-08 Genomics CC BY-NC Parallel evolution of metazoan mitochondrial proteins Galya V. Klink|Georgii A. Bazykin IITP RAS
http://dx.doi.org/10.1101/047597 2016-04-08 Genomics Whole genome SNP typing to investigate methicillin-resistant Staphylococcus aureus carriage in a health-care provider as the source of multiple surgical site infections. Chandler Roe|Kimberly Horn|Elizabeth Driebe|Jolene R Bowers|Joel A Terriquez|Paul Keim|David M Engelthaler Translational Genomics Research Institute;|Flagstaff Medical Center
http://dx.doi.org/10.1101/047647 2016-04-08 Bioinformatics Bayesian Markov models consistently outperform PWMs at predicting motifs in nucleotide sequences Matthias Siebert|Johannes Soeding Max Planck Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/044990 2016-04-08 Neuroscience CC BY-NC-ND Synaptic Transmission Parallels Neuromodulation in a Central Food-Intake Circuit Philipp Schlegel|Michael J Texada|Anton Miroschnikow|Marc Peters|Casey M Schneider-Mizell|Haluk Lacin|Feng Li|Richard D Fetter|James W Truman|Albert Cardona|Michael J Pankratz LIMES Institute;|Janelia Research Campus
http://dx.doi.org/10.1101/047639 2016-04-08 Genomics CC BY-NC-ND Enhanced functional divergence of duplicate genes several million years after gene duplication in the Arabidopsis lineage Kousuke Hanada|Ayumi Tezuka|Masafumi Nozawa|Yutaka Suzuki|Sumio Sugano|Atsushi J Nagano|Motomi Ito|Shi-Ichi Morinaga Kyusyu Institute of Technology;|National Institute of Genetics;|The University of Tokyo;|Kyoto University
http://dx.doi.org/10.1101/047704 2016-04-08 Zoology CC BY Physiological and biochemical changes associated with experimental dehydration in the desert adapted cactus mouse, Peromyscus eremicus Lauren Kordonowy|Kaelina Lombardo|Hannah Green|Sarah LaCourse|Evice Bolton|Matthew MacManes University of New Hampshire
http://dx.doi.org/10.1101/047670 2016-04-08 Microbiology CC BY-NC-ND Evidence and role for bacterial mucin degradation in cystic fibrosis airway disease Jeffrey M Flynn|David Niccum|Jordan M Dunitz|Ryan C Hunter University of Minnesota
http://dx.doi.org/10.1101/047696 2016-04-08 Ecology Can the metacommunity data matrix predict changes in species incidence and abundance? Donald M. Waller|Erika L. Mudrak|David A. Rogers University of Wisconsin - Madison;|Cornell Univ.;|Univ. of Wisconsin - Parkside
http://dx.doi.org/10.1101/047712 2016-04-08 Bioinformatics CC BY-NC PALADIN:Protein Alignment for Functional Profiling Whole Metagenome Shotgun Data Anthony Westbrook|Jordan Ramsdell|Taruna Aggarwal|Louisa Normington|Daniel Bergeron|W Kelley Thomas|Matthew MacManes University of New Hampshire
http://dx.doi.org/10.1101/047746 2016-04-08 Developmental Biology CC BY-NC-ND A Transcriptional Lineage of the Early C. elegans Embryo Sophia C Tintori|Erin Osborne Nishimura|Patrick Golden|Jason D Lieb|Bob Goldstein University of North Carolina - Chapel Hill;|Colorado State University
http://dx.doi.org/10.1101/024562 2016-04-07 Cancer Biology CC BY-NC-ND The role of oxygen in avascular tumor growth David Robert Grimes|Pavitra Kannan|Alan McIntyre|Anthony Kavanagh|Abul Siddiky|Simon Wigfield|Adrian Harris|Mike Partridge University of Oxford
http://dx.doi.org/10.1101/034116 2016-04-07 Evolutionary Biology Evolutionary dynamics of cytoplasmic segregation and fusion: mitochondrial mixing facilitated the evolution of sex at the origin of eukaryotes Arunas L Radzvilavicius University College London
http://dx.doi.org/10.1101/047571 2016-04-07 Microbiology CC BY Accurate measurement of the effects of all amino-acid mutations to influenza hemagglutinin Michael B Doud|Jesse D Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/047555 2016-04-07 Biochemistry Magnetite biomineralization in Magnetospirillum magneticum is regulated by a switch-like behavior in the HtrA protease MamE David M Hershey|Patrick J Browne|Anthony T Iavarone|Joan Teyra|Eun H Lee|Sachdev S Sidhu|Arash Komeili University of California, Berkeley;|University of Toronto
http://dx.doi.org/10.1101/047282 2016-04-07 Bioinformatics CC BY DiscoMark: Nuclear marker discovery from orthologous sequences using low coverage genome data Harald Detering|Sereina Rutschmann|Sabrina Simon|Jakob Fredslund|Michael T. Monaghan University of Vigo;|Wageningen University;|Alexandra institute;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB)
http://dx.doi.org/10.1101/031435 2016-04-06 Bioinformatics CC BY-NC-ND Artemis: Rapid and Reproducible RNAseq Analysis for End Users Anthony Richard Colombo|Timothy J Triche|Giridharan Ramsingh USC Keck School of Medicine;|USC/Norris Comprehensive Cancer Center
http://dx.doi.org/10.1101/047530 2016-04-06 Microbiology CC BY-NC-ND Isolation and Genomic Characterization of Desulfuromonas soudanensis WTL, a Metal- and Electrode-Reducing Bacterium from Anoxic Deep Subsurface Brine Jonathan P Badalamenti|Zarath M Summers|Chi Ho Chan|Jeffrey A Gralnick|Daniel R Bond University of Minnesota - Twin Cities
http://dx.doi.org/10.1101/047514 2016-04-06 Genomics CC BY-NC-ND PICS: Pathway Informed Classification System for cancer analysis using gene expression data Michael Young|David Craft Harvard Medical School
http://dx.doi.org/10.1101/047464 2016-04-06 Bioinformatics CC BY Genome-wide generalized additive models Georg Stricker|Alexander Engelhardt|Daniel Schulz|Matthias Schmid|Achim Tresch|Julien Gagneur Technical University Munich, Department of Informatics;|Ludwig-Maximilians-University Munich, IBE;|University of Zurich, Institute of Molecular Life Sciences;|University Hospital Bonn, Institut für Medizinische Biometrie, Informatik und Epidemiologie;|Institute for Genetics, University of Cologne
http://dx.doi.org/10.1101/047522 2016-04-06 Neuroscience CC BY-NC Interpretability of Multivariate Brain Maps in Brain Decoding: Definition and Quantification Seyed Mostafa Kia University of Trento
http://dx.doi.org/10.1101/047480 2016-04-06 Ecology CC BY-NC-ND Environmental responses, not species interactions, determine species synchrony in natural plant communities Andrew T. Tredennick|Claire de Mazancourt|Michel Loreau|Peter B. Adler Utah State University;|CNRS and Paul Sabatier University
http://dx.doi.org/10.1101/047498 2016-04-06 Evolutionary Biology CC BY-NC-ND Genome-wide evidence for a hybrid origin of modern polar bears Tianying Lan|Jade Cheng|Aakrosh Ratan|Webb Miller|Stephan Schuster|Sean Farley|Richard Shideler|Thomas Mailund|Charlotte Lindqvist University at Buffalo;|Aarhus University;|University of Virginia;|Pennsylvania State University;|Nanyang Technological University;|Alaska Department of Fish and Game
http://dx.doi.org/10.1101/047456 2016-04-06 Genetics Carriers of human mitochondrial DNA macrohaplogroup M colonized India from southeastern Asia Patricia Marrero|Khaled K Abu-Amero|Jose M Larruga|Vicente M Cabrera School of Biological Sciences, University of East Anglia, Norwich NR4 7TJ, Norfolk, England;|Glaucoma Research Chair, Department of Ophthalmology, College of Medicine, King Saud University;|Departamento de Genetica, Universidad de La Laguna, La Laguna, Tenerife, Spain
http://dx.doi.org/10.1101/047209 2016-04-06 Evolutionary Biology CC BY-NC-ND An evolutionary medicine perspective on Neandertal extinction Alexis P Sullivan|Marc de Manuel|Tomas Marques-Bonet|George H Perry The Pennsylvania State University;|Institut de Biologia Evolutiva, Parque de Investigacion Biomedica de Barcelona
http://dx.doi.org/10.1101/047506 2016-04-06 Cell Biology CC BY-NC-ND Expression of progerin does not result in an increased mutation rate. Emmanuelle Deniaud|Shelagh Boyle|Wendy Bickmore MRC Human Genetics Unit, IGMM;|MRC Human Genetics Unit, IGMM, University of Edinburgh
http://dx.doi.org/10.1101/047431 2016-04-06 Genetics Nanoscale mechanical stimulation method for quantifying C. elegans mechanosensory behavior and memory Takuma Sugi|Etsuko Okumura|Kaori Kiso|Ryuji Igarashi Kyoto University
http://dx.doi.org/10.1101/046540 2016-04-06 Ecology CC BY-NC-ND Inferring local movement of pathogen vectors among hosts Zhen Fu|Brendan Epstein|Joanna L Kelley|Qi Zheng|Alan O Bergland|Carmen I Castillo Carrillo|Andrew S Jensen|William E Snyder Washington State University;|University of Louisville;|University of Virgnia;|Northwest Potato Research Consortium
http://dx.doi.org/10.1101/047472 2016-04-06 Developmental Biology Morphological diversity of blastula formation and gastrulation in temnopleurid sea urchins Chisato Kitazawa|Tsubasa Fujii|Yuji Egusa|Mieko Komatsu|Akira Yamanaka Yamaguchi University;|University of Toyama
http://dx.doi.org/10.1101/047118 2016-04-06 Neuroscience CC BY CoSMoMVPA: multi-modal multivariate pattern analysis of neuroimaging data in Matlab / GNU Octave Nikolaas N Oosterhof|Andrew C Connolly|James V Haxby University of Trento;|Dartmouth College
http://dx.doi.org/10.1101/047126 2016-04-06 Neuroscience Predictions shape confidence in right inferior frontal gyrus Maxine T Sherman|Anil K Seth|Ryota Kanai University of Sussex;|Araya Brain Imaging
http://dx.doi.org/10.1101/017269 2016-04-06 Synthetic Biology CC BY-NC-ND Design of a Toolbox of RNA Thermometers Shaunak Sen|Divyansh Apurva|Rohit Satija|Dan Siegal|Richard M Murray Indian Institute of Technology Delhi;|Caltech
http://dx.doi.org/10.1101/019356 2016-04-06 Bioinformatics Streaming algorithms for identification of pathogens and antibiotic resistance potential from real-time MinION sequencing Minh Duc Cao|Devika Ganesamoorthy|Alysha Elliott|Huihui Zhang|Matthew Cooper|Lachlan Coin University of Queensland
http://dx.doi.org/10.1101/045922 2016-04-06 Genomics CC BY-NC-ND The dynamic landscape of fission yeast meiosis alternative-splice isoforms Zheng Kuang|Jef D. Boeke|Stefan Canzar Institute for Systems Genetics, NYU Langone Medical Center, New York City, NY 10016, USA;|Toyotal Technological Institute at Chicago
http://dx.doi.org/10.1101/046987 2016-04-06 Scientific Communication CC BY-ND Discrimination between Onchocerca volvulus and O. ochengi filarial larvae in Simulium damnosum s.l. and their distribution throughout central Ghana using a versatile high-resolution speciation assay Stephen R Doyle|Samuel Armoo|Alfons Renz|Mark J Taylor|Mike Osei-Atweneboana|Warwick N Grant La Trobe University;|University of Tubingen;|Liverpool School of Tropical Medicine;|Council for Scientific and industrial Research - Water Research Institute
http://dx.doi.org/10.1101/047225 2016-04-06 Bioinformatics Human CODIS STR Loci Profiling from HTS Data Darrell O. Ricke|Martha Petrovick|Johanna Bobrow|Tara Boettcher|Christina Zook|James Harper|Edward Wack|Eric Schwoebel MIT Lincoln Laboratory
http://dx.doi.org/10.1101/047035 2016-04-06 Evolutionary Biology The promise of disease gene discovery in South Asia Nathan Joel Nakatsuka|Priya Moorjani|Niraj Rai|Biswanath Sarkar|Arti Tandon|Nick Patterson|Lalji Singh|David Reich|Kumarasamy Thangaraj Harvard Medical School Department of Genetics;|Columbia University Department of Biological Sciences;|Centre for Cellular and Molecular Biology, Hyderabad;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/047241 2016-04-06 Neuroscience Language impairment resulting from a de novo deletion of 7q32.1-q33: a case report Maria Salud Jimenez-Romero|Montserrat Barcos-Martinez|Isabel Espejo-Portero|Antonio Benitez-Burraco University of Cordoba;|University Hospital Reina Sofia;|University of Huelva
http://dx.doi.org/10.1101/046938 2016-04-06 Bioinformatics KinLinks: Software Toolkit for Kinship Analysis and Pedigree Generation from HTS Datasets Anna Shcherbina|Darrell O. Ricke|Eric Schwoebel|Tara Boettcher|Christina Zook|Johanna Bobrow|Martha Petrovick|Edward Wack MIT Lincoln Laboratory
http://dx.doi.org/10.1101/047217 2016-04-06 Genomics CC BY FlashPCA: fast sparse canonical correlation analysis of genomic data Gad Abraham|Michael Inouye University of Melbourne
http://dx.doi.org/10.1101/046771 2016-04-06 Bioinformatics Selecting Reads for Haplotype Assembly Sarah O. Fischer|Tobias Marschall Center for Bioinformatics, Saarland University, Saarbruecken, Germany;|Saarland University and Max Planck Institute for Informatic, Saarbruecken, Germany
http://dx.doi.org/10.1101/039982 2016-04-05 Evolutionary Biology Programmed bet hedging in yeast responses to osmotic stress Yoshikazu Hirate|Samuel Bottani|Wyming Lee Pang|Suzannah Rutherford Fred Hutchinson Cancer Research Center, Seattle, WA;|Laboratoire Matiere et Systemes Complex, Paris Diderot, Paris, France;|Department of Bioengineering, University of California, San Diego, CA
http://dx.doi.org/10.1101/045591 2016-04-05 Biochemistry Relative contributions of conformational selection and induced fit Denis Michel Universite de Rennes1
http://dx.doi.org/10.1101/044701 2016-04-05 Genetics CC BY The genetic basis of host preference and indoor resting behavior in the major African malaria vector, Anopheles arabiensis Bradley J Main|Yoosook Lee|Heather Ferguson|Anicet Kihonda|Nicodem Govella|Katharina S Kreppel|Travis C Collier|Anthony J Cornel|Eleazar Eskin|Eun Yong Kang|Catelyn C Nieman|Allison M Weakley|Gregory Lanzaro University of California, Davis;|University of Glasgow;|Ifakara Health Institute;|University of California, Los Angeles
http://dx.doi.org/10.1101/032979 2016-04-05 Evolutionary Biology CC BY-NC-ND Urbanization shapes the demographic history of a native rodent (the white-footed mouse, Peromyscus leucopus) in New York City Stephen E. Harris|Alexander T. Xue|Diego Alvarado-Serrano|Joel T. Boehm|Tyler Joseph|Michael J. Hickerson|Jason Munshi-South The Graduate Center, City University of New York;|The City College of New York;|Fordham University
http://dx.doi.org/10.1101/047308 2016-04-05 Plant Biology CC BY-NC-ND Araport11: a complete reannotation of the Arabidopsis thaliana reference genome CHIA-YI Cheng|Vivek Krishnakumar|Agnes Chan|Seth Schobel|Christopher D. Town J Craig Venter Institute
http://dx.doi.org/10.1101/047316 2016-04-05 Systems Biology CC BY Effective Dynamic Models of Metabolic Networks Michael Vilkhovoy|Mason Minot|Jeffrey Varner Purdue University;|Cornell University
http://dx.doi.org/10.1101/047365 2016-04-05 Bioinformatics CC BY Order under uncertainty: robust differential expression analysis using probabilistic models for pseudotime inference Kieran Campbell|Christopher Yau University of Oxford
http://dx.doi.org/10.1101/047183 2016-04-05 Cell Biology Timing appearance and integration of actin-organizing palladin protein in dynamic myofibril assembly Ngoc-Uyen-Nhi Nguyen|Tz-Yu Liu|Hao-Ven Wang National Cheng Kung University
http://dx.doi.org/10.1101/047332 2016-04-05 Cell Biology CC BY Nucleosome dynamics and maintenance of epigenetic states of CpG islands Ian B Dodd|Kim Sneppen Adelaide University;|Copenhagen University
http://dx.doi.org/10.1101/047324 2016-04-05 Microbiology CC BY-NC Growth-Environment Dependent Modulation of Staphylococcus aureus Branched-Chain to Straight-Chain Fatty Acid Ratio and Incorporation of Unsaturated Fatty Acids Suranjana Sen|Seth R Johnson|Yang Song|Sirisha Sirobhushanam|Ryan Tefft|Craig Gatto|Brian J Wilkinson Illinois State University
http://dx.doi.org/10.1101/047233 2016-04-05 Microbiology CC BY-ND Characterization of sterol synthesis in bacteria Jeremy H Wei|Xinchi Yin|Paula Welander Stanford University
http://dx.doi.org/10.1101/047290 2016-04-05 Genetics Genetic contributions to self-reported tiredness Vincent Deary|Saskia P Hagenaars|Sarah E Harris|W David Hill|Gail Davies|David CM Liewald|Andrew M McIntosh|Catharine R Gale|Ian J Deary Northumbria University;|University of Edinburgh;|University if Edinburgh
http://dx.doi.org/10.1101/047357 2016-04-05 Bioinformatics AptaTRACE: Elucidating Sequence-Structure Binding Motifs by Uncovering Selection Trends in HT-SELEX Experiments Dao Phuong|Jan Hoinka|Yijie Wang|Mayumi Takahashi|Jiehua Zhou|Fabrizio Costa|John Rossi|John Burnett|Rolf Backofen|Teresa M. Przytycka National Center of Biotechnology Information, National Library of Medicine, NIH, Bethesda MD 20894;|National Center of Biotechnology Information, National Library of Medicine, NIH, Bethesda MD 20894,;|Department of Molecular and Cellular Biology, Beckman Research Institute of City of Hope, CA, USA;|Bioinformatics Group, Department of Computer Science, University of Freiburg, Georges-Kohler-Allee 1
http://dx.doi.org/10.1101/035170 2016-04-05 Genetics CC BY-NC-ND A reference panel of 64,976 haplotypes for genotype imputation Shane McCarthy|Sayantan Das|Warren Kretzschmar|Richard Durbin|Goncalo Abecasis|Jonathan Marchini Sanger Institute;|University of Michigan;|University of Oxford;|Oxford University
http://dx.doi.org/10.1101/043059 2016-04-05 Microbiology Redox potential as a master variable controlling pathways of metal reduction by Geobacter sulfurreducens Caleb E Levar|Colleen L Hoffman|Aubrey J Dunshee|Brandy M Toner|Daniel R Bond University of Minnesota
http://dx.doi.org/10.1101/029926 2016-04-05 Genomics CC BY-ND Recycler: an algorithm for detecting plasmids from de novo assembly graphs Roye Rozov|Aya Brown Kav|David Bogumil|Eran Halperin|Itzhak Mizrahi|Ron Shamir Tel Aviv University;|Ben-Gurion University of the Negev;|Tel Aviv University, International Computer Science Institute
http://dx.doi.org/10.1101/027789 2016-04-05 Genomics CC BY-NC ATRX binds to atypical chromatin domains at the 3′ exons of ZNF genes to preserve H3K9me3 enrichment David Valle-Garcia|Zulekha A. Qadeer|Domhnall S. McHugh|Flavia G. Ghiraldini|Asif H. Chowdhury|Dan Hasson|Michael A. Dyer|Felix Recillas-Targa|Emily Bernstein Departments of Oncological Sciences and Dermatology, Icahn School of Medicine at Mount Sinai;|Department of Developmental Neurobiology, St Jude Children's Research Hospital;|Instituto de Fisiologia Celular, Departamento de Genetica Molecular, UNAM
http://dx.doi.org/10.1101/023358 2016-04-05 Genetics CC BY-NC-ND SEX-DETector: a probabilistic approach to uncover sex chromosomes in non-model organisms Aline Muyle|Jos Kafer|Niklaus Zemp|Sylvain Mousset|Franck Picard|Gabriel AB Marais LBBE (UMR 5558), CNRS/Univ. Lyon 1;|ETH Zurich, Institute of Integrative Biology
http://dx.doi.org/10.1101/046946 2016-04-05 Ecology CC BY-NC-ND Bias in community-weighted mean analysis relating species attributes to sample attributes: justification and remedy David Zeleny National Taiwan University
http://dx.doi.org/10.1101/046995 2016-04-05 Genetics Mixed Model Association with Family-Biased Case-Control Ascertainment tristan hayeck|Noah A. Zaitlen|Po-Ru Loh|Samuela Pollack|Alexander Gusev|Nick Patterson|Alkes Price Harvard School of Public Health;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA 02142,;|MIT
http://dx.doi.org/10.1101/047100 2016-04-05 Bioinformatics qpMerge: Merging different peptide isoforms using a motif centric strategy Matthew M Hindle|Thierry Le Bihan|Johanna Krahmer|Sarah F Martin|Zeenat B Noordally|T. Ian Simpson|Andrew J. Millar SynthSys and School of Biological Sciences, University of Edinburgh;|Institute for Adaptive and Neural Computation, School of Informatics, University of Edinburgh
http://dx.doi.org/10.1101/047167 2016-04-05 Microbiology CC BY Functional metagenomics reveals novel β-galactosidases not predictable from gene sequences Jiujun Cheng|Tatyana Romantsov|Katja Engel|Andrew C Doxey|David R. Rose|Josh D. Neufeld|Trevor Charles University of Waterloo;|University of waterloo
http://dx.doi.org/10.1101/047019 2016-04-05 Evolutionary Biology CC BY Effects of linked selective sweeps on demographic inference and model selection Daniel Schrider|Alexander G Shanku|Andrew D Kern Rutgers, The State University of New Jersey;|Rutgers University
http://dx.doi.org/10.1101/047050 2016-04-05 Bioinformatics CC BY-NC-ND The healthy ageing gene expression signature for Alzheimer's disease diagnosis: a random sampling perspective Laurent Jacob|Terence P Speed CNRS; Universite Lyon 1;|WEHI
http://dx.doi.org/10.1101/047175 2016-04-05 Ecology CC BY-NC-ND Potential for Zika virus to establish a sylvatic transmission cycle in the Americas Benjamin Althouse|Nikos Vasilakis|Amadou Sall|Mawlouth Diallo|Scott Weaver|Kathryn Hanley Institute for Disease Modeling;|Department of Pathology and Center for Biodefense and Emerging Infectious Diseases, Center for Tropi;|Institut Pasteur de Dakar;|Institute for Human Infections and Immunity and Departments of Pathology, Microbiology & Immunology,;|Department of Biology, New Mexico State University, Las Cruces, NM
http://dx.doi.org/10.1101/046961 2016-04-05 Genetics CC BY-NC-ND Zfp423 regulates Sonic hedgehog signaling via primary cilium function CHEN-JEI HONG|Bruce A. Hamilton University of California, San Diego
http://dx.doi.org/10.1101/046953 2016-04-05 Genomics Wide genome involvement in response to long-term selection for antibody response in an experimental population of White Leghorn chickens Mette Lillie|Zheya Sheng|Christa Honaker|Ben Dorshorst|Paul Siegel|Orjan Carlborg Swedish University of Agricultural Sciences;|Huazhong Agricultural University;|Virginia Polytechnic Institute and State University
http://dx.doi.org/10.1101/046755 2016-04-05 Bioinformatics CC BY-NC-ND SATORI: A System for Ontology-Guided Visual Exploration of Biomedical Data Repositories Fritz Lekschas|Nils Gehlenborg Harvard Medical School
http://dx.doi.org/10.1101/047043 2016-04-04 Systems Biology Petri Net-Based Graphical and Computational Modelling of Biological Systems Alessandra Livigni|Laura O'Hara|Marta E Polak|Tim Angus|Lee B Smith|Tom C Freeman University of Edinburgh;|University of Southampton
http://dx.doi.org/10.1101/034645 2016-04-04 Animal Behavior and Cognition|Evolutionary Biology|Genetics|Genomics|Neuroscience CC BY COGNITIVE DOMAINS FUNCTION COMPLEMENTATION BY NTNG GENE PARALOGS Pavel Prosselkov|Denis Polygalov|Qi Zhang|Thomas J. McHugh|Shigeyoshi Itohara Brain Science Institute, RIKEN, JAPAN
http://dx.doi.org/10.1101/047001 2016-04-04 Molecular Biology CC BY Synthetic miR-16-5p does not act as a reverse transcriptase co-factor to enhance detection of small RNA Melissa A McAlexander|Kenneth W Witwer Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/046144 2016-04-04 Neuroscience CC BY-NC-ND Population imaging at subcellular resolution supports specific and local inhibition by granule cells in the olfactory bulb Martin Wienisch|Venkatesh N Murthy Harvard University
http://dx.doi.org/10.1101/045757 2016-04-04 Microbiology Wolbachia confers sex-specific resistance and tolerance to enteric but not systemic bacterial infection in Drosophila Radhakrishnan B Vasanthakrishnan|Gupta Vanika|Jonathon A Siva-Jothy|Katy M Monteith|Sam P Brown|Pedro F Vale IGDR - CNRS UMR 6290;|University of Edinburgh;|Georgia Institute of Technology
http://dx.doi.org/10.1101/034413 2016-04-04 Animal Behavior and Cognition|Evolutionary Biology|Genetics|Genomics|Neuroscience CC BY COGNITIVE ENDOPHENOTYPES OF MODERN AND EXTINCT HOMININS ASSOCIATED WITH NTNG GENE PARALOGS Pavel Prosselkov|Ryota Hashimoto|Denis Polygalov|Ohi Kazutaka|Qi Zhang|Thomas J. McHugh|Masatoshi Takeda|Shigeyoshi Itohara Brain Science Institute, RIKEN, JAPAN;|Osaka University Graduate School of Medicine, Osaka, Japan
http://dx.doi.org/10.1101/045104 2016-04-04 Neuroscience CC BY Towards standard practices for sharing computer code and programs in neuroscience Stephen Eglen|Ben Marwick|Yaroslav Halchenko|Michael Hanke|Shoaib Sufi|Padraig Gleeson|R. Angus Silver|Andrew Davison|Linda Lanyon|Mathew Abrams|Thomas Wachtler|David J Willshaw|Christophe Pouzat|Jean-Baptiste Poline University of Cambridge;|University of Washington;|Dartmouth College;|Otto-von-Guericke-University Magdeburg;|University of Manchester;|University College London;|CNRS, Gif sur Yvette;|International Neuroinformatics Coordinating Facility;|LMU Munich;|University of Edinburgh;|MAP5 Paris-Descartes University;|University of California, Berkeley
http://dx.doi.org/10.1101/032367 2016-04-04 Cancer Biology CC BY-NC-ND Genome-wide analysis of microRNA signature in lung adenocarcinoma with EGFR exon 19 deletion Lixia Ju|Mingquan Han|Chao Zhao|Xuefei Li Shanghai Pulmonary Hospital, Tongji University Medical School Cancer Institute;|Shanghai Pulmonary Hospital, Tongji University Medical School Cancer Institute,
http://dx.doi.org/10.1101/020479 2016-04-04 Genomics CC BY-NC-ND Are Genetic Interactions Influencing Gene Expression Evidence for Biological Epistasis or Statistical Artifacts? Alexandra Fish|John A. Capra|William S Bush Vanderbilt University;|Case Western Reserve University
http://dx.doi.org/10.1101/047142 2016-04-04 Genomics CC BY Detecting DNA Methylation using the Oxford Nanopore Technologies MinION sequencer Jared T Simpson|Rachael Workman|Philip C Zuzarte|Matei David|Lewis Jonathan Dursi|Winston Timp Ontario Institute for Cancer Research;|Johns Hopkins University
http://dx.doi.org/10.1101/047134 2016-04-04 Genomics CC BY-ND Cytosine Variant Calling with High-throughput Nanopore Sequencing Arthur C Rand|Miten Jain|Jordan Eizenga|Audrey Musselman-Brown|Hugh E Olsen|Mark Akeson|Benedict Paten UC Santa Cruz Genomics Institute
http://dx.doi.org/10.1101/021980 2016-04-04 Bioinformatics Livestock market data for modeling disease spread among US cattle Ian T. Carroll|Shweta Bansal Georgetown University
http://dx.doi.org/10.1101/046904 2016-04-03 Bioinformatics CC BY-NC moGSA: integrative single sample gene-set analysis of multiple omics data Chen Meng|Bernhard Kuster|Bjoern Peters|Aedin C Culhane|Amin Moghaddas Gholami Chair of Proteomics and Bioanalytics, Technische Universitaet Muenchen, Freising, Germany;|La Jolla Institute for Allergy and Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA;|Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston, MA 02215, USA
http://dx.doi.org/10.1101/046896 2016-04-03 Pathology CC BY-NC Statistical Analysis of Zika Virus Correlation to Microcephaly Pedro Simoni Pasquini|Isabela Cristina Simoni Unicamp;|Instituto Biologico
http://dx.doi.org/10.1101/046912 2016-04-03 Genetics CC BY A Genealogical Look at Shared Ancestry on the X Chromosome Vince Buffalo|Stephen M. Mount|Graham Coop University of California, Davis;|University of Maryland
http://dx.doi.org/10.1101/046870 2016-04-03 Immunology Quantifying lymphocyte receptor diversity Thierry Mora|Aleksandra M Walczak Ecole normale superieure
http://dx.doi.org/10.1101/046888 2016-04-03 Genomics CC BY-NC-ND Gender identification in Chicken (Gallus gallus) by PCR using whole blood and dried blood spot on filter paper as template: without prior DNA isolation S Dhanasekaran|G Dhinakar Raj|AR Vignesh|ST Selvan|B Prakash|P Perumal|Seenichamy Arivudainambi|Thambidurai Ganesh Babu Madras Veterinary College;|Post Graduate Research Institute in Animal Sciences;|Periyar University;|Al Awsaj Medical Equipment
http://dx.doi.org/10.1101/046565 2016-04-03 Bioinformatics Is voice a biomarker for autism spectrum disorder? A systematic review and meta-analysis Riccardo Fusaroli|Anna Lambrechts|Dan Bang|Dermot Bowler|Sebastian Gaigg Aarhus University;|City University, London;|University College London
http://dx.doi.org/10.1101/046920 2016-04-03 Bioinformatics CC BY-NC-ND Privacy-Preserving Read Mapping Using Locality Sensitive Hashing and Secure Kmer Voting Victoria Popic|Serafim Batzoglou Stanford University
http://dx.doi.org/10.1101/033167 2016-04-03 Genetics CC BY-ND Meiotic interactors of a mitotic gene TAO3 revealed by functional analysis of its rare variant Saumya Gupta|Aparna Radhakrishnan|Rachana Nitin|Pandu Raharja-Liu|Gen Lin|Lars M Steinmetz|Julien Gagneur|Himanshu Sinha Tata Institution of Fundamental Research;|Tata Institute of Fundamental Research;|Gene Center, Ludwig-Maximilians-Universitat;|European Molecular Biology Laboratory, Genome Biology Unit;|Technische Universitat Muenchen, Department of Informatics
http://dx.doi.org/10.1101/046839 2016-04-02 Plant Biology Modification of plant regeneration medium decreases the time for recovery of Solanum lycopersicum cultivar M82 stable transgenic lines Sarika Gupta|Joyce Van Eck The Boyce Thompson Institute
http://dx.doi.org/10.1101/046813 2016-04-02 Systems Biology A new computational model captures fundamental architectural features of diverse biological networks Bader Al-Anzi|Noah Olsman|Christopher Ormerod|Sherif Gerges|Georgios Piliouras|John Ormerod|Kai Zinn California Institute of Technology;|Princeton University;|Singapore University of Technology and Design;|University of Sydney
http://dx.doi.org/10.1101/046821 2016-04-02 Neuroscience CC BY-NC Spontaneous Blink Rate Correlates With Financial Risk Taking Emily Sherman|Robert C Wilson BASIS Scottsdale;|University of Arizona
http://dx.doi.org/10.1101/046714 2016-04-02 Evolutionary Biology CC BY-NC-ND The evolution of mutual mate choice under direct benefits Alexandre Courtiol|Loic Etienne|Romain Feron|Bernard Godelle|Francois Rousset Leibniz Institute for Zoo and Wildlife Research, Berlin;|Institut des Sciences de l'Evolution, Univ. Montpellier
http://dx.doi.org/10.1101/046722 2016-04-02 Neuroscience CC BY-ND Low parental melatonin levels increases autism spectrum disorder risk in children Wiebe Braam|Friederike Ehrhart|Chris T Evelo|Anneke PHM Maas|Marcel G Smits|Leopold Curfs s Heeren Loo, Department Advisium;|Department of Bioinformatics - BiGCat, Maastricht University;|Govenor Kremers Centre, University Maastricht;|Govenor Kremers Centre, Maastricht University
http://dx.doi.org/10.1101/046805 2016-04-02 Evolutionary Biology CC BY-ND Peculiar hybrid genomes of devastating plant pests promote plasticity in the absence of sex and meiosis Romain Blanc-Mathieu|Laetitia Perfus-Babeoch|Jean-Marc Aury|Martine Da Rocha|Jerome Gouzy|Erika Sallet|Cristina Martin-Jimenez|Philippe Castagnone-Sereno|Jean-Francois Flot|Djampa Kozlowski|Julie Cazareth|Arnaud Couloux|Corinne Da Silva|Julie Guy|Corinne Rancurel|Thomas Schiex|Pierre Abad|Patrick Wincker|Etienne Danchin INRA, Univ. Nice Sophia Antipolis, CNRS, UMR 1355-7254 Institut Sophia Agrobiotech, 06900 Sophia Ant;|Commissariat a l Energie Atomique (CEA), Institut de Genomique (IG), Genoscope, Evry, BP5706, 91057,;|INRA, CNRS, UMR 441-2594, Laboratoire des Interactions Plantes-Microorganismes (LIPM), Castanet-Tolo;|Universite Libre de Bruxelles;|CNRS, Univ. Nice Sophia Antipolis, Institute of Molecular and Cellular Pharmacology, 06560 Sophia An;|INRA, Unite de Mathematiques et Informatique UR 875, F-31320 Castanet Tolosan, France;|INRA
http://dx.doi.org/10.1101/046474 2016-04-02 Molecular Biology CC BY-NC-ND Probabilistic estimation of short sequence expression using RNA-Seq data and the positional bootstrap Hui Yuan Xiong|Leo J. Lee|Hannes Bretschneider|Jiexin Gao|Nebojsa Jojic|Brendan J. Frey University of Toronto;|Microsoft Research, Redmond
http://dx.doi.org/10.1101/046847 2016-04-02 Evolutionary Biology CC BY Lethal Gene Drive Selects Escape through Inbreeding James J. Bull University of Texas, United States
http://dx.doi.org/10.1101/046730 2016-04-02 Biochemistry CC BY-NC-ND Allosteric inhibition of Aurora-A kinase by a synthetic VNAR nanobody Selena G Burgess|Arkadiusz Oleksy|Tommaso Cavazza|Mark W Richards|Isabelle Vernos|David Matthews|Richard Bayliss University of Leeds;|MRC Technology;|Centre for Genomic Regulation and UPF;|Centre for Genomic Regulation and UPF. ICREA.
http://dx.doi.org/10.1101/044164 2016-04-01 Bioinformatics CC BY-NC-ND AVOCADO: Visualization of Workflow-Derived Data Provenance for Reproducible Biomedical Research Holger Stitz|Stefan Luger|Marc Streit|Nils Gehlenborg Johannes Kepler University Linz;|Harvard Medical School
http://dx.doi.org/10.1101/028068 2016-04-01 Genomics CHiCAGO: Robust Detection of DNA Looping Interactions in Capture Hi-C data Jonathan Cairns|Paula Freire-Pritchett|Steven W. Wingett|Csilla Varnai|Andrew Dimond|Vincent Plagnol|Daniel Zerbino|Stefan Schoenfelder|Biola-Maria Javierre|Cameron Osborne|Peter Fraser|Mikhail Spivakov Babraham Institute;|UCL Genetics Institute;|EMBL-EBI, European Molecular Biology Laboratory;|Department of Medical and Molecular Genetics, King's College London
http://dx.doi.org/10.1101/038356 2016-04-01 Bioinformatics CC BY-NC msVolcano: a flexible web application for visualizing quantitative proteomics data. Sukhdeep Singh|Marco Hein|Francis Stewart Genomics, Biotechnology Center, Technische Universitaet Dresden, Tatzberg 47, 01307 Dresden, Germany;|Cellular and Molecular Pharmacology, University of California San Francisco, San Francisco, CA 94143
http://dx.doi.org/10.1101/046748 2016-04-01 Genomics CC BY-NC Inferring heterozygosity from ancient and low coverage genomes Athanasios Kousathanas|Christoph Leuenberger|Vivian Link|Christian Sell|Joachim Burger|Daniel Wegmann Department of Biology, University of Fribourg, Switzerland;|Department of Mathematics, University of Fribourg, Switzerland;|Institute of Anthropology, University of Mainz, Switzerland
http://dx.doi.org/10.1101/043224 2016-04-01 Neuroscience CC BY-ND Choice-induced biases in perception Long Luu|Alan A Stocker University of Pennsylvania
http://dx.doi.org/10.1101/046516 2016-03-31 Neuroscience CC BY-ND MicroRNA miR-29 controls a compensatory response to limit neuronal iron accumulation during adult life and aging Roberto Ripa|Luca Dolfi|Marco Terrigno|Luca Pandolfini|Valeria Arcucci|Marco Groth|Eva Terzibasi Tozzini|Mario Baumgart|Alessandro Cellerino Scuola Normale Superiore, Pisa, Italy;|Scuola Normale Superiore, Pisa;|Leibniz Institute on Aging Fritz Lipmann Institute, Jena;|Scuola Normale Superiore
http://dx.doi.org/10.1101/046490 2016-03-31 Evolutionary Biology CC BY-NC-ND Repeated duplication of Argonaute2 is associated with strong selection and testis specialization in Drosophila Samuel H Lewis|Claire L Webster|Heli Salmela|Darren J Obbard Institute of Evolutionary Biology, University of Edinburgh;|Department of Biosciences, University of Helsinki
http://dx.doi.org/10.1101/041343 2016-03-31 Bioinformatics Modeling cumulative biological phenomena with Suppes-Bayes causal networks DANIELE RAMAZZOTTI|Alex Graudenzi|Marco Antoniotti University of Milano-Bicocca
http://dx.doi.org/10.1101/046581 2016-03-31 Neuroscience CC BY Simultaneous fMRI and eye gaze recordings during prolonged natural stimulation -- a studyforrest extension Michael Hanke|Nico Adelhofer|Daniel Kottke|Vittorio Iacovella|Ayan Sengupta|Falko R. Kaule|Roland Nigbur|Alexander Q. Waite|Florian J. Baumgartner|Jorg Stadler Otto-von-Guericke-University, Magdeburg;|FBK, Trento;|Leibniz Institute for Neurobiology, Magdeburg
http://dx.doi.org/10.1101/046573 2016-03-31 Neuroscience CC BY An extension of the studyforrest dataset for vision research Ayan Sengupta|Falko R Kaule|J. Swaroop Guntupalli|Michael B Hoffmann|Christan Hausler|Jorg Stadler|Michael Hanke Otto-von-Guericke-University, Magdeburg;|Dartmouth College;|Otto-von-Guericke-University;|Leibniz Institute for Neurobiology, Magdeburg
http://dx.doi.org/10.1101/046664 2016-03-31 Bioinformatics CC BY-NC-ND Automated population identification and sorting algorithms for high-dimensional single-cell data Benedict Anchang|Sylvia Plevritis Stanford University
http://dx.doi.org/10.1101/046482 2016-03-31 Genomics CC BY-NC-ND Epigenetic regulation of miR-218 and its host gene, SLIT2 in breast cancer Ganesh Babu|ARIVUDAI NAMBI Al Awsaj Medical Equipment
http://dx.doi.org/10.1101/046649 2016-03-31 Genetics CC BY-ND Control of Transposon-mediated Activation of the glpFK Operon of Escherichia coli by two DNA binding Proteins Zhongge Zhang|Milton H. Saier UCSD, United States
http://dx.doi.org/10.1101/046524 2016-03-31 Ecology CC BY A new dispersal-informed null model for community ecology shows strong performance Eliot Miller University of Idaho
http://dx.doi.org/10.1101/046557 2016-03-31 Ecology LOOKING FOR ENERGY IN POPULATION DATA : HOW TO DETECT SELF-ORGANIZATION IN HUMAN COMMUNITY DISTRIBUTION Josep M Casas-Busquet|Agusti Poch-Pares Universitat Politecnica de Catalunya
http://dx.doi.org/10.1101/046599 2016-03-31 Microbiology The Impact of African and Brazilian ZIKV isolates on neuroprogenitors Loraine Campanati|Luiza M. Higa|Rodrigo Delvecchio|Paula Pezzuto|Ana Luiza Valadao|Fobio L. Monteiro|Grasiella M Ventura|Carla Verissimo|Renato S. Aguiar|Ana Maria B. De Filippis|Amilcar Tanuri Laboratório de Morfogênese Celular, Universidade Federal do Rio de Janeiro;|Laboratório de Virologia Molec, Instituto de Biologia, Universidade Federal do Rio de Janeiro;|Unidade de Microscopia Confocal, Instituto de Ciencias Biomedicas, UFRJ;|Laboratório de Morfogênese Celular, Universidade Federal do Rio de Janeiro;|Laboratório de Flavivirus, Instituto Oswaldo Cruz
http://dx.doi.org/10.1101/046532 2016-03-31 Bioinformatics CC BY Evaluating performance of metagenomic characterization algorithms using in silico datasets generated with FASTQSim Darrell O. Ricke|Anna Shcherbina|Nelson Chiu MIT Lincoln Laboratory
http://dx.doi.org/10.1101/046631 2016-03-31 Bioinformatics CC BY-NC OncoPhase: Quantification of somatic mutation cellular prevalence using phase information Donatien Chedom-Fotso|Ahmed Ashour Ahmed|Christopher Yau University of Oxford
http://dx.doi.org/10.1101/046656 2016-03-31 Plant Biology CC BY-NC-ND Predicting plant biomass accumulation from image-derived parameters Dijun Chen|Rongli Shi|Jean-Michel Pape|Christian Klukas Leibniz Institute of Plant Genetics and Crop Plant Research (IPK)
http://dx.doi.org/10.1101/046607 2016-03-31 Immunology CC BY-NC-ND In Silico method for identification of MHC class I-like molecules in whole genomes Peter Reinink|Ildiko van Rhijn Utrecht University;|Brigham and Women's Hospital
http://dx.doi.org/10.1101/046508 2016-03-31 Bioinformatics CC BY-NC Sensitive detection of rare disease-associated cell subsets via representation learning. Eirini Arvaniti|Manfred Claassen ETH Zurich
http://dx.doi.org/10.1101/046383 2016-03-31 Genomics CC BY-NC-ND Functional partitioning of local and distal gene expression regulation in multiple human tissues Xuanyao Liu|Hilary Kiyo Finucane|Alexander Gusev|Gaurav Bhatia|Steven Gazal|Luke O'Connor|Brendan Bulik-Sullivan|Fred Wright|Patrick Sullivan|Benjamin Neale|Alkes Price Harvard Chan School of Public Health;|MIT;|Harvard School of Public Health;|Havard Chan School of Public Health;|Broad Institute of MIT and Harvard;|North Carolina State University;|University of North Carolina;|Massachusetts General Hospital
http://dx.doi.org/10.1101/034223 2016-03-31 Zoology CC BY-NC-ND Structural specialities, curiosities and record-breaking features of crustacean reproduction Gunter Vogt University of Heidelberg
http://dx.doi.org/10.1101/042622 2016-03-31 Evolutionary Biology CC BY Accelerating Wright-Fisher Forward Simulations on the Graphics Processing Unit David S. Lawrie University of Southern California
http://dx.doi.org/10.1101/044768 2016-03-31 Genetics Rapid Construction of a Whole-genome Transposon Insertion Collection for Shewanella oneidensis by Knockout Sudoku Michael Baym|Lev Shaket|Isao A. Anzai|Oluwakemi Adesina|Buz Barstow Harvard Medical School;|Princeton University
http://dx.doi.org/10.1101/046060 2016-03-31 Synthetic Biology CC BY-NC-ND Gene cloning and construction of prokaryotic and plant expression vectors of RICIN-A-Chain/PAP-S1 fusion protein and its inhibition of protein synthesis Yasser S. Hassan|Sherry L. Ogg Ophiuchus;|Johns Hopkins University
http://dx.doi.org/10.1101/038588 2016-03-31 Ecology CC BY Transmission dynamics of Zika virus in island populations: a modelling analysis of the 2013-14 French Polynesia outbreak Adam J Kucharski|Sebastian Funk|Rosalind M M Eggo|Henri-Pierre Mallet|John Edmunds|Eric J Nilles London School of Hygiene & Tropical Medicine;|Bureau de veille sanitaire;|WHO
http://dx.doi.org/10.1101/046417 2016-03-31 Genetics CC BY-ND Expansion of the CRISPR toolbox in an animal with tRNA-flanked Cas9 and Cpf1 gRNAs Fillip Port|Simon L Bullock German Cancer Research Center;|MRC-LMB
http://dx.doi.org/10.1101/045732 2016-03-31 Evolutionary Biology CC BY-NC Evolutionary stability of microbial communities with antibiotic degrading species Eric D Kelsic|Kalin Vetsigian|Roy Kishony Harvard Medical School;|University of Wisconsin-Madison;|Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/046391 2016-03-31 Genomics CC BY-NC Multiplex shRNA Screening of Germ Cell Development by in vivo Transfection of Mouse Testis Nicholas Ho|Abul Usmani|Yan Yin|Liang Ma|Donald Conrad Washington University School of Medicine, United States
http://dx.doi.org/10.1101/046409 2016-03-31 Evolutionary Biology CC BY-NC Evolutionary determinants of morphological polymorphism in colonial animals Carl Simpson|Jeremy B.C. Jackson|Amalia Herrera-Cubilla National Museum of Natural History, Smithsonian Institution;|National Museum of Natural History, Smithsonian Institution; Smithsonian Tropical Research Institute;|Smithsonian Tropical Research Institute
http://dx.doi.org/10.1101/046441 2016-03-31 Neuroscience CC BY-NC-ND Multi-Connection Pattern Analysis: Decoding the Representational Content of Neural Communication Yuanning Li|Avniel Singh Ghuman Carnegie Mellon University;|University of Pittsburgh
http://dx.doi.org/10.1101/046425 2016-03-31 Bioinformatics CC BY-NC-ND FOCUS2: agile and sensitive classification of metagenomics data using a reduced database Genivaldo Silva|Bas Dutilh|Robert Edwards San Diego State University;|Utrecht University
http://dx.doi.org/10.1101/046375 2016-03-31 Cell Biology CC BY-NC-ND Nanoscopic compartmentalization of membrane protein motion at the axon initial segment David Albrecht|Christian M Winterflood|Thomas Tschager|Helge Ewers King's College London;|ETH Zurich;|Freie Universitaet Berlin
http://dx.doi.org/10.1101/043018 2016-03-30 Genetics Novel Genetic Risk factors for Asthma in African American Children: Precision Medicine and The SAGE II Study. Marquitta J White|Oona Risse-Adams|Page Goddard|Maria G Contreras|Jennifer Adams|Donglei Hu|Celeste Eng|Sam S Oh|Adam Davis|Kelley Meade|Emerita Brigino-Buenaventura|Michael A Lenoir|Kirsten Bibbins-Domingo|Maria Pino-Yanes|Esteban Burchard Department of Medicine, University of California, San Francisco;|Lowell High School;|SF BUILD, San Francisco State University;|Children's Hospital and Research Center Oaklan;|Department of Allergy and Immunology, Kaiser Permanente-Vallejo Medical Center;|Bay Area Pediatrics;|Research Unit, Hospital Universitario N.S. de Canderlaria
http://dx.doi.org/10.1101/024778 2016-03-30 Genomics Local population structure and patterns of Western Hemisphere dispersal for Coccidioides spp., the fungal cause of Valley Fever David M Engelthaler|Chandler C Roe|Crystal M Hepp|Marcus Teixeira|Elizabeth M Driebe|James M Schupp|Lalitha Gade|Victor Waddell|Kenneth Komatsu|Eduardo Arathoon|Heidi Logemann|George R Thompson|Tom Chiller|Bridget Barker|Paul Keim|Anastastia P Litvintseva Translational Genomics Research Institute;|Northern Arizona University;|Centers for Disease Control and Prevention;|Arizona Department of Health Services;|Asociacion de Salud Integral, Guatemala;|Universidad de San Carlos, Guatemala;|University of California Davis
http://dx.doi.org/10.1101/046334 2016-03-30 Pathology CC BY-ND Natural history of Asian lineage Zika virus infection in macaques Dawn M. Dudley|Matthew T. Aliota|Emma L. Mohr|Andrea M. Weiler|Gabrielle Lehrer-Brey|Kim L. Weisgrau|Mariel S. Mohns|Meghan E. Breitbach|Mustafa N. Rasheed|Christina M. Newman|Dane D. Gellerup|Louise H. Moncla|Jennifer Post|Nancy Schultz-Darken|Josh A. Eudailey|M. Anthony Moody|Sallie R. Permar|Shelby L. O'Connor|Eva G. Rakasz|Heather A. Simmons|Saverio Capuano|Thaddeus G. Golos|Jorge E. Osorio|Thomas C. Friedrich|David H. O'Connor University of Wisconsin-Madison;|Wisconsin National Primate Research Center;|Duke University Medical Center
http://dx.doi.org/10.1101/037085 2016-03-30 Neuroscience CC BY-NC-ND Believer-Skeptic meets Actor-Critic: Rethinking the role basal ganglia pathways in decision-making and reinforcement learning Kyle Dunovan|Timothy Verstynen Department of Psychology;|Carnegie Mellon University
http://dx.doi.org/10.1101/046367 2016-03-30 Biochemistry CC BY-NC-ND Structural and kinetic analysis of the COP9-Signalosome activation and the cullin-RING ubiquitin ligase deneddylation cycle Ruzbeh Mosadeghi|Kurt M Reichermeier|Martin Winkler|Anne Schreiber|Justin M Reitsma|Yaru Zhang|Florian Stengel|Junyue Cao|Minsoo Kim|Michael J Sweredoski|Sonja Hess|Alexander Leitner|Ruedi Aebersold|Matthias Peter|Raymond J Deshaies|Radolsav I Enchev Caltech;|ETH Zurich;|University Konstanz
http://dx.doi.org/10.1101/046359 2016-03-30 Neuroscience CC BY-NC Metacognitive ability predicts hippocampal and prefrontal microstructure Micah Allen|James C Glen|Daniel Mullensiefen|D. Sam Schwarzkopf|Martina F. Callaghan|Geraint Rees University College London;|Goldsmiths
http://dx.doi.org/10.1101/044594 2016-03-30 Bioinformatics CC BY-NC-ND Zika virus outbreak in the Americas: Is Aedes albopictus an overlooked culprit? Azeem Mehmood Butt|Izza Nasrullah|Raheel Qamar|Yigang Tong Department of Biosciences, COMSATS Institute of Information Technology;|Department of Biochemistry, Faculty of Biological Sciences, Quaid-i-Azam University;|Department of Biosciences, COMSATS Institute of Information Technology (CIIT);|State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiology
http://dx.doi.org/10.1101/046169 2016-03-30 Microbiology CC BY Classification of Wolbachia (Alphaproteobacteria, Rickettsiales): No evidence for a distinct supergroup in cave spiders Michael Gerth University of Liverpool
http://dx.doi.org/10.1101/046300 2016-03-30 Cell Biology Bone marrow mesenchymal stem cells from osteoporotic patients do not show altered mitochondrial energetics or ultrastructure Clemens WI Moll|Richard A. Lindtner|Georg F. Vogel|Martina Brunner|Karin Gutleben|Michael Blauth|Gerhard Krumschnabel|Hannes L. Ebner Department for Trauma Surgery, Medical University of Innsbruck;|Division of Histology and Embryology, Medical University of Innsbruck/Div of Cell Biology, Biocenter;|Division of Histology and Embryology, Medical University of Innsbruck;|OROBOROS INSTRUMENTS;|Department for Trauma Surgery, Medical University of Innsbruck/Bone&Stem Cell Research Group, CABMM
http://dx.doi.org/10.1101/029629 2016-03-30 Scientific Communication CC BY Relative Citation Ratio (RCR): A new metric that uses citation rates to measure influence at the article level Bruce Ian Hutchins|Xin Yuan|James M Anderson|George M Santangelo National Institutes of Health
http://dx.doi.org/10.1101/046177 2016-03-30 Genetics CC BY-NC-ND Locally Epistatic Models for Genome-wide Prediction and Association by Importance Sampling Deniz Akdemir|Jean-Luc Jannink Cornell University;|USDA-ARS
http://dx.doi.org/10.1101/045682 2016-03-30 Systems Biology Glycerol as the actuator of integral feedback control in yeast osmotic stress signaling Suzannah Rutherford Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/046276 2016-03-30 Neuroscience Dorsal anterior cingulate and ventromedial prefrontal cortex have inverse roles in both foraging and economic choice Amitai Shenhav|Mark A Straccia|Matthew M Botvinick|Jonathan D Cohen Princeton University
http://dx.doi.org/10.1101/045377 2016-03-30 Genetics CC BY-NC-ND Population heterogeneity in mutation rate increases mean fitness and the frequency of higher order mutants Helen Alexander|Stephanie I. Mayer|Sebastian Bonhoeffer ETH Zurich
http://dx.doi.org/10.1101/034330 2016-03-30 Bioinformatics CC BY Data-driven hypothesis weighting increases detection power in multiple testing Nikolaos Ignatiadis|Bernd Klaus|Judith Zaugg|Wolfgang Huber European Molecular Biology Laboratory (EMBL)
http://dx.doi.org/10.1101/046151 2016-03-30 Neuroscience CC BY-NC-ND Multivariate Pattern Connectivity Stefano Anzellotti|Rebecca Saxe MIT;
http://dx.doi.org/10.1101/036004 2016-03-29 Plant Biology CC BY-NC-ND Canopy position has a profound effect on soybean seed composition Steven Huber|Kunzhi Li|Randall Nelson|Alexander Ulyanov|Catherine DeMuro|Ivan Baxter US Department of Agriculture, Agricultural Research Service;|Kunming University of Science and Technology;|University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/045690 2016-03-29 Bioinformatics CC BY BIGMAC : Breaking Inaccurate Genomes and Merging Assembled Contigs for long read metagenomic assembly Ka Kit Lam|Richard Hall|Alicia Clum|Satish Rao UC Berkeley;|Pacific Biosciences;|Joint Genome Institute
http://dx.doi.org/10.1101/046227 2016-03-29 Genomics CC BY Development of genomic resources for four potential environmental bioindicator species: Isoperla grammatica, Amphinemura sulcicollis, Oniscus asellus and Baetis rhodani. Hannah C Macdonald|Luis Cunha|Michael W Bruford Cardiff University;|Embrapa Florestas, Estrada da Ribeira km. 111, Colombo-PR, 83411-000, Brazil
http://dx.doi.org/10.1101/046185 2016-03-29 Pharmacology CC BY FREEZE DRIED EXTRACTS OF Bidens biternata (Lour.) Merr. And Sheriff. SHOW SIGNIFICANT ANTIDIARRHEAL ACTIVITY IN -VIVO MODELS OF DIARRHEA Dennis G Kinuthia|Anne W Muriithi|Peter Waweru Mwangi University of Nairobi
http://dx.doi.org/10.1101/046128 2016-03-29 Genomics CC BY Genome-wide measurement of spatial expression in patterning mutants of Drosophila melanogaster Peter A. Combs|Michael B Eisen Stanford University;|University of California, Berkeley
http://dx.doi.org/10.1101/046201 2016-03-29 Bioinformatics CC BY-NC-ND SAMSA: A comprehensive metatranscriptome analysis pipeline Samuel T Westreich|Ian Korf|David A Mills|Danielle G Lemay Univ. of California at Davis
http://dx.doi.org/10.1101/046243 2016-03-29 Bioinformatics CC BY-NC-ND dupRadar: a Bioconductor package for the assessment of PCR artifacts in RNA-Seq data Sergi Sayols|Denise Scherzinger|Holger Klein Bioinformatics Core Facility, Institute of Molecular Biology;|FH Bingen;|Boehringer Ingelheim Pharma GmbH & Co KG
http://dx.doi.org/10.1101/046193 2016-03-29 Bioengineering InfoDengue: a nowcasting system for the surveillance of dengue fever transmission Claudia Codeco|Oswaldo Cruz|Thais I Riback|Carolin M Degener|Marcelo F Gomes|Daniel Villela|Leonardo Bastos|Sabrina Camargo|Valeria Saraceni|Maria Cristina F Lemos|Flavio C Coelho Fundacao Oswaldo Cruz;|Fundacao Getulio Vargas;|Prefeitura Rio de Janeiro
http://dx.doi.org/10.1101/030387 2016-03-29 Evolutionary Biology CC BY-NC-ND The Genetic Cost of Neanderthal Introgression Kelley Harris|Rasmus Nielsen Stanford University;|UC Berkeley
http://dx.doi.org/10.1101/045534 2016-03-29 Cancer Biology CC BY Mechanical signals inhibit growth of a grafted tumor in vivo: Proof of Concept Remy BROSSEL|Alexandre YAHI|Stephane DAVID|Laura MORENO VELASQUEZ|Jean-Marc GUINEBRETIERE cell constraint et cancer;|Columbia University NYC;|ALTRAN;|INSERM U1028;|Institut Curie
http://dx.doi.org/10.1101/034561 2016-03-29 Neuroscience CC BY The Brain Imaging Data Structure: a standard for organizing and describing outputs of neuroimaging experiments Krzysztof Jacek Gorgolewski|Tibor Auer|Vince D. Calhoun|R. Cameron Craddock|Samir Das|Eugene P. Duff|Guillaume Flandin|Satrajit S. Ghosh|Tristan Glatard|Yaroslav O. Halchenko|Daniel A. Handwerker|Michael Hanke|David Keator|Xiangrui Li|Zachary Michael|Camille Maumet|B. Nolan Nichols|Thomas E. Nichols|Jean-Baptiste Poline|Ariel Rokem|Gunnar Schaefer|Vanessa Sochat|William Triplett|Jessica A. Turner|Gael Varoquaux|Russell A. Poldrack Stanford University;|MRC Cognition and Brain Sciences Unit, Cambridge, UK;|The Mind Research Network, Albuquerque, NM, USA;|Computational Neuroimaging Lab, Center for Biomedical Imaging and Neuromodulation, Nathan S. Kline I;|McGill Centre for Integrative Neuroscience, Ludmer Centre, Montreal Neurological Institute, Montreal;|FMRIB Centre, University of Oxford, Oxford, UK;|Wellcome Trust Centre for Neuroimaging, University College London, UK;|McGovern Institute for Brain Research, MIT, Cambridge, USA;|Department of Psychological and Brain Sciences, Dartmouth College, Hanover NH, USA;|Intramural Research Program, National Institute of Mental Health, Bethesda, MD, USA;|Department of Psychology II, Otto-von-Guericke-University, Magdeburg, Germany;|Department of Psychiatry and Human Behavior, University of California, Irvine, USA;|Center for Cognitive and Behavioral Brain Imaging, The Ohio State University, Columbus OH 43210, USA;|Squishymedia, Portland, OR, USA;|WMG, University of Warwick, Coventry, UK;|Center for Health Sciences, SRI International, Menlo Park, CA, USA;|Department of Statistics, University of Warwick, Coventry, UK;|Henry Wheeler Jr. Brain Imaging Center, Helen Wills Neuroscience Institute, University of California;|The University of Washington eScience Institute, Seattle, WA, USA;|Department of Psychology, Stanford University, Stanford, CA, USA;|Program in Biomedical Informatics, Stanford University, Stanford, CA, USA;|Parietal team, INRIA Saclay, Palaiseau, FR
http://dx.doi.org/10.1101/045419 2016-03-29 Evolutionary Biology Integrating ecological genomics and eco-evo-devo reveals multiple adaptive peaks in ant populations of the Arizona Sky Islands Marie-Julie Fave|Ehab Abouheif McGill University. Present: Universite de Montreal and Ontario Institute for Cancer Research;|McGill Univeristy
http://dx.doi.org/10.1101/043430 2016-03-29 Genomics Computational Pan-Genomics: Status, Promises and Challenges Tobias Marschall|Manja Marz|Thomas Abeel|Louis Dijkstra|Bas E Dutilh|Ali Ghaffaari|Paul Kersey|Wigard Kloosterman|Veli Makinen|Adam Novak|Benedict Paten|David Porubsky|Eric RIVALS|Can Alkan|Jasmijn Baaijens|Paul I. W. de Bakker|Valentina Boeva|Francesca Chiaromonte|Rayan Chikhi|Francesca D. Ciccarelli|Robin Cijvat|Erwin Datema|Cornelia M. Van Duijn|Evan E. Eichler|Corinna Ernst|Eleazar Eskin|Erik Garrison|Mohammed El-Kebir|Gunnar W. Klau|Jan O Korbel|Eric-Wubbo Lameijer|Ben Langmead|Marcel Martin|Paul Medvedev|John C. Mu|Pieter Neerincx|Klaasjan Ouwens|Pierre Peterlongo|Pisanti Nadia|Sven Rahmann|Benjamin Raphael|Knut Reinert|Dick de Ridder|Jeroen de Ridder|Matthias Schlesner|Ole Schulz-Trieglaff|Ashley Sanders|Siavash Sheikhizadeh|Carl Shneider|Sandra Smit|Daniel Valenzuela|Jiayin Wang|Lodewyk Wessels|Ying Zhang|Victor Guryev|Fabio Vandin|Kai Ye|Alexander Schoenhuth Saarland University and Max Planck Institute for Informatics;|Friedrich Schiller University of Jena;|Delft University of Technology;|Centrum Wiskunde & Informatica;|Radboud University Nijmegen Medical Centre;|EMBL-European Bioinformatics Institute;|University Medical Center Utrecht;|University of Helsinki;|University of California Santa Cruz;|UCSC;|University Medical Center Groningen;|LIRMM UMR 5506 CNRS Universite Montpellier II;|Bilkent University;|UMC Utrecht;|Institut Curie;|The Pennsylvania State University;|CNRS, Univ. Lille;|King's College London;|MonetDB Solutions;|Wageningen University;|Erasmus Medical Center, Rotterdam;|Univ. of Washington;|University of Duisburg-Essen;|University of California, Los Angeles;|Wellcome Trust Sanger Institute;|Brown University;|European Molecular Biology Laboratory;|University of Groningen;|Johns Hopkins University;|SciLifeLab, Stockholm University;|Bina Technologies;|Vrije Universiteit Amsterdam;|INRIA Campus de Beaulieu-Rennes;|University degli Studi di Pisa;|Brown Univeristy;|FU Berlin;|German Cancer Research Center (DKFZ);|Illumina Cambridge Ltd;|BC Cancer Agency;|Leiden University;|Xi'an Jiaotong University;|Netherlands Cancer Institute;|University of Southern Denmark;|Washington University in St. Louis
http://dx.doi.org/10.1101/046102 2016-03-29 Ecology CC BY-ND Exfoliating Bark Does Not Protect Platanus occidentalis L. From Root-Climbing Lianas Thomas Rooney|James Milks|Justin Hibbard Wright State University
http://dx.doi.org/10.1101/046136 2016-03-29 Genetics CC BY-NC-ND PhredEM: A Phred-Score-Informed Genotype-Calling Approach for Next-Generation Sequencing Studies Peizhou Liao|Glen Satten|Yijuan Hu Emory University;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/046110 2016-03-29 Bioinformatics CC BY-NC-ND SCPattern: A statistical approach to identify and classify expression changes in single cell RNA-seq experiments with ordered conditions Ning Leng|Li-Fang Chu|Jeea Choi|Christina Kendziorski|James Thomson|Ron Stewart Morgridge Institute for Research;|University of Wisconsin Madison
http://dx.doi.org/10.1101/041236 2016-03-28 Bioinformatics CC BY NextflowWorkbench: Reproducible and Reusable Workflows for Beginners and Experts Jason P Kurs|Manuele Simi|Fabien Campagne Weill Cornell Medical College;|Weill Medical College of Cornell University
http://dx.doi.org/10.1101/046094 2016-03-28 Cell Biology CC BY-NC-ND Syndecan functions to regulate Wnt-dependent axon guidance in C. elegans Samantha N Hartin|Brian D Ackley The University of Kansas, Department of Molecular Biosciences
http://dx.doi.org/10.1101/046037 2016-03-28 Neuroscience Language impairments in ASD resulting from a failed domestication of the human brain Antonio Benitez-Burraco|Wanda Lattanzi|Elliot Murphy University of Huelva;|Universita Cattolica del Sacro Cuore;|University College London
http://dx.doi.org/10.1101/046086 2016-03-28 Bioinformatics CC BY Nanocall: An Open Source Basecaller for Oxford Nanopore Sequencing Data Matei David|Lewis Jonathan Dursi|Delia Yao|Paul C Boutros|Jared T Simpson Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/046003 2016-03-28 Cell Biology CC BY-NC The EARP Complex and its Interactor EIPR-1 are Required for Cargo Sorting to Dense-Core Vesicles Irini Topalidou|Jerome Cattin-Ortola|Andrea L Pappas|Kirsten Cooper|Gennifer E Merrihew|Michael J MacCoss|Michael Ailion University of Washington;|Duke University School of Medicine
http://dx.doi.org/10.1101/046052 2016-03-28 Genetics CC BY-NC-ND NQO1 C609T (Pro187Ser) increases risk of carcinogenesis of Oral Submucous Fibrosis by interacting with phosphorylated p53 and cyclin D1 Sanjit Mukherjee|Jay Gopal Ray|Atul Katarkar|Keya Chaudhuri CSIR-Indian Institute of Chemical Biology, Kolkata, India;|Department of Oral Pathology, Dr. R. Ahmed Dental College & Hospital, Kolkata, India
http://dx.doi.org/10.1101/046045 2016-03-28 Ecology EVIDENCE FOR ALTERNATE STABLE STATES IN COLLAPSING ECOLOGICAL NETWORKS Suresh Babu|Gitanjali Yadav School of Human Ecology;|National Inst of Plant Genome Research
http://dx.doi.org/10.1101/027516 2016-03-28 Neuroscience CC BY Mixed Effects Models for Resampled Network Statistics Improves Statistical Power to Find Differences in Multi-Subject Functional Connectivity Manjari Narayan|Genevera I Allen Rice University
http://dx.doi.org/10.1101/045930 2016-03-28 Evolutionary Biology CC BY-NC-ND Divergence Model of Protein Evolution Darrell O. Ricke MIT Lincoln Laboratory
http://dx.doi.org/10.1101/045948 2016-03-28 Genetics CC BY-NC-ND Analysis of Antibody Hybridization and Autofluorescence in Touch Samples by Flow Cytometry: Implications for Front End Separation of Trace Mixture Evidence M.Katherine Philpott|Cristina E Stanciu|Ye Jin Kwon|Eduardo Bustamante|Susan Greenspoon|Christopher J Ehrhardt Virginia Commonwealth University;|Virginia Commonwealth University, VA-DFS
http://dx.doi.org/10.1101/045955 2016-03-28 Biochemistry Multi-site internal modification of long DNA substrates for single-molecule studies Armando de la Torre|Yoori Kim|Andrew A Leal|Ilya J Finkelstein UT-Austin
http://dx.doi.org/10.1101/045963 2016-03-28 Neuroscience CC BY-NC-ND Lack of evidence for cross-frequency phase-phase coupling between theta and gamma oscillations in the hippocampus Robson Scheffer-Teixeira|Adriano BL Tort Brain Institute, Federal University of Rio Grande do Norte
http://dx.doi.org/10.1101/045914 2016-03-27 Genetics CC BY-NC A meiotic drive element in the maize pathogen Fusarium verticillioides is located within a 102-kb region of chromosome V. Jay Pyle|Tejas Patel|Brianna Merril|Chabu Nsokoshi|Morgan McCall|Robert H Proctor|Daren Brown|Thomas M Hammond Illinois State University;|NCAUR, USDA-ARS
http://dx.doi.org/10.1101/045153 2016-03-27 Bioinformatics CC BY-NC-ND Predictive computational phenotyping and biomarker discovery using reference-free genome comparisons Alexandre Drouin|Sebastien Giguere|Maxime Deraspe|Mario Marchand|Michael Tyers|Vivian G Loo|Anne-Marie Bourgault|Francois Laviolette|Jacques Corbeil Université Laval;|Institute for Research in Immunology and Cancer, Université de Montréal;|McGill University Health Centre
http://dx.doi.org/10.1101/045989 2016-03-27 Neuroscience Div-Seq: A single nucleus RNA-Seq method reveals dynamics of rare adult newborn neurons in the CNS Naomi Habib|Yinqing Li|Matthias Heidenreich|Lukasz Swiech|John J Trombetta|Feng Zhang|Aviv Regev Broad Institute;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/042432 2016-03-27 Biochemistry A Novel Initiation Pathway in Escherichia Coli Transcription Eitan Lerner|SangYoon Chung|Benjamin Levi Allen|Shuang Wang|Jookyung June Lee|Winson Shijia Lu|Logan Wilson Grimaud|Antonino Ingargiola|Xavier Michalet|Yazan Alhadid|Sergei Borukhov|Terence Strick|Dylan J. Taatjes|Shimon Weiss Department of Chemistry and Biochemistry, University of California, Los Angeles;|Department of Chemistry and Biochemistry, University of Colorado, Boulder;|Institut Jacques Monod, Centre National de la Recherche Scientifique and University of Paris Diderot;|Department of Cell Biology, Rowan-SOM at Stratford, 2 Medical Center Drive, Rm 108b, Stratford, NJ
http://dx.doi.org/10.1101/045880 2016-03-27 Plant Biology CC BY Widespread natural variation of DNA methylation within angiosperms Chad E Niederhuth|Adam J Bewick|Lexiang Ji|Magdy Alabady|Kyung Do Kim|Justin T Page|Qing Li|Nicholas A Rohr|Aditi Rambani|John M Burke|Josh A Udall|Chiedozie Egesi|Jeremy Schmutz|Jane Grimwood|Scott A Jackson|Nathan M Springer|Robert J Schmitz University of Georgia;|Brigham Young University;|University of Minnesota;|National Root Crops Research Institute;|HudsonAlpha Institute;|HudsonAlpha Institute for Biotechnology
http://dx.doi.org/10.1101/045807 2016-03-27 Evolutionary Biology Mixing of Porpoise Ecotypes in South Western UK Waters Revealed by Genetic Profiling Michael C Fontaine|Oliver Thatcher|Nicolas Ray|Sylvain Piry|Andrew Brownlow|Nicholas J. Davison|Paul Jepson|Rob Deaville|Simon J Goodman University of Groningen, Groningen Institute for Evolutionary Life Sciences (GELIFES);|Institute of Zoology, Zoological Society of London and Dept of Zoology, University of Cambridge;|EnviroSPACE Laboratory, Institute for Environmental Sciences, University of Geneva;|INRA, UMR CBGP;|Scottish Marine Animal Stranding Scheme, SRUC Veterinary Services;|Scottish Marine Animal Stranding Scheme, SRUC Veterinary Services and Animal and Plant Health Age;|Institute of Zoology, Zoological Society of London;|School of Biology, Faculty of Biological Sciences. University of Leeds
http://dx.doi.org/10.1101/045898 2016-03-27 Neuroscience CC BY-NC The neural correlates of two forms of spiritual love: an EEG study E. S. Louise Faber Queensland Brain Institute
http://dx.doi.org/10.1101/045872 2016-03-27 Developmental Biology CC BY-NC-ND Fate mapping caudal lateral epiblast reveals continuous contribution to neural and mesodermal lineages and the origin of secondary neural tube Aida Rodrigo Albors|Pamela A Halley|Kate G Storey University of Dundee
http://dx.doi.org/10.1101/045823 2016-03-27 Neuroscience CC BY-NC-ND Disentangling the representation of identity from head view along the human face processing pathway. J. Swaroop Guntupalli|Kelsey G Wheeler|M. Ida Gobbini Dartmouth College
http://dx.doi.org/10.1101/045864 2016-03-27 Biophysics CC BY-NC-ND Vessel recruitment and derecruitment mechanism and paradoxical behaviour of vasoconstriction during ischaemia Sarangam Majumdar|Kayalvizhi Lakshmanan Department of Information Engineering, Computer Science and Mathematics, University of L'Aquila
http://dx.doi.org/10.1101/033332 2016-03-26 Systems Biology CC BY-NC-ND A Bayesian network approach for modeling mixed features in TCGA ovarian cancer data Qingyang Zhang|Ji-Ping Wang University of Arkansas;|Northwestern University
http://dx.doi.org/10.1101/034942 2016-03-26 Bioinformatics CC BY-NC-ND MBPpred: Proteome-wide detection of membrane lipid-binding proteins using profile Hidden Markov Models Katerina C Nastou|Georgios N Tsaousis|Nikolaos C Papandreou|Stavros J Hamodrakas Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens
http://dx.doi.org/10.1101/042143 2016-03-26 Evolutionary Biology CC BY Evolution in Eggs and Phases: experimental evolution of fecundity and reproductive timing in Caenorhabditis elegans Bradly J Alicea University of Illinois Urbana-Champaign
http://dx.doi.org/10.1101/042812 2016-03-26 Microbiology CC BY Application of database-independent approach to assess the quality of OTU picking methods Patrick D Schloss University of Michigan
http://dx.doi.org/10.1101/026450 2016-03-26 Genetics Efficient Integrative Multi-SNP Association Analysis using Deterministic Approximation of Posteriors Xiaoquan Wen|Yeji Lee|Francesca Luca|Roger Pique-Regi Univ. of Michigan;|Univ. of Michigan;|Wayne State University
http://dx.doi.org/10.1101/045559 2016-03-26 Animal Behavior and Cognition CC BY Neural mechanisms for reward-modulated vector learning and navigation: from social insects to embodied agents Dennis Goldschmidt|Poramate Manoonpong|Sakyasingha Dasgupta Georg-August University;|University of Southern Denmark;|IBM Research - Tokyo
http://dx.doi.org/10.1101/045799 2016-03-26 Scientific Communication CC BY-NC-ND Has the time come for preprints in biology? Needhi Bhalla University of California, Santa Cruz
http://dx.doi.org/10.1101/029611 2016-03-26 Genetics CC BY-NC-ND Homomorphic ZW Chromosomes in a Wild Strawberry Show Distinctive Recombination Heterogeneity but a Small Sex-Determining Region Jacob Tennessen|Rajanikanth Govindarajulu|Aaron Liston|Tia-Lynn Ashman Oregon State University;|West Virginia University;|University of Pittsburgh
http://dx.doi.org/10.1101/043604 2016-03-26 Bioinformatics CC BY-ND GenVisR: Genomic Visualizations in R Zachary L Skidmore|Alex H Wagner|Robert Lesurf|Katie M Campbell|Jason Kunisaki|Obi L Griffith|Malachi Griffith McDonnell Genome Institute;|McDonnell Genome Insitute
http://dx.doi.org/10.1101/044693 2016-03-26 Genomics CC BY-NC-ND Transcriptomic comparison of Drosophila snRNP biogenesis mutants: implications for Spinal Muscular Atrophy Eric L. Garcia|Ying Wen|Kavita Praveen|A. Gregory Matera University of North Carolina
http://dx.doi.org/10.1101/045351 2016-03-26 Cell Biology Deep mutational scanning reveals tail anchor characteristics important for mitochondrial targeting Abdurrahman Keskin|Emel Akdogan|Cory D. Dunn Koc University
http://dx.doi.org/10.1101/045773 2016-03-25 Bioinformatics CC BY Clusterflock: A Flocking Algorithm for Isolating Congruent Phylogenomic Datasets Apurva Narechania|Richard H Baker|Rob DeSalle|Barun Mathema|Barry Kreiswirth|Sergios-Orestis Kolokotronis|Paul J Planet American Museum of Natural History;|Public Health Research Institute Center, New Jersey Medical School, Rutgers;|Fordham University;|Childrens Hospital of Philadelphia, University of Pennsylvania
http://dx.doi.org/10.1101/045831 2016-03-25 Genetics CC BY-NC-ND Case-control association mapping without cases Jimmy Z Liu|Yaniv Erlich|Joseph K Pickrell New York Genome Center
http://dx.doi.org/10.1101/045724 2016-03-25 Evolutionary Biology Sexual selection on body size, genitals and heterozygosity: effects of demography and habitat complexity Megan Head|Andrew Kahn|J. Scott Keogh|Michael Jennions Australian National University
http://dx.doi.org/10.1101/045765 2016-03-25 Cell Biology CC BY-NC-ND GDP to GTP exchange on the microtubule end can contribute to the frequency of catastrophe Felipe-Andres Piedra|Tae Kim|Emily S Garza|Elisabeth A Geyer|Alexander Burns|Xuecheng Ye|Luke M Rice UT Southwestern Medical Center
http://dx.doi.org/10.1101/045781 2016-03-25 Cell Biology Distinct Responses to Reduplicated Chromosomes Require Distinct Mad2 Responses Benjamin M Stormo|Donald T Fox Duke University
http://dx.doi.org/10.1101/045716 2016-03-25 Evolutionary Biology Experimental evidence for sexual selection against inbred males when it truly counts Regina Vega-Trejo|Megan Head|J. Scott Keogh|Michael Jennions The Australian National University;|Australian National University
http://dx.doi.org/10.1101/045740 2016-03-25 Evolutionary Biology Are sexually selected traits affected by a poor environment early in life? Regina Vega-Trejo|Michael Jennions|Megan Head Australian National University
http://dx.doi.org/10.1101/045005 2016-03-25 Genomics Genome-wide association study identifies 17 new loci influencing concentrations of circulating cytokines and growth factors Ari Ahola-Olli|Peter Wurtz|Aki S Havulinna|Kristiina Aalto|Niina Pitkanen|Terho Lehtimaki|Mika Kahonen|Leo-Pekka Lyytikainen|Emma Raitoharju|Ilkka Seppala|Antti-Pekka Sarin|Samuli Ripatti|Aarno Palotie|Markus Perola|Jorma S Viikari|Sirpa Jalkanen|Mikael Maksimow|Veikko Salomaa|Marko Salmi|Johannes Kettunen|Olli Raitakari University of Turku;|University of Oulu;|National Institute of Health and Welfare;|University of Tampere;|Tampere University Hospital;|University of Helsinki;|Massachusetts General Hospital;|National Institute for Health and Welfare;|Turku University Hospital
http://dx.doi.org/10.1101/044891 2016-03-25 Cancer Biology Recognizing the Continuous Nature of Expression Heterogeneity and Clinical Outcomes in Clear Cell Renal Cell Carcinoma Xiaona Wei|Yukti Choudhury|Weng Khong Lim|John Anema|Richard Kahnoski|Brian Lane|John Ludlow|Masayuki Takahashi|Hiro-omi Kanayama|Arie Belldegrun|Hyung Kim|Craig Rogers|David Nicol|Bin Tean Teh|Min-Han Tan Institute of Bioengineering and Nanotechnology, 31 Biopolis Way, The Nanos, Singapore 138669;|Cancer Stem Cell Biology Program, Duke-NUS Graduate Medical School, 8 College Road, Singapore 169857;|Urologic Consultants, 25 Michigan Street, Suite 3300, Grand Rapids, MI 49503;|Division of Urology, Spectrum Health Medical Group, 4069 Lake Drive SE, Suite 313, Grand Rapids, MI;|Western Michigan Urological Associates, 577 Michigan Avenue, Suite 201, Holland, MI 49423;|Department of Urology, Institute of Biomedical Sciences, Tokushima University Graduate School;|Institute of Urologic Oncology, Department of Urology, David Geffen School of Medicine;|Division of Urology, Cedars-Sinai Medical Center, 8635 W. Third Street, Suite 1070, Los Angeles, CA;|Vattikuti Urology Institute, Henry Ford Hospital, 2799 W. Grand Blvd., Detroit, MI;|Department of Urology, The Royal Marsden NHS Foundation Trust, 203 Fulham Road, London SW3 6JJ, UK
http://dx.doi.org/10.1101/045708 2016-03-25 Microbiology CC BY-NC-ND Absence of Genome Reduction In Diverse, Facultative Endohyphal Bacteria David A Baltrus|Kevin Dougherty|Kayla R Arendt|Marcel Huntemann|Alicia Clum|Manoj Pillay|Krishnaveni Palaniappan|Neha Varghese|Natalia Mikhailova|Dimitrios Stamatis|T.B.K. Reddy|Chew Yee Ngan|Chris Daum|Nicole Shapiro|Victor Markowitz|Natalia Ivanova|Nikos Kyrpides|Tanja Woyke|A. Elizabeth Arnold University of Arizona;|Joint Genome Institute
http://dx.doi.org/10.1101/039578 2016-03-25 Immunology CC BY-ND Cryopreservation of human mucosal leukocytes Sean M. Hughes|Zhiquan Shu|Claire N. Levy|April L. Ferre|Heather Hartig|Cifeng Fang|Gretchen Lentz|Michael Fialkow|Anna C Kirby|Kristina M Adams Waldorf|Ronald S Veazey|Anja Germann|Hagen von Briesen|M. Juliana McElrath|Charlene S Dezzutti|Elizabeth Sinclair|Chris A. R. Baker|Barbara L Shacklett|Dayong Gao|Florian Hladik University of Washington;|University of California at Davis;|University of California San Francisco;|Tulane University School of Medicine;|Fraunhofer Institute for Biomedical Engineering;|Fred Hutch;|University of Pittsburgh
http://dx.doi.org/10.1101/045674 2016-03-25 Evolutionary Biology CC BY-NC-ND Genomic evidence for population-specific responses to coevolving parasites in a New Zealand freshwater snail Laura Bankers|Peter Fields|Kyle E. McElroy|Jeffrey Boore|John M. Logsdon|Maurine Neiman University of Iowa;|Universitat Basel;|University of California-Berkeley
http://dx.doi.org/10.1101/031666 2016-03-24 Evolutionary Biology|Genetics Recent demography drives changes in linked selection across the maize genome Timothy Mathes Beissinger|Li Wang|Kate Crosby|Arun Durvasula|Matthew B Hufford|Jeff Ross-Ibarra USDA-ARS, University of Missouri;|Iowa State University;|University of California, Davis;|UCDavis
http://dx.doi.org/10.1101/045633 2016-03-24 Evolutionary Biology CC BY-NC-ND Nonequilibrium Thermodynamics and Fitness Costs Associated with Information Preservation May Explain Longevity Differences between Species Brett N Augsburger Auburn University
http://dx.doi.org/10.1101/045625 2016-03-24 Genetics Mapping and Inheritance analysis of a novel dominant rice male sterility mutant, OsDMS-1 Kun Yang|Yun Chen|Min Shi|Richard Converse|Xin Chen|Baimei Zhao|Yi Zhang|Jun Lv Southwest University, China
http://dx.doi.org/10.1101/043265 2016-03-24 Ecology CC BY Comparative analysis of dengue and Zika outbreaks reveals differences by setting and virus Sebastian Funk|Adam J. Kucharski|Anton Camacho|Rosalind M. Eggo|Laith Yakob|W. John Edmunds London School of Hygiene & Tropical Medicine
http://dx.doi.org/10.1101/045617 2016-03-24 Developmental Biology Transvection and pairing of a Drosophila Hox long noncoding RNA in the regulation of Sex combs reduced Tom Pettini|Matthew R Ronshaugen University of Manchester, United Kingdom
http://dx.doi.org/10.1101/045567 2016-03-24 Biochemistry CC BY-ND Hormetic Shifting of Redox Environment by Pro-Oxidative Resveratrol Protects Cells Against Stress Annabell Plauth|Anne Geikowski|Susanne Cichon|Silvia J Wowro|Linda Liedgens|Morten Rousseau|Christopher Weidner|Luise Fuhr|Magdalena Kliem|Gail Jenkins|Silvina Lotito|Linda Wainwright|Sascha Sauer Max-Planck-Institute for Molecular Genetics;|Unilever R&D
http://dx.doi.org/10.1101/045542 2016-03-24 Plant Biology CC BY On the Origin and Evolutionary Consequences of Gene Body DNA Methylation Adam J Bewick|Lexiang Ji|Chad E Niederhuth|Eva-Maria Willing|Brigitte T Hofmeister|Xiuling Shi|Li Wang|Zefu Lu|Nicholas A Rohr|Benjamin Hartwig|Christiane Kiefer|Roger B Deal|Jeremy Schmutz|Jane Grimwood|Hume Stroud|Steve E Jacobsen|Korbinian Schneeberger|Xiaoyu Zhang|Robert J Schmitz University of Georgia;|Max Planck Institute for Plant Breeding Research;|Emory University;|Hudson Alpha;|University of California - Los Angeles
http://dx.doi.org/10.1101/045609 2016-03-24 Developmental Biology CC BY Genotype-specific developmental plasticity shapes the timing and robustness of reproductive capacity in Caenorhabditis elegans Bradly Alicea University of Illinois Urbana-Champaign
http://dx.doi.org/10.1101/045583 2016-03-24 Ecology CC BY-ND Empirical modelling of trait selection by partitioning selection into direct selection and selection that is mediated by interspecific interactions Christian Damgaard Aarhus University
http://dx.doi.org/10.1101/045526 2016-03-24 Bioinformatics CC BY fluff: exploratory analysis and visualization of high-throughput sequencing data Georgios Georgiou|Simon J van Heeringen Radboud University
http://dx.doi.org/10.1101/042945 2016-03-24 Genomics CC BY-ND Complete mitochondrial genome of Muricea crassa andMuricea purpurea (Anthozoa: Octocorallia) from theeastern tropical Pacific Angelo Poliseno|Odalisca Breedy|Michael Eitel|Gert Woerheide|Hector M Guzman|Stefan Krebs|Helmuth Blum|Sergio Vargas R. LMU Muenchen;|UCR;|STRI;|LAFUGA
http://dx.doi.org/10.1101/045468 2016-03-24 Ecology CC BY-ND The power and pitfalls of Dirichlet-multinomial mixture models for ecological count data John D. O'Brien|Nicolas Record Bowdoin College;|Bigelow Laboratory for Ocean Sciences
http://dx.doi.org/10.1101/045518 2016-03-24 Systems Biology CC BY-NC-ND An algebraic approach to parameter optimization in bimolecular bistable systems Vahid Mardanlou|Elisa Franco University of California Riverside;|University of California at Riverside
http://dx.doi.org/10.1101/027102 2016-03-24 Neuroscience CC BY-NC Signatures of internal model updating during learning in rat prefrontal cortex Abhinav Singh|Adrien Peyrache|Mark Humphries University of Manchester;|New York University
http://dx.doi.org/10.1101/036780 2016-03-24 Evolutionary Biology CC BY-NC How clonal are bacteria over time? B. Jesse Shapiro University of Montreal
http://dx.doi.org/10.1101/022707 2016-03-24 Bioinformatics CC BY Tools and techniques for computational reproducibility Stephen R Piccolo|Michael B Frampton Brigham Young University
http://dx.doi.org/10.1101/045443 2016-03-24 Microbiology Isolation of infective Zika virus from urine and saliva of patients in Brazil Myrna C Bonaldo|Ieda P Ribeiro|Noemia S. Lima|Alexandre A. C. Santos|Lidiane S.R. Menezes|Stephanie O.D. Cruz|Iasmim S. Mello|Nathalia D. Furtado|Elaine E. Moura|Luana Damasceno|Keli A.B. Silva|Marcia G. Castro|Alexandra L. Gerber|Luiz G.P. Almeida|Ricardo Lourenco-de-Oliveira|Ana Tereza R. Vasconcelos|Patricia Brasil Instituto Oswaldo Cruz, Fiocruz;|Instituto Nacional de Infectologia Evandro Chagas, Fiocruz;|Laboratório Nacional de Computação Científica
http://dx.doi.org/10.1101/045336 2016-03-24 Neuroscience Testing pseudo-linear models of responses to natural scenes in primate retina Alexander Heitman|Nora Brackbill|Martin Greschner|Alexander Sher|Alan M. Litke|E.J. Chichilnisky University of California, San Diego;|Stanford University;|University of Oldenburg;|University of California, Santa Cruz
http://dx.doi.org/10.1101/045369 2016-03-24 Evolutionary Biology Escherichia coli populations adapt to complex, unpredictable fluctuations without any trade-offs across environments Shraddha Madhav Karve|Devika Bhave|Dhanashri Nevgi|Sutirth Dey Indian Institute of Science Education and Research, Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/045344 2016-03-24 Immunology CC BY-ND Association between use of the progestin Depot Medroxyprogesterone Acetate and Female Genital Proinflammatory Cytokines among HIV-1 and HSV-2 co-infected African women: a case control study Edwin Oloo Walong|Christopher Gontier|Walter Jaoko|Elizabeth Bukusi University of Nairobi;|University of Narirobi;|Kenya Medical Research Institute
http://dx.doi.org/10.1101/045427 2016-03-24 Genetics CC BY-NC-ND Forward genetics by sequencing EMS variation induced inbred lines. Charles Addo-Quaye|Elizabeth Buescher|Vijay Chaikam|Norman Best|Ivan Baxter|Brian Dilkes Purdue University, United States;|CIMMYT, United States;|Danforth Plant Science Center, Mexico
http://dx.doi.org/10.1101/045450 2016-03-24 Genomics CC BY-NC-ND Assessing the measurement transfer function of single-cell RNA sequencing Hannah R. Dueck|Rizi Ai|Adrian Camarena|Bo Ding|Reymundo Dominguez|Oleg V. Evgrafov|Jian-Bing Fan|Stephen A. Fisher|Jennifer S. Herstein|Tae Kyung Kim|Jae Mun (Hugo) Kim|Ming-Yi Lin|Rui Liu|William J. Mack|Sean McGroty|Joseph Nguyen|Neeraj Salathia|Jamie Shallcross|Tade Souaiaia|Jennifer Spaethling|Chris P. Walker|Jinhui Wang|Kai Wang|Wei Wang|Andre Wilberg|Lina Zheng|Robert H. Chow|James Eberwine|James A. Knowles|Kun Zhang|Junhyong Kim University of Pennsylvania;|University of California at San Diego;|University of Southern California;|University of Southern California, Los Angeles;|Illumina, Inc.
http://dx.doi.org/10.1101/043612 2016-03-23 Bioinformatics LoLoPicker: Detecting Low Allelic-Fraction Variants in Low-Quality Cancer Samples from Whole-exome Sequencing Data Jian Carrot-Zhang|Jacek Majewski Department of Human Genetics, McGill University and Genome Quebec Innovation Centre
http://dx.doi.org/10.1101/045310 2016-03-23 Bioengineering CC BY-NC-ND Dual immunosensor based on methylene blue-electroadsorbed graphene oxide for rapid detection of influenza virus antigen Murugan Veerapandian|Robert Hunter|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/045435 2016-03-23 Biophysics CC BY-ND Modeling multi-particle complexes in stochastic chemical systems Muir J Morrison|Justin B Kinney California Institute of Technology;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/045385 2016-03-23 Evolutionary Biology Recent Cis-Trans Coevolution Driven by the Emergence of A Novel Gene in Drosophila Benjamin H Krinsky|Robert Arthur|Kevin P White|Manyuan Long Federation of American Societies for Experimental Biology;|University of Chicago;|The University of Chicago
http://dx.doi.org/10.1101/045179 2016-03-23 Microbiology Synthesis of titanium dioxide thin films and its application in reducing microbial load of milk Shruthi N Kumar|Manjula Sarode|Ravishankar H N RVCE
http://dx.doi.org/10.1101/043992 2016-03-23 Evolutionary Biology CC BY-ND Golden Spirals and Scalp Whorls: Nature's Own Design For Expansion Sharad P. Paul Universities of Queensland/Auckland
http://dx.doi.org/10.1101/045328 2016-03-23 Bioengineering CC BY-NC-ND Single cell chemotactic responses of Helicobacter pylori to urea in a microfluidic chip Xuan Weng|Suresh Neethirajan|Adam Vogt University of Guelph
http://dx.doi.org/10.1101/045054 2016-03-23 Biophysics Self-assembly Controls Self-cleavage of HHR from ASBVd(-): a Combined SANS and Modeling Study. Fabrice Leclerc|Giuseppe Zaccai|Jacques Vergne|Martina Rihova|Anne Martel|Marie-Christine Maurel Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Universite ́ Paris Sud, F-9119;|Institut Laue Langevin, Grenoble, F-38042, France;|Institut de Syste ́matique, Evolution, Biodiversite ́ ISyEB - UMR 7205 - CNRS, MNHN, UPMC,;|Institute of Physics, Charles University, Faculty of Mathematics and Physics, Prague 2, CZ-121 16, C
http://dx.doi.org/10.1101/045195 2016-03-23 Evolutionary Biology CC BY Speciation by Symbiosis: The Microbiome and Behavior J. Dylan Shropshire|Seth R. Bordenstein Vanderbilt University
http://dx.doi.org/10.1101/045286 2016-03-23 Ecology The behaviour of hoverfly larvae (Diptera, Syrphidae) lessens the effects of floral subsidy in agricultural landscapes Elsa A. Laubertie|Steve D. Wratten|Alexandra Magro|Jean Louis RGM Hemptinne Bio-Protection Research Centre;|Universite de Toulouse
http://dx.doi.org/10.1101/045278 2016-03-23 Molecular Biology CC BY-ND Human mismatch repair system corrects errors produced during lagging strand replication more effectively Maria Andrianova|Georgii A Bazykin|Sergey Nikolaev|Vladimir Seplyarskiy IITP RAS;|University of Geneva Medical School
http://dx.doi.org/10.1101/045294 2016-03-23 Bioengineering CC BY-NC-ND Investigation of the Antimicrobial Activity of Soy Peptides by Developing a High Throughput Drug Screening Assay Rekha Dhayakaran|Suresh Neethirajan|Xuan Weng University of Guelph
http://dx.doi.org/10.1101/045252 2016-03-23 Neuroscience CC BY-NC-ND Attention selectively reshapes the geometry of distributed semantic representation Samuel A. Nastase|Andrew C. Connolly|Nikolaas N. Oosterhof|Yaroslav O. Halchenko|J. Swaroop Guntupalli|Matteo Visconti di Oleggio Castello|Jason Gors|M. Ida Gobbini|James V. Haxby Dept. of Psychological and Brain Sciences, Dartmouth College;|Dept. of Neurology, Geisel School of Medicine at Dartmouth;|Center for Mind/Brain Sciences, University of Trento, Italy
http://dx.doi.org/10.1101/045260 2016-03-23 Bioinformatics CC BY MetaXcan: Summary Statistics Based Gene-Level Association Method Infers Accurate PrediXcan Results Alvaro Barbeira|Kaanan P Shah|Jason M Torres|Heather E Wheeler|Eric S Torstenson|Todd Edwards|Tzintzuni Garcia|Graeme I Bell|Dan Nicolae|Nancy J Cox|Hae Kyung Im Instituto Tecnologico de Buenos Aires;|The University of Chicago;|Loyola University Chicago;|Vanderbilt University
http://dx.doi.org/10.1101/045187 2016-03-23 Developmental Biology Light sheet microscopy for everyone? Experience of building an OpenSPIM to study flatworm development Johannes Girstmair|Anne Zakrzewski|Francois Lapraz|Mette Handberg-Thorsager|Pavel Tomancak|Peter Gabriel Pitrone|Fraser Simpson|Maximilian J Telford Department of Genetics, Evolution and Environment, University College London, London, WC1E 6BT Unite;|University College London;|Université de Toulouse;|Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/039750 2016-03-23 Animal Behavior and Cognition Infection avoidance behaviour: female fruit flies adjust foraging effort in response to internal and external cues of viral infection Pedro F Vale|Michael D Jardine University of Edinburgh
http://dx.doi.org/10.1101/033613 2016-03-23 Bioinformatics CC BY Avoidance of stochastic RNA interactions can be harnessed to control protein expression levels in bacteria and archaea Sinan Ugur Umu|Anthony M Poole|Renwick C.J. Dobson|Paul P. Gardner University of Canterbury
http://dx.doi.org/10.1101/017350 2016-03-23 Neuroscience CC BY-NC-ND Improving effect size estimation and statistical power with multi-echo fMRI and its impact on understanding the neural systems supporting mentalizing Michael V. Lombardo|Bonnie Auyeung|Rosemary J Holt|Jack Waldman|Amber N. V. Ruigrok|Natasha Mooney|Edward T Bullmore|Simon Baron-Cohen|Prantik Kundu University of Cyprus;|University of Edinburgh;|University of Cambridge;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/045211 2016-03-22 Evolutionary Biology Phylogenetic expression profiling reveals widespread coordinated evolution of gene expression Trevor Martin|Hunter Fraser Stanford University
http://dx.doi.org/10.1101/045237 2016-03-22 Evolutionary Biology CC BY-NC-ND The landscape of uniquely shared archaic alleles in present-day human populations Fernando Racimo|Davide Marnetto|Emilia Huerta-Sanchez University of California Berkeley;|University of Torino;|University of California Merced
http://dx.doi.org/10.1101/045245 2016-03-22 Neuroscience CC BY-NC-ND Neural codes of architectural styles Heeyoung Choo|Jack Nasar|Bardia Nikrahei|Dirk B Walther University of Illinois Urbana Champaign;|The Ohio State University;|University of Toronto
http://dx.doi.org/10.1101/032078 2016-03-22 Developmental Biology CC BY-NC-ND Diversity of fate outcomes in cell pairs under lateral inhibition Nara Guisoni|Rosa Martinez Corral|Jordi Garcia-Ojalvo|Joaquin de Navascues Instituto de Fisica de Liquidos y Sistemas Biologicos, CONICET & Universidad Nacional de La Plata;|Department of Experimental and Health Sciences, Universitat Pompeu Fabra;|Universitat Pompeu Fabra;|Cardiff University
http://dx.doi.org/10.1101/045161 2016-03-22 Genomics CC BY RNA Synthesis is Associated with Multiple TBP-Chromatin Binding Events Hussain Asim Zaidi|David Auble|Stefan Bekiranov University of Virginia School of Medicine
http://dx.doi.org/10.1101/038257 2016-03-22 Plant Biology CC BY ELF3 polyQ variation in Arabidopsis thaliana reveals a PIF4-independent role in thermoresponsive flowering. Maximilian O Press|Amy Lanctot|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/045096 2016-03-22 Evolutionary Biology CC BY-ND Adaptation in protein fitness landscapes is facilitated by indirect paths Nicholas C. Wu|Lei Dai|C. Anders Olson|James O. Lloyd-Smith|Ren Sun University of California, Los Angeles
http://dx.doi.org/10.1101/033852 2016-03-22 Evolutionary Biology CC BY-NC-ND The Equidistance Index of Population Structure Yaron Granot|Omri Tal|Saharon Rosset|Karl Skorecki Technion - Israel Institute of Technology;|Max Planck Institute for Mathematics in the Sciences;|Tel Aviv University
http://dx.doi.org/10.1101/045146 2016-03-22 Cell Biology Costs of Clock-Environment Misalignment in Individual Cyanobacterial Cells Guillaume Lambert|Michael J. Rust|Justin Chew Cornell University;|University of Chicago
http://dx.doi.org/10.1101/044412 2016-03-22 Genetics CC BY-NC-ND Genome-wide association study of 40,000 individuals identifies two novel loci associated with bipolar disorder Liping Hou|Sarah E Bergen|Nirmala Akula|Jie Song|Christina M Hultman|Mikael Landen|Mazda Adli|Martin Alda|Raffaella Ardau|Barbara Arias|Jean-Michel Aubry|Lena Backlund|Judith A Badner|Thomas B Barrett|Michael Bauer|Bernhard T Baune|Frank Bellivier|Antonio Benabarre|Susanne Bengesser|Wade H Berrettini|Abesh Kumar Bhattacharjee|Joanna M Biernacka|Armin Birner|Cinnamon S Bloss|Clara Brichant-Petitjean|Elise T Bui|William Byerley|Pablo Cervantes|Caterina Chillotti|Sven Cichon|Francesc Colom|William Coryell|David W Craig|Cristiana Cruceanu|Piotr M Czerski|Tony Davis|Alexandre Dayer|Franziska Degenhardt|Maria Del Zompo|J. Raymond DePaulo|Howard J Edenberg|Bruno Etain|Peter Falkai|Tatiana Foroud|Andreas J Forstner|Louise Frisen|Mark A Frye|Janice M Fullerton|Sebastien Gard|Julie S Garnham|Elliot S Gershon|Fernando S Goes|Tiffany A Greenwood|Maria Grigoroiu-Serbanescu|Joanna Hauser|Urs Heilbronner|Stefanie Heilmann-Heimbach|Stefan Herms|Maria Hipolito|Shashi Hitturlingappa|Per Hoffmann|Andrea Hofmann|Stephane Jamain|Esther Jimenez|Jean-Pierre Kahn|Layla Kassem|John R Kelsoe|Sarah Kittel-Schneider|Sebastian Kliwicki|Daniel L Koller|Barbara Konig|Nina Lackner|Gonzalo Laje|Maren Lang|Catharina Lavebratt|William B Lawson|Marion Leboyer|Susan G Leckband|Chunyu Liu|Anna Maaser|Pamela B Mahon|Wolfgang Maier|Mario Maj|Mirko Manchia|Lina Martinsson|Michael J McCarthy|Susan L McElroy|Melvin G McInnis|Rebecca McKinney|Philip B Mitchell|Marina Mitjans|Francis M Mondimore|Palmiero Monteleone|Thomas W Muhleisen|Caroline M Nievergelt|Markus M Nothen|Tomas Novak|John I Nurnberger|Evaristus A Nwulia|Urban Osby|Andrea Pfennig|James B Potash|Peter Propping|Andreas Reif|Eva Reininghaus|John Rice|Marcella Rietschel|Guy A Rouleau|Janusz K Rybakowski|Martin Schalling|William A Scheftner|Peter R Schofield|Nicholas J Schork|Thomas G Schulze|Johannes Schumacher|Barbara W Schweizer|Giovanni Severino|Tatyana Shekhtman|Paul D Shilling|Christian Simhandl|Claire M Slaney|Erin N Smith|Alessio Squassina|Thomas Stamm|Pavla Stopkova|Fabian Streit|Jana Strohmaier|Szabolcs Szelinger|Sarah K Tighe|Alfonso Tortorella|Gustavo Turecki|Eduard Vieta|Julia Volkert|Stephanie H Witt|Adam Wright|Peter P Zandi|Peng Zhang|Sebastian Zollner|Francis J McMahon National Institutes of Health, US Dept of Health & Human Services;|Karolinska Institutet;|The Sahlgrenska Academy at the Gothenburg University;|Charite - Universitatsmedizin Berlin, Campus Charite Mitte;|Dalhousie University;|Hospital University Agency of Cagliari;|Universitat de Barcelona, CIBERSAM;|Geneva University Hospitals;|Karolinska Institutet and Center for Molecular Medicine, Karolinska University Hospital;|University of Chicago;|Portland Veterans Affairs Medical Center;|University Hospital Carl Gustav Carus, Technische Universitat Dresden;|University of Adelaide;|Pole de Psychiatrie, AP-HP, Groupe Hospitalier Lariboisiere-F. Widal;|University of Barcelona, IDIBAPS, CIBERSAM;|Medical University of Graz;|University of Pennsylvania;|University of California San Diego;|Mayo Clinic;|Scripps Translational Science Institute;|University of California at San Francisco;|McGill University Health Centre;|University hospital basel;|Institute of Neuroscience, Hospital Clinic, University of Barcelona, IDIBAPS, CIBERSAM;|University of Iowa Hospitals and Clinics;|The Translational Genomics Research Institute;|McGill University;|Poznan University of Medical Sciences;|HUG - Geneva University Hospitals;|University of Bonn;|University of Cagliari;|Johns Hopkins University;|Indiana University School of Medicine;|Psychiatrie Translationnelle;|Ludwig-Maximilians-University Munich;|Neuroscience Research Australia;|Hopital Charles Perrens;|Johns Hopkins School of Medicine;|Alexandru Obregia Psychiatric Hospital;|Universityhospital basel;|Howard University Hospital;|Hospital Clinic, University of Barcelona, IDIBAPS, CIBERSAM;|Centre Psychotherapique de Nancy - Universite de Lorraine;|National Institute of Mental Health and Human Services;|University Hospital Frankfurt;|Landesklinikum Neunkirchen;|University of Heidelberg;|Assistance Publique-Hopitaux de Paris, Hopital Albert Chenevier - Henri Mondor;|VA San Diego Healthcare System;|University of Illinois at Chicago;|University of Naples SUN;|Lindner Center of Hope / University of Cincinnati;|University of Michigan;|University of New South Wales;|Facultat de Biologia and Institut de Biomedicina (IBUB), Universitat de Barcelona, CIBERSAM;|University of Salerno;|Research Centre Julich;|National Institute of Mental Health, Czech Republic;|University of Iowa;|Washington University School of Medicine in St. Louis;|Rush University Medical Center;|Bipolar Center Wiener Neustadt;|University of Naples, SUN;|University of New South Wales, and Black Dog Institute;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/033514 2016-03-22 Ecology CC BY-NC-ND Reticulate evolution is favoured in influenza niche switching. Eric J. Ma|Nichola J. Hill|Kyle Yuan|Justin Zabilansky|Jonathan A. Runstadler MIT
http://dx.doi.org/10.1101/020230 2016-03-22 Bioinformatics CC BY-NC-ND OPERA-LG: Efficient and exact scaffolding of large, repeat-rich eukaryotic genomes with performance guarantees Song Gao|Denis Bertrand|Burton KH Chia|Niranjan Nagarajan South Australian Health and Medical Research Institute;|Genome Institute of Singapore
http://dx.doi.org/10.1101/044933 2016-03-22 Ecology CC BY-NC A trail camera imagery dataset of contrasting shrub and open microsites within the Carrizo Plain National Monument, San Luis Obispo County, California Taylor Noble|Christopher Lortie|Michael Westphal|H. Scott Butterfield York University;|U.S. Bureau of Land Management;|The Nature Conservancy
http://dx.doi.org/10.1101/040642 2016-03-22 Neuroscience CC BY-NC-ND Balanced excitation and inhibition decorrelates visual feature representation in the mammalian inner retina Katrin Franke|Philipp Berens|Timm Schubert|Matthias Bethge|Thomas Euler|Tom Baden University of Tuebingen
http://dx.doi.org/10.1101/025551 2016-03-22 Genomics CC BY Hybridization capture using RAD probes (hyRAD), a new tool for performing genomic analyses on museum collection specimens. Tomasz Suchan|Camille Pitteloud|Nadezhda Gerasimova|Anna Kostikova|Sarah Schmid|Nils Arrigo|Mila Pajkovic|Micha Ronikier|Nadir Alvarez Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland;|Biology Faculty, Lomonosov Moscow State University, Moscow, Russia;|InsideDNA Ltd., United Kingdom;|Władysław Szafer Institute of Botany, Polish Academy of Sciences, Krakow, Poland
http://dx.doi.org/10.1101/045070 2016-03-22 Genomics CC BY-NC-ND Normalization of Single Cell RNA Sequencing Data Using both Control and Target Genes Mengjie Chen|Xiang Zhou University of North Carolina - Chapel Hill;|University of Michigan
http://dx.doi.org/10.1101/045039 2016-03-21 Evolutionary Biology CC BY-ND In-vivo mutation rates and fitness landscape of HIV-1 Fabio Zanini|Vadim Puller|Johanna Brodin|Jan Albert|Richard Neher Max Planck Institute for Developmental Biology;|Department of Microbiology, Tumor and Cell Biology, Karolinska Institute
http://dx.doi.org/10.1101/045088 2016-03-21 Evolutionary Biology CC BY-NC-ND Genome sequence of tsetse bracoviruses: insights into symbiotic virus evolution Kelvin M Kimenyi|Muna F Abry|Winnie Okeyo|Enock Matovu|Daniel Masiga|Benard W Kulohoma Center for Biotechnology and Bioinformatics, University of Nairobi, Kenya;|International Centre of Insect Physiology and Ecology, Nairobi, Kenya;|Makerere University, Kampala, Uganda
http://dx.doi.org/10.1101/044669 2016-03-21 Bioinformatics CC BY-NC-ND AuPairWise: a method to estimate RNA-seq replicability through co-expression Sara Ballouz|Jesse Gillis Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/044370 2016-03-21 Microbiology Evaluation of SNP-based genotyping to monitor tuberculosis control in a high MDR-TB setting Nestani Tukvadze|Indra L Bergval|Nino Bablishvili|Nino Bzekalava|Anja RJ Schuitema|Jessica de Beer|Rina de Zwaan|Sandra Alba|Dick van Soolingen|Rusudan Aspindzelashvili|Richard M Anthony|Sarah Sengstake National TB Reference Laboratory, National Center for Tuberculosis and Lung Diseases, Tbilisi;|KIT Biomedical Research, Amsterdam;|RIVM, Bilthoven;|KIT Biomedical Research
http://dx.doi.org/10.1101/045021 2016-03-21 Bioinformatics CC BY-NC Mining Large Heterogeneous Cancer Data Sets Using Boolean Implications Subarna Sinha|David L Dill Stanford University
http://dx.doi.org/10.1101/044172 2016-03-21 Genomics A role for YY1 in sex-biased transcription revealed through X-linked promoter activity and allelic binding analyses Chih-yu Chen|Wenqiang Shi|Allison M. Matthews|Yifeng Li|David J. Arenillas|Anthony Mathelier|Masayoshi Itoh|Hideya Kawaji|Timo Lassmann|Yoshihide Hayashizaki|Piero Carninci|Alistair R. R. Forrest|Carolyn Janet Brown|Wyeth Wasserman University of British Columbia;|RIKEN;|RIKEN Omics Science Center;|RIKEN Preventive Medicine and Diagnosis Innovation Program;|Harry Perkins Institute for Medical Research
http://dx.doi.org/10.1101/045047 2016-03-21 Genomics CC BY Proteomic and genomic characterization of a yeast model for Ogden syndrome Max Doerfel|Han Fang|Jonathan Crain|Michael E Klingener|Jake Weiser|Gholson J Lyon CSHL
http://dx.doi.org/10.1101/044941 2016-03-21 Evolutionary Biology CC BY Detection of pathways affected by positive selection in primate lineages ancestral to humans Josephine Daub|Sebastien Moretti|Iakov Igorevich Davydov|Laurent Excoffier|Marc Robinson-Rechavi University of Bern;|Swiss Institute of Bioinformatics;|University of Lausanne
http://dx.doi.org/10.1101/045013 2016-03-21 Genomics A Whole Blood Molecular Signature for Acute Myocardial Infarction Evan D Muse|Eric R Kramer|Haiying Wang|Paddy Barrett|Fereshteh Parviz|Mark A Novotny|Roger S Lasken|Timothy A Jatkoe|Glenn Oliveira|Hongfan Peng|Jerry Lu|Marc C Connelly|Kurt Schilling|Chandra Rao|Ali Torkamani|Eric J Topol Scripps Translational Science Institute, The Scripps Research Institute, Scripps Health;|Scripps Research Institute;|Ortho Clinical Diagnostics;|Janssen Research & Development, LLC;|J. Craig Venter Institute;|Biological Dynamics
http://dx.doi.org/10.1101/033423 2016-03-21 Molecular Biology CC BY-NC-ND A conserved abundant cytoplasmic long noncoding RNA modulates repression by Pumilio proteins in human cells Ailone Tichon|Noa Gil|Yoav Lubelsky|Tal Havkin Solomon|Doron Lemze|Shalev Itzkovitz|Noam Stern-Ginossar|Igor Ulitsky Weizmann Institute of Science
http://dx.doi.org/10.1101/044917 2016-03-21 Genetics CC BY The Opposing Effects of Hedonic and Eudaimonic Happiness on Gene Expression is Correlated Noise Jeffrey A Walker University of Southern Maine
http://dx.doi.org/10.1101/044958 2016-03-21 Genomics CC BY-NC-ND Whole Genome Analysis of 132 Clinical Saccharomyces cerevisiae Strains Reveals Extensive Ploidy Variation Yuan O Zhu|Gavin J Sherlock|Dmitri A Petrov Genome Institute Singapore, Singapore;|Stanford University, United States
http://dx.doi.org/10.1101/044974 2016-03-21 Neuroscience A neural basis for the spatial suppression of visual motion perception Liu D Liu|Ralf M Haefner|Christopher C Pack McGill University;|University of Rochester
http://dx.doi.org/10.1101/044982 2016-03-21 Plant Biology CC BY-NC Genome-Wide Analysis of Non-Templated Nucleotides in Plant Endogenous siRNAs and miRNAs Feng Wang|Nathan R Johnson|Ceyda Coruh|Michael J Axtell Penn State University
http://dx.doi.org/10.1101/044966 2016-03-21 Bioinformatics CC BY Construction and Experimental Validation of a Petri net Model of Wnt/β-catenin Signaling Annika Jacobsen|Nika Heijmans|Folkert Verkaar|Martine J. Smit|Jaap Heringa|Renee van Amerongen|K. Anton Feenstra Centre for Integrative Bioinformatics (IBIVU), VU University Amsterdam, Amsterdam, The Netherlands;|Swammerdam Institute for Life Sciences, University of Amsterdam, Amsterdam, The Netherlands;|Division of Medicinal Chemistry, VU University Amsterdam, Amsterdam, The Netherlands
http://dx.doi.org/10.1101/033969 2016-03-21 Animal Behavior and Cognition CC BY Drosophila learn efficient paths to a food source Rapeechai Navawongse|Deepak Choudhury|Marlena Raczkowska|James C Stewart|Terrence Lim|Mashiur Rahman|Alicia Guek Geok Toh|Zhiping Wang|Adam Claridge-Chang Institute of Molecular and Cell Biology;|Singapore Institute of Manufacturing Technology;|Duke-NUS Medical School
http://dx.doi.org/10.1101/034256 2016-03-21 Evolutionary Biology CC BY When three traits make a line: Evolution of phenotypic plasticity and genetic assimilation through linear reaction norms in stochastic environments Torbjorn Ergon|Rolf Ergon University of Oslo;|University College of Southeast Norway
http://dx.doi.org/10.1101/020701 2016-03-21 Animal Behavior and Cognition CC BY Concordance and incongruence in preclinical anxiety models: systematic review and meta-analyses Farhan Mohammad|Joses Ho|Chun Lei Lim|Jia Hern Woo|Dennis Jun Jie Poon|Bhumika Lamba|Adam Claridge-Chang Duke-NUS Graduate Medical School;|Institute of Molecular and Cell Biology;|Institute for Molecular and Cell Biology
http://dx.doi.org/10.1101/038299 2016-03-21 Evolutionary Biology CC BY Hybrid asexuality as a primary reproductive barrier: on the interconnection between asexuality and speciation Karel Janko|Jan Paces|Hilde Wilkinson-Herbots|Rui J Costa|Jan Roslein|Pavel Drozd|Nataliia Iakovenko|Jakub Ridl|Jan Koci|Radka Reifova|Vera Slechtova|Lukas Choleva Institute of Animal Physiology and Genetics, CAS;|Institute of Molecular Genetics, CAS;|University College London;|Institute of Vertebrate Biology, CAS;|University of Ostrava;|Charles University in Prague
http://dx.doi.org/10.1101/044818 2016-03-21 Systems Biology CC BY-NC-ND Notions of similarity for computational biology models Dagmar Waltemath|Ron Henkel|Robert Hoehndorf|Tim Kacprowski|Christian Knuepfer|Wolfram Liebermeister University of Rostock;|Heidelberg Institute for Theoretical Studies;|King Abdullah University of Science and Technology;|University Medicine and Ernst-Moritz-Arndt University Greifswald;|University Jena;|Charite - Universitaetsmedizin Berlin
http://dx.doi.org/10.1101/044859 2016-03-21 Paleontology CC BY Fossil calibrations for the arthropod Tree of Life Joanna M Wolfe|Allison C Daley|David A Legg|Gregory D Edgecombe Massachusetts Institute of Technology;|University of Oxford;|Oxford University Museum of Natural History;|The Natural History Museum
http://dx.doi.org/10.1101/044875 2016-03-21 Pharmacology CC BY-NC-ND CHITOSAN FROM Portunus Pelagicus IN THE SYNTHESIS OF REDUCED GOLD NANOPARTICLE AS POTENTIAL CARRIER FOR THE DELIVERY OF ERYTHROPOIETIN Maria Angelica M Duque|Rhowell N Tiozon|Rebecca C Nueva Espana Philippine Normal University
http://dx.doi.org/10.1101/044925 2016-03-20 Genomics Assemblytics: a web analytics tool for the detection of assembly-based variants Maria Nattestad|Michael C Schatz Cold Spring Harbor Laboratory;|Cold Spring Harbor Laboratory, Johns Hopkins University
http://dx.doi.org/10.1101/044909 2016-03-20 Bioinformatics Identification of combinatorial and singular genomic signatures of host adaptation in influenza A H1N1 and H3N2 subtypes Zeeshan Khaliq|Mikael Leijon|Sandor Belak|Jan Komorowski Dept. of Cell and Molecular Biology, Computational Biology and Bioinformatics, Uppsala Univeristy;|National Veterinary Institute (SVA), Department of Virology, Parasitology and Immunobiology (VIP);|Biomedical Sciences and Veterinary Public Health, Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/028381 2016-03-20 Systems Biology Molecular Mechanisms for the Biological Storage of Renewable Energy Buz Barstow Princeton University
http://dx.doi.org/10.1101/044834 2016-03-19 Immunology CC BY-NC-ND Antibody mediated epitope mimicry in the pathogenesis of Zika virus related disease Jane Homan|Robert W Malone|Steven J Darnell|Robert D Bremel ioGenetics LLC, Madison, WI;|RWMaloneMD LLC, Scottsville, VA;|DNASTAR Inc, Madison, WI
http://dx.doi.org/10.1101/044784 2016-03-19 Evolutionary Biology Understanding Wolbachia acquisition and co-divergence of hosts and their associated bacteria: Wolbachia infection in the Chorthippus parallelus hybrid zone Martinez-Rodriguez Paloma|Arroyo-Yebras Francisca|Bella Jose Luis INRA;|Universidad Autonoma de Madrid
http://dx.doi.org/10.1101/044800 2016-03-19 Cancer Biology CC BY-NC-ND Extent of EMT promotes invasive, contact-induced sliding on progressively narrower fiber-like tracks Daniel F Milano|Senthil K Muthuswamy|Anand R Asthagiri Northeastern University;|Harvard Medical School
http://dx.doi.org/10.1101/044826 2016-03-19 Genetics CC BY Seven SNPs in the Coding Sequence of Leptin Receptor Gene in Long-term Selected Japanese Quail Lines Kemal Karabag|Sezai Alkan|Taki Karsl|Cengiz Ikten|Inci Sahin|Murat Soner Balcoglu Akdeniz University, Turkey;|Ordu University, Turkey;|Department of Animal Science, Faculty of Agriculture, Akdeniz University, Turkey;|Department of Plant Protection, Faculty of Agriculture, Akdeniz University, Turkey;|Selcuk University, Turkey
http://dx.doi.org/10.1101/044735 2016-03-19 Cell Biology CC BY-NC-ND Growth Rate-Dependent Global Amplification of Gene Expression Niki Athanasiadou|Benjamin Neymotin|Nathan Brandt|Darach Miller|Daniel Tranchina|David Gresham New York University
http://dx.doi.org/10.1101/044792 2016-03-19 Microbiology Genomic epidemiology and global diversity of the emerging bacterial pathogen Elizabethkingia anophelis Sebastien Breurec|Alexis Criscuolo|Laure Diancourt|Olaya Rendueles-Garcia|Mathias Vandenbogaert|Virginie Passet|Valerie Caro|Eduardo P.C. Rocha|Marie Touchon|Sylvain Brisse Institut Pasteur, Guadeloupe;|Institut Pasteur
http://dx.doi.org/10.1101/044743 2016-03-19 Systems Biology CC BY-NC-ND Single-Cell Gene Expression Profi ling and Cell State Dynamics: Collecting Data, Correlating Data Points and Connecting the Dots Carsten Marr|Joseph Xu Zhou|Sui Huang Institute of Computational Biology, Helmholtz Zentrum Munchen,German Research Center for Environment;|Institute for Systems Biology
http://dx.doi.org/10.1101/041806 2016-03-19 Evolutionary Biology CC BY-ND The developmental genetic toolkit shared by bilaterian crown clades after a billion years of divergence Andrea Kraemer-Eis|Luca Ferretti|Philipp Schiffer|Peter Heger|Thomas Wiehe Universitaet zu Koeln;|The Pirbright Institute;|University College London
http://dx.doi.org/10.1101/044578 2016-03-19 Bioinformatics CC BY SnoVault and encodeD: A novel object-based storage system and applications to ENCODE metadata Benjamin Hitz|Laurence D Rowe|Nikhil Podduturi|David Glick|Ulugbek Baymuradov|Venkat Malladi|Esther Chan|Jean Davidson|Idan Gabdank|Aditi Narayanan|Kathrina Onate|Marcus Ho|Brian Lee|Stuart Miyasato|Timothy Dreszer|Cricket Sloan|J Seth Strattan|Forrest Tanaka|Eurie L Hong|J. Michael Cherry Stanford University;|Glick Software;|University of California, Santa Cruz
http://dx.doi.org/10.1101/044552 2016-03-19 Bioinformatics CC BY Automated SWATH Data Analysis Using Targeted Extraction of Ion Chromatograms Hannes L Rost|Ruedi Aebersold|Olga T Schubert Department of Genetics, Stanford University;|Institute of Molecular Systems Biology, ETH Zurich;|Department of Human Genetics, University of California Los Angeles
http://dx.doi.org/10.1101/044537 2016-03-19 Cell Biology CC BY-NC-ND Effects of Unleaded Petroleum on the Macrophage Aggregates (MA) formation in Red King tilapia (Oreochromis sp.) Fingerlings Ancel Jeff G Beso|Veronica Y Candelaria|Jennifer F dela Cruz|Margie S Tolentino|Anna Danica C Tameta|Allen Espinosa Colegio de San Juan de Letran;|Philippine Normal University
http://dx.doi.org/10.1101/044602 2016-03-19 Cell Biology CC BY-NC-ND An atypical role for the myeloid receptor Mincle in CNS injury Thiruma Arumugam|Silvia Manzanero|Milena Furtado|Patrick Biggins|Yu-Hsuan Hsieh|Mathias Gelderblom|Kelli MacDonald|Ekaterina Salimova|Yu-I Li|Othmar Korn|Deborah Dewar|I Mhairi Macrae|Robert Ashman|Sung-Chun Tang|Nadia Rosenthal|Marc Ruitenberg|Tim Magnus|Christine Wells NUS;|University of Queensland;|Monash;|University Hospital Hamburg-Eppendorf;|QIMR;|National Taiwan University;|University of Glasgow;|Jackson Laboratories;|University of Melbourne
http://dx.doi.org/10.1101/044719 2016-03-19 Genomics CC BY Many long intergenic non-coding RNAs distally regulate mRNA gene expression levels Ian McDowell|Athma Pai|Cong Guo|Christopher M Vockley|Christopher D Brown|Timothy E Reddy|Barbara E Engelhardt Duke University;|MIT;|University of Pennsylvania;|Duke University School of Medicine;|Princeton University
http://dx.doi.org/10.1101/044248 2016-03-19 Scientific Communication CC BY-NC-ND Zika Virus Disease: A Simple Model Approach to Rapid Impact Assessment James Wilson|Robert Malone|Julie Smith Gagen|Roman Pabayo University of Nevada-Reno;|Harvard Medical School Global Clinical Scholars Research Training Program
http://dx.doi.org/10.1101/028910 2016-03-18 Neuroscience Projection-specific visual feature encoding by layer 5 cortical subnetworks. Gyorgy Lur|Martin Vinck|Lan Tang|Jessica A Cardin|Michael J Higley Yale University
http://dx.doi.org/10.1101/044156 2016-03-18 Neuroscience CC BY-NC-ND Contour junctions underlie neural representations of scene categories in high-level human visual cortex Heeyoung Choo|Dirk B Walther University of Toronto
http://dx.doi.org/10.1101/044339 2016-03-18 Systems Biology CC BY-NC-ND Modeling Chromosome Maintenance as a Property of Cell Cycle in Saccharomyces cerevisiae Jesse P. Frumkin|Biranchi N. Patra|Antony Sevold|Kumkum Ganguly|Chaya Patel|Stephanie Yoon|Molly B. Schmid|Animesh Ray Keck Graduate Institute;|Los Alamos National Laboratory
http://dx.doi.org/10.1101/044545 2016-03-18 Bioinformatics CC BY-ND NanoSim: nanopore sequence read simulator based on statistical characterization Chen Yang|Justin Chu|René L Warren|Inanc Birol University of British Columbia;|BC Cancer Agency
http://dx.doi.org/10.1101/044628 2016-03-18 Plant Biology A universal mathematical model of non-photochemical quenching to study short-term light memory in plants Anna Barbara Matuszynska|Somayyeh Heidari|Peter Jahns|Oliver Ebenhoeh Heinrich Heine University Duesseldorf;|Ferdowsi University Of Mashhad, Iran
http://dx.doi.org/10.1101/044636 2016-03-18 Neuroscience Probing the causal role of prestimulus interregional synchrony for perceptual integration via tACS Rolandas Stonkus|Verena Braun|Jess Kerlin|Gregor Volberg|Simon Hanslmayr Vilnius University;|University of Birmingham;|University of Regensburg
http://dx.doi.org/10.1101/044586 2016-03-18 Biophysics Connecting the sequence-space of bacterial signaling proteins to phenotypes using coevolutionary landscapes Ryan R. Cheng|Olle Nordesjo|Ryan L. Hayes|Herbert Levine|Samuel C. Flores|Jose N. Onuchic|Faruck Morcos Rice University;|Uppsala University;|University of Michigan;|University of Texas at Dallas
http://dx.doi.org/10.1101/044644 2016-03-18 Cancer Biology CC BY-NC-ND Abrupt transitions to tumor extinction: A quasispecies phenotypic model Josep Sardanyes|Regina Martinez|Carles Simo|Ricard Sole Universitat Pompeu Fabra;|Universitat Autonoma de Barcelona;|Universitat de Barcelona
http://dx.doi.org/10.1101/044677 2016-03-18 Bioinformatics CC BY-NC-ND ACE: adaptive cluster expansion for maximum entropy graphical model inference John P Barton|Eleonora De Leonardis|Alice Coucke|Simona Cocco Massachusetts Institute of Technology and Harvard;|LPS, Ecole Normale Superieure, Paris,FR;|LPT,Ecole Normale Superieure, Paris, FR;|ENS
http://dx.doi.org/10.1101/044396 2016-03-18 Molecular Biology Gene Transfer to the Outflow Tract Yalong Dang|Ralitsa Loewen|Hardik Parikh|Pritha Roy|Nils Loewen University of Pittsburgh
http://dx.doi.org/10.1101/044503 2016-03-18 Physiology Quantification of Focal Outflow Enhancement using Differential Canalograms Ralitsa T. Loewen|Eric N. Brown|Gordon Scott|Hardik Parikh|Joel S. Schuman|Nils A Loewen University of Pittsburgh School of Medicine;|Vanderbilt University School of Medicine, Nashville, TN;|School of Medicine, Rutgers State University of New Jersey, New Brunswick, NJ;|University of Pittsburgh
http://dx.doi.org/10.1101/044487 2016-03-18 Physiology Differential Canalograms Detect Outflow Changes from Trabecular Micro-Bypass Stents and Ab Interno Trabeculectomy Hardik A Parikh|Ralitsa T. Loewen|Pritha Roy|Joel S. Schuman|Kira L. Lathrop|Nils A Loewen University of Pittsburgh School of Medicine;|New York University School of Medicine;|University of Pittsburgh
http://dx.doi.org/10.1101/044461 2016-03-18 Ecology Contrasting avoidance - tolerance in heat stress response from thermally contrasting climates in Arabidopsis thaliana Nana Zhang|Philip Carlucci|Joshua Nguyen|Jai-W Hayes-Jackson|Stephen Tonsor University of Pittsburgh;|Carnegie Museum of Natural History
http://dx.doi.org/10.1101/044495 2016-03-18 Ecology CC BY-ND Novel Covariance-Based Neutrality Test of Time-Series Data Reveals Asymmetries in Ecological and Economic Systems Alex Washburne|Daniel Lacker|Josh Burby Duke University;|Brown University;|Princeton University
http://dx.doi.org/10.1101/044446 2016-03-18 Evolutionary Biology Adaptive divergence in transcriptome response to heat and acclimation in Arabidopsis thaliana plants from contrasting climates. Nana Zhang|Elizabeth Vierling|Stephen Tonsor University of Pittsburgh;|University of Massachusetts;|Carnegie Museum of Natural History
http://dx.doi.org/10.1101/044289 2016-03-18 Bioinformatics CC BY A Structural and Functional View of Polypharmacology Aurelio Moya Garcia|Natalie L Dawson|Felix A Kruger|John Overington|Christine Orengo|Juan Antonio Garcia Ranea University College London;|UCL Farr Institute;|Stratified Medical;|Universidad de Malaga
http://dx.doi.org/10.1101/044438 2016-03-18 Neuroscience CC BY-NC-ND Mechanisms for action prediction operate differently in observers with motor experience Lincoln John Colling|William F Thompson|John Sutton University of Cambridge;|Macquarie University
http://dx.doi.org/10.1101/044420 2016-03-17 Cell Biology Unusual intragenic suppression of an IFT52 gene disruption links hypoxia to the intraflagellar transport in Tetrahymena thermophila. Drashti Dave|Gautham Pandiyan|Dorota Wloga|Jacek Gaertig University of Georgia
http://dx.doi.org/10.1101/044230 2016-03-17 Biophysics CC BY-NC-ND Experimental tests of the quantum property of protein folding Liaofu Luo Inner Mongolia University
http://dx.doi.org/10.1101/043885 2016-03-17 Ecology Devil in the details: growth, productivity, and extinction risk of a data-sparse devil ray Sebastian A. Pardo|Holly K. Kindsvater|Elizabeth Cuevas-Zimbron|Oscar Sosa-Nishizaki|Juan Carlos Perez-Jimenez|Nicholas K. Dulvy Earth to Ocean Research Group, Biological Sciences, Simon Fraser University;|Boulevard Chahue #66 Mz 6, Sector R, La Crucecita, Bahías de Huatulco, Oaxaca;|Laboratorio de Ecología Pesquera, Depto de Oceanografía Biológica, CICESE;|Ciencias de la Sustentabilidad, El Colegio de la Frontera Sur
http://dx.doi.org/10.1101/044073 2016-03-17 Genomics Genomic data reveal similar genetic differentiation between invertebrates living under and on a riverine floodplain Steve Jordan|Amanda DelVecchia|Brian K Hand|Laney Hayssen|Clark Nissley|Gordon Luikart|Jack Stanford Bucknell University;|University of Montana;|University of Delaware
http://dx.doi.org/10.1101/044305 2016-03-17 Ecology CC BY Estimating dispersal kernels using genetic parentage data Michael Bode|Nick Outram|Geoffrey P Jones University of Melbourne;|University of Queensland;|James Cook University
http://dx.doi.org/10.1101/039560 2016-03-17 Evolutionary Biology CC BY-NC Evolution of HIV virulence in response to widespread scale up of antiretroviral therapy: a modeling study Joshua Herbeck|John Mittler|Geoffrey Gottlieb|Steve Goodreau|James Murphy|Anne Cori|Michael Pickles|Christophe Fraser University of Washington;|Imperial College London
http://dx.doi.org/10.1101/044453 2016-03-17 Genomics CC BY-NC-ND Evaluation of a Computational Diagnostic for Epistasis in Plant Breeding Populations Reka Howard|William D Beavis|Alicia Carriquiry Iowa State University, United States
http://dx.doi.org/10.1101/044354 2016-03-17 Evolutionary Biology CC BY-NC-ND Genomic and Metagenomic Analyses Reveal Parallel Ecological Divergence in Heliosperma pusillum (Caryophyllaceae) Emiliano Trucchi|Bozo Frajman|Thomas Haverkamp|Peter Schoenswetter|Ovidiu Paun University of Vienna;|University of Innsbruck;|University of Oslo
http://dx.doi.org/10.1101/044362 2016-03-17 Evolutionary Biology CC BY-ND Cis-regulatory evolution in prokaryotes revealed by interspecific archaeal hybrids. Carlo Artieri|Adit Naor|Israela Turgeman-Grott|Yiqi Zhou|Ryan York|Uri Gophna|Hunter Fraser Stanford;|Tel Aviv University
http://dx.doi.org/10.1101/044123 2016-03-17 Genomics CC BY-NC Three distinct velocities of elongating RNA polymerase define exons and introns Qianqian Ye|Yoon Jung Kim|Hongyu Zhao|Tae Hoon Kim Yale University;|The University of Texas at Dallas
http://dx.doi.org/10.1101/030254 2016-03-17 Bioinformatics CC BY MetaR: simple, high-level languages for data analysis with the R ecosystem Fabien Campagne|William ER Digan|Manuele Simi Weill Cornell Medical College
http://dx.doi.org/10.1101/033175 2016-03-17 Genetics The role of deleterious substitutions in crop genomes Thomas J Y Kono|Fengli Fu|Mohsen Mohammadi|Paul J Hoffman|Chaochih Liu|Robert M Stupar|Kevin P Smith|Peter Tiffin|Justin C Fay|Peter L Morrell Department of Agronomy & Plant Genetics, University of Minnesota;|Department of Agronomy & Plant Genetics, University of Minnesota; Department of Agronomy, Purdue;|Department of Plant Biology, University of Minnesota;|Department of Genetics, Washington University;|Department of Agronomy & Plant Genetics
http://dx.doi.org/10.1101/044180 2016-03-17 Animal Behavior and Cognition CC BY-NC Pro-Social Behavior In Rats Requires An Affective Motivation Inbal Ben-Ami Bartal|Haozhe Shan|Nora Molasky|Teresa Murray|Jasper Williams|Jean Decety|Peggy Mason University of Chicago;|Pritzker Medical School
http://dx.doi.org/10.1101/043372 2016-03-17 Ecology Relic DNA is abundant in soil and obscures estimates of soil microbial diversity Paul Carini|Patrick J Marsden|Jonathan W Leff|Emily E Morgan|Michael S Strickland|Noah Fierer University of Colorado Boulder;|Metropolitan State University of Denver;|Virginia Tech University
http://dx.doi.org/10.1101/036277 2016-03-17 Neuroscience Evidence for a probabilistic, brain-distributed, recursive mechanism for decision-making Javier A Caballero|Mark D Humphries|Kevin N Gurney University of Manchester;|The University of Sheffield
http://dx.doi.org/10.1101/044198 2016-03-16 Neuroscience Language deficits in schizophrenia and autism as related oscillatory connectomopathies: an evolutionary account Elliot Murphy|Antonio Benitez-Burraco University College London;|University of Huelva
http://dx.doi.org/10.1101/044214 2016-03-16 Bioinformatics CC BY-NC iFORM: incorporating Find Occurrence of Regulatory Motifs Chao Ren|Hebing Chen|Feng Liu|Hao Li|Xiaochen Bo|Wenjie Shu Beijing Institute of Radiation Medicine
http://dx.doi.org/10.1101/044206 2016-03-16 Bioinformatics CC BY-NC-ND mixMC: a multivariate statistical framework to gain insight into Microbial Communities Kim-Anh Le Cao|Mary-Ellen Costello|Vanessa Anne Lakis|Francois Bartolo|Xin-Yi Chua|Remi Brazeilles|Pascale Rondeau University of Queensland;|Queensland University of Technology;|Universite de Toulouse;|QFAB Bioinformatics University of Queensland;|Danone Nutricia Research
http://dx.doi.org/10.1101/043802 2016-03-16 Bioinformatics CC BY-NC-ND Strawberry: fast and accurate genome-guided transcript reconstruction and quantification from RNA-seq Ruolin Liu|Julie Dickerson Iowa State University
http://dx.doi.org/10.1101/043844 2016-03-16 Bioinformatics Hierarchical Association Coefficient Algorithm Bongsong Kim Iowa State University
http://dx.doi.org/10.1101/035873 2016-03-16 Bioinformatics CC BY-ND Efficient detection of repeating sites to accelerate phylogenetic likelihood calculations Kassian Kobert|Alexandros Stamatakis|Tomas Flouri Heidelberg Institute for Theoretical Studies gGmbH (HITS);|HITS gGmbH;|Heidelberg Institute for Theoretical Studies
http://dx.doi.org/10.1101/044149 2016-03-16 Developmental Biology CC BY-NC-ND Evolution of gene regulatory network topology and dorsal-ventral axis specification in early development of sea urchins (Echinoidea) Eric M Erkenbrack Yale University
http://dx.doi.org/10.1101/044081 2016-03-16 Ecology CC BY-NC-ND Correlation/causation in ecology: towards mechanistic explanations for the Species-Area Relationship Andersonn Prestes University of Hawaii
http://dx.doi.org/10.1101/044107 2016-03-16 Genomics CC BY-ND LeafCutter: Annotation-free quantification of RNA splicing Yang I Li|David A Knowles|Jonathan K Pritchard Stanford University
http://dx.doi.org/10.1101/044099 2016-03-16 Bioinformatics CC BY-NC Improved Placement of Multi-Mapping Small RNAs Nathan R Johnson|Jonathan M Yeoh|Ceyda Coruh|Michael J Axtell Penn State University;|Knox College
http://dx.doi.org/10.1101/044131 2016-03-16 Systems Biology CC BY-NC-ND Hybrid systems approach to modeling stochastic dynamics of cell size Cesar Augusto Vargas-Garcia|Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/044065 2016-03-16 Neuroscience CC BY-NC-ND The Deceptively Simple N170 Reflects Network Information Processing Mechanisms Involving Visual Feature Coding and Transfer Across Hemispheres Robin A. A. Ince|Kasia Jaworska|Joachim Gross|Stefano Panzeri|Nicola J. van Rijsbergen|Guillaume A. Rousselet|Philippe G. Schyns University of Glasgow;|Istituto Italiano di Tecnologia
http://dx.doi.org/10.1101/043745 2016-03-16 Neuroscience CC BY-NC-ND A statistical framework for neuroimaging data analysis based on mutual information estimated via a Gaussian copula Robin A. A. Ince|Bruno L. Giordano|Christoph Kayser|Guillaume A. Rousselet|Joachim Gross|Philippe G. Schyns University of Glasgow;|University of Glasogw
http://dx.doi.org/10.1101/043976 2016-03-16 Neuroscience Macroscopic coherent structures in a stochastic neural network: from interface dynamics to coarse-grained bifurcation analysis Daniele Avitabile|Kyle C. A. Wedgwood University of Nottingham;|University of Exeter
http://dx.doi.org/10.1101/043950 2016-03-16 Neuroscience CC BY-NC-ND The aptabot: an inducibly affinity-switching, minimally invasive in vivo contrast agent Elleard Heffern|Jason Fuller|Russell Hanson Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/043935 2016-03-16 Molecular Biology CC BY-NC-ND Nol12 is a multifunctional endonuclease at the nexus of RNA and DNA metabolism Daniel D Scott|Christian Trahan|Pierre-Joachim Zindy|Lisbeth-Carolina Aguilar|Marc Delubac|Karen E Wei|Marlene Oeffinger IRCM
http://dx.doi.org/10.1101/043893 2016-03-16 Biochemistry CC BY-NC-ND REVIEW AND ANALYSIS OF MERCURY LEVELS IN BLUE MARLIN (Makaira nigricans, Lacepede 1802) AND SWORDFISH (Xiphias gladius, Linnaeus 1758) Tiago Rodrigues|Alberto Ferreira Amorim Instituto de Pesca
http://dx.doi.org/10.1101/043786 2016-03-16 Neuroscience CC BY-NC-ND Object-finding skill created by repeated reward experience Ali Ghazizadeh|Whitney Griggs|Okihide Hikosaka Laboratory of Sensorimotor Research, NEI, NIH
http://dx.doi.org/10.1101/044016 2016-03-16 Evolutionary Biology The role of transposable elements for gene expression in Capsella hybrids and allopolyploids Kim Steige|Johan Reimegard|Carolin A Rebernig|Claudia Kohler|Douglas G Scofield|Tanja Slotte Stockholm University;|Uppsala University;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/044008 2016-03-16 Ecology CC BY Effect of stand characteristics on tree species richness in and around a conservation area of Bangladesh Muha Abdullah Al Abdullah Pavel|Sharif A. Mukul|Mohammad Belal Uddin|Kazuhiro Harada|Mohammed Abu Sayed Arfin Khan University of Padova;|The University of Queensland;|Shahjalal University of Science and Technology;|Nagoya University
http://dx.doi.org/10.1101/044024 2016-03-16 Genetics CC BY Implementing rapid, robust, cost-effective, patient-centred, routine genetic testing in ovarian cancer patients Angela George|Daniel Riddell|Sheila Seal|Sabrina Talukdar|Shazia Mahamdallie|Elise Ruark|Victoria Cloke|Ingrid Slade|Zoe Kemp|Martin Gore|Ann Strydom|Susana Banerjee|Helen Hanson|Nazneen Rahman The Institute of Cancer Research;|Oxford University NHS Hospital Trust;|The Royal Marsden NHS Foundation Trust
http://dx.doi.org/10.1101/044032 2016-03-16 Microbiology CC BY-NC-ND THE PATTERN OF BACTERIA AND ITS RESISTANCE ON ADULT SEPSIS PATIENT AT Dr. MOEWARDI GENERAL HOSPITAL, INDONESIA Andika Dwi Mahendra|M Kuswandi Tirtodiharjo|Ika Trisharyanti D Kusuma Muhammadiyah University of Surakarta;|GadjahMada University
http://dx.doi.org/10.1101/043919 2016-03-16 Ecology CC BY Climatic warming strengthens a positive feedback between alpine shrubs and fire James S Camac|Richard J Williams|Carl-Henrik Wahren|Ary A Hoffmann|Peter A Vesk Macquarie University;|CSIRO;|La Trobe University;|The University of Melbourne
http://dx.doi.org/10.1101/043927 2016-03-16 Cancer Biology The Cancer Epitope Trees of 23 Early Cervical Cancers in Chinese Women Xia Li|Hailiang Huang|Yanfang Guang|Yuhua Gong|Chen-Yi He|Xin Yi|Zhi-Ying Chen Laboratory for Gene and Cell Engineering, Shenzhen Institute of Advanced Technology, Chinese Academy;|Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA;|BGI-Shenzhen
http://dx.doi.org/10.1101/043877 2016-03-16 Evolutionary Biology CC BY-NC-ND Transcriptome remodeling contributes to epidemic disease caused by the human pathogen Streptococcus pyogenes Stephen Beres|Priyanka Kachroo|Waleed Nasser|Randall Olsen|Luchang Zhu|Anthony Flores|Ivan de la Riva|Jesus Paez-Mayorga|Francisco Jimenez|Concepcion Cantu|Jaana Vuopio|Jari Jalava|Karl Kristinsson|Magnus Gottfredsson|Jukka Corander|Nahuel Fittipaldi|Maria Chiara Di Luca|Dezemona Petrelli|Luca Vitali|Annessa Raiford|Leslie Jenkins|James Musser Houston Methodist Research Institute;|Houston Methodist Research Instititue;|Texas Childrens Hospital;|University of Turku;|National Institute for Health and Welfare;|Landspitali University Hospital;|University of Helsinki;|Public Health Ontario;|University of Camerino
http://dx.doi.org/10.1101/033738 2016-03-16 Microbiology CC BY-NC A new Defective Helper RNA to produce Sindbis virus that infects neurons but does not propagate Justus M Kebschull|Pedro Garcia da Silva|Anthony M Zador CSHL
http://dx.doi.org/10.1101/030205 2016-03-16 Evolutionary Biology Age-related and heteroplasmy-related variation in human mtDNA copy number Manja Wachsmuth|Alexander Huebner|Mingkun Li|Burkhard Madea|Mark Stoneking Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany;|Fondation Merieux, Lyon, France;|Universitaetsklinikum Bonn, Germany
http://dx.doi.org/10.1101/042192 2016-03-16 Evolutionary Biology CC BY-NC-ND Assortative mating can impede or facilitate fixation of underdominant alleles Mitchell Newberry|David McCandlish|Joshua B Plotkin University of Pennsylvania;|The University of Pennsylvania
http://dx.doi.org/10.1101/043778 2016-03-15 Neuroscience CC BY Local Connectome Fingerprinting Reveals the Uniqueness of Individual White Matter Architecture Fang-Cheng Yeh|Jean Vettel|Aarti Singh|Barnabas Poczos|Scott Grafton|Kirk Erickson|Wen-Yih Tseng|Timothy Verstynen Department of Psychology and Center for the Neural Basis of Cognition, Carnegie Mellon University;|U.S. Army Research Laboratory, Aberdeen Proving Ground, Aberdeen, Maryland, USA;|Department of Machine Learning, Carnegie Mellon University, Pennsylvania, USA;|Department of Machine Learning, Carnegie Mellon University, Pennsylvania, USA.;|Department of Psychological and Brain Sciences, University of California, Santa Barbara, Santa Barba;|Department of Psychology, University of Pittsburgh, Pittsburgh, Pennsylvania USA;|Institute of Medical Device and Imaging and Molecular Imaging Center, National Taiwan University
http://dx.doi.org/10.1101/043752 2016-03-15 Genetics CC BY Genetic predictors of gene expression associated with risk of bipolar disorder Kaanan Shah|Heather E Wheeler|Eric R Gamazon|Dan L Nicolae|Nancy J Cox|Hae Kyung Im The University of Chicago;|Loyola University Chicago;|Vanderbilt University
http://dx.doi.org/10.1101/043828 2016-03-15 Genetics CC BY-NC A mus-51 RIP allele for transformation of Neurospora crassa Zachary J Smith|Stacy Bedore|Stephanie Spingler|Thomas M Hammond Illinois State University
http://dx.doi.org/10.1101/043869 2016-03-15 Plant Biology CC BY-NC Left-right leaf asymmetry in decussate and distichous phyllotactic systems Ciera C Martinez|Daniel H Chitwood|Richard S Smith|Neelima R Sinha University Of California, Berkeley;|Donald Danforth Plant Science Center;|Max Planck Institute for Plant Breeding Research;|University of California, Davis
http://dx.doi.org/10.1101/042952 2016-03-15 Genomics CC BY-NC-ND Topologically associated domains are ancient features that coincide with Metazoan clusters of extreme noncoding conservation Nathan Harmston|Elizabeth Ing-Simmons|Ge Tan|Malcolm Perry|Matthias Merkenschlager|Boris Lenhard Duke-NUS;|MRC CSC
http://dx.doi.org/10.1101/043901 2016-03-15 Neuroscience CC BY-NC-ND Transdermal electrical neuromodulation of the trigeminal sensory nuclear complex improves sleep quality and mood. Alyssa M. Boasso|Hailey Mortimore|Rhonda Silva|Linh Aven|William J. Tyler Thync, Inc.
http://dx.doi.org/10.1101/043836 2016-03-15 Cell Biology CC BY-NC-ND Local RhoA Activation Induces Cytokinetic Furrows Independent of Spindle Position and Cell Cycle Stage Elizabeth Wagner|Michael Glotzer The University of Chicago
http://dx.doi.org/10.1101/043729 2016-03-15 Paleontology Common species link global ecosystems to climate change Bjarte Hannisdal|Kristian A. Haaga|Trond Reitan|David Diego|Lee Hsiang Liow University of Bergen;|University of Oslo
http://dx.doi.org/10.1101/043711 2016-03-15 Neuroscience A proposed rule for updating of the head direction cell reference frame following rotations in three dimensions Jonathan Wilson|Hector Page|Kate Jeffery University of Cambridge;|University College London
http://dx.doi.org/10.1101/043695 2016-03-15 Genetics CC BY-ND Tissue culture as a source of replicates in non-model plants: variation in cold tolerance in Arabidopsis lyrata ssp. petraea Tanaka Kenta|Jessica Edwards|Roger K Butlin|Terry Burke|Paul Quick|Peter Urwin|Matthew P. Davey Department of Animal & Plant Sciences, University of Sheffield, United Kingdom;|Anston Greenlands Primary School, United Kingdom;|University of Sheffield, United Kingdom;|Centre for Plant Sciences, Institute of Integrative and Comparative Biology, University of Leeds, United Kingdom
http://dx.doi.org/10.1101/043570 2016-03-15 Bioinformatics CC BY-NC-ND Synlet: an R package for systemically analyzing synthetic lethal RNA interference screen data Chunxuan Shao|Frank Westermann|Thomas Hofer German Cancer Research Center
http://dx.doi.org/10.1101/043679 2016-03-15 Bioinformatics Prediction of kinase-specific phosphorylation sites through an integrative model of protein context and sequence Ralph Patrick|Coralie Horin|Bostjan Kobe|Kim-Anh Le Cao|Mikael Boden University of Queensland;|Universitè Nice Sophia-Antipolis
http://dx.doi.org/10.1101/043851 2016-03-15 Developmental Biology CC BY-NC Trophoblast survival signaling during human placentation requires HIF-induced transcription of HSP70 Chandni V Jain|Philip Jessmon|Charbel T Barrak|Alan D Bolnick|Brian A Kilburn|Michael Hertz|D. Randall Armant Wayne State University
http://dx.doi.org/10.1101/017491 2016-03-15 Genetics CC BY A Two-State Epistasis Model Reduces Missing Heritability of Complex Traits Kerry L Bubb|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/024620 2016-03-15 Genomics CC BY-NC Formation of Chromosomal Domains by Loop Extrusion Geoffrey Fudenberg|Maxim Imakaev|Carolyn Lu|Anton Goloborodko|Nezar Abdennur|Leonid A Mirny MIT
http://dx.doi.org/10.1101/043653 2016-03-15 Genomics CC BY Survey of the Heritability and Sparsity of Gene Expression Traits Across Human Tissues Heather E Wheeler|Kaanan P Shah|Jonathon Brenner|Tzintzuni Garcia|Keston Aquino-Michaels|Nancy J Cox|Dan L Nicolae|Hae Kyung Im Loyola University Chicago;|The University of Chicago;|Vanderbilt University
http://dx.doi.org/10.1101/043687 2016-03-15 Genetics CC BY-NC The many evolutionary fates of a large segmental duplication in mouse Andrew Parker Morgan|James Matthew Holt|Rachel Clara McMullan|Timothy A Bell|Amelia Mary-Frances Clayshulte|John Paul Didion|Liran Yadgary|David Thybert|Duncan T Odom|Paul Flicek|Leonard McMillan|Fernando Pardo-Manuel de Villena University of North Carolina;|EMBL-EBI;|University of Cambridge;|EMBL-EBI/Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/043810 2016-03-15 Bioinformatics CC BY-NC-ND Finding De novo methylated DNA motifs Vu Ngo|Wei Wang University of California, San Diego
http://dx.doi.org/10.1101/043794 2016-03-15 Bioinformatics CC BY-NC-ND Modeling methyl-sensitive transcription factor motifs with an expanded epigenetic alphabet Coby Viner|James Johnson|Nicolas Walker|Hui Shi|Marcela Sjoberg|David J. Adams|Anne C. Ferguson-Smith|Timothy L. Bailey|Michael M. Hoffman Department of Computer Science, University of Toronto, Toronto, ON, Canada;|Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, Australia;|Department of Genetics, University of Cambridge, Cambridge, England;|Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge, England;|Princess Margaret Cancer Centre, Toronto, ON, Canada
http://dx.doi.org/10.1101/043513 2016-03-15 Bioinformatics RNA-seq based analysis of population structure within the maize inbred B73 Zhikai Liang|James C Schnable University of Nebraska-Lincoln
http://dx.doi.org/10.1101/043562 2016-03-15 Genomics CC BY-NC-ND Complex ancient genetic structure and cultural transitions in southern African populations. Francesco Montinaro|George Busby|Miguel Gonzalez-Santos|Ockie Oosthuitzen|Erika Oosthutizen|Paolo Anagnostou|Giovanni Destro-Bisol|Vincenzo Pascali|Cristian Capelli Department of Zoology,University of Oxford, South Parks Road, Oxford,OX1 3PS, UK;|Wellcome Trust Centre for Human Genetics, Oxford, OX3 7BN, UK;|School of Medicine, University of Namibia, Windhoek, Namibia;|Dipartimento di Biologia Ambientale, Universita La Sapienza, Rome, Italy;|Institute of Public Health, Catholic University, largo Francesco Vito 1 00168 Roma
http://dx.doi.org/10.1101/042937 2016-03-15 Genomics CC BY-NC-ND Hierarchical cortical transcriptome disorganization in autism Michael V. Lombardo|Eric Courchesne|Tiziano Pramparo University of Cyprus;|University of California, San Diego
http://dx.doi.org/10.1101/043638 2016-03-15 Evolutionary Biology CC BY-NC-ND Royal decree: gene expression in transgenerationally immune primed bumblebee workers mimics a primary immune response Seth M Barribeau|Paul Schmid-Hempel|Ben M Sadd ETH Zurich, East Carolina University;|ETH Zurich;|Illinois State University
http://dx.doi.org/10.1101/043737 2016-03-15 Bioinformatics A little walk from physical to biological complexity: protein folding and stability Fabrizio Pucci|Marianne Rooman Université Libre de Bruxelles, Belgium
http://dx.doi.org/10.1101/043661 2016-03-15 Bioinformatics Pathway-Structured Predictive Model for Cancer Survival Prediction: A Two-Stage Approach Xinyan Zhang|Yan Li|Tomi Akinyemiju|Akinyemi Ojesina|Phillip Buckhaults|Nianjun Liu|Bo Xu|Nengjun Yi UAB, United States;|The University of South Carolina, United States;|Southern Research Institute, United States
http://dx.doi.org/10.1101/043547 2016-03-15 Neuroscience Bridging the gap between genes and language deficits in schizophrenia: an oscillopathic approach Elliot Murphy|Antonio Benitez-Burraco University College London;|University of Huelva
http://dx.doi.org/10.1101/043554 2016-03-15 Neuroscience Using reciprocity for relating the simulation of transcranial current stimulation to the EEG forward problem Sven Wagner|Felix Lucka|Johannes Vorwerk|Christoph Herrmann|Guido Nolte|Martin Burger|Carsten H. Wolters Institute for Biomagnetism and Biosignalanalysis, University of Muenster, Muenster, Germany;|Experimental Psychology Lab, University of Oldenburg, Oldenburg, Germany;|Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf;|Institute for Computational and Applied Mathematics, University of Muenster, Muenster, Germany;|Institute for Biomagnetism and Biosignalanalysis
http://dx.doi.org/10.1101/043620 2016-03-15 Cancer Biology CC BY-NC-ND Hybrid Discrete-Continuum Cellular Automaton (HCA) model of Prostate to Bone Metastasis Arturo Araujo|David Bastanta Moffitt Cancer Center
http://dx.doi.org/10.1101/043471 2016-03-14 Molecular Biology CC BY-NC-ND KlebSeq: A Diagnostic Tool for Healthcare Surveillance and Antimicrobial Resistance Monitoring of Klebsiella pneumoniae Jolene R Bowers|Darrin Lemmer|Jason W Sahl|Talima Pearson|Elizabeth M Driebe|David M Engelthaler|Paul Keim Translational Genomics Research Institute;|Translation Genomics Research Institute;|Northern Arizona University
http://dx.doi.org/10.1101/043042 2016-03-13 Genomics CC BY Exploratory analysis and error modeling of a sequencing technology Michael Inouye|Kerrin S Small|Yik Y Teo|Heng Li|Nava Whiteford|Tom Skelly|Irina Abnizova|Daniel J Turner|Panos Deloukas|Dominic P Kwiatkowski|Clive G Brown|Taane G Clark Wellcome Trust Sanger Institute;|Wellcome Trust Centre for Human Genetics, University of Oxford;|Wellcome Trust Sanger Institute & Wellcome Trust Centre for Human Genetics
http://dx.doi.org/10.1101/042986 2016-03-13 Bioinformatics Highly accessible AU-rich regions in 3′ untranslated regions are hotspots for binding of proteins and miRNAs Mireya Plass|Simon H Rasmussen|Anders Krogh Department of Biology, University of Copenhagen
http://dx.doi.org/10.1101/043463 2016-03-12 Genomics FastProject: A Tool for Low-Dimensional Analysis of Single-Cell RNA-Seq Data David DeTomaso|Nir Yosef University of California, Berkeley
http://dx.doi.org/10.1101/043455 2016-03-12 Evolutionary Biology CC BY-NC-ND Most Compositae are descendants of a paleohexaploid and all share a paleotetraploid ancestor with the Calyceraceae Michael Barker|Zheng Li|Thomas Kidder|Chris Reardon|Zhao Lai|Luiz Oliveira|Moira Scascitelli|Loren Rieseberg University of Arizona;|Indiana University;|Universidade Federal de Viçosa;|University of British Columbia
http://dx.doi.org/10.1101/043398 2016-03-12 Evolutionary Biology CC BY-NC Can secondary contact following range expansion be distinguished from barriers to gene flow? Johanna Bertl|Michael G. B. Blum Aarhus University;|Université Grenoble Alpes
http://dx.doi.org/10.1101/043422 2016-03-12 Genetics CC BY-NC-ND Assessment of functional convergence across study designs in autism Sara Ballouz|Jesse Gillis Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/043414 2016-03-12 Genomics CC BY-NC-ND Genome-wide association between transcription factor expression and chromatin accessibility reveals chromatin state regulators David Felix Lamparter|Daniel Marbach|Rico Rueedi|Sven Bergmann|Zoltan Kutalik CBG, University of Lausanne;|IUMSP, CHUV, Lausanne
http://dx.doi.org/10.1101/043075 2016-03-12 Neuroscience CC BY-NC-ND Neural Pattern Change During Encoding of a Narrative Predicts Retrospective Duration Estimates Olga Lositsky|Janice Chen|Daniel Toker|Christopher J Honey|Jordan L Poppenk|Uri Hasson|Kenneth A Norman Princeton University;|University of California Berkeley;|University of Toronto;|Queen's University
http://dx.doi.org/10.1101/043315 2016-03-12 Bioinformatics CC BY From genomes to phenotypes: Traitar, the microbial trait analyzer Aaron Weimann|Jeremy Frank|Phillip B Pope|Andreas Bremges|Alice C McHardy Helmholtz Centre for Infection Research;|Norwegian University of Life Sciences
http://dx.doi.org/10.1101/043448 2016-03-12 Bioinformatics CC BY PCR-free library preparation greatly reduces stutter noise at short tandem repeats Melissa Gymrek Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/022939 2016-03-12 Evolutionary Biology CC BY-NC-ND Transcriptomes of plant gametophytes have a higher proportion of rapidly evolving and young genes than sporophytes Toni I Gossmann|Dounia Saleh|Marc W Schmid|Michael A Spence|Karl J Schmid University of Sheffield;|University of Hohenheim;|University of Zurich
http://dx.doi.org/10.1101/043331 2016-03-12 Ecology CC BY-NC-ND Demographic stochasticity and resource autocorrelation control biological invasions in heterogeneous landscapes Andrea Giometto|Florian Altermatt|Andrea Rinaldo EPFL and Eawag;|Eawag and University of Zurich;|EPFL and University of Padova
http://dx.doi.org/10.1101/043240 2016-03-12 Genomics Whole-genome characterization in pedigreed non-human primates using Genotyping-By-Sequencing and imputation. Ben N Bimber|Michael J Raboin|John Letaw|Kimberly Nevonen|Jennifer E Spindel|Susan McCouch|Rita Cervera-Juanes|Eliot Spindel|Lucia Carbone|Betsy Ferguson|Amanda Vinson Oregon National Primate Research Center/Oregon Health & Science University;|Cornell University
http://dx.doi.org/10.1101/043190 2016-03-12 Genetics CC BY-NC Beyond clines: lineages and haplotype blocks in hybrid zones Alisa Sedghifar|Yaniv Brandvain|Peter Ralph Princeton University;|University of Minnesota;|University of Southern California
http://dx.doi.org/10.1101/043257 2016-03-11 Systems Biology CC BY-NC-ND Multivariate information maximization yields hierarchies of expression components in tumors that are both biologically meaningful and prognostic Shirley Pepke|Greg Ver Steeg Lyrid LLC;|University of Southern California
http://dx.doi.org/10.1101/043307 2016-03-11 Cell Biology CC BY-NC-ND ALADIN is Required for the Production of Fertile Mouse Oocytes. Sara Carvalhal|Michelle Stevense|Katrin Koehler|Ronald Naumann|Angela Huebner|Rolf Jessberger|Eric Griffis University of Dundee;|Dresden Technical University;|MPI-CBG
http://dx.doi.org/10.1101/043281 2016-03-11 Neuroscience Cerebrospinal Fluid and Interstitial Fluid Motion via the Glymphatic Pathway Modelled by Optimal Mass Transport Vadim Ratner|Yi Gao|Hedok Lee|Maikan Nedergaard|Helene Benveniste|Allen R Tannenbaum Stony Brook Univesity;|Stony Brook University;|University of Rochester;|Stony Brook UNiversity
http://dx.doi.org/10.1101/010934 2016-03-11 Genetics When is selection effective? Simon Gravel McGill
http://dx.doi.org/10.1101/043299 2016-03-11 Evolutionary Biology CC BY Replicator Dynamics with Feedback-Evolving Games: Towards a Co-Evolutionary Game Theory Joshua S Weitz|Sam P Brown|Ceyhun Eksin|Keith Paarporn|William C Ratcliff Georgia Institute of Technology
http://dx.doi.org/10.1101/043273 2016-03-11 Neuroscience CC BY Understanding melanopsin using bayesian generative models − an Introduction Benedikt V Ehinger|Dennis Eickelbeck|Katharina Spoida|Stefan Herlitze|Peter Konig Institute of Cognitive Science, University of Osnabrück;|Department of General Zoology and Neurobiology, Ruhr-University Bochum
http://dx.doi.org/10.1101/043349 2016-03-11 Systems Biology Nature lessons: the whitefly bacterial endosymbiont is a minimal amino acid factory with unusual energetics Jorge Calle-Espinosa|Miguel Ponce-de-Leon|Diego Santos-Garcia|Francisco J. Silva|Francisco Montero|Juli Pereto Faculty of Chemistry, Complutense University of Madrid;|Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de Valencia
http://dx.doi.org/10.1101/042580 2016-03-11 Bioinformatics Combining multiple tools outperforms individual methods in gene set enrichment analyses Monther Alhamdoosh|Milica Ng|Nicholas J. Wilson|Julie M. Sheridan|Huy Huynh|Michael J. Wilson|Matthew E. Ritchie CSL Limited;|Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/043364 2016-03-11 Biophysics CC BY-NC-ND Structural basis for acyl group discrimination by human Gcn5L2 Alison E. Ringel|Cynthia Wolberger Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/043208 2016-03-11 Ecology Metabolic adaptations underlie life-history evolution in a range expanding arthropod Katrien Hilde Petra Van Petegem|David Renault|Robby Stoks|Dries Bonte Ghent University;|Universite de Rennes 1;|KU Leuven
http://dx.doi.org/10.1101/037234 2016-03-11 Neuroscience CC BY Intracranial Markers of Conscious Face Perception in Humans Fabiano Baroni|Jochem van Kempen|Hiroto Kawasaki|Christopher K. Kovach|Hiroyuki Oya|Matthew A. Howard|Ralph Adolphs|Naotsugu Tsuchiya Monash University;|Newcastle University;|University of Iowa;|California Institute of Technology
http://dx.doi.org/10.1101/043109 2016-03-10 Neuroscience CC BY-NC-ND Modeling of Large-Scale Functional Brain Networks Based on Structural Connectivity from DTI: Comparison with EEG Derived Phase Coupling Networks and Evaluation of Alternative Methods along the Modeling Path Holger Finger|Marlene Bonstrup|Bastian Cheng|Arnaud Messe|Claus Hilgetag|Gotz Thomalla|Christian Gerloff|Peter Konig University of Osnabrück;|University Medical Center Hamburg-Eppendorf;|University Osnabrück
http://dx.doi.org/10.1101/043133 2016-03-10 Cell Biology Septins are involved at the early stages of macroautophagy. Gaurav Barve|Shreyas Sridhar|Amol Aher|Sunaina Singh|Lakshmeesha K.N.|Ravi Manjithaya Jawaharlal Nehru Centre for Advanced Scientififc Research
http://dx.doi.org/10.1101/043117 2016-03-10 Genomics Nomadic Lifestyle of Lactobacillus plantarum Revealed by Comparative Genomics of 54 strains Isolated from Different Niches Maria Elena Martino|Jumamurat R. Bayjanov|Brian E. Caffrey|Michiel Wels|Pauline Joncour|Sandrine Hughes|Benjamin Gillet|Michiel Kleerebezem|Sacha A. F. T. van Hijum|Francois Leulier Institut de Genomique Fonctionnelle de Lyon;|2Center for Molecular and Biomolecular Informatics;|Max Planck Institute for Molecular Genetics;|NIZO food research;|Host Microbe Interactomics Group, Wageningen University;|Center for Molecular and Biomolecular Informatics, Nijmegen Center for Molecular Life Sciences
http://dx.doi.org/10.1101/042101 2016-03-10 Genetics Grand paternal inheritance of an acquired metabolic trait induced by ancestral obesity is associated with sperm RNA Jennifer E Cropley|Sally A Eaton|Alastair Aiken|Paul E Young|Eleni Giannoulatou|Joshua WK Ho|Michael E Buckland|Simon P Keam|Gyorgy Hutvagner|David T Humphreys|Katherine G Langley|Darren Henstridge|David Martin|Mark A Febbraio|Catherine M Suter Victor Chang Cardiac Research Insitute;|University of Sydney;|University of Technology Sydney;|Baker IDI;|CHORI;|Garvan Insitute
http://dx.doi.org/10.1101/043083 2016-03-10 Ecology The Effects of Evolution and Spatial Structure on Diversity in Biological Reserves Emily Louise Dolson|Michael J Wiser|Charles A Ofria Michigan State University
http://dx.doi.org/10.1101/043174 2016-03-10 Evolutionary Biology CC BY-NC-ND Genetics of cortico-cerebellar expansion in anthropoid primates: a comparative approach Peter W Harrison|Stephen H Montgomery Dept. Of Genetics, Evolution and Environment, University College London, London, UK, WC1E 6BT
http://dx.doi.org/10.1101/043166 2016-03-10 Genomics A method to exploit the structure of genetic ancestry space to enhance case-control studies Corneliu A Bodea|Benjamin M Neale|Stephan Ripke|Mark J Daly|Bernie Devlin|Kathryn Roeder Department of Statistics, Carnegie Mellon University;|Program in Medical and Population Genetics, Broad Institute of MIT and Harvard;|Analytical and Translational Genetics Unit, Department of Medicine, Massachusetts General Hospital;|Department of Psychiatry, University of Pittsburgh School of Medicine
http://dx.doi.org/10.1101/043091 2016-03-10 Evolutionary Biology CC BY-NC Antimicrobial functions of lactoferrin promote genetic conflicts in ancient primates and modern humans Matthew F. Barber|Zev N. Kronenberg|Mark Yandell|Nels C. Elde University of Utah
http://dx.doi.org/10.1101/043182 2016-03-10 Evolutionary Biology CC BY-NC-ND Adaptive divergence in brain composition between ecologically distinct incipient species Stephen H Montgomery|Richard M Merrill Dept. Genetics, Evolution & Environment, University College London, Gower Street, London, UK, WC1E 6;|Dept. Zoology, University of Cambridge, Downing Street, Cambridge, UK, CB2 3EJ
http://dx.doi.org/10.1101/034140 2016-03-10 Bioinformatics CC BY-ND CrispRVariants: precisely charting the mutation spectrum in genome engineering experiments Helen Lindsay|Alexa Burger|Berthin Biyong|Anastasia Felker|Christopher Hess|Jonas Zaugg|Elena Chiavacci|Carolin Anders|Martin Jinek|Christian Mosimann|Mark D Robinson University of Zurich;|University of Bern
http://dx.doi.org/10.1101/042705 2016-03-10 Microbiology CC BY Functional metagenomics using Pseudomonas putida expands the known diversity of polyhydroxyalkanoate synthases and enables the production of novel polyhydroxyalkanoate copolymers Jiujun Cheng|Trevor Charles University of Waterloo, Dept of Biology
http://dx.doi.org/10.1101/043000 2016-03-09 Genetics Molecular genetic contributions to social deprivation and household income in UK Biobank (n = 112,151) William David Hill|Saskia P Hagenaars|Riccardo E Marioni|Sarah E Harris|David CM Liewald|Gail Davies|Andrew M McIntosh|Catharine R Gale|Ian J Deary University of Edinburgh
http://dx.doi.org/10.1101/043034 2016-03-09 Molecular Biology Characterization of new RNA polymerase III and RNA polymerase II transcriptional promoters in the Bovine Leukemia Virus genome Benoit Van Driessche|Anthony Rodari|Nadege Delacourt|Sylvain Fauquenoy|Caroline Vanhulle|Arsene Burny|Olivier Rohr|Carine Van Lint Universite Libre de Bruxelles;|Universite de Strasbourg
http://dx.doi.org/10.1101/043026 2016-03-09 Evolutionary Biology Evolutionary consequences of DNA methylation in a basal metazoan Groves Dixon|Line K Bay|Mikhail V Matz University of Texas at Austin;|2Australian Institute of Marine Science
http://dx.doi.org/10.1101/042994 2016-03-09 Biophysics CC BY-NC-ND Active Microrheology of Intestinal Mucus in the Larval Zebrafish Michael J. Taormina|Raghuveer Parthasarathy The University of Oregon
http://dx.doi.org/10.1101/040311 2016-03-09 Evolutionary Biology CC BY Macroevolutionary trade-offs in plant-feeding insects Daniel Peterson|Nate B. Hardy|Benjamin B. Normark University of Massachusetts - Amherst;|Department of Entomology & Plant Pathology, Auburn University;|Deparment of Biology, University of Massachusetts - Amherst
http://dx.doi.org/10.1101/030122 2016-03-09 Physiology CC BY Hydraulic conductance and the maintenance of water balance in flowers Adam Roddy|Craig R. Brodersen|Todd E. Dawson Yale University;|University of California, Berkeley
http://dx.doi.org/10.1101/027235 2016-03-09 Ecology CC BY In silico assessment of primers for eDNA studies using PrimerTree and application to characterize the biodiversity surrounding the Cuyahoga River Matthew Cannon|James Hester|Amanda Shalkhauser|Ernest R Chan|Kyle Logue|Scott T Small|David Serre Cleveland Clinic Lerner Research Institute;|Case Western Reserve University
http://dx.doi.org/10.1101/040386 2016-03-09 Ecology CC BY-ND An ecological assessment of the pandemic threat of Zika virus Colin Carlson|Eric Dougherty|Wayne Getz University of California Berkeley
http://dx.doi.org/10.1101/028100 2016-03-09 Genomics Methylation of histone H4 lysine 20 by PR-Set7 ensures the integrity of late replicating sequence domains in Drosophila Yulong Li|Robin Leigh Armstrong|Robert Duronio|David MacAlpine Duke Univ. Medical Center;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/042929 2016-03-09 Neuroscience Brain oscillations track the formation of episodic memories in the real world Benjamin Griffiths|Ali Mazaheri|Stefan Debener|Simon Hanslmayr School of Psychology, University of Birmingham, UK;|Department of Psychology, Carl von Ossietzky University Oldenburg, Germany
http://dx.doi.org/10.1101/042903 2016-03-09 Bioinformatics CC BY-NC-ND Crunch: Completely Automated Analysis of ChIP-seq Data Severin Berger|Saeed Omidi|Mikhail Pachkov|Phil Arnold|Nicholas Kelley|Silvia Salatino|Erik van Nimwegen University of Basel;|Ecole Polytechnique Federale de Lausanne;|Biozentrum, University of Basel
http://dx.doi.org/10.1101/042770 2016-03-09 Bioengineering CC BY-NC-ND Bioengineering cobalt chromium cardiovascular stent biomaterial for biofunctionalization Thamarasee M Jeewandara University of Sydney
http://dx.doi.org/10.1101/042978 2016-03-09 Plant Biology DIRC3 and close to NABP1 Genetics Polymorphisms correlated with Prognostic Survival in Patients with Laryngeal Squamous Cell Carcinoma Zhen Shen|Wanli Ren|Yanxia Bai|Zhengshuai Chen|Jingjie Li|Bin Li|Tianbo Jin|Peilong Cao|Shao Yuan The First Affiliated Hospital of Xi'an Jiaotong University, China;|School of Life Sciences, Northwest University, China
http://dx.doi.org/10.1101/042895 2016-03-09 Evolutionary Biology Epistasis and the dynamics of reversion in molecular evolution David M McCandlish|Premal Shah|Joshua B Plotkin University of Pennsylvania, United States;|Rutgers University, United States;|The University of Pennsylvania, United States
http://dx.doi.org/10.1101/036889 2016-03-09 Genomics CC BY A frameshift mutation in GON4L is associated with proportionate dwarfism in Fleckvieh cattle Hermann Schwarzenbacher|Christine Wurmser|Krzysztof Flisikowski|Lubica Misurova|Simone Jung|Martin C Langenmayer|Angelika Schnieke|Gabriela Knubben-Schweizer|Ruedi Fries|Hubert Pausch ZuchtData EDV-Dienstleistungen GmbH;|Chair of Animal Breeding, Technische Universitaet Muenchen;|Chair of Animal Biotechnology, Technische Universitaet Muenchen;|Clinic for Ruminants with Ambulatory and Herd Health Services, LMU Muenchen;|Institute of Veterinary Pathology, LMU Muenchen;|Technische Universitaet Muenchen
http://dx.doi.org/10.1101/042853 2016-03-09 Bioinformatics CC BY-NC-ND Discovery of Primary, Cofactor, and Novel Transcription Factor Binding Site Motifs by Recursive, Thresholded Entropy Minimization Ruipeng Lu|Eliseos J Mucaki|Peter K Rogan University of Western Ontario
http://dx.doi.org/10.1101/042879 2016-03-09 Bioinformatics CC BY-NC-ND A fast and accurate method for detection of IBD shared haplotypes in genome-wide SNP data Douglas W. Bjelland|Uday Lingala|Piyush Patel|Matt Jones|Matthew C. Keller University of Colorado-Boulder
http://dx.doi.org/10.1101/042887 2016-03-08 Physiology CC BY-NC-ND Onset, timing, and exposure therapy of stress disorders: mechanistic insight from a mathematical model of oscillating neuroendocrine dynamics Lae Un Kim|Maria R D'Orsogna|Tom Chou UCLA;|CalState - Northridge
http://dx.doi.org/10.1101/040055 2016-03-08 Genomics CC BY-NC-ND SNP-based heritability estimation: measurement noise, population stratification and stability Eric R Gamazon|Danny S Park Division of Genetic Medicine, Vanderbilt University and AMC, University of Amsterdam;|University of California San Francisco
http://dx.doi.org/10.1101/042820 2016-03-08 Genetics CC BY-NC-ND Drosophila CLAMP is an essential protein with sex-specific roles in males and females Jennifer A. Urban|Caroline A. Doherty|William T. Jordan|Jacob E. Bliss|Jessica Feng|Marcela M. Soruco|Leila E. Reider|Erica N. Larschan Brown University;|Brown Univ.
http://dx.doi.org/10.1101/042796 2016-03-08 Evolutionary Biology CC BY Natural selection and genetic diversity in the butterfly Heliconius melpomene Simon Henry Martin|Markus Moest|Wiliam J Palmer|Camilo Salazar|W. Owen McMillan|Francis M Jiggins|Chris D Jiggins University of Cambridge;|Universidad del Rosario, Colombia;|Smithsonian Tropical Research Institution
http://dx.doi.org/10.1101/042846 2016-03-08 Genetics CC BY-NC-ND A Unified Framework for Variance Component Estimation with Summary Statistics in Genome-wide Association Studies Xiang Zhou University of Michigan
http://dx.doi.org/10.1101/042788 2016-03-08 Evolutionary Biology CC BY Older fathers' children have lower evolutionary fitness across four centuries and in four populations Ruben C. Arslan|Kai P. Willfuhr|Emma Frans|Karin J. H. Verweij|Mikko Myrskyla|Eckart Voland|Catarina Almqvist|Brendan P. Zietsch|Lars Penke Georg August University Göttingen;|Max Planck Institute for Demographic Research;|University of Oxford;|VU University;|Justus Liebig University Gießen;|Karolinska Institutet;|University of Queensland
http://dx.doi.org/10.1101/040485 2016-03-08 Bioinformatics CC BY-ND AC-PCA adjusts for confounding variation and recovers the anatomical structure of neocortex Zhixiang Lin|Can Yang|Ying Zhu|John C. Duchi|Yao Fu|Yong Wang|Bai Jiang|Mahdi Zamanighomi|Xuming Xu|Mingfeng Li|Nenad Sestan|Hongyu Zhao|Wing Hung Wong Stanford University;|Hong Kong Baptist University;|Yale University;|Bina Technologies;|Academy of Mathematics & Systems Science, Chinese Academy of Sciences
http://dx.doi.org/10.1101/040303 2016-03-08 Genetics CC BY ZIKA - How Fast Does This Virus Mutate ? Ian S Logan
http://dx.doi.org/10.1101/032847 2016-03-08 Bioinformatics CC BY-ND Quantitative proteome-based guidelines for intrinsic disorder characterization Michael Vincent|Mark Whidden|Santiago Schnell University of Michigan Medical School
http://dx.doi.org/10.1101/038596 2016-03-08 Evolutionary Biology CC BY-NC-ND Getting the hologenome concept right: An eco-evolutionary framework for hosts and their microbiomes Kevin R Theis|Nolwenn M. Dheilly|Jonathan L. Klassen|Robert M. Brucker|John F. Baines|Thomas C.G. Bosch|John F. Cryan|Scott F. Gilbert|Charles J. Goodnight|Elisabeth A. Lloyd|Jan Sapp|Philippe Vandenkoornhuyse|Ilana Zilber-Rosenberg|Eugene Rosenberg|Seth R. Bordenstein Wayne State University;|Stony Brook University;|University of Connecticut;|Rowland Institute at Harvard;|Max Planck Institute for Evolutionary Biology;|Christian-Albrechts-University;|University College Cork;|Swarthmore College;|University of Vermont;|Indiana University;|York University;|Universite de Rennes 1, CNRS;|Independent Scholar;|Tel-Aviv University;|Vanderbilt University
http://dx.doi.org/10.1101/042739 2016-03-07 Microbiology CC BY-NC-ND Adaptive significance of quorum sensing-dependent regulation of public goods by integration of growth rate: a trade-off between survival and efficiency Arvin Nickzad|Eric Deziel INRS-Institut Armand-Frappier
http://dx.doi.org/10.1101/042598 2016-03-07 Evolutionary Biology CC BY Does linked selection explain the narrow range of genetic diversity across species? Graham Coop UC Davis
http://dx.doi.org/10.1101/042614 2016-03-07 Zoology Omura's whale (Balaenoptera omurai) stranding on Qeshm Island, Iran: further evidence for a wide (sub)tropical distribution, including the Persian Gulf Sharif Ranjbar|Mohammad Sayed Dakhteh|Koen Van Waerebeek Department of Marine Biology, Hormozgan University, Hormozgan, Iran;|Qeshm Environment Administration, Qeshm Free Area, Qeshm City, Qeshm Island, Iran;|Peruvian Centre for Cetacean Research, Lima
http://dx.doi.org/10.1101/042630 2016-03-07 Bioinformatics CC BY-NC-ND mLDM: a new hierarchical Bayesian statistical model for sparse microbioal association discovery Yuqing Yang|Ning Chen|Ting Chen Bioinformatics Division, Center for Synthetic and Systems Biology, TNLIST, Tsinghua University
http://dx.doi.org/10.1101/042697 2016-03-07 Physiology Lipid profiles and body mass index of young students in Jordan Balasim Alquraishi|Eman Rababah Hashemite University
http://dx.doi.org/10.1101/042655 2016-03-07 Bioinformatics AnnoLnc: a web server for systematically annotating novel human lncRNAs Mei Hou|Xing Tang|Feng Tian|Fangyuan Shi|Fenglin Liu|Ge Gao College of Life Sciences, Center for Bioinformatics, Peking University
http://dx.doi.org/10.1101/042572 2016-03-07 Ecology Symmetric assembly and disassembly of an ecological network Jason Tylianakis|Laura Martinez-Garcia|Sarah Richardson|Duane Peltzer|Ian A. Dickie University of Canterbury & Imperial College London;|Wageningen University;|Landcare Research;|Lincoln University
http://dx.doi.org/10.1101/042663 2016-03-07 Cell Biology Engineered kinesin motor proteins amenable to small molecule inhibition Martin F Engelke|Michael Winding|Yang Yue|Shankar Shastry|Federico Teloni|Sanjay Reddy|T. Lynne Blasius|Pushpanjali Soppina|William O Hancock|Vladimir I Gelfand|Kristen Verhey University of Michigan Medical School;|Northwestern University School of Medicine;|Pennsylvania State University;|Univ Michigan Medical School
http://dx.doi.org/10.1101/041855 2016-03-07 Cancer Biology CC BY-NC-ND Dissecting resistance mechanisms in melanoma combination therapy Eunjung Kim|Alexander Anderson H.Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/041897 2016-03-07 Ecology CC BY-ND Zika Virus: Endemic Versus Epidemic Dynamics and Implications for Disease Spread in the Americas Sharon Bewick|William F Fagan|Justin M Calabrese|Folashade Agusto University of Maryland;|Conservation Ecology Center, Smithsonian Conservation Biology Institute;|University of Kansas
http://dx.doi.org/10.1101/034603 2016-03-07 Evolutionary Biology CC BY-NC-ND An evolutionary hourglass of herbivore-induced transcriptomic responses in Nicotiana attenuata Matthew Durrant|Justin Boyer|Ian T. Baldwin|Shuqing Xu Max Planck Institute for Chemical Ecology
http://dx.doi.org/10.1101/042366 2016-03-06 Evolutionary Biology Horizontal transfer in bacterial Methionyl tRNA synthetase is very common shown by Genus and phyla level phylogenetic analysis. Prabhakar Ghorpade|Avinash Pange|Bhaskar Sharma College of Veterinary and Animal Sciences, Parbhani;|Livestock Development Officer, Govt. of Maharashtra;|Indian Veterinary Research Institute, Izatnagar
http://dx.doi.org/10.1101/042382 2016-03-06 Bioinformatics CC BY-NC-ND Exploring miRNAs as the key to understand symptoms induced by ZIKA virus infection through a collaborative database. Victor Pylro|Francislon Oliveira|Daniel Morais|Sara Orellana|Fabiano Pais|Julliane Medeiros|Juliana Geraldo|Jack Gilbert|Angela Volpini|Gabriel Fernandes Rene Rachou Research Center;|Argonne National Laboratory
http://dx.doi.org/10.1101/042549 2016-03-06 Evolutionary Biology CC BY-NC-ND Positive selection on a regulatory insertion-deletion polymorphism in FADS2 influences apparent endogenous synthesis of arachidonic acid Kumar S.D. Kothapalli|Kaixiong Ye|Maithili S. Gadgil|Susan E. Carlson|Kimberly O. O'Brien|Ji Yao Zhang|Hui Gyu Park|Kinsley Ojukwu|James Zou|Stephanie S. Hyon|Kalpana S. Joshi|Alon Keinan|J. Thomas Brenna Division of Nutritional Sciences, Cornell University, Ithaca, New York 14853 USA;|Department of Biological Statistics and Computational Biology, Cornell University, Ithaca, New York;|Department of Biotechnology, Sinhgad College of Engineering, University of Pune, Pune, India;|Department of Dietetics and Nutrition, The University of Kansas, Kansas City, KS-66160;|Cornell University
http://dx.doi.org/10.1101/042218 2016-03-06 Genetics CC BY-NC-ND Genetic heterogeneity in autism: from single gene to a pathway perspective Joon Yong An|Charles Claudianos University of California, San Francisco;|Monash University
http://dx.doi.org/10.1101/041020 2016-03-06 Genomics Accurate promoter and enhancer identification in 127 ENCODE and Roadmap Epigenomics cell types and tissues by GenoSTAN Benedikt Zacher|Margaux Michel|Bjoern Schwalb|Patrick Cramer|Achim Tresch|Julien Gagneur Gene Center and Department of Biochemistry, Ludwig-Maximilians-University;|Department of Molecular Biology, Max Planck Institute for Biophysical Chemistry;|Department of Biology, University of Cologne;|Technical University Munich, Department of Informatics
http://dx.doi.org/10.1101/025809 2016-03-06 Genetics CC BY-NC-ND The genetics of Bene Israel from India reveals both substantial Jewish and Indian ancestry Yedael Y. Waldman|Arjun Biddanda|Natalie R. Davidson|Paul Billing-Ross|Maya Dubrovsky|Christopher L. Campbell|Carole Oddoux|Eitan Friedman|Gil Atzmon|Eran Halperin|Harry Ostrer|Alon Keinan Cornell University;|Chaim Sheba Medical Center;|Albert Einstein College of Medicine;|Tel Aviv University
http://dx.doi.org/10.1101/042523 2016-03-05 Physiology CC BY-NC Pre-treatment with the methanol extract of Withania somnifera prevents Diazinon -induced cardiotoxic effects of organophosphate poisoning Eric Mwangi Irungu|Peter Waweru Mwangi|Frederick O Bukachi University of Nairobi
http://dx.doi.org/10.1101/042515 2016-03-05 Genetics CC BY Partial duplication of the CRYBB1-CRYBA4 locus is associated with autosomal dominant congenital cataract Owen M Siggs|Shari Javadiyan|Shiwani Sharma|Emmanuelle Souzeau|Karen M Lower|Deepa A Taranath|Jo Black|John Pater|John G. Willoughby|Kathryn P Burdon|Jamie E Craig Flinders University;|Women's and Children's Hospital;|University of Tasmania
http://dx.doi.org/10.1101/042481 2016-03-05 Systems Biology CC BY-NC The Plasmodium falciparum drugome and its polypharmacological implications Yinliang Zhang|Li Xie|Lei Xie|Philip Bourne Anhui University;|Scripps Ranch;|City University of New York - Hunter College;|NIH
http://dx.doi.org/10.1101/042499 2016-03-05 Bioengineering CC BY-NC-ND Fast and inexpensive detection of bacterial viability and drug effectiveness through metabolic monitoring Sondos Ayyash|Wen I Wu|Ponnambalam Ravi Selvaganapathy McMaster University
http://dx.doi.org/10.1101/035287 2016-03-05 Bioinformatics CC BY Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce Abhinav Nellore|Christopher Wilks|Kasper D Hansen|Jeffrey T Leek|Ben Langmead Johns Hopkins University;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/042440 2016-03-05 Evolutionary Biology CC BY-ND Have coral snake mimics diversified more than non-mimics? Daniel S. Caetano|Laura R.V. Alencar|Paulo Passos|Felipe G. Grazziotin|Hussam Zaher|Marcio Martins University of Idaho;|Universidade de Sao Paulo;|Museu Nacional (UFRJ);|Museu de Zoologia (USP)
http://dx.doi.org/10.1101/042457 2016-03-04 Genetics CC BY-NC-ND Bayesian large-scale multiple regression with summary statistics from genome-wide association studies Xiang Zhu|Matthew Stephens University of Chicago
http://dx.doi.org/10.1101/042416 2016-03-04 Neuroscience CC BY Preprint: A robust peptidomics mass spectrometry platform for measuring oxytocin in plasma and serum Ole Kristian Brandtzaeg|Elin Johnsen|Hanne Roberg-Larsen|Knut Fredrik Seip|Siri Leknes|Elsa Lundanes|Steven Ray Wilson University of Oslo
http://dx.doi.org/10.1101/042390 2016-03-04 Evolutionary Biology CC BY-NC-ND Resolving the conflict between associative overdominance and background selection Lei Zhao|Brian Charlesworth Fudan University, Handan Campus, China;|University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/042424 2016-03-04 Evolutionary Biology Stochasticity in the Genotype-Phenotype Map: Implications for the Robustness and Persistence of Bet-Hedging Daniel Nichol|Mark Robertson-Tessi|Peter Jeavons|Alexander RA Anderson University of Oxford;|Moffitt Cancer Center
http://dx.doi.org/10.1101/042408 2016-03-04 Systems Biology CC BY-NC-ND Limiting the Development of Anti-Cancer Drug Resistance in a Spatial Model of Micrometastases Ami B Shah|Katarzyna A Rejniak|Jana L Gevertz The College of New Jersey;|Moffitt Cancer Center
http://dx.doi.org/10.1101/042374 2016-03-04 Bioinformatics CC BY The Ensembl Variant Effect Predictor William McLaren|Laurent Gil|Sarah E Hunt|Harpreet Singh Riat|Graham R. S. Ritchie|Anja Thormann|Paul Flicek|Fiona Cunningham European Molecular Biology Laboratory, European Bioinformatics Institute;|European Bioinformatics Institute
http://dx.doi.org/10.1101/040907 2016-03-04 Biochemistry CC BY-NC-ND Atomic structure of Hsp90:Cdc37:Cdk4 reveals Hsp90 regulates kinase via dramatic unfolding Kliment A Verba|Ray YR Wang|Akihiko Arakawa|Yanxin Liu|Mikako Shirouzu|Shigeyuki Yokoyama|David A Agard University of California San Francisco;|RIKEN Systems and Structural Biology Center, Yokohama, Japan
http://dx.doi.org/10.1101/036863 2016-03-04 Genomics CC BY-NC-ND Fast and accurate single-cell RNA-Seq analysis by clustering of transcript-compatibility counts Vasilis Ntranos|Govinda M. Kamath|Jesse Zhang|Lior Pachter|David N. Tse U.C. Berkeley;|Stanford University
http://dx.doi.org/10.1101/037200 2016-03-04 Evolutionary Biology CC BY-NC-ND Bayesian inference of natural selection from allele frequency time series Joshua Schraiber|Steven N. Evans|Montgomery Slatkin University of Washington;|University of California, Berkeley;|Univeristy of California, Berkeley
http://dx.doi.org/10.1101/035519 2016-03-04 Systems Biology CC BY-NC-ND Hilbert-Schmidt and Sobol sensitivity indices for static and time series Wnt signaling measurements in colorectal cancer shriprakash sinha
http://dx.doi.org/10.1101/022152 2016-03-04 Bioinformatics CC BY Learning from heterogeneous data sources: an application in spatial proteomics Lisa M Breckels|Sean Holden|David Wojnar|Claire M Mulvey|Andy Christoforou|Arnoud J Groen|Matthew WB Trotter|Oliver Kohlbacher|Kathryn S Lilley|Laurent Gatto University of Cambridge;|University of Tubingen;|Celgene Institute for Translational Research Europe
http://dx.doi.org/10.1101/042358 2016-03-04 Microbiology A susceptible mouse model for Zika virus infection Stuart D Dowall|Victoria A Graham|Emma Rayner|Barry Atkinson|Graham Hall|Robert J Watson|Andrew Bosworth|Laura C Bonney|Samantha Kitchen|Roger Hewson Public Health England
http://dx.doi.org/10.1101/042127 2016-03-04 Systems Biology The Effects of Ribosome Autocatalysis and Negative Feedback in Resource Competition Fiona Chandra|Domitilla Del Vecchio Massachusetts Institute of Technology
http://dx.doi.org/10.1101/042200 2016-03-04 Bioinformatics CC BY-ND Phylogeny-aware Identification and Correction of Taxonomically Mislabeled Sequences Alexey M Kozlov|Jiajie Zhang|Pelin Yilmaz|Frank Oliver Glockner|Alexandros Stamatakis Heidelberg Institute for Theoretical Studies;|Microbial Genomics and Bioinformatics Research Group, Max Planck Institute for Marine Microbiology
http://dx.doi.org/10.1101/042341 2016-03-04 Ecology Plant root pathogens over 120,000 years of temperate rainforest ecosystem development Ian A. Dickie|Angela Wakelin|Laura Martinez-Garcia|Sarah J. Richardson|Andreas Makiola|Jason M. Tylianakis Lincoln University;|Wageningen University;|Landcare Research;|University of Canterbury & Imperial College London
http://dx.doi.org/10.1101/034769 2016-03-04 Bioinformatics CC BY BrowseVCF: a web-based application and workflow to quickly prioritise disease-causative variants in VCF files. Silvia Salatino|Varun Ramraj The Wellcome Trust Centre for Human Genetics
http://dx.doi.org/10.1101/042309 2016-03-03 Genomics CC BY-NC-ND The roles of LINEs, LTRs and SINEs in lineage-specific gene family expansions in the human and mouse genomes Vaclav Janousek|Christina M Laukaitis|Alexey Yanchukov|Robert Karn Charles University in Prague;|University of Arizona;|B??lent Ecevit ??niversity
http://dx.doi.org/10.1101/042317 2016-03-03 Systems Biology CC BY-NC-ND Environmental gene regulatory influence networks in rice (Oryza sativa): response to water deficit, high temperature and agricultural environments Olivia Wilkins|Christoph Hafemiester|Anne Plessis|Meisha-Marika Holloway-Phillips|Gina Pham|Addrienne B. Nicotra|Glenn B. Gregorio|S. V. Krishna Jagadish|Endang M. Septiningsih|Richard Bonneau|Michael Purugganan McGill University;|New York Genome Center;|Plymouth University;|Australian National University;|Michigan State University;|East West Seeds;|Kansas State University;|Texas A & M University;|New York University
http://dx.doi.org/10.1101/042325 2016-03-03 Evolutionary Biology CC BY-NC-ND Transposable Element Evolution in the Allotetraploid Capsella bursa-pastoris and the Perfect Storm Hypothesis J Arvid Agren|Hui-Run Huang|Stephen I Wright Cornell University;|South China Botanical Garden;|University of Toronto
http://dx.doi.org/10.1101/042333 2016-03-03 Plant Biology CC BY-ND Dynamics and Control of Phloem Loading of Indoleacetic Acid in Seedling Cotyledons of Ricinus Communis During Germination Imre Tamas|Peter J Davies Cornell University
http://dx.doi.org/10.1101/042291 2016-03-03 Plant Biology CC BY-NC-ND RNA‐guided endonuclease‐driven mutagenesis in tobacco followed by efficient fixation of mutated sequences in doubled haploid plants Sindy Schedel|Stefanie Pencs|Goetz Hensel|Andrea Mueller|Jochen Kumlehn Leibniz Institute of Plant Genetics and Crop Plant Research (IPK);|Martin Luther University
http://dx.doi.org/10.1101/042176 2016-03-03 Genetics Powerful decomposition of complex traits in a diploid model using Phased Outbred Lines Johan Hallin|Kaspar Martens|Alexander Young|Martin Zackrisson|Francisco Salinas|Leopold Parts|Jonas Warringer|Gianni Liti Institute of Research on Cancer and Ageing of Nice (IRCAN);|Institute of Computer Science, University of Tartu, Tartu, Estonia;|Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK;|Department of Chemistry and Molecular Biology, Gothenburg University, Gothenburg, Sweden;|Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom;|University of Gothenburg
http://dx.doi.org/10.1101/042267 2016-03-03 Genomics CC BY-NC-ND Repeated replacement of an intrabacterial symbiont in the tripartite nested mealybug symbiosis Filip Husnik|John P McCutcheon Institute of Parasitology, BC CAS & Faculty of Science, University of South Bohemia, Czech Republic;|University of Montana, Division of Biological Sciences, Missoula, USA
http://dx.doi.org/10.1101/026633 2016-03-03 Cancer Biology Standard melanoma-associated markers do not identify the MM127 metastatic melanoma cell line Parvathi Haridas|Jacqui McGovern|Ahishek Kashyap|Sean McElwain|Matthew Simpson Queensland University of Technology
http://dx.doi.org/10.1101/040899 2016-03-03 Plant Biology CC BY-NC-ND Characterization and Transposon Mutagenesis of the Maize (Zea mays) Pho1 Gene Family Nancy Salazar-Vidal|Edith Acosta-Segovia|Nidia Sanchez-Leon|Kevin R Ahern|Thomas P Brutnell|Ruairidh J H Sawers LANGEBIO-CINVESTAV;|Boyce Thompson Institute;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/037994 2016-03-03 Ecology CC BY-NC-ND Ecological factors rather than barriers to dispersal shape genetic structure of algal symbionts in horizontally-transmitting corals Sarah W. Davies|Drew Wham|Matthew R Kanke|Mikhail V Matz University of North Carolina at Chapel Hill;|Pennsylvania State University;|The University of North Carolina at Chapel Hill;|University of Texas at Austin
http://dx.doi.org/10.1101/026443 2016-03-03 Genetics CC BY-ND The regulator-executor-phenotype architecture shaped by natural selection Han Chen|Chung-I Wu|Xionglei He Sun Yat-sen University;|University of Chicago
http://dx.doi.org/10.1101/042226 2016-03-03 Genetics CC BY-NC-ND Genotyping Allelic and Copy Number Variation in the Immunoglobulin Heavy Chain Locus Shishi Luo|Jane A Yu|Yun S. Song University of California, Berkeley
http://dx.doi.org/10.1101/042242 2016-03-03 Scientific Communication CC BY-NC-ND Advancing insect vector biology research: a community survey for future directions, research applications and infrastructure requirements Alain Kohl|Emilie Pondeville|Esther Schnettler|Andrea Crisanti|Clelia Supparo|George K Christophides|Paul J Kersey|Gareth L Maslen|Willem Takken|Constantianus J. M. Koenraadt|Clelia F Oliva|Nuria Busquets|F Xavier Abad|Anna-Bella Failloux|Elena A Levashina|Anthony J Wilson|Eva Veronesi|Maelle Pichard|Sarah Arnaud Marsh|Frederic Simard|Kenneth D Vernick MRC University of Glasgow Centre for Virus Research;|Imperial College London;|The European Molecular Biology Laboratory, The European Bioinformatics Institute;|Wageningen University and Research Centre;|Polo d'Innovazione di Genomica, Genetica e Biologia;|Centre de Recerca en Sanitat Animal (CReSA),Institut de Recerca i Tecnologia Agroalimentaries (IRTA);|Institut Pasteur;|Max Planck Institut fur Infektionsbiologie;|The Pirbright Institute;|University of Zurich;|Institut de Recherche pour le Developpement (IRD)
http://dx.doi.org/10.1101/042275 2016-03-03 Synthetic Biology CC BY Establishing elements of a synthetic biology platform for Vaccinia virus production: BioBrickTM design, serum-free virus production and microcarrier-based cultivation of CV-1 cells. Shuchang Liu|Ludmila Ruban|Yaohe Wang|Yuhong Zhou|Darren N. Nicholas Nesbeth University College London;|Queen Mary University of London
http://dx.doi.org/10.1101/042234 2016-03-03 Cancer Biology Consensus Gene Expression Subtypes Of Epithelial Tumors Anguraj Sadanandam Institute of Cancer Research (ICR)
http://dx.doi.org/10.1101/033621 2016-03-03 Genetics CC BY-ND Unraveling the Genetic Architecture of Cryptic Genetic Variation Anupama Yadav|Kaustubh Dhole|Himanshu Sinha Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/024869 2016-03-03 Genomics CC BY-ND A genomic region containing RNF212 and CPLX1 is associated with sexually-dimorphic recombination rate variation in wild Soay sheep (Ovis aries). Susan E Johnston|Camillo Berenos|Jon Slate|Josephine M Pemberton University of Edinburgh;|University of Sheffield
http://dx.doi.org/10.1101/026120 2016-03-03 Animal Behavior and Cognition CC BY Social inheritance can explain the structure of animal social networks Amiyaal Ilany|Erol Akcay University of Pennsylvania
http://dx.doi.org/10.1101/042184 2016-03-02 Biophysics Exact length distribution of filamentous structures assembled from a finite pool of subunits David Harbage|Jane Kondev Brandeis University
http://dx.doi.org/10.1101/042168 2016-03-02 Neuroscience Coordination of brain wide activity dynamics by dopaminergic neurons Garret Stuber|Heather Decot|Vijay Namboodiri|Wei Gao|Jenna McHenry|Josh Jennings|Sung-Ho Lee|Pranish Kantak|Yu-Chieh Jill Kao|Manamita Das|Ilana Witten|Karl Deisseroth|Yen-Yu Ian Shih UNC Chapel Hill;|UNC;|Princeton;|Stanford
http://dx.doi.org/10.1101/041988 2016-03-02 Bioinformatics CC BY-NC-ND A simple analytical formula to compute the residual Mutual Information between pairs of data vectors Jens Kleinjung|Anthony C.C. Coolen The Francis Crick Institute;|King's College London
http://dx.doi.org/10.1101/042150 2016-03-02 Plant Biology CC BY A Sister of PIN1 gene in tomato (Solanum lycopersicum) defines organ initiation patterns by maintaining epidermal auxin flux Ciera Martinez|Daniel Koenig|Daniel H Chitwood|Neelima Sinha University Of California, Davis;|University of California, Riverside;|Donald Danforth Plant Science Center;|University of California, Davis
http://dx.doi.org/10.1101/041913 2016-03-02 Immunology Times to Key Events in the Course of Zika Infection and their Implications for Surveillance: A Systematic Review and Pooled Analysis Justin Lessler|Cassandra T. Ott|Andrea C. Carcelen|Jacob M. Konikoff|Joe Williamson|Qifang Bi|Nicholas G. Reich|Derek A. T. Cummings|Lauren M. Kucirka|Lelia H. Chaisson Johns Hopkins Bloomberg School of Public Health;|School of Public Health and Health Sciences, University of Massachusetts Amherst;|Emerging Pathogens Institute, University of Florida;|Johns Hopkins University School of Medicine; Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/042135 2016-03-02 Evolutionary Biology CC BY-NC-ND Demographic inference under the coalescent in a spatial continuum Stephane Guindon|Hongbin Guo|David Welch The University of Auckland, New Zealand
http://dx.doi.org/10.1101/042119 2016-03-02 Cell Biology CC BY-ND An ATM/Wip1-dependent timer controls the minimal duration of a DNA-damage mediated cell cycle arrest Himjyot Jaiswal|Jan Benada|Erik Mullers|Karen Akopyan|Kamila Burdova|Tobias Koolmeister|Thomas Helleday|Rene Medema|Libor Macurek|Arne Lindqvist Karolinska Institutet;|Institute of Molecular Genetics, Academy of Sciences of the Czech Republic;|Netherlands Cancer Institute
http://dx.doi.org/10.1101/041962 2016-03-02 Bioinformatics CC BY OncoScape: Exploring the cancer aberration landscape by genomic data fusion Andreas Schlicker|Magali Michaut|Rubayte Rahman|Lodewyk Wessels Netherlands Cancer Institute
http://dx.doi.org/10.1101/027706 2016-03-02 Animal Behavior and Cognition CC BY-NC-ND Behavioral flexibility and problem solving in an invasive bird Corina J Logan University of Cambridge
http://dx.doi.org/10.1101/033464 2016-03-02 Genomics CC BY No evidence for extensive horizontal gene transfer in the genome of the tardigrade Hypsibius dujardini Georgios Koutsovoulos|Sujai Kumar|Dominik R Laetsch|Lewis Stevens|Jennifer Daub|Claire Conlon|Habib Maroon|Fran Thomas|Aziz Aboobaker|Mark Blaxter University of Edinburgh;|University of Oxford
http://dx.doi.org/10.1101/041947 2016-03-02 Pharmacology Compound biological signatures facilitate phenotypic screening and target elucidation Alvaro Cortes Cabrera|Daniel Lucena-Agell|Mariano Redondo-Horcajo|Isabel Barasoain|Fernando Diaz|Bernhard Fasching|Paula Petrone F. Hoffmann-La Roche;|CSIC
http://dx.doi.org/10.1101/041103 2016-03-02 Neuroscience Inhibitory control of shared variability in cortical networks Marius Pachitariu|Carsen Stringer|Michael Okun|Peter Bartho|Kenneth Harris|Peter Latham|Maneesh Sahani|Nicholas Lesica University College London;|Hungarian Academy of Sciences
http://dx.doi.org/10.1101/038463 2016-03-02 Genomics CC BY Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes John A Lees|Minna Vehkala|Niko Valimaki|Simon R Harris|Claire Chewapreecha|Nicholas J Croucher|Pekka Marttinen|Mark R Davies|Andrew C Steer|Stephen Y C Tong|Antti Honkela|Julian Parkhill|Stephen D Bentley|Jukka Corander Wellcome Trust Sanger Institute;|University of Helsinki;|University of Cambridge;|Imperial College;|Aalto University;|Department of Microbiology and Immunology, Peter Doherty Institute for Infection and Immunity, Univ;|Centre for International Child Health, Department of Paediatrics, University of Melbourne, Australia;|Menzies School of Health Research, Darwin, Australia
http://dx.doi.org/10.1101/041871 2016-03-02 Synthetic Biology CC BY-NC-ND Robust digital logic circuits in eukaryotic cells with CRISPR/dCas9 NOR gates Miles W Gander|Justin D Vrana|William E. Voje|James M Carothers|Eric Klavins University of Washington
http://dx.doi.org/10.1101/038372 2016-03-02 Evolutionary Biology CC BY-NC-ND Punctuated evolution and transitional hybrid network in an ancestral cell cycle of fungi Edgar M. Medina|Jonathan J. Turner|Raluca Gordan|Jan M. Skotheim|Nicolas E. Buchler Duke;|Stanford
http://dx.doi.org/10.1101/041863 2016-03-02 Bioinformatics CC BY Vcfanno: fast, flexible annotation of genetic variants Brent Pedersen|Ryan Layer|Aaron Quinlan University of Utah
http://dx.doi.org/10.1101/024612 2016-03-02 Systems Biology Robust Estimates of Overall Immune-Repertoire Diversity from High-Throughput Measurements on Samples Joseph Kaplinsky|Ramy Arnaout Beth Israel Deaconess Medical Center
http://dx.doi.org/10.1101/041384 2016-03-02 Bioinformatics CC BY-NC Diffusion pseudotime robustly reconstructs lineage branching Laleh Haghverdi|Maren Buettner|F. Alexander Wolf|Florian Buettner|Fabian J. Theis ICB, Helmholtz Zentrum Muenchen;|European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Camp
http://dx.doi.org/10.1101/042044 2016-03-01 Genetics CC BY-NC Decomposing the site frequency spectrum: the impact of tree topology on neutrality tests Alice Ledda|Guillaume Achaz|Thomas Wiehe|Luca Ferretti Imperial College;|Université Pierre et Marie Curie;|Universitaet zu Koeln;|The Pirbright Institute
http://dx.doi.org/10.1101/042051 2016-03-01 Biophysics Fast imaging of DNA motion reveals distinct sub-diffusion regimes at the site of DNA damage Judith Mine-Hattab|Vincent Recamier|Ignacio Izeddin|Rodney Rothstein|Xavier Darzacq Institut de Biologie de l Ecole Normale Superieure (iBENS), Paris 75005, France;|Department of Genetics & Development, Columbia University Medical Center, New York, NY 10032, USA
http://dx.doi.org/10.1101/042069 2016-03-01 Evolutionary Biology Core Genes Evolve Rapidly in the Long-term Evolution Experiment with Escherichia coli Rohan Maddamsetti|Philip J Hatcher|Barry L. Williams|Richard E. Lenski Michigan State University;|University of New Hampshire
http://dx.doi.org/10.1101/042002 2016-03-01 Cell Biology CC BY-NC Glycolytic enzymes localize to synapses under energy stress to support synaptic function SoRi Jang|Jessica C. Nelson|Eric G. Bend|Lucelenie Rodriguez-Laureano|Felipe G. Tueros|Luis Cartagenova|Katherine Underwood|Erik M. Jorgensen|Daniel A. Colon-Ramos Yale University;|University of Utah;|Universidad Ricardo Palma
http://dx.doi.org/10.1101/042010 2016-03-01 Evolutionary Biology CC BY-NC Measuring epistasis in fitness landscapes: the correlation of fitness effects of mutations Luca Ferretti|Benjamin Schmiegelt|Daniel Weinreich|Atsushi Yamauchi|Yutaka Kobayashi|Fumio Tajima|Guillaume Achaz The Pirbright Institute;|Institute for Theoretical Physics, University of Cologne;|Ecology and Evolutionary Biology, Brown University;|Center for Ecological Research, Kyoto University;|Kochi University of Technology;|Department of Biological Sciences, University of Tokyo;|Universite Pierre et Marie Curie
http://dx.doi.org/10.1101/042028 2016-03-01 Plant Biology CC BY-NC-ND Outcome variation in maize interaction with arbuscular mycorrhizal fungi is correlated with extent of extra-radical mycelium Ruairidh J H Sawers|Simon F Svane|Clement Quan|Mette Gronlund|Barbara Wozniak|Mesfin Nigussie|Matthais Mueller|Eliecer Gonzalez-Munoz|Ricardo Chavez Montes|Ivan Baxter|Jerome Goudet|Iver Jakobsen|Uta Paszkowski LANGEBIO-CINVESTAV;|University of Copenhagen;|University of Cambridge;|University of Lausanne;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/042036 2016-03-01 Genomics CC BY-NC-ND Towards Consensus Gene Ages Benjamin J. Liebeskind|Claire D. McWhite|Edward M. Marcotte University of Texas at Austin;|University of Texas
http://dx.doi.org/10.1101/041921 2016-03-01 Genomics CC BY A missense mutation in TUBD1 is associated with high juvenile mortality in Braunvieh and Fleckvieh cattle Hermann Schwarzenbacher|Johann Burgstaller|Franz R Seefried|Christine Wurmser|Monika Hilbe|Simone Jung|Christian Fuerst|Nora Dinhopl|Herbert Weissenboeck|Birgit Fuerst-Waltl|Marlies Dolezal|Reinhard Winkler|Oskar Grueter|Ulrich Bleul|Thomas Wittek|Ruedi Fries|Hubert Pausch ZuchtData EDV-Dienstleistungen GmbH;|University of Veterinary Medicine Vienna;|Qualitas AG;|Technische Universitaet Muenchen;|University Zurich;|ZuchtData EDV Dienstleistungen GmbH;|University of Natural Resources and Life Sciences;|ARGE Braunvieh;|Braunvieh Schweiz;|ubleul@vetclinics.uzh.ch
http://dx.doi.org/10.1101/041905 2016-03-01 Microbiology The viral polymerase inhibitor 7-deaza-2'-C-methyladenosine is a potent inhibitor of in 1 vitro Zika virus replication and delays disease progression in a robust mouse infection model Joanna Zmurko|Rafael E Marques|Dominique Schols|Erik Verbeken|Suzanne J.F. Kaptein|Johan Neyts Laboratory of Virology and Chemotherapy, KU Leuven - University of Leuven, Leuven, Belgium;|Universidade Federal de Minas Gerais, Belo Horizonte, Brazil;|Laboratory of Virology and Chemotherapy, KU Leuven - University of Leuven, Leuven, Belgium;|Department of Pathology, University of Leuven and Leuven University Hospitals, Leuven, Belgium
http://dx.doi.org/10.1101/042085 2016-03-01 Genetics CC BY-NC-ND Whole genome sequencing identifies a novel factor required for secretory granule maturation in Tetrahymena thermophila Cassandra Kontur|Santosh Kumar|Xun Lan|Jonathan K Pritchard|Aaron P Turkewitz The University of Chicago, United States;|Stanford University, United States;|Stanford University, HHMI, United States
http://dx.doi.org/10.1101/041996 2016-03-01 Cancer Biology CC BY-NC-ND A CRISPR screen reveals a WNT7B-FZD5 signaling circuit as a therapeutic opportunity in pancreatic cancer. Zachary Steinhart|Traver Hart|Megha Chandrashekhar|Zvezdan Pavlovic|Melanie Robitaille|Xiaowei Wang|Jarrett Adams|James Pan|Sachdev Sidhu|Jason Moffat|Stephane Angers University of Toronto
http://dx.doi.org/10.1101/032169 2016-03-01 Microbiology Latitude delineates patterns of biogeography in terrestrial Streptomyces Mallory J Choudoir|James R Doroghazi|Daniel H Buckley Cornell University
http://dx.doi.org/10.1101/034900 2016-03-01 Biochemistry CC BY-ND Estimation of the lag time in a subsequent monomer addition model for fibril elongation Suzanne K. Shoffner|Santiago Schnell University of Michigan Medical School
http://dx.doi.org/10.1101/041533 2016-03-01 Evolutionary Biology CC BY-NC Pollinator specialization imposes stronger evolutionary constraints on flower shape Simon Joly|Francois Lambert|Hermine Alexandre|Etienne Leveille-Bourret|John L. Clark Montreal Botanical Garden;|Université de Montréal;|University of Ottawa;|University of Alabama
http://dx.doi.org/10.1101/031914 2016-03-01 Evolutionary Biology CC BY The Genetic Equidistance Phenomenon at the Proteomic Level Denghui Luo|Shi Huang Central South University
http://dx.doi.org/10.1101/041822 2016-02-29 Bioinformatics SignaFish: a zebrafish-specific signaling pathway resource Kitti Csalyi|David Fazekas|Tamas Kadlecsik|Denes Turei|Leila Gul|Balazs Horvath|Dezso Modos|Amanda Demeter|Nora Papai|Katalin Lenti|Peter Csermely|Tibor Vellai|Tamas Korcsmaros|Mate Varga Eötvös Loránd University, Department of Genetics;|Semmelweis University, Department of Morphology and Physiology;|Semmelweis University, Department of Medical Chemistry;|The Genome Analysis Centre, Norwich Research Park
http://dx.doi.org/10.1101/041848 2016-02-29 Bioinformatics Assessment of Circulating Copy Number Variant Detection for Cancer Screening Bhuvan Molparia|Eshaan Nichani|Ali Torkamani The Scripps Research Institute;|Canyon Crest Academy;|The Scripps Translational Sciences Institute
http://dx.doi.org/10.1101/041889 2016-02-29 Neuroscience CC BY Evidence for selective attention in the insect brain Benjamin L de Bivort|Bruno van Swinderen Harvard University;|The University of Queensland
http://dx.doi.org/10.1101/020503 2016-02-29 Genomics Phylogenomic analysis of natural products biosynthetic gene clusters allows discovery of arseno-organic metabolites in model streptomycetes Pablo Cruz-Morales|Johannes F. Kopp|Christian E. Martinez-Guerrero|Luis A. Yanez-Guerra|Nelly Selem-Mojica|Hilda E. Ramos-Aboites|Jorg Feldmann|Francisco Barona-Gomez Evolution of Metabolic Diversity Laboratory, Langebio-Cinvestav-IPN, Irapuato, Mexico;|Trace Element Speciation Laboratory (TESLA), College of Physical Sciences. Aberdeen, Scotland, UK
http://dx.doi.org/10.1101/041137 2016-02-29 Cancer Biology Effectors and potential targets selectively upregulated in human KRAS mutant lung adenocarcinomas Jinyu Li|Raffaella Sordella|Scott Powers Stony Brook U;|CSHL
http://dx.doi.org/10.1101/041780 2016-02-29 Neuroscience CC BY-NC-ND Sensitive red protein calcium indicators for imaging neural activity Hod Dana|Boaz Mohar|Yi Sun|Sujatha Narayan|Andrew Gordus|Jeremy P Hasseman|Getahun Tsegaye|Graham T Holt|Amy Hu|Deepika Walpita|Ronak Patel|John J Macklin|Cornelia I Bargmann|Misha B Ahrens|Eric R Schreiter|Vivek Jayaraman|Loren L Looger|Karel Svoboda|Douglas S Kim HHMI Janelia Research Campus;|HHMI Janelia Research Campus; Weizmann Institute of Science;|Howard Hughes Medical Institute and The Rockefeller University
http://dx.doi.org/10.1101/041830 2016-02-29 Evolutionary Biology CC BY Trait Heritability in Major Transitions Matthew D Herron|William C Ratcliff University of Montana;|Georgia Institute of Technology
http://dx.doi.org/10.1101/041715 2016-02-29 Bioinformatics Approximate Bayesian bisulphite sequencing analysis Owen J.L. Rackham|Sarah R. Langley|Thomas Oates|Eleni Vradi|Nathan Harmston|Prashant K. Srivastava|Jacques Behmoaras|Petros Dellaportas|Leonardo Bottolo|Enrico Petretto Duke-NUS Medical School, Singapore;|Clinical Sciences Centre, Imperial College London, UK;|Department of Statistics, Athens University of Economics and Business, GR;|Division of Brain Sciences, Imperial College Faculty of Medicine, UK;|Centre for Complement and Inflammation Research, Imperial College London, UK;|Department of Statistics, University College London, UK;|Department of Medical Genetics, University of Cambridge, UK;|Duke-NUS Medical School
http://dx.doi.org/10.1101/041582 2016-02-29 Systems Biology CC BY Metabolic profiling of alcohol consumption in 9778 young adults Peter Wurtz|Sarah Cook|Qin Wang|Mika Tiainen|Tuulia Tynkkynen|Antti J Kangas|Pasi Soininen|Jaana Laitinen|Jorma Viikari|Mika Kahonen|Terho Lehtimaki|Markus Perola|Stefan Blankenberg|Tanja Zeller|Satu Mannisto|Veikko Salomaa|Marjo-Riitta Jarvelin|Olli T Raitakari|Mika Ala-Korpela|David A Leon University of Oulu;|London School of Hygiene and Tropical Medicine;|University of Eastern Finland;|4.Finnish Institute of Occupational Health;|University of Turku;|University of Tampere;|Finnish National Institute for Health and Welfare;|University Heart Center Hamburg
http://dx.doi.org/10.1101/034249 2016-02-29 Physiology CC BY-NC ŌvSim: a Simulation of the Population Dynamics of Mammalian Ovarian Follicles Joshua Johnson|Xin Chen|Xiao Xu|John Emerson Yale School of Medicine;|Nanfang Hospital, SouthernMedical University, Guangzhou 510515, China;|Department of Statistics, Yale University
http://dx.doi.org/10.1101/039651 2016-02-29 Genomics The Next Generation Precision Medical Record - A Framework for Integrating Genomes and Wearable Sensors with Medical Records Daryl Waggott|Anja Bog|Enakshi Singh|Prag Batra|Mark Wright|Euan Ashley Stanford University;|SAP Labs
http://dx.doi.org/10.1101/041731 2016-02-29 Genetics Personalized Risk Prediction for Type 2 Diabetes: the Potential of Genetic Risk Scores Kristi Lall|Reedik Magi|Andrew Morris|Andres Metspalu|Krista Fischer Estonian Genome Center, University of Tartu, Tartu, 51010, Estonia;|Department of Biostatistics, University of Liverpool, Liverpool, L69 3GL, UK
http://dx.doi.org/10.1101/041772 2016-02-29 Molecular Biology CC BY-NC Regulating telomere length from the inside out: The replication fork model Carol W Greider Johns Hopkins University
http://dx.doi.org/10.1101/041723 2016-02-29 Cell Biology CC BY-NC Cdk activity drives senescence from G2 phase Erik Mullers|Helena Silva Cascales|Libor Macurek|Arne Lindqvist Karolinska Institutet;|Institute of Molecular Genetics, Academy of Sciences of the Czech Republic
http://dx.doi.org/10.1101/041749 2016-02-29 Neuroscience CC BY-NC-ND A probability distribution over latent causes in the orbitofrontal cortex Stephanie C.Y. Chan|Yael NIv|Kenneth A. Norman Princeton University
http://dx.doi.org/10.1101/041640 2016-02-29 Systems Biology The Software Crisis of Synthetic Biology Sergi Valverde|Manuel Porcar|Juli Pereto|Ricard V. Sole Universitat Pompeu Fabra;|Universitat de Valencia;|ICREA Universitat Pompeu Fabra
http://dx.doi.org/10.1101/041756 2016-02-29 Neuroscience CC BY-NC-ND Conformational dynamics of Tau in the cell quantified by an intramolecular FRET biosensor in physiological and pathological context Cristina Di Primio|Valentina Quercioli|Giacomo Siano|Branislav Kovacech|Michal Novak|Antonino Cattaneo Scuola Normale Superiore di Pisa;|Slovak Academy of Sciences
http://dx.doi.org/10.1101/041624 2016-02-29 Evolutionary Biology Sporulation, bacterial cell envelopes, and the origin of life Elitza I Tocheva|Davi R Ortega|Grant J Jensen Universite de Montreal;|California Institute of Technology
http://dx.doi.org/10.1101/041699 2016-02-29 Evolutionary Biology CC BY-NC Multiple genetic changes underlie the evolution of long-tailed forest deer mice Evan P Kingsley|Krzysztof M Kozak|Susanne Pfeifer|Dou-Shuan Yang|Hopi E Hoekstra Harvard University;|University of Cambridge;|Ecole Polytechnique Fédérale de Lausanne;|University of Washington;|Harvard University/HHMI
http://dx.doi.org/10.1101/024265 2016-02-29 Ecology CC BY Facing the heat: thermoregulation and behaviour of lowland species of a cold-dwelling butterfly genus, Erebia Irena Kleckova|Jan Klecka Institute of Entomology, Biology Centre of the Czech Academy of SCiences;|Institute of Entomology, Biology Centre of the Czech Academy of Sciences
http://dx.doi.org/10.1101/026708 2016-02-28 Bioinformatics CC BY-ND An alternative class of targets for microRNAs containing CG dinucleotide Zheng Yan|Bin Zhang|Haiyang Hu|Yi-Ping Phoebe Chen La Trobe University;|Partner Institute for Computational Biology
http://dx.doi.org/10.1101/041673 2016-02-28 Neuroscience CC BY-NC-ND A Dendritic Disinhibitory Circuit Mechanism for Pathway-Specific Gating Guangyu R Yang|John D Murray|Xiao-Jing Wang New York University;|Yale University
http://dx.doi.org/10.1101/041665 2016-02-28 Microbiology CC BY-NC-ND Twenty five new viruses associated with the Drosophilidae (Diptera) Claire L Webster|Ben Longdon|Samuel H Lewis|Darren Obbard University of Sussex;|University of Cambridge;|x
http://dx.doi.org/10.1101/041632 2016-02-28 Developmental Biology CC BY-NC-ND Rational design and whole-genome predictions of single guide RNAs for efficient CRISPR/Cas9-mediated genome editing in Ciona Shashank Gandhi|Lionel Christiaen|Alberto Stolfi California Institute of Technology;|New York University
http://dx.doi.org/10.1101/041707 2016-02-28 Neuroscience CC BY-NC-ND MECP2 regulates cortical plasticity underlying a learned behavior in adult female mice Keerthi Krishnan|Billy Lau|Gabrielle Ewall|Z. Josh Huang|Stephen David Shea Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/041061 2016-02-28 Neuroscience CC BY-NC-ND Functional Genetic Screen to Identify Interneurons Governing Behaviorally Distinct Aspects of Drosophila Larval Motor Programs Matt Clark|Chris Doe|Ellie Hackscher|Sereno Lopez|Stephanie McCumsey University of Oregon;|university;|University of Chicago;|University of Washington
http://dx.doi.org/10.1101/041616 2016-02-28 Bioinformatics CC BY-NC-ND Genome-Wide Prediction of cis-Regulatory Regions Using Supervised Deep Learning Methods Yifeng Li|Wenqiang Shi|Wyeth W Wasserman Department of Medical Genetics, University of British Columbia
http://dx.doi.org/10.1101/041608 2016-02-28 Evolutionary Biology Species Identification by Bayesian Fingerprinting: A Powerful Alternative to DNA Barcoding Ziheng Yang|Bruce Rannala University College London;|University of California Davis
http://dx.doi.org/10.1101/041541 2016-02-27 Systems Biology CC BY-NC-ND Cell fate-decision as high-dimensional critical state transition Mitra Mojtahedi|Alexander Skupin|Joseph Zhou|Ivan G. Castano|Rebecca Y.Y. Leong-Quong|Hannah H. Chang|Alessandro Giuliani|Sui Huang University of Calgary;|Luxembourg Centre for Systems Biomedicine;|Institute for Systems Biology;|Corporacion Parque Explora;|5AM Ventures;|Istituto Superiore di Sanita
http://dx.doi.org/10.1101/039826 2016-02-27 Microbiology CC BY-NC-ND 16S rRNA amplicon sequencing for epidemiological surveys of bacteria in wildlife: the importance of cleaning post-sequencing data before estimating positivity, prevalence and co-infection Maxime Galan|Maria Razzauti|Emilie Bard|Maria Bernard|Carine Brouat|Nathalie Charbonnel|Alexandre Dehne-Garcia|Anne Loiseau|Caroline Tatard|Lucie Tamisier|Muriel Vayssier-Taussat|Helene Vignes|Jean Francois Cosson INRA, CBGP, Montferrier sur Lez, France;|INRA, EpiA, Clermont-Ferrand, France;|INRA, Sigenae, France;|Ird, CBGP, Montferrier sur Lez, France;|INRA, Bipar, Maisons-Alfort, France;|CIRAD, AGAP, Montpellier, France;|National Institute for Agricultural Research
http://dx.doi.org/10.1101/041459 2016-02-26 Animal Behavior and Cognition Contributions of hippocampus and striatum to memory-guided behavior depend on past experience Janina D Ferbinteanu SUNY Downstate Medical Center
http://dx.doi.org/10.1101/041400 2016-02-26 Biophysics CC BY-NC-ND Structure, inhibition and regulation of two-pore channel TPC1 from Arabidopsis thaliana Alexander F Kintzer|Robert M Stroud University of California, San Francisco
http://dx.doi.org/10.1101/041566 2016-02-26 Bioinformatics CC BY-ND Does the choice of nucleotide substitution models matter topologically? Michael Hoff|Stefan Peter Orf|Benedikt Johannes Riehm|Diego Darriba|Alexandros Stamatakis Karlsruhe Institute of Technology;|Heidelberg Institute for Theoretical Studies;|HITS gGmbH
http://dx.doi.org/10.1101/041483 2016-02-26 Genomics CC BY Genomic prediction of coronary heart disease Gad Abraham|Aki S Havulinna|Oneil G Bhalala|Sean G Byars|Alysha M de Livera|Laxman Yetukuri|Emmi Tikkanen|Markus Perola|Heribert Schunkert|Eric J Sijbrands|Aarno Palotie|Nilesh J Samani|Veikko Salomaa|Samuli Ripatti|Michael Inouye Centre for Systems Genomics, University of Melbourne;|National Institute of Health and Welfare Finland;|Institute of Molecular Medicine Finland, University of Helsinki;|Institute of Molecular Medicine, University of Helsinki;|Deutsches Herzzentrum Munchen;|Department of Internal Medicine, Erasmus Medical Center;|Institute for Molecular Medicine Finland;|Department of Cardiovascular Sciences, University of Leicester;|National Institute for Health and Welfare Finland
http://dx.doi.org/10.1101/041509 2016-02-26 Systems Biology How domain growth is implemented determines the long term behaviour of a cell population through its effect on spatial correlations. Robert JH Ross|Ruth E Baker|Christian A Yates University of Oxford;|University of Bath
http://dx.doi.org/10.1101/041491 2016-02-26 Systems Biology The effect of domain growth on spatial correlations Robert JH Ross|Christian A Yates|Ruth E Baker University of Oxford;|University of Bath
http://dx.doi.org/10.1101/041301 2016-02-26 Neuroscience Learning In Spike Trains: Estimating Within-Session Changes In Firing Rate Using Weighted Interpolation Greg Jensen|Fabian Munoz|Vincent P Ferrera Columbia University
http://dx.doi.org/10.1101/041475 2016-02-26 Genomics CC BY Copy number variants in the sheep genome detected using multiple approaches Gemma M Jenkins|Michael E Goddard|Mik Black|Rudiger Brauning|Benoit Auvray|Ken G Dodds|James Kijas|Noelle Cockett|John C McEwan AbacuBio;|Victorian Department of Economic Development, Jobs, Transport and Resources;|Univeristy of Otago;|AgResearch;|University of Otago;|CSIRO;|Utah State University
http://dx.doi.org/10.1101/041558 2016-02-26 Microbiology Productive infection of field strains of avian coronavirus infectious bronchitis virus in chicken peripheral blood-derived monocyte Yueting Zhang|Gary Whittaker Cornell University
http://dx.doi.org/10.1101/041467 2016-02-26 Genomics Recurrent selection explains genomic regions of high relative but low absolute differentiation in the greenish warbler ring species Darren E. Irwin|Miguel Alcaide|Kira E. Delmore|Jessica H. Irwin|Gregory L. Owens University of British Columbia
http://dx.doi.org/10.1101/041368 2016-02-26 Neuroscience CC BY-NC-ND A watershed model of individual differences in fluid intelligence Rogier A Kievit|Simon W Davis|John D Griffiths|Marta M Correia|Richard N A Henson MRC-CBSU;|Duke University;|Rotman Research Institute
http://dx.doi.org/10.1101/041525 2016-02-26 Evolutionary Biology Generation of mutation hotspots in ageing bacterial colonies Agnieszka Sekowska|Sofie Wendel|Morten Helge Hauberg Norholm|Antoine Danchin AMAbiotics SAS;|Technical University of Denmark
http://dx.doi.org/10.1101/041277 2016-02-26 Bioinformatics CC BY VcfR: an R package to manipulate and visualize VCF format data Brian J Knaus|Niklaus J Grunwald USDA ARS
http://dx.doi.org/10.1101/041434 2016-02-26 Genetics The Genetic Architecture of Quantitative Traits Cannot Be Inferred From Variance Component Analysis Wen Huang|Trudy F.C. Mackay North Carolina State University
http://dx.doi.org/10.1101/041426 2016-02-26 Systems Biology CC BY-NC-ND The architecture of the human RNA-binding protein regulatory network Erik Dassi|Paola Zuccotti|Daniele Peroni|Valentina Potrich|Alessandro Quattrone University of Trento
http://dx.doi.org/10.1101/038711 2016-02-25 Biochemistry CC BY An open library of human kinase domain constructs for automated bacterial expression Daniel L. Parton|Sonya M. Hanson|Lucelenie Rodriguez-Laureano|Steven K. Albanese|Scott Gradia|Chris Jeans|Markus A. Seeliger|Nicholas M. Levinson|John D. Chodera Memorial Sloan Kettering Cancer Center;|Caribou Biosciences;|QB3 MacroLab, University of California, Berkeley;|Stony Brook University;|University of Minnesota;|Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/041285 2016-02-25 Genomics CC BY Histone H1 limits DNA methylation in Neurospora crassa Michael Seymour|Lexiang Ji|Alex M Santos|Masayuki Kamei|Takahiko Sasaki|Evelina Y Basenko|Robert J Schmitz|Xiaoyu Zhang|Zachary A Lewis University of Georgia, United States
http://dx.doi.org/10.1101/041376 2016-02-25 Ecology CC BY-NC The long-term sand crab study: phenology, geographic size variation, and a rare new colour morph in Lepidopa benedicti (Decapoda: Albuneidae) Zen Faulkes The University of Texas Rio Grande Valley
http://dx.doi.org/10.1101/041335 2016-02-25 Genetics Type 2 Diabetes Risk Prediction Incorporating Family History Revealing a Substantial Fraction of Missing Heritability Jungsoo Gim|Wonji Kim|Soo Heon Kwak|Kyung Soo Park|Sungho Won Seoul National University, Korea, Republic of;|Seoul National University Hospital, Korea, Republic of
http://dx.doi.org/10.1101/041327 2016-02-25 Microbiology CC BY-NC-ND South Asia as a reservoir for the global spread of ciprofloxacin resistant Shigella sonnei Hao Chung The|Maia A Rabaa|Duy Pham Thanh|Niall De Lappe|Martin Cormican|Benjamin P Howden|Sonam Wangchuk|Ladaporn Bodhidatta|Carl Jeffries|To Nguyen Thi Nguyen|Duong Vu Thuy|Corinne N Thompson|Nguyen Phu Huong Lan|Phat Voong Vinh|Tuyen Ha Thanh|Paul Turner|Poda Sar|Guy E Thwaites|Nicholas R Thompson|Kathryn E Holt|Stephen Baker OUCRU;|University Hospital Galway;|National University of Ireland Galway;|Microbiological Diagnostic Unit Public Health Laboratory;|Department of Public Health, Ministry of Health;|Armed Forces Research Institute of Medical Sciences (AFRIMS);|Mason;|Cambodia-Oxford Medical Research Unit;|Sanger;|Bio21 Molecular Science and Biotechnology Institute
http://dx.doi.org/10.1101/041418 2016-02-25 Genomics CC BY Horizontally transferred gene clusters in E. coli match size expectations from uber-operons Tin Yau Pang|Martin Lercher Heinrich-Heine-Universität Düsseldorf
http://dx.doi.org/10.1101/039438 2016-02-25 Ecology Tetraeffective causes of mortality and survivorship Michael Epelbaum Independent Multidisciplinary Scientist
http://dx.doi.org/10.1101/032946 2016-02-25 Bioinformatics How reliable are ligand-centric methods for Target Fishing? Antonio Peon|Cuong Dang|Pedro Ballester CRCM
http://dx.doi.org/10.1101/034694 2016-02-25 Bioinformatics MicroScope: comprehensive genome analysis software suite for gene expression heatmaps Bohdan B Khomtchouk|Vytas Dargis-Robinson|James R Hennessy|Claes Wahlestedt University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/026369 2016-02-25 Evolutionary Biology CC BY-NC-ND HacDivSel: Two new methods (haplotype-based and outlier-based) for the detection of divergent selection in pairs of populations of non-model species Antonio Carvajal-Rodriguez Universidad de Vigo
http://dx.doi.org/10.1101/041244 2016-02-24 Genetics A Powerful Procedure for Pathway-based Meta-Analysis Using Summary Statistics Identifies 43 Pathways Associated with Type II Diabetes in European Populations Han Zhang|William Wheeler|Paula L Hyland|Yifan Yang|Jianxin Shi|Nilanjan Chatterjee|Kai Yu NATIONAL CANCER INSTITUTE;|Information Management Services Inc;|Division of Cancer Epidemiology and Genetics, National Cancer Institute;|Department of Statistics, University of Kentucky;|Department of Biostatistics, Bloomberg School of Public Health, Johns Hopkins University
http://dx.doi.org/10.1101/041111 2016-02-24 Genetics Reassessment of Mendelian gene pathogenicity using 7,855 cardiomyopathy cases and 60,706 reference samples Roddy Walsh|Kate Thomson|James S Ware|Birgit H Funke|Jessica Woodley|Karen J McGuire|Francesco Mazzarotto|Edward Blair|Anneke Seller|Jenny C Taylor|Eric V Minikel|Daniel G MacArthur|Martin Farrall|Stuart A Cook|Hugh C Watkins Imperial College, London;|University of Oxford;|Harvard Medical School;|Oxford University Hospitals NHS Foundation Trust;|Broad Institute of MIT and Harvard;|Duke-National University of Singapore and Imperial College, London
http://dx.doi.org/10.1101/041202 2016-02-24 Neuroscience The foraging brain: evidence of Levy dynamics in brain networks Tommaso Costa|Giuseppe Boccignone|Franco Cauda|Mario Ferraro Focus Lab, Department of Psychology, University of Turin, Turin, Italy;|PHuSe Lab, Department of Computer Science, University of Milan, Milan, Italy;|Department of Physics, University of Turin, Turin, Italy
http://dx.doi.org/10.1101/040717 2016-02-24 Biophysics CC BY-ND Multiscale simulations reveal key features of the proton pumping mechanism in cytochrome c oxidase Ruibin Liang|Jessica M J Swanson|Yuxing Peng|Marten Wikstrom|Gregory Voth University of Chicago;|University of Helsinki
http://dx.doi.org/10.1101/041186 2016-02-24 Neuroscience CC BY-NC-ND Cortical feedback to V1 and V2 contains unique information about high-level scene structure. Andrew T Morgan|Lucy S Petro|Lars Muckli Centre for Cognitive Neuroimaging, Institute of Neuroscience and Psychology, University of Glasgow
http://dx.doi.org/10.1101/041178 2016-02-24 Developmental Biology CC BY Cellular aspects of gonadal atrophy in P-M hybrid dysgenesis Natalia Dorogova|Elena Bolobolova|Lyudmila Zakharenko Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences
http://dx.doi.org/10.1101/041012 2016-02-24 Developmental Biology foxc1a genetically interacts with ripply1 to regulate mesp-ba expression and somitogenesis in the zebrafish embryo Rotem Lavy|W. Ted Allison|Fred B Berry University of Alberta
http://dx.doi.org/10.1101/041152 2016-02-24 Neuroscience Focused Ultrasound Enhances Decision-Making in Monkeys Matthew Downs|Amanda Buch|Maria Eleni Karakatsani|Tobias Teichert|Carlos Sierra|Shangshang Chen|Elisa E Konofagou|Vincent P Ferrera Columbia University
http://dx.doi.org/10.1101/041095 2016-02-24 Ecology CC BY-NC Predicting intensities of Zika infection and microcephaly using transmission intensities of other arboviruses Isabel Rodriguez-Barraquer|Henrik Salje|Justin Lessler|Derek AT Cummings Johns Hopkins Bloomberg School of Public Health;|University of Florida
http://dx.doi.org/10.1101/041145 2016-02-23 Evolutionary Biology Natural selection driven by DNA binding proteins shapes genome-wide motif statistics Long Qian|Edo Kussell New York University
http://dx.doi.org/10.1101/036657 2016-02-23 Genetics CC BY-NC-ND Transethnic genetic correlation estimates from summary statistics Brielin C Brown|Chun Jimmie Ye|Alkes L Price|Noah Zaitlen UC Berkeley;|UC San Francisco;|Harvard School of Public Health
http://dx.doi.org/10.1101/041079 2016-02-23 Microbiology CC BY-ND Extrusions promote engulfment and Chlamydia survival within macrophages Meghan Zuck|Tisha C Ellis|Anthony Venida|Kevin Hybiske University of Washington;|University of California, Berkeley
http://dx.doi.org/10.1101/040493 2016-02-23 Genetics CC BY-NC-ND A contribution of novel CNVs to schizophrenia from a genome-wide study of 41,321 subjects Christian Marshall|Daniel Howrigan|Daniele Merico|Bhooma Thiruvahindrapuram|Wenting Wu|Douglas Greer|Daniel Antaki|Aniket Shetty|Peter Holmans|Dalila Pinto|Madhusudan Gujral|William Brandler|Dheeraj Malholtra|Zhouzhi Wang|Karin Fuentes Fajarado|Stephan Ripke|Ingrid Agartz|Esben Agerbo|Margot Albus|Madeline Alexander|Farooq Amin|Joshua Atkins|Silviu Bacanu|Richard Belliveau|Sarah Bergen|Marcelo Bertalan|Elizabeth Bevilacqua|Tim Bigdeli|Donald Black|Richard Bruggeman|Nancy Buccola|Randy Buckner|Brendan Bulik-Sullivan|William Byerley|Wiepke Cahn|Guiqing Cai|Murray Cairns|Dominique Campion|Rita Cantor|Vaughan Carr|Noa Carrera|Stanley Catts|Kimberley Chambert|Wei Cheng|Claude Cloninger|David Cohen|Paul Cormican|Nick Craddock|Benedicto Crespo-Facorro|James Crowley|David Curtis|Michael Davidson|Kenneth Davis|Franziska Degenhardt|Jurgen Del Favero|Lynn DeLisi|Ditte Demontis|Dimitris Dikeos|Timothy Dinan|Srdjan Djurovic|Gary Donohoe|Elodie Drapeau|Jubao Duan|Frank Dudbridge|Peter Eichhammer|Johan Eriksson|Valentina Escott-Price|Laurent Essioux|Ayman Fanous|Kai-How Farh|Martilias Farrell|Josef Frank|Lude Franke|Robert Freedman|Nelson Freimer|Joseph Friedman|Andreas Forstner|Menachem Fromer|Giulio Genovese|Lyudmila Georgieva|Elliot Gershon|Ina Giegling|Paola Giusti-Rodriguez|Stephanie Godard|Jacqueline Goldstein|Jacob Gratten|Lieuwe Haan|Marian Hamshere|Mark Hansen|Thomas Hansen|Vahram Haroutunian|Annette Hartmann|Frans Henskens|Stefan Herms|Joel Hirschhorn|Per Hoffmann|Andrea Hofman|Mads Hollegaard|David Hougaard|Hailiang Huang|Masashi Ikeda|Inge Joa|Anna Kahler|Rene Kahn|Luba Kalaydjieva|Juha Karjalainen|David Kavanagh|Matthew Keller|Brian Kelly|James Kennedy|Yunjung Kim|James Knowles|Bettina Konte|Claudine Laurent|Phil Lee|Sang Lee|Sophie Legge|Bernard Lerer|Deborah Levy|Kung-Yee Liang|Jeffrey Lieberman|Jouko Lonnqvist|Carmel Loughland|Patrik Magnusson|Brion Maher|Wolfgang Maier|Jacques Mallet|Manuel Mattheisen|Morten Mattingsdal|Robert McCarley|Colm McDonald|Andrew McIntosh|Sandra Meier|Carin Meijer|Ingrid Melle|Raquelle Mesholam-Gately|Andres Metspalu|Patricia Michie|Lili Milani|Vihra Milanova|Younes Mokrab|Derek Morris|Ole Mors|Bertram Muller-Myhsok|Kieran Murphy|Robin Murray|Inez Myin-Germeys|Igor Nenadic|Deborah Nertney|Gerald Nestadt|Kristin Nicodemus|Laura Nisenbaum|Annelie Nordin|Eadbhard O'Callaghan|Colm O'Dushlaine|Sang-Yun Oh|Ann Olincy|Line Olsen|F O'Neill|Jim Os|Christos Pantelis|George Papadimitriou|Elena Parkhomenko|Michele Pato|Tiina Paunio|Diana Perkins|Tune Pers|Olli PIetilainen|Jonathan Pimm|Andrew Pocklington|John Powell|Alkes Price|Ann Pulver|Shaun Purcell|Digby Quested|Henrik Rasmussen|Abraham Reichenberg|Mark Reimers|Alexander Richards|Joshua Roffman|Panos Roussos|Douglas Ruderfer|Veikko Salomaa|Alan Sanders|Adam Savitz|Ulrich Schall|Thomas Schulze|Sibylle Schwab|Edward Scolnick|Rodney Scott|Larry Seidman|Jianxin Shi|Jeremy Silverman|Jordan Smoller|Erik Soderman|Chris Spencer|Eli Stahl|Eric Strengman|Jana Strohmaier|T Scott Stroup|Jaana Suvisaari|Dragan Svrakic|Jin Szatkiewicz|Srinivas Thirumalai|Paul Tooney|Juha Veijola|Peter Visscher|John Waddington|Dermot Walsh|Bradley Webb|Mark Weiser|Dieter Wildenauer|Nigel Williams|Stephanie Williams|Stephanie Witt|Aaron Wolen|Brandon Wormley|Naomi Wray|Jing Wu|Clement Zai|Rolf Adolfsson|Ole Andreassen|Douglas Blackwood|Anders Borglum|Elvira Bramon|Joseph Buxbaum|Sven Cichon|David Collier|Aiden Corvin|Mark Daly|Ariel Darvasi|Enrico Domenici|Tonu Esko|Pablo Gejman|Michael Gill|Hugh Gurling|Christina Hultman|Nakao Iwata|Assen Jablensky|Erik Jonsson|Kenneth Kendler|George Kirov|Jo Knight|Douglas Levinson|Qingqin Li|Steven McCarroll|Andrew McQuillin|Jennifer Moran|Preben Mortensen|Bryan Mowry|Markus Nothen|Roel Ophoff|Michael Owen|Aarno Palotie|Carlos Pato|Tracey Petryshen|Danielle Posthuma|Marcella Rietschel|Brien Riley|Dan Rujescu|Pamela Sklar|David St Clair|James Walters|Thomas Werge|Patrick Sullivan|Michael O'Donovan|Stephen Scherer|Benjamin Neale|Jonathan Sebat The Hospital for Sick Children;|Massachusetts General Hospital;|University of California, San Diego;|Cardiff University;|Icahn School of Medicine at Mount Sinai;|University of Oslo;|Aarhus University;|State Mental Hospital;|Stanford University;|Emory University;|University of Newcastle;|Virginia Commonwealth University;|Broad Institute of MIT and Harvard;|Karolinska Institutet;|Mental Health Centre Sct. Hans;|University of Iowa Carver College of Medicine;|University of Groningen;|Louisiana State University Health Sciences Center;|Harvard University;|University of California at San Francisco;|Rudolf Magnus Institute of Neuroscience;|Schizophrenia Research Institute;|Centre Hospitalier du Rouvray and INSERM U1079;|University of California, Los Angeles;|University of Queensland;|University of North Carolina;|Washington University;|Assistance Publique Hospitaux de Paris;|Trinity College Dublin;|University of Cantabria;|Queen Mary University of London;|Sheba Medical Center;|University of Bonn;|University of Antwerp;|VA Boston Health Care System;|University of Athens Medical School;|University College Cork;|National University of Ireland Galway;|NorthShore University HealthSystem;|London School of Hygiene and Tropical Medicine;|University of Regensburg;|Biomedicum Helsinki;|F.Hoffman-La Roche;|Washington VA Medical Center;|University of Heidelberg;|University Medical Centre Groningen;|University of Colorado Denver;|University of Chicago;|University of Halle;|INSERM;|The University of Queensland;|Academic Medical Centre University of Amsterdam;|Illumina;|University of Basel;|Harvard Medical School;|Statens Serum Institut;|Fujita Health University School of Medicine;|Stavanger University Hospital;|The University of Western Australia;|University of Colorado Boulder;|Centre for Addiction and Mental Health;|University of Southern California;|Hadassah-Hebrew University Medical Center;|Johns Hopkins University Bloomberg School of Public Health;|Columbia University;|Johns Hopkins University;|Pitie-Salpetriere Hospital;|University of Edinburgh;|University of Amsterdam;|Beth Israel Deaconess Medical Center;|University of Tartu;|Medical University Bulgaria;|Eli Lilly;|Aarhus University Hospital;|Max Planck Institute of Psychiatry;|Royal College of Surgeons in Ireland;|Kings College London;|Maastricht University Medical Centre;|Jena University Hospital;|Johns Hopkins University School of Medicine;|Eli Lilly and Company;|Umea University;|DETECT;|University of California at Berkeley;|Mental Health Services Copenhagen;|Queen's University Belfast;|King's College London;|University of Melbourne;|National Institute for Health and Welfare;|Technical University of Denmark;|University of Helsinki;|University College London;|Harvard School of Public Health;|University of Oxford;|Janssen Research and Development;|University of Gottingen;|University of Erlangen;|National Cancer Institute;|Wellcome Trust Centre for Human Genetics;|University Medical Centre Utrecht;|Berkshire Healthcare NHS Foundation Trust;|University of Oulu;|Health Research Board;|Umea university;|Eli Lilly and Company Limited;|The Hebrew University of Jerusalem;|Roche Pharmaceuticals;|Estonian Genome Center;|VU University;|University of Aberdeen
http://dx.doi.org/10.1101/035543 2016-02-23 Genomics CC BY Identification and qualification of 500 nuclear, single-copy, orthologous genes for the Eupulmonata (Gastropoda) using transcriptome sequencing and exon-capture Luisa C Teasdale|Frank Koehler|Kevin D Murray|Tim O'Hara|Adnan Moussalli Sciences Department, Museum Victoria and the School of BioSciences, the University of Melbourne;|Australian Museum;|Division of Plant Sciences, Research School of Biology, Australian National University;|Sciences Department, Museum Victoria
http://dx.doi.org/10.1101/040998 2016-02-23 Plant Biology CC BY-NC Pooled enrichment sequencing identifies diversity and evolutionary pressures at NLR resistance genes within a wild tomato population. Remco Stam|Daniela Scheikl|Aurelien Tellier Technische Universitat Munchen
http://dx.doi.org/10.1101/040956 2016-02-23 Cell Biology Transcriptional pulsing of a nucleolar transgene Viola Vankova Hausnerova|Pavel Krizek|Guy M. Hagen|Christian Lanctot BIOCEV, Charles University in Prague;|First Faculty of Medicine, Charles University in Prague
http://dx.doi.org/10.1101/041004 2016-02-23 Neuroscience On the regulator of spike activity in cortical neurons under hypothermic conditions Yulia S. Mednikova|Nadezda M. Zakharova|Natalia V. Pasikova|Inna V. Averina Institute of Higher Nervous Activity and Neurophysiology RAS;|Institute of Cell Biophysics RAS
http://dx.doi.org/10.1101/040741 2016-02-23 Biochemistry CC BY-ND Coarse-grained simulation reveals key features of HIV-1 capsid self-assembly John M A Grime|James F Dama|Barbie K Ganser-Pornillos|Cora L Woodward|Grant J Jensen|Mark J Yeager|Gregory Voth University of Chicago;|University of Virginia School of Medicine;|California Institute of Technology;|California Institute of Technology, Howard Hughes Medical Institute;|University of Virginia School of Medicine,
http://dx.doi.org/10.1101/040659 2016-02-23 Ecology Eco-evolutionary buffering: rapid evolution facilitates regional coexistence of species engaged in local priority effects Meike J. Wittmann|Tadashi Fukami University of Vienna;|Stanford University
http://dx.doi.org/10.1101/040964 2016-02-23 Systems Biology CC BY Exploitation by cheaters facilitates the preservation of essential public goods in microbial communities Clara Moreno-Fenoll|Matteo Cavaliere|Esteban Martinez-Garcia|Juan F Poyatos Spanish National Biotechnology Centre (CNB-CSIC);|Spanish National Biotechnology Centre (CNB-CSIC), University of Edinburgh
http://dx.doi.org/10.1101/040931 2016-02-23 Systems Biology CC BY Genetic redundancies enhance information transfer in noisy regulatory circuits Guillermo Rodrigo|Juan F Poyatos Instituto de Biologia Molecular y Celular de Plantas, CSIC-UPV, 46022 Valencia, Spain;|Spanish National Biotechnology Centre (CNB-CSIC), 28049 Madrid, Spain
http://dx.doi.org/10.1101/040980 2016-02-23 Evolutionary Biology CC BY Bayesian Inference of the Evolution of a Phenotype Distribution on a Phylogenetic Tree M Azim Ansari|Xavier Didelot Oxford Martin School, University of Oxford;|Department of Infectious Disease Epidemiology, Imperial College London
http://dx.doi.org/10.1101/040923 2016-02-23 Plant Biology CC BY-NC-ND A new advanced backcross tomato population enables high resolution leaf QTL mapping and gene identification Daniel Fulop|Aashish Ranjan|Itai Ofner|Michael F. Covington|Daniel H. Chitwood|Donnelly West|Yasunori Ichihashi|Lauren Headland|Daniel Zamir|Julin N. Maloof|Neelima R. Sinha UC Davis;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/041038 2016-02-23 Genomics CC BY-ND Interplay between copy number, dosage compensation and expression noise in Drosophila Dong-Yeon Cho|Hangnoh Lee|Damian Wojtowicz|Steven Russell|Brian Oliver|Teresa M Przytycka National Center for Biotechnology Information, National Institutes of Health;|National Institute of Diabetes and Digestive and Kidney Diseases;|Department of Genetics and Cambridge Systems Biology Centre, University of Cambridge
http://dx.doi.org/10.1101/026989 2016-02-23 Neuroscience CC BY-NC Cortical idiosyncrasies predict the perception of object size Christina Moutsiana|Benjamin de Haas|Andriani Papageorgiou|Jelle A van Dijk|Annika Balraj|John A Greenwood|D. Sam Schwarzkopf UCL;|George Washington University
http://dx.doi.org/10.1101/030569 2016-02-23 Bioinformatics CC BY-ND 4C-ker: A method to reproducibly identify genome-wide interactions captured by 4C-Seq experiments Ramya Raviram|Pedro P. Rocha|Christian L. Muller|Emily R. Miraldi|Sana Badri|Yi Fu|Emily Swanzey|Charlotte Proudhon|Valentina Snetkova|Richard Bonneau|Jane Skok New York University School of Medicine,;|Simons Foundation;|New York University School of Medicine
http://dx.doi.org/10.1101/023291 2016-02-23 Neuroscience CC BY Topology, cross-frequency, and same-frequency band interactions shape the generation of phase-amplitude coupling in a neural mass model of a cortical column Roberto Sotero University of Calgary
http://dx.doi.org/10.1101/031781 2016-02-23 Evolutionary Biology CC BY-NC-ND Hybrid dysgenesis in Drosophila simulans associated with a rapid global invasion of the P-element Tom Hill|Christian Schlotterer|Andrea J Betancourt Vetmeduni Vienna
http://dx.doi.org/10.1101/040733 2016-02-22 Developmental Biology CC BY-NC-ND Bayesian analysis of normal mouse cell lineage trees allowing intra-individual, cell population specific mutation rates Attila Csordas|Remco Bouckaert European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI);|University of Auckland, New Zealand
http://dx.doi.org/10.1101/040675 2016-02-22 Bioinformatics CC BY BuddySuite: Command-line toolkits for manipulating sequences, alignments, and phylogenetic trees Stephen R Bond|Karl E Keat|Andreas D Baxevanis National Human Genome Research Institute, National Institutes of Health
http://dx.doi.org/10.1101/040295 2016-02-22 Genomics Genome-culture coevolution promotes rapid divergence in the killer whale Andrew Foote|Nagarjun Vijay|Maria Avila-Arcos|Robin Baird|John Durban|Phillip Morin|Matteo Fumagalli|Richard Gibbs|Bradley Hanson|Thorfinn Korneliussen|Michael Martin|Kelly Robertson|Vitor Sousa|Filipe Vieira|Tomas Vinar|Paul Wade|Kim Worley|Laurent Excoffier|Thomas Gilbert|Jochen Wolf Uppsala University;|Stanford University;|Cascadia Research;|Southwest Fisheries Science Center;|University College London;|Baylor College of Medicine;|Northwest Fisheries Science Center;|University of Copenhagen;|University of Bern;|Comenius University;|National Marine Mammal Laboratory
http://dx.doi.org/10.1101/040592 2016-02-22 Genomics eQTL in a Precisely Defined Tomato Introgression Population Reveal Genetic Regulation of Gene Expression Patterns Related to Physiological and Developmental Pathways Aashish Ranjan|Jessica M Budke|Steven D Rowland|Daniel H Chitwood|Ravi Kumar|Leonela Carriedo|Yasunori Ichihashi|Kristina Zumstein|Julin N Maloof|Neelima R Sinha National Institute of Plant Genome Research, New Delhi, New Delhi;|Department of Plant Biology, University of California at Davis, Davis, California;|Donald Danforth Plant Science Center, Saint Louis;|Novozymes, Inc., Davis, California;|RIKEN Center for Sustainable Resource Science, Yokohama City, Kanagawa, Japan
http://dx.doi.org/10.1101/040584 2016-02-22 Genomics CC BY Integrating genomics into clinical pediatric oncology using the molecular tumor board at the Memorial Sloan Kettering Cancer Center Michael V. Ortiz|Rachel Kobos|Michael Walsh|Emily K. Slotkin|Stephen Roberts|Michael F. Berger|Meera Hameed|David Solit|Marc Ladanyi|Neerav Shukla|Alex Kentsis Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/040618 2016-02-22 Evolutionary Biology CC BY Analytical results for directional and quadratic selection gradients for log-linear models of fitness functions Michael Morrissey|Ian B. J. Goudie University of St Andrews
http://dx.doi.org/10.1101/040626 2016-02-22 Evolutionary Biology CC BY-NC-ND Experimental evolution of modern Escherichia coli harboring an ancient Elongation Factor gene Betul Kacar|Lily I Tran|Xueliang Ge|Suparna Sanyal|Eric A. Gaucher Georgia Institute of Technology;|Uppsala University
http://dx.doi.org/10.1101/040576 2016-02-22 Genetics Explaining Missing Heritability Using Gaussian Process Regression Kevin Sharp|Wim Wiegerinck|Alejandro Arias-Vasquez|Barbara Franke|Jonathan Marchini|Cornelis A Albers|Hilbert J Kappen University of Oxford;|Radboud University, Nijmegen;|Radboud University Medical Centre, Nijmegen
http://dx.doi.org/10.1101/040667 2016-02-22 Bioinformatics CC BY-ND CAGEd-oPOSSUM: motif enrichment analysis from CAGE-derived TSSs David J Arenillas|Alistair R.R. Forrest|Hideya Kawaji|Timo Lassman|Wyeth W. Wasserman|Anthony Mathelier University of British Columbia;|RIKEN Omics Science Center;|Telethon Kids Institute, The University of Western Australia;|University of British Columbia, Vancouver, Canada
http://dx.doi.org/10.1101/040600 2016-02-22 Evolutionary Biology The molecular chaperone DnaK accelerates protein evolution Jose Aguilar-Rodriguez|Beatriz Sabater-Munoz|Victor Berlanga|David Alvarez-Ponce|Andreas Wagner|Mario A. Fares University of Zurich;|University of Dublin, Trinity College Dublin;|Instituto de Biologia Molecular y Celular de Plantas (CSIC-UPV), Valencia, Spain;|University of Nevada
http://dx.doi.org/10.1101/040634 2016-02-22 Bioinformatics CC BY-ND Boiler: Lossy compression of RNA-seq alignments using coverage vectors Jacob Pritt|Ben Langmead Johns Hopkins University
http://dx.doi.org/10.1101/040352 2016-02-22 Bioinformatics Kronos: a workflow assembler for genome analytics and informatics M Jafar Taghiyar|Jamie Rosner|Diljot Grewal|Bruno Grande|Radhouane Aniba|Jasleen Grewal|Paul C Boutros|Ryan D Morin|Ali Bashashati|Sohrab P Shah BC Cancer Agency;|Simon Fraser University;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/040543 2016-02-22 Plant Biology PARAQUAT TOLERANCE3 is an E3 ligase and acts as a negative regulator of oxidative stress response Chao Luo|Xiaoteng Cai|Jin Du|Tao-Lan Zhao|Peng-Fei Wang|Ping-Xia Zhao|Rui Liu|Qi Xie|Xiaofeng Cao|Chengbin Xiang School of Life Sciences. USTC;|Institute of Genetics and Developmental Biology, CAS;|School of Life Sciences
http://dx.doi.org/10.1101/040568 2016-02-22 Genetics CC BY-NC-ND The non-essentiality of essential genes suggests a loss-of-function therapeutic strategy for loss-of-function human diseases Piaopiao Chen|Dandan Wang|Han Chen|Zhenzhen Zhou|Xionglei He Sun Yat-sen University
http://dx.doi.org/10.1101/024257 2016-02-22 Evolutionary Biology CC BY-NC-ND Core variability in substitution rates and the basal sequence characteristics of the human genome Aleksandr B. Sahakyan|Shankar Balasubramanian University of Cambridge
http://dx.doi.org/10.1101/040527 2016-02-22 Genomics CC BY Declaring a tuberculosis outbreak over with genomic epidemiology Hollie-Ann Hatherell|Xavier Didelot|Sue L Pollock|Patrick Tang|Anamaria Crisan|James C. Johnston|Caroline Colijn|Jennifer Gardy University College London;|Imperial College London;|Interior Health Authority;|British Columbia Centre for Disease Control Public Health Laboratory;|British Columbia Centre for Disease Control
http://dx.doi.org/10.1101/040519 2016-02-21 Genomics Microarray analysis identifies malignant field signatures in biopsy samples at diagnosis predicting the likelihood of lethal disease in patients with localized Gleason 6 and 7 prostate cancer. Gennadi Glinsky University of California, San Diego
http://dx.doi.org/10.1101/039511 2016-02-21 Genomics CC BY-NC-ND Population scale mapping of novel transposable element diversity reveals links to gene regulation and epigenomic variation Tim Stuart|Steven R Eichten|Jonathan Cahn|Justin O Borevitz|Ryan Lister The University of Western Australia;|The Australian National University
http://dx.doi.org/10.1101/040477 2016-02-21 Bioinformatics CC BY-NC-ND Enabling the democratization of the genomics revolution with a fully integrated web-based bioinformatics platform Po-E Li|Chien-Chi Lo|Joseph J. Anderson|Karen W. Davenport|Kimberly A. Bishop-Lilly|Yan Xu|Sanaa Ahmed|Shihai Feng|Vishwesh P. Mokashi|Patrick S. G. Chain Los Alamos National Laboratory;|Naval Medical Research Center
http://dx.doi.org/10.1101/040501 2016-02-21 Plant Biology Arabidopsis ATHB17 coordinates nuclear and plastidic photosynthesis gene expression in response to abiotic stress Ping Zhao|Rong Cui|Ping Xu|Jieli Mao|Yu Chen|Congzhao Zhou|Linhui Yu|Chengbin Xiang School of Life Sciences, USTC;|School of Life Sciences
http://dx.doi.org/10.1101/040436 2016-02-21 Cancer Biology CC BY-NC In-silico analysis of MHC genes in hereditary colorectal cancer shows identical by state SNP sharing affecting HLA-DQB1 binding groove Mahmoud Koko|Suleiman Hussein Suleiman|Mohammed Omar Elsiddieg Abdallah|Muhallab Saad|Muntaser Ibrahim Institute of Endemic Disease;|Soba University Hospital;|Institute of Endemic Diseases
http://dx.doi.org/10.1101/040394 2016-02-21 Genomics Identifying Network Perturbation in Cancer Maxim Grechkin|Benjamin A Logsdon|Andrew J Gentles|Su-In Lee University of Washintgton;|Sage Bionetworks;|Stanford University;|University of Washington
http://dx.doi.org/10.1101/039933 2016-02-20 Genetics CC BY-NC-ND Aging shapes the population-mean and -dispersion of gene expression in human brains Candice L Brinkmeyer-Langford|Jinting Guan|Guoli Ji|James J Cai Texas A&M University;|Xiamen University
http://dx.doi.org/10.1101/040162 2016-02-19 Cancer Biology CC BY-NC-ND Single-chromosome aneuploidy commonly functions as a tumor suppressor Jason Meyer Sheltzer|Julie H. Ko|Nicole C. Habibe Burgos|Erica S. Chung|Colleen M. Meehl|Verena Passerini|Zuzana Storchova|Angelika Amon Cold Spring Harbor Laboratory;|Massachusetts Institute of Technology;|Albert Einstein College of Medicine;|Max Planck Institute of Biochemistry
http://dx.doi.org/10.1101/040428 2016-02-19 Genetics CC BY-NC-ND CRISPR-directed mitotic recombination enables genetic mapping without crosses Meru J Sadhu|Joshua S Bloom|Laura Day|Leonid Kruglyak University of California, Los Angeles
http://dx.doi.org/10.1101/040402 2016-02-19 Ecology Metaproteomics reveals biomarkers of system collapse in a dynamic aquatic ecosystem Amanda C. Northrop|Rachel Brooks|Aaron M. Ellison|Nicholas J. Gotelli|Bryan A. Ballif University of Vermont;|Harvard Forest, Harvard University
http://dx.doi.org/10.1101/040246 2016-02-19 Ecology A universal model for carbon dioxide uptake by plants Han Wang|Iain Colin Prentice|William Cornwell|Trevor Keenan|Tyler Davis|Ian Wright|Bradley Evans|Changhui Peng Northwest A&F University;|Imperial College London;|The University of New South Wales;|Macquarie University;|United States Department of Agriculture-Agricultural Research Service;|The University of Sydney;|University of Quebec at Montreal
http://dx.doi.org/10.1101/040261 2016-02-19 Bioinformatics CC BY-NC-ND StrainSeeker: fast identification of bacterial strains from unassembled sequencing reads using user-provided guide trees. Mart Roosaare|Mihkel Vaher|Lauris Kaplinski|Mart Mols|Reidar Andreson|Maarja Lepamets|Triinu Koressaar|Paul Naaber|Siiri Koljalg|Maido Remm University of Tartu;|synlab Eesti
http://dx.doi.org/10.1101/040204 2016-02-19 Ecology CC BY The case for a dynamical subsurface ecosystem Cara Magnabosco|Peer H.A. Timmers|Maggie C.Y. Lau|Gaetan Borgonie|Borja Linage-Alvarez|Olukayode Kuloyo|Rose Alleva|Thomas L. Kieft|Greg S. Slater|Esta van Heerden|Barbara Sherwood Lollar|Tullis C. Onstott Princeton University;|Wageningen University;|Extreme Life Isyensya;|University of the Free State;|New Mexico Institute to Mining and Technology;|McMaster University;|University of Toronto
http://dx.doi.org/10.1101/040279 2016-02-19 Cell Biology CC BY-NC-ND Comparative assessment of fluorescent proteins for in vivo imaging in an animal model system Jennifer K Heppert|Daniel J Dickinson|Ariel M Pani|Christopher D Higgins|Annette Steward|Julie Ahringer|Jeffrey R Kuhn|Bob Goldstein University of North Carolina at Chapel Hill;|University of Cambridge;|University of Texas at Austin
http://dx.doi.org/10.1101/040014 2016-02-19 Scientific Communication Evaluation of Techniques for Performing Cellular Isolation and Preservation during Microgravity Conditions Lindsay F Rizzardi|Hawley Kunz|Kathleen Rubins|Alexander Chouker|Heather Quiriarte|Clarence Sams|Brian Crucian|Andrew P Feinberg Johns Hopkins University School of Medicine;|Science, Technology and Engineering Group, Wyle Laboratories;|Astronaut Office, NASA Johnson Space Center;|Department of Anesthesiology, Hospital of the Ludwig-Maximilians-University;|JES Tech;|Space and Clinical Operations Division, NASA Johnson Space Center;|Biomedical Research and Environmental Sciences Division, NASA Johnson Space Center
http://dx.doi.org/10.1101/040360 2016-02-19 Ecology Do persistent rare species experience stronger negative frequency dependence than common species? Glenda Yenni|Peter Adler|Morgan Ernest University of Florida;|Utah State University
http://dx.doi.org/10.1101/040345 2016-02-19 Bioinformatics CC BY-NC-ND MetaCycle: an integrated R package to evaluate periodicity in large scale data Gang Wu|Ron C Anafi|Michael E Hughes|Karl Kornacker|John B Hogenesch University of Pennsylvania School of Medicine;|University of Missouri St. Louis;|The Ohio State University
http://dx.doi.org/10.1101/040170 2016-02-19 Bioinformatics CC BY-NC-ND variancePartition: Interpreting drivers of variation in complex gene expression studies Gabriel E Hoffman|Eric E Schadt Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/040048 2016-02-19 Cell Biology CC BY-ND Rigidity of silicone substrates controls cell spreading and stem cell differentiation Grigory Vertelov|Edgar Gutierrez|Sin-Ae Lee|Edward Ronan|Alex Groisman|Eugene Tkachenko Stemedica Inc.;|UCSD
http://dx.doi.org/10.1101/040337 2016-02-19 Cell Biology CC BY-NC-ND C. elegans paraoxonase-like proteins control the functional expression of DEG/ENaC mechanosensory proteins Yushu Chen|Shashank Bharill|Zeynep Altun|Robert O'Hagan|Brian Coblitz|Ehud I. Isacoff|Martin Chalfie Columbia University;|University of California, Berkeley;|Albert Einstein College of Medicine;|Rutgers
http://dx.doi.org/10.1101/039503 2016-02-19 Ecology Stochastic processes dominate community assembly in cichlid communities in Lake Tanganyika Thijs Janzen|Adriana Alzate|Moritz Muschick|Fons van der Plas|Rampal S. Etienne Max Planck Institute for Evolutionary Biology;|University of Groningen, Groningen Institute for Evolutionary Life Sciences, Groningen, The Nethe;|Department of Fish Ecology & Evolution, EAWAG Centre for Ecology, Evolution and Biogeochemistry;|Institute of Plant Sciences, University of Bern, Altenbergrain 21, 3013 Bern, Switzerland
http://dx.doi.org/10.1101/037077 2016-02-19 Genetics Genetic regulation of transcriptional variation in natural Arabidopsis thaliana accessions Yanjun Zan|Xia Shen|Simon K G Forsberg|Orjan Carlborg Swedish University of Agricultural Sciences;|Karolinska Institutet
http://dx.doi.org/10.1101/035758 2016-02-19 Genomics CC BY-NC-ND Comparative analysis of single-cell RNA-sequencing methods Christoph Ziegenhain|Swati Parekh|Beate Vieth|Martha Smets|Heinrich Leonhardt|Ines Hellmann|Wolfgang Enard Ludwig-Maximilians University Munich
http://dx.doi.org/10.1101/034058 2016-02-19 Genomics CC BY-NC-ND The reported healthy ageing gene expression score: lack of association in two cohorts Luke C Pilling|Lorna W Harries|Dena G Hernandez|Andrew B Singleton|George A Kuchel|Luigi Ferrucci|David Melzer Institute of Biomedical and Clinical Science, University of Exeter Medical School;|Laboratory of Neurogenetics, National Institute on Aging;|Division of Geriatrics, University of Connecticut Health Center;|Clinical Research Branch, National Institute on Aging
http://dx.doi.org/10.1101/040238 2016-02-19 Biochemistry CC BY-NC-ND Y-box protein 1 is required to sort microRNAs into exosomes in cells and in a cell-free reaction Matthew Shurtleff|Kate V. Karfilis|Morayma Temoche-Diaz|Sayaka Ri|Randy Schekman UC Berkeley;|University of Oregon
http://dx.doi.org/10.1101/040154 2016-02-19 Evolutionary Biology High-resolution maps of hunter-gatherer social networks reveal human adaptation for cultural exchange Andrea Bamberg Migliano|Abigail Page|Jesus Gomez-Gardenes|Sylvain Viguier|Mark Dyble|James Thompson|Nikhill Chaudhary|Gul Deniz Salali|Daniel Smith|Janis Strods|Vito Latora|Ruth Mace|Lucio Vinicius University College London;|University of Zaragoza;|Queens Mary University
http://dx.doi.org/10.1101/040196 2016-02-19 Bioinformatics CC BY Reconstruction of ancestral genomes in presence of gene gain and loss. Pavel Avdeyev|Shuai Jiang|Sergey Aganezov|Fei Hu|Max A. Alekseyev The George Washington University;|University of South Carolina
http://dx.doi.org/10.1101/040220 2016-02-19 Ecology CC BY-NC-ND Sentinel versus passive surveillance for measuring changes in dengue incidence: Evidence from three concurrent surveillance systems in Iquitos, Peru Sandra Olkowski|Steven T. Stoddard|Eric S. Halsey|Amy C. Morrisson|Christopher M. Barker|Thomas W. Scott University of California, Davis;|U.S. Naval Medical Research Unit No. 6, Lima, Peru
http://dx.doi.org/10.1101/040212 2016-02-18 Cell Biology CC BY-NC-ND Non-homologous DNA increases gene disruption efficiency by altering DNA repair outcomes Christopher D Richardson|Grahm J Ray|Jacob E Corn University of California, Berkeley
http://dx.doi.org/10.1101/040188 2016-02-18 Evolutionary Biology Conserved gene clusters in the scrambled plastomes of IRLC legumes (Fabaceae: Trifolieae and Fabeae). Saemundur Sveinsson|Quentin Cronk Agricultrual University of Iceland;|University of British Columbia
http://dx.doi.org/10.1101/040121 2016-02-18 Bioinformatics CC BY Combating Chagas Disease Through Inhibition of Tiam1, a Rho GTPase Guanine Nucleotide Exchange Factor Chirag Krishna|Li Xie|Philip Bourne|Celine DerMarderossian University of California, San Diego;|Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla,;|NIH;|The Scripps Research Institute, Department of Immunology and Microbial Science, La Jolla, California
http://dx.doi.org/10.1101/040030 2016-02-18 Neuroscience Selective maintenance mechanisms of seen and unseen sensory features in the human brain Jean-Remi KING|Niccolo Pescetelli|Stanislas Dehaene New York University;|Oxford University;|College de France
http://dx.doi.org/10.1101/039883 2016-02-18 Ecology CC BY-NC-ND Bimodal occupancy-frequency distributions uncover the importance of regional dynamics in shaping marine microbial biogeography Markus V Lindh|Johanna Sjostedt|Borje Ekstam|Michele Casini|Daniel Lundin|Luisa W Hugerth|Yue O. O. Hu|Anders F Andersson|Agneta Andersson|Catherine Legrand|Jarone Pinhassi Linnaeus University;|Swedish University of Agricultural Sciences;|KTH Royal Institute of Technology;|Umea University;|Linnaeus Unviersity
http://dx.doi.org/10.1101/040097 2016-02-18 Ecology CC BY-NC-ND A Family of Interaction-Adjusted Indices of Community Similarity Thomas Sebastian Benedikt Schmidt|Joao Frederico Matias Rodrigues|Christian von Mering Institute of Molecular Life Sciences, University of Zurich
http://dx.doi.org/10.1101/040105 2016-02-18 Ecology CC BY-NC-ND Plant diversity accurately predicts insect diversity in two tropical landscapes Kai Zhang|Siliang Lin|Yinqiu Ji|Chenxue Yang|Xiaoyang Wang|Chunyan Yang|H. Wang|Haisheng Jiang|Rhett Harrison|Douglas W. Yu Kunming Institute of Zoology;|South China Normal University;|Hainan Yinggeling National Nature Reserve;|World Agroforestry Center
http://dx.doi.org/10.1101/040139 2016-02-18 Microbiology Working with Zika and Usutu Viruses in Vitro Kelli Barr|Benjamin Anderson|Maureen Long University of Florida;|Duke University
http://dx.doi.org/10.1101/040113 2016-02-18 Genetics Exploiting single-cell quantitative data to map genetic variants having probabilistic effects Florent Chuffart|Magali Richard|Daniel Jost|Helene Duplus-Bottin|Yoshikazu Ohya|Gael Yvert CNRS, Ecole Normale Superieure de Lyon;|CNRS, University Grenoble Alpes;|University of Tokyo
http://dx.doi.org/10.1101/039800 2016-02-18 Bioinformatics CC BY Semi-Supervised Learning of the Electronic Health Record with Denoising Autoencoders for Phenotype Stratification Brett K Beaulieu-Jones|Casey S Greene University of Pennsylvania
http://dx.doi.org/10.1101/040022 2016-02-18 Genomics Shared molecular neuropathology across major psychiatric disorders parallels polygenic overlap Michael J Gandal|Jillian Haney|Neelroop Parikshak|Virpi Leppa|Steve Horvath|Dan H Geschwind UCLA
http://dx.doi.org/10.1101/028399 2016-02-18 Genomics CC BY Basset: Learning the regulatory code of the accessible genome with deep convolutional neural networks. David R Kelley|Jasper Snoek|John Rinn Harvard University
http://dx.doi.org/10.1101/040071 2016-02-18 Bioinformatics Succinct Colored de Bruijn Graphs Keith Belk|Christina Boucher|Alexander Bowe|Travis Gagie|Paul Morley|Martin D Muggli|Noelle R Noyes|Simon J Puglisi|Rober Raymond Department of Animal Sciences, Colorado State University, Fort Collins, CO;|Department of Computer Science, Colorado State University, Fort Collins, CO;|National Institute of Informatics, Chiyoda-ku, Tokyo, Japan;|Department of Computer Science, University of Helsinki, Finland;|Department of Clinical Sciences, Colorado State University, Fort Collins, CO
http://dx.doi.org/10.1101/040147 2016-02-18 Genomics Targeted Deletion of Vitamin D receptor Gene in Mammalian Cells by CRISPR/Cas9 Systems Tao zhang|Ling Wang|Kun Xu|Chonghua Ren|Zhongtian Liu|Zhiying Zhang College of Animal Science & Technology, Northwest A&F University, China;|School of Bioscience and Engineering, Shaanxi University of Technology, China
http://dx.doi.org/10.1101/039834 2016-02-18 Molecular Biology CC BY-ND Osteosarcoma with apparent Ewing sarcoma gene rearrangement Melissa Mathias|Alexander Chou|Paul Meyers|Neerav Shukla|Meera Hameed|Narasimhan Agaram|Lulu Wang|Michael Berger|Michael Walsh|Alex Kentsis Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/040089 2016-02-18 Genetics CC BY-NC-ND Local joint testing improves power and identifies missing heritability in association studies Brielin C Brown|Alkes Price|Nikolaos Patsopoulos|Noah Zaitlen UC Bekeley, United States;|Harvard School of Public Health, United States;|Brigham and Womens Hospital, United States;|UCSF, United States
http://dx.doi.org/10.1101/039925 2016-02-18 Microbiology CC BY-NC-ND Inducible colistin resistance via a disrupted plasmid-borne mcr-1 gene in a 2008 Vietnamese Shigella sonnei isolate Duy Pham Thanh|Ha Thanh Tuyen|To Nguyen Thi Nguyen|Hao Chung The|Ryan R Wick|Guy Thwaites|Stephen Baker|Kathryn E Holt The Hospital for Tropical Diseases, Wellcome Trust Major Overseas Programme, Oxford University Clini;|Centre for Systems Genomics, University of Melbourne
http://dx.doi.org/10.1101/039917 2016-02-18 Ecology CC BY-NC-ND A fractional order network model for ZIKA H. Elsaka|E. Ahmed Damietta Faculty of Science, Egypt;|Mansoura Faculty of Science
http://dx.doi.org/10.1101/039966 2016-02-18 Evolutionary Biology Into the tropics: phylogenomics and evolutionary dynamics of a contrarian clade of ants Michael G. Branstetter|John T. Longino|Joaquin Reyes-Lopez|Ted R. Schultz|Sean G. Brady University of Utah;|Universidad de Córdoba;|Smithsonian Institution (NMNH)
http://dx.doi.org/10.1101/029132 2016-02-18 Genetics CC BY-NC-ND Transcriptome Analysis of Cortical Tissue Reveals Shared Sets of Down-Regulated Genes in Autism and Schizophrenia Shannon E Ellis|Rebecca Panitch|Andrew West|Dan E Arking Johns Hopkins University School of Medicine;|University of Alabama-Birmingham
http://dx.doi.org/10.1101/035642 2016-02-18 Bioinformatics CC BY Establishing evidenced-based best practice for the de novo assembly and evaluation of transcriptomes from non-model organisms Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/037960 2016-02-18 Evolutionary Biology CC BY-ND Evolutionary inference across eukaryotes identifies specific pressures favoring mitochondrial gene retention Iain G Johnston|Ben P Williams University of Birmingham;|Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/039867 2016-02-18 Evolutionary Biology A Central Limit Theorem for Punctuated Equilibrium Krzysztof Bartoszek Department of Mathematics, Uppsala University
http://dx.doi.org/10.1101/039545 2016-02-18 Genomics CC BY-NC Intelligence and neuroticism in relation to depression and psychological distress: evidence of interaction using data from Generation Scotland: Scottish Family Health Study and UK Biobank Lauren B Navrady|Stuart J Ritchie|Stella WY Chan|Daniel M Kerr|Mark J Adams|Emma Hawkins|David J Porteous|Ian J Deary|Catherine R Gale|David G Batty|Andrew M McIntosh University of Edinburgh;|University of Southampton
http://dx.doi.org/10.1101/034801 2016-02-17 Ecology CC BY Microbial contributions to subterranean methane sinks Jay T Lennon|D Nguyen-Thuy|N Pham Duc|A Drobniak|P Ta Hoa|T Pham|T Streil|Kevin Webster|Arndt Schimmelmann Indiana University;|Vietnam National University;|Indiana Geological Survey;|SARAD GmbH
http://dx.doi.org/10.1101/039594 2016-02-17 Genomics CC BY-NC-ND Response to Commentary on "Limitations of GCTA as a solution to the missing heritability problem" Siddharth Krishna Kumar|Marcus W Feldman|David H Rehkopf|Shripad Tuljapurkar Stanford University
http://dx.doi.org/10.1101/031765 2016-02-17 Neuroscience CC BY Natural scene movie responses are more precise, reliable & sparse in synchronized than desynchronized cat V1 Martin A Spacek|Nicholas V Swindale University of British Columbia
http://dx.doi.org/10.1101/031948 2016-02-17 Developmental Biology CC BY-NC-ND Towards a study of gene regulatory constraints to morphological evolution of the Drosophila ocellar region Daniel Aguilar-Hidalgo|David Becerra-Alonso|Diana Garcia-Morales|Fernando Casares Max Planck Institute for the Physics of Complex Systems;|Universidad Loyola Andalucia (AYRNA);|CABD (Andalusian Centre for Developmental Biology), CSIC-UPO-JA, Campus Universidad Pablo de Olavide
http://dx.doi.org/10.1101/017921 2016-02-17 Pharmacology CC BY-NC Rapid quantitative pharmacodynamic imaging with Bayesian estimation Jonathan M Koller|M. Jonathan Vachon|G. Larry Bretthorst|Kevin J Black Washington University in St. Louis
http://dx.doi.org/10.1101/026617 2016-02-17 Neuroscience CC BY Quantitative neuroanatomy for connectomics in Drosophila Casey M Schneider-Mizell|Stephan Gerhard|Mark Longair|Tom Kazimiers|Feng Li|Maarten F. Zwart|Andrew Champion|Frank Midgley|Richard Fetter|Stephan Saalfeld|Albert Cardona Janelia Research Campus, Howard Hughes Medical Institutes;|Institute of Neuroinformatics, University of Zurich and ETH Zurich
http://dx.doi.org/10.1101/014852 2016-02-17 Ecology CC BY-NC-ND After the games are over: life-history trade-offs drive dispersal attenuation following range expansion Alex Perkins|Carl Boettiger|Ben Phillips University of Notre Dame;|University of California, Berkeley;|University of Melbourne
http://dx.doi.org/10.1101/039958 2016-02-17 Cell Biology CELL SEGMENTATION WITH RANDOM FERNS AND GRAPH-CUTS Arnaud Browet|Christophe De Vleeschouwer|Laurent Jacques|Navrita Mathiah|Bechara Saykali|Isabelle Migeotte Universite catholique de Louvain;|Universite libre de Bruxelles
http://dx.doi.org/10.1101/039909 2016-02-17 Bioinformatics CC BY-ND MetaPalette: A K-mer painting approach for metagenomic taxonomic profiling and quantification of novel strain variation David Koslicki|Daniel Falush Oregon State University;|University of Swansea
http://dx.doi.org/10.1101/039792 2016-02-17 Microbiology CC BY-NC-ND Effects of transhydrogenase and growth substrates on lipid D/H ratios in Desulfovibrio alaskensis G20 William D. Leavitt|Theodore M Flynn|Melanie K Suess|Alexander S Bradley Washington University in St. Louis;|Argonne National Lab
http://dx.doi.org/10.1101/039818 2016-02-17 Plant Biology Assessing the relationship between height growth and molecular genetic variation in Douglas-fir (Pseudotsuga menziesii) provenances Charalambos Neophytou|Anna-Maria Weisser|Daniel Landwehr|Muhidin Seho|Ulrich Kohnle|Ingo Ensminger|Henning Wildhagen Forstliche Versuchs- und Forschungsanstalt Baden-Wuerttemberg, Germany;|Department of Biology, University of Toronto Mississauga, Canada;|Department of Forest Botany and Tree Physiology, Georg-August-University Goettingen
http://dx.doi.org/10.1101/039875 2016-02-17 Ecology CC BY-NC-ND Validation of a habitat suitability index for oyster restoration Seth Theuerkauf|Romuald Lipcius North Carolina State University;|Virginia Institute of Marine Science, College of William & Mary
http://dx.doi.org/10.1101/039602 2016-02-17 Genomics CC BY-NC-ND DNA Methylation profiles of diverse Brachypodium distachyon aligns with underlying genetic diversity Steven R Eichten|Tim Stuart|Akanksha Srivastava|Ryan Lister|Justin O Borevitz Australian National University;|University of Western Australia
http://dx.doi.org/10.1101/039784 2016-02-15 Evolutionary Biology CC BY A tradeoff between the ecological and evolutionary stabilities of public goods genes in microbial populations Joseph Rauch|Jane Kondev|Alvaro Sanchez Brandeis University;|Harvard University
http://dx.doi.org/10.1101/039032 2016-02-15 Neuroscience CC BY-NC-ND Contents of Consciousness Investigated as Integrated Information in Direct Human Brain Recordings Andrew M. Haun|Masafumi Oizumi|Christopher K Kovach|Hiroto Kawasaki|Hiroyuki Oya|Matthew A Howard|Ralph Adolphs|Naotsugu Tsuchiya University of Wisconsin-Madison;|Monash University;|University of Iowa;|California Institute of Technology
http://dx.doi.org/10.1101/039776 2016-02-15 Genomics CC BY Genome-wide histone modification patterns in Kluyveromyces Lactis reveal evolutionary adaptation of a heterochromatin-associated mark Angela Bean|Assaf Weiner|Amanda Hughes|Eyal Itskovits|Nir Friedman|Oliver Rando UMMS;|HUJI;|Univ. Mass. Medical School
http://dx.doi.org/10.1101/039735 2016-02-15 Biochemistry CC BY-NC Two-Dimensional NMR Lineshape Analysis Christopher Andrew Waudby|Andres Ramos|Lisa D Cabrita|John Christodoulou University College London
http://dx.doi.org/10.1101/039768 2016-02-15 Evolutionary Biology CC BY-NC-ND The infinitesimal model Nick H Barton|Alison M Etheridge|Amandine Veber IST Austria;|University of Oxford;|école Polytechnique
http://dx.doi.org/10.1101/038968 2016-02-15 Developmental Biology CC BY-NC-ND Rules of tissue packing involving different cell types: human muscle organization Daniel Sanchez-Gutierrez|Aurora Saez|Carmen Paradas|Luis M. Escudero Seville University;|Instituto de Biomedicina de Sevilla (IBiS)
http://dx.doi.org/10.1101/039743 2016-02-15 Evolutionary Biology CC BY Craniofacial shape transition across the house mouse hybrid zone: implications for the genetic architecture and evolution of between-species differences Luisa F Pallares|Leslie M Turner|Diethard Tautz Max Planck Insitute for Evolutionary Biology;|Max-Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/039685 2016-02-15 Bioinformatics CC BY annotatr: Associating genomic regions with genomic annotations Raymond G Cavalcante|Maureen A Sartor University of Michigan
http://dx.doi.org/10.1101/039693 2016-02-15 Genomics The hidden complexity of Mendelian traits across yeast natural populations Jing Hou|Anastasie Sigwalt|David Pflieger|Jackson Peter|Jacky de Montigny|Maitreya Dunham|Joseph Schacherer University of Strasbourg / CNRS;|University of Washington
http://dx.doi.org/10.1101/039636 2016-02-15 Systems Biology CC BY-NC-ND Context-specificity in causal signaling networks revealed by phosphoprotein profiling Steven M. Hill|Nicole K. Nesser|Katie Johnson-Camacho|Mara Jeffress|Aimee Johnson|Chris Boniface|Simon E.F. Spencer|Yiling Lu|Laura M. Heiser|Yancey Lawrence|Nupur T. Pande|James E. Korkola|Joe W. Gray|Gordon B. Mills|Sach Mukherjee|Paul T. Spellman MRC Biostatistics Unit;|Oregon Health and Science University;|Kantar Health;|Bayer Healthcare North America;|University of Warwick;|MD Anderson Cancer Center;|German Center for Neurodegenerative Diseases (DZNE)
http://dx.doi.org/10.1101/038406 2016-02-15 Genomics CC BY-NC-ND Admixture into and within sub-Saharan Africa George Busby|Gavin Band|Quang Si Le|Muminatou Jallow|Edith Bougama|Valentina Mangano|Lucas Amenga-Etego|Anthony Emil|Tobias Apinjoh|Carolyne Ndila|Alphaxard Manjurano|Vysaul Nyirongo|Ogobara Doumbo|Kirk Rockett|Domnic Kwiatkowski|Chris Spencer Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford, OX3 7BN, UK;|Medical Research Council Unit, The Gambia;|Centre National de Recherche et de Formation sur le Paludisme, Ouagadougou, Burkina Faso;|Dipartimento di Sanita Publica e Malattie Infettive, University of Rome La Sapienza, Rome, Italy;|Navrongo Health Research Centre, Navrongo, Ghana;|omfo Anokye Teaching Hospital, Kumasi, Ghana;|Department of Biochemistry and Molecular Biology, University of Buea, Buea, Cameroon;|KEMRI-Wellcome Trust Research Programme, Kilifi, Kenya;|Joint Malaria Programme, Kilimanjaro Christian Medical Centre, Moshi, Tanzania;|Malawi-Liverpool Wellcome Trust Clinical Research Programme, College of Medicine, University of Mala;|Malaria Research and Training Centre, Faculty of Medicine, University of Bamako, Bamako, Mali
http://dx.doi.org/10.1101/031609 2016-02-15 Biophysics Unraveling the mechanism of proton translocation in the extracellular half-channel of bacteriorhodopsin Xiaoxia Ge|Marilyn R. Gunner The City College of New York
http://dx.doi.org/10.1101/039669 2016-02-14 Microbiology CC BY-NC-ND Triclosan Exposure is Associated with Rapid Restructuring of the Microbiome in Adult Zebrafish Christopher A Gaulke|Carrie L Barton|Sarah Proffitt|Robert L Tanguay|Thomas J Sharpton Oregon State University
http://dx.doi.org/10.1101/030932 2016-02-13 Evolutionary Biology CC BY-NC-ND Strongly asymmetric hybridization barriers shape the origin of a new polyploid species and its hybrid ancestor Mario Vallejo-Marin|Arielle Cooley|Michelle Qi|Madison Folmer|Michael McKain|Joshua Puzey University of Stirling;|Whitman College;|College of William and Mary;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/039644 2016-02-12 Cell Biology CC BY-NC-ND Biocompatibility of Subcutaneously Implanted Plant-Derived Cellulose Biomaterials Daniel J Modulevsky|Charles M Cuerrier|Andrew E Pelling University of Ottawa
http://dx.doi.org/10.1101/039610 2016-02-12 Ecology CC BY-NC-ND Model-based projections of Zika virus infections in childbearing women in the Americas Alex Perkins|Amir Siraj|Corrine Warren Ruktanonchai|Moritz Kraemer|Andrew Tatem University of Notre Dame;|University of Southampton;|University of Oxford
http://dx.doi.org/10.1101/035840 2016-02-12 Bioinformatics CC BY-ND The divisible load balance problem with shared cost and its application to phylogenetic inference Constantin Scholl|Kassian Kobert|Tomas Flouri|Alexandros Stamatakis Karlsruhe Institute of Technology;|Heidelberg Institute for Theoretical Studies
http://dx.doi.org/10.1101/039479 2016-02-12 Microbiology DNA from dust: the first field-isolated genomes of MDV-1, from virions in poultry dust and chicken feather follicles Utsav Pandey|Andrew S Bell|Daniel W Renner|David Kennedy|Jacob T Shreve|Chris Cairns|Matthew Jones|Patricia Dunn|Andrew F Read|Moriah L Szpara Pennsylvania State University
http://dx.doi.org/10.1101/039529 2016-02-12 Genetics phASER: Long range phasing and haplotypic expression from RNA sequencing Stephane E Castel|Pejman Mohammadi|Wendy K Chung|Yufeng Shen|Tuuli Lappalainen New York Genome Center;|Columbia University
http://dx.doi.org/10.1101/039446 2016-02-12 Pharmacology CC BY-NC-ND Best Practices in Docking and Activity Prediction Manuel Rueda|Ruben Abagyan Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego
http://dx.doi.org/10.1101/039552 2016-02-11 Evolutionary Biology CC BY Social selection maintains honesty of a dynamic visual signal in cichlid fish Judith C. Bachmann|Fabio Cortesi|Matthew Hall|N. Justin Marshall|Walter Salzburger|Hugo F. Gante Zoological Institute, University of Basel;|Monash University;|University of Queensland
http://dx.doi.org/10.1101/039487 2016-02-11 Genetics CC BY-NC-ND A novel meiotic drive in Neurospora crosses heterozygous for hybrid translocation strains disfavors homokaryotic progeny derived from alternate, but not adjacent-1 segregation. Dev Ashish Giri|S. Rekha|Durgadas P. Kasbekar Centre for DNA Fingerprinting and Diagnostics (CDFD), India
http://dx.doi.org/10.1101/039453 2016-02-11 Ecology CC BY-NC-ND Intriguing desnity dependence but problematic birth rates in greaver et al.'s study of a black rhinoeros population. Peter R Law|Wayne L Linklater|Jay Gedir 1Centre for African Conservation Ecology, Department of Zoology, Nelson Mandela Metropolitan Univers;|Centre for Biodiversity and Restoration Ecology, School of Biological Sciences, Victoria University;|Department of Fish, Wildlife, and Conservation Ecology, New Mexico State University, PO Box 30003, L
http://dx.doi.org/10.1101/039495 2016-02-11 Bioinformatics CC BY-NC-ND Detecting Horizontal Gene Transfer by Mapping Sequencing Reads Across Species Boundaries Kathrin Trappe|Tobias Marschall|Bernhard Y Renard Robert Koch Institute;|Saarland University and Max Planck Institute for Informatics
http://dx.doi.org/10.1101/037762 2016-02-11 Molecular Biology CC BY-NC-ND Tagmentation-Based Mapping (TagMap) of Mobile DNA Genomic Insertion Sites David L Stern Janelia Research Campus / HHMI
http://dx.doi.org/10.1101/017178 2016-02-11 Ecology CC BY Using heterogeneity in the population structure of U.S. swine farms to compare transmission models for porcine epidemic diarrhoea Eamon B O'Dea|Harry Snelson|Shweta Bansal Georgetown University;|American Association of Swine Veterinarians
http://dx.doi.org/10.1101/030551 2016-02-11 Systems Biology CC BY-NC Systematic Functional Annotation and Visualization of Biological Networks Anastasia Baryshnikova Princeton University
http://dx.doi.org/10.1101/023010 2016-02-11 Cancer Biology CC BY Large-scale analysis of genome and transcriptome alterations in multiple tumors unveils novel cancer-relevant splicing networks Endre Sebestyen|Babita Singh|Belen Minana|Amadis Pages|Francesca Mateo|Miguel A Pujana|Juan Valcarcel|Eduardo Eyras Universitat Pompeu Fabra;|Centre for Genomic Regulation;|Bellvitge Institute for Biomedical Research (IDIBELL)
http://dx.doi.org/10.1101/039362 2016-02-10 Biophysics Analysis of Two-State Folding Using Parabolic Approximation IV: Non-Arrhenius Kinetics of FBP28 WW Part-II Robert S Sade Not Affiliated to any Institute
http://dx.doi.org/10.1101/039412 2016-02-10 Neuroscience CC BY Inter- and intra-individual differences in fluid reasoning show distinct cortical responses Rogier Kievit|H. Steven Scholte|Lourens J. Waldorp|Denny Borsboom MRC-CBSU;|University of Amsterdam
http://dx.doi.org/10.1101/039396 2016-02-10 Evolutionary Biology CC BY Disentangling incomplete lineage sorting and introgression to refine species-tree estimates for Lake Tanganyika cichlid fishes Britta S Meyer|Michael Matschiner|Walter Salzburger Evolutionary Ecology of Marine Fishes, GEOMAR Helmholtz Centre for Ocean Research Kiel, Germany;|Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Os;|Zoological Institute, University of Basel, Basel, Switzerland
http://dx.doi.org/10.1101/039388 2016-02-10 Evolutionary Biology No evidence for the positive relationship between genetic correlations and heritabilities Szymon Marian Drobniak|Mariusz Cichon Jagiellonian University
http://dx.doi.org/10.1101/039370 2016-02-10 Animal Behavior and Cognition CC BY Detailed temporal structure of communication networks in groups of songbirds Dan Stowell|Lisa Gill|David Clayton Centre for Digital Music, Queen Mary University of London, UK;|Max Planck Institute for Ornithology, Seewiesen, Germany;|School of Biological and Chemical Sciences, Queen Mary University of London, UK
http://dx.doi.org/10.1101/034637 2016-02-10 Systems Biology Network structural features affect stability of Calvin Bassham Benson (CBB) pathway in plants Matthew Theisen UCLA
http://dx.doi.org/10.1101/039347 2016-02-10 Genomics CC BY-NC-ND Efficient analysis of large datasets and sex bias with ADMIXTURE Suyash S. Shringarpure|Carlos D. Bustamante|Kenneth L. Lange|David H. Alexander Stanford University;|UCLA;|Pacific Biosciences
http://dx.doi.org/10.1101/039339 2016-02-10 Systems Biology CC BY-NC-ND Integrating regulatory information via combinatorial control of the transcription cycle Clarissa Scholes|Angela H. DePace|Alvaro Sanchez Harvard Medical School;|Rowland Institute at Harvard
http://dx.doi.org/10.1101/039404 2016-02-10 Evolutionary Biology CC BY Inferring the frequency spectrum of derived variants to quantify adaptive molecular evolution in protein-coding genes of Drosophila melanogaster Peter D. Keightley|Jose Campos|Tom Booker|Brian Charlesworth University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/039263 2016-02-10 Bioinformatics CC BY-ND IMP: a pipeline for reproducible metagenomic and metatranscriptomic analyses Shaman Narayanasamy|Yohan Jarosz|Emilie E.L. Muller|Cedric C. Laczny|Malte Herold|Anne Kaysen|Anna Heintz-Buschart|Nicolas Pinel|Patrick May|Paul Wilmes University of Luxembourg;|Saarland University;|Universidad EAFIT
http://dx.doi.org/10.1101/027474 2016-02-10 Bioinformatics TRONCO: an R package for the inference of cancer progression models from heterogeneous genomic data Luca De Sano|Giulio Caravagna|DANIELE RAMAZZOTTI|Alex Graudenzi|Giancarlo Mauri|Bud Mishra|Marco Antoniotti University of Milan Bicocca, Milan, Italy;|New York University, New York, USA
http://dx.doi.org/10.1101/022053 2016-02-10 Evolutionary Biology CC BY-NC-ND Computing the Internode Certainty and related measures from partial gene trees. Kassian Kobert|Leonidas Salichos|Antonis Rokas|Alexandros Stamatakis Heidelberg Institute for Theoretical Studies (HITS), Heidelberg, Germany;|Yale University, New Haven, USA;|Vanderbilt University, Nashville, USA;|HITS, Heidelberg, Germany / KIT, Karlsruhe, Germany
http://dx.doi.org/10.1101/036798 2016-02-10 Genomics Cell freezing protocol optimized for ATAC-Seq on motor neurons derived from human induced pluripotent stem cells Pamela Milani|Renan Escalante-Chong|Brandon C. Shelley|Natasha L. Patel-Murray|Xiaofeng Xin|Miriam Adam|Berhan Mandefro|Dhruv Sareen|Clive N. Svendsen|Ernest Fraenkel Massachusetts Institute of Technology;|Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/039248 2016-02-09 Neuroscience CC BY Light adaptation explains different linearity of ON and OFF responses Matteo Carandini University College London
http://dx.doi.org/10.1101/039321 2016-02-09 Genomics CC BY-NC-ND Multi-dimensional structure function relationships in human β-cardiac myosin from population scale genetic variation. Julian R Homburger|Eric M Green|Colleen Caleshu|Margaret Sunitha|Rebecca Taylor|Kathleen M Ruppel|Raghu Metpally|Steven D Colan|Michelle Michels|Sharlene Day|Iacopo Olivotto|Carlos D Bustamante|Frederick Dewey|Carolyn Ho|James A Spudich|Euan A Ashley Stanford University;|Myokardia;|Institute for Stem Cell Biology and Regenerative Medicine, Bangalore;|Geisinger Health;|Boston Children's Hospital;|Erasmus Medical Center;|University of Michigan;|Careggi University Hospital;|Regeneron, Inc.;|Brigham and Women's Hospital
http://dx.doi.org/10.1101/039297 2016-02-09 Immunology Persisting fetal clonotypes influence the structure and overlap of adult human T cell receptor repertoires Mikhail V Pogorelyy|Yuval Elhanati|Quentin Marcou|Anastasia L Sycheva|Ekaterina A Komech|Vadim I Nazarov|Olga V Britanova|Dmitriy M Chudakov|Ilgar Z Mamedov|Yuri B Lebedev|Thierry Mora|Aleksandra M Walczak Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry;|Ecole normale superieure
http://dx.doi.org/10.1101/039313 2016-02-09 Animal Behavior and Cognition CC BY Singing above the chorus: cooperative Princess cichlid fish (Neolamprologus pulcher) has high pitch Rachel K. Spinks|Moritz Muschick|Walter Salzburger|Hugo F. Gante Zoological Institute, University of Basel
http://dx.doi.org/10.1101/039107 2016-02-09 Bioinformatics CC BY-ND Bacterial sequences detected in 99 out of 99 serum samples from Ebola patients Marina Manrique|Eduardo Pareja-Tobes|Eduardo Pareja|Pablo Pareja-Tobes|Raquel Tobes Oh no sequences! Research group. Era7 Bioinformatics
http://dx.doi.org/10.1101/039289 2016-02-09 Developmental Biology CC BY-ND Rewiring of an ancestral Tbx1/10-Ebf-Mrf network for pharyngeal muscle specification in distinct embryonic lineages Theadora Tolkin|Lionel Christiaen New York University;|NYU
http://dx.doi.org/10.1101/039230 2016-02-09 Genomics Shannon: An Information-Optimal de Novo RNA-Seq Assembler Sreeram Kannan|Joseph Hui|Kayvon Mazooji|Lior Pachter|David Tse University of Washington, Seattle;|University of California, Berkeley;|University of California, Los Angeles;|Stanford University
http://dx.doi.org/10.1101/039255 2016-02-09 Microbiology Identification and characterization of novel Bovine Leukemia Virus (BLV) antisense transcripts reveals their constitutive expression in leukemic and pre-leukemic clones Keith Durkin|Nicolas Rosewick|Maria Artesi|Vincent Hahaut|Philip Griebel|Natasa Arsic|Arsene Burny|Michel Georges|Anne Van den Broeke Unit of Animal Genomics, GIGA-R, Université de Liège (ULg), 4000 Liège, Belgium;|Institut Jules Bordet, Université Libre de Bruxelles (ULB), 1000 Brussels, Belgium;|Vaccine and Infectious Disease Organization, University of Saskatchewan, Saskatoon S7N 5E3, Canada
http://dx.doi.org/10.1101/038828 2016-02-09 Bioinformatics sCNAphase: using haplotype resolved read depth to genotype somatic copy number alterations from low cellularity aneuploid tumors Wenhan Chen|Alan J. Robertson|Devika Ganesamoorthy|Lachlan J.M. Coin The University of Queensland
http://dx.doi.org/10.1101/038869 2016-02-09 Evolutionary Biology CC BY-NC Combining Shigella Tn-seq data with Gold-standard E. coli Gene Deletion Data Suggests Rare Transitions between Essential and Non-essential Gene Functionality Nikki E Freed|Dirk Bumann|Olin K Silander Massey University;|University of Basel
http://dx.doi.org/10.1101/039164 2016-02-09 Genetics CC BY Novel Method for Comparing RADseq Linkage Maps Reveals Chromosome Evolution in Salmonids Ben J G Sutherland|Thierry Gosselin|Eric Normandeau|Manuel Lamothe|Nathalie Isabel|Celine Audet|Louis Bernatchez Universite Laval;|Ressources Naturelles Canada;|Universite du Quebec a Rimouski
http://dx.doi.org/10.1101/039131 2016-02-09 Genomics CC BY Deep genome sequencing and variation analysis of 13 inbred mouse strains defines candidate phenotypic alleles, private variation, and homozygous truncating mutations Thomas Keane|Anthony Doran|David Adams|Kent Hunter|Jonathan Flint|Kim Wong Wellcome Trust Sanger Institute;|Laboratory of Cancer Biology and Genetics, NCI, NIH;|The Wellcome Trust Centre for Human Genetics, Roosevelt Drive, Oxford OX3 7BN, UK
http://dx.doi.org/10.1101/039214 2016-02-09 Genetics CC BY-NC-ND Efficient Breeding by Genomic Mating Deniz Akdemir|Julio Isidro Sanchez Cornell University;|University College Dublin
http://dx.doi.org/10.1101/039099 2016-02-09 Genetics CC BY-NC-ND Increasing the Efficiency of Genome-wide Association Mapping via Hidden Markov Models Hong Gao|Hua Tang|Carlos Bustamante Illumina, Inc.;|Stanford University
http://dx.doi.org/10.1101/039222 2016-02-09 Genomics CC BY-ND Next-generation sequencing in neuropathological diagnosis of infections of the nervous system Steven L. Salzberg|Florian Breitwieser|Anupama Kumar|Haiping Hao|Peter Burger|Fausto J. Rodriguez|Michael Lim|Alfredo Quinones-Hinojosa|Gary L. Gallia|Jeffrey A. Tornheim|Michael T. Melia|Cynthia L. Sears|Carlos A. Pardo Johns Hopkins University;|Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/039115 2016-02-09 Plant Biology PLASTID STATUS INFLUENCES CELL FATE DECISIONS AT THE PLANT SHOOT APEX Margaret E. Wilson|R. Howard Berg|Elizabeth Haswell Washington University in Saint Louis;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/039123 2016-02-09 Microbiology CC BY-NC Sequential acquisition of virulence and fluoroquinolone resistance has shaped the evolution of Escherichia coli ST131 Nouri L Ben Zakour|Areej S Alsheikh-Hussain|Melinda M Ashcroft|Nguyen Thi Khanh Nhu|Leah W Roberts|Mitchell Stanton-Cook|Mark A Schembri|Scott A Beatson University of Queensland;|The University of Queensland
http://dx.doi.org/10.1101/039073 2016-02-09 Ecology CC BY-ND Quantifying pollen-vegetation relationships to reconstruct ancient forests using 19th-century forest composition and pollen data Andria Dawson|Christopher J. Paciorek|Jason S. McLachlan|Simon Goring|John W. Williams|Stephen T. Jackson University of Arizona;|University of California, Berkeley;|University of Notre Dame;|University of Wisconsin - Madison;|U.S. Geological Survey
http://dx.doi.org/10.1101/039180 2016-02-09 Neuroscience CC BY Predicting symptom severity in autism spectrum disorder based on cortical thickness measures in agglomerative data Elaheh Moradi|Budhachandra Khundrakpam|John D Lewis|Alan C Evans|Jussi Tohka Tampere University of Technology, Finland;|McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University, Canada;|Universidad Carlos III de Madrid
http://dx.doi.org/10.1101/039156 2016-02-09 Genomics CC BY CRISPR/Cas-mediated gene editing of retinal cells in vivo. Sandy SC Hung|Vicki Chrysostomou|Amy Fan Li|Jeremiah KH Lim|Jiang-Hui Wang|Leilei Tu|Maciej Daniszewski|Camden Lo|Raymond C Wong|Jonathan G Crowston|Alice Pebay|Anna E King|Bang V Bui|Guei-Sheung Liu|Alex Hewitt Centre for Eye Research Australia, University of Melbourne, Royal Victorian Eye and Ear Hospital;|University of Melbourne;|Monash University;|Wicking Dementia Research and Education Centre, University of Tasmania;|University of Tasmania
http://dx.doi.org/10.1101/039206 2016-02-09 Genetics CC BY-NC-ND Prioritizing variants in complete Hereditary Breast and Ovarian Cancer (HBOC) genes in patients lacking known BRCA mutations Natasha G Caminsky|Eliseos J Mucaki|Ami M. Perri|Ruipeng Lu|Joan H.M. Knoll|Peter K Rogan University of Western Ontario
http://dx.doi.org/10.1101/026377 2016-02-08 Evolutionary Biology CC BY General methods for evolutionary quantitative genetic inference from generalised mixed models. Pierre de Villemereuil|Holger Schielzeth|Shinichi Nakagawa|Michael Morrissey Laboratoire d'Ecologie Alpine, CNRS UMR 5553 Universite Joseph Fourier , BP53, 38041 Grenoble;|Department of Evolutionary Biology, Universitat Bielefeld, Bielefeld, Germany;|Evolution and Ecology Research Centre, University of New South Wales, Sydney, NSW 2052, Australia;|School of Evolutionary Biology, University of St Andrews, St Andrews, UK, KY16 9TH
http://dx.doi.org/10.1101/039065 2016-02-08 Neuroscience Are reading and face processing related? An investigation of reading in developmental prosopagnosia Randi Starrfelt|Solja K. Klargaard|Anders Petersen|Christian Gerlach Departmet of Psychology, University of Copenhagen;|Department of Psychology, University of Southern Denmark;|Department of Psychology, University of Copenhagen;|University of Southern Denmark
http://dx.doi.org/10.1101/031393 2016-02-08 Pathology|Plant Biology CC BY Rising out of the ashes: additive genetic variation for susceptibility to Hymenoscyphus fraxineus in Fraxinus excelsior Facundo Munoz|Benoit Marcais|Jean Dufour|Arnaud Dowkiw INRA, UR 0588, Unité Amélioration, Génétique et Physiologie Foresti&eres;|INRA, Nancy Université, UMR 1136 Interactions Arbres/Microorganismes
http://dx.doi.org/10.1101/027847 2016-02-08 Neuroscience CC BY-NC-ND Neural and non-neural contributions to sexual dimorphism of mid-day sleep in Drosophila: A pilot study Mobina Khericha|Jaison B Kolenchery|Eran Tauber University of Leicester
http://dx.doi.org/10.1101/039057 2016-02-08 Neuroscience CC BY-NC-ND Estimation of Voxelwise Effective Connectivities: Applications to High Connectivity Sub-Regions within Hippocampal and within Corticostriatal Networks Ruben Sanchez-Romero|Joseph D. Ramsey|Jackson C. Liang|Kevin Jarbo|Clark Glymour Carnegie Mellon University;|University of Toronto
http://dx.doi.org/10.1101/019935 2016-02-07 Ecology CC BY-ND Spatial extent of neighboring plants influences the strength of associational effects on mammal herbivory. Insights from a meta-analysis Emilie Champagne|Jean-Pierre Tremblay|Steeve D Cote Universite Laval
http://dx.doi.org/10.1101/038893 2016-02-07 Bioinformatics Partial derivatives meta-analysis: pooled analyses when individual participant data cannot be shared Hieab HH Adams|Hadie Adams|Lenore J Launer|Sudha Seshadri|Reinhold Schmidt|Joshua C Bis|Stephanie Debette|Paul A Nyquist|Jeroen Van der Grond|Thomas H Mosley|Jingyun Yang|Alexander Teumer|Saima Hilal|Gennady V Roshchupkin|Joanna M Wardlaw|Claudia L Satizabal|Edith Hofer|Ganesh Chauhan|Albert V Smith|Lisa R Yanek|Sven J Van der Lee|Stella Trompet|Vincent Chouraki|Konstantinos A Arfanakis|James T Becker|Wiro J Niessen|Anton JM De Craen|Fabrice F Crivello|Li An Lin|Debra A Fleischman|Tien Yin Wong|Oscar H Franco|Katharina Wittfeld|J Wouter Jukema|Philip L De Jager|Albert Hofman|Charles DeCarli|Dimitris Rizopoulos|Will T Longstreth|Bernard M Mazoyer|Vilmundar Gudnason|David A Bennett|Ian J Deary|M Kamran Ikram|Hans J Grabe|Myriam Fornage|Cornelia M Van Duijn|Meike W Vernooij|M Arfan Ikram Erasmus MC;|University of Cambridge;|National Institute on Aging;|Boston University School of Medicine;|Medical University Graz;|University of Washington;|University of Bordeaux;|Johns Hopkins;|Leiden University Medical Center;|University of Mississippi Medical Center;|Rush University Medical Center;|University of Greifswald;|National University of Singapore;|University of Edinburgh;|Boston University;|University of Graz;|Icelandic Heart Association;|University of Pittsburgh;|University of Texas Health Science Center at Houston;|Rush University;|Brigham and Womens Hospital;|UC Davis;|University Medicine Greifswald
http://dx.doi.org/10.1101/038919 2016-02-07 Bioinformatics CC BY Multiple goal pursuit -- to kill two birds with one stone or to fall between two stools ? Evgeny Z Meilikhov|Rimma M Farzetdinova Kurchatov Institute, 123182 Moscow, Russia
http://dx.doi.org/10.1101/037374 2016-02-07 Neuroscience CC BY Dendritic trafficking faces physiologically critical speed-precision tradeoffs Alex H Williams|Cian O'Donnell|Terrence Sejnowski|Timothy O'Leary Stanford University;|University of Bristol;|Salk Institute for Biological Studies;|Cambridge University
http://dx.doi.org/10.1101/039040 2016-02-07 Genomics CC BY Bioanalyzer chips can be used interchangeably for many analyses of DNA or RNA James Hadfield|Jessica Davies|Tom Denyer Cambridge University
http://dx.doi.org/10.1101/038901 2016-02-07 Genomics CC BY-NC-ND From Differentiated Genes to Affected Pathways Shailesh S. Patil|Bharath Venkatesh|Randeep Singh SAP labs India Pvt. ltd;|Advanced Centre for Treatment Research and Education in Cancer (ACTREC), Kharghar
http://dx.doi.org/10.1101/031203 2016-02-07 Bioinformatics CRISPResso: sequencing analysis toolbox for CRISPR genome editing Luca Pinello|Matthew C Canver|Megan D Hoban|Stuart H Orkin|Donald B Kohn|Daniel E Bauer|Guo-Cheng Yuan Dana-Farber Cancer Institute and Harvard School of Public Health;|Boston Children's Hospital, Department of Pediatric Oncology, Dana-Farber Cancer Institute;|University of California;|Boston Children's Hospital, Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/038851 2016-02-07 Systems Biology CC BY A Comparison of the Costs and Benefits of Bacterial Gene Expression Morgan Price|Kelly M Wetmore|Adam M Deutschbauer|Adam P Arkin Lawrence Berkeley Lab;|Lawrence Berkeley Laboratory
http://dx.doi.org/10.1101/039024 2016-02-07 Neuroscience Does crossed aphasia originate from developmental disorders? A Mini-review and case study Anna B Jones|Thomas H Bak|Mark E Bastin|Joanna M Wardlaw|Cyril R Pernet University of Edinburgh
http://dx.doi.org/10.1101/038935 2016-02-07 Genetics CC BY-ND Genomic prediction and estimation of marker interaction effects Lars Ronnegard|Xia Shen Swedish Agricultural University;|Karolinska Institutet
http://dx.doi.org/10.1101/038877 2016-02-07 Microbiology CC BY Viral coinfection is shaped by bacterial ecology and virus-virus interactions across diverse microbial taxa and environments Samuel L Diaz-Munoz New York University
http://dx.doi.org/10.1101/027284 2016-02-06 Genomics CC BY-NC-ND Conversion of Genomic DNA to Proxy Constructs Suitable for Accurate Nanopore Sequencing Dimitra Tsavachidou Vastogen, Inc.
http://dx.doi.org/10.1101/025684 2016-02-06 Evolutionary Biology The site-frequency spectrum associated with Xi-coalescents Jochen Blath|Mathias C Cronjager|Bjarki Eldon|Matthias Hammer TU Berlin;|University of Oxford;|MfN Berlin
http://dx.doi.org/10.1101/038950 2016-02-06 Systems Biology CC BY-NC-ND A novel network approach reveals tissue-specific cellular modulators of the immune-fibrotic axis in systemic sclerosis Jaclyn N Taroni|J Matthew Mahoney|Casey S Greene|Viktor Martyanov|Tammara A Wood|Romy Christmann|Harrison W Farber|Robert A Lafyatis|Christopher P Denton|Monique E Hinchcliff|Patricia A Pioli|Michael L Whitfield Geisel School of Medicine at Dartmouth;|College of Medicine, University of Vermont;|Perelman School of Medicine, University of Pennsylvania;|Boston University School of Medicine;|University of Pittsburgh Medical Center;|University College London;|Feinberg School of Medicine, Northwestern University
http://dx.doi.org/10.1101/039008 2016-02-06 Scientific Communication CC BY-NC-ND Two Similarity Metrics for Medical Subject Headings (MeSH): An Aid to Biomedical Text Mining and Author Name Disambiguation Neil R Smalheiser|Gary Bonifield University of Illinois at Chicago
http://dx.doi.org/10.1101/038984 2016-02-06 Systems Biology CC BY-NC Defining the anti-Shine-Dalgarno sequence interaction and quantifying its functional role in regulating translation efficiency Adam J Hockenberry|Adam R Pah|Michael C Jewett|Luis AN Amaral Northwestern University
http://dx.doi.org/10.1101/017095 2016-02-05 Bioinformatics CC BY-NC SplAdder: Identification, quantification and testing of alternative splicing events from RNA-Seq data Andre Kahles|Cheng Soon Ong|Yi Zhong|Gunnar Ratsch Memorial Sloan Kettering Cancer Center;|NICTA, Australia
http://dx.doi.org/10.1101/023804 2016-02-05 Evolutionary Biology Detection of adaptive shifts on phylogenies using shifted stochastic processes on a tree Paul Bastide|Mahendra Mariadassou|Stephane Robin UMR MIA-Paris, AgroParisTech, INRA, Université Paris-Saclay, 75005, Paris, France;|MaIAGE, INRA, Université Paris-Saclay, 78352 Jouy-en-Josas, France
http://dx.doi.org/10.1101/038570 2016-02-04 Bioinformatics CC BY-NC-ND Information-dependent Enrichment Analysis Reveals Time-dependent Transcriptional Regulation of the Estrogen Pathway of Toxicity Salil N. Pendse|Alexandra Maertens|Michael Rosenberg|Dipanwita Roy|Rick A. Fasani|Marguerite M. Vantangoli|Samantha J. Madnick|Kim Boekelheide|Albert J. Fornace|James D. Yager|Thomas Hartung|Melvin E. Andersen|Patrick D. McMullen Scitovation LLC.;|Center for Alternatives to Animal Testing (CAAT), Department of Environmental Health Sciences;|Agilent Technologies, Inc.;|Brown University;|Georgetown University;|Johns Hopkins University;|Center for Alternatives to Animal Testing
http://dx.doi.org/10.1101/038687 2016-02-04 Genetics CC BY-ND Translational plasticity facilitates the accumulation of nonsense genetic variants in the human population Sujatha Jagannathan|Robert K. Bradley Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/038695 2016-02-04 Evolutionary Biology CC BY-NC-ND An Extended Maximum Likelihood Inference of Geographic Range Evolution by Dispersal, Local Extinction and Cladogenesis Champak Beeravolu Reddy|Fabien Condamine The City College of New York;|Institut de Science de l'Evolution de Montpellier
http://dx.doi.org/10.1101/038844 2016-02-04 Genomics CC BY Common methods for fecal sample storage in field studies yield consistent signatures of individual identity in microbiome sequencing data Ran Blekhman|Karen Tang|Elizabeth Archie|Luis Barreiro|Zachary Johnson|Mark Wilson|Jordan Kohn|Michael Yuan|Laurence Gesquiere|Laura Grieneisen|Jenny Tung University of Minnesota;|University of Notre Dame;|University of Montreal;|Emory University;|Duke University
http://dx.doi.org/10.1101/038679 2016-02-04 Biochemistry RNA structure through multidimensional chemical mapping Siqi Tian|Rhiju Das Stanford University
http://dx.doi.org/10.1101/038810 2016-02-04 Microbiology CC BY-ND Screening of anti-mycobacterial compounds in a naturally infected zebrafish embryo model James P Dalton|Benedict Uy|Kazuhide Okuda|Christopher J Hall|William A Denny|Philip S Crosier|Simon Swift|Siouxsie Wiles University of Auckland
http://dx.doi.org/10.1101/038612 2016-02-04 Bioinformatics chromstaR: Tracking combinatorial chromatin state dynamics in space and time Aaron Taudt|Minh Anh Nguyen|Matthias Heinig|Frank Johannes|Maria Colome-Tatche European Research Institute for the Biology of Ageing, University Medical Centre Groningen;|Department of Radiation Oncology, The Netherlands Cancer Institute;|Institute for Computational Biology, Helmholtz Zentrum Munich;|Dep. of Plant Sciences, Hans Eisenmann-Zentrum for Agricultural Sciences, TU Munich
http://dx.doi.org/10.1101/038471 2016-02-04 Cancer Biology CC BY-NC-ND Reaction-Diffusion Model of PDGF-driven Recruitment in Experimental Glioblastoma Susan Christine Massey|Kristin Swanson Mayo Clinic
http://dx.doi.org/10.1101/020552 2016-02-04 Genetics CC BY Coalescent inference using serially sampled, high-throughput sequencing data from intra-host HIV infection Kevin Dialdestoro|Jonas Andreas Sibbesen|Lasse Maretty|Jayna Raghwani|Astrid Gall|Paul Kellam|Oliver Pybus|Jotun Hein|Paul Jenkins University of Oxford;|University of Copenhagen;|Wellcome Trust Sanger Institute;|University of Warwick
http://dx.doi.org/10.1101/026666 2016-02-04 Neuroscience Stimuli reduce the dimensionality of cortical activity Luca Mazzucato|Alfredo Fontanini|Giancarlo La Camera Stony Brook University
http://dx.doi.org/10.1101/030395 2016-02-04 Genetics CC BY-NC-ND Whole-genome modeling accurately predicts quantitative traits, as revealed in plants. Laurent GENTZBITTEL|Cecile Ben|Melanie Mazurier|Min-Gyoung Shin|Martin Triska|Martina Rickauer|Yuri Nikolsky|Paul Marjoram|Sergey Nuzhdin|Tatiana Tatarinova UFTMiP, INP-ENSAT, CNRS;|UFTMiP, INPT-ENSAT, CNRS;|University of Southern California;|George Mason University, Vavilov Institute of General Genetics
http://dx.doi.org/10.1101/024547 2016-02-04 Evolutionary Biology CC BY S/HIC: Robust identification of soft and hard sweeps using machine learning Daniel R Schrider|Andrew D Kern Rutgers University
http://dx.doi.org/10.1101/038737 2016-02-03 Biophysics CC BY-NC Signal and Specificity of Protein Ubiquitination for Proteasomal Degradation Yandong Yin|Jin Yang CAS-MPG Partner Institute for Computational Biology
http://dx.doi.org/10.1101/038745 2016-02-03 Bioinformatics CC BY-NC PoPoolationTE2: comparative population genomics of transposable elements using Pool-Seq Robert Kofler|Daniel Gomez-Sanchez|Christian Schloetterer VetMedUni Wien
http://dx.doi.org/10.1101/038794 2016-02-03 Bioinformatics CC BY-NC-ND A novel approach to identifying marker genes and estimating the cellular composition of whole blood from gene expression profiles Casey P. Shannon|Robert Balshaw|Virginia Chen|Zsuzsanna Hollander|Mustafa Toma|Bruce M. McManus|J. Mark Fitzgerald|Don D. Sin|Raymond T. Ng|Scott J. Tebbutt PROOF Centre of Excellence;|Centre for Disease Control, Vancouver, BC, Canada;|Division of Cardiology, University of British Columbia;|Department of Medicine, Division of Respiratory Medicine, University of British Columbia
http://dx.doi.org/10.1101/038729 2016-02-03 Genetics CC BY-NC-ND Fine-scale human population structure in southern Africa reflects ecological boundaries Caitlin Uren|Minju Kim|Alicia R Martin|Dean Bobo|Christopher R Gignoux|Paul D van Helden|Marlo Moller|Eileen G Hoal|Brenna M Henn Department of Biomedical Sciences, Stellenbosch University;|Department of Ecology and Evolution, Stony Brook University;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT;|Department of Genetics, Stanford University
http://dx.doi.org/10.1101/018945 2016-02-03 Bioengineering CC BY-NC-ND Surface-driven registration method for the structure-informed segmentation of diffusion MR images Oscar Esteban|Dominique Zosso|Alessandro Daducci|Meritxell Bach-Cuadra|Maria J. Ledesma-Carbayo|Jean-Philippe Thiran|Andres Santos Biomedical Image Technologies (BIT);|Department of Mathematics, University of California, Los Angeles (UCLA), Los Angeles, CA, US;|Signal Processing Laboratory (LTS5), Ecole Polytechnique Federale de Lausanne (EPFL);|Dept. of Radiology, CIBM, University Hospital Center (CHUV) and University of Lausanne (UNIL), CH;|Biomedical Image Technologies (BIT), ETSI Telecom., Universidad Politecnica de Madrid, Madrid, Spain
http://dx.doi.org/10.1101/038778 2016-02-03 Neuroscience CC BY-NC-ND Asymmetric reinforcement learning: computational and neural bases of positive life orientation Germain Lefebvre|Mael Lebreton|Florent Meyniel|Sacha Bourgeois-Gironde|Stefano Palminteri Ecole Normale Superieure;|University of Amsterdam;|NeuroSpin, CEA
http://dx.doi.org/10.1101/038489 2016-02-03 Genetics Systematic over-expression screens for chromosome instability identify conserved dosage chromosome instability genes in yeast and human tumors Supipi Duffy|Hok Khim Fam|Yikan Wang|Erin B Styles|Jung-Huyn Kim|J. Sidney Ang|Tejomayee Singh|Vladimir Larionov|Sohrab Shah|Brenda Andrews|Cornelius Boerkoel|Phillip Hieter Michael Smith Laboratories, University of British Columbia, Vancouver, British Columbia, Canada;|Child and Family Research Institute; and 3Department of Medical Genetics, University of British Col;|BC Cancer Agency, Vancouver, British Columbia, Canada;|Department of Molecular Genetics; The Donnelly Centre for Cellular and Biomolecular Research, Univ;|Center for Cancer Research, National Cancer Institute, Bethesda, MD, USA;|The Donnelly Centre for Cellular and Biomolecular Research, University of Toronto, Canada;|Child and Family Research Institute; Department of Medical Genetics, University of British Col
http://dx.doi.org/10.1101/038448 2016-02-03 Neuroscience Gene Expression Signatures of Sporadic ALS Motor Neuron Populations Ranjan Batra|Kasey Hutt|Anthony Vu|Stuart J Rabin|Michael W Baughn|Ryan T Libby|Shawn Hoon|John Ravits|Gene W Yeo University of California San Diego;|Benaroya Research Institute, Seattle;|National University of Singapore
http://dx.doi.org/10.1101/038364 2016-02-03 Evolutionary Biology CC BY-ND Serial passaging causes extensive positive selection in seasonal influenza A hemagglutinin Claire McWhite|Austin Meyer|Claus O Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/024042 2016-02-03 Genetics CC BY-NC-ND Inference and analysis of population structure using genetic data and network theory Gili Greenbaum|Alan R. Templeton|Shirli Bar-David Ben-Gurion University of the Negev;|Washington University
http://dx.doi.org/10.1101/024703 2016-02-03 Biophysics CC BY-NC-ND Modeling the overproduction of ribosomes when antibacterial drugs act on cells Arijit Maitra|Ken A Dill Stony Brook University
http://dx.doi.org/10.1101/038760 2016-02-03 Genomics CC BY-ND Real time selective sequencing using nanopore technology. Matthew Loose|Sunir Malla|Michael Stout University of Nottingham
http://dx.doi.org/10.1101/021691 2016-02-03 Neuroscience CC BY-NC-ND Long term recordings with immobile silicon probes in the mouse cortex Michael Okun|Matteo Carandini|Kenneth D Harris UCL
http://dx.doi.org/10.1101/038638 2016-02-02 Genomics CC BY-NC-ND gEVAL - A web based browser for evaluating genome assemblies William Chow|Kim Brugger|Mario Caccamo|Ian Sealy|James Torrance|Kerstin Howe Wellcome Trust Sanger Institute;|East Anglian Medical Genetics Centre;|National Institute of Agricultural Botany
http://dx.doi.org/10.1101/038620 2016-02-02 Genetics CC BY-NC-ND Genome-wide association analysis identifies novel loci for chronotype in 100,420 individuals from the UKBiobank Jacqueline M Lane|Irma Vlasac|Simon G Anderson|Simon Kyle|William G Dixon|David A Bechtold|Shubhroz Gill|Max A Little|Annemarie Luik|Andrew Loudon|Richard Emsley|Frank AJL Scheer|Deborah A Lawlor|Susan Redline|David W Ray|Martin K Rutter|Richa Saxena Massachusetts General Hospital;|The University of Manchester;|University of Oxford;|Broad Institute;|Aston University;|Brigham and Womens Hospital;|University of Bristol
http://dx.doi.org/10.1101/038646 2016-02-02 Microbiology CC BY The status of the microbial census: an update Patrick D Schloss|Rene Girard|Thomas Martin|Joshua Edwards|J. Cameron Thrash University of Michigan;|Louisiana State University
http://dx.doi.org/10.1101/038562 2016-02-02 Molecular Biology Development of molecular markers for determining continental origin of wood from white oaks (Quercus L. sect. Quercus) Hilke Schroeder|Richard Cronn|Yulai Yanbaev|Tara Jennings|Malte Mader|Bernd Degen|Birgit Kersten Thuenen-Insitute of Forest Genetics, Grosshansdorf;|US Forest Service, Corvallis;|Bashkir State University, Ufa;|Oregon State University, Corvallis
http://dx.doi.org/10.1101/037937 2016-02-02 Neuroscience CC BY-NC-ND Validating silicon polytrodes with paired juxtacellular recordings: method and dataset Joana P. Neto|Goncalo Lopes|Joao Frazao|Joana Nogueira|Pedro Lacerda|Pedro Baiao|Arno Aarts|Alexandru Andrei|Silke Musa|Elvira Fortunato|Pedro Barquinha|Adam Kampff Champalimaud Centre for the Unknown;|Departamento de Ciência dos Materiais, CENIMAT/I3N and CEMOP/Uninova, Caparica, PT;|ATLAS Neuroengineering;|IMEC, Belgium;|Departamento de Ciência dos Materiais, CENIMAT/I3N and CEMOP/Uninova, Caparica, PT;|Champalimaud Neuroscience Programme, Champalimaud Centre for the Unknown, Lisbon, PT
http://dx.doi.org/10.1101/019166 2016-02-02 Evolutionary Biology CC BY-NC Coregulation of tandem duplicate genes slows evolution of subfunctionalization in mammals. Xun Lan|Jonathan K Pritchard Stanford University
http://dx.doi.org/10.1101/038554 2016-02-02 Bioinformatics Predicting protein thermal stability changes upon point mutations using statistical potentials: Introducing HoTMuSiC Fabrizio Pucci|Raphael Bourgeas|Marianne Rooman Université Libre de Bruxelles
http://dx.doi.org/10.1101/038323 2016-02-02 Bioinformatics CC BY Application of new informatics tools for identifying allosteric lead ligands of the c-Src kinase Lili X Peng|Morgan Lawrenz|Diwakar Shukla|Grace W Tang|Vijay S Pande|Russ B Altman Stanford University;|University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/038539 2016-02-02 Genetics CC BY Variations in MHC-DRB1 exon2 and associations with Brucellosis susceptibility in Chinese Merino sheep Yuee Chen|Wanyun Xu|Chuangfu Chen|Hugh T Blair|Jianfeng Gao School of Life Sciences, Shihezi University;|Massey University
http://dx.doi.org/10.1101/038398 2016-02-02 Immunology A novel polymorphism in nitric oxide synthase interacting protein (NOSIP) modulates nitric oxide synthesis and influences mortality in human sepsis Ratnadeep Mukherjee|Diwakar Kumar Singh|Pijus Kanti Barman|Birendra Kumar Prusty|Pravat Thatoi|Rina Tripathy|Bidyut Kumar Das|Balachandran Ravindran Institute of Life Sciences;|S.C.B. Medical College;|Post Graduate Department of Paediatrics Sishu Bhawan
http://dx.doi.org/10.1101/031369 2016-02-02 Genetics CC BY Genome-wide association analyses in >119,000 individuals identifies thirteen morningness and two sleep duration loci Samuel E Jones|Jessica Tyrrell|Andrew R Wood|Robin N Beaumont|Katherine S Ruth|Marcus A Tuke|Hanieh Yaghootkar|Youna Hu|Maris Teder-Laving|Caroline Hayward|Till Roenneberg|James F Wilson|Fabiola Del Greco|Andrew A Hicks|Chol Shin|Chang-Ho Yun|Seung Ku Lee|Andres Metspalu|Enda M Byrne|Philip R Gehrman|Henning Tiemeier|Karla V Allebrandt|Rachel M Freathy|Anna Murray|David A Hinds|Timothy M Frayling|Michael N Weedon Medical School, University of Exeter, UK;|23andMe Inc., 899 W. Evelyn Avenue, Mountain View, California 94041, USA;|Estonian Genome Center and Institute of Molecular and Cell Biology, University of Tartu, Estonia;|Medical Research Council Human Genetics Unit, Institute of Genetics and Molecular Medicine, UK;|Institute of Medical Psychology, Ludwig-Maximilians-University, Germany;|Centre for Biomedicine, European Academy of Bolzano, Italy;|Korea University Ansan Hospital, Ansan, Republic of Korea;|Seoul National University Bundang Hospital, Seongnam, Republic of Korea;|Queensland Brain Institute, University of Queenslands, Australia;|Perelman School of Medicine, University of Pennsylvania, USA;|Department of Psychiatry, Erasmus University Medical Centre, Netherlands
http://dx.doi.org/10.1101/024364 2016-02-02 Neuroscience CC BY-NC-ND Prediction of primary somatosensory neuron activity during active tactile exploration Dario Campagner|Mathew H. Evans|Michael R. Bale|Andrew Erskine|Rasmus S. Petersen University of Manchester;|University of Sussex;|National Institute for Medical Research (NIMR)
http://dx.doi.org/10.1101/006346 2016-02-02 Neuroscience NBLAST: Rapid, sensitive comparison of neuronal structure and construction of neuron family databases Marta Costa|James D. Manton|Aaron D. Ostrovsky|Steffen Prohaska|Gregory S.X.E. Jefferis Neurobiology Division, MRC Laboratory of Molecular Biology, Cambridge, CB2 0QH, UK;|Zuse Institute Berlin (ZIB), 14195 Berlin-Dahlem, Germany
http://dx.doi.org/10.1101/038513 2016-02-02 Immunology ERK5 kinase activity is not required for cellular immune response Emme C.K. Lin|Christopher A. Amantea|Tyzoon K. Nomanbhoy|Helge Weissig|Junichi Ishiyama|Yi Hu|Shyama Sidique|Bei Li|John W. Kozarich|Jonathan S. Rosenblum ActivX Biosciences;|Kyorin Pharmaceutical Co.
http://dx.doi.org/10.1101/038497 2016-02-02 Evolutionary Biology Phenotypic plasticity promotes balanced polymorphism in periodic environments by a genomic storage effect Davorka Gulisija|Yuseob Kim|Joshua B. Plotkin Department of Biology, University of Pennsylvania, Philadelphia, PA, 19104, USA;|Department of Life Science and Division of EcoScience, Ewha Womans University, Seoul, Korea 120-750
http://dx.doi.org/10.1101/038505 2016-02-02 Evolutionary Biology CC BY-NC-ND Evolution of multiplayer cooperation on graphs Jorge Pena|Bin Wu|Jordi Arranz|Arne Traulsen Max Planck Institute for Evolutionary Biology;|School of Sciences, Beijing University of Posts and Telecommunications
http://dx.doi.org/10.1101/038455 2016-02-02 Evolutionary Biology CC BY Bayesian Node Dating based on Probabilities of Fossil Sampling Supports Trans-Atlantic Dispersal of Cichlid Fishes Michael Matschiner|Zuzana Musilova|Julia M I Barth|Zuzana Starostova|Walter Salzburger|Mike Steel|Remco Bouckaert Centre for Ecological and Evolutionary Synthesis (CEES), Department of Biosciences, University of Os;|Department of Zoology, Faculty of Science, Charles University in Prague, Prague, Czech Republic;|Zoological Institute, University of Basel, Basel, Switzerland;|Department of Mathematics and Statistics, University of Canterbury, Christchurch, New Zealand;|Department of Computer Science, University of Auckland, Auckland, New Zealand
http://dx.doi.org/10.1101/024307 2016-02-01 Plant Biology CC BY-NC-ND Ancient trans-acting siRNAs Confer Robustness and Sensitivity onto the Auxin Response Yevgeniy Plavskin|Akitomo Nagashima|Pierre-Francois Perroud|Mitsuyasu Hasebe|Ralph S Quatrano|Gurinder S Atwal|Marja CP Timmermans Cold Spring Harbor Laboratory; New York University;|National Institute for Basic Biology; Exploratory Research for Advanced Technology;|Washington University; Philipps-Universität Marburg;|Washington University;|Cold Spring Harbor Laboratory;|Cold Spring Harbor Laboratory; University of Tübingen
http://dx.doi.org/10.1101/033746 2016-02-01 Biophysics CC BY Measuring and modeling diffuse scattering in protein X-ray crystallography Andrew H Van Benschoten|Lin Liu|Ana Gonzalez|Aaron S Brewster|Nicholas K Sauter|James S Fraser|Michael Wall UCSF;|SSRL;|LBNL;|Los Alamos National Laboratory
http://dx.doi.org/10.1101/036483 2016-02-01 Genomics CC BY-NC-ND A neo-sex chromosome in the Monarch butterfly, Danaus plexippus James Walters|Andrew J Mongue University of Kansas
http://dx.doi.org/10.1101/038059 2016-02-01 Cell Biology CC BY Decoupling global and local relations in biased biological systems Assaf Zaritsky|Uri Obolski|Zuzana Kadlecova|Zhuo Gan|Yi Du|Sandra L Schmid|Gaudenz Danuser UT Southwestern Medical Center;|Tal Aviv University
http://dx.doi.org/10.1101/038414 2016-02-01 Evolutionary Biology CC BY-NC-ND Skew in ovarian activation depends on domicile size in a facultatively social thrips James DJ Gilbert|Alice Wells|Stephen J Simpson University of Hull;|CSIRO, Australia;|University of Sydney
http://dx.doi.org/10.1101/037143 2016-02-01 Neuroscience CC BY-NC-ND Nanoscale dynamics of synaptic vesicle trafficking and fusion at the presynaptic active zone Thirumalini Vaithianathan|Diane Henry|Wendy Akmentin|Gary Matthews Stony Brook University
http://dx.doi.org/10.1101/038422 2016-02-01 Plant Biology Auxin-induced expression divergence between Arabidopsis species likely originates within the TIR1/AFB-AUX/IAA-ARF signaling network Jana Trenner|Yvonne Poeschl|Jan Grau|Andreas Gogol-Doring|Marcel Quint|Carolin Delker Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry;|German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig;|Institute of Computer Science, Martin Luther University Halle-Wittenberg;|German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig;|Institute of Agricultural and Nutritional Sciences, Martin Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/038430 2016-02-01 Genomics CC BY-NC-ND HUMAN LONGEVITY IS INFLUENCED BY MANY GENETIC VARIANTS: EVIDENCE FROM 75,000 UK BIOBANK PARTICIPANTS Luke C Pilling|Janice L Atkins|Kirsty Bowman|Samuel E Jones|Jessica Tyrrell|Robin N Beaumont|Katherine S Ruth|Marcus A Tuke|Hanieh Yaghootkar|Andrew R Wood|Rachel M Freathy|Anna Murray|Michael N Weedon|Luting Xue|Kathryn Lunetta|Joanne M Murabito|Lorna W Harries|Jean-Marie Robine|Carol Brayne|George A Kuchel|Luigi Ferrucci|Timothy M Frayling|David Melzer Institute of Biomedical and Clinical Sciences, University of Exeter Medical School, UK;|Department of Biostatistics, Boston University, USA;|Boston University School of Medicine, USA;|Departement de Biostatistiques, Montpellier, France;|School of Clinical Medicine, University of Cambridge, UK;|Center on Aging, University of Connecticut, USA;|National Institute on Aging, USA
http://dx.doi.org/10.1101/038133 2016-02-01 Animal Behavior and Cognition DAVID: An open-source platform for real-time emotional speech transformation. With 25 applications in the behavioral sciences Laura Rachman|Marco Liuni|Pablo Arias|Andreas Lind|Petter Johansson|Lars Hall|Daniel Richardson|Katsumi Watanabe|Stephanie Dubal|Jean-Julien Aucouturier IRCAM;|STMS UMR9912 / IRCAM;|STMS UMR9912 / IRCAM;|Lund University Cognitive Science;|Lund University Cognitive Science / Swedish Collegium for Advanced Study, Uppsala University;|Department of Experimental Psychology, University College London;|Dept of Intermedia Art and Science, Waseda University / University of Tokyo;|Inserm, CNRS, UPMC, Institut du Cerveau et de la Moelle Epiniere;|STMS UMR9912 / IRCAM / CNRS / UPMC
http://dx.doi.org/10.1101/023598 2016-02-01 CC BY Perturbative formulation of general continuous-time Markov model of sequence evolution via insertions/deletions, Part I: Theoretical basis Kiyoshi Ezawa|Dan Graur|Giddy Landan Kyushu Institute of Technology;|University of Houston;|Heinrich-Heine University
http://dx.doi.org/10.1101/029330 2016-02-01 CC BY-NC-ND On the distribution and function of synaptic clusters Romain Daniel Caze|Amanda Joy Foust|Claudia Clopath|Simon R Schultz Imperial College London
http://dx.doi.org/10.1101/038331 2016-02-01 Biophysics Analysis of Two-State Folding Using Parabolic Approximation III: Non-Arrhenius Kinetics of FBP28 WW Part-I Robert S Sade Not Affiliated to any Institute
http://dx.doi.org/10.1101/021667 2016-02-01 Scientific Communication and Education CC BY Publishing descriptions of non-public clinical datasets: guidance for researchers, repositories, editors and funding organisations Iain Hrynaszkiewicz|Varsha Khodiyar|Andrew Hufton|Susanna-Assunta Sansone Springer Nature;|Scientific Data;|University of Oxford
http://dx.doi.org/10.1101/036491 2016-01-31 Biophysics Analysis of Two-State Folding Using Parabolic Approximation I: Hypothesis Robert S Sade Not Affiliated to any Institute
http://dx.doi.org/10.1101/038281 2016-01-30 Biophysics CC BY-NC Compaction and segregation of sister chromatids via active loop extrusion Anton Goloborodko|Maxim V. Imakaev|John F. Marko|Leonid A. Mirny Massachusetts Institute of Technology;|Massachusetts Institute of Tech;|Northwestern University
http://dx.doi.org/10.1101/038315 2016-01-30 Evolutionary Biology How transposons drive evolution of virulence in a fungal pathogen Luigi Faino|Michael F. Seidl|Xiaoqian Shi-Kunne|Marc Pauper|Grardy C.M. van den Berg|Alexander H.J. Wittenberg|Bart P.H.J. Thomma Wageningen University;|Keygene NV
http://dx.doi.org/10.1101/038216 2016-01-29 Bioinformatics CC BY False Discovery Rates: A New Deal. Matthew Stephens Univ. of Chicago
http://dx.doi.org/10.1101/038273 2016-01-29 Cancer Biology CC BY-NC-ND Impact of metabolic heterogeneity on tumor growth, invasion, and treatment outcomes Mark Robertson-Tessi|Robert J Gillies|Robert A Gatenby|Alexander RA Anderson Moffitt Cancer Center
http://dx.doi.org/10.1101/038208 2016-01-29 Bioinformatics CC BY-NC-ND MetaFlow: Metagenomic profiling based on whole-genome coverage analysis with min-cost flows Ahmed Sobih|Alexandru I. Tomescu|Veli Makinen University of Helsinki
http://dx.doi.org/10.1101/038232 2016-01-29 Plant Biology CC BY Cell re-entry assays do not support models of pathogen- independent translocation of AvrM and AVR3a effectors into plant cells Benjamin Petre|Michaela Kopischke|Alexandre Evrard|Silke Robatzek|Sophien Kamoun The Sainsbury Laboratory
http://dx.doi.org/10.1101/038240 2016-01-29 Evolutionary Biology CC BY The genetic architecture of local adaptation II: The QTL landscape of water-use efficiency for foxtail pine (Pinus balfouriana Grev. & Balf.) Andrew J Eckert|Douglas E Harwood|Brandon M Lind|Erin M Hobson|Annette Delfino Mix|Patricia E Maloney|Christopher J. Friedline Virginia Commonwealth University;|USDA Pacific Research Station;|University of California, Davis
http://dx.doi.org/10.1101/038224 2016-01-29 Genomics CC BY Human splicing diversity across the Sequence Read Archive Abhinav Nellore|Andrew E Jaffe|Jean-Philippe Fortin|Jose Alquicira-Hernandez|Leonardo Collado-Torres|Siruo Wang|Robert A Phillips|Nishika Karbhari|Kasper D Hansen|Ben Langmead|Jeffrey T Leek Johns Hopkins University;|Lieber Institute for Brain Development;|Johns Hopkins Bloomberg School of Public Health;|National Autonomous University of Mexico;|Centre College;|Salisbury University;|University of Texas at Austin
http://dx.doi.org/10.1101/030239 2016-01-29 Cancer Biology CC BY Cross-population analysis of high-grade serous ovarian cancer reveals only two robust subtypes Gregory P Way|James Rudd|Chen Wang|Habib Hamidi|Brooke L Fridley|Gottfried Konecny|Ellen L Goode|Casey S Greene|Jennifer A Doherty University of Pennsylvania;|Geisel School of Medicine at Dartmouth College;|Mayo Clinic;|University of California, Los Angeles;|University of Kansas Medical Center
http://dx.doi.org/10.1101/038190 2016-01-29 Bioinformatics CC BY SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments Andrew J. Page|Ben Taylor|Aidan J. Delaney|Jorge Soares|Torsten Seemann|Jacqueline A. Keane|Simon R. Harris Wellcome Trust Sanger Institute;|University of Brighton;|Victorian Life Sciences Computation Initiative, The University of Melbourne
http://dx.doi.org/10.1101/037176 2016-01-29 Neuroscience CC BY-NC-ND Areas activated during naturalistic reading comprehension overlap topological visual, auditory, and somatotomotor maps Mariam R Sood|Martin I Sereno Birkbeck;|Birkbeck, UCL
http://dx.doi.org/10.1101/033092 2016-01-29 Bioinformatics Unearthing new genomic markers of drug response by improved measurement of discriminative power Cuong Dang|Antonio Peon|Pedro Ballester CRCM;|INSERM
http://dx.doi.org/10.1101/038000 2016-01-29 Systems Biology CC BY Dichotomy of cellular inhibition by small-molecule inhibitors revealed by single-cell analysis Robert Vogel|Amir Erez|Gregoire Altan-Bonnet Memorial Sloan Kettering Cancer Center;|National Cancer Institute
http://dx.doi.org/10.1101/038174 2016-01-28 Genomics A community overlap strategy reveals central genes and networks in heart failure Pablo Cordero|Ayca Erbilgin|Ching Shang|Michael P Morley|Mathew Wheeler|Frederick Dewey|Kevin S Smith|Ray Hu|Jeffrey Brandimarto|Yichuan Liu|Mingyao Li|Hongzhe Li|Scott Ritter|Sihai H Zhao|Komal S Rathi|Liming Qu|Avinash Das|Stephen Montgomery|Sridhar Hannenhalli|Christine S Moravec|Wilson H Tang|Kenneth B Margulies|Thomas P Cappola|Euan A Ashley Stanford University;|Stanford Center for Inherited Cardiovascular Disease;|Perelman School of Medicine, University of Pennsylvania;|Department of Pathology, Stanford School of Medicine;|Department of Biostatistics and Epidemiology, University of Pennsylvania;|Department of Statistics, University of Illinois at Urbana-Champaign;|Cardiovascular Institute and Department of Medicine, Perelman School of Medicine, University of Penn;|7 Center for Applied Genomics, Children's Hospital of Philadelphia;|9 Center for Bioinformatics and Computational Biology, University of Maryland;|Department of Cardiovascular Medicine, Cleveland Clinic
http://dx.doi.org/10.1101/037408 2016-01-28 Biophysics CC BY-NC-ND On the Importance of Hydrodynamic Interactions in the Stepping Kinetics of Kinesin Dave Thirumalai|Yonathan Goldtzvik|Zhechun Zhang University of Maryland
http://dx.doi.org/10.1101/038158 2016-01-28 Plant Biology CC BY-ND Plastid degeneration in Tillandsia (Bromeliaceae) provides evidence about the origin of multilamellar bodies in plants Alessio Papini|Wouter G. van Doorn University of Florence;|Mann Laboratory, Department of Plant Sciences, University of California, Davis, California
http://dx.doi.org/10.1101/038125 2016-01-28 Ecology CC BY-ND The genetic Allee effect: a unified framework for the genetics and demography of small populations Gloria M Lucque|Chloe Vayssade|Benoit Facon|Thomas Guillemaud|Franck Courchamp|Xavier Fauvergue CNRS;|INRA
http://dx.doi.org/10.1101/038141 2016-01-28 Evolutionary Biology CC BY-ND Scans for positive selection reveal candidate genes and local adaptation of Peromyscus leucopus populations to urbanization Stephen E Harris|Jason Munshi-South CUNY - The Graduate Center;|Fordham University
http://dx.doi.org/10.1101/037887 2016-01-28 Evolutionary Biology CC BY-NC Evolutionary stability of jointly evolving traits in subdivided populations Charles Mullon|Laurent Keller|Laurent Lehmann University of Lausanne
http://dx.doi.org/10.1101/038117 2016-01-28 Systems Biology Micro-Magellan: A flexible, open source acquisition software for high throughput biological light microscopy Henry Pinkard|Nico Stuurman|Kaitlin Corbin|Ronald Vale|Matthew F Krummel UC Berkeley;|UCSF
http://dx.doi.org/10.1101/038091 2016-01-28 Microbiology CC BY-NC-ND Real-time predictions of reservoir size and rebound time during antiretroviral therapy interruption trials for HIV Alison L Hill|Daniel Scholes Rosenbloom|Edward Goldstein|Emily Hanhauser|Daniel R Kuritzkes|Robert F Siliciano|Timothy J Henrich Harvard University;|Columbia University Medical Center;|Harvard T.H. Chan School of Public Health;|Harvard Medical School;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/038067 2016-01-28 Systems Biology Integrated molecular phenotyping identifies genes and pathways disrupted in osteoarthritis Graham R.S. Ritchie|Theodoros I. Roumeliotis|Julia Steinberg|Abbie L.A. Binch|Rachel Coyle|Mercedes Pardo|Christine L. Le Maitre|Jyoti S. Choudhary|J. Mark Wilkinson|Eleftheria Zeggini University of Edinburgh;|Wellcome Trust Sanger Institute;|Sheffield Hallam University;|University of Sheffield
http://dx.doi.org/10.1101/034728 2016-01-28 Genetics Sex-biased gene expression in Drosophila melanogaster is constrained by ontogeny and genetic architecture Fiona C Ingleby|Claire L Webster|Tanya M Pennell|Ilona Flis|Edward H Morrow University of Sussex;|University of Oxford
http://dx.doi.org/10.1101/037275 2016-01-27 Cell Biology Droplets bumpers as mechanical sensors for cell migration under confinement Diana Molino|Sandrine Quignard|Clemence Gruget|Frederic Pincet|Yong Chen|Matthieu Piel|Jacques Fattaccioli École Normale Supérieure, CNRS UMR 8640, UPMC;|Départment de Physique, École Normale Supérieure;|CNRS UMR 144, Institut Curie
http://dx.doi.org/10.1101/038018 2016-01-27 Bioinformatics CC BY-NC-ND Seqping: Gene Prediction Pipeline for Plant Genomes using Self-Trained Gene Models and Transcriptomic Data Kuang-Lim Chan|Rozana Rosli|Tatiana Tatarinova|Michael Hogan|Mohd Firdaus-Raih|Eng-Ti Leslie Low Malaysian Palm Oil Board;|University of Southern California;|Orion Genomics;|Universiti Kebangsaan Malaysia
http://dx.doi.org/10.1101/038026 2016-01-27 Neuroscience Sex-dependent and sex-independent brain resting-state functional connectivity in children with autism spectrum disorder Xin Di|Bharat B Biswal NJIT;|New Jersey Institute of Technology
http://dx.doi.org/10.1101/038034 2016-01-27 Bioengineering CC BY-NC-ND DNA sequencing with stacked nanopores and exonuclease: a simulation-based analysis G. Sampath Unaffiliated
http://dx.doi.org/10.1101/038042 2016-01-27 Genomics CC BY-NC-ND INC-Seq: Accurate single molecule reads using nanopore sequencing Chenhao Li|Kern Rei Chng|Jia Hui Esther Boey|Hui Qi Amanda Ng|Andreas Wilm|Niranjan Nagarajan Genome Institute of Singapore
http://dx.doi.org/10.1101/038083 2016-01-27 Bioinformatics CC BY Citizen Science for Mining the Biomedical Literature Ginger Tsueng|Max Nanis|Jennifer Fouquier|Benjamin Good|Andrew Su The Scripps Research Institute
http://dx.doi.org/10.1101/029801 2016-01-27 Ecology CC BY The Low Abundance and High Catchability of Large Piscivorous Ferox Trout (Salmo trutta) in Loch Rannoch, Scotland Alastair Thorne|Alasdair I MacDonald|Joseph L Thorley Marine Scotland;|Poisson Consulting Ltd.
http://dx.doi.org/10.1101/036566 2016-01-27 Bioinformatics CC BY-NC-ND Principal component of explained variance: an efficient and optimal data dimension reduction framework for association studies Maxime Turgeon|Karim Oualkacha|Antonio Ciampi|Golsa Dehghan|Brent W. Zanke|Andrea L. Benedet|Pedro Rosa-Neto|Celia MT. Greenwood|Aurelie Labbe McGill University;|Universite du Quebec a Montreal;|Arctic Diagnostics Inc.
http://dx.doi.org/10.1101/024067 2016-01-27 Genetics CC BY-ND A method to estimate the contribution of regional genetic associations to complex traits from summary association statistics Guillaume Pare|Shihong Mao|Wei Deng Department of Pathology and Molecular Medicine, McMaster University, Hamilton, Canada;|Population Health Research Institute, Hamilton Health Sciences and McMaster University, Hamilton, Ca;|Department of Statistical Sciences, University of Toronto, Toronto, Canada
http://dx.doi.org/10.1101/033696 2016-01-27 Bioinformatics CC BY-NC ME-plot: A QC package for bisulfite sequencing reads Bong-Hyun Kim National Cancer Institute
http://dx.doi.org/10.1101/037978 2016-01-26 Plant Biology CC BY-NC-ND Sensitive whole mount in situ localization of small RNAs in plants Mouli Ghosh Dastidar|Magdalena Mosiolek|Michael D Nodine|Alexis Maizel University of Heidelberg;|Gregor Mendel Institute
http://dx.doi.org/10.1101/037861 2016-01-26 Genetics CC BY-NC Using Genome Wide Estimates of Heritability to Examine the Relevance of Gene-Environment Interplay BENJAMIN W DOMINGUE|Jason D. Boardman Stanford University;|University of Colorado
http://dx.doi.org/10.1101/037911 2016-01-26 Immunology IRNdb: The database of immunologically relevant non-coding RNAs. Elena Denisenko|Daniel Ho|Ousman Tamgue|Mumin Ozturk|Harukazu Suzuki|Frank Brombacher|Reto Guler|Sebastian Schmeier Massey University;|University of Cape Town;|RIKEN Center for Life Science Technologies;|University of cape Town
http://dx.doi.org/10.1101/037986 2016-01-26 Pathology CC BY On Post-Acquisition Motion Compensation for Prostate Perfusion Analysis Gert Wollny|Isabel Casanova|Maria-Jesus Ledesma-Carbayo|Andres Santos Currently without affiliation;|ETSIT, Universidad Polit ecnica de Madrid, Spain;|Universidad Politecnica de Madrid, Madrid, Spain
http://dx.doi.org/10.1101/037952 2016-01-26 Evolutionary Biology An In Silico Model to Simulate the Evolution of Biological Aging Arian Sajina|Dario Riccardo Valenzano Friedrich-Wilhelm Gymnasium, Cologne, Germany;|Max Planck Institute for Biology of Ageing, Cologne, Germany
http://dx.doi.org/10.1101/037895 2016-01-26 Biophysics CC BY-NC-ND How do metal ions direct ribozyme folding? Dave Thirumalai|Natasha A. Denesyuk University of Maryland
http://dx.doi.org/10.1101/036962 2016-01-26 Bioinformatics CC BY pileup.js: a JavaScript library for interactive and in-browser visualization of genomic data Dan Vanderkam|B. Arman Aksoy|Isaac Hodes|Jaclyn Perrone|Jeffrey Hammerbacher Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/027656 2016-01-26 Synthetic Biology CC BY-ND Design Space Exploration of the Violacein Pathway in Escherichia coli Based Transcription Translation Cell-Free System (TX-TL) Phuc H.B. Nguyen|Yong Wu|Shaobin Guo|Richard M Murray California State University, Long Beach;|California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/037812 2016-01-25 Evolutionary Biology A comparison of ancestral state reconstruction methods for quantitative characters Manuela Royer-Carenzi|Gilles Didier I2M, CNRS UMR 7373, Aix-Marseille University
http://dx.doi.org/10.1101/037820 2016-01-25 Biophysics Predictive multi-scale computational environment for studying epithelial dynamics Ali Nematbakhsh|Wenzhao Sun|Pavel A Brodskiy|Cody Narciso|Zhiliang Xu|Jeremiah J Zartman|Mark S Alber University of Notre Dame
http://dx.doi.org/10.1101/037788 2016-01-25 Neuroscience CC BY-NC-ND Incorporating and compensating cerebrospinal fluid in surface-based forward models of magneto- and electroencephalography Matti Stenroos|Aapo Nummenmaa Aalto University;|Athinoula A. Martinos Center for Biomedical Imaging, MGH, Harvard Medical School
http://dx.doi.org/10.1101/037838 2016-01-25 Developmental Biology CC BY Newly identified satellite cells respond to damage through Notch- Delta signaling to fuse with adult Drosophila muscles. RAJESH D. GUNAGE|Heinrich Reichert|K. VijayRaghavan NCBS-TIFR
http://dx.doi.org/10.1101/037515 2016-01-25 Bioengineering A Genetically Encoded Reporter for Diffusion Weighted Magnetic Resonance Imaging Arnab Mukherjee|Di Wu|Hunter C. Davis|Mikhail G. Shapiro California Institute of Technology
http://dx.doi.org/10.1101/037770 2016-01-25 Evolutionary Biology CC BY-ND Statistics of Cellular Evolution in Leukemia: Allelic Variations in Patient Trajectories Based on Immune Repertoire Sequencing Hong Gao|Chunlin Wang|Junhee Seok|Marcus W Feldman|Wenzhong Xiao Stanford University;|Massachusetts General Hospital, Harvard Medical School
http://dx.doi.org/10.1101/029892 2016-01-25 Evolutionary Biology CC BY Expression of segment polarity genes in brachiopods supports a nonsegmental ancestral role of engrailed for bilaterians Bruno Cossermelli Vellutini|Andreas Hejnol University of Bergen
http://dx.doi.org/10.1101/037267 2016-01-25 Bioinformatics CC BY-ND The Northern Arizona SNP Pipeline (NASP): accurate, flexible, and rapid identification of SNPs in WGS datasets Jason W Sahl|Darrin Lemmer|Jason Travis|James Schupp|John Gillece|Maliha Aziz|Elizabeth Driebe|Kevin Drees|Nathan Hicks|Charles Williamson|Crystal Hepp|David Smith|Chandler Roe|David Engelthaler|David Wagner|Paul Keim Northern Arizona University; Translational Genomics Research Institute;|Translational Genomics Research Institute;|The George Washington University;|University of New Hampshire;|Harvard University;|Northern Arizona University;|Nothern Arizona University; Translational Genomics Research Institute
http://dx.doi.org/10.1101/037721 2016-01-25 Neuroscience CC BY-NC-ND The wiring diagram of a glomerular olfactory system Matthew E. Berck|Avinash Khandelwal|Lindsey Claus|Luis Hernandez-Nunez|Guangwei Si|Christopher J. Tabone|Feng Li|James W. Truman|Richard D. Fetter|Matthieu Louis|Aravinthan D. T. Samuel|Albert Cardona Harvard University;|EMBL-CRG Systems Biology Program, Centre for Genomic Regulation (CRG), The Barcelona Institute of Sc;|HHMI Janelia
http://dx.doi.org/10.1101/027292 2016-01-25 Evolutionary Biology Spatially-constrained growth enhances conversional meltdown Maxim O. Lavrentovich|Mary E. Wahl|David R. Nelson|Andrew W. Murray University of Pennsylvania;|Harvard University
http://dx.doi.org/10.1101/033266 2016-01-24 Neuroscience Automated long-term recording and analysis of neural activity in behaving animals Ashesh K Dhawale|Rajesh Poddar|Evi Kopelowitz|Valentin Normand|Steffen Wolff|Bence Olveczky Harvard University
http://dx.doi.org/10.1101/037671 2016-01-23 Bioinformatics CC BY-NC-ND Reference-free deconvolution of DNA methylation data and mediation by cell composition effects Eugene Andres Houseman|Molly L Kile|David C Christiani|Tan A Ince|Karl T Kelsey|Carmen J Marsit Oregon State University;|Harvard T. H. Chan School of Public Health;|University of Miami, Miller School of Medicine;|Brown University;|Dartmouth Medical School
http://dx.doi.org/10.1101/032417 2016-01-23 Genetics Genome-wide analysis of over 106,000 individuals identifies 9 neuroticism-associated loci Daniel J Smith|Valentina Escott-Price|Gail Davies|Mark ES Bailey|Lucia Colodro Conde|Joey Ward|Alexey Vedernikov|Riccardo Marioni|Breda Cullen|Donald Lyall|Saskia P Hagenaars|David CM Liewald|Michelle Luciano|Catharine R Gale|Stuart J Ritchie|Caroline Hayward|Barbara Nicholl|Brendan Bulik-Sullivan|Mark Adams|Baptiste Couvy-Duchesne|Nicholas Graham|Daniel Mackay|Jonathan Evans|Blair H Smith|David J Porteous|Sarah Medland|Nick Martin|Peter Holmans|Andrew M McIntosh|Jill P Pell|Ian J Deary|Michael O'Donovan University of Glasgow;|Cardiff University;|University of Edinburgh;|QIMR;|Broad Institute;|University of Dundee
http://dx.doi.org/10.1101/037655 2016-01-22 Genomics CC BY TreeToReads - a pipeline for simulating raw reads from phylogenies Emily Jane McTavish|James Pettengill|Steven Davis|Hugh Rand|Errol Strain|Marc Allard|Ruth E Timme University of Kansas;|FDA, Division of Microbiology, Center for Food Safety and Applied Nutrition;|FDA, Biostatistics and Bioinformatics Staff, Center for Food Safety and Applied Nutrition
http://dx.doi.org/10.1101/037648 2016-01-22 Animal Behavior and Cognition CC BY-NC-ND Search calls long duration puts the bat on the tympanate moth's radar. A new perspective on how Noctuoidea's auditory cells drive evasive manoeuvres. Herve Thevenon|Gerit Pfuhl UiT - Arctic University of Norway
http://dx.doi.org/10.1101/037713 2016-01-22 Genomics CC BY-NC-ND A genetic test for differential causative pathology in disease subgroups James Liley|John A. Todd|Chris Wallace University of Cambridge
http://dx.doi.org/10.1101/037705 2016-01-22 Physiology CC BY The view of the native gauges of blood pressure - focus on atrium (hydrodynamics and rheology) Yuri Kamnev private initiative
http://dx.doi.org/10.1101/037689 2016-01-22 Evolutionary Biology CC BY Identification of positive selection in genes is greatly improved by using experimentally informed site-specific models Jesse Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/037598 2016-01-22 Evolutionary Biology Stress affects the epigenetic marks added by Bari-Jheh: a natural insertion associated with two adaptive phenotypes in Drosophila Lain Guio|Cristina Vieira|Josefa Gonzalez Institut of Evolutionary Biology;|Laboratoire de Biométrie et Biologie Évolutive;|Institute of Evolutionary Biology
http://dx.doi.org/10.1101/037440 2016-01-22 Zoology CC BY-ND Nuclear and mitochondrial phylogeny of Rossella (Hexactinellida: Lyssacinosida, Rossellidae): a species and a species flock in the Southern Ocean Sergio Vargas R.|Martin Dohrmann|Christian Goecke|Dorte Janussen|Gert Woerheide LMU Muenchen;|Palaeontology and Geobiology, Ludwig-Maximilians-Universtitaet;|Forschungsinstitut und Naturmuseum Senckenberg, D-60325 Frankfurt am Main, Germany
http://dx.doi.org/10.1101/037010 2016-01-22 Synthetic Biology CC BY-NC-ND When Wavelengths Collide: Bias in Cell Abundance Measurements due to Expressed Fluorescent Proteins Ariel Hecht|Drew Endy|Marc Salit|Matthew S. Munson NIST/JIMB;|Stanford
http://dx.doi.org/10.1101/037424 2016-01-22 Cancer Biology CC BY-NC-ND Precision Medicine in the Clinic: Personalizing a Model of Glioblastoma Through Parameterization Andrea Hawkins-Daarud|Kristin R. Swanson Mayo Clinic
http://dx.doi.org/10.1101/037150 2016-01-22 Neuroscience CC BY-NC A neurocomputational model of human frontopolar cortex function Alexandre HYAFIL|Etienne KOECHLIN Ecole Normale Superieure
http://dx.doi.org/10.1101/037283 2016-01-22 Biophysics CC BY-NC-ND Folding PDZ2 domain using the Molecular Transfer Model Zhenxing Liu|Govardhan Reddy|Dave Thirumalai Beijing Normal University;|Indian Institute of Science, Bangalore;|University of Texas at Austin
http://dx.doi.org/10.1101/037382 2016-01-22 Genetics CC BY-NC HASE:Framework for efficient high-dimensional association analyses Gennady Roshchupkin|Hieab Adams|Meike Vernooij|Albert Hofman|Cornelia van Duijn|Arfan Ikram|Wiro Niessen Erasmus MC
http://dx.doi.org/10.1101/037465 2016-01-22 Cancer Biology A Quantitative Analysis of Localized Robustness of MYCN in Neuroblastoma Romeil Sandhu|sarah Tannenbaum|Daniel Diolaiti|Alberto Ambesi-Impiombato|Andrew Kung|Allen Tannenbaum Stony Brook Univesity;|Columbia University Medical Center;|Stony Brook University
http://dx.doi.org/10.1101/037473 2016-01-22 Bioinformatics CC BY-NC-ND Features of ChIP-seq data peak calling algorithms with good operating characteristics Reuben Thomas|Sean Thomas|Alisha K Holloway|Katherine S Pollard Gladstone Institutes
http://dx.doi.org/10.1101/037606 2016-01-22 Ecology Evolution of dispersal kernel in laboratory populations of Drosophila melanogaster Sudipta Tung|Abhishek Mishra|P.M. Shreenidhi|Mohammed Aamir Sadiq|Sripad Joshi|V.R. Shree Sruti|Sutirth Dey Indian Institute of Science Education and Research-Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/037457 2016-01-21 Genomics CC BY-ND Genetic and environmental risk for chronic pain and the contribution of risk variants for psychiatric disorders. Results from Generation Scotland: Scottish Family Health Study and UK Biobank Andrew M McIntosh|Lynsey S Hall|Yanni Zeng|Mark James Adams|Jude Gibson|Ella Wigmore|Maria Pujils-Fernandez|Archie I Campbell|Toni-Kim Clarke|Caroline Hayward|Christopher Haley|David Porteous|Ian Deary|Daniel Smith|Barbara Nicholl|David A Hinds|Amy V Jones|Serena Scollen|Weihua Meng|Blair Smith|Lynne J Hocking University of Edinburgh;|Generation Scotland;|University of Glasgow;|23andMe Inc.;|Pfizer;|Dundee University
http://dx.doi.org/10.1101/037523 2016-01-21 Genomics CC BY-NC-ND Chromes from Chromatin: Sonification of the Epigenome Davide Cittaro|Dejan Lazarevic|Paolo Provero Center for Translational Genomics and Bioinformatics, San Raffaele Hospital;|Center for Translational Genomics and Bioinformatics, San Raffaele Hospita;|Department of Molecular Biotechnology and Life Sciences, University of Turin
http://dx.doi.org/10.1101/037531 2016-01-21 Cancer Biology CC BY-NC-ND Exploring genes of rectal cancer for new treatments based on protein interaction network wenjing Teng|Yan Li|Chao Zhou Department of Oncology, Shanghai Municipal Hospital of Traditional Chinese Medicine;|Department of oncology, Weifang Traditional Chinese Medicine Hospital
http://dx.doi.org/10.1101/037564 2016-01-21 Systems Biology Transcription factor loads tend to decrease the robustness of stable gene transcription networks Shaoshuai Mou|Domitilla Del Vecchio Purdue University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/037630 2016-01-21 Genetics CC BY-NC The sex-limited effects of mutations in the EGFR and TGF- β signaling pathways on shape and size sexual dimorphism and allometry in the Drosophila wing Nick Testa|Ian Dworkin Michigan State University;|McMaster University
http://dx.doi.org/10.1101/029561 2016-01-21 Evolutionary Biology CC BY-NC-ND Variation in linked selection and recombination drive genomic divergence during allopatric speciation of European and American aspens Jing Wang|Nathaniel R Street|Douglas G Scofield|Par K Ingvarsson Umeå University;|Uppsala University;|Umeå Universitet
http://dx.doi.org/10.1101/027888 2016-01-21 Biophysics CC BY-NC-ND Extracellular Forces Cause the Nucleus to Deform in a Highly Controlled Anisotropic Manner Kristina Haase|Joan K. L. Macadangdang|Claire H. Edrington|Charles M. Cuerrier|Sebastian Hadjiantoniou|James L. Harden|Ilona S. Skerjanc|Andrew E. Pelling University of Ottawa
http://dx.doi.org/10.1101/037390 2016-01-21 Zoology CC BY Physiological reason for ceasing growth of unfertilized eggs produced by unmated queens in the subterranean termite Reticulitermes chinensis Ganghua Li|Long Liu|Pengdong Sun|Yao Wu|Chaoliang Lei|Xiongwen Chen|Qiuying Huang College of Plant Science and Technology, Huazhong Agricultural University;|College of Life Science, Hubei Normal University
http://dx.doi.org/10.1101/036574 2016-01-20 Genetics CC BY-NC-ND Commentary on "Limitations of GCTA as a solution to the missing heritability problem" Jian Yang|Sang Hong Lee|Naomi R. Wray|Michael E. Goddard|Peter M Visscher The University of Queensland;|University of New England;|University of Queensland;|University of Melbourne
http://dx.doi.org/10.1101/008979 2016-01-20 Evolutionary Biology CC BY Evolving mutation rate advances invasion speed of sexual species Marleen M. P. Cobben|Alexander Kubisch Netherlands Institute of Ecology;|University of Wuerzburg
http://dx.doi.org/10.1101/037309 2016-01-20 Genetics CC BY-NC-ND Automated Discrimination of Dicentric and Monocentric Chromosomes by Machine Learning-based Image Processing Yanxin Li|Joan HM Knoll|Ruth Wilkins|Farrah N Flegal|Peter K Rogan University of Western Ontario;|Health Canada;|Canadian Nuclear Laboratories
http://dx.doi.org/10.1101/037127 2016-01-20 Genomics CC BY-NC-ND RFPRED: A RANDOM FOREST APPROACH FOR PREDICTION OF MISSENSE VARIANTS IN HUMAN EXOME Fabienne JABOT-HANIN|Hugo Varet|Frederic Tores|Alexandre Alcais|Jean-Philippe Jais INSERM U1163, AP-HP,Necker- Enfants Malades University Hospital,Paris Descartes University;|APHP,Necker Enfants Malades University Hospital,Biostatistics Unit;|Paris Descartes University,Bioinformatics Platform, Imagine Institute;|INSERM U1163,Paris Descartes University,Imagine Institute;|APHP,Necker Enfants Malades University Hospital,Biostatistics Unit,Paris Descartes University
http://dx.doi.org/10.1101/037358 2016-01-20 Neuroscience A Bayesian framework for comparing the structure of spontaneous correlated activity recorded under different conditions Catherine S Cutts|Stephen J Eglen Unversity of Cambridge;|University of Cambridge
http://dx.doi.org/10.1101/037341 2016-01-20 Biophysics Analysis of Two-State Folding Using Parabolic Approximation II: Temperature-Dependence Robert S Sade Not Affiliated to any Institute
http://dx.doi.org/10.1101/037259 2016-01-19 Bioinformatics High-throughput identification of C/D box snoRNA targets with CLIP and RiboMeth-seq. Rafal Gumienny|Dominik Jedlinski|Georges Martin|Arnau Vina-Villaseca|Mihaela Zavolan Computational and Systems Biology, Biozentrum, University of Basel
http://dx.doi.org/10.1101/037325 2016-01-19 Microbiology CC BY-NC-ND Divorcing strain classification from species names David Baltrus University of Arizona
http://dx.doi.org/10.1101/037218 2016-01-19 Cell Biology SPARC promotes cell invasion in vivo by decreasing type IV collagen levels in the basement membrane Meghan A Morrissey|Ranjay Jayadev|Ginger R Miley|Catherine A Blebea|Qiuyi Chi|Shinji Ihara|David Sherwood Duke University;|National Institute of Genetics
http://dx.doi.org/10.1101/037333 2016-01-19 Evolutionary Biology CC BY-NC-ND Genome-wide patterns of regulatory divergence revealed by introgression lines Rafael F Guerrero|Matthew W Hahn|Leonie C Moyle|Amanda L Posto Indiana University
http://dx.doi.org/10.1101/037317 2016-01-19 Genetics CC BY-NC Fine-scale crossover rate variation on the C. elegans X chromosome Max R. Bernstein|Matthew V. Rockman New York University
http://dx.doi.org/10.1101/037226 2016-01-19 Evolutionary Biology A novel nuclear genetic code alteration in yeasts and the evolution of codon reassignment in eukaryotes Stefanie Muehlhausen|Peggy Findeisen|Uwe Plessmann|Henning Urlaub|Martin Kollmar Max-Planck-Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/037192 2016-01-19 Animal Behavior and Cognition CC BY-NC-ND Expanding perspectives on cognition in humans, animals, and machines Alex Gomez-Marin|Zachary F Mainen Champalimaud Neuroscience Programme, Champalimaud Centre for the Unknown, Lisbon, Portugal
http://dx.doi.org/10.1101/022285 2016-01-19 CC BY-NC-ND Joint estimation of contamination, error and demography for nuclear DNA from ancient humans Fernando Racimo|Gabriel Renaud|Montgomery Slatkin University of California - Berkeley;|Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/036731 2016-01-19 CC BY-NC Invasion fitness, inclusive fitness, and reproductive numbers in heterogeneous populations Laurent Lehmann|Charles Mullon|Erol Akcay|Jeremy Van Cleve University of Lausanne;|University of Pennsylvania;|University of Kentucky
http://dx.doi.org/10.1101/035980 2016-01-19 CC BY-NC-ND Identification of the ventral occipital visual field maps in the human brain Jonathan Winawer|Nathan Witthoft New York University;|Stanford University
http://dx.doi.org/10.1101/037184 2016-01-19 Evolutionary Biology Phenotypic switching can speed up biological evolution of microbes Andrew C Tadrowski|Martin R Evans|Bartlomiej Waclaw The University of Edinburgh
http://dx.doi.org/10.1101/037051 2016-01-19 Ecology The Effect of Anthropogenic Land Cover Change on Pollen-Vegetation Relationships in the American Midwest Ellen Ruth Kujawa|Simon J. Goring|Andria Dawson|Randy Calcote|Eric Grimm|Sara Hotchkiss|Elizabeth A. Lynch|Jason McLachlan|Jeannine-Marie St-Jacques|Charles Umbanhowar|John W. Williams University of Wisconsin-Madison;|Department of Statistics, University of California, Berkeley;|Limnological Research Center, University of Minnesota;|Illinois State Museum;|Department of Botany, University of Wisconsin - Madison;|Biology Department, Luther College;|Department of Biological Sciences, University of Notre Dame;|Prairie Adaptation Research Collaborative, University of Regina;|Departments of Biology and Environmental Studies, St. Olaf College;|Department of Geography, University of Wisconsin - Madison
http://dx.doi.org/10.1101/037069 2016-01-18 Neuroscience CC BY-NC On Binocular Vision: The Geometric Horopter and Cyclopean Eye Jacek Turski University of Houston-Downtown
http://dx.doi.org/10.1101/036897 2016-01-18 Genetics CC BY-ND A high-quality reference panel reveals the complexity and distribution of structural genome changes in a human population Jayne Hehir-Kwa|Tobias Marschall|Wigard P Kloosterman|Laurent C Francioli|Jasmijn A Baaijens|Louis Dijkstra|Abdel Abdellaoui|Vyacheslav Koval|Djie Tjwan Thung|Rene Wardenaar|Bradley Coe|Patrick Deelen|Joep de Ligt|Eric-Wubbo Lameijer|Freerk van Dijk|Fereydoun Hormozdiari|Evan E Eichler|Paul de Bakker|Morris Swertz|Cisca Wijmenga|Gert-Jan van Ommen|Eline Slagboom|Dorret Boomsma|Alexander Schoenhuth|Kai Ye|Victor Guryev Radboudumc;|Saarland University;|University Medical Center Utrecht;|Massachusetts General Hospital;|Centrum Wiskunde & Informatica;|University of Amsterdam;|VU University Amsterdam;|Leiden University;|University of Groningen;|University of Washington;|University of California Davis;|Leiden University Medical Center;|Washington University
http://dx.doi.org/10.1101/037093 2016-01-18 Systems Biology A virtual B cell lymphoma model to predict effective combination therapy Wei Du|Rebecca Goldstein|Yanwen Jiang|Omar Aly|Leandro Cerchietti|Ari Melnick|Olivier Elemento Weill Cornell Medical College
http://dx.doi.org/10.1101/036640 2016-01-18 Genetics An Ancestry Based Approach for Detecting Interactions Danny Park|Itamar Eskin|Eun Yong Kang|Eric R Gamazon|Celeste Eng|Christopher R Gignoux|Joshua M Galanter|Esteban Burchard|Chun J Ye|Hugues Aschard|Eleazar Eskin|Eran Halperin|Noah Zaitlen University of California, San Francisco;|Tel Aviv University;|University of California, Los Angeles;|Vanderbilt University;|Stanford University;|Harvard University
http://dx.doi.org/10.1101/033845 2016-01-18 Evolutionary Biology CC BY Extreme positive allometry of animal adhesive pads and the size limits of adhesion-based climbing. David Labonte|Christofer J Clemente|Alex Dittrich|Chi-Yun Kuo|Alfred J Crosby|Duncan J Irschick|Walter Federle Department of Zoology, University of Cambridge, Cambridge, United Kingdom;|School of Science and Engineering, The University of the Sunshine Coast, Australia;|Department of Life Sciences, Anglia Ruskin University, Cambridge, United Kingdom;|Biology Department, University of Massachusetts Amherst, USA;|Department of Polymer Science and Engineering, University of Massachusetts Amherst, USA
http://dx.doi.org/10.1101/037135 2016-01-18 Bioinformatics AdmixSim: A Forward-Time Simulator for Various and Complex Scenarios of Population Admixture Xiong Yang|Xumin Ni|Ying Zhou|Wei Guo|Kai Yuan|Shuhua Xu CAS-MPG Partner institute for Computational Biology;|Department of Mathematics, School of Science, Beijing Jiaotong University;|Institute of Applied Mathematics, Academy of Mathematics and Systems Science, Chinese Academy of Sci;|CAS-MPG Partner Institute for Computational Biology
http://dx.doi.org/10.1101/037101 2016-01-18 Bioinformatics Read-Based Phasing of Related Individuals Shilpa Garg|Marcel Martin|Tobias Marschall Max Planck Institute for Informatics;|Science for Life Laboratory, Stockholm University;|Saarland University and Max Planck Institute for Informatics
http://dx.doi.org/10.1101/023911 2016-01-18 Genomics Learning the human chromatin network from all ENCODE ChIP-seq data Scott M. Lundberg|William B. Tu|Brian Raught|Linda Z. Penn|Michael M. Hoffman|Su-In Lee University of Washington;|University of Toronto;|Princess Margaret Cancer Centre/University of Toronto
http://dx.doi.org/10.1101/023473 2016-01-18 Evolutionary Biology Estimating the effect of competition on trait evolution using maximum likelihood inference Jonathan Drury|Julien Clavel|Marc Manceau|Helene Morlon Ecole Normale Supérieure
http://dx.doi.org/10.1101/037028 2016-01-17 Plant Biology CC BY-NC-ND Changes in bioactive components of Aristolochia tagala .Cham, a rare species of medicinal importance during its in vitro development through direct regeneration Remya Mohanraj|NARMATHA BAI V|MURUGESAN S|MUTHARAIAN VN Aarupadaiveedu Institute of Technology, Chennai, India;|Bharathiar University;|Institute of Forest Genetics and Tree Breeding, Coimbatore, TamilNadu;|Bharathiar University, Coimbatore, Tamil Nadu, India
http://dx.doi.org/10.1101/037044 2016-01-17 Neuroscience CC BY The Neuro Bureau ADHD-200 Preprocessed Repository Pierre Bellec|Carlton Chu|Francois Chouinard-Decorte|Daniel S Margulies|Cameron R Craddock Department of Computer Science and Operations Research, Montreal University, Montreal, CA;|Google DeepMind, London, UK;|Integrated Program in Neuroscience, McGill University, Montreal, CA;|Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany;|Center for the Developing Brain, Child Mind Institute, New York, NY, USA
http://dx.doi.org/10.1101/029652 2016-01-16 Bioinformatics CC BY-NC RapMap: A Rapid, Sensitive and Accurate Tool for Mapping RNA-seq Reads to Transcriptomes Avi Srivastava|Hirak Sarkar|Nitish Gupta|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/030916 2016-01-16 Ecology CC BY Evidence for the priming effect in a planktonic estuarine microbial community Andrew Decker Steen|Lauren N. M. Quigley|Alison Buchan University of Tennessee
http://dx.doi.org/10.1101/036988 2016-01-16 Bioinformatics CC BY-NC-ND Isoform-level gene expression patterns in single-cell RNA-sequencing data Trung Nghia Vu|Quin F Wills|Krishna R Kalari|Nifang Niu|Liewei Wang|Yudi Pawitan|Mattias Rantalainen Karolinska Institutet;|University of Oxford;|Mayo Clinic
http://dx.doi.org/10.1101/036954 2016-01-15 Genomics CC BY-NC-ND Geographic cline analysis as a tool for studying genome-wide variation: a case study of pollinator-mediated divergence in a monkeyflower Sean Stankowski|James M. Sobel|Matthew A. Streisfeld University of Oregon;|Binghampton University
http://dx.doi.org/10.1101/036970 2016-01-15 Bioinformatics CC BY-NC-ND Logic models to predict continuous outputs based on binary inputs with an application to personalized cancer therapy Theo Knijnenburg|Gunnar Klau|Francesco Iorio|Mathew Garnett|Ultan McDermott|Ilya Shmulevich|Lodewyk Wessels Institute for Systems Biology, Seattle, WA, US;|Centrum Wiskunde & Informatica, Amsterdam, The Netherlands;|European Molecular Biology Laboratory - European Bioinformatics Institute, UK;|Wellcome Trust Sanger Institute, UK;|Institute for Systems Biology, Seattle, US;|Netherlands Cancer Institute, Amsterdam, and The Faculty of EEMCS, Delft University of Technology, D
http://dx.doi.org/10.1101/036947 2016-01-15 Cancer Biology CC BY-NC-ND The prognostic potential of alternative transcript isoforms across human tumors Juan L. Trincado|Endre Sebestyen|Hector Cliimente-Gonzalez|Amadis Pages|Eduardo Eyras Pompeu Fabra University;|2The Firc Institute of Molecular Oncology (IFOM)
http://dx.doi.org/10.1101/035493 2016-01-15 Genomics CC BY-ND The impact of amplification on differential expression analyses by RNA-seq Swati Parekh|Christoph Ziegenhain|Beate Vieth|Wolfgang Enard|Ines Hellmann LMU
http://dx.doi.org/10.1101/035576 2016-01-15 Ecology CC BY-NC-ND Sensors of change: riparian ecosystem sensitivity to local and large scale gradients in high elevation lake dragos g zaharescu|Antonio Palanca-Soler|Peter S Hooda|Catalin Tanase|Carmen I Burghelea|Richard N Lester Biosphere-2, University of Arizona, Tucson, Arizona, U.S.A.;|Animal Biology and Ecology Department, University of Vigo, Vigo, Pontevedra, Spain;|School of Natural and Built Environments, Kingston University London, U.K.;|Faculty of Biology, Alexandru Ioan Cuza University, Iași, Romania;|Formerly at Birmingham University Botanic Gardens, Birmingham, U.K. Passed away in April 2006
http://dx.doi.org/10.1101/034553 2016-01-15 Ecology CC BY-NC-ND Small lakes in big landscape: External drivers of littoral ecosystem in high elevation lakes Dragos G Zaharescu|Carmen I Burghelea|Peter S Hooda|Richard N Lester|Antonio Palanca-Soler Biosphere 2, University of Arizona, Tucson, Arizona, USA;|School of Built and Natural Environments, Kingston University London, UK;|Formerly at Birmingham University Botanic Gardens, Birmingham, U.K. Passed away in April 2006;|Animal Biology and Ecology Department, Vigo University, Vigo, Pontevedra, Spain
http://dx.doi.org/10.1101/036855 2016-01-15 Bioengineering CC BY Open Hardware: Towards a Fully-Wireless Sub-Cranial Neuro-Implant for Measuring Electrocorticography Signals David Rotermund|Jonas Pistor|Janpeter Hoeffmann|Tim Schellenberg|Dmitriy Boll|Elena Tolstosheeva|Dieter Gauck|Dagmar Peters-Drolshagen|Andreas K. Kreiter|Martin Schneider|Steffen Paul|Walter Lang|Klaus R. Pawelzik University of Bremen
http://dx.doi.org/10.1101/036830 2016-01-15 Systems Biology CC BY A convex optimization approach for identification of human tissue-specific interactomes Shahin Mohammadi|Ananth Grama Purdue University
http://dx.doi.org/10.1101/036905 2016-01-15 Neuroscience Changes in attractor dynamics predict altered perceptual decision making with dorsolateral prefrontal tDCS James J Bonaiuto|Archy de Berker|Sven Bestmann University College London
http://dx.doi.org/10.1101/036814 2016-01-15 Genomics The 2-approximation algorithm of sorting by prefix transposition revisited Md. Shafiqul Islam|Md. Khaledur Rahman|M. Sohel Rahman BUET
http://dx.doi.org/10.1101/036822 2016-01-15 Genetics CC BY-ND Methylation Analysis Reveals Fundamental Differences Between Ethnicity and Genetic Ancestry Joshua M Galanter|Christopher R Gignoux|Sam S Oh|Dara Torgerson|Maria Pino-Yanes|Neeta Thakur|Celeste Eng|Donglei Hu|Scott Huntsmann|Harold J Farber|Pedro Avila|Emerita Brigino-Buenaventura|Michael LeNoir|Kelly Meade|Denise Serebrisky|William Rodriguez-Cintron|Raj Kumar|Jose R Rodriguez-Santana|Max Seibold|Luisa Borrell|Esteban G Burchard|Noah Zaitlen University of California, San Francisco;|Stanford University;|Hospital Universitario Nuestra Senora de Candelaria;|Baylor College of Medicine and Texas Children's Hospital;|Feinberg School of Medicine, Northwestern University;|Kaiser Permanente-Vallejo Medical Center;|Bay Area Pediatrics;|Children's Hospital and Research Center;|Jacobi Medical Center;|Veterans Caribbean Health System;|The Ann and Robert H. Lurie Children's Hospital of Chicago;|Centro de Neumologia Pediatrica;|National Jewish Health;|City University of New York;|UCSF
http://dx.doi.org/10.1101/036806 2016-01-15 Evolutionary Biology Tempo and mode of genome evolution in a 50,000-generation experiment Olivier Tenaillon|Jeffrey E. Barrick|Noah Ribeck|Daniel E. Deatherage|Jeffrey L. Blanchard|Aurko Dasgupta|Gabriel C. Wu|Sebastien Wielgoss|Stephane Cruveiller|Claudine Medigue|Dominique Schneider|Richard E. Lenski Universite Paris Diderot;|University of Texas;|Michigan State University;|University of Massachusetts;|ETH Zurich;|Genoscope;|Universite Grenoble Alpes
http://dx.doi.org/10.1101/031880 2016-01-15 Ecology CC BY-ND Potential impact of sexual transmission of Ebola virus on the epidemic in West Africa Jessica Lee Abbate|Carmen Lia Murall|Heinz Richner|Christian L. Althaus Laboratoire MIVEGEC (UMR CNRS-IRD-UM1-UM2 5290);|Max-Planck Institute for Dynamics and Self-Organization, Gottingen, Germany;|Institute of Ecology and Evolution, University of Bern;|Institute of Social and Preventive Medicine (ISPM), University of Bern
http://dx.doi.org/10.1101/034405 2016-01-15 Ecology CC BY-NC-ND A multiscale framework for deconstructing the ecosystem physical template of high altitudes lakes Dragos G Zaharescu|Peter S Hooda|Carmen I Burghelea|Antonio Palanca-Soler Biosphere-2, University of Arizona, Tucson, Arizona, U.S.A.;|School of Natural and Built Environments, Kingston University London, U.K.;|Animal Biology and Ecology Department, Vigo University, Vigo, Pontevedra, Spain
http://dx.doi.org/10.1101/035212 2016-01-15 Neuroscience Pain to remember: a single incidental association with pain leads to increased memory for neutral items one year later G. Elliott Wimmer|Christian Buechel University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/036848 2016-01-15 Systems Biology CC BY-NC-ND Lifespan extension by dietary restriction in Drosophila is associated with GATA motifs and organ-specific, TOR-dependent transcriptional networks. Adam J Dobson|Xiaoli He|Eric Blanc|Ekin Bolukbasi|Mingyao Yang|Matthew Piper University College London, UK;|Berlin Institute of Health, Germany;|Sichuan Agricultural University, China
http://dx.doi.org/10.1101/036764 2016-01-15 Bioinformatics Structural features of the fly chromatin colors revealed by automatic three-dimensional modeling. Francois Serra|Davide Bau|Guillaume Filion|Marc A. Marti-Renom CNAG-CRG;|CRG
http://dx.doi.org/10.1101/036236 2016-01-15 Cell Biology CC BY-NC-ND Efficient Correction of the Sickle Mutation in Human Hematopoietic Stem Cells Using a Cas9 Ribonucleoprotein Complex Mark DeWitt|Wendy Magis|Nicolas L Bray|Tianjiao Wang|Jennifer R Berman|Fabrizia Urbinati|Denise P Munoz|Donald B Kohn|Mark C Walters|Dana Carroll|David K Martin|Jacob E Corn Innovative Genomics Initiative, University of California, Berkeley;|Children's Hospital Oakland Research Institute/UCSF Benioff Children's Hospital;|Digital Biology Center, Bio-Rad Laboratories;|Department of Microbiology, Immunology, and Molecular Genetics, University of California, Los Angel;|Children's Hospital Oakland Research Institute, UCSF Benioff Children's Hospital;|Blood & Marrow Program, Division of Hematology/Oncology/BMT, UCSF Benioff Children's Hospital;|Department of Biochemistry, University of Utah School of Medicine;|University of California, Berkeley
http://dx.doi.org/10.1101/036368 2016-01-15 Genetics CC BY-NC Quantitative assessment of eye phenotypes for functional genetic studies using Drosophila melanogaster Janani Iyer|Qingyu Wang|Thanh Le|Lucilla Pizzo|Sebastian Gronke|Surendra Ambegaokar|Yuzuru Imai|Ashutosh Srivastava|Beatriz Llamusi Troisi|Graeme Mardon|Ruben Artero|George R Jackson|Adrian Isaacs|Linda Partridge|Bingwei Lu|Justin Kumar|Santhosh Girirajan Penn State University;|Max Planck Institute;|Ohio Wesleyen;|Juntendo U;|Incliva Health Institute;|Baylor College of Medicine;|UCL;|UCL, Max Planck;|Stanford U;|Indiana U
http://dx.doi.org/10.1101/035907 2016-01-14 Bioinformatics Contrasting the genetic architecture of 30 complex traits from summary association data Huwenbo Shi|Gleb Kichaev|Bogdan Pasaniuc University of California Los Angeles
http://dx.doi.org/10.1101/031013 2016-01-14 Bioinformatics CC BY-NC-ND Haplotag: software for haplotype-based genotyping-by-sequencing analysis Nicholas A Tinker|Wubishet A Bekele|Jiro Hattori Agriculture and Agri-Food Canada;|Agriculture and Agri-Food Canada,
http://dx.doi.org/10.1101/029983 2016-01-14 Clinical Trials CC BY A prospective randomized trial examining health care utilization in individuals using multiple smartphone-enabled biosensors Cinnamon S Bloss|Nathan E Wineinger|Melissa Peters|Debra L Boeldt|Lauren Ariniello|Ju Young Kim|Judy Sheard|Ravi Komatireddy|Paddy Barrett|Eric J Topol Scripps Genomic Medicine, Scripps Translational Science Institute, and Scripps Health
http://dx.doi.org/10.1101/036665 2016-01-14 Evolutionary Biology CC BY-NC-ND Evolution of corticosteroid specificity for human, chicken, alligator and frog glucocorticoid receptors Yoshinao Katsu|Satomi Kohno|Kaori Oka|Michael E Baker Hokkaido University, Sapporo, Japan;|Medical University of South Carolina;|University of California, San Diego
http://dx.doi.org/10.1101/036400 2016-01-14 Ecology Elevated maximum temperatures and high-magnitude thermal variability drive low coral diversity on nearshore lagoonal reefs on the Belize Mesoamerican Barrier Reef Justin H Baumann|Joseph E Townsend|Travis A Courtney|Hannah E Aichelman|Sarah W Davies|Fernando P Lima|Karl D Castillo University of North Carolina at Chapel Hill, Department of Marine Sciences, 3202 Murray and Venable;|Scripps Institution of Oceanography, University of California San Diego, 9500 Gilman Dr, La Jolla,;|CIBIO/InBIO, Centro de Investigacao em Biodiversidade e Recursos Geneticos, Universitdade do Porto,
http://dx.doi.org/10.1101/036681 2016-01-14 Bioinformatics CC BY-ND Searching more genomic sequence with less memory for fast and accurate metagenomic profiling Shea N Gardner|Sasha K Ames|Maya B Gokhale|Tom R Slezak|Jonathan Allen Lawrence Livermore National Laboratory;|LLNL
http://dx.doi.org/10.1101/036707 2016-01-14 Bioinformatics CC BY Structural variation detection with read pair information --- An improved null-hypothesis reduces bias Kristoffer Sahlin|Mattias Franberg|Lars Arvestad Computational Biology;|Karolinska Institutet;|Stockholm University
http://dx.doi.org/10.1101/036632 2016-01-13 Neuroscience CC BY-NC-ND Advances in two photon scanning and scanless microscopic technologies for functional neural circuit imaging Simon R Schultz|Caroline Copeland|Amanda Foust|Peter Quicke|Renaud Schuck Imperial College London
http://dx.doi.org/10.1101/036616 2016-01-13 Scientific Communication CC BY-NC-ND Comparing the Citation Performance of PNAS Papers by Submission Track Philip M Davis Phil Davis Consulting
http://dx.doi.org/10.1101/036582 2016-01-13 Pathology A novel mutation in the nucleoporin NUP35 causes murine degenerative colonic smooth muscle myopathy Ian Parish|Lincon A Stamp|Ayla May D Lorenzo|Suzanne M Fowler|Yovina Sontani|Lisa A Miosge|Debbie R Howard|Christopher C Goodnow|Heather M Young|John B Furness Australian National University;|University of Melbourne;|Garvan Institute of Medical Research
http://dx.doi.org/10.1101/036608 2016-01-13 Neuroscience CC BY-NC-ND Cell Assembly Dynamics of Sparsely-connected Inhibitory Networks: a Simple Model for the Collective Activity of Striatal Projection Neurons David Angulo-Garcia|Joshua D. Berke|Alessandro Torcini Aix-Marseille Universite, Inserm, INMED and Institut de Neurosciences des Systemes;|Department of Psychology and Biomedical Engineering, University of Michigan
http://dx.doi.org/10.1101/036624 2016-01-13 Developmental Biology A gene regulatory network for apical organ neurogenesis and its spatial control in sea star embryos. Alys Jarvela|Kristen Yankura|Veronica Hinman U. Maryland;|UCLA;|Carnegie Mellon University
http://dx.doi.org/10.1101/034843 2016-01-13 Evolutionary Biology CC BY-NC-ND Ancestral genome reconstruction reveals the history of ecological diversification in Agrobacterium. Florent Lassalle|Remi Planel|Simon Penel|David Chapulliot|Valerie Barbe|Audrey Dubost|Alexandra Calteau|David Vallenet|Damien Mornico|Laurent Gueguen|Ludovic Vial|Daniel Muller|Vincent Daubin|Xavier Nesme University College London;|Universite Lyon 1, CNRS, UMR5558 Biometrie et Biologie Evolutive;|Universite Lyon 1, INRA, UMR 1418, Ecologie Microbienne;|CEA, Institut de Genomique, Genoscope;|Universite Lyon 1, CNRS, UMR5557, Ecologie Microbienne;|UEVE, CEA,CNRS, UMR 8030, Laboratoire d Analyse Bioinformatiques pour la Genomique et le Metabolisme
http://dx.doi.org/10.1101/036194 2016-01-13 Bioinformatics CC BY-NC-ND Canvas: versatile and scalable detection of copy number variants Eric Roller|Sergii Ivakhno|Steve Lee|Thomas Royce|Stephen Tanner Illumina Inc.;|Ashion Analytics
http://dx.doi.org/10.1101/036541 2016-01-13 Genomics CC BY-ND Mutation signatures reveal biological processes in human cancer Kyle Covington|Eve Shinbrot|David A Wheeler Baylor College of Medicine
http://dx.doi.org/10.1101/036525 2016-01-12 Evolutionary Biology CC BY The genealogical sorting index and species delimitation David J Winter|Steven A Trewick|Jon M Waters|Hamish G Spencer Arizona State University;|Massey University;|Otago University
http://dx.doi.org/10.1101/036509 2016-01-12 Microbiology CC BY Eighteenth century Yersinia pestis genomes reveal the long-term persistence of an historical plague focus Kirsten I Bos|Alexander Herbig|Jason Sahl|Nicholas Waglechner|Mathieu Fourment|Stephen A Forrest|Jennifer Klunk|Verena Schuenemann|Debi Poinar|Melanie Kuch|Brian Golding|Olivier Dutour|Paul Keim|David M Wagner|Edward C Holmes|Johannes Krause|Hendrik N Poinar Max Planck Institute for the Science of Human History, Jena, Germany;|Max Planck Institute for the Science of Human History;|Center for Microbial Genetics and Genomics, Northern Arizona University;|Michael G. DeGroote Institute for Infectious Disease Research, McMaster University, Hamilton ON L8S;|Marie Bashir Institute for Infectious Diseases and Biosecurity, Charles Perkins Centre;|Department of Archeological Sciences, University of Tuebingen, Germany.;|McMaster Ancient DNA Centre, Department of Anthropology, McMaster University, Hamilton, ON, L8S 4L9;|Department of Biology, McMaster University, Hamilton, ON, L8S 4L9 Canada.;|Laboratoire d'anthropologie biologique Paul Broca, Ecole Pratique des Hautes Etudes
http://dx.doi.org/10.1101/036533 2016-01-12 Bioinformatics CC BY-NC-ND Robust Lineage Reconstruction from High-Dimensional Single-Cell Data Gregory Giecold|Eugenio Marco|Lorenzo Trippa|Guo-Cheng Yuan Harvard University;|Editas Medecine
http://dx.doi.org/10.1101/035790 2016-01-12 Neuroscience CC BY-NC-ND Intrinsic Areal Organization in the Individual Brain: Unique and Reliable Ting Xu|Alexander Opitz|R. Cameron Craddock|Xi-Nian Zuo|Michael Milham Institute of Psychology, Chinese Academy of Sciences;|Nathan Kline Institute for Psychiatric Research;|Child Mind Institute
http://dx.doi.org/10.1101/036384 2016-01-12 Genomics CC BY-ND Rare loss-of-function variants in KMT2F are associated with schizophrenia and developmental disorders Tarjinder Singh|Mitja I. Kurki|David Curtis|Shaun M. Purcell|Lucy Crooks|Jeremy McRae|Jaana Suvisaari|Himanshu Chheda|Douglas Blackwood|Gerome Breen|Olli Pietilainen|Sebastian S. Gerety|Muhammad Ayub|Moira Blyth|Trevor Cole|David Collier|Eve L. Coomber|Nick Craddock|Mark J. Daly|John Danesh|Marta DiForti|Alison Foster|Nelson B. Freimer|Daniel Geschwind|Mandy Johnstone|Shelagh Joss|Georg Kirov|Jarmo Korkko|Outi Kuismin|Peter Holmans|Christina M. Hultman|Conrad Iyegbe|Jouko Lonnqvist|Minna Mannikko|Steve A. McCarroll|Peter McGuffin|Andrew M. McIntosh|Andrew McQuillin|Jukka S. Moilanen|Carmel Moore|Robin M. Murray|Ruth Newbury-Ecob|Willem Ouwehand|Tiina Paunio|Elena Prigmore|Elliott Rees|David Roberts|Jennifer Sambrook|Pamela Sklar|David St. Clair|Juha Veijola|James T. R. Walters|Hywel Williams|Patrick F. Sullivan|Matthew E. Hurles|Michael C. O'Donovan|Aarno Palotie|Michael J. Owen|Jeffrey C. Barrett Wellcome Trust Sanger Institute;|Broad Institute of MIT and Harvard;|University College London;|Icahn School of Medicine;|National Institute for Health and Welfare;|Institute for Molecular Medicine Finland;|The University of Edinburgh;|King's College London;|Queen's University;|Chapel Allerton Hospital;|Birmingham Women's Hospital;|Cardiff University;|University of Cambridge;|Kings College London;|Birmingham Women's NHS Foundation Trust;|University of California Los Angeles;|South Glasgow University Hospitals;|University of Oulu;|Karolinska Institutet;|University Hospitals Bristol NHS Foundation Trust;|University of Oxford;|Icahn School of Medicine at Mount Sinai;|University of Aberdeen;|University of North Carolina
http://dx.doi.org/10.1101/036376 2016-01-12 Bioinformatics CC BY-NC-ND ARGON: fast, whole-genome simulation of the discrete time Wright-Fisher process Pier Francesco Palamara Harvard University
http://dx.doi.org/10.1101/024851 2016-01-12 Genetics CC BY-NC R2d2 drives selfish sweeps in the house mouse John P Didion|Andrew Parker Morgan|Liran Yadgary|Timothy A Bell|Rachel Clara McMullan|Lydia Ortiz de Solorzano|Janice Britton-Davidian|Carol J Bult|Karl J Campbell|Riccardo Castiglia|Yung-Hao Ching|Amanda J Chunco|James J Crowley|Elissa J Chesler|John E French|Sofia I Gabriel|Daniel M Gatti|Theodore Garland|Eva B Giagia-Athanasopoulou|Mabel D Gimenez|Sofia A Grize|Islam Gunduz|Andrew Holmes|Heidi C Hauffe|Jeremy S Herman|James M Holt|Kunji Hua|Wesley J Jolley|Anna K Lindholm|Maria J Lopez-Fuster|George Mitsainas|Maria Mathias|Leonard McMillan|M Graca Ramalhinho|Barbara Rehermann|Stephan P Rosshart|Jeremy B Searle|Meng-Shin Shiao|Emanuela Solano|Karen L Svenson|Pat Thomas-Laemont|David W Threadgill|Jacint Ventura Queija|George M Weinstock|Daniel Pomp|Gary A Churchill|Fernando Pardo-Manuel de Villena University of North Carolina;|Universite de Montpellier, CNRS, IRD, EPHE;|The Jackson Laboratory;|University of Queensland;|University of Rome;|National Taiwan University;|Elon University;|National Institute of Environmental Health Sciences;|Cornell University;|University of California - Riverside;|University of Patras;|Universidad Nacional de Misiones, CONICET;|University of Zurich;|University of Ondokuz Mayis;|National Institute on Alcohol Abuse and Alcoholism;|Fondazione Edmund Mach;|National Museums Scotland;|Island Conservation;|University of Lisbon;|National Institute of Diabetes and Digestive and Kidney Diseases;|Mahidol University;|Texas A&M University;|Universitat Autonoma de Barcelona;|Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/036475 2016-01-12 Neuroscience A performance-optimized model of neural responses across the ventral visual stream Darren Seibert|Daniel L Yamins|Diego Ardila|Ha Hong|James J DiCarlo|Justin L Gardner MIT;|Stanford
http://dx.doi.org/10.1101/032680 2016-01-12 Neuroscience CC BY-NC-ND Expression weighted cell type enrichments reveal genetic and cellular nature of major brain disorders Nathan Gerald Skene|Seth Grant University of Edinburgh
http://dx.doi.org/10.1101/021550 2016-01-12 Evolutionary Biology CC BY-NC-ND Ordering structured populations in multiplayer cooperation games Jorge Pena|Bin Wu|Arne Traulsen Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/036442 2016-01-12 Animal Behavior and Cognition CC BY-NC-ND The Computational Nature of Memory Reconsolidation Samuel J Gershman|Marie-H. Monfils|Kenneth A Norman|Yael Niv Harvard University;|University of Texas at Austin;|Princeton University
http://dx.doi.org/10.1101/036418 2016-01-11 Cancer Biology Identification and characterization of long non-coding RNAs as targets of mammary tumor cell proliferation and migration Sarah D Diermeier|Kung-Chi Chang|Susan M Freier|Junyan Song|Alexander Krasnitz|Frank Rigo|C. Frank Bennett|David Spector Cold Spring Harbor Laboratory;|Isis Pharmaceuticals;|Isis pharmaceuticals;|Cold Spring Harbor Laoratory
http://dx.doi.org/10.1101/036434 2016-01-11 Evolutionary Biology CC BY-NC-ND Variation in the molecular clock of primates Priya Moorjani|Carlos Eduardo G. Amorim|Peter F. Arndt|Molly Przeworski Columbia University;|Max Planck Institute for Molecular Genetics, Berlin, Germany
http://dx.doi.org/10.1101/036467 2016-01-11 Systems Biology CC BY-NC-ND The role of contact inhibition in intratumoral heterogeneity: An off-lattice individual based model Jill Gallaher|Alexander Anderson Moffitt Cancer Center
http://dx.doi.org/10.1101/036426 2016-01-11 Genomics CC BY-NC-ND Evaluation of TagSeq, a reliable low-cost alternative for RNAseq Brian Keith Lohman|Jesse N Weber|Daniel I Bolnick UT Austin
http://dx.doi.org/10.1101/017111 2016-01-11 Bioinformatics CC BY RiboDiff: Detecting Changes of Translation Efficiency from Ribosome Footprints Yi Zhong|Theofanis Karaletsos|Philipp Drewe|Vipin Thankam T Sreedharan|David Kuo|Kamini Singh|Hans-Guido Wendel|Gunnar Ratsch Memorial Sloan Kettering Cancer Center;|Max Delbruck Center, Berlin
http://dx.doi.org/10.1101/036392 2016-01-11 Bioinformatics Long single-molecule reads can resolve the complexity of the Influenza virus composed of rare, closely related mutant variants Alexander Artyomenko|Nicholas C Wu|Serghei Mangul|Eleazar Eskin|Ren Sun|Alex Zelikovsky Georgia State University;|The Scripps Research Institute;|University of California, Los Angeles
http://dx.doi.org/10.1101/020305 2016-01-11 Genomics CC BY-NC-ND Pangenome-wide and molecular evolution analyses of the Pseudomonas aeruginosa species Jeanneth Mosquera-Rendon|Ana M. Rada-Bravo|Sonia Cardenas-Brito|Mauricio Corredor|Eliana Restrepo-Pineda|Alfonso Benitez-Paez Bioinformatics Analysis Group, Centro de Investigacion y Desarrollo en Biotecnologia;|Grupo Bacterias y Cancer, Universidad de Antioquia;|Grupo GEBIOMIC, FCEN, Universidad de Antioquia
http://dx.doi.org/10.1101/035956 2016-01-11 Bioinformatics CC BY Regmex, Motif analysis in ranked lists of sequences Morten Muhlig Nielsen|Paula Tataru|Tobias Madsen|Asger Hobolth|Jakob Skou Pedersen Aarhus University
http://dx.doi.org/10.1101/021758 2016-01-11 Microbiology CC BY-NC-ND Species-level resolution of 16S rRNA gene amplicons sequenced through MinIONTM portable nanopore sequencer Alfonso Benitez-Paez|Kevin Portune|Yolanda Sanz Agrochemistry & Food Technology Institute (IATA-CSIC)
http://dx.doi.org/10.1101/036301 2016-01-10 Bioinformatics High-quality thermodynamic data on the stability changes of proteins upon single-site mutations Fabrizio Pucci|Raphael Bourgeas|Marianne Rooman Université Libre de Bruxelles
http://dx.doi.org/10.1101/034082 2016-01-10 Genetics CC BY-NC-ND Winners curse correction and variable thresholding improve performance of polygenic risk modeling based on summary-level data from genome-wide association studies Jianxin Shi|JuHyun Park|Jubao Duan|Sonja Berndt|Winton Moy|William Wheeler|Xing Hua|Debra Silverman|Montserrat Garcia-Closas|Chao Agnes Hsiung|Jonine D. Figueroa|Victoria K. Cortessis|Nuria Malats|Margaret R. Karagas|Paolo Vineis|I-Shou Chang|Dongxin Lin|Baosen Zhou|Adeline Seow|Keitaro Matsuo|Yun-Chul Hong|Neil E. Caporaso|Brian Wolpin|Eric Jacobs|Gloria Petersen|Donghui Li|Harvey Risch|Alan R. Sanders|Li Hsu|Robert E. Schoen|Hermann Brenner|Rachael Stolzenberg-Solomon|Pablo Gejman|Qing Lan|Nathaniel Rothman|Laufey T. Amundadottir|Alison P. Klein|Maria Teresa Landi|Douglas F. Levinson|Stephen J. Chanock|Nilanjan Chatterjee National Cancer Institute, USA;|Dongguk University, Korea;|North Shore University Health System Research Institute, USA;|Northern Illinois University, USA;|Information Management Service, USA;|National Health Research Institutes, Taiwan;|The University of Edinburgh, Medical School, UK;|University of Southern California, USA;|Spanish National Cancer Research Centre (CNIO), Spain;|Dartmouth College, USA;|Human Genetics Foundation, Italy;|Chinese Academy of Medical Sciences and Peking Union Medical College, China;|China Medical University, USA;|National University of Singapore, Singapore;|Aichi Cancer Center Research Institute, Japan;|Seoul National University College of Medicine, Korea;|Brigham and Womens Hospital and Harvard Medical School, USA;|American Cancer Society, USA;|Mayo Clinic, USA;|University of Texas M.D. Anderson Cancer Center;|Yale School of Public Health, USA;|North Shore University Health System Research Institute;|Fred Hutchinson Cancer Research Center;|University of Pittsburgh Medical Center, USA;|German Cancer Research Center, German;|Johns Hopkins University School of Medicine, USA;|Stanford University School of Medicine, USA;|Johns Hopkins University
http://dx.doi.org/10.1101/036251 2016-01-10 Bioinformatics CC BY Computational prediction shines light on type III secretion origins Tatyana Goldberg|Burkhard Rost|Yana Bromberg Technical University of Munich;|Rutgers University
http://dx.doi.org/10.1101/036327 2016-01-10 Evolutionary Biology CC BY-NC-ND Statistical evidence for common ancestry: New tests of universal ancestry Bret Larget|Cecile Ane|Martin Bontrager|Steve Hunter|Noah Stenz|David A. Baum University of Wisconsin;|U. Wisconsin
http://dx.doi.org/10.1101/036335 2016-01-10 Biophysics Measuring the sequence-affinity landscape of antibodies with massively parallel titration curves Rhys M Adams|Justin B Kinney|Thierry Mora|Aleksandra M Walczak Ecole normale superieure;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/036293 2016-01-10 Systems Biology CC BY Phenotypic spandrel: absolute discrimination and ligand antagonism Paul Francois|Kyle A Johnson|Laura N Saunders McGill University
http://dx.doi.org/10.1101/036269 2016-01-10 Neuroscience CC BY-NC Local opposite orientation preferences in V1: fMRI sensitivity to fine-grained pattern information Arjen Alink|Alexander Walther|Alexandra Krugliak|Nikolaus Kriegeskorte Medical Research Council, UK;|University of Birmingham, UK
http://dx.doi.org/10.1101/032110 2016-01-09 Genetics CC BY-NC-ND Centromere Detection of Human Metaphase Chromosome Images using a Candidate Based Method Akila Subasinghe|Jagath Samarabandu|Yanxin Li|Ruth Wilkins|Farrah Flegal|Joan H.M. Knoll|Peter K. Rogan University of Sri Jayewardenepura;|University of Western Ontario;|Health Canada;|Canadian Nuclear Laboratories
http://dx.doi.org/10.1101/036285 2016-01-08 Genomics CC BY De novo Genome Assembly of Geosmithia morbida, the Causal Agent of Thousand Cankers Disease Taruna Aggarwal|Anthony Westbrook|Kirk Broders|Keith Woeste|Matthew D MacManes University of New Hampshire;|Colorado State University;|Purdue University
http://dx.doi.org/10.1101/036244 2016-01-08 Plant Biology CC BY-NC Integrating roots into a whole plant network of flowering time genes in Arabidopsis thaliana Frederic Bouche|Maria D'Aloia|Pierre Tocquin|Guillaume Lobet|Nathalie Detry|Claire Perilleux University of Liege
http://dx.doi.org/10.1101/036228 2016-01-08 Neuroscience Random recurrent networks near criticality capture the broadband power distribution of human ECoG dynamics Rishidev Chaudhuri|Biyu He|Xiao-Jing Wang The University of Texas at Austin;|National Institute of Neurological Disorders and Stroke, National Institutes of Health;|New York University
http://dx.doi.org/10.1101/032227 2016-01-08 Bioinformatics Neptune: A Tool for Rapid Microbial Genomic Signature Discovery Eric Marinier|Rahat Zaheer|Chrystal Berry|Kelly A Weedmark|Michael Domaratzki|Philip Mabon|Natalie C Knox|Aleisha R Reimer|Morag R Graham|Gary Van Domselaar National Microbiology Lab - Public Health Agency of Canada;|University of Manitoba
http://dx.doi.org/10.1101/027268 2016-01-08 Neuroscience Plasticity-Driven Self-Organization under Topological Constraints Accounts for Non-Random Features of Cortical Synaptic Wiring. Daniel Miner|Jochen Triesch Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/035071 2016-01-08 Ecology CC BY-NC-ND Nested metabarcode tagging: a robust tool for studying species interactions in ecology and evolution James John Neil Kitson|Christoph Hahn|Richard J Sands|Nigel A Straw|Darren M Evans|David H Lunt University of Hull;|Forest Research;|Forest Reseach;|University of Newcastle
http://dx.doi.org/10.1101/021782 2016-01-08 Bioinformatics|Biophysics CC BY Quantitative Relations in Protein and RNA Folding Deduced from Quantum Theory Liaofu Luo|Jun Lv Inner Mongolia University;|Inner Mongolia University of Technology
http://dx.doi.org/10.1101/020297 2016-01-08 Bioinformatics CC BY-NC-ND Triplex Domain Finder: Detection of Triple Helix Binding Domains in Long Non-Coding RNAs Sonja Hanzelmann|Chao-Chung Kuo|Marie Kalwa|Wolfgang Wagner|Ivan G. Costa RWTH Aachen University Hospital
http://dx.doi.org/10.1101/035923 2016-01-07 Bioinformatics CC BY-NC-ND fusionDB: assessing microbial diversity and environmental preferences via functional similarity networks Chengsheng Zhu|Yannick Mahlich|Yana Bromberg Rutgers University;|Technical University of Munich
http://dx.doi.org/10.1101/035972 2016-01-07 Synthetic Biology An acetoacetate-inducible bacterial sensor David T Gonzales|Tanel Ozdemir|Geraint M Thomas|Chris P Barnes University College London
http://dx.doi.org/10.1101/036186 2016-01-07 Plant Biology A bacterial parasite effector mediates insect vector attraction in host plants independently of developmental changes Zigmunds Orlovskis|Saskia A Hogenhout John Innes Centre
http://dx.doi.org/10.1101/036160 2016-01-07 Molecular Biology CC BY Identification of physical interactions between genomic regions by enChIP-Seq Toshitsugu Fujita|Miyuki Yuno|Yutaka Suzuki|Sumio Sugano|Hodaka Fujii Osaka University;|The University of Tokyo
http://dx.doi.org/10.1101/036178 2016-01-07 Genetics CC BY-NC Inferring population size history from large samples of genome wide molecular data - an approximate Bayesian computation approach Simon Boitard|Willy Rodriguez|Flora Jay|Stefano Mona|Frederic Austeritz INRA;|INSA Toulouse;|MNHN
http://dx.doi.org/10.1101/025981 2016-01-07 Genomics Application of a dense genetic map for assessment of genomic responses to selection and inbreeding in Heliothis virescens. Megan Fritz|Sandra Paa|Jennifer Baltzegar|Fred Gould North Carolina State University;|sapaa@ncsu.edu
http://dx.doi.org/10.1101/026344 2016-01-07 Evolutionary Biology CC BY-NC-ND Natural selection and recombination rate variation shape nucleotide polymorphism across the genomes of three related Populus species. Jing Wang|Nathaniel R Street|Douglas G Scofield|Par K Ingvarsson Umeå University;|Uppsala University;|Umeå Universitet
http://dx.doi.org/10.1101/036129 2016-01-07 Bioinformatics CC BY-NC PEDLA: predicting enhancers with a deep learning-based algorithmic framework Feng Liu|Hao Li|Chao Ren|Xiaochen Bo|Wenjie Shu Beijing Institute of Radiation Medicine
http://dx.doi.org/10.1101/034868 2016-01-07 Genomics CC BY-ND Evaluation of the External RNA Controls Consortium (ERCC) reference material using a modified Latin square design. P Scott Pine|Sarah Munro|Jerod Parsons|Jennifer McDaniel|Anne Bergstrom Lucas|Jean Lozach|Timothy G Myers|Qin Su|Sarah M Jacobs-Helber|Marc Salit National Institute of Standards and Technology;|Agilent Technologies;|Illumina, Inc.;|National Institute of Allergy and Infectious Diseases;|GENETWORx, LLC.
http://dx.doi.org/10.1101/036152 2016-01-07 Genomics CC BY-NC Genome-wide identification and characterization of HOT regions in the human genome Hao Li|Feng Liu|Chao Ren|Xiaochen Bo|Wenjie Shu Beijing Institute of Radiation Medicine
http://dx.doi.org/10.1101/036012 2016-01-07 Systems Biology CC BY-NC Mergeomics: integration of diverse genomics resources to identify pathogenic perturbations to biological systems Le Shu|Yuqi Zhao|Zeyneb Kurt|Sean Geoffrey Byars|Taru Tukiainen|Johannes Kettunen|Samuli Ripatti|Bin Zhang|Michael Inouye|Ville-Petteri Makinen|Xia Yang University of California, Los Angeles;|Department of Integrative Biology and Physiology, University of California, Los Angeles;|Center for Systems Genomics, University of Melbourne, Australia;|Institute of Molecular Medicine, Finland;|Department of Genetics and Genomics Sciences, Mount Sinai School of Medicine;|South Australian Health and Medical Research Institute
http://dx.doi.org/10.1101/036087 2016-01-07 Bioinformatics CC BY-NC Automating Assessment of the Undiscovered Biosynthetic Potential of Actinobacteria Bogdan Tokovenko|Yuriy Rebets|Andriy Luzhetskyy Helmholtz Institute for Pharmaceutical Research Saarland
http://dx.doi.org/10.1101/036145 2016-01-07 Bioinformatics Systematic identification of cooperation between DNA binding proteins in 3D space Kai Zhang|Nan Li|Wei Wang University of California San Diego
http://dx.doi.org/10.1101/036061 2016-01-07 Bioinformatics CC BY RASLseqTools: open-source methods for designing and analyzing RNA-mediated oligonucleotide Annealing, Selection, and, Ligation sequencing (RASL-seq) experiments Erick R. Scott|H. Benjamin Larman|Ali Torkamani|Nicholas J. Schork|Nathan Wineinger|Max Nanis|Ryan C. Thompson|Reza B. Beheshti Zavareh|Luke L. Lairson|Peter G. Schultz|Andrew I. Su The Scripps Research Institute;|The Scripps Translational Sciences Institute;|JCVI;|Scripps Translational Science Institute;|California Institute for Biomedical Research
http://dx.doi.org/10.1101/036137 2016-01-07 Bioinformatics CC BY-NC-ND Choosing panels of genomics assays using submodular optimization Kai Wei|Maxwell W Libbrecht|Jeffrey A Bilmes|William Noble University of Washington;|U. Washington
http://dx.doi.org/10.1101/036103 2016-01-06 Systems Biology CC BY-NC-ND Revised estimates for the number of human and bacteria cells in the body Ron Sender|Shai Fuchs|Ron Milo Weizmann institute of science, Rehovot, Israel
http://dx.doi.org/10.1101/036095 2016-01-06 Cell Biology CC BY Reverse signaling by Semaphorin-6A regulates cellular aggregation and neuronal morphology Francesc Perez-Branguli|Yvrick Zagar|Daniel K. Shanley|Isabella A. Graef|Alain Chedotal|Kevin J. Mitchell Trinity College Dublin;|Institut de la Vision;|Stanford University
http://dx.doi.org/10.1101/036111 2016-01-06 Genetics CC BY-NC Recessive inactivating mutations in TBCK, encoding a Rab GTPase-activating protein that modulates mTOR signaling, cause severe infantile syndromic encephalopathy Jessica X Chong|Viviana Caputo|Ian G Phelps|Lorenzo Stella|Lisa Worgan|Jennifer C Dempsey|Alina Nguyen|Vincenzo Leuzzi|Richard Webster|Antonio Pizzuti|Colby T Marvin|Gisele E Ishak|Simone Ardern-Holmes|Zara Richmond|Michael J Bamshad|Xilma R Ortiz-Gonzalez|Marco Tartaglia|Maya Chopra|Dan Doherty University of Washington;|Dipartimento di Medicina Sperimentale, Universita La Sapienza;|Department of Pediatrics, University of Washington;|Dipartimento di Scienze e Tecnologie Chimiche, Universita di Roma Tor Vergata;|Department of Clinical Genetics, Liverpool Hospital;|Dipartimento di Pediatria e di Neuropsichiatria Infantile, Universita La Sapienza;|Children's Hospital at Westmead;|Department of Radiology, University of Washington;|Institute of Neuroscience and Muscle Research, the Children's Hospital at Westmead;|Department of Genomic Medicine, Royal Prince Alfred Hospital;|Children's Hospital of Philadelphia and Perelman School of Medicine;|Ospedale Pediatrico Bambino Gesu - IRCCS;|Royal Prince Alfred Hospital
http://dx.doi.org/10.1101/019968 2016-01-06 Evolutionary Biology CC BY-NC-ND Environmental complexity favors the evolution of learning Slimane Dridi|Laurent Lehmann University of Pennsylvania, Department of Biology;|University of Lausanne, Department of Ecology and Evolution
http://dx.doi.org/10.1101/035196 2016-01-06 Neuroscience Reactivation of reward-related patterns from single past episodes supports memory-based decision making G. Elliott Wimmer|Christian Buechel Stanford University;|University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/036053 2016-01-06 Bioinformatics CC BY-ND RTFBSDB: an integrated framework for transcription factor binding site analysis Zhong Wang|Andre L Martins|Charles G Danko Cornell University
http://dx.doi.org/10.1101/036038 2016-01-06 Developmental Biology CC BY A Notch and Su(H) dependent enhancer complex coordinates expression of nab in Drosophila Elizabeth Stroebele|Albert Erives University of Iowa, United States
http://dx.doi.org/10.1101/035931 2016-01-06 Neuroscience CC BY-NC-ND Shared experience, shared memory: a common structure for brain activity during naturalistic recall Janice Chen|Yuan Chang Leong|Kenneth A Norman|Uri Hasson Princeton University;|Stanford University
http://dx.doi.org/10.1101/036046 2016-01-06 Genetics CC BY-NC Mapping challenging mutations by whole-genome sequencing Harold E. Smith|Amy S. Fabritius|Aimee Jaramillo-Lambert|Andy Golden National Institutes of Health, United States;|NIH, United States
http://dx.doi.org/10.1101/035998 2016-01-06 Genomics CC BY-NC-ND Deep, Staged Transcriptomic Resources for the Novel Coleopteran Models Atrachya menetriesi and Callosobruchus maculatus Matthew Alan Benton|Nathan James Kenny|Kai Hans Conrads|Siegfried Roth|Jeremy A Lynch University of Cologne;|The Chinese University of Hong Kong;|University of Illinois at Chicago
http://dx.doi.org/10.1101/036020 2016-01-05 Microbiology CC BY Comparative evaluation of the genomes of common bacterial members of the Drosophila intestinal community Kristina Petkau|David Fast|Aashna Duggal|Edan Foley University of Alberta
http://dx.doi.org/10.1101/035725 2016-01-05 Systems Biology CC BY-NC A portable library to support the SBML Layout Extension J Kyle Medley|Kiri Choi|Herbert M Sauro University of Washington
http://dx.doi.org/10.1101/035949 2016-01-05 Genomics CC BY-NC-ND Beyond comparisons of means: understanding changes in gene expression at the single-cell level Catalina A Vallejos|Sylvia Richardson|John C Marioni MRC Biostatistics Unit and EMBL European Bioinformatics Institute;|MRC Biostatistics Unit;|EMBL European Bioinformatics Institute and Cancer Research UK Cambridge Institute
http://dx.doi.org/10.1101/026070 2016-01-05 Systems Biology Alternative end joining mechanisms exhibit varying dynamics in double strand break repair Chris P Barnes|Mae Woods University College London
http://dx.doi.org/10.1101/025056 2016-01-05 Synthetic Biology A statistical approach reveals designs for the most robust stochastic gene oscillators Mae Woods|Miriam Leon|Ruben Perez-Carrasco|Chris P Barnes University College London
http://dx.doi.org/10.1101/035915 2016-01-04 Evolutionary Biology Statistical Evidence for Common Ancestry: Testing for Signal in Silent Sites Martin Bontrager|Bret Larget|Cecile Ane|David Baum University of Wisconsin - Madison
http://dx.doi.org/10.1101/035899 2016-01-04 Genomics Genome Sequences of Populus tremula Chloroplast and Mitochondrion: Implications for Holistic Poplar Breeding Birgit Kersten|Patricia Faivre Rampant|Malte Mader|Marie-Christine Le Paslier|Remi Bounon|Aurelie Berard|Cristina Vettori|Hilke Schroeder|Jean-Charles Leple|Matthias Fladung Thuenen Institute of Forest Genetics, Grosshansdorf, Germany;|URGV-Plant Genomics Research, INRA, Evry, France;|Thuenen Institute of Forest Genetics;|Institute of Bioscience and Bioresources (IBBR), National Research Council, Sesto Fiorentino, Italy;|Research Unit AGPF, INRA, Orleans, France
http://dx.doi.org/10.1101/034975 2016-01-04 Genetics CC BY-ND MeSH annotation of the chicken genome: MeSH-informed enrichment analysis and MeSH-guided semantic similarity among functional terms and gene products Gota Morota|Timothy Mathes Beissinger|Francisco Penagaricano University of Nebraska-Lincoln;|USDA-ARS, University of Missouri;|University of Florida
http://dx.doi.org/10.1101/035857 2016-01-04 Biochemistry CC BY Proteomic indicators of oxidation and hydration state in colorectal cancer Jeffrey M. Dick Chiang Mai University
http://dx.doi.org/10.1101/025668 2016-01-04 Microbiology CC BY-NC-ND DNA-metabarcoding uncovers the diversity of soil-inhabiting fungi in the tropical island of Puerto Rico Hector Urbina|Douglas G. Scofield|Matias Cafaro|Anna Rosling Uppsala University;|University of Puerto Rico
http://dx.doi.org/10.1101/035808 2016-01-03 Genomics CC BY-NC-ND Genome-wide Prediction of DNase I Hypersensitivity Using Gene Expression Weiqiang Zhou|Ben Sherwood|Zhicheng Ji|Fang Du|Jiawei Bai|Hongkai Ji Department of Biostatistics, Johns Hopkins University Bloomberg School of Public Health
http://dx.doi.org/10.1101/035816 2016-01-03 Genomics CC BY-NC-ND Global Prediction of Chromatin Accessibility Using RNA-seq from Small Number of Cells Weiqiang Zhou|Zhicheng Ji|Hongkai Ji Department of Biostatistics, Johns Hopkins University Bloomberg School of Public Health
http://dx.doi.org/10.1101/035774 2016-01-02 Bioengineering On the optimal use of isotherm models for the characterization of biosorption of lead onto algae F. Brouers|Tariq Al-Musawi Liege University/Department of Chemical Engineering;|University of Baghdad/ Environmental Engineering Department
http://dx.doi.org/10.1101/035782 2016-01-01 Bioinformatics CC BY-NC-ND ShapeCluster: Applying parametric regression to analyse time-series gene expression data Philip J Law|Vicky Buchanan-Wollaston|Andrew Mead University of Warwick
http://dx.doi.org/10.1101/035832 2016-01-01 Evolutionary Biology CC BY-NC-ND The Maintenance of Sex and David Lack's Principle Joachim Dagg independent
http://dx.doi.org/10.1101/035824 2016-01-01 Bioengineering CC BY-NC-ND Frequency Transformations and Spectral Gaps in Cochlear Implant Processing Barry David Jacobson Massachusetts Institute of Technology
http://dx.doi.org/10.1101/017400 2016-01-01 Neuroscience A mathematical framework for statistical decision confidence Balazs Hangya|Joshua I. Sanders|Adam Kepecs Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/035766 2015-12-31 Cancer Biology CC BY-NC-ND Estimating cell cycle model parameters using systems identification Edwin Francisco Juarez Rosales|Ahmadreza Ghaffarizadeh|Samuel H Friedman|Edmond Jonckheere|Paul Macklin University of Southern California
http://dx.doi.org/10.1101/035360 2015-12-31 Evolutionary Biology CC BY-ND Do Phylogenetic Tree Viewers correctly display Support Values? Lucas Czech|Alexandros Stamatakis Heidelberg Institute for Theoretical Studies
http://dx.doi.org/10.1101/035667 2015-12-30 Bioinformatics MyGene.info and MyVariant.info: Gene and Variant Annotation Query Services Jiwen Xin|Adam Mark|Cyrus Afrasiabi|Ginger Tsueng|Moritz Juchler|Nikhil Gopal|Gregory Stupp|Timothy Putman|Benjamin Ainscough|Obi Griffith|Ali Torkamani|Patricia Whetzel|Christopher J Mungall|Sean Mooney|Andrew I Su|Chunlei Wu The Scripps Research Institute;|Avera Cancer Institute;|The University of Washington;|Washington University School of Medicine;|University of California San Diego;|Lawrence Berkeley National Laboratory;|Scripps Research Institute
http://dx.doi.org/10.1101/035683 2015-12-30 Scientific Communication Sequential Multiple Assignment Randomized Trials: An Opportunity for Improved Design of Stroke Reperfusion Trials William Meurer|Nicholas J Seewald|Kelley Kidwell University of Michigan
http://dx.doi.org/10.1101/035741 2015-12-30 Genomics Single-stranded DNA library preparation uncovers the origin and diversity of ultrashort cell-free DNA in plasma Philip Burnham|Min Seong Kim|Sean Agbor-Enoh|Helen Luikart|Hannah A Valantine|Kiran K Khush|Iwijn De Vlaminck Meinig School of Biomedical Engineering, Cornell University;|National Institutes of Health;|Stanford University School of Medicine
http://dx.doi.org/10.1101/035709 2015-12-30 Cancer Biology CC BY-NC Simulating multi-substrate diffusive transport in 3-D tissues with BioFVM Samuel H Friedman|Ahmadreza Ghaffarizadeh|Paul Macklin University of Southern California
http://dx.doi.org/10.1101/035733 2015-12-30 Cancer Biology CC BY-NC-ND Agent-based simulation of large tumors in 3-D microenvironments Ahmadreza Ghaffarizadeh|Samuel H Friedman|Paul Macklin University of Southern California
http://dx.doi.org/10.1101/035675 2015-12-30 Bioinformatics CC BY A regression framework for the proportion of true null hypotheses Simina M Boca|Jeffrey T. Leek Georgetown University Medical Center;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/021659 2015-12-30 Biophysics CC BY A simple method for automated equilibration detection in molecular simulations John D Chodera Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/035600 2015-12-30 Systems Biology Incoherent feedforward motifs as immune change detectors Eduardo Sontag Rutgers University
http://dx.doi.org/10.1101/035626 2015-12-30 Cell Biology Constricted cell migration causes nuclear lamina damage, DNA breaks, and squeeze-out of repair factors Jerome Irianto|Charlotte R Pfeifer|Yuntao Xia|Avathamsa Athirasala|Irena L Ivanovska|Roger E Greenberg|Dennis E Discher Molecular and Cell Biophysics Laboratory, University of Pennsylvania;|Abramson Family Cancer Research Institute, University of Pennsylvania School of Medicine
http://dx.doi.org/10.1101/035485 2015-12-29 Microbiology Diversity of Pico- to Mesoplankton Along the 2000 km Salinity Gradient of the Baltic Sea Yue OO Hu|Bengt Karlson|Sophie Charvet|Anders F Andersson KTH Royal Institute of Technology;|Swedish Meteorological and Hydrological Institute, Research & Development;|Leibniz Institute for Baltic Sea Research in Warnemuende
http://dx.doi.org/10.1101/035501 2015-12-29 Genomics CC BY-NC scDD: A statistical approach for identifying differential distributions in single-cell RNA-seq experiments Keegan D. Korthauer|Li-Fang Chu|Michael A. Newton|Yuan Li|James Thomson|Ron Stewart|Christina Kendziorski Dana-Farber Cancer Institute;|Morgridge Institute for Research;|University of Wisconsin
http://dx.doi.org/10.1101/035527 2015-12-29 Plant Biology CC BY-ND Post-embryonic hourglass patterns mark ontogenetic transitions in plant development Hajk-Georg Drost|Julia Bellstaedt|Diarmuid O'Maoileidigh|Anderson Silva|Alexander Gabel|Claus Weinholdt|Patrick Ryan|Bas Dekkers|Leonie Bentsink|Henk Hilhorst|Wilco Ligterink|Frank Wellmer|Ivo Grosse|Marcel Quint Institute of Computer Science, Martin Luther University Halle-Wittenberg;|Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry;|Smurfit Institute of Genetics, Trinity College Dublin;|Wageningen Seed Lab, Laboratory of Plant Physiology, Wageningen University;|Martin Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/035477 2015-12-28 Genomics CC BY-NC-ND Chicken rRNA gene cluster structure Alexander Demin|Elena Koshel|Alsu Saifitdinova|Svetlana Galkina|Tatsuo Fukagawa|Elena Gaginskaya Saint-Petersburg State University;|Osaka University
http://dx.doi.org/10.1101/035451 2015-12-28 Neuroscience CC BY-NC-ND Learning in cortical networks through error back-propagation James Whittington|Rafal Bogacz University of Oxford
http://dx.doi.org/10.1101/035444 2015-12-28 Bioinformatics CC BY-NC-ND MPRAnator: a web-based tool for the design of Massively Parallel Reporter Assay experiments. Ilias Georgakopoulos-Soares|Naman Jain|Jesse Gray|Martin Hemberg Wellcome Trust Sanger Institute;|Imperial College London;|Harvard Medical School
http://dx.doi.org/10.1101/035436 2015-12-28 Genomics CC BY-NC-ND Genomic DNA preparation enabling multiple replicate reads for accurate nanopore sequencing Dimitra Tsavachidou Vastogen, Inc.
http://dx.doi.org/10.1101/021048 2015-12-28 Cell Biology CC BY Variability in cellular gene expression profiles and homeostatic regulation Yuriy Mishchenko Toros University
http://dx.doi.org/10.1101/013995 2015-12-28 Bioinformatics CC BY-NC-ND Privacy-preserving search for chemical compound databases Kana Shimizu|Koji Nuida|Hiromi Arai|Shigeo Mitsunari|Nuttapong Attrapadung|Michiaki Hamada|Koji Tsuda|Takatsugu Hirokawa|Jun Sakuma|Goichiro Hanaoka|Kiyoshi Asai National Institute of Advanced Industrial Science and Technology (AIST);|National Institute of Advanced Industrial Science and Technology;|University of Tokyo;|Cybozu Labs;|Waseda University;|The University of Tokyo;|University of Tsukuba
http://dx.doi.org/10.1101/035337 2015-12-27 Zoology New records of Atlantic humpback dolphin in Guinea, Nigeria, Cameroon and Togo underscore fisheries pressure and generalised marine bushmeat demand Koen Van Waerebeek|Michael Uwagbae|Gabriel Segniagbeto|Idrissa L. Bamy|Isidore Ayissi Peruvian Centre for Cetacean Research;|Wetlands International-Africa, Port Harcourt, Nigeria;|Dept. de Zoologie et de Biologie Animale, Universite de Lome, Togo;|Centre National des Sciences Halieutiques de Boussoura, Conakry, Guinea;|CERECOMA, Specialised Research Center for Marine Ecosystems, Kribi, Cameroon
http://dx.doi.org/10.1101/025528 2015-12-27 Genomics CC BY On the widespread and critical impact of systematic bias and batch effects in single-cell RNA-Seq data Stephanie C Hicks|Mingxiang Teng|Rafael A Irizarry Dana-Farber Cancer Institute;|Dana Farber Cancer Institue
http://dx.doi.org/10.1101/035378 2015-12-25 Bioinformatics CC BY-ND solarius: an R interface to SOLAR for variance component analysis in pedigrees Andrey Ziyatdinov|Helena Brunel|Angel Martinez-Perez|Alfonso Buil|Alexandre Perera|Jose Manuel Soria Unitat de Genomica de Malalties Complexes, Institut d'Investigacio Biomedica Sant Pau (IIB-Sant Pau);|Department of Genetics Medicine and Development, University of Geneva Medical School, Geneva;|B2SLab, Department d'Enginyeria de Sistemes, Automatica i Informatica Industrial, Universitat Polite
http://dx.doi.org/10.1101/035386 2015-12-25 Genomics CC BY-NC-ND Gene body H2B monoubiquitylation regulates gene-selective RNA Polymerase II pause release and is not rate limiting for transcription elongation Gilad Fuchs|Eran Rosenthal|Debora-Rosa Bublik|Tommy Kaplan|Moshe Oren Weizmann Institute of Science;|The Hebrew University of Jerusalem, Israel;|Weizmann Institute of Science, Israel
http://dx.doi.org/10.1101/029140 2015-12-25 Biophysics CC BY-NC-ND Molecular Simulation of Nonfacilitated Membrane Permeation Ernest Awoonor-Williams|Christopher Rowley Memorial University of Newfoundland
http://dx.doi.org/10.1101/035352 2015-12-25 Bioinformatics Biological screens from linear codes: theory and tools Yaniv Erlich|Anna Gilbert|Hung Ngo|Atri Rudra|Nicolas Thierry-Mieg|Mary Wootters|Dina Zielinski|Or Zuk New York Genome Center;|University of Michigan;|University of Buffalo;|TIMC-IMAG/BCM;|Carnegie Mellon University;|Hebrew University
http://dx.doi.org/10.1101/035329 2015-12-24 Genetics GWIS: Genome Wide Inferred Statistics for non-linear functions of multiple phenotypes Harold Nieuwboer|Rene Pool|Conor V Dolan|Dorret I Boomsma|Michel G Nivard Vrije Universiteit Amsterdam;|VU University Amsterdam
http://dx.doi.org/10.1101/035303 2015-12-24 Genomics Integration of mobile sequencers in an academic classroom Sophie Zaaijer|Yaniv Erlich Columbia University;|New York Genome Center
http://dx.doi.org/10.1101/035345 2015-12-24 Systems Biology CC BY-NC-ND A mechanistic first-passage time framework for bacterial cell-division timing Khem Raj Ghusinga|Cesar Augusto Vargas-Garcia|Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/035204 2015-12-24 Bioinformatics CC BY-NC-ND Bibliometric and Geographical Analysis of Cell Death Related Literature Vijaykumar Yogesh Muley|Anne Hahn|Pravin Paikrao Hans-Knoell Institute, Jena, Germany;|Institute of Human Genetics Friedrich-Schiller University Jena, Germany;|Department of Computer Science and Engineering P.E.S. College Of Engineering Aurangabad, India
http://dx.doi.org/10.1101/035246 2015-12-24 Evolutionary Biology CC BY-NC-ND The Fisher-Wright model with deterministic seed bank and selection Bendix Koopmann|Johannes Mueller|Aurelien Tellier|Daniel Zivkovic Technische Universitaet Muenchen;|Ludwig-Maximilians-Universitaet Muenchen
http://dx.doi.org/10.1101/035154 2015-12-24 Bioinformatics High-throughput pipeline for de-novo assembly and drug resistance mutations identification from Next-Generation Sequencing viral data of residual diagnostic samples Tiziano Gallo Cassarino|Dan Frampton|Robert Sugar|Elijah Charles|Zisis Kozlakidis|Paul Kellam University College London;|Intel Corporation;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/035220 2015-12-24 Genomics CC BY Initiator tRNA Genes Template the 3′ CCA End at High Frequencies in Bacteria David H. Ardell|Ya-Ming Hou UC Merced;|Thomas Jefferson University
http://dx.doi.org/10.1101/035139 2015-12-24 Genetics A mechanistic model of linkage analysis in allohexaploids Huan Li|Xuli Zhu|Ke Mao|Rongling Wu|Qin Yan Beijing Forestry University, China;|Penn State University, China
http://dx.doi.org/10.1101/035121 2015-12-24 Genetics CC BY Recombination Disequilibrium in Ideal and Natural Populations Yuan-De Tan PENN State College of Medicine, United States
http://dx.doi.org/10.1101/035295 2015-12-24 CC BY-ND Interactive Analytics for Very Large Scale Genomic Data Cuiping Pan|Nicole Deflaux|Gregory McInnes|Michael Snyder|Jonathan Bingham|Somalee Datta|Philip Tsao Palo Alto Veterans Institute for Research;|Google Inc.;|Stanford University;|STanf;|VA Palo Alto, Palo Alto Veterans Institute for Research, Stanford University
http://dx.doi.org/10.1101/035238 2015-12-24 Bioinformatics CC BY-NC-ND De novo identification, differential analysis and functional annotation of SNPs from RNA-seq data in non-model species Helene Lopez Maestre|Lilia Brinza|Camille Marchet|Janice Kielbassa|Sylvere Bastien|Mathilde Boutigny|David Monnin|Adil El Filali|Claudia Marcia Carareto|Cristina Vieira|Franck Picard|Natacha Kremer|Fabrice Vavre|Marie-France Sagot|Vincent Lacroix INRIA & Universite Lyon 1 & CNRS;|BIOASTER;|Synergie-Lyon-Cancer, Universite Lyon 1, Centre Leon Berard;|Universite Lyon 1 & CNRS;|Sao Paulo State University
http://dx.doi.org/10.1101/035063 2015-12-24 Bioinformatics CC BY State aggregation for fast likelihood computations in phylogenetics Iakov I Davydov|Marc Robinson-Rechavi|Nicolas Salamin University of Lausanne
http://dx.doi.org/10.1101/035253 2015-12-24 Bioinformatics High-accuracy HLA type inference from whole-genome sequencing data Alexander Dilthey|Pierre-Antoine Gourraud|Zamin Iqbal|Gil McVean Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK;|UCSF, Neurology Department, San Francisco, USA
http://dx.doi.org/10.1101/035113 2015-12-24 Cancer Biology Cancer cells have distinct electrical properties that predict a susceptibility to lipophilic anions; a new cancer drug paradigm Michael David Forrest University of Warwick
http://dx.doi.org/10.1101/024182 2015-12-23 Genomics CC BY-NC-ND Genome variation and meiotic recombination in Plasmodium falciparum: insights from deep sequencing of genetic crosses Alistair Miles|Zamin Iqbal|Paul Vauterin|Richard Pearson|Susana Campino|Michel Theron|Kelda Gould|Daniel Mead|Eleanor Drury|John O'Brien|Valentin Ruano Rubio|Bronwyn MacInnis|Jonathan Mwangi|Upeka Samarakoon|Lisa Ranford-Cartwright|Michael Ferdig|Karen Hayton|Xinzhuan Su|Thomas Wellems|Julian Rayner|Gil McVean|Dominic Kwiatkowski University of Oxford / Wellcome Trust Sanger Institute;|University of Oxford;|Wellcome Trust Sanger Institute;|Bowdoin College;|Broad Institute of Harvard and MIT;|Mount Kenya University;|University of Notre Dame;|University of Glasgow;|National Institutes of Health
http://dx.doi.org/10.1101/026484 2015-12-23 Biophysics CC BY Photon-HDF5: an open file format for single-molecule fluorescence experiments using photon-counting detectors Antonino Ingargiola|Ted Laurence|Robert Boutelle|Shimon Weiss|Xavier Michalet University of California Los Angeles;|Lawrence Livermore National Laboratory
http://dx.doi.org/10.1101/035022 2015-12-23 Systems Biology CC BY Hybrid Systems Modeling for (Cancer) Systems Biology Roel I.J. Dobbe|Claire J. Tomlin UC Berkeley
http://dx.doi.org/10.1101/035006 2015-12-23 Plant Biology Arabidopsis late blight: Infection of a nonhost plant by Albugo laibachii enables full colonization by Phytophthora infestans Khaoula Belhaj|Liliana M. Cano|David C. Prince|Ariane Kemen|Kentaro Yoshida|Yasin F. Dagdas|Graham J. Etherington|Henk-jan Schoonbeek|H. Peter van Esse|Jonathan DG Jones|Sophien Kamoun|Sebastian Schornack The Sainsbury Laboratory;|John Innes Centre;|University of Cambridge, Sainsbury Laboratory
http://dx.doi.org/10.1101/034819 2015-12-23 Ecology CC BY-NC-ND Insect Wing Classification of Mosquitoes and Bees Using CO1 Image Recognition. Nayna Vyas-Patel|Sai Ravela|Agenor Mafra-Neto|John D Mumford Runnemede Bioscience;|MIT;|ISCA Technologies;|Imperial College London
http://dx.doi.org/10.1101/028027 2015-12-23 Neuroscience CC BY Untangling cortico-striatal connectivity and cross-frequency coupling in L-DOPA-induced dyskinesia Jovana Belic|Per Halje|Ulrike Richter|Per Petersson|Jeanette Hellgren Kotaleski KTH Royal Institute of Technology;|Lund University, Lund, Sweden;|KTH Royal Institute of Technology, Stockholm, Sweden
http://dx.doi.org/10.1101/035105 2015-12-23 Genetics A protein truncating R179X variant in RNF186 confers protection against ulcerative colitis Manuel A Rivas|Daniel Graham|Patrick Sulem|Christine Stevens|Nicole Desch|Philippe Goyette|Daniel Gudbjartsson|Ingileif Jonsdottir|Unnur Thorsteinsdottir|Frauke Degenhardt|Soren Mucha|Mitja I Kurki|Dalin Li|Mauro D'Amato|Vito Annese|Severine Vermeire|Rinse Weersma|Jonas Halfvarsson|Paulina Paavola-Sakki|Maarit Lappalainen|Monkol Lek|Beryl Cummings|Taru Tukianen|Talin Haritunians|Leena Halme|Lotta Koskinen|Ashwin Ananthakrishnan|Yang Luo|Graham A Heap|Marijn Visschedijk|Daniel G MacArthur|Benjamin M Neale|Tariq Ahmad|Carl A Anderson|Steven R Brant|Richard H Duerr|Mark Silverberg|Judy Cho|Aarno Palotie|Paivi Saavalainen|Kimmo Kontula|Martti Farkkila|Dermot McGovern|Andre Franke|Kari Stefansson|John D Rioux|Ramnik J Xavier|Mark J Daly Broad Institute;|deCODE Genetics, Amgen inc., Reykjavik, Iceland;|Research Center, Montreal Heart Institute, Montreal, Quebec, Canada;|Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, Kiel, Germany.;|Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, Kiel, Germany;|Medical Genetics Institute & Inflammatory Bowel Disease Center, Cedars-Sinai Medical Center, LA, CA;|Department of Biosciences and Nutrition, Karolinska Institutet, Stockholm, Sweden.;|Unit of Gastroenterology, IRCCS-CSS Hospital, San Giovanni Rotondo, Italy;|Department of Clinical and experimental medicine, Katholieke Universiteit (KU) Leuven, Belgium;|Department of Gastroenterology and Hepatology, University Medical Center Groningen, Netherlands;|Department of Gastroenterology, Faculty of Medicine and Health, Orebro University, Orebro, Sweden;|Department of Medicine, University of Helsinki, and Helsinki University Hospital, Helsinki, Finland;|Massachusetts General Hospital;|Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai, LA, CA;|Department of Transplantation and Liver Surgery, University of Helsinki, Helsinki, Finland;|Research Program for Molecular Medicine, Biomedicum Helsinki, Finland;|Gastroenterology Unit, Massachusetts General Hospital, Harvard Medical School, Boston, MA, USA;|Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK;|IBD Pharmacogenetics, Royal Devon and Exeter NHS Trust, Exeter, UK;|Peninsula College of Medicine and Dentistry, Exeter, UK.;|Meyerhoff Inflammatory Bowel Disease Center, Department of Medicine, Johns Hopkins University, Balt;|Division of Gastroenterology,Department of Medicine, Pittsburgh School of Medicine, Pittsburgh, PA;|Inflammatory Bowel Disease Centre, Mount Sinai Hospital, Toronto, Ontario, Canada;|Department of Genetics, Yale School of Medicine, New Haven, Connecticut, USA;|Department of Bacteriology and Immunology, University of Helsinki, Helsinki, Finland;|F.Widjaja Foundation Inflammatory Bowel and Immunobiology Research Institute, Cedars-Sinai Medical C;|8Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel, Kiel, Germany;|Faculte de Medecine, Universite de Montreal, Montreal, Quebec, Canada.
http://dx.doi.org/10.1101/030924 2015-12-23 Genomics CC BY A pan-cancer analysis of prognostic genes Jordan Anaya|Brian J Reon|Wei-Min Chen|Stefan Bekiranov|Anindya Dutta Omnes Res;|University of Virginia
http://dx.doi.org/10.1101/034454 2015-12-23 Animal Behavior and Cognition CC BY-NC-ND Enhancing the precision of our understanding about mentalizing in adults with autism Michael V. Lombardo|Meng-Chuan Lai|Bonnie Auyeung|Rosemary J. Holt|Carrie Allison|Paula Smith|Bhismadev Chakrabarti|Amber N. V. Ruigrok|John Suckling|Edward T. Bullmore|Christine Ecker|Michael C. Craig|Declan G. M. Murphy|Francesca Happe|Simon Baron-Cohen University of Cyprus;|University of Toronto;|University of Edinburgh;|University of Cambridge;|University of Reading;|Institute of Psychiatry, Psychology and Neuroscience, King's College London
http://dx.doi.org/10.1101/024406 2015-12-23 Neuroscience CC BY Hebbian Wiring Plasticity Generates Efficient Network Structures for Robust Inference with Synaptic Weight Plasticity Naoki Hiratani|Tomoki Fukai The University of Tokyo;|RIKEN Brain Science Institute
http://dx.doi.org/10.1101/035162 2015-12-23 Systems Biology CC BY-NC-ND Agent-based modeling of cancer stem cell driven solid tumor growth Jan T Poleszczuk|Paul Macklin|Heiko Enderling Moffitt Cancer Center & Research Institute;|University of Southern California;|H Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/020834 2015-12-23 Evolutionary Biology CC BY-NC MERS-CoV recombination: implications about the reservoir and potential for adaptation Gytis Dudas|Andrew Rambaut University of Edinburgh
http://dx.doi.org/10.1101/021030 2015-12-23 Evolutionary Biology Environmental fluctuations do not select for increased variation or population-based resistance in Escherichia coli Shraddha Madhav Karve|Kanishka Tiwary|S Selveshwari|Sutirth Dey Indian Institute of Science Education and Research, Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/006544 2015-12-23 Plant Biology CC BY-NC-ND Mesoscale analyses of fungal networks as an approach for quantifying phenotypic traits Sang Hoon Lee|Mark D Fricker|Mason A Porter University of Oxford
http://dx.doi.org/10.1101/030601 2015-12-23 CC BY Hydroxide Once or Twice? A combined Neutron Crystallographic and Quantum Chemical Study of the Hydride Shift in D-Xylose Isomerase Matt Challacombe|Nicolas Bock|Paul Langan|Andrey Kovalevsky Los Alamos National Laboratory;|Oak Ridge National Laboratory
http://dx.doi.org/10.1101/026468 2015-12-23 Genomics CC BY Extensive sequencing of seven human genomes to characterize benchmark reference materials Justin M Zook|David Catoe|Jennifer McDaniel|Lindsay Vang|Noah Spies|Arend Sidow|Ziming Weng|Yuling Liu|Chris Mason|Noah Alexander|Dhruva Chandramohan|Elizabeth Henaff|Feng Chen|Erich Jaeger|Ali Moshrefi|Khoa Pham|William Stedman|Tiffany Liang|Michael Saghbini|Zeljko Dzakula|Alex Hastie|Han Cao|Gintaras Deikus|Eric Schadt|Robert Sebra|Ali Bashir|Rebecca M Truty|Christopher C Chang|Natali Gulbahce|Keyan Zhao|Srinka Ghosh|Fiona Hyland|Yutao Fu|Mark Chaisson|Jonathan Trow|Chunlin Xiao|Stephen T Sherry|Alexander W Zaranek|Madeleine Ball|Jason Bobe|Preston Estep|George M Church|Patrick Marks|Sofia Kyriazopoulou-Panagiotopoulou|Grace Zheng|Michael Schnall-Levin|Heather S Ordonez|Patrice A Mudivarti|Kristina Giorda|Ying Sheng|Karoline Bjarnesdatter Rypdal|Marc Salit National Institute of Standards and Technology;|Stanford University;|Cornell University;|Illumina;|Bionano Genomics;|Icahn School of Medicine at Mount Sinai;|Complete Genomics Inc;|Thermo Fisher Scientific;|University of Washington;|National Institutes of Health;|personalgenomes.org;|10X Genomics;|Oslo University Hospital
http://dx.doi.org/10.1101/035097 2015-12-23 Systems Biology Exploiting variability of single cells to uncover the in vivo hierarchy of miRNA targets Andrzej Jerzy Rzepiela|Arnau Vina-Vilaseca|Jeremie Breda|Souvik Ghosh|Afzal P Syed|Andreas J Gruber|William A Grandy|Katja Eschbach|Christian Beisel|Erik van Nimwegen|Mihaela Zavolan University of Basel;|ETH Zurich
http://dx.doi.org/10.1101/035188 2015-12-23 Systems Biology CC BY-NC-ND Tunable protein synthesis by transcript isoforms in human cells Stephen N Floor|Jennifer A Doudna University of California, Berkeley
http://dx.doi.org/10.1101/035014 2015-12-22 Systems Biology CC BY-ND On Miller's rule for the brain working memory, or why human memory is so short Evgeny Z Meilikhov|Rimma M Farzetdinova Kurchatov Institute, 123182 Moscow, Russia
http://dx.doi.org/10.1101/034876 2015-12-20 Bioinformatics CC BY-NC Practical Guidelines for Secure Cloud Computing using Genomic Data Somalee Datta|Keith Bettinger|Michael Snyder Stanford University
http://dx.doi.org/10.1101/034918 2015-12-20 Neuroscience CC BY-NC-ND Transition between functional regimes in an integrate-and-fire network model of the thalamus Alessandro Barardi|Jordi Garcia-Ojalvo|Alberto Mazzoni Universitat Pompeu Fabra;|Scuola Superiore Sant'Anna
http://dx.doi.org/10.1101/034967 2015-12-20 Genomics CC BY-NC-ND Genomic Bayesian Prediction Model for Count Data with Genotype × Environment Interaction Abelardo Montesinos-Lopez|Osval Montesinos-Lopez|Jose Crossa|Juan Burgueno|Kent Eskridge|Esteban Falconi-Castillo|Xingyao He|Pawan Singh|Karen Cichy CIMAT;|CIMMYT;|International Maize and Wheat Improvement Center (CIMMYT);|University of Nebraska;|Instituto Nacional Autónomo de Investigaciones Agropecuarias;|USDA-ARS
http://dx.doi.org/10.1101/034892 2015-12-20 Biophysics CC BY The genomic basis of electrotaxis in Dictyostelium discoideum: Electric field sensitive amino acids are dynamically encoded en masse for the streaming-stage proteome Albert J Erives University of Iowa, United States
http://dx.doi.org/10.1101/034983 2015-12-20 Evolutionary Biology CC BY-NC-ND Refining the Y chromosome phylogeny with southern African sequences Chiara Barbieri|Alexander Hubner|Enrico Macholdt|Shengyu Ni|Sebastian Lippold|Roland Schroder|Sununguko Wata Mpoloka|Josephine Purps|Lutz Roewer|Mark Stoneking|Brigitte Pakendorf Max Planck Institute for the Science of Human History, Jena;|Max Planck Institute for Evolutionary Anthropology, Leipzig;|University of Botswana;|Institute of Legal Medicine and Forensic Sciences, Charite-Universitätsmedizin, Berlin;|CNRS & Universite Lyon 2
http://dx.doi.org/10.1101/034926 2015-12-20 Evolutionary Biology CC BY-NC-ND Whole-genome sequencing uncovers cryptic and hybrid species among Atlantic and Pacific cod-fish Katrin Halldorsdottir|Einar Arnason University of Iceland
http://dx.doi.org/10.1101/032821 2015-12-20 Genomics CC BY-NC-ND DanQ: a hybrid convolutional and recurrent deep neural network for quantifying the function of DNA sequences Daniel Quang|Xiaohui Xie UC Irvine
http://dx.doi.org/10.1101/034363 2015-12-20 Genetics CC BY-NC-ND Characterisation of CASPR2 deficiency disorder - a syndrome involving autism, epilepsy and language impairment Pedro Rodenas-Cuadrado|Nicola Pietrafusa|Teresa Francavilla|Angela La Neve|Pasquale Striano|Sonja Vernes Max Planck Institute for Psycholinguistics;|Department of Basic Medical Sciences, Neurosciences and Sense Organs, University of Bari;|G. Gaslini Institute Genoa
http://dx.doi.org/10.1101/034959 2015-12-20 Evolutionary Biology Host-pathogen co-evolution and the emergence of broadly neutralizing antibodies in chronic infections Armita Nourmohammad|Jakub Otwinowski|Joshua Plotkin Princeton University;|University of Pennsylvania
http://dx.doi.org/10.1101/034884 2015-12-20 Evolutionary Biology CC BY Purifying selection and drift, not life history or RNAi, determine transposable element evolution Amir Szitenberg|Soyeon Cha|Charles H Opperman|David M Bird|Mark Blaxter|David H Lunt University of Hull;|North Carolina State University;|University of Edinburgh
http://dx.doi.org/10.1101/034991 2015-12-20 Microbiology Retroviruses integrate into a shared, non-palindromic motif Paul D. W. Kirk|Maxime Huvet|Anat Melamed|Goedele N. Maertens|Charles R. M. Bangham MRC Biostatistics Unit;|Imperial College London
http://dx.doi.org/10.1101/034314 2015-12-19 Plant Biology CC BY-ND Genomic and Chemical Diversity in Cannabis Ryan C Lynch|Daniela Vergara|Silas Tittes|Kristin White|C.J. Schwartz|Matthew J Gibbs|Travis C Ruthenburg|Kymron deCesare|Donald P Land|Nolan C Kane University of Colorado;|Marigene;|Steep Hill Labs
http://dx.doi.org/10.1101/028837 2015-12-19 Genetics RAD Capture (Rapture): Flexible and efficient sequence-based genotyping. Omar A Ali|Sean M O'Rourke|Stephen J Amish|Mariah H Meek|Gordon Luikart|Carson Jeffres|Michael R Miller Department of Animal Science, University of California, Davis CA 95616, USA;|Division of Biological Sciences, University of Montana, Missoula MT 59812, USA;|Department of Natural Resources, Cornell University, Ithaca NY 14850, USA;|Flathead Lake Biological Station, University of Montana, Polson MT 59860, USA;|Center for Watershed Science, University of California, Davis CA 95616, USA
http://dx.doi.org/10.1101/032938 2015-12-19 Ecology CC BY-NC-ND Can functional traits explain phylogenetic signal in the composition of a plant community? Daijiang Li|Anthoy R Ives|Donald M Waller University of Wisconsin
http://dx.doi.org/10.1101/019083 2015-12-19 Genetics|Genomics Integration of experiments across diverse environments identifies the genetic determinants of variation in Sorghum bicolor seed element composition Nadia Shakoor|Greg Ziegler|Brian P Dilkes|Zachary Brenton|Richard Boyles|Erin L Connolly|Stephen Kresovich|Ivan Baxter Donald Danforth Plant Science Center;|USDA-ARS;|Purdue University;|Clemson University;|University of South Carolina
http://dx.doi.org/10.1101/019372 2015-12-18 Genomics CC BY svclassify: a method to establish benchmark structural variant calls Hemang Parikh|Marghoob Mohiyuddin|Hugo Y. K. Lam|Hariharan Iyer|Desu Chen|Mark Pratt|Gabor Bartha|Noah Spies|Wolfgang Losert|Justin M. Zook|Marc L. Salit National Institute of Standards and Technology;|Bina Technologies, Roche Sequencing;|University of Maryland;|Personalis Inc
http://dx.doi.org/10.1101/034652 2015-12-18 Plant Biology The Arabidopsis Auxin F-box proteins AFB4 and AFB5 are Required for Response to the Synthetic Auxin Picloram Michael J Prigge|Kathleen Greenham|Yi Zhang|Aaron Santner|Cristina Castillejo|Ronan C O'Malley|Joseph R Ecker|Mark Estelle UCSD;|Salk Institute
http://dx.doi.org/10.1101/034835 2015-12-18 Neuroscience CC BY-NC-ND Hippocampal circuit abnormalities in MeCP2+/- mouse model of Rett syndrome Julia Chartove|Wenlin Liao|Aniqa Hassan|Mary McMullen|Rachel White|Sangwon Kim|Gregory Carlson Swarthmore College;|University of Pennsylvania
http://dx.doi.org/10.1101/034827 2015-12-18 Neuroscience CC BY-NC-ND Octopamine release impairs courtship conditioning in Drosophila melanogaster Julia Chartove|Mengxi Cici Zhang|Edward Zhang Swarthmore College
http://dx.doi.org/10.1101/028282 2015-12-18 Genetics CC BY-NC-ND Fast and accurate long-range phasing in a UK Biobank cohort Po-Ru Loh|Pier Francesco Palamara|Alkes L Price Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/031229 2015-12-18 Bioinformatics CC BY-NC-ND Kaiju: Fast and sensitive taxonomic classification for metagenomics Peter Menzel|Kim Lee Ng|Anders Krogh University of Copenhagen
http://dx.doi.org/10.1101/034793 2015-12-17 Genomics Meta3C analysis of a mouse gut microbiome Martial Marbouty|Lyam Baudry|Axel Cournac|Romain Koszul Institut Pasteur - G5 RSG
http://dx.doi.org/10.1101/034744 2015-12-17 Bioinformatics Inferring protein-protein interaction networks from inter-protein sequence co-evolution Christoph Feinauer|Hendrik Szurmant|Martin Weigt|Andrea Pagnani DISAT, Politecnico di Torino;|Department of Molecular and Experimental Medicine, The Scripps Research Institute;|Sorbonne Universites, UPMC, UMR 7238, Computational and Quantitative Biology;|Human Genetics Foundation, Molecular Biotechnology Center (MBC), Torino, Italy
http://dx.doi.org/10.1101/034777 2015-12-17 Bioinformatics CC BY-NC-ND SPECtre: a spectral coherence-based classifier of actively translated transcripts from ribosome profiling sequence data Sang Y Chun|Caitlin M Rodriguez|Peter K Todd|Ryan E. Mills University of Michigan
http://dx.doi.org/10.1101/034389 2015-12-17 Ecology CC BY Radiating despite a lack of character: closely related, morphologically similar, co-occurring honeyeaters have diverged ecologically Eliot T Miller|Sarah K Wagner|Luke J Harmon|Robert E Ricklefs University of Idaho;|Cornell Lab of Ornithology;|University of Missouri, St. Louis
http://dx.doi.org/10.1101/034785 2015-12-17 Genomics A novel enrichment strategy reveals unprecedented number of novel transcription start sites at single base resolution in a model prokaryote and the gut microbiome Laurence Ettwiller|John Buswell|Erbay Yigit|Ira Schildkraut New England Biolabs
http://dx.doi.org/10.1101/034736 2015-12-17 Neuroscience CC BY-NC-ND Neural oscillations as a signature of efficient coding in the presence of synaptic delays Matthew Chalk|Boris Gutkin|Sophie Deneve Institute for Science and Technology, Austria (IST Austria);|Ecole Normale Superieure
http://dx.doi.org/10.1101/034629 2015-12-17 Genetics CC BY Changing planetary rotation rescues the biological clock mutant lhy cca1 of Arabidopsis thaliana Andrew J. Millar|Jamie T. Carrington|Wei Ven Tee|Sarah K. Hodge SynthSys and School of Biological Sciences, University of Edinburgh
http://dx.doi.org/10.1101/033753 2015-12-17 Systems Biology CC BY-NC-ND Competition between binding sites determines gene expression at low transcription factor concentrations David van Dijk|Eilon Sharon|Maya Lotan-Pompan|Adina Weinberger|Lucas Carey|Eran Segal Columbia University;|Stanford University;|Weizmann Institute of Science;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/034710 2015-12-17 Evolutionary Biology CC BY-NC-ND A Model of Avian Genome Evolution Liaofu Luo Inner Mongolia University
http://dx.doi.org/10.1101/034660 2015-12-17 Genetics CC BY-NC-ND The KIAA0319 Gene Polymorphisms are Associated with Developmental Dyslexia in Chinese Uyghur Children Hua Zhao|Xiang Peng Zuo|Ping Bao Zhang|Yun Chen Medical school of Shihezi University;|Medical School of Shihezi University
http://dx.doi.org/10.1101/034546 2015-12-16 Evolutionary Biology What kind of maternal effects are selected for in fluctuating environments? Stephen R Proulx|Henrique Teotonio UC Santa Barbara;|Ecole Normale Superieure
http://dx.doi.org/10.1101/034595 2015-12-16 Neuroscience Molecular organization of CA1 interneuron classes Kenneth Harris|Lorenza Magno|Linda Katona|Peter Lonnerberg|Ana B. Munoz Manchado|Peter Somogyi|Nicoletta Kessaris|Sten Linnarsson|Jens Hjerling-Leffler University College London;|University of Oxford;|Karolinska Institutet
http://dx.doi.org/10.1101/034520 2015-12-16 Neuroscience On the relation between face and object recognition in developmental prosopagnosia: Systematic association but no dissociation. Christian Gerlach|Solja K. Klargaard|Randi Starrfelt University of Southern Denmark;|University of Copenhagen
http://dx.doi.org/10.1101/034512 2015-12-16 Genetics CC BY-NC-ND Polygenic risk for schizophrenia is associated with social cognition across development Laura Germine|Elise B Robinson|Jordan W Smoller|Monica E Calkins|Tyler M Moore|Hakon Hakonarson|Mark J Daly|Phil H Lee|Avram J Holmes|Randy L Buckner|Ruben C Gur|Raquel E Gur Psychiatric and Neurodevelopmental Genetics Unit, Massachusetts General Hospital;|Analytic and Translational Genetics Unit, Massachusetts General Hospital;|Department of Psychiatry, Perelman School of Medicine, University of Pennsylvania;|Center for Applied Genomics, The Children's Hospital of Philadelphia;|Psychology Department, Yale University;|Center for Brain Sciences, Harvard University
http://dx.doi.org/10.1101/034579 2015-12-16 Bioinformatics Automatic genome segmentation with HMM-ANN hybrid models Li Shen Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/034538 2015-12-16 Genetics CC BY-ND Diversity in Clinical and Biomedical Research: A Promise Yet to Be Fulfilled Sam S Oh|Joshua Galanter|Neeta Thakur|Maria Pino-Yanes|Nicolas E Barcelo|Marquitta J White|Danille M de Bruin|Ruth M Greenblatt|Kirsten Bibbins-Domingo|Alan H.B. Wu|Luisa N Borrell|Chris Gunter|Neil R Powe|Esteban G Burchard University of California, San Francisco;|University of California, San Francisco and Instituto de Salud Carlos III and Hospital Universitario;|University of California, San Francisco, and San Francisco General Hospital;|City University of New York;|Marcus Autism Center and Emory University School of Medicine
http://dx.doi.org/10.1101/023879 2015-12-16 Bioinformatics CC BY-ND D3M: Detection of differential distributions of methylation levels Yusuke Matsui|Masahiro Mizuta|Satoru Miyano|Teppei Shimamura Nagoya University Graduate School of Medicine, 466-8550, Nagoya, Japan.;|Information Initiative Center, Hokkaido University, 060-0811, Sapporo, Japan;|Institute of Medical Science, The University of Tokyo, Tokyo, 108-8639, Japan
http://dx.doi.org/10.1101/034181 2015-12-15 Genetics Mating-induced Male Death and Pheromone Toxin-regulated Androstasis Cheng Shi|Alexi M Runnels|Coleen T Murphy Princeton University
http://dx.doi.org/10.1101/034488 2015-12-15 Bioinformatics Architecting a distributed bioinformatics platform with iRODS and iPlant Agave API Liya Wang|Peter Van Buren|Doreen Ware Cold Spring Harbor Labs;|Cold Spring Harbor Laboratory / USDA;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/034009 2015-12-15 Zoology CC BY-NC-ND Evidence of adoption, monozygotic twinning, and low inbreeding rates in a large genetic pedigree of polar bears Rene M. Malenfant|David W. Coltman|Evan S. Richardson|Nicholas J. Lunn|Ian Stirling|Elizabeth Adamowicz|Corey S. Davis University of Alberta;|Environment Canada
http://dx.doi.org/10.1101/033951 2015-12-15 Systems Biology CC BY-NC-ND Emergent Patterns from Probabilistic Generalisations of Lateral Activation and Inhibition Lisa Willis|Alexandre Kabla Cambridge University
http://dx.doi.org/10.1101/034462 2015-12-15 Genomics CC BY Characterizing the Adult and Larval Transcriptome of the Multicolored Asian Lady Beetle, Harmonia axyridis Lindsay A Havens|Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/034397 2015-12-15 Bioinformatics CC BY-NC-ND Event Extraction from Biomedical Literature Abdur Rahman M.A. Basher|Alexander S. Purdy|Inanc Birol Canadas Michael Smith Genome Sciences Centre, British Columbia Cancer Agency;|University of Victoria
http://dx.doi.org/10.1101/034447 2015-12-15 Genetics CC BY-NC-ND Simple penalties on maximum likelihood estimates of genetic parameters to reduce sampling variation karin meyer University of New England
http://dx.doi.org/10.1101/034470 2015-12-15 Biochemistry CC BY-NC-ND Characterizing RNA structures in vitro and in vivo with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq) Kyle E Watters|Angela M Yu|Eric J Strobel|Alex H Settle|Julius Lucks Cornell University
http://dx.doi.org/10.1101/034215 2015-12-15 Systems Biology Ewing sarcoma breakpoint region 1 prevents transcription-associated genome instability Nitish Mittal|Christophe Kunz|Foivos Gypas|Shivendra Kishore|Georges Martin|Friedel Wenzel|Erik van Nimwegen|Primo Schaer|Mihaela Zavolan Biozentrum, University of Basel;|Department of Biomedicine, University of Basel;|Medizinische Genetik, University Hospital of Basel
http://dx.doi.org/10.1101/033977 2015-12-15 Systems Biology Multiscale Modeling of Cancer Kerri-Ann Norton|Meghan M McCabe Pryor|Aleksander S Popel Johns Hopkins University
http://dx.doi.org/10.1101/034439 2015-12-15 Developmental Biology The Drosophila Neurogenin, Tap, controls axonal growth through the Wnt adaptor protein Dishevelled Liqun Yuan|Shu Hu|Zeynep Okray|Xi Ren|Natalie De Geest|Annelies Claeys|Jiekun Yan|Eric Bellefroid|Bassem Hassan|Xiao-Jiang Quan VIB;|Henan University of Science and Technology;|ULB
http://dx.doi.org/10.1101/034355 2015-12-15 Evolutionary Biology CC BY-NC-ND Independent evolution of ab- and adaxial stomatal density enables adaptation Christopher David Muir|Miquel Angel Conesa|Jeroni Galmes University of British Columbia;|Universitat de les Illes Balears
http://dx.doi.org/10.1101/034421 2015-12-15 Bioinformatics Gene expression inference with deep learning Yifei Chen|Yi Li|Rajiv Narayan|Aravind Subramanian|Xiaohui Xie University of California, Irvine;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/033928 2015-12-15 Evolutionary Biology CC BY-NC-ND Archaic adaptive introgression in TBX15/WARS2 Fernando Racimo|David Gokhman|Matteo Fumagalli|Torben Hansen|Ida Moltke|Anders Albrechtsen|Liran Carmel|Emilia Huerta-Sanchez|Rasmus Nielsen University of California - Berkeley;|The Hebrew University of Jerusalem;|University College London;|University of Copenhagen;|University of California - Merced
http://dx.doi.org/10.1101/034371 2015-12-15 Animal Behavior and Cognition CC BY-NC-ND Proprioceptive feedback determines visuomotor gain in Drosophila Jan Bartussek|Fritz-Olaf Lehmann University of Rostock
http://dx.doi.org/10.1101/026393 2015-12-14 Genetics CC BY-ND Epistasis and decanalization shape gene expression variability in humans via distinct modes of action Gang Wang|Ence Yang|Jizhou Yang|Beiyan Zhou|Yanan Tian|James J Cai Texas A&M University
http://dx.doi.org/10.1101/034348 2015-12-14 Evolutionary Biology CC BY-NC-ND An Invariants-based Method for Efficient Identification of Hybrid Species From Large-scale Genomic Data Laura Kubatko|Julia Chifman The Ohio State University
http://dx.doi.org/10.1101/024554 2015-12-14 Genetics Genomic study of the Ket: a Paleo-Eskimo-related ethnic group with significant ancient North Eurasian ancestry Pavel Flegontov|Piya Changmai|Anastassiya Zidkova|Maria D. Logacheva|Nefize Ezgi Altinisik|Olga Flegontova|Mikhail S. Gelfand|Evgeny S. Gerasimov|Ekaterina V. Khrameeva|Olga P. Konovalova|Tatiana Neretina|Yuri V. Nikolsky|George Starostin|Vita V. Stepanova|Igor V. Travinsky|Martin Triska|Petr Triska|Tatiana V. Tatarinova Department of Biology and Ecology, Faculty of Science, University of Ostrava;|Department of Bioengineering and Bioinformatics, Lomonosov Moscow State University;|Institute of Parasitology, Biology Centre, Czech Academy of Sciences;|A.A.Kharkevich Institute for Information Transmission Problems, Russian Academy of Sciences;|Skolkovo Institute of Science and Technology;|Biomedical Cluster, Skolkovo Foundation;|Russian State University for the Humanities;|retired;|Children's Hospital Los Angeles;|Instituto de Patologia e Imunologia Molecular da Universidade do Porto;|Spatial Science Institute, University of Southern California
http://dx.doi.org/10.1101/034322 2015-12-13 Genomics CC BY-NC-ND Methylome analysis reveals dysregulated developmental and viral pathways in breast cancer Mohammed OE Abdallah|Ubai K Algizouli|Maram Abbas Suliman|Rawya Abdulaziz Abdulrahman|Mahmoud Koko|Ghimja Fessahaye|Jamal Haleem Shakir|Ahmed H. Fahal|Ahmed M Elhassan|Muntaser E Ibrahim E Ibrahim|Hiba S Mohamed Institute of Endemic Diseases
http://dx.doi.org/10.1101/034298 2015-12-13 Genetics CC BY-NC Mutation rates and the evolution of germline structure Aylwyn Scally University of Cambridge
http://dx.doi.org/10.1101/034280 2015-12-13 Evolutionary Biology CC BY Genetic recombination as DNA repair Dmitri Parkhomchuk|Alexey Shadrin|Alice McHardy HZI, Germany;|Alacris Theranostics, Germany
http://dx.doi.org/10.1101/034272 2015-12-13 Genomics RNA-seq and Bulked Segregant Analysis of a Gene Related to High Growth in Ginkgo biloba Half-siblings. Hai Xia Tang|Ji Hong Li|Shi Yan Xing|Shu Hui Du|Zhong Tang Wang|Xiao Jing Liu|Li Min Sun College of Forestry
http://dx.doi.org/10.1101/034306 2015-12-13 Genomics In silico identification of metabolic enzyme drug targets in Burkholderia pseudomallei Jean F Challacombe Los Alamos National Lab
http://dx.doi.org/10.1101/030676 2015-12-12 Developmental Biology CC BY-NC-ND Dynamic stem cell states: naive to primed pluripotency in rodents and humans Leehee Weinberger|Muneef Ayyash|Noa Novershtern|Jacob H. Hanna Weizmann Institute of Science
http://dx.doi.org/10.1101/034199 2015-12-11 Neuroscience CC BY-NC Inferences from a network to a subnetwork and vice versa under an assumption of symmetry PierGianLuca Porta Mana|Emiliano Torre|Vahid Rostami Forschungszentrum Juelich, Germany
http://dx.doi.org/10.1101/034165 2015-12-11 Genomics CC BY-NC-ND Human copy number variants are enriched in regions of low-mappability Jean Monlong|Caroline Meloche|Guy Rouleau|Patrick Cossette|Simon Louis Girard|Guillaume Bourque Human Genetics Dept, McGill University;|Centre de Recherche du Centre Hospitalier de l Universite de Montreal;|Montreal Neurological Institute, McGill University;|Departement des sciences fondamentales, Universite du Quebec a Chicoutimi
http://dx.doi.org/10.1101/034207 2015-12-11 Genetics Maternal genome-wide association study identifies a fasting glucose variant associated with offspring birth weight Bjarke Feenstra|Alana Cavadino|Jessica Tyrrell|George McMahon|Michael Nodzenski|Momoko Horikoshi|Frank Geller|Ronny Myhre|Rebecca Richmond|Lavinia Paternoster|Jonathan Bradfield|Eskil Kreiner-Moller|Ville Huikari|Sarah Metrustry|Kathryn Lunetta|Jodie Painter|Jouke-Jan Hottenga|Catherine Allard|Sheila Barton|Ana Espinosa|Julie Marsh|Catherine Potter|Wei Ang|Diane Berry|Luigi Bouchard|Shikta Das|Hakon Hakonarson|Jani Heikkinen|Berthold Hocher|Albert Hofman|Hazel Inskip|Manolis Kogevinas|Penelope Lind|Letizia Marullo|Sarah Medland|Jeffrey Murray|Ellen Nohr|Christoph Reichetzeder|Susan Ring|Loreto Santa-Marina|Denise Scholtens|Sylvain Sebert|Verena Sengpiel|Mike Bartels|Caroline Relton|Craig Pennell|Leda Chatzi|Xavier Estivill|John Holloway|Dorret Boomsma|Grant Montgomery|Joanne Murabito|Tim Spector|Christine Power|Marjo-Riitta Jarvelin|Hans Bisgaard|Struan Grant|Thorkild Sorensen|Vincent Jaddoe|Bo Jacobsson|Mads Melbye|Mark McCarthy|Andrew Hattersley|M. Geoffrey Hayes|David Evans|Marie-France Hivert|Janine Felix|Eina Hypponen|William L Lowe|Debbie Lawlor|Timothy Frayling|Rachel M Freathy Statens Serum Institut;|Queen Mary University of London;|University of Exeter;|University of Bristol;|Northwestern University;|University of Oxford;|Norwegian Institute of Public Health;|Children's Hospital of Philadelphia;|University of Copenhagen;|University of Oslo;|Kings College London;|Boston University School of Public Health;|QIMR Berghofer Medical Research Institute;|VU University Amsterdam;|University of Sherbrooke;|University of Southampton;|Pompeu Fabra University;|University of Western Australia;|Newcastle University;|UCL Institute of Child Health;|Imperial College London;|FIMM Institute for Molecular Medicine;|University of Potsdam;|Erasmus MC;|University of Ferrara;|University of Iowa;|University of Southern Denmark;|CIBER Epidemiologia y Salud Publica (CIBERESP);|University of Oulu;|Sahgrenska University Hospital;|University of Crete;|Boston University School of Medicine;|University of Queensland Diamantina Institute;|Harvard Medical School;|University of South Australia
http://dx.doi.org/10.1101/034231 2015-12-11 Cell Biology CC BY-NC-ND Peroxisomes move by hitchhiking on early endosomes using the novel linker protein PxdA John Salogiannis|Martin J. Egan|Samara L. Reck-Peterson Harvard Medical School;|University of California San Diego
http://dx.doi.org/10.1101/021972 2015-12-11 Bioinformatics On the identifiability of transmission dynamic models for infectious diseases Jarno Lintusaari|Michael U. Gutmann|Samuel Kaski|Jukka Corander Aalto University;|University of Helsinki
http://dx.doi.org/10.1101/034066 2015-12-11 Immunology Effect of Poli I:C in murine model of autoimmune thyroiditis Carolina Loreto Vera Sepulveda|MIguel Barria Maldonado Universidad Austral de Chile
http://dx.doi.org/10.1101/034090 2015-12-11 Genomics Ritornello: High fidelity control-free chip-seq peak calling Kelly Patrick Stanton|Jiaqi Jin|Sherman Morton Weissman|Yuval Kluger Yale University
http://dx.doi.org/10.1101/034132 2015-12-10 Cancer Biology CC BY-NC-ND LORENZ SYSTEM IN THERMODYNAMICAL MODELLING OF LEUKEMIA Igor V Alexeev Retired Scientist
http://dx.doi.org/10.1101/034157 2015-12-10 Microbiology CC BY Changes in the relative abundance of two Saccharomyces species from oak forests to wine fermentations Sofia Dashko|Ping Liu|Helena Volk|Lorena Butinar|Jure Piskur|Justin C. Fay Lund University;|Washington University;|University of Nova Gorica;|Washington University in St. Louis
http://dx.doi.org/10.1101/033803 2015-12-10 Neuroscience Activity sources from fast large-scale brain recordings in adult Drosophila Sophie Aimon|Takeo Katsuki|Logan Grosenick|Michael Broxton|Karl Deisseroth|Ralph J Greenspan Kavli Institute for Brain and Mind;|Departments of Computer Science and Bioengineering, Stanford University
http://dx.doi.org/10.1101/034025 2015-12-10 Evolutionary Biology CC BY-NC-ND The impact of natural selection on the distribution of cis-regulatory variation across the genome of an outcrossing plant Kim A Steige|Benjamin Laenen|Johan Reimegard|Douglas Scofield|Tanja Slotte Uppsala University;|Stockholm University
http://dx.doi.org/10.1101/034108 2015-12-10 Bioinformatics CC BY-NC-ND chromPlot: visualization of genomic data in chromosomal context Karen Y Orostica|Ricardo A Verdugo University of Chile
http://dx.doi.org/10.1101/034124 2015-12-10 Genomics CC BY SSA.ME Detection of cancer mutual exclusivity patterns by small subnetwork analysis Sergio Pulido-Tamayo|Bram Weytjens|Dries De Maeyer|Kathleen Marchal INTEC, UGent
http://dx.doi.org/10.1101/034074 2015-12-10 Bioinformatics CC BY-NC-ND Combating the scientific decline effect with confidence (intervals) David M Groppe Feinstein Institute for Medical Research
http://dx.doi.org/10.1101/032342 2015-12-10 Genomics CC BY-NC-ND Nanopore Sequencing in Microgravity Alexa B.R. McIntyre|Lindsay Rizzardi|Angela M Yu|Gail L. Rosen|Noah Alexander|Douglas J. Botkin|Kristen K. John|Sarah L. Castro-Wallace|Aaron S. Burton|Andrew Feinberg|Christopher E. Mason Tri-Institutional Training Program in Computational Biology and Medicine, New York, NY, USA;|Johns Hopkins University School of Medicine, Baltimore, Maryland, USA;|Drexel University, Philadelphia, PA, USA;|Weill Cornell Medical College, New York, NY, USA;|JES Tech, Houston, TX, USA;|NASA Johnson Space Center, Houston, TX, USA
http://dx.doi.org/10.1101/033662 2015-12-09 Neuroscience Putting value in context: A role for context memory in decisions for reward. Aaron M Bornstein|Kenneth A Norman Princeton University
http://dx.doi.org/10.1101/016386 2015-12-09 Evolutionary Biology CC BY-NC-ND Detecting hidden diversification shifts in models of trait-dependent speciation and extinction Jeremy M Beaulieu|Brian C O'Meara University of Tennessee
http://dx.doi.org/10.1101/034041 2015-12-09 Evolutionary Biology Low virulence evolves as a bet-hedging strategy in fluctuating environment Anne Nguyen|Etienne Rajon|David Fouchet|Dominique Pontier|Jorge Rabinovich|Sebastien Gourbiere|Frederic Menu Universite Claude Bernard, Lyon 1;|Universite Claude Bernard Lyon 1;|CEPAVE, Argentina;|Universite de Perpignan
http://dx.doi.org/10.1101/033654 2015-12-09 Bioinformatics CC BY-NC-ND A framework for collaborative computational research Apua C. M. Paquola|Jennifer A. Erwin|Fred H. Gage Salk Institute for Biological Studies
http://dx.doi.org/10.1101/034033 2015-12-09 Bioinformatics Habitat variability does not generally promote metabolic network modularity in flies and mammals Kazuhiro Takemoto Kyushu Institute of Technology
http://dx.doi.org/10.1101/033985 2015-12-09 Biochemistry CC BY Modeling error in experimental assays using the bootstrap principle: Understanding discrepancies between assays using different dispensing technologies Sonya M Hanson|Sean Ekins|John D Chodera Memorial Sloan Kettering Cancer Center;|Collaborations in Chemistry
http://dx.doi.org/10.1101/034017 2015-12-09 Evolutionary Biology CC BY Bat Accelerated Regions Identify a Bat Forelimb Specific Enhancer in the HoxD Locus Betty M Booker|Tara Friedrich|Mandy K Mason|Julia E VanderMeer|Jingjing Zhao|Walter L Eckalbar|Malcolm Logan|Nicola Illing|Katherine S Pollard|Nadav Ahituv UCSF;|Gladstone Institutes;|University of Cape Town;|MRC-National Institute for Medical Research
http://dx.doi.org/10.1101/016840 2015-12-09 Developmental Biology CC BY A general theory of individuated multicellularity Felipe A. Veloso Universidad Mayor
http://dx.doi.org/10.1101/033910 2015-12-08 Neuroscience What's past is present: Reminders of past choices bias decisions for reward in humans. Aaron M Bornstein|Mel W Khaw|Daphna Shohamy|Nathaniel D Daw Princeton University;|New York University;|Columbia University
http://dx.doi.org/10.1101/020818 2015-12-08 Microbiology CC BY-NC-ND Probing the fabric of the rare biosphere Bibiana G. Crespo|Philip J. Wallhead|Ramiro Logares|Carlos Pedros-Alio Uni Research Environmet;|Norwegian Institute for Water Research (NIVA);|Instituto de Ciencias del Mar (ICM-CSIC)
http://dx.doi.org/10.1101/033944 2015-12-08 Evolutionary Biology CC BY-NC Modeling Continuous Admixture Ying Zhou|Hongxiang Qiu|Shuhua Xu CAS-MPG Partner Institute for Computational Biology, China;|The Chinese University of Hong Kong, Shatin, China
http://dx.doi.org/10.1101/033936 2015-12-08 Evolutionary Biology CC BY-NC-ND Genetic diversity on the human X chromosome does not support a strict pseudoautosomal boundary Daniel J Cotter|Sarah M Brotman|Melissa A Wilson Sayres Arizona State University, United States
http://dx.doi.org/10.1101/032904 2015-12-08 Neuroscience CC BY-NC-ND Cell-type and state-dependent synchronization among rodent areas S1BF, V1, perirhinal cortex and hippocampus CA1 Martin Vinck|Jeroen J Bos|Laura Van Mourik-Donga|Krista Oplaat|Gerbrand A Klein|Jadin C Jackson|Luc J Gentet|Cyriel M.A. Pennartz Cognitive and Systems Neuroscience Group, SILS Center for Neuroscience, University of Amsterdam;|Inserm, Lyon, France
http://dx.doi.org/10.1101/033902 2015-12-07 Ecology CC BY-NC-ND Evolution arrests invasions of cooperative populations Kirill S Korolev Boston University
http://dx.doi.org/10.1101/033886 2015-12-07 Genetics Fitness effects of new mutations in Chlamydomonas reinhardtii across two stress gradients Susanne A Kraemer|Andrew D Morgan|Robert W Ness|Peter D Keightley|Nick Colegrave University of Edinburgh;|University of Toronto
http://dx.doi.org/10.1101/033894 2015-12-07 Systems Biology CC BY-NC A reductionist approach to model photosynthetic self-regulation in eukaryotes in response to light Anna Matuszynska|Oliver Ebenhoeh Heinrich Heine University Duesseldorf
http://dx.doi.org/10.1101/033878 2015-12-07 Neuroscience Principles of ipsilateral and contralateral cortico-cortical connectivity in the mouse Alexandros Goulas|Harry BM Uylings|Claus C Hilgetag Department of Computational Neuroscience, University Medical Center Hamburg-Eppendorf;|Department of Anatomy and Neuroscience, VU University Medical Center, Graduate School Neurosciences
http://dx.doi.org/10.1101/033811 2015-12-07 Microbiology CC BY-NC-ND Dynamics of microbial community composition and soil organic carbon mineralization in soil following addition of pyrogenic and fresh organic matter Thea Whitman|Charles Pepe-Ranney|Akio Enders|Chantal Koechli|Ashley Campbell|Daniel H Buckley|Johannes Lehmann University of Wisconsin - Madison;|Cornell University
http://dx.doi.org/10.1101/033829 2015-12-07 Genomics CC BY-NC Integrated analysis links TP53, NOTCH, SLC38A and 11p with survival in patients with oral tongue squamous cell carcinoma Neeraja M Krishnan|Saurabh Gupta|Costerwell Khyriem|Vinayak Palve|Amritha Suresh|Gangotri Siddappa|Vikram Kekatpure|Moni A Kuriakose|Binay Panda Ganit Labs, Bio-IT Centre, Institute of Bioinformatics and Applied Biotechnology;|Mazumdar Shaw Centre for Translational Cancer Research;|Mazumdar Shaw Medical Centre
http://dx.doi.org/10.1101/033787 2015-12-06 Genetics CC BY Across-cohort QC analyses of genome-wide association study summary statistics from complex traits Guo-Bo Chen|Sang Hong Lee|Matthew R Robinson|Maciej Trzaskowski|Zhi-Xiang Zhu|Thomas W Winkler|Felix R Day|Damien C Croteau-Chonka|Andrew R Wood|Adam E Locke|Zoltan Kutalik|Ruth J F Loos|Timothy M Frayling|Joel N Hirschhorn|Jian Yang|Naomi R Wray|Peter M Visscher Queensland Brain Institute, The University of Queensland;|SPLUS Games;|U Regensburg;|Addenbrooke's Hospital;|University of North Carolina;|University of Exeter;|University of Michigan;|University of Lausanne;|The Charles Bronfman Institute for Personalized Medicine, Icahn School of Medicine at Mount Sinai;|Harvard University;|Queensland Brain Institute, The University of Queensland, Brisbane
http://dx.doi.org/10.1101/024919 2015-12-06 Systems Biology Antithetic Integral Feedback: A new motif for robust perfect adaptation in noisy biomolecular networks Corentin Briat|Ankit Gupta|Mustafa Khammash ETH-Zurich - D-BSSE
http://dx.doi.org/10.1101/017533 2015-12-06 Evolutionary Biology CC BY-NC-ND Phenotypic Covariation And Morphological Diversification In The Ruminant Skull Annat Haber Michigan State University
http://dx.doi.org/10.1101/033712 2015-12-05 Evolutionary Biology CC BY-ND Mutation is a sufficient and robust predictor of genetic variation for mitotic spindle traits in C. elegans Reza Farhadifar|Jose Miguel Ponciano|Erik C Andersen|Daniel J Needleman|Charles F Baer Harvard University, United States;|University of Florida, United States;|Northwestern University, United States
http://dx.doi.org/10.1101/033720 2015-12-05 Ecology CC BY-ND Vital rates, source-sink dynamics, and type of competition in congeneric species Simone Vincenzi|Dusan Jesensek|Alain J Crivelli University of California Santa Cruz;|Tolmin Angling Association;|Station Biologique de la Tour du Valat
http://dx.doi.org/10.1101/033639 2015-12-04 Ecology CC BY-NC-ND Classical metapopulation dynamics and eco-evolutionary feedbacks in dendritic networks Emanuel A. Fronhofer|Florian Altermatt Eawag: Swiss Federal Institute of Aquatic Science and Technology and University of Zurich
http://dx.doi.org/10.1101/033670 2015-12-04 Bioinformatics CC BY-NC Factorbook Motif Pipeline: A de novo motif discovery and filtering web server for ChIP-seq peaks Bong-Hyun Kim|Jiali Zhuang|Jie Wang|Zhiping Weng National Cancer Institute;|UMass Medical School;|University at Buffalo, SUNY
http://dx.doi.org/10.1101/033647 2015-12-04 Ecology Trait evolution in adaptive radiations: modelling and measuring interspecific competition on phylogenies Magnus Clarke|Gavin H Thomas|Robert P Freckleton University of Sheffield
http://dx.doi.org/10.1101/025940 2015-12-04 Paleontology CC BY How many dinosaur species were there? Fossil bias and true richness estimated using a Poisson sampling model (TRiPS) Jostein Starrfelt|Lee Hsiang Liow Centre for Ecological and Evolutionary Synthesis, University of Oslo, Norway
http://dx.doi.org/10.1101/033555 2015-12-04 Genomics Clinical Validation of a Non-Invasive Prenatal Test for Genome-Wide Detection of Fetal Copy Number Variants Roy B Lefkowitz|John A Tynan|Tong Liu|Yijin Wu|Amin R Mazloom|Eyad Almasri|Grant Hogg|Vach Angkachatchai|Chen Zhao|Daniel S Grosu|Graham McLennan|Mathias Ehrich Sequenom Laboratories;|Illumina;|Sequenom, Inc.
http://dx.doi.org/10.1101/023531 2015-12-04 Neuroscience CC BY-NC Formation and maintenance of robust long-term information storage in the presence of synaptic turnover Michael Fauth|Florentin Worgotter|Christian Tetzlaff University Göttingen, Bernstein Center for Computational Neuroscience;|Max Planck Insitute for Dynamics and Self-Organization;Weizmann Institute of Science, Rehovot
http://dx.doi.org/10.1101/021212 2015-12-04 Genomics Variation-preserving normalization unveils blind spots in gene expression profiling Carlos P. Roca|Susana I. L. Gomes|Monica J. B. Amorim|Janeck J. Scott-Fordsmand Universitat Rovira i Virgili, Spain;|University of Aveiro, Portugal;|Aarhus University, Denmark
http://dx.doi.org/10.1101/032391 2015-12-04 Neuroscience CC BY-NC-ND Mind the drift - improving sensitivity to fMRI pattern information by accounting for temporal pattern drift Arjen Alink|Alexander Walther|Alexandra Krugliak|Jasper J.F. van den Bosch|Nikolaus Kriegeskorte MRC Cognition and Brain Sciences Unit, UK;|Institute for Learning and Brain Sciences, University of Washington, USA
http://dx.doi.org/10.1101/031237 2015-12-03 Cancer Biology Stochastic Models for Population Dynamics Sean Sun Johns Hopkins University
http://dx.doi.org/10.1101/033597 2015-12-03 Evolutionary Biology CC BY-NC Evolutionary dynamics of a quantitative trait in a finite asexual population. Florence Debarre|Sarah Otto CNRS;|University of British Columbia
http://dx.doi.org/10.1101/033605 2015-12-03 Plant Biology CC BY-NC-ND SLTAB2 is the paramutated SULFUREA locus in tomato Quentin Gouil|Ondrej Novak|David Baulcombe Department of Plant Sciences, University of Cambridge;|Institute of Experimental Botany AS CR and Faculty of Science of Palacký University
http://dx.doi.org/10.1101/008821 2015-12-03 Bioinformatics CC BY-NC Epigenomic co-localization and co-evolution reveal a key role for 5hmC as a communication hub in the chromatin network of ESCs David Juan|Juliane Perner|Enrique Carrillo de Santa Pau|Simone Marsili|David Ochoa|Ho-Ryun Chung|Martin Vingron|Daniel Rico|Alfonso Valencia Spanish National Cancer Research Centre - CNIO;|Max Plank Institute for Molecular Genetics;|Spanish National Cancer Research Center, CNIO;|European Bioinformatics Institute (EMBL-EBI)
http://dx.doi.org/10.1101/028720 2015-12-03 Bioinformatics Cancer Classification by Correntropy-Based Sparse Compact Incremental Learning Machine Mojtaba Nayyeri|Hossein Sharifi Noghabi FUM
http://dx.doi.org/10.1101/033563 2015-12-02 Evolutionary Biology CC BY Empirical evidence for heterozygote advantage in adapting diploid populations of Saccharomyces cerevisiae Diamantis Sellis|Daniel J Kvitek|Barbara Dunn|Gavin Sherlock|Dmitri A Petrov Université Lyon 1, France;|Invitae, United States;|Stanford University, United States
http://dx.doi.org/10.1101/033571 2015-12-02 Evolutionary Biology Accelerated DNA evolution in rats is driven by differential methylation in sperm Xiao-Hui Liu|Jin-Min Lian|Fei Ling|Ning Li|Da-Wei Wang|Ying Song|Qi-Ye Li|Ya-Bin Jin|Zhi-Yong Feng|Lin Cong|Dan-Dan Yao|Jing-Jing Sui Institute of Plant Protection, Chinese Academy of Agricultural Sciences;|China National GeneBank, BGI-Shenzhen;|School of Bioscience and Bioengineering, South China University of Technology;|Center for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen;|Plant Protection Research Institute, Guangdong Academy of Agricultural Sciences;|Plant Protection Institute, Heilongjiang Academy of Agricultural Sciences
http://dx.doi.org/10.1101/033480 2015-12-02 Genomics Global lengthening of 3′ untranslated regions of mRNAs by alternative cleavage and polyadenylation in cellular senescence Miao Han|Guoliang Lv|Hongbo Nie|Ting Shen|Yichi Niu|Xueping Li|Meng Chen|Xia Zheng|Wei Li|Chen Ding|Gang Wei|Jun Gu|Xiao-Li Tian|Yufang Zheng|Xinhua Liu|Jinfeng Hu|Tao Wei|Ting Ni Fudan University;|Peking University;|Baylor College of Medicine
http://dx.doi.org/10.1101/033456 2015-12-02 Bioinformatics CC BY nihexporter: an R package for NIH funding data Erin Baschal|Nick Ellinwood|Ashley Pacheco|Sally Peach|Mary Sweet|Yuying Wang|Jay Hesselberth University of Colorado School of Medicine
http://dx.doi.org/10.1101/033522 2015-12-02 Microbiology CC BY Nested Russian Doll-like Genetic Mobility Drives Rapid Dissemination of the Carbapenem Resistance Gene blaKPC Anna E Sheppard|Nicole Stoesser|Daniel J Wilson|Robert Sebra|Andrew Kasarskis|Luke W Anson|Adam Giess|Louise J Pankhurst|Alison Vaughan|Christopher J Grim|Heather L Cox|Anthony J Yeh|Costi D Sifri|A. Sarah Walker|Tim E Peto|Derrick W Crook|Amy J Mathers University of Oxford;|Icahn School of Medicine;|Food and Drug Administration;|University of Virginia Health System
http://dx.doi.org/10.1101/033530 2015-12-02 Bioinformatics CC BY-ND TopHat-Recondition: A post-processor for TopHat unmapped reads Christian Brueffer|Lao H Saal Lund University
http://dx.doi.org/10.1101/033472 2015-12-02 Neuroscience Flexibility in motor timing constrains the topology and dynamics of pattern generator circuits Cengiz Pehlevan|Farhan Ali|Bence P. Olveczky Simons Foundation;|Harvard University
http://dx.doi.org/10.1101/033498 2015-12-02 Ecology CC BY-NC-ND Blind spots in ecosystem services research and implementation Sven Lautenbach|Anne-Christine Mupepele|Carsten F Dormann|Heera Lee|Stefan Schmidt|Samantha S.K. Scholte|Ralf Seppelt|Astrid J.A. van Teeffelen|Willem Verhagen|Martin Volk University of Bonn;|University of Freiburg;|UFZ - Helmholtz Centre for Environmental Research;|VU Amsterdam
http://dx.doi.org/10.1101/033506 2015-12-02 Evolutionary Biology CC BY Male sex pheromone components in the butterfly Heliconius melpomene Sohini Vanjari|Florian Mann|Richard M Merrill|Stefan Schulz|Chris D Jiggins University of Cambridge;|Technische Universitat Braunschweig
http://dx.doi.org/10.1101/033548 2015-12-02 Neuroscience Homeostatic activity-dependent tuning of recurrent networks for robust propagation of activity Julijana Gjorgjieva|Jan Felix Evers|Stephen Eglen Brandeis University;|University of Heidelberg;|University of Cambridge
http://dx.doi.org/10.1101/027201 2015-12-02 Genetics MTG2: An efficient algorithm for multivariate linear mixed model analysis based on genomic information Sang Hong Lee|Julius van der Werf University of New England
http://dx.doi.org/10.1101/032516 2015-12-02 Biochemistry CC BY-NC-ND Induced-fit of the peptidyl-transferase center of the ribosome and conformational freedom of the esterified amino acids Jean Lehmann Institute for Integrative Biology of the Cell (I2BC)
http://dx.doi.org/10.1101/033431 2015-12-01 Bioinformatics CC BY-NC-ND iCOBRA: open, reproducible, standardized and live method benchmarking Charlotte Soneson|Mark D Robinson Institute of Molecular Life Sciences, University of Zurich and SIB Swiss Institute of Bioinformatics
http://dx.doi.org/10.1101/033084 2015-12-01 Genomics CC BY-NC-ND Disease variants alter transcription factor levels and methylation of their binding sites Marc Jan Bonder|Rene Luijk|Daria Zhernakova|Matthijs Moed|Patrick Deelen|Martijn Vermaat|Maarten van Iterson|Freerk van Dijk|Michiel van Galen|Jan Bot|Roderick C. Slieker|P. Mila Jhamai|Michael Verbiest|H. Eka D. Suchiman|Marijn Verkerk|Ruud van der Breggen|Jeroen van Rooij|Nico Lakenberg|Wibowo Arindrarto|Szymon M. Kielbasa|Iris Jonkers|Peter van t Hof|Irene Nooren|Marian Beekman|Joris Deelen|Diana van Heemst|Alexandra Zhernakova|Ettje F. Tigchelaar|Morris A. Swertz|Albert Hofman|Andre G. Uitterlinden|Rene Pool|Jenny van Dongen|Jouke J. Hottenga|Coen D.A. Stehouwer|Carla J.H. van der Kallen|Casper G. Schalkwijk|Leonard H. van den Berg|Erik. W van Zwet|Hailiang Mei|Yang Li|Mathieu Lemire|Thomas J. Hudson|P. Eline Slagboom|Cisca Wijmenga|Jan H. Veldink|Marleen M.J. van Greevenbroek|Cornelia M. van Duijn|Dorret I. Boomsma|Aaron Isaacs|Rick Jansen|Joyce van Meurs|Peter A.C. t Hoen|Lude Franke|Bastiaan T. Heijmans University Medical Center Groningen;|Leiden University Medical Center;|University of Groningen, University Medical Centre Groningen;|SURFsara;|ErasmusMC;|VU University Amsterdam;|Maastricht University Medical Center;|University Medical Center Utrecht;|Leiden Universit Medical Center;|Ontario Institute for Cancer Research;|University Medical Centre Groningen;|VU University Medical Center
http://dx.doi.org/10.1101/032029 2015-12-01 Systems Biology CC BY-NC-ND Mesoscopic oscillations in a single-gene circuit without delay Nara Guisoni|Diana Monteoliva|Luis Diambra CONICET, UNLP;|UNLP
http://dx.doi.org/10.1101/033365 2015-12-01 Genetics Evolution of sex chromosomes is prior to speciation in the dioecious Phoenix species Emira Cherif|Salwa Zehdi|Amandine Crabos|Karina Castillo|Nathalie Chabrillange|Jean-Christophe Pintaud|Amel Salhi-Hannachi|Sylvain Glemain|Frederique Aberlenc IRD Montpellier UMR DIADE F2F-palmiers group;|Université Tunis El Manar;|IRD Montpellier UMR DIADE Dynadiv;|Institut des Sciences de l’Evolution de Montpellier, Unité Mixte de Recherche 5554
http://dx.doi.org/10.1101/033373 2015-12-01 Evolutionary Biology CC BY-NC-ND Inferring past effective population size from distributions of coalescent-times Lucie Gattepaille|Mattias Jakobsson Uppsala University, Sweden
http://dx.doi.org/10.1101/033340 2015-12-01 Microbiology CC BY-ND Phylogenetic and functional substrate specificity for endolithic microbial communities in hyper-arid environments Alexander Crits-Christoph|Courtney K Robinson|Bing Ma|Jacques Ravel|Jacek Wierzchos|Carmen Ascaso|Octavio Artieda|Virginia Souza-Egipsy|M. Cristina Casero|Jocelyne DiRuggiero Biology Department, The Johns Hopkins University;|Institute for Genome Sciences, University of Maryland School of Medicine;|Museo Nacional de Ciencias Naturales, MNCN - CSIC;|Universidad de Extremadura, Plasencia;|Instituto de Ciencias Agrarias, ICA - CSIC
http://dx.doi.org/10.1101/033134 2015-12-01 Genomics Accurate genetic profiling of anthropometric traits using a big data approach Oriol Canela-Xandri|Konrad Rawlik|John A. Woolliams|Albert Tenesa The Roslin Institute, The University of Edinburgh
http://dx.doi.org/10.1101/033407 2015-12-01 Neuroscience CC BY-NC-ND Heritability of Neuroanatomical Shape Tian Ge|Martin Reuter|Anderson M. Winkler|Avram J. Holmes|Phil H. Lee|Lee S. Tirrell|Joshua L. Roffman|Randy L. Buckner|Jordan W. Smoller|Mert R. Sabuncu Massachusetts General Hospital / Harvard Medical School;|Oxford University;|Yale University
http://dx.doi.org/10.1101/027755 2015-12-01 Bioinformatics CC BY A benchmark of gene expression tissue-specificity metrics Nadezda Kryuchkova|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/033217 2015-11-30 Genetics CC BY-NC-ND Hypothesis-free identification of modulators of genetic risk factors Daria Zhernakova|Patrick Deelen|Martijn Vermaat|Maarten van Iterson|Michiel van Galen|Wibowo Arindrarto|Peter van t Hof|Hailiang Mei|Freerk van Dijk|Harm-Jan Westra|Marc Jan Bonder|Jeroen van Rooij|Marijn Verkerk|P. Mila Jhamai|Matthijs Moed|Szymon M. Kielbasa|Jan Bot|Irene Nooren|Rene Pool|Jenny van Dongen|Jouke J. Hottenga|Coen D.A. Stehouwer|Carla J.H. van der Kallen|Casper G. Schalkwijk|Alexandra Zhernakova|Yang Li|Ettje F. Tigchelaar|Marian Beekman|Joris Deelen|Diana van Heemst|Leonard H. van den Berg|Albert Hofman|Andre G. Uitterlinden|Marleen M.J. van Greevenbroek|Jan H. Veldink|Dorret I. Boomsma|Cornelia M. van Duijn|Cisca Wijmenga|P. Eline Slagboom|Morris A. Swertz|Aaron Isaacs|Joyce B.J. van Meurs|Rick Jansen|Bastiaan T. Heijmans|Peter A.C. t Hoen|Lude Franke University of Groningen, University Medical Centre Groningen;|University Medical Center Groningen;|LUMC;|UMCG;|Brigham and Women's Hospital;|ErasmusMC;|SurfSara;|VU Amsterdam;|MUMC;|UMCU
http://dx.doi.org/10.1101/033308 2015-11-30 Plant Biology Segmental interpolation surface: a tool to dissect environmental effects on plant water-use efficiency in drought prone scenarios Gaston Quero|Sebastian Simondi|Omar Borsani Facultad de Agronomia-UdeLaR;|Facultad de Ciencias Exactas y Naturales-UNCuyo
http://dx.doi.org/10.1101/033282 2015-11-30 Ecology CC BY-NC-ND Fish population dynamics and diversity in boreal and temperate reservoirs: A quantitative synthesis Katrine Turgeon|Christopher T. Solomon|Christian Nozais|Irene Gregory-Eaves McGill University;|Universite du Quebec a Rimouski
http://dx.doi.org/10.1101/033233 2015-11-30 Evolutionary Biology CC BY-NC-ND Genome-wide and single-base resolution DNA methylomes of the Sea Lamprey (Petromyzon marinus) Reveal Gradual Transition of the Genomic Methylation Pattern in Early Vertebrates Zhao Zhang|Gangbiao Liu|Yangyun Zhou|James P. B. Lloyd|David W. McCauley|Weiming Li|Xun Gu|Zhixi Su Fudan University;|University of California, Berkeley;|University of Oklahoma;|Michigan State University
http://dx.doi.org/10.1101/033274 2015-11-30 Ecology CC BY-NC-ND Immigration rates during population density reduction in a coral reef fish Katrine Turgeon|Donald L. Kramer McGill University
http://dx.doi.org/10.1101/033118 2015-11-30 Evolutionary Biology CC BY Efficient coalescent simulation and genealogical analysis for large sample sizes Jerome Kelleher|Alison M Etheridge|Gil McVean University of Oxford
http://dx.doi.org/10.1101/033290 2015-11-30 Bioinformatics CC BY-NC An Improved Genome Assembly of Azadirachta indica A. Juss. Neeraja M Krishnan|Prachi Jain|Saurabh Gupta|Arun K Hariharan|Binay Panda Ganit Labs, Bio-IT Centre, Institute of Bioinformatics and Applied Biotechnology
http://dx.doi.org/10.1101/032581 2015-11-30 Genetics CC BY-NC-ND YGR042W/MTE1 Functions in Double-Strand Break Repair with MPH1 Askar Yimit|TaeHyung Kim|Ranjith Anand|Sarah Meister|Jiongwen Ou|James Haber|Zhaolei Zhang|Grant W Brown University of Toronto;|Brandeis University
http://dx.doi.org/10.1101/029660 2015-11-30 Microbiology A highly diverse, desert-like microbial biocenosis on solar panels in a Mediterranean city Pedro Dorado-Morales|Cristina Vilanova|Juli Pereto|Franscisco M Codoner|Daniel Ramon|Manuel Porcar Universitat de Valencia;|Life Sequencing, SL;|Biopolis, SL
http://dx.doi.org/10.1101/033241 2015-11-30 Biochemistry CC BY Efficient sequence-specific isolation of DNA fragments and chromatin by in vitro enChIP technology using recombinant CRISPR ribonucleoproteins Toshitsugu Fujita|Miyuki Yuno|Hodaka Fujii Osaka University
http://dx.doi.org/10.1101/033191 2015-11-29 Bioinformatics CC BY-ND Two Independent and Highly Efficient Open Source TKF91 Implementations Nikolai Baudis|Pierre Barbera|Sebastian Graf|Sarah Lutteropp|Daniel Opitz|Tomas Flouri|Alexandros Stamatakis Karlsruhe Institute of Technology;|Heidelberg Institute for Theoretical Studies
http://dx.doi.org/10.1101/032292 2015-11-29 Neuroscience CC BY-ND Automatic segmentation of Drosophila neural compartments using GAL4 expression data reveals novel visual pathways Karin Panser|Laszlo Tirian|Florian Schulze|Santiago Villalba|Gregory SXE Jefferis|Katja Buehler|Andrew D Straw Research Institute of Molecular Pathology (IMP);|Institute of Molecular Biotechnology, Austria;|VRVis;|MRC Laboratory of Molecular Biology;|Research Insitute of Molecular Pathology
http://dx.doi.org/10.1101/033225 2015-11-29 Microbiology CC BY Revolutionising Public Health Reference Microbiology using Whole Genome Sequencing: Salmonella as an exemplar Philip Ashton|Satheesh Nair|Tansy Peters|Rediat Tewolde|Martin Day|Michel Doumith|Jonathan Green|Claire Jenkins|Anthony Underwood|Catherine Arnold|Elizabeth de Pinna|Tim Dallman|Kathie Grant Public Health England
http://dx.doi.org/10.1101/033043 2015-11-29 Evolutionary Biology CC BY-NC-ND Adaptive Protein Evolution in Animals and the Effective Population Size Hypothesis. Nicolas Galtier University Montpellier - CNRS
http://dx.doi.org/10.1101/033068 2015-11-27 Systems Biology CC BY-NC BAGEL: A computational framework for identifying essential genes from pooled library screens. Traver Hart|Jason Moffat University of Toronto
http://dx.doi.org/10.1101/033159 2015-11-27 Evolutionary Biology Diversity of immune strategies explained by adaptation to pathogen statistics Andreas Mayer|Thierry Mora|Olivier Rivoire|Aleksandra M Walczak Ecole normale superieure;|Universite Grenoble Alpes
http://dx.doi.org/10.1101/033076 2015-11-27 Genetics NOVEL INTRONIC NON-CODING RNAS CONTRIBUTE TO MAINTENANCE OF PHENOTYPE IN SACCHAROMYCES CEREVISIAE Katarzyna B Hooks|Samina Naseeb|Sam Griffiths-Jones|Daniela Delneri University of Manchester, United Kingdom
http://dx.doi.org/10.1101/033142 2015-11-27 Bioinformatics CC BY-NC-ND Sequenceserver: a modern graphical user interface for custom BLAST databases Anurag Priyam|Ben J Woodcroft|Vivek Rai|Alekhya Munagala|Ismail Moghul|Filip Ter|Mark Anthony Gibbins|HongKee Moon|Guy Leonard|Wolfgang Rumpf|Yannick Wurm Queen Mary University of London;|University of Queensland;|Indian Institute of Technology Kharagpur;|Royal Holloway, University of London;|Max Planck Institute of Molecular Cell Biology and Genetics;|University of Exeter;|University of Maryland
http://dx.doi.org/10.1101/020222 2015-11-27 Cancer Biology CC BY-NC-ND A computational modelling approach for deriving biomarkers to predict cancer risk in premalignant disease Andrew Dhawan|Trevor A Graham|Alexander G Fletcher Queen's University;|Barts Cancer Institute, QMUL;|University of Sheffield
http://dx.doi.org/10.1101/032987 2015-11-27 Microbiology CC BY-NC-ND The limitations of in vitro experimentation in understanding biofilms and chronic infection Aled E L Roberts|Kasper N Kragh|Thomas Bjarnsholt|Stephen P Diggle University of Nottingham;|University of Copenhagen
http://dx.doi.org/10.1101/027458 2015-11-27 Neuroscience CC BY-NC-ND A Serial Multiplex Immunogold Labeling Method for Identifying Peptidergic Neurons in Connectomes Reza Shahidi|Elizabeth Williams|Markus Conzelmann|Albina Asadulina|Csaba Veraszto|Sanja Jasek|Luis A Bezares-Calderon|Gaspar Jekely Max-Planck-Institute for Developmental Biology;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/018267 2015-11-27 Genomics CC BY Efficient Privacy-Preserving String Search and an Application in Genomics Kana Shimizu|Koji Nuida|Gunnar Ratsch Biotechnology Research Institute for Drug Discovery, AIST, Japan;|Information Technology Research Institute, AIST;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/033050 2015-11-26 Evolutionary Biology CC BY Coevolution leaves a stronger imprint on interactions than on community structure Timothee Poisot|Daniel Stouffer Universite de Montreal;|University of Canterbury
http://dx.doi.org/10.1101/033001 2015-11-26 Genomics A comprehensive analysis of 3′ end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogenous ribonucleoprotein C on cleavage and polyadenylation Andreas J Gruber|Ralf Schmidt|Andreas R Gruber|Georges Martin|Souvik Ghosh|Manuel Belmadani|Walter Keller|Mihaela Zavolan Biozentrum, University of Basel;|University of British Columbia
http://dx.doi.org/10.1101/032920 2015-11-26 Genetics CC BY-NC-ND Genome-wide expression profiling Drosophila melanogaster deficiency heterozygotes reveals diverse genomic responses. Hangnoh Lee|Dong-Yeon Cho|Cale Whitworth|Robert Eisman|Melissa Phelps|John Roote|Thomas Kaufman|Kevin Cook|Steven Russell|Teresa M Przytycka|Brian Oliver National Institute of Diabetes and Kidney and Digestive Diseases, National Institutes of Health;|National Center for Biotechnology Information, National Institutes of Health;|Department of Biology, Indiana University;|Department of Genetics and Cambridge Systems Biology Centre, University of Cambridge
http://dx.doi.org/10.1101/032953 2015-11-26 Bioinformatics CC BY-NC Rich chromatin structure prediction from Hi-C data Laraib Iqbal Malik|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/033019 2015-11-26 Bioinformatics CC BY-ND AGOUTI: improving genome assembly and annotation using transcriptome data Simo V Zhang|Luting Zhuo|Matthew W Hahn Indiana University
http://dx.doi.org/10.1101/032714 2015-11-26 Microbiology Exopolysaccharide biosynthetic glycoside hydrolases can be utilized to disrupt and prevent Pseudomonas aeruginosa biofilms Perrin Baker|Preston J HIll|Brendan D Snarr|Noor Alnabelseya|Mathew J Pestrak|Mark J Lee|Laura K Jennings|John Tam|Roman Melnyk|Matthew R Parsek|Donald C Sheppard|Daniel J Wozniak|P. Lynne Howell The Hospital for Sick Children;|Ohio State University;|McGill University;|The Hospital for Sick Children/University of Toronto;|University of Washington;|Ohio State Univeristy
http://dx.doi.org/10.1101/033027 2015-11-26 Molecular Biology CC BY-NC-ND A phylogenetically diverse class of blind type 1 opsins Erin A Becker|Andrew I Yao|Phillip M Seitzer|Tobias Kind|Ting Wang|Rich Eigenheer|Katie S. Y. Shao|Vladimir Yarov-Yarovoy|Marc T Facciotti University of California, Davis;|Proteome Software;|California Department of Food and Agriculture;|Williams College
http://dx.doi.org/10.1101/032912 2015-11-26 Animal Behavior and Cognition A quantitative interaction between signal detection in attention and reward/aversion behavior Vijay Viswanathan|Byoung Woo Kim|John P Sheppard|Hao Ying|Kalyan Raman|Myung Joo Lee|Sang Lee|Frank Mulhern|Martin P Block|Bobby Calder|Dale T Mortensen|Anne J Blood|Hans C Breiter Northwestern University;|Harvard Medical School;|Wayne State Univeristy;|Northwestern University/Harvard Medical School
http://dx.doi.org/10.1101/032961 2015-11-26 Bioinformatics CC BY-NC-ND DisGeNET-RDF: harnessing the innovative power of the Semantic Web to explore the genetic basis of diseases Nuria Queralt Rosinach|Janet Pinero|Alex Bravo Serrano|Ferran Sanz|Laura I Furlong GRIB/IMIM/UPF
http://dx.doi.org/10.1101/032797 2015-11-26 Systems Biology Differential dynamics of the mammalian mRNA and protein expression response to misfolding stress Zhe Cheng|Guoshou Teo|Sabrina Krueger|Tara Rock|Hiromi W.L. Koh|Hyungwon Choi|Christine Vogel New York University, New York, US;|National University Singapore and National University Health System, Singapore;|Max-Delbruck-Center, Berlin, Germany
http://dx.doi.org/10.1101/032995 2015-11-26 Developmental Biology CC BY-NC-ND Increased avidity for Dpp/BMP2 maintains the proliferation of eye progenitors in Drosophila Marta Neto|Fernando Casares CABD (Centro Andaluz de Biologia del Desarrollo), CSIC-Univ. Pablo de Olavide
http://dx.doi.org/10.1101/018861 2015-11-26 Ecology CC BY Inferring species interactions from co-occurrence data with Markov networks David J. Harris University of Florida
http://dx.doi.org/10.1101/025007 2015-11-26 Evolutionary Biology CC BY-NC-ND Population genomics of the Anthropocene: urbanization is negatively associated with genome-wide variation in white-footed mouse populations Jason Munshi-South|Christine P Zolnik|Stephen E Harris Fordham University;|Graduate Center of the City University of New York
http://dx.doi.org/10.1101/031021 2015-11-26 Bioinformatics CC BY-NC-ND Validation of Illumina's Isaac variant calling workflow. Liudmila Sergeevna Mainzer|Brad A. Chapman|Oliver Hofmann|Gloria Rendon|Zachary D. Stephens|Victor Jongeneel University of Illinois at Urbana-Champaign;|Harvard School of Public Health;|University of Glasgow;|University of Illinois
http://dx.doi.org/10.1101/025924 2015-11-26 Bioinformatics ProtAnnot: an App for Integrated Genome Browser to display how alternative splicing and transcription affect proteins Tarun Mall|John Eckstein|David Norris|Hiral Vora|Nowlan Freese|Ann E. Loraine University of North Carolina at Charlotte
http://dx.doi.org/10.1101/032185 2015-11-25 Bioinformatics CC BY-NC-ND An evaluation of methods correcting for cell type heterogeneity in DNA methylation studies Kevin McGregor|Sasha Bernatsky|Ines Colmegna|Marie Hudson|Tomi Pastinen|Aurelie Labbe|Celia Greenwood McGill University, Department of Epidemiology, Biostatistics, and Occupational Health;|Research Institute of the McGill University Health Centre;|Lady Davis Research Institute, Jewish General Hospital;|McGill University and Genome Quebec Innovation Centre;|Lady Davis Institute for Medical Research
http://dx.doi.org/10.1101/032763 2015-11-25 Genomics Early farmers from across Europe directly descended from Neolithic Aegeans Zuzana Hofmanova|Susanne Kreutzer|Garrett Hellenthal|Christian Sell|Yoan Diekmann|David Diez del Molino|Lucy van Dorp|Saioa Lopez|Athanasios Kousathanas|Vivian Link|Karola Kirsanow|Lara M Cassidy|Rui Martiniano|Melanie Strobel|Amelie Scheu|Kostas Kotsakis|Paul Halstead|Sevi Triantaphyllou|Nina Kyparissi-Apostolika|Dushanka-Christina Urem-Kotsou|Christina Ziota|Fotini Adaktylou|Shyamalika Gopalan|Dean M Bobo|Laura Winkelbach|Jens Blocher|Martina Unterlander|Christoph Leuenberger|Ciler Cilingiroglu|Barbara Horejs|Fokke Gerritsen|Stephen Shennan|Daniel G Bradley|Mathias Currat|Krishna Veeramah|Daniel Wegmann|Mark G Thomas|Christina Papageorgopoulou|Joachim Burger Palaeogenetics Group, Institute of Anthropology, Johannes Gutenberg University, 55099 Mainz, Germany;|Department of Genetics, Evolution and Environment, University College London, London WC1E 6BT, UK;|Department of Biology, University of Fribourg, 1700 Fribourg, Switzerland;|Molecular Population Genetics, Smurfit Institute of Genetics, Trinity College Dublin, Ireland;|Aristotle University of Thessaloniki, School of History and Archaeology, 54124 Thessaloniki, Greece;|Department of Archaeology, Northgate House, West Street, Sheffield S1 4ET, UK;|Honorary Ephor of Antiquities, Hellenic Ministry of Culture & Sports, 106 82 Athens, Greece;|Department of History and Ethnology, Democritus University of Thrace, 69100 Komotini, Greece;|Ephorate of Antiquities of Florina, Hellenic Ministry of Culture & Sports, 106 82 Athens, Greece;|Ephorate of Antiquities of Chalkidiki, Hellenic Ministry of Culture & Sports, 106 82 Athens, Greece;|Department of Ecology and Evolution, Stony Brook University, Stony Brook, New York, 11794-5245, USA;|Department of Mathematics, University of Fribourg, 1700 Fribourg, Switzerland;|Ege University, Department of Protohistory and Near Eastern Archeology, 35100 Bornova, Izmir, Turkey;|Institute of Oriental and European Archaeology, Austrian Academy of Sciences, 1010 Vienna, Austria;|Netherlands Institute in Turkey, P.K. 132, Beyoğlu 34433, İstanbul, Turkey;|Institute of Archaeology, University College London, London WC1H 0PY, UK;|Department of Genetics & Evolution-Anthropology Unit, University of Geneva, 1211 Geneva, Switzerland;|Lab of Anthropology, Dept of History & Ethnology, Democritus University of Thrace, Komotini, Greece
http://dx.doi.org/10.1101/032870 2015-11-25 Genomics CC BY-NC-ND FecalSeq: methylation-based enrichment for noninvasive population genomics from feces Kenneth L Chiou|Christina M Bergey Washington University;|University of Notre Dame
http://dx.doi.org/10.1101/032839 2015-11-25 Microbiology CC BY Spread of the pandemic Zika virus lineage is associated with NS1 codon usage adaptation in humans Caio Cesar de Melo Freire|Atila Iamarino|Daniel Ferreira de Lima Neto|Amadou Alpha Sall|Paolo Marinho de Andrade Zanotto Laboratory of Molecular Evolution and Bioinformatics, Department of Microbiology, Biomedical Science;|Institut Pasteur de Dakar, Dakar, Senegal
http://dx.doi.org/10.1101/032854 2015-11-25 Bioinformatics Quantifying polygenic effects in genome-wide association studies using generalized estimating equations Julian Hecker|Dmitry Prokopenko|Christoph Lange|Heide Lohlein Fier Department of Genomic Mathematics, University of Bonn;|Harvard School of Public Health
http://dx.doi.org/10.1101/032862 2015-11-25 Genetics CC BY Characteristics of DNA methylation and gene expression in regulatory features on the Infinium 450k Beadchip David Martino|Richard Saffery Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/027938 2015-11-25 Genomics CC BY-NC-ND Understanding biases in ribosome profiling experiments reveals signatures of translation dynamics in yeast Jeffrey A Hussmann|Stephanie Patchett|Arlen Johnson|Sara Sawyer|William H Press University of Texas at Austin;|University of Colorado Boulder
http://dx.doi.org/10.1101/029157 2015-11-25 Cell Biology Osmophoresis - a possible mechanism for vesicle trafficking in tip-growing cells Andrei Lipchinsky St. Petersburg State University
http://dx.doi.org/10.1101/031617 2015-11-25 Genomics CC BY-NC-ND Thousands of novel translated open reading frames in humans inferred by ribosome footprint profiling Anil Raj|Sidney Wang|Heejung Shim|Arbel Harpak|Yang I Li|Brett Englemann|Matthew Stephens|Yoav Gilad|Jonathan K Pritchard Stanford University;|University of Chicago
http://dx.doi.org/10.1101/032755 2015-11-24 Evolutionary Biology CC BY-ND speciesgeocodeR: An R package for linking species occurrences, user-defined regions and phylogenetic trees for biogeography, ecology and evolution Alexander Zizka|Alexandre Antonelli Univeristy of Gothenburgq;|University of Gothenburg, Gothenburg Botanical Garden
http://dx.doi.org/10.1101/032664 2015-11-24 Evolutionary Biology CC BY-NC-ND Rapid evolution of the inter-sexual genetic correlation for fitness in Drosophila melanogaster Julie M Collet|Sara Fuentes|Jack Hesketh|Mark S Hill|Paolo Innocenti|Edward H Morrow|Kevin Fowler|Max Reuter University of Queensland;|University College London;|University of Uppsala;|University of Sussex
http://dx.doi.org/10.1101/032656 2015-11-24 Neuroscience CC BY-NC-ND Similarity-based fusion of MEG and fMRI reveals spatio-temporal dynamics in human cortex during visual object recognition Radoslaw Cichy|Dimitrios Pantazis|Aude Oliva Free University Berlin;|MIT
http://dx.doi.org/10.1101/032805 2015-11-24 Evolutionary Biology CC BY One-rate models outperform two-rate models in site-specific dN/dS estimation Stephanie Spielman|Suyang Wan|Claus O Wilke University of Texas at Austin;|University of Minnesota
http://dx.doi.org/10.1101/032748 2015-11-24 Evolutionary Biology CC BY-NC-ND Analysis of the optimality of the Standard Genetic Code. Balaji Kumar|Supreet Saini Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/031492 2015-11-24 Genetics CC BY-NC-ND Fast and accurate construction of confidence intervals for heritability Regev Schweiger|Shachar Kaufman|Reijo Laaksonen|Marcus E Kleber|Winfried Marz|Eleazar Eskin|Saharon Rosset|Eran Halperin Tel Aviv University;|Zora Biosciences, Tampere University, University Hospital of Tampere;|University of Heidelberg;|University of Heidelberg, Medical University of Graz, Synlab Academy;|University of California Los Angeles;|Tel Aviv University, International Computer Science Institute
http://dx.doi.org/10.1101/032789 2015-11-24 Genetics CC BY-NC-ND Genetic Associations with Subjective Well-Being Also Implicate Depression and Neuroticism Aysu Okbay|Bart M. L. Baselmans|Jan-Emmanuel De Neve|Patrick Turley|Michel G. Nivard|Mark A. Fontana|Fleur S. W. Meddens|Richard Karlsson Linner|Cornelius A. Rietveld|Jaime Derringer|Jacob Gratten|James J. Lee|Jimmy Z. Liu|Ronald de Vlaming|Dalton C. Conley|George Davey Smith|Albert Hofman|Magnus Johannesson|David I. Laibson|Sarah E. Medland|Michelle N. Meyer|Joseph K. Pickrell|Tonu Esko|Robert F. Krueger|Jonathan P. Beauchamp|Philipp D. Koellinger|Daniel J. Benjamin|Meike Bartels|David Cesarini Erasmus School of Economics, Erasmus University Rotterdam;|Department of Biological Psychology, Vrije Universiteit Amsterdam;|Saïd Business School, University of Oxford;|Department of Economics, Harvard University;|Department of Economics, University of Michigan;|Department of Complex Trait Genetics,Vrije Universiteit, Amsterdam;|Psychology, University of Illinois;|Queensland Brain Institute, The University of Queensland;|Department of Psychology, University of Minnesota Twin Cities;|New York Genome Center, New York;|Department of Sociology, New York University;|MRC Integrative Epidemiology Unit, University of Bristol;|Department of Epidemiology, Erasmus Medical Center, Rotterdam;|Department of Economics, Stockholm School of Economics;|Quantitative Genetics, QIMR Berghofer Medical Research Institute, Brisbane;|Bioethics Program, Union Graduate College - Icahn School of Medicine at Mount Sinai;|Estonian Genome Center, University of Tartu;|Department of Complex Trait Genetics, Vrije Universiteit, Amsterdam;|Center for Economic and Social Research, University of Southern California, Los Angeles;|Department of Biological Psychology, Vrije Universiteit, Amsterdam;|Department of Economics, New York University
http://dx.doi.org/10.1101/032813 2015-11-24 Evolutionary Biology CC BY The Implications of Small Stem Cell Niche Sizes and the Distribution of Fitness Effects of New Mutations in Aging and Tumorigenesis Vincent L. Cannataro|Scott A. McKinley|Colette M. St. Mary University of Florida;|Tulane University
http://dx.doi.org/10.1101/028522 2015-11-24 Genetics CC BY-NC TP53 copy number expansion correlates with the evolution of increased body size and an enhanced DNA damage response in elephants Michael Sulak|Lindsey Fong|Katelyn Mika|Sravanthi Chigurupati|Lisa Yon|Nigel P. Mongan|Richard D. Emes|Vincent J. Lynch University of Chicago;|University of Nottingham;|Weill Cornell Medical College;|The University of Chicago
http://dx.doi.org/10.1101/031344 2015-11-24 Physiology An association between sexes of successive siblings in the data from Demographic and Health Survey program Mikhail Monakhov No current academic affiliation
http://dx.doi.org/10.1101/032615 2015-11-24 Bioinformatics G-quadruplex prediction in E.coli genome reveals a conserved putative G-quadruplex-Hairpin-Duplex switch Osman Doluca|Oktay I Kaplan|Burak Berber|Nezih Hekim RTA Laboratories;|Berlin Institute for Medical Systems Biology;|Osmangazi University/Department of Biology;|Beykent University/School of Medicine
http://dx.doi.org/10.1101/032623 2015-11-23 Neuroscience CC BY-NC-ND Dynamics of scene representations in the human brain revealed by magnetoencephalography and deep neural networks Radoslaw Martin Cichy|Aditya Khosla|Dimitrios Pantazis|Aude Oliva MIT
http://dx.doi.org/10.1101/032607 2015-11-23 Biochemistry Activation of G proteins by guanine nucleotide exchange factors relies on GTPase activity Rob J Stanley|Geraint MH Thomas University College London
http://dx.doi.org/10.1101/032649 2015-11-23 Evolutionary Biology CC BY-NC-ND Virility does not Imply Immensity: Testis size, Accessory Gland Size and Ejaculate depletion pattern do not Evolve in Response to Experimental Manipulation of Sex Ratio in Drosophila melanogaster Zeeshan Ali Syed|N G Prasad -Indian Institute of Science Education and Research Mohali;|Indian Institute of Science Education and Research Mohali;|Indian Institute of Science Education and Research, Mohali
http://dx.doi.org/10.1101/032573 2015-11-23 Bioinformatics CC BY BioJS-HGV Viewer: Genetic Variation Visualizer Saket Choudhary|Leyla Garcia|Andrew Nightingale|Maria-Jesus Martin University Of Southern California;|European Molecular Biology laboratory - European Bioinformatics Institute (EMBL-EBI)
http://dx.doi.org/10.1101/016626 2015-11-23 Evolutionary Biology CC BY-NC Deleterious mutation accumulation in Arabidopsis thaliana pollen genes: a role for a recent relaxation of selection Mark Christian Harrison|Eamonn B Mallon|Dave Twell|Robert L Hammond University of Leicester
http://dx.doi.org/10.1101/031088 2015-11-23 Plant Biology Auxin signaling is a common factor underlying natural variation in tomato shade avoidance Susan M Bush|Leonela Carriedo|Fulop Daniel|Yasunori Ichihashi|Mike F Covington|Ravi Kumar|Aashish Ranjan|Daniel H Chitwood|Lauren Headland|Daniele L Filiault|Jose M Jimenez-Gomez|Neelima R Sinha|Julin N Maloof Macalester College;|University of California at Davis;|RIKEN Center for Sustainable Resource Science, Yokohama City, Kanagawa, Japan;|Department of Plant Biology, University of California, Davis;|Novozymes, Inc., Davis, California;|National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, India;|Donald Danforth Plant Science Center, St. Louis, MO;|Gregor Mendel Institute of Molecular Plant Biology, Vienna, Austria;|Max Planck Institute for Plant Breeding Research, Cologne, Germany;|Department of Plant Biology, University of California, Davis, Davis, California, United States of Am
http://dx.doi.org/10.1101/023184 2015-11-23 Developmental Biology CC BY-NC-ND Capabilities and Limitations of Tissue Size Control Through Passive Mechanical Forces Jochen Kursawe|Pavel A. Brodskiy|Jeremiah J. Zartman|Ruth E. Baker|Alexander George Fletcher University of Oxford;|University of Notre Dame;|University of Sheffield
http://dx.doi.org/10.1101/032540 2015-11-22 Neuroscience The Ionotropic Receptors IR21a and IR25a mediate cool sensing in Drosophila Lina Ni|Mason Klein|Kathryn Svec|Gonzalo Budelli|Elaine C Chang|Richard Benton|Aravi DT Samuel|Paul A Garrity Brandeis University;|University of Miami;|University of Lausanne;|Harvard University
http://dx.doi.org/10.1101/032474 2015-11-21 Genetics CC BY Estimating Effect Sizes and Expected Replication Probabilities from GWAS Summary Statistics Dominic Holland|Yunpeng Wang|Wesley K Thompson|Andrew Schork|Chi-Hua Chen|Min-Tzu Lo|Aree Witoelar|Thomas Werge|Michael O'Donovan|Ole A Andreassen|Anders Dale UCSD;|University of Oslo;|University of Copenhagen;|Cardiff University
http://dx.doi.org/10.1101/032532 2015-11-21 Bioinformatics CC BY-NC ASAP: A Machine-Learning Framework for Local Protein Properties Dan Ofer|Nadav Brandes|Michal Linial Linial Lab, Biological Chemistry, Hebrew University of Jerusalem;|Einstein Institute of Mathematics, The Hebrew University of Jerusalem;|Department of Biological Chemistry, The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/032565 2015-11-21 Evolutionary Biology CC BY An in silico comparison of reduced-representation and sequence-capture protocols for phylogenomics Rupert A. Collins|Tomas Hrbek Universidade Federal do Amazonas
http://dx.doi.org/10.1101/032284 2015-11-21 Developmental Biology CC BY-NC-ND Polarized Cortical Tension drives Zebrafish Epiboly Movements Amayra Hernandez-Vega|Maria Marsal|Philippe-Alexandre Pouille|Sebastien Tosi|Julien Colombelli|Tomas Luque|Daniel Navajas|Ignacio Pagonabarraga|Enrique Martin-Blanco IBMB (CSIC);|IRB Barcelona;|IBEC;|Universitat de Barcelona
http://dx.doi.org/10.1101/032557 2015-11-21 Neuroscience Elevated gene expression of most microglial markers, and reduced expression of most pyramidal neuron and interneuron markers, in postmortem autism cortex Rebeca Borges-Monroy|Chris Ponting|T. Grant Belgard Harvard University;|University of Oxford
http://dx.doi.org/10.1101/029058 2015-11-21 Neuroscience Frequency-dependent representation of reinforcement-related information in the human medial and lateral prefrontal cortex Elliot Smith|Garrett Banks|Charles Mikell|Shaun Patel|Sydney Cash|Emad Eskandar|Sameer Sheth Columbia University Medical Center;|Massachusetts General Hospital
http://dx.doi.org/10.1101/032508 2015-11-21 Developmental Biology CC BY-NC-ND The relaxin receptor Lgr3 mediates growth coordination and developmental delay during Drosophila melanogaster imaginal disc regeneration Jacob S. Jaszczak|Jacob B. Wolpe|Rajan Bhandari|Rebecca G. Jaszczak|Adrian Halme Department of Cell Biology, University of Virginia School of Medicine, United States
http://dx.doi.org/10.1101/032482 2015-11-21 Evolutionary Biology CC BY-NC Population size and the length of the chromosome blocks identical by descent over generations Mathieu Tiret|Frederic Hospital Institut Nationale de Recherche Agronomique, France;|INRA, France
http://dx.doi.org/10.1101/032490 2015-11-21 Neuroscience CC BY-NC-ND Timing of locomotor recovery modulated by the white gene in Drosophila Chengfeng Xiao|R Meldrum Robertson Queen's University, Canada
http://dx.doi.org/10.1101/030148 2015-11-21 Evolutionary Biology CC BY The Strength of Selection Against Neanderthal Introgression Ivan Juric|Simon Aeschbacher|Graham Coop Center for Population Biology & Department of Evolution and Ecology, University of California, Davis
http://dx.doi.org/10.1101/032458 2015-11-20 Genomics CC BY-NC Shared genomic variants: identification of transmission routes using pathogen deep sequence data Colin J Worby|Marc Lipsitch|William P Hanage Harvard TH Chan School of Public Health;|Harvard TH CHan School of Public Health
http://dx.doi.org/10.1101/032425 2015-11-20 Zoology CC BY Phenotypes in insect biodiversity research Andrew R Deans|Istvan Miko Pennsylvania State University
http://dx.doi.org/10.1101/032441 2015-11-20 Genetics CC BY-ND High-density SNP array and genome sequencing reveal signatures of selection in a divergent selection rat model for aerobic running capacity Yu-yu Ren|Lauren G Koch|Steven L Britton|Nathan R Qi|Mary K Treutelaar|Charles F Burant|Jun Z Li University of Michigan;|University of Michigan Medical School
http://dx.doi.org/10.1101/032409 2015-11-20 Neuroscience CC BY Consistent estimation of complete neuronal connectivity in large neuronal populations using sparse "shotgun" neuronal activity sampling Yuriy Mishchenko Toros University
http://dx.doi.org/10.1101/032383 2015-11-20 Bioinformatics CC BY-NC-ND BRANE Cut: Biologically-Related A priori Network Enhancement with Graph cuts for Gene Regulatory Network Inference Aurelie Pirayre|Camille Couprie|Frederique Bidard|Laurent Duval|Jean-Christophe Pesquet IFP Energies nouvelles;|Facebook A.I.;|Université Paris-Est, LIGM, UMR CNRS 8049
http://dx.doi.org/10.1101/032359 2015-11-20 Systems Biology Role of stoichiometry and implicit negative feedback in sigma factor regulation Jatin Narula|Abhinav Tiwari|Oleg A. Igoshin Rice University
http://dx.doi.org/10.1101/031708 2015-11-20 Genomics CC BY-NC-ND Depletion of Abundant Sequences by Hybridization (DASH): Using Cas9 to remove unwanted high-abundance species in sequencing libraries and molecular counting applications Wei Gu|Emily D Crawford|Brian D O'Donovan|Michael R Wilson|Eric D Chow|Hanna Retallack|Joseph L DeRisi Departments of Pathology and Laboratory Medicine, University of California, San Francisco;|Department of Biochemistry and Biophysics, University of California, San Francisco;|Integrative Program in Quantitative Biology, University of California San Francisco;|Department of Neurology, University of California, San Francisco;|Center for Advanced Technology, Department of Biochemistry and Biophysics, University of California;|Medical Scientist Training Program, Biomedical Sciences Graduate Program, University of California
http://dx.doi.org/10.1101/032300 2015-11-20 Immunology Conjecture: Some auto-immune diseases are caused by the tissue, not a problem with the immune system Harlan S Robins Fred Hutchinson Cancer Research Center and Adaptive Biotechnologies
http://dx.doi.org/10.1101/032318 2015-11-20 Ecology Data on the frequency of non-reproductive adults in a cross-cultural sample of small-scale human societies Cody Ross|Paul Hooper|Monique Borgerhoff Mulder Santa Fe Institute;|Emory;|UC Davis
http://dx.doi.org/10.1101/017566 2015-11-19 Evolutionary Biology CC BY-NC-ND Testing for ancient selection using cross-population allele frequency differentiation Fernando Racimo University of California - Berkeley
http://dx.doi.org/10.1101/025569 2015-11-19 Ecology CC BY Multivariate State Hidden Markov Models for Mark-Recapture Data Devin S. Johnson|Jeffrey L. Laake|Sharon R. Melin|Robert L. DeLong NOAA National Marine Mammal Laboratory
http://dx.doi.org/10.1101/032243 2015-11-19 Developmental Biology DISC1 regulates astrogenesis in the embryonic brain via modulation of RAS/MEK/ERK signaling through RASSF7 Shukun Wang|Qingli Liang|Huimin Qiao|Hong Li|Tianjin Shen|Fen Ji|Jianwei Jiao Institute of Zoology; Institute of Biophysics;|Institute of Zoology, Chinese Academy of Sciences; University of Chinese Academy of Sciences;|Institute of Zoology
http://dx.doi.org/10.1101/032250 2015-11-19 Bioinformatics CC BY-NC From raw reads to trees: Whole genome SNP phylogenetics across the tree of life Sanaa Afroz Ahmed|Chien-Chi Lo|Po-E Li|Karen W Davenport|Patrick S.G. Chain Los Alamos National Laboratory
http://dx.doi.org/10.1101/032276 2015-11-19 Plant Biology CC BY In planta expression screens of candidate effector proteins from the wheat yellow rust fungus reveal processing bodies as a pathogen-targeted plant cell compartment Benjamin Petre|Diane GO Saunders|Jan Sklenar|Cecile Lorrain|Ksenia V Krasileva|Joe Win|Sebastien Duplessis|Sophien Kamoun The Sainsbury Laboratory;|The John Innes Centre/The Genome Analysis Centre;|INRA/Universite de Lorraine;|The Sainsbury Laboratory/The Genome Analysis Centre
http://dx.doi.org/10.1101/032144 2015-11-19 Bioinformatics CC BY Wikidata as a semantic framework for the Gene Wiki initiative Sebastian Burgstaller-Muehlbacher|Andra Waagmeester|Elvira Mitraka|Julia Turner|Tim E. Putman|Justin Leong|Paul Pavlidis|Lynn Schriml|Benjamin M. Good|Andrew I. Su The Scripps Research Institute;|micelio.be;|University of Maryland;|The University of British Columbia
http://dx.doi.org/10.1101/032128 2015-11-18 Plant Biology CC BY-NC-ND Temporal and spatial domain-specific transcriptomic analysis of a vital reproductive meristem in Arabidopsis thaliana Gonzalo H Villarino|Miguel Flores-Vergara|Qiwen Hu|Bhupinder Sehra|Linda Robles|Javier Brumos|Anna Stepanova|Silvia Manrique|Lucia Colombo|Eva Sundberg|Steffen Heber|Robert G Franks North Carolina State University, Department of Plant and Microbial Biology, Raleigh, NC, USA;|Universita degli Studi di Milano Dip. di BioScienze;|Swedish University of Agricultural Sciences, Uppsala, Sweden
http://dx.doi.org/10.1101/032136 2015-11-18 Genetics CC BY-NC-ND Multiple Conformations of Gal3 Protein Drive the Galactose Induced Allosteric Activation of the GAL Genetic Switch of Saccharomyces cerevisiae Rajesh Kumar Kar|Hungyo kharerin|Ranjith Padinhateeri|Jayadeva Bhat IIT Bombay, India;|Indian Institute of Technology, India
http://dx.doi.org/10.1101/032219 2015-11-18 Bioinformatics CC BY-NC-ND XMRF: An R package to Fit Markov Networks to High-Throughput Genetics Data Ying-Wooi Wan|Genevera I. Allen|Yulia Baker|Eunho Yang|Pradeep Ravikumar|Zhandong Liu Baylor College of Medicine;|Rice University;|IBM Watson;|UT Austin
http://dx.doi.org/10.1101/032151 2015-11-18 Microbiology CC BY EcOH: In silico serotyping of E. coli from short read data Danielle Ingle|Mary Valcanis|Alex Kuzevski|Marija Tauschek|Michael Inouye|Tim Stinear|Myron M Levine|Roy M Robins-Browne|Kathryn E. Holt University of Melbourne;|Microbiological Diagnostic Unit Public Health Laboratory;|Peter Doherty Institute for Infection and Immunity, The University of Melbourne;|School of BioSciences, The University of Melbourne, Victoria, Australia;|Center for Vaccine Development, University of Maryland School of Medicine, Baltimore, MD, USA;|Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne
http://dx.doi.org/10.1101/032201 2015-11-18 Biochemistry CC BY-NC-ND Actin activates Pseudomonas aeruginosa ExoY nucleotidyl cyclase toxin and ExoY-like effector domains from MARTX toxins Dorothee Raoux-Barbot|Cosmin Saveanu|Abdelkader Namane|Vasily Ogryzko|Lina Worpenberg|Souad Fellous|Elodie Assayag|Daniel Ladant|Louis Renault|Undine Mechold Insitut Pasteur Paris;|Institut Pasteur Paris;|Institut de Cancerologie Gustave- Roussy;|Institute for Integrative Biology of the Cell (I2BC)
http://dx.doi.org/10.1101/032060 2015-11-18 Genomics CC BY Thermal age, cytosine deamination and the veracity of 8,000 year old wheat DNA from sediments Logan Kistler|Oliver Smith|Roselyn Ware|Garry Momber|Richard Bates|Paul Garwood|Simon Fitch|Mark Pallen|Vincent Gaffney|Robin Allaby University of Warwick;|Maritime Archaeology Trust;|University of St Andrews;|University of Birmingham;|University of Bradford
http://dx.doi.org/10.1101/023457 2015-11-17 Genetics CC BY-NC EigenGWAS: finding loci under selection through genome-wide association studies of eigenvectors in structured populations Guo-Bo Chen|Sang Hong Lee|Zhi-Xiang Zhu|Beben Benyamin|Matthew R Robinson The University of Queensland;|The University of New England;|SPLUS Game
http://dx.doi.org/10.1101/032102 2015-11-17 Cancer Biology CC BY-NC-ND Integrating experimental data to calibrate quantitative cancer models Heiko Enderling H Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/031922 2015-11-17 Evolutionary Biology Spatial selection and local adaptation jointly shape life-history evolution during range expansion Katrien Van Petegem|Jeroen Boeye|Robby Stoks|Dries Bonte Ghent University;|University Leuven
http://dx.doi.org/10.1101/032045 2015-11-17 Genomics CC BY-NC MaGuS: a tool for map-guided scaffolding and quality assessment of genome assemblies Mohammed-Amin Madoui|Carole Dossat|Leo d'Agata|Edwin van der Vossen|Jan van Oeveren|Jean-Marc Aury CEA - Genoscope;|Keygene NV
http://dx.doi.org/10.1101/032086 2015-11-17 Systems Biology CC BY Vectorization techniques for efficient agent-based model simulations of tumor growth Jan Poleszczuk|Heiko Enderling Moffitt Cancer Center & Research Institute;|H Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/032037 2015-11-16 Bioinformatics CC BY Testing Rare-Variant Association without Calling Genotypes Allows for Systematic Differences in Sequencing between Cases and Controls Yi-Juan Hu|Peizhou Liao|Henry Richard Johnston|Andrew Allen|Glen Satten Department of Biostatistics and Bioinformatics, Emory University;|Department of Biostatistics and Bioinformatics, Duke University;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/031930 2015-11-16 Evolutionary Biology CC BY-ND The State of Software in Evolutionary Biology Diego Darriba|Tomas Flouri|Alexandros Stamatakis Heidelberg Institute for Theoretical Studies
http://dx.doi.org/10.1101/031476 2015-11-16 Ecology CC BY Species sorting along a subsidy gradient alters community stability Mario E Muscarella|Stuart E Jones|Jay T Lennon Indiana University;|University of Notre Dame
http://dx.doi.org/10.1101/031963 2015-11-16 Evolutionary Biology A statistical approach to genome size evolution: Observations and explanations Dirson Jian Li Xi'an Jiaotong University
http://dx.doi.org/10.1101/031906 2015-11-16 Bioinformatics Learning structure in gene expression data using deep architectures, with an application to gene clustering Aman Gupta|Haohan Wang|Madhavi Ganapathiraju Carnegie Mellon University;|University of Pittsburgh
http://dx.doi.org/10.1101/032003 2015-11-16 Genetics CC BY Effective QTL Discovery Incorporating Genomic Annotations Xiaoquan Wen University of Michigan
http://dx.doi.org/10.1101/031971 2015-11-16 Bioinformatics CC BY Wikidata: A platform for data integration and dissemination for the life sciences and beyond Elvira Mitraka|Andra Waagmeester|Sebastian Burgstaller-Muehlbacher|Lynn M Schriml|Andrew I Su|Benjamin M Good University of Maryland;|Micelio;|Scripps Research Institute
http://dx.doi.org/10.1101/031997 2015-11-16 Bioinformatics CC BY-NC-ND Mass graphs and their applications in top-down proteomics Qiang Kou|Si Wu|Nikola Tolic|Ljiljana Pasa-Tolic|Xiaowen Liu Indiana University-Purdue University Indianapolis;|University of Oklahoma;|Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/031898 2015-11-16 Genomics CC BY-NC-ND Direct estimate of the spontaneous mutation rate uncovers the effects of drift and recombination in the Chlamydomonas reinhardtii plastid genome Rob W Ness|Susanne A Kraemer|Nick Colegrave|Peter D Keightley University of Toronto Mississauga;|Institute of Evolutionary Biology, University of Edinburgh
http://dx.doi.org/10.1101/020545 2015-11-16 Genomics CC BY-NC-ND RNA:DNA hybrids in the human genome have distinctive nucleotide characteristics, chromatin composition, and transcriptional relationships Julie Nadel|Rodoniki Athanasiadou|Christophe Lemetre|Neil Ari Wijetunga|Pilib O Broin|Hanae Sato|Zhengdong Zhang|Jeffrey Jeddeloh|Cristina Montagna|Aaron Golden|Cathal Seoighe|John M. Greally Albert Einstein College of Medicine;|New York University;|Memorial Sloan-Kettering Cancer Center;|Roche-NimbleGen;|National University of Ireland, Galway
http://dx.doi.org/10.1101/031864 2015-11-16 Genomics CC BY-NC-ND Marker-based estimates reveal significant non-additive effects in clonally propagated cassava (Manihot esculenta): implications for the prediction of total genetic value and the selection of varieties Marnin Wolfe|Peter Kulakow|Ismail Y Rabbi|Jean-Luc Jannink Cornell University, United States;|International Institute of Tropical Agriculture (IITA), Nigeria
http://dx.doi.org/10.1101/031872 2015-11-16 Evolutionary Biology CC BY-NC-ND Strong Selection is Necessary for Evolution of Blindness in Cave Dwellers Rachel S Schwartz|Alexandra L. Merry|Megan M. Howell|Reed Cartwright Arizona State University
http://dx.doi.org/10.1101/031856 2015-11-15 Neuroscience CC BY-NC-ND A protein aggregation-dependent scaling-free synaptic facilitation rule for neural network simulations Michele Sanguanini|Antonino Cattaneo Scuola Normale Superiore
http://dx.doi.org/10.1101/031849 2015-11-15 Ecology CC BY-ND Ant and mite diversity drives toxin variation in the Little Devil poison frog Jenna R McGugan|Gary D Byrd|Alexandre B Roland|Stephanie N Caty|Nisha Kabir|Elicio E Tapia|Sunia A Trauger|Luis A Coloma|Lauren O'Connell Harvard University;|Cambridge Rindge and Latin High School;|Centro Jambatu;|IKIAM
http://dx.doi.org/10.1101/031831 2015-11-14 Genetics CC BY-ND Detecting Heterogeneity in Population Structure Across the Genome in Admixed Populations Caitlin McHugh|Timothy A Thornton|Lisa Brown University of Washington, United States
http://dx.doi.org/10.1101/031674 2015-11-14 Genetics CC BY A new model of human dispersal Trevor G Underwood Independent researcher
http://dx.doi.org/10.1101/031591 2015-11-14 Bioinformatics Towards extracting supporting information about predicted protein-protein interactions Adam Roth|Sandeep Subramanian|Madhavi Ganapathiraju University of Pittsburgh;|Carnegie Mellon University
http://dx.doi.org/10.1101/031773 2015-11-14 Zoology CC BY Biomechanics of shear-sensitive adhesion in climbing animals: peeling, pre-tension and sliding-induced changes in interface strength David Labonte|Walter Federle University of Cambridge
http://dx.doi.org/10.1101/031740 2015-11-14 Genomics CC BY-NC-ND Natural selection reduces linked neutral divergence between distantly related species Tanya Phung|Christian Huber|Kirk Lohmueller UCLA
http://dx.doi.org/10.1101/031658 2015-11-14 Bioinformatics CC BY DataJoint: managing big scientific data using MATLAB or Python Dimitri Yatsenko|Jacob Reimer|Alexander S Ecker|Edgar Y Walker|Fabian Sinz|Philipp Berens|Andreas Hoenselaar|Ronald James Cotton|Athanassios S. Siapas|Andreas S. Tolias Baylor College of Medicine;|Centre for Integrative Neuroscience;|Bernstein Center for Computational Neuroscience T\"{u}bingen;|California Institute of Technology
http://dx.doi.org/10.1101/031799 2015-11-14 Physiology CC BY Hyper-variability in Circulating Insulin Levels and Physiological Outcomes to High Fat Feeding in Male Ins1-/-:Ins2+/- Mice in a Specific Pathogen-free Facility Nicole M Templeman|Arya Mehran|James Johnson University of British Columbia
http://dx.doi.org/10.1101/031757 2015-11-14 Genomics CC BY-NC Population genetic analyses of metagenomes reveal extensive strain-level variation in prevalent human-associated bacteria Stephen Nayfach|Katherine S Pollard University of California San Francisco;|Gladstone Institutes
http://dx.doi.org/10.1101/031716 2015-11-14 Animal Behavior and Cognition CC BY-NC-ND Shared generative rules of locomotor behavior in arthropods and vertebrates Alex Gomez-Marin|Efrat Oron|Anna Gakamsky|Dan Valente|Yoav Benjamini|Ilan Golani Champalimaud Centre for the Unknown;|Tel Aviv University;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/031724 2015-11-14 Genomics CC BY-NC-ND A novel method to model read counts in genomic data to reduce false positive identification of heterozygotes Steven H Wu|Rachel S Schwartz|David J Winter|Don Conrad|Reed A Cartwright Biodesign Institute, Arizona State University;|The Biodesign Institute, Arizona State University, Tempe, AZ, USA;|Washington University in St. Louis, St. Louis, MO, USA
http://dx.doi.org/10.1101/031807 2015-11-14 Physiology CC BY Hyper-variability in Circulating Insulin and Physiological Outcomes in Male High Fat-fed Ins1-/-:Ins2+/- Mice in a Conventional Facility Arya Mehran|Nicole M Templeman|Xiaoke Hu|James Johnson University of British Columbia
http://dx.doi.org/10.1101/031641 2015-11-14 Genomics CC BY-NC-ND Health and population effects of rare gene knockouts in adult humans with related parents Vagheesh Narasimhan|Karen Hunt|Dan Mason|Christopher L Baker|Konrad Karczewski|Michael Barnes|Anthony Barnett|Chris Bates|Srikanth Bellary|Nick Bockett|Kristina Giorda|Chris Griffiths|Harry Hemingway|Zhilong Jia|Ann Kelly|Hajrah Khawaja|Monkol Lek|Shaun McCarthy|Rosie McEachan|Kenneth Paigen|Costas Parisinos|Eamonn Sheridan|Laura Southgate|Louise Tee|Mark Thomas|Yali Xue|Michael Schnall-Levin|Petko M Petkov|Chris Tyler-Smith|Eamonn Maher|Richard Trembath|Daniel MacArthur|John Wright|Richard Durbin|David van Heel Wellcome Trust Sanger Institute;|Queen Mary University of London;|Bradford Teaching Hospitals NHS Foundation Trust;|The Jackson Laboratory;|Broad Institute;|Heart of England NHS Foundation Trust and University of Birmingham;|TPP;|Aston University;|10XGenomics;|University College London;|University of Birmingham;|University of Cambridge;|Kings College London
http://dx.doi.org/10.1101/031815 2015-11-14 Genomics CC BY-ND pong: fast analysis and visualization of latent clusters in population genetic data Aaron A Behr|Katherine Z Liu|Gracie Liu-Fang|Priyanka Nakka|Sohini Ramachandran Brown University;|Wellesley College
http://dx.doi.org/10.1101/031732 2015-11-14 Genetics A short remark on Ontogenetic model and its analytical solution Ya Li|Ji Huan He National Engineering Laboratory for Modern Silk, College of Textile and Clothing Engineering
http://dx.doi.org/10.1101/031575 2015-11-13 Evolutionary Biology CC BY-NC-ND Whole genome sequencing of 56 Mimulus individuals illustrates population structure and local selection Joshua Robert Puzey|John H Willis|John K Kelly College of William and Mary;|Duke University;|University of Kansas
http://dx.doi.org/10.1101/031583 2015-11-13 Evolutionary Biology MAGELLAN: a tool to explore small fitness landscapes Sophie Brouillet|Harry Annoni|Luca Ferretti|Guillaume Achaz MNHN;|n/a;|Pirbright Institute;|Museum Nationnal d'Histoire Naturelle
http://dx.doi.org/10.1101/031625 2015-11-13 Genomics A spectral analysis approach to detect actively translated open reading frames in high-resolution ribosome profiling data Lorenzo Calviello|Neelanjan Mukherjee|Emanuel Wyler|Henrik Zauber|Antje Hirsekorn|Matthias Selbach|Markus Landthaler|Benedikt Obermayer|Uwe Ohler Berlin Institute for Medical Systems Biology, Max Delbrueck Center for Molecular Medicine
http://dx.doi.org/10.1101/031633 2015-11-13 Evolutionary Biology Isolation-by-Drift: Quantifying the Respective Contributions of Genetic Drift and Gene Flow in Shaping Spatial Patterns of Genetic Differentiation Jerome Prunier|Vincent Dubut|Lounes Chikhi|Simon Blanchet CNRS;|Universite de Marseille;|CNRS-Toulouse
http://dx.doi.org/10.1101/015560 2015-11-13 Genetics CC BY-NC-ND Calibrating the Human Mutation Rate via Ancestral Recombination Density in Diploid Genomes Mark Lipson|Po-Ru Loh|Sriram Sankararaman|Nick Patterson|Bonnie Berger|David Reich Harvard Medical School;|Harvard School of Public Health;|Broad Institute of MIT and Harvard;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/030437 2015-11-13 Bioinformatics CC BY-NC Evaluation of hybrid and non-hybrid methods for de novo assembly of nanopore reads Ivan Sovic|Kresimir Krizanovic|Karolj Skala|Mile Sikic Centre for Informatics and Computing, Rudjer Boskovic Institute;|University of Zagreb, Faculty of Electrical Engineering and Computing
http://dx.doi.org/10.1101/030296 2015-11-13 Plant Biology Reconstitution of CO2 regulation of SLAC1 anion channel and function of CO2-permeable PIP2;1 aquaporin as carbonic anhydrase 4 interactor Cun Wang|Honghong Hu|Xue Qin|Brian Zeise|Danyun Xu|Wouter-Jan Rappel|Walter F Boron|Julian I Schroeder University of California, San Diego;|Huazhong Agricultural University;|Case Western Reserve University
http://dx.doi.org/10.1101/015545 2015-11-13 Plant Biology CC BY-NC-ND ExoRNAi exposes contrasting roles for sugar exudation in host-finding by plant pathogens Neil D Warnock|Leonie Wilson|Juan V Canet-Perez|Thomas Fleming|Colin C Fleming|Aaron G Maule|Johnathan J Dalzell Queen's University Belfast;|Agri-Food and Biosciences Institute
http://dx.doi.org/10.1101/031351 2015-11-12 Evolutionary Biology CC BY Environmental unpredictability and inbreeding depression select for mixed dispersal syndromes Jorge Hidalgo|Rafael Rubio de Casas|Miguel A. Munoz University of Padua;|University of Granada
http://dx.doi.org/10.1101/031336 2015-11-12 Cell Biology Maternal expression of the novel centrosome assembly factor Wdr8 is required for vertebrate embryonic mitosis and development Daigo Inoue|Manuel Stemmer|Thomas Thumberger|Joachim Wittbrodt|Oliver J Gruss Centre for Organismal Studies, Heidelberg University;|Zentrum für Molekulare Biologie der Universität Heidelberg (ZMBH)
http://dx.doi.org/10.1101/031518 2015-11-12 Genomics CC BY-NC-ND Human knockouts in a cohort with a high rate of consanguinity Danesh Saleheen|Pradeep Natarajan|Wei Zhao|Asif Rasheed|Sumeet Khetarpal|Hong-Hee Won|Konrad J Karczewski|Anne H ODonnell-Luria|Kaitlin E Samocha|Namrata Gupta|Mozzam Zaidi|Maria Samuel|Atif Imran|Shahid Abbas|Faisal Majeed|Madiha Ishaq|Saba Akhtar|Kevin Trindade|Megan Mucksavage|Nadeem Qamar|Khan S Zaman|Zia Yaqoob|Tahir Saghir|Syed NH Rizvi|Anis Memon|Nadeem H Mallick|Mohammad Ishaq|Syed Z Rasheed|Fazal ur Rehman Memon|Khalid Mahmood|Naveeduddin Ahmed|Ron Do|Daniel G MacArthur|Stacey Gabriel|Eric S Lander|Mark J Daly|Philippe Frossard|John Danesh|Daniel J Rader|Sekar Kathiresan University of Pennsylvannia; Center for Non-Communicable Diseases, Pakistan;|Massachusetts General Hospital, Harvard Medical School, Broad Institute of Harvard & MIT;|University of Pennsylvannia;|Center for Non-Communicable Diseases, Pakistan;|Massachusetts General Hospital, Boston Children's Hospital, Broad Institute of Harvard & MIT;|Broad Institute of Harvard & MIT;|Faisalabad Institute of Cardiology, Pakistan;|National Institute of Cardiovascular Disorders, Pakistan;|Punjab Institute of Cardiology, Pakistan;|Karachi Institute of Heart Diseases, Pakistan;|Karachi Institute of Heart Diseases;|Red Crescent Institute of Cardiology, Pakistan;|The Civil Hospital, Pakistan;|Liaquat National Hospital, Pakistan;|Icahn School of Medicine at Mount Sinai;|University of Cambridge, Wellcome Trust Sanger Institute, UK
http://dx.doi.org/10.1101/031427 2015-11-12 Genomics CC BY-NC-ND Characterization of expression quantitative trait loci in extensively phenotyped pedigrees ascertained for bipolar disorder Christine Peterson|Susan Service|Anna Jasinska|Fuying Gao|Ivette Zelaya|Terri Teshiba|Carrie Bearden|Victor Reus|Gabriel Macaya|Carlos Lopez-Jaramillo|Marina Bogomolov|Yoav Benjamini|Eleazar Eskin|Giovanni Coppola|Nelson Freimer|Chiara Sabatti Stanford University;|University of California Los Angeles;|University of California San Francisco;|Universidad de Costa Rica;|Universidad de Antioquia;|Technion;|Tel Aviv University
http://dx.doi.org/10.1101/031500 2015-11-12 Bioinformatics CC BY-ND Are all global alignment algorithms and implementations correct? Tomas Flouri|Kassian Kobert|Torbjrn Rognes|Alexandros Stamatakis Heidelberg Institute for Theoretical Studies;|Department of Informatics, University of Oslo
http://dx.doi.org/10.1101/031443 2015-11-12 Microbiology Scan-o-matic: high-resolution microbial phenomics at a massive scale Martin Zackrisson|Johan Hallin|Lars-Goran Ottosson|Peter Dahl|Esteban Fernandez-Parada|Erik Landstrom|Luciano Fernandez-Ricaud|Petra Kaferle|Andreas Skyman|Stig Omholt|Uros Petrovic|Jonas Warringer|Anders Blomberg University of Gothenburg;|University of Nice;|Jozef Stefan Institute;|Chalmers University of Technology;|NTNU Norwegian University of Science and Technology
http://dx.doi.org/10.1101/031328 2015-11-12 Evolutionary Biology CC BY-NC-ND Surprisingly weak coordination between leaf structure and function among closely-related tomato species Christopher D Muir|Miquel Angel Conesa|Emilio Roldan|Arantzazu Molins|Jeroni Galmes University of British Columbia;|Universitat de les Illes Balears
http://dx.doi.org/10.1101/031286 2015-11-12 Genomics CC BY Centralizing content and distributing labor: a community model for curating the very long tail of microbial genomes. Tim Putman|Sebastian Burgstaller|Andra Waagmeester|Chunlei Wu|Andrew I Su|Benjamin Good The Scripps Research Institute;|Micelio
http://dx.doi.org/10.1101/031468 2015-11-12 Genomics CC BY-NC-ND An evaluation of transcriptome-based exon capture for frog phylogenomics across multiple scales of divergence (Class: Amphibia, Order: Anura) Daniel Portik|Lydia Smith|Ke Bi University of California, Berkeley
http://dx.doi.org/10.1101/031484 2015-11-12 Bioinformatics Rapid Genotype Refinement for Whole-Genome Sequencing Data using Multi-Variate Normal Distributions Rudy Arthur|Jared O'Connell|Ole Schulz-Trieglaff|Anthony J Cox Illumina Cambridge Ltd.
http://dx.doi.org/10.1101/031534 2015-11-12 Biophysics CC BY-NC-ND Overview: Modeling Heterogeneous Tumor Tissue as a Multiphase Material Hermann B Frieboes University of Louisville
http://dx.doi.org/10.1101/031542 2015-11-12 Synthetic Biology Connecting Boolean Integrase Logic gates to a novel alkane control signal via engineered level matching. Thomas Folliard|Jerome Bonnet|John Ward|Frank Baganz|Christopher Grant|Drew Endy University of Oxford;|Stanford University;|University College London;|Stanford
http://dx.doi.org/10.1101/002782 2015-11-12 Bioinformatics CC BY-ND Large-scale non-targeted metabolomic profiling in three human population-based studies Andrea Ganna|Tove Fall|Samira Salihovic|Woojoo Lee|Corey D Broeckling|Jitender Kumar|Sara Hagg|Markus Stenemo|Patrik K.E. Magnusson|Jessica Prenni|Lars Lind|Yudi Pawitan|Erik Ingelsson Karolinska Institutet;|Uppsala University;|Inha University;|Colorado State University
http://dx.doi.org/10.1101/023119 2015-11-12 Cell Biology CC BY-NC Incomplete proteasomal degradation of green fluorescent proteins in the context of tandem fluorescent protein timers Anton Khmelinskii|Matthias Meurer|Chi-Ting Ho|Birgit Besenbeck|Julia Fueller|Marius K Lemberg|Bernd Bukau|Axel Mogk|Michael Knop Heidelberg University
http://dx.doi.org/10.1101/031385 2015-11-11 Evolutionary Biology CC BY-NC Evolutionary analysis across mammals reveals distinct classes of long noncoding RNAs Jenny Chen|Alexander A. Shishkin|Xiaopeng Zhu|Sabah Kadri|Itay Maza|Jacob H Hanna|Aviv Regev|Manuel Garber MIT;|Broad Institute;|University of Massachusetts Medical School;|Weizmann Institute of Science;|Broad Institute, Howard Hughes Medical Institute, MIT
http://dx.doi.org/10.1101/031419 2015-11-11 Genetics CC BY-NC-ND A unified analytic framework for prioritization of non-coding variants of uncertain significance in heritable breast and ovarian cancer Eliseos J Mucaki|Natasha G Caminsky|Ami M Perri|Ruipeng Lu|Alain Laederach|Matthew Halvorsen|Joan H.M. Knoll|Peter K Rogan University of Western Ontario;|University of North Carolina;|Columbia University
http://dx.doi.org/10.1101/023747 2015-11-11 Immunology CC BY-NC Incomplete protection against dengue virus type 2 re-infection in Peru Brett M. Forshey|Robert C. Reiner|Sandra Olkowski|Amy C. Morrison|Angelica Espinoza|Kanya C. Long|Stalin Vilcarromero|Wilma Casanova|Helen J. Wearing|Eric S. Halsey|Tadeusz J. Kochel|Thomas W. Scott|Steven T. Stoddard U.S. Naval Medical Research Unit No. 6, Lima and Iquitos, Peru;|Indiana University School of Public Health, Bloomington, IN, USA;|Department of Entomology and Nematology, University of California, Davis;|Department of Entomology and Nematology, University of California, Davis, California, USA;|Department of Biology, Andrews University, Berrien Springs, Michigan, USA;|Direccion Regional de Salud Loreto, Iquitos, Peru;|University of New Mexico, Albuquerque, Albuquerque, New Mexico, USA
http://dx.doi.org/10.1101/031179 2015-11-11 Genomics CC BY-NC-ND Genome-wide association and prediction reveals the genetic architecture of cassava mosaic disease resistance and prospects for rapid genetic improvement Marnin Wolfe|Ismail Y Rabbi|Chiedozie Egesi|Martha Hamblin|Robert Kawuki|Peter Kulakow|Roberto Lozano|Dunia Pino Del Carpio|Punna Ramu|Jean-Luc Jannink Cornell University;|International Institute for Tropical Agriculture;|National Root Crops Research Institute;|National Crops Resources Research Institute;|Cornell University, USDA-ARS
http://dx.doi.org/10.1101/031260 2015-11-11 Biophysics Shape Transitions and Chiral Symmetry Breaking in the Energy Landscape of the Mitotic Chromosome Bin Zhang|Peter Wolynes Rice University
http://dx.doi.org/10.1101/031294 2015-11-11 Systems Biology CC BY-NC-ND Micro-Pharmacodynamics: Bridging In Vitro and In Vivo Experimental Scales in Testing Drug Efficacy and Resistance Katarzyna A Rejniak Moffitt Cancer Center
http://dx.doi.org/10.1101/031195 2015-11-11 Ecology CC BY-NC-ND Extending the Stress-Gradient hypothesis: increased local adaptation between teosinte and soil biota at the stressful end of a climate gradient Anna M O'Brien|Ruairidh J.H. Sawers|Jeffrey Ross-Ibarra|Sharon Y Strauss University of California Davis;|LANGEBIO, CINVESTAV - IPN
http://dx.doi.org/10.1101/031278 2015-11-11 Biophysics CC BY-NC-ND Modeling Small Non-canonical RNA Motifs with the Rosetta FARFAR Server Joseph David Yesselman|Rhiju Das Stanford University
http://dx.doi.org/10.1101/031302 2015-11-11 Genomics Progressive lengthening of 3′ untranslated regions of mRNAs by alternative cleavage and polyadenylation in cellular senescence of mouse embryonic fibroblasts Miao Han|Guo liang Lv|Hong bo Nie|Ting Shen|Yi chi Niu|Xue ping Li|Meng Chen|Xia Zheng|Wei Li|Chen Ding|Gang Wei|Jun Gu|Xiao Li Tian|Yu fang Zheng|Xin hua Liu|Jin feng Hu|Wei Tao|Ting Ni Fudan University;|Peking University;|Baylor College of Medicine
http://dx.doi.org/10.1101/031187 2015-11-10 Bioinformatics CC BY-ND MicrobiomeGWAS: a tool for identifying host genetic variants associated with microbiome composition Xing Hua|Lei Song|Guoqin Yu|James J. Goedert|Christian C. Abnet|Maria T. Landi|Jianxin Shi National Cancer Institute
http://dx.doi.org/10.1101/031120 2015-11-10 Genetics Shared genetic aetiology between cognitive functions and physical and mental health in UK Biobank (N = 112 151) and 24 GWAS consortia. Saskia P Hagenaars|Sarah E Harris|Gail Davies|William David Hill|David CM Liewald|Stuart J Ritchie|Riccardo E Marioni|Chloe Fawns-Ritchie|Breda Cullen|Rainer Malik|Bradford B Worrall|Cathie LM Sudlow|Joanna M Wardlaw|John Gallacher|Jill Pell|Andrew M McIntosh|Daniel J Smith|Catharine R Gale|Ian J Deary University of Edinburgh;|University of Glasgow;|Ludwig-Maximilians-Universitat;|University of Virginia;|University of Oxford
http://dx.doi.org/10.1101/031245 2015-11-10 Cancer Biology CC BY-NC-ND Modeling Transitions between Responsive and Resistant States in Breast Cancer with Application to Therapy Optimization Chun Chen|John J. Tyson|William Baumann Amgen;|Virginia Tech
http://dx.doi.org/10.1101/031252 2015-11-10 Cancer Biology CC BY-NC-ND Physics-based multiscale mass transport model in drug delivery and tumor microenvironment Arturas Ziemys|Milos Kojic|Mauro Ferrari Houston Methodist Research Institute
http://dx.doi.org/10.1101/031096 2015-11-10 Evolutionary Biology CC BY-NC-ND Homoeologue expression insights into the basis of growth heterosis at the intersection of ploidy and hybridity in Cyprinidae (Carassius auratus red var. × Cyprinus carpio) Li Ren|Wuhui Li|Chenchen Tang|Jun Xiao|Xiaojun Tan|Min Tao|Chun Zhang|Shaojun Liu Hunan Normal University, China
http://dx.doi.org/10.1101/031104 2015-11-10 Evolutionary Biology CC BY Collinearity Analysis of Allotetraploid Gossypium Tomentosum and Gossypium Darwinii Fang Liu|Zhong-li Zhou|Chun-ying Wang|Yu-hong Wang|Xiao-yan Cai|Xing-xing Wang|Kun-bo Wang|Zheng-sheng Zhang Southwest University, China, China;|Cotton Research Institute, CAAS, China
http://dx.doi.org/10.1101/031161 2015-11-10 Ecology CC BY-NC-ND Dead or gone? Bayesian inference on mortality for the dispersing sex Julia A Barthold|Craig Packer|Andrew J Loveridge|David W Macdonald|Fernando Colchero University of Southern Denmark;|University of Minnesota;|University of Oxford
http://dx.doi.org/10.1101/031146 2015-11-10 Neuroscience CC BY-NC-ND Faster processing of moving compared to flashed bars in awake macaque V1 provides a neural correlate of the flash lag illusion Manivannan Subramaniyan|Alexander S Ecker|Saumil S. Patel|James R. Cotton|Matthias Bethge|Philipp Berens|Andreas S. Tolias Baylor College of Medicine;|University of Tuebingen
http://dx.doi.org/10.1101/031138 2015-11-10 Genetics Pleiotropy between neuroticism and physical and mental health: findings from 108 038 men and women in UK Biobank Catharine Gale|Saskia P Hagenaars|Gail Davies|W David Hill|David CM Liewald|Breda Cullen|Jill Pell|Andrew M McIntosh|Daniel J Smith|Ian J Deary|Sarah Harris University of Edinburgh;|University of Glasgow
http://dx.doi.org/10.1101/030957 2015-11-10 Plant Biology CC BY-NC-ND Climate and developmental plasticity: interannual variability in grapevine leaf morphology Daniel H Chitwood|Susan M Rundell|Darren Y Li|Quaneisha L Woodford|Tommy T Yu|Jose R Lopez|Danny Greenblatt|Julie Kang|Jason P Londo Donald Danforth Plant Science Center;|Yale University;|Washington University in St. Louis;|Fort Valley State University;|Washington University in St. Louis, St. Louis;|Northern Iowa University;|United States Department of Agriculture, Agriculture Research Service, Grape Genetics Research Unit
http://dx.doi.org/10.1101/031070 2015-11-09 Cancer Biology Agent based models to investigate cooperation between cancer cells Joao Xavier|William Chang Memorial Sloan Kettering Cancer Center;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/030809 2015-11-09 Scientific Communication CC BY-NC-ND Evolving cohesion metrics of a research network on rare diseases: a longitudinal study over 14 years Carlos Benito Amat|Francois Perruchas Ingenio, UPV CSIC
http://dx.doi.org/10.1101/031047 2015-11-09 Bioinformatics Numerical simulation of population development using the function of the age distribution of birthrate Alexandr N Tetearing St. Petersburg State University
http://dx.doi.org/10.1101/018143 2015-11-09 Bioinformatics Fast principal components analysis reveals convergent evolution of ADH1B gene in Europe and East Asia Kevin J Galinsky|Gaurav Bhatia|Po-Ru Loh|Stoyan Georgiev|Sayan Mukherjee|Nick J Patterson|Alkes L Price Harvard T.H. Chan School of Public Health;|Google;|Duke University;|Broad Institute
http://dx.doi.org/10.1101/030718 2015-11-09 Biophysics On characterizing membrane protein clusters with model-free spatial correlation approaches Arun Shivanandan|Jayakrishnan Unnikrishnan|Aleksandra Radenovic Ecole Polytechnique Federal de Lausanne
http://dx.doi.org/10.1101/031062 2015-11-09 Evolutionary Biology On the importance of being structured: instantaneous coalescence rates and a re-evaluation of human evolution Olivier Mazet|Willy Rodriguez|Simona Grusea|Simon Boitard|Lounes Chikhi Université de Toulouse, INSA Toulouse;|Université de Toulouse, Institut de Mathématiques de Toulouse;|UMR7205 Institut de Systématique, Evolution et Biodiversité, Ecole Pratique des Hautes;|CNRS, Université Paul Sabatier, ENFA, UMR 5174 EDB
http://dx.doi.org/10.1101/031039 2015-11-09 Microbiology CC BY-NC-ND Identification of protein secretion systems in bacterial genomes Sophie S Abby|Jean Cury|Julien Guglielmini|Bertrand Neron|Marie Touchon|Eduardo PC Rocha Institut Pasteur
http://dx.doi.org/10.1101/030866 2015-11-09 Bioinformatics CC BY-NC-ND Automatic and accurate identification of integrons and cassette arrays in bacterial genomes reveals unexpected patterns Jean Cury|Thomas Jove|Marie Touchon|Bertrand Neron|Eduardo PC Rocha Institut Pasteur, CNRS;|INSERM;|C3BI, Institut Pasteur
http://dx.doi.org/10.1101/030981 2015-11-09 Genetics CC BY-NC-ND A multi-trait meta-analysis with imputed sequence variants reveals twelve QTL for mammary gland morphology in Fleckvieh cattle Hubert Pausch|Reiner Emmerling|Hermann Schwarzenbacher|Ruedi Fries Technische Universitaet Muenchen;|Bayerische Landesanstalt fuer Landwirtschaft;|ZuchtData GmbH
http://dx.doi.org/10.1101/031005 2015-11-09 Microbiology A computational model of inhibition of HIV-1 by interferon-alpha Edward P Browne|Benjamin Letham|Cynthia Rudin Broad Institute of Harvard and MIT;|Operations Research Center, Massachusetts Institute of Technology;|Sloan School of Management, Massachusetts Institute of Technology
http://dx.doi.org/10.1101/030973 2015-11-09 Evolutionary Biology Exploring phylogenomic relationships within Myriapoda: should high matrix occupancy be the goal? Rosa Fernandez|Gregory D Edgecombe|Gonzalo Giribet Harvard University;|The Natural History Museum
http://dx.doi.org/10.1101/030999 2015-11-09 Biophysics CC BY-ND Targeted mutations on 3D hub loci alter spatial interaction environment Bo Ding|Lina Zheng|David Medovoy|Wei Wang University of California, San Diego
http://dx.doi.org/10.1101/030940 2015-11-08 Genetics CC BY-NC An Approximate Markov Model for the Wright-Fisher Diffusion Anna Ferrer-Admetlla|Christoph Leuenberger|Jeffrey D Jensen|Daniel Wegmann University of Fribourg;|Ecole polytechnique fédérale de Lausanne
http://dx.doi.org/10.1101/030965 2015-11-08 Developmental Biology Assisted reproduction causes intrauterus growth restriction by disrupting placental lipid metabolism Yubao Wei|Shuqiang Chen|Xiuying Huang|Sin Man Lam|Guanghou Shui|Fangzhen Sun IGDB, CAS
http://dx.doi.org/10.1101/030908 2015-11-07 Systems Biology Dynamical Model of Drug Accumulation in Bacteria: Sensitivity Analysis and Experimentally Testable Predictions Neda Vesselinova|Boian S. Alexandrov|Michael E. Wall Los Alamos National Laboratory
http://dx.doi.org/10.1101/030874 2015-11-07 Evolutionary Biology CC BY-NC-ND Modularity and Morphometrics: Error Rates in Hypothesis Testing Guilherme Garcia|Felipe Bandoni de Oliveira|Gabriel Marroig Departamento de Genética e Biologia Evolutiva - IBUSP - São Paulo/Brasil
http://dx.doi.org/10.1101/030841 2015-11-07 Genetics CC BY-NC-ND Quantifying the unobserved protein-coding variants in human populations provides a roadmap for large-scale sequencing projects James Zou|Gregory Valiant|Paul Valiant|Konrad Karczewski|Siu On Chan|Kaitlin Samocha|Monkol Lek|Shamil Sunyaev|Mark Daly|Daniel MacArthur Microsoft Research;|Stanford University;|Brown University;|Broad Institute;|Chinese University of Hong Kong;|Harvard Medical School
http://dx.doi.org/10.1101/030528 2015-11-07 Microbiology CC BY-NC-ND Crop diversity enhances disease suppressive potential in soils Ariane L Peralta|Yanmei Sun|Jay T Lennon East Carolina University;|Indiana University
http://dx.doi.org/10.1101/029900 2015-11-07 Evolutionary Biology CC BY-ND Adaptation to heavy-metal contaminated environments proceeds via selection on pre-existing genetic variation Kevin M. Wright|Uffe Hellsten|Chenling Xu|Annie L. Jeong|Avinash Sreedasyam|Jarrod A. Chapman|Jeremy Schmutz|Graham Coop|Daniel S. Rokhsar|John H. Willis Harvard University;|Department of Energy, Joint Genome Institute;|University of California, Davis;|Duke University;|Hudson Alpha Institute for Biotechnology;|Department of Energy, Joint Genome Institutue;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/022962 2015-11-06 Neuroscience Nanoscale architecture of the axon initial segment reveals an organized and robust scaffold Christophe Leterrier|Jean Potier|Ghislaine Caillol|Claire Debarnot|Fanny Rueda Boroni|Benedicte Dargent Aix Marseille Université, CNRS, CRN2M UMR7286, 13344 cedex 15, Marseille, France
http://dx.doi.org/10.1101/030767 2015-11-06 Genomics CC BY-NC-ND Convergent patterns of sex chromosome dosage compensation between lepidopteran species (WZ/ZZ) and eutherian mammals (XX/XY): insights from a moth neo-Z chromosome Liuqi Gu|James Walters|Douglas Knipple Cornell University;|The University of Kansas
http://dx.doi.org/10.1101/030775 2015-11-06 Microbiology CC BY-ND Cannabis microbiome sequencing reveals several mycotoxic fungi native to dispensary grade cannabis flowers Kevin McKernan|Jessica Spangler|Lei Zhang|Vasisht Tadigotla|Yvonne Helbert|Theodore Foss|Douglas Smith Medicinal Genomics;|Courtagen Life Sciences
http://dx.doi.org/10.1101/030668 2015-11-06 Genomics CC BY Evolutionary history of the global emergence of the Escherichia coli epidemic clone ST131 Nicole Stoesser|Anna Sheppard|Louise Pankhurst|Nicola de Maio|Catrin E Moore|Robert Sebra|Paul Turner|Luke W Anson|Andrew Kasarskis|Elizabeth M Batty|Veronica Kos|Daniel J Wilson|Rattanaphone Phetsouvanh|David Wyllie|Evgeni Sokurenko|Amee R Manges|Timothy J Johnson|Lance B Price|Timothy E. A. Peto|James R Johnson|Xavier Didelot|Ann Sarah Walker|Derrick W Crook University of Oxford;|Icahn Institute and Department of Genetics and Genomic Sciences, Icahn School of Medicine;|Cambodia-Oxford Medical Research Unit;|luke.anson@ndm.ox.ac.uk;|Wellcome Trust Center for Human Genetics;|AstraZeneca;|Lao-Oxford-Mahosot Hospital Wellcome Trust Research Unit;|University of Washington;|University of British Columbia;|University of Minnesota;|Translational Genomics Research Institute (TGen) North;|Imperial College
http://dx.doi.org/10.1101/030858 2015-11-06 Evolutionary Biology CC BY-NC Adaptation to an invasive host is collapsing a native ecotype Meredith L Cenzer University of California, Davis
http://dx.doi.org/10.1101/030833 2015-11-06 Evolutionary Biology Reduced seed viability and reductions in plant size provide evidence for costs of glyphosate resistance in an agricultural weed Megan van Etten|Adam Kuester|Shu-Mei Chang|Regina Baucom University of Michigan;|University of Georgia
http://dx.doi.org/10.1101/030759 2015-11-06 Genetics Patterns of transcriptional response to 1,25-dihydroxyvitamin D3 and bacterial lipopolysaccharide in primary human monocytes Silvia N Kariuki|John D Blischak|Shigeki Nakagome|David B Witonsky|Anna Di Rienzo University of Chicago, United States
http://dx.doi.org/10.1101/030783 2015-11-06 Genomics CC BY-NC-ND Using genotype data to distinguish pleiotropy from heterogeneity: deciphering coheritability in autoimmune and neuropsychiatric diseases Buhm Han|Jennie G Pouget|Kamil Slowikowski|Eli Stahl|Cue Hyunkyu Lee|Dorothee Diogo|Xinli Hu|Yu Rang Park|Eunji Kim|Peter K Gregersen|Solbritt Rantapaa Dahqvist|Jane Worthington|Steve Eyre|Lars Klareskog|Tom Huizinga|Wei-Min Chen|Suna Onengut-Gumuscu|Stephen S Rich|Naomi Wray|Soumya Raychaudhuri Department of Convergence Medicine, University of Ulsan College of Medicine & Asan Institute for Li;|Campbell Family Mental Health Research Institute, Centre for Addiction and Mental Health, Toronto, C;|Divisions of Genetics and Rheumatology, Department of Medicine, Brigham and Women's Hospital and Har;|Department of Psychiatry, Mount Sinai School of Medicine, New York, USA;|Asan Institute for Life Sciences, Asan Medical Center, Seoul, Republic of Korea;|Divisions of Genetics and Rheumatology, Department of Medicine, Brigham and Women's Hospital and Ha;|Robert S. Boas Center for Genomics and Human Genetics, The Feinstein Institute for Medical Research,;|Department of Public Health and Clinical Medicine, Rheumatology, Umea University, Umea, Sweden;|University of Manchester, Manchester, UK;|Rheumatology Unit, Department of Medicine, Karolinska Institutet and Karolinska University Hospital;|Department of Rheumatology, Leiden University Medical Centre, Leiden, the Netherlands;|Center for Public Health Genomics, University of Virginia, Charlottesville, USA;|The University of Queensland, Queensland Brain Institute, Brisbane, Australia
http://dx.doi.org/10.1101/030742 2015-11-06 Genomics CC BY-NC-ND What's in my pot? Real-time species identification on the MinION Sissel Juul|Fernando Izquierdo|Adam Hurst|Xiaoguang Dai|Amber Wright|Eugene Kulesha|Roger Pettett|Daniel J Turner Oxford Nanopore Technologies Inc., New York, USA;|Metrichor Ltd., Oxford, UK;|Oxford Nanopore Technologies
http://dx.doi.org/10.1101/030791 2015-11-06 Systems Biology CC BY-NC-ND Simulating serial-target antibacterial drug synergies using flux balance analysis Andrew S Krueger|Christian Munck|Gautam Dantas|George M Church|James Galagan|Joseph Lehar|Morten OA Sommer Boston University;|Technical University of Denmark;|Washington University School of Medicine;|Department of Genetics Harvard Medical School;|Broad Institute
http://dx.doi.org/10.1101/030825 2015-11-06 Bioinformatics CC BY chopBAI: BAM index reduction solves I/O bottlenecks in the joint analysis of large sequencing cohorts Birte Kehr|Pall Melsted deCODE Genetics/Amgen;|University of Iceland
http://dx.doi.org/10.1101/027037 2015-11-06 Genomics CC BY-NC The UCSC Genome Browser database: 2016 update Matthew L. Speir|Ann S. Zweig|Kate R. Rosenbloom|Brian J. Raney|Benedict Paten|Parisa Nejad|Brian T. Lee|Katrina Learned|Donna Karolchik|Angie S. Hinrichs|Steve Heitner|Rachel A. Harte|Maximilian Haeussler|Luvina Guruvadoo|Pauline A. Fujita|Christopher Eisenhart|Mark Diekhans|Hiram Clawson|Jonathan Casper|Galt P. Barber|David Haussler|Robert M. Kuhn|W. James Kent University of California Santa Cruz;|Invitae;|University of California San Francisco
http://dx.doi.org/10.1101/030700 2015-11-05 Neuroscience Dynamical state of the network determines the efficacy of single neuron properties in shaping the network activity Ajith Sahasranamam|Ioannis Vlachos|Ad Aertsen|Arvind Kumar Albert Ludwigs University of Freiburg
http://dx.doi.org/10.1101/030692 2015-11-05 Genomics CC BY-ND The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data Sandeep J Joseph|Ben Li|Robert A Petit|Zhaohui Qin|Lyndsey Darrow|Timothy D Read Emory University School of Medicine;|Emory University School of Public Health
http://dx.doi.org/10.1101/030577 2015-11-05 Genetics CC BY Low-temperature-specific effects of PHYTOCHROME C on the circadian clock in Arabidopsis suggest that PHYC underlies natural variation in biological timing Kieron D Edwards|Francois Guerineau|Paul F Devlin|Andrew J Millar University of Edinburgh;|Université de Picardie Jules Verne;|Royal Holloway University of London
http://dx.doi.org/10.1101/030650 2015-11-05 Bioinformatics CC BY ADAGE analysis of publicly available gene expression data collections illuminates Pseudomonas aeruginosa-host interactions Jie Tan|John H Hammond|Deborah A Hogan|Casey S Greene Geisel School of Medicine at Dartmouth;|University of Pennsylvania
http://dx.doi.org/10.1101/030619 2015-11-04 Microbiology CC BY Common and phylogenetically widespread coding for peptides by bacterial small RNAs Robin C Friedman|Stefan Kalkhof|Olivia Doppelt-Azeroual|Stephan Mueller|Martina Chovancova|Martin von Bergen|Benno Schwikowski Institut Pasteur;|University of Applied Sciences and Arts of Coburg;|Helmholtz Centre for Environmental Research - UFZ
http://dx.doi.org/10.1101/023564 2015-11-04 Biochemistry CC BY-NC-ND Structural modeling of the flagellum MS ring protein FliF reveals similarities to the type III secretion system and sporulation complex Julien R. C. Bergeron University of British Columbia
http://dx.doi.org/10.1101/027318 2015-11-04 Genomics CC BY-NC Utilization of high throughput genome sequencing technology for large scale single nucleotide polymorphism discovery in red deer and Canadian elk Rudiger Brauning|Paul J Fisher|Alan F McCulloch|Russell J Smithies|James F Ward|Matthew J Bixley|Cindy T Lawley|Suzanne J Rowe|John C McEwan AgResearch;|Illumina
http://dx.doi.org/10.1101/030544 2015-11-04 Molecular Biology CC BY Sub-tomogram averaging in RELION Tanmay A.M. Bharat|Sjors H.W. Scheres MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/030593 2015-11-04 Bioinformatics CC BY Evaluating disease similarity using latent Dirichlet allocation James M Frick|Rajarshi Guha|Tyler Peryea|Noel T Southall National Center for Advancing Translational Sciences;|southalln@mail.nih.gov
http://dx.doi.org/10.1101/030585 2015-11-03 Plant Biology Whole genome duplication in coast redwood (Sequoia sempervirens) and its implications for explaining the rarity of polyploidy in conifers Alison Dawn Scott|Noah Stenz|David Baum University of Wisconsin, Madison
http://dx.doi.org/10.1101/030536 2015-11-03 Developmental Biology The zebrafish goosepimples/myosin Vb mutant exhibits cellular attributes of human microvillus inclusion disease Jaydeep Sidhaye|Clyde Pinto|Shweta Dharap|Tressa Jacob|Shobha Bhargava|Mahendra Sonawane Tata Institute of Fundamental Research;|Abasaheb Garware College;|Indian Institute of Science Education and Research;|University of Pune
http://dx.doi.org/10.1101/019265 2015-11-03 Bioinformatics CC BY-NC-ND GenOO: A Modern Perl Framework for High Throughput Sequencing analysis Manolis Maragkakis|Panagiotis Alexiou|Zissimos Mourelatos University of Pennsylvania
http://dx.doi.org/10.1101/030478 2015-11-03 Genetics CC BY-ND Various localized epigenetic marks predict expression across 54 samples and reveal underlying chromatin state enrichments Lalita Devadas|Angela Yen|Manolis Kellis Lexington High School;|MIT Computer Science and Artificial Intelligence Laboratory;|MIT
http://dx.doi.org/10.1101/030486 2015-11-03 Genomics CC BY-NC Resources for the comprehensive discovery of functional RNA elements Balaji Sundararaman|Lijun Zhan|Steven Blue|Rebecca Stanton|Keri Elkins|Sara Olson|Xintao Wei|Eric L Van Nostrand|Stephanie C Huelga|Brendan M Smalec|Xiaofeng Wang|Eurie L Hong|Jean M Davidson|Eric Lecuyer|Brenton R Graveley|Gene W Yeo Department of Cellular and Molecular Medicine, Institute for Genomic Medicine, Stem Cell Program, S;|Department of Genetics and Genome Sciences, Institute for Systems Genomics, UConn Health, Farmingto;|Institut de Recherches Cliniques de Montreal (IRCM), Montreal, Quebec, Canada;|Department of Genetics, Stanford University School of Medicine, Stanford CA;|UConn Health Center
http://dx.doi.org/10.1101/030494 2015-11-03 Genomics CC BY-NC-ND GBStools: A Unified Approach for Reduced Representation Sequencing and Genotyping Thomas F Cooke|Muh-Ching Yee|Marina Muzzio|Alexandra Sockell|Ryan Bell|Omar E Cornejo|Joanna L Kelley|Graciela Bailliet|Claudio M Bravi|Carlos D Bustamante|Eimear Kenny Stanford University;|Washington State University;|Instituto Multidisciplinario de Biologia Celular;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/030288 2015-11-03 Genetics Meta-analysis of 375,000 individuals identifies 38 susceptibility loci for migraine Padhraig Gormley|Verneri Anttila|Bendik S Winsvold|Priit Palta|Tonu Esko|Tune H Pers|Kai-How Farh|Ester Cuenca-Leon|Mikko Muona|Nicholas A Furlotte|Tobias Kurth|Andres Ingason|George McMahon|Lannie Ligthart|Gisela M Terwindt|Mikko Kallela|Tobias M Freilinger|Caroline Ran|Scott G Gordon|Anine H Stam|Stacy Steinberg|Guntram Borck|Markku Koiranen|Lydia Quaye|Hieab HH Adams|Terho Lehtimaki|Antti-Pekka Sarin|Juho Wedenoja|David A Hinds|Julie E Buring|Markus Schurks|Paul M Ridker|Maria Gudlaug Hrafnsdottir|Hreinn Stefansson|Susan M Ring|Jouke-Jan Hottenga|Brenda WJH Penninx|Markus Farkkila|Ville Artto|Mari Kaunisto|Salli Vepsalainen|Rainer Malik|Andrew C Heath|Pamela AF Madden|Nicholas G Martin|Grant W Montgomery|Eija Hamalainen|Hailiang Huang|Andrea E Byrnes|Lude Franke|Jie Huang|Evie Stergiakouli|Phil H Lee|Cynthia Sandor|Caleb Webber|Zameel Cader|Bertram Muller-Myhsok|Stefan Schreiber|Thomas Meitinger|Johan G Eriksson|Veikko Salomaa|Kauko Heikkila|Elizabeth Loehrer|Andre G Uitterlinden|Albert Hofman|Cornelia M van Duijn|Lynn Cherkas|Linda M Pedersen|Audun Stubhaug|Christopher S Nielsen|Minna Mannikko|Evelin Mihailov|Lili Milani|Hartmut Gobel|Ann-Louise Esserlind|Anne Francke Christensen|Thomas Folkmann Hansen|Thomas Werge|Jaakko Kaprio|Arpo J Aromaa|Olli Raitakari|M Arfan Ikram|Tim Spector|Marjo-Riitta Jarvelin|Andres Metspalu|Christian Kubisch|David P Strachan|Michel D Ferrari|Andrea C Belin|Martin Dichgans|Maija Wessman|Arn MJM van den Maagdenberg|John-Anker Zwart|Dorret I Boomsma|George Davey Smith|Kari Stefansson|Nicholas Eriksson|Mark J Daly|Benjamin M Neale|Jes Olesen|Daniel I Chasman|Dale R Nyholt|Aarno Palotie Broad Institute of MIT and Harvard;|Oslo University Hospital;|Institute for Molecular Medicine Finland (FIMM);|Estonian Genome Center, University of Tartu;|Boston Children's Hospital;|Massachusetts General Hospital;|23andMe, Inc.;|University of Bordeaux;|deCODE Genetics;|University of Bristol;|VU University Amsterdam;|Leiden University Medical Centre;|Helsinki University Central Hospital;|Ludwig-Maximilians-Universitat;|Karolinska Institutet;|QIMR Berghofer Medical Research Institute;|Ulm University;|University of Oulu;|King's College London;|Erasmus University Medical Center;|University of Tampere;|University of Helsinki;|Brigham and Women's Hospital;|University Duisburg Essen;|Landspitali University Hospital;|VU University Medical Centre;|Washington University School of Medicine;|University of Groningen;|Wellcome Trust Sanger Institute;|University of Oxford;|Max-Planck-Institute of Psychiatry;|Christian Albrechts University;|Helmholtz Center Munich;|National Institute for Health and Welfare;|Norwegian Institute of Public Health;|Kiel Pain and Headache Center;|Danish Headache Center;|University of Copenhagen;|National Institute of Health and Welfare;|University of Turku;|Imperial College London;|University Medical Center Hamburg Eppendorf;|University of London;|Queensland University of Technology
http://dx.doi.org/10.1101/030452 2015-11-03 Cell Biology CC BY The Prolylhydroxylase PHD2 Modulates Centromere Function through the Hydroxylation of CENP-N Sandra C Moser|Dalila Bensaddek|Brian Ortmann|Sonia Rocha|Angus I Lamond|Jason R Swedlow University of Dundee
http://dx.doi.org/10.1101/029223 2015-11-02 Evolutionary Biology Disruption of endosperm development is a major cause of hybrid seed inviability between Mimulus guttatus and M. nudatus Elen Oneal|John H. Willis|Robert Franks Duke University;|North Carolina State University
http://dx.doi.org/10.1101/024802 2015-11-02 Ecology CC BY An extensive comparison of species-abundance distribution models. Elita Baldridge|Xiao Xiao|Ethan P. White Independant researcher;|University of Maine;|University of Florida
http://dx.doi.org/10.1101/028134 2015-11-01 Bioinformatics CC BY-NC-ND in silico Whole Genome Sequencer & Analyzer (iWGS): a computational pipeline to guide the design and analysis of de novo genome sequencing studies Xiaofan Zhou|David Peris|Christopher Todd Hittinger|Antonis Rokas Vanderbilt University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/030403 2015-10-31 Bioinformatics repgenHMM: a dynamic programming tool to infer the rules of immune receptor generation from sequence data Yuval Elhanati|Quentin Marcou|Thierry Mora|Aleksandra M Walczak Ecole normale superieure
http://dx.doi.org/10.1101/030304 2015-10-31 Neuroscience CC BY-NC Balanced Oscillatory Coupling Improves Information Flow Erik J Peterson|Bradley Voytek U.C. San Diego
http://dx.doi.org/10.1101/030262 2015-10-30 Cancer Biology CC BY IMO-HIP 2015 Report: An Evolutionary Game Theory Approach to evolutionary-enlightened application of chemotherapy in bone metastatic prostate cancer Pranav Warman|Arturo Araujo|Conor Lynch|David Basanta H. Lee Moffitt Cancer Center
http://dx.doi.org/10.1101/008342 2015-10-30 Evolutionary Biology CC BY-NC-ND Heterogeneity of dN/dS ratios at the classical HLA class I genes over divergence time and across the allelic phylogeny Barbara D Domingues Bitarello|Rodrigo dos Santos Francisco|Diogo Meyer University of São Paulo
http://dx.doi.org/10.1101/030270 2015-10-30 Genomics CC BY-NC-ND Frequency and complexity of de novo structural mutation in autism William M Brandler|Danny Antaki|Madhusudan Gujral|Amina Noor|Gabriel Rosanio|Timothy R Chapman|Daniel J Barrera|Guan Ning Lin|Dheeraj Malhotra|Amanda C Watts|Lawrence C Wong|Jasper A Estabillo|Therese E Gadomski|Oanh Hong|Karin V Fuentes Fajardo|Abhishek Bhandari|Renius Owen|Michael Baughn|Jeffrey Yuan|Terry Solomon|Alexandra G Moyzis|Stephan J Sanders|Gail E Reiner|Keith K Vaux|Charles M Strom|Kang Zhang|Alysson R Muotri|Natacha Akshoomoff|Suzanne M Leal|Karen Pierce|Eric Courchesne|Lilia M Iakoucheva|Christina Corsello|Jonathan Sebat University of California, San Diego;|Rady Childrens Hospital;|Quest Diagnostics;|University of California, San Francisco;|Baylor College of Medicine
http://dx.doi.org/10.1101/030361 2015-10-30 Microbiology CC BY-ND Human Microbiota of the Argentine Population- A pilot study Belen Carbonetto|Monica Fabbro|Mariela Sciara|Analia Seravalle|Guadalupe Mejico|Santiago Revale|Soledad Romero|Bianca Brun|Marcelo Fay|Fabian Fay|Martin Vazquez indear;|CIBIC;|INDEAR
http://dx.doi.org/10.1101/030353 2015-10-30 Bioinformatics CC BY-NC-ND DBSIM: A Platform of Simulation Resources for Genetic Epidemiology Studies Po-Ju Yao|Ren-Hua Chung National Health Research Institutes
http://dx.doi.org/10.1101/030312 2015-10-30 Systems Biology CC BY SimpleSBML: A Python package for creating and editing SBML models Caroline Cannistra|Kyle Medley|Herbert Sauro University of Washington
http://dx.doi.org/10.1101/030346 2015-10-30 Evolutionary Biology Past and contemporary introgression between two strongly differentiated Ciona species as revealed by a post-genomic SNPs panel Sarah Bouchemousse|Cathy Haag-Liautard|Nicolas Bierne|Frederique Viard Sorbonne Universites, UPMC, CNRS, Station Biologique of Roscoff;|Universite Montpellier 2, CNRS-UM2-IRD, SMEL
http://dx.doi.org/10.1101/030338 2015-10-30 Genomics CC BY-ND Analysis of protein-coding genetic variation in 60,706 humans Monkol Lek|Konrad Karczewski|Eric Minikel|Kaitlin Samocha|Eric Banks|Timothy Fennell|Anne O'Donnell-Luria|James Ware|Andrew Hill|Beryl Cummings|Taru Tukiainen|Daniel Birnbaum|Jack Kosmicki|Laramie Duncan|Karol Estrada|Fengmei Zhao|James Zou|Emma Pierce-Hoffman|David Cooper|Mark DePristo|Ron Do|Jason Flannick|Menachem Fromer|Laura Gauthier|Jackie Goldstein|Namrata Gupta|Daniel Howrigan|Adam Kiezun|Mitja Kurki|Ami Levy Moonshine|Pradeep Natarajan|Lorena Orozco|Gina Peloso|Ryan Poplin|Manuel Rivas|Valentin Ruano-Rubio|Douglas Ruderfer|Khalid Shakir|Peter Stenson|Christine Stevens|Brett Thomas|Grace Tiao|Maria Tusie-Luna|Ben Weisburd|Hong-Hee Won|Dongmei Yu|David Altshuler|Diego Ardissino|Michael Boehnke|John Danesh|Elosua Roberto|Jose Florez|Stacey Gabriel|Gad Getz|Christina Hultman|Sekar Kathiresan|Markku Laakso|Steven McCarroll|Mark McCarthy|Dermot McGovern|Ruth McPherson|Benjamin Neale|Aarno Palotie|Shaun Purcell|Danish Saleheen|Jeremiah Scharf|Pamela Sklar|Sullivan Patrick|Jaakko Tuomilehto|Hugh Watkins|James Wilson|Mark Daly|Daniel MacArthur Massachusetts General Hospital;|Broad Institute of MIT and Harvard;|Cardiff University;|Icahn School of Medicine at Mount Sinai;|Instituto Nacional de Medicina Genomica;|Instituto Nacional de Ciencias Medicas y Nutricion;|University Hospital;|University of Michigan;|Strangeways Research Laboratory;|Hospital del Mar Medical Research Institute;|Karolinska Institute;|University of Eastern Finland and Kuopio University Hospital;|University of Oxford;|Cedars-Sinai Medical Center;|University of Ottawa Heart Institute;|University of Helsinki;|Perelman School of Medicine at the University of Pennsylvania;|University of North Carolina;|University of Mississippi Medical Center
http://dx.doi.org/10.1101/027904 2015-10-30 Bioinformatics CC BY PHYLUCE is a software package for the analysis of conserved genomic loci Brant C Faircloth Louisiana State University
http://dx.doi.org/10.1101/030247 2015-10-30 Genetics CC BY-NC-ND Sporadic, global linkage disequilibrium between unlinked segregating sites Daniel A Skelly|Paul M Magwene|Eric A Stone Duke University;|North Carolina State University
http://dx.doi.org/10.1101/025338 2015-10-29 Genomics CC BY Whole genome sequencing of field isolates reveals extensive genetic diversity in Plasmodium vivax from Colombia David J Winter|Maria A Pacheco|Andres Felipe A Vallejo|Rachel S. Schwartz|Myriam Arevalo-Herrera|Socrates Herrera|Reed Cartwright|Ananias Escalante Arizona State University;|Temple University;|Caucaseco Scientific Research Center, Cali, Colombia;|Temple Unversity
http://dx.doi.org/10.1101/030163 2015-10-29 Genomics CC BY-NC-ND Patching holes in the Chlamydomonas genome Frej Tulin|Frederick R. Cross Sainsbury Laboratory, University of Cambridge, United Kingdom;|Rockefeller University, United States
http://dx.doi.org/10.1101/030221 2015-10-29 Immunology CC BY-NC-ND High efficiency transfection of thymic epithelial cell lines and primary thymic epithelial cells by Nucleofection. Richard T O'Neil|Qiaozhi Wei|Brian G Condie Vanderbilt University;|New York University;|University of Georgia
http://dx.doi.org/10.1101/019976 2015-10-29 Plant Biology Expression of E. coli glycogen branching enzyme in an Arabidopsis mutant devoid of endogenous starch branching enzymes induces the synthesis of starch-like polyglucans Laura Boyer|Xavier Roussel|Adeline Courseaux|Ofilia Mvundza Ndjindji|Christine Lancelon-Pin|Jean-Luc Putaux|Ian Tetlow|Michael Emes|Bruno Pontoire|Christophe D'Hulst|Fabrice Wattebled Universite de Lille;|CNRS;|Universite Grenoble Alpes, CNRS CERMAV;|University of Guelph;|INRA;|universite de Lille
http://dx.doi.org/10.1101/030189 2015-10-29 Neuroscience Recovery of dynamics and function in spiking neural networks by closed-loop control Ioannis Vlachos|Taskin Deniz|Ad Aertsen|Arvind Kumar University of Freiburg;|KTH, Royal Institute of Technology
http://dx.doi.org/10.1101/030155 2015-10-29 Systems Biology Inferring extrinsic noise from single-cell gene expression data using Approximate Bayesian Computation. Oleg Lenive|Paul DW Kirk|Michael PH Stumpf ICR;|MRC Biostatistics Unit;|Imperial
http://dx.doi.org/10.1101/020735 2015-10-29 Bioinformatics CC BY Discrete Distributional Differential Expression (D3E) - A Tool for Gene Expression Analysis of Single-cell RNA-seq Data Mihails Delmans|Martin Hemberg University of Cambridge;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/028332 2015-10-28 Molecular Biology Augmentation of nonsense mediated decay by rapamycin Rocio Teresa Martinez-Nunez|Doyle Coyne|Linnea Jansson|Miles Rush|Hanane Ennajdaoui|Tilman Sanchez-Elsner|Jeremy Sanford Clinical and Experimental Sciences, Faculty of Medicine, University of Southampton;|University of California Santa Cruz
http://dx.doi.org/10.1101/030080 2015-10-28 Plant Biology CC BY-ND Genetic transformation of micropropagated shoots of Pinus radiata D.Don Jan E Grant|Pauline A Cooper|Tracy M Dale Plant & Food Research
http://dx.doi.org/10.1101/030056 2015-10-28 Evolutionary Biology CC BY-NC-ND Para-allopatry in hybridizing fire-bellied toads (Bombina bombina and B. variegata): inference from transcriptome-wide coalescence analyses Beate Nurnberger|Konrad Lohse|Anna Fijarczyk|Jacek M Szymura|Mark L Blaxter University of Edinburgh;|Jagiellonian University, Krakow;|Jagiellonian University
http://dx.doi.org/10.1101/030072 2015-10-28 Bioengineering CC BY-NC-ND An introduction to antibiotic-free techniques to eliminate Staphylococcus aureus from blood Angelo Gaitas|Gwangseong Kim Florida International University
http://dx.doi.org/10.1101/017830 2015-10-28 Bioinformatics CC BY-NC-ND An evaluation of the accuracy and speed of metagenome analysis tools Stinus Lindgreen|Karen L Adair|Paul Gardner University of Copenhagen;|University of Canterbury
http://dx.doi.org/10.1101/030007 2015-10-27 Pharmacology CC BY-NC-ND Evaluation of antimalarial properties from Azores deep-sea invertebrate extracts: a first contribution Silvia Patricia Pena Lino|Marta Machado|Dinora Lopes|Virgilio do Rosario|Ricardo S. Santos|Ana Colaco Marine and Environmental Sciences Centre, Universidade dos Acores;|CMDT LA, Institute of Hygiene and Tropical Medicine, UNL;|Institute of Hygiene and Tropical Medicine, UNL;|Departamento de Oceanografia e Pescas, Universidade dos Acores
http://dx.doi.org/10.1101/030049 2015-10-27 Genomics CC BY Prediction of Fine-tuned Promoter Activity from DNA Sequence Geoffrey H Siwo|Andrew Rider|Asako Tan|Richard S Pinapati|Scott Emrich|Nitesh Chawla|Michael T Ferdig IBM Research-Africa, Johannesburg, South Africa;|Postmates;|Epicenter;|University of Notre Dame
http://dx.doi.org/10.1101/029991 2015-10-27 Systems Biology CC BY-ND Health and disease imprinted in the time variability of the human microbiome Jose Manuel Marti|Daniel M Martinez|Manuel Pena|Cesar Gracia|Amparo Latorre|Andres Moya|Carlos P Garay IFIC;|FISABIO;|Universidad de Valencia
http://dx.doi.org/10.1101/030015 2015-10-27 Ecology CC BY-NC-ND Xylem traits and growth phenology predict growth and mortality response to defoliation in temperate forests Jane R Foster University of Minnesota
http://dx.doi.org/10.1101/028860 2015-10-27 Evolutionary Biology CC BY-NC Dietary Breadth is Positively Correlated with Venom Complexity in Cone Snails Mark A Phuong|Gusti N Mahardika|Michael E Alfaro University of California, Los Angeles;|Universitas Udaana
http://dx.doi.org/10.1101/030031 2015-10-27 Ecology CC BY Evidence for Increasingly Variable Drought Conditions in the United States Since 1895 Sierra Rayne|Kaya Forest Chemologica Research;|Saskatchewan Polytechnic
http://dx.doi.org/10.1101/029942 2015-10-27 Evolutionary Biology CC BY-NC-ND Elevation of linkage disequilibrium above neutral expectations in ancestral and derived populations of Drosophila melanogaster Nandita R. Garud|Dmitri A. Petrov Stanford University
http://dx.doi.org/10.1101/029975 2015-10-27 Genomics Conservation patterns’ analysis of 18,364 candidate human-specific regulatory sequences revealed two distinct pathways of the human regulatory DNA divergence Gennadi Glinsky University of California, San Diego
http://dx.doi.org/10.1101/029967 2015-10-27 Synthetic Biology CC BY-NC-ND A population-based temporal logic gate for timing and recording chemical events Victoria Hsiao|Yutaka Hori|Paul Rothemund|Richard Murray California Institute of Technology
http://dx.doi.org/10.1101/016469 2015-10-27 Genetics CC BY-NC-ND Efficient strategies for calculating blockwise likelihoods under the coalescent Konrad Lohse|Martin Chmelik|Simon Henry Martin|Nick H Barton University of Edinburgh;|Institute for Science and Technology Austria;|University of Cambridge;|IST Austria
http://dx.doi.org/10.1101/029736 2015-10-27 Evolutionary Biology|Genetics CC BY-ND SpectralTDF: transition densities of diffusion processes with time-varying selection parameters, mutation rates, and effective population sizes Matthias Steinrucken|Ethan M Jewett|Yun S Song UMass, Amherst;|UC, Berkeley
http://dx.doi.org/10.1101/029934 2015-10-26 Microbiology CC BY-ND Functional analysis of the archaea, bacteria, and viruses from a halite endolithic microbial community Alexander Crits-Christoph|Diego R Gelsinger|Bing Ma|Jacek Wierzchos|Jacques Ravel|Alfonso Davila|M. Cristina Casero|Jocelyne DiRuggiero Biology Department, The Johns Hopkins University;|The Johns Hopkins University;|Institute for Genome Sciences, University of Maryland School of Medicine;|Museo Nacional de Ciencias Naturales, MNCN - CSIC;|Carl Sagan Center, SETI Institute
http://dx.doi.org/10.1101/029918 2015-10-26 Evolutionary Biology CC BY-NC-ND Apoptosis in snowflake yeast: novel trait, or side effect of toxic waste? Jennifer Pentz|Bradford P Taylor|William C Ratcliff Georgia Institute of Technology
http://dx.doi.org/10.1101/029595 2015-10-26 Cancer Biology CC BY Spatial metrics of tumour vascular organisation predict radiation efficacy in a computational model Jacob G Scott|Alexander George Fletcher|Alexander RA Anderson|Philip K Maini Moffitt Cancer Center & Research Inst & Wolfson Centre for Mathematical Biol, Univ of Oxford;|University of Sheffield;|Department of Integrated Mathematical Oncology, Moffitt Cancer Center and Research Institute;|Wolfson Centre for Mathematical Biology, University of Oxford, Oxford, UK
http://dx.doi.org/10.1101/025577 2015-10-26 Genetics CC BY Mapping quantitative trait loci underlying function-valued traits using functional principal component analysis and multi-trait mapping Il-Youp Kwak|Candace R. Moore|Edgar P. Spalding|Karl W Broman University of Wisconsin-Madison
http://dx.doi.org/10.1101/026799 2015-10-26 Genomics RNA polymerase errors cause splicing defects and can be regulated by differential expression of RNA polymerase subunits Lucas B Carey Universitat Pompeu Fabra
http://dx.doi.org/10.1101/029868 2015-10-26 Genetics CC BY-NC Predicting quantitative traits from genome and phenome with near perfect accuracy Kaspar Martens|Johan Hallin|Jonas Warringer|Gianni Liti|Leopold Parts University of Tartu;|University of Nice;|University of Gothenburg;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/029843 2015-10-26 Bioinformatics CC BY-NC-ND Effect of lossy compression of quality scores on variant calling Idoia Ochoa|Mikel Hernaez|Rachel Goldfeder|Tsachy Weissman|Euan Ashley Stanford University
http://dx.doi.org/10.1101/029827 2015-10-26 Bioinformatics CC BY Fast genome and metagenome distance estimation using MinHash Brian D. Ondov|Todd J. Treangen|Adam B. Mallonee|Nicholas H. Bergman|Sergey Koren|Adam M. Phillippy National Biodefense Analysis and Countermeasures Center;|National Human Genome Research Institute, National Institutes of Health
http://dx.doi.org/10.1101/029876 2015-10-26 Neuroscience CC BY-NC-ND Deep neural networks: a new framework for modelling biological vision and brain information processing Nikolaus Kriegeskorte Medical Research Council
http://dx.doi.org/10.1101/017756 2015-10-26 Biophysics CC BY-NC-ND A Novel Mechanism for Color Vision: Pupil Shape and Chromatic Aberration Can Provide Spectral Discrimination for Color Blind Organisms. Alexander L Stubbs|Christopher W Stubbs University of California Berkeley;|Harvard
http://dx.doi.org/10.1101/029850 2015-10-26 Pathology CC BY-NC-ND Evaluation of p53 Immunohistochemical Expression Using Open-Source Software for Digital Image Analysis: A Tissue Microarray Study of Penile Squamous Cell Carcinomas Alcides Chaux|George J Netto|Authur L Burnett Norte University;|Johns Hopkins Medical Institutions
http://dx.doi.org/10.1101/029819 2015-10-26 Animal Behavior and Cognition CC BY-NC-ND Generalized Regressive Motion: a Visual Cue to Collision Krzysztof Chalupka|Michael Dickinson|Pietro Perona California Institute of Technology
http://dx.doi.org/10.1101/026575 2015-10-24 Ecology CC BY Changes in Forest Composition, Stem Density, and Biomass from the Settlement Era (1800s) to Present in the Upper Midwestern United States Simon Goring|David J Mladenoff|Charles V Cogbill|Sydne Record|Christopher J Paciorek|Stephen T Jackson|Michael Dietze|Andria Dawson|Jaclyn Matthes|Jason S McLachlan|John W Williams University of Wisconsin - Madison;|Independent;|Bryn Mawr College;|University of California - Berkeley;|Department of the Interior Southwest Climate Science Center, U.S. Geological Survey;|Boston University;|Dartmouth College;|Notre Dame University
http://dx.doi.org/10.1101/029777 2015-10-23 Ecology QPot: An R Package for Stochastic Differential Equation Quasi-Potential Analysis Christopher M. Moore|Christopher R. Stieha|Ben C. Nolting|Maria K. Cameron|Karen C. Abbott Case Western Reserve University;|The University of Maryland
http://dx.doi.org/10.1101/029694 2015-10-23 Bioinformatics CC BY AOP: An R Package For Sufficient Causal Analysis in Pathway-based Screening of Drugs and Chemicals for Adversity Lyle D Burgoon US Army Engineer Research and Development Center
http://dx.doi.org/10.1101/029751 2015-10-23 Neuroscience CC BY-NC-ND AN EXTENSION OF THE FRI FRAMEWORK FOR CALCIUM TRANSIENT DETECTION Stephanie Reynolds|Caroline S Copeland|Simon R Schultz|Pier Luigi Dragotti Imperial College London
http://dx.doi.org/10.1101/029686 2015-10-23 Genomics CC BY-ND Single molecule targeted sequencing for cancer gene mutation detection Yan Gao|Liwei Deng|Qin Yan|Yongqian Gao|Zengding Wu|Jinsen Cai|Daorui Ji|Gailing Li|Ping Wu|Huan Jin|Luyang Zhao|Song Liu|Michael W Deem|Jiankui He 1Direct Genomics Co., Ltd,Shenzhen, Guangdong, China;|1Direct Genomics Co., Ltd. Shenzhen, Guangdong, China;|2Institute of Advanced Materials, Ninjing Tech University, Nanjing, Jiangsu, China;|Chemistry Department, North Carolina State University, Raleigh, NC, USA;|Clinical Medical Research Center, the Second Clinical Medical College of Jinan University;|5Departments of Bioengineering and Physics & Astronomy, Rice University, Houston, TX, USA;|Department of Biology, South University of Science and Technology of China, Shenzhen, China
http://dx.doi.org/10.1101/029769 2015-10-23 Bioinformatics Robust Group Fused Lasso for Multisample CNV Detection under Uncertainty Hossein Sharifi Noghabi|Majid Mohammadi SCIIP;|Faculty of Technology, Policy and Management, Delft University of Technology, Netherlands
http://dx.doi.org/10.1101/029587 2015-10-23 Microbiology CC BY-NC Tuning microscale, retractable, membrane-breaking protein needles Jessica K Polka|Pamela A Silver Harvard Medical School
http://dx.doi.org/10.1101/019711 2015-10-23 Genomics CC BY-NC-ND Distance from Sub-Saharan Africa Predicts Mutational Load in Diverse Human Genomes Brenna M. Henn|Laura R Botigue|Stephan Peischl|Isabelle Dupanloup|Mikhail Lipatov|Brian K Maples|Alicia R Martin|Shaila Musharoff|Howard Cann|Michael Snyder|Laurent Excoffier|Jeffrey Kidd|Carlos D Bustamante Stony Brook University, SUNY, Department of Ecology and Evolution;|Institute of Ecology and Evolution, University of Berne, Berne, Switzerland;|Stanford University School of Medicine, Department of Genetics, Stanford,;|Foundation Jean Dausset, Centre d'Etude du Polymorphisme Humain, Paris, France;|University of Michigan
http://dx.doi.org/10.1101/029710 2015-10-22 Bioinformatics CC BY-NC-ND Flowr: Robust and efficient pipelines using a simple language-agnostic approach Sahil Seth|Samir Amin|Xingzhi Song|Xizeng Mao|Huandong Sun|Andrew Futreal|Jianhua Zhang MD Anderson Cancer Center
http://dx.doi.org/10.1101/029645 2015-10-22 Genetics CC BY SiteOut: an online tool to design binding site-free DNA sequences Javier Estrada|Teresa Ruiz-Herrero|Clarissa Scholes|Zeba Wunderlich|Angela DePace Harvard Medical School;|Harvard University;|University of California Irvine
http://dx.doi.org/10.1101/029702 2015-10-22 Genetics CC BY Inferring chimpanzee Y chromosome history and amplicon diversity from whole genome sequencing Matthew Oetjens|Feichen Shen|Zhengting Zou|Jeffrey Kidd University of Michigan
http://dx.doi.org/10.1101/027540 2015-10-22 Genomics CC BY Accelerating gene discovery by phenotyping whole-genome sequenced multi- mutation strains and using the sequence kernel association test (SKAT) Tiffany A Timbers|Stephanie J Garland|Swetha Mohan|Stephane Flibotte|Mark Edgley|Quintin Muncaster|Donald G Moerman|Michel R Leroux Simon Fraser University;|University of British Columbia
http://dx.doi.org/10.1101/029637 2015-10-22 Bioinformatics CC BY-NC-ND Combining Dependent P-values with an Empirical Adaptation of Brown's Method William Poole|David L. Gibbs|Ilya Shmulevich|Brady Bernard|Theo Knijnenburg Institute for Systems Biology, Seattle, WA, US
http://dx.doi.org/10.1101/015834 2015-10-22 Systems Biology CC BY-NC-ND Sensitivity analysis of Wnt β-catenin based transcription complex might bolster power-logarithmic psychophysical law and reveal preserved gene gene interactions Shriprakash Sinha
http://dx.doi.org/10.1101/027409 2015-10-22 Bioinformatics Rawcopy: Improved copy number analysis with Affymetrix arrays Markus Mayrhofer|Bjorn Viklund|Anders Isaksson Uppsala University
http://dx.doi.org/10.1101/027524 2015-10-22 Bioinformatics Design of the TRONCO BioConductor Package for TRanslational ONCOlogy Marco Antoniotti|Giulio Caravagna|Luca De Sano|Alex Graudenzi|Giancarlo Mauri|Bud Mishra|Daniele Ramazzotti University of Milan Bicocca, Milan, Italy;|New York University, New York, USA
http://dx.doi.org/10.1101/029546 2015-10-21 Evolutionary Biology CC BY Inferring the correlated fitness effects of nonsynonymous mutations at the same site using triallelic population genomics Aaron P Ragsdale|Alec J Coffman|PingHsun Hsieh|Travis J Struck|Ryan N Gutenkunst University of Arizona
http://dx.doi.org/10.1101/029603 2015-10-21 Neuroscience CC BY-ND Ramp coding with population averaging predicts human cortical face-space representations and perception Johan D Carlin|Nikolaus Kriegeskorte Medical Research Council
http://dx.doi.org/10.1101/029538 2015-10-21 Bioinformatics Robust and Stable Gene Selection via Maximum-Minimum Correntropy Criterion Majid Mohammadi|Hossein Sharifi Noghabi|Ghosheh Abed Hodtani|Habib Rajabi Mashhadi Department of Computer Engineering, Faculty of Engineering, Ferdowsi University of Mashhad, Mashhad;|Department of Electrical Engineering, Faculty of Engineering, Ferdowsi University of Mashhad, Mashh
http://dx.doi.org/10.1101/029520 2015-10-21 Genomics CC BY-NC-ND Efficient genome-wide sequencing and low coverage pedigree analysis from non-invasively collected samples Noah Snyder-Mackler|William H Majoros|Michael L Yuan|Amanda O Shaver|Jacob B Gordon|Gisela H Kopp|Stephen A Schlebusch|Jeffrey D Wall|Susan C Alberts|Sayan Mukherjee|Xiang Zhou|Jenny Tung Duke University;|German Primate Center;|University of Cape Town;|University of California San Francisco;|University of Michigan
http://dx.doi.org/10.1101/029553 2015-10-21 Bioinformatics CC BY A scalable permutation approach reveals replication and preservation patterns of gene coexpression modules Scott C Ritchie|Liam G Fearnley|Gad Abraham|Michael Inouye The University of Melbourne;|University of Melbourne
http://dx.doi.org/10.1101/024331 2015-10-20 Genetics Reduced Glucose Sensation Can Increase the Fitness of Saccharomyces cerevisiae Lacking Mitochondrial DNA Emel Akdogan|Mehmet Tardu|Gorkem Garipler|Gulkz Baytek|Ibrahim Halil Kavakl|Cory D. Dunn Koç University
http://dx.doi.org/10.1101/028688 2015-10-20 Genetics Association mapping of inflammatory bowel disease loci to single variant resolution Hailiang Huang|Ming Fang|Luke Jostins|Masa U Mirkov|Gabrielle Boucher|Carl A Anderson|Vibeke Andersen|Isabelle Cleynen|Adrian Cortes|Francois Crins|Mauro D'Amato|Valerie Deffontaine|Julia Dimitrieva|Elisa Docampo|Mahmoud Elansary|Kyle Kai-How Farh|Andre Franke|Ann-Stephan Gori|Philippe Goyette|Jonas Halfvarson|Talin Haritunians|Jo Knight|Ian C Lawrance|Charlie W Lees|Edouard Louis|Rob Mariman|Theo Meuwissen|Myriam Mni|Yukihide Momozawa|Miles Parkes|Sarah L Spain|Emilie Theatre|Gosia Trynka|Jack Satsangi|Suzanne van Sommeren|Severine Vermeire|Ramnik J Xavier|Rinse K Weersma|Richard H Duerr|Christopher G Mathew|John D Rioux|Dermot PB McGovern|Judy H Cho|Michel Georges|Mark J Daly|Jeffrey C Barrett Massachusetts General Hospital;|University of Liege;|University of Oxford;|Wellcome Trust Sanger Institute;|Montreal Heart Institute;|Viborg Regional Hospital;|Katholieke Universiteit;|Karolinska Institutet;|Christian-Albrechts-University of Kiel;|Orebro University;|Cedars-Sinai Medical Center;|Centre for Addiction and Mental Health;|Saint John of God Hospital;|Wester General Hospital University of Edinburgh;|Centre Hospitalier Universitaire;|Addenbrooke's Hospital;|King's College London;|University Medical Center Groningen;|University of Pittsburgh School of Medicine;|Yale School of Medicine
http://dx.doi.org/10.1101/029512 2015-10-20 Neuroscience CC BY-ND Optimal compensation for neuron death David Barrett|Sophie Deneve|Christian Machens Cambridge University;|Ecole Normale Superieure Paris;|Champalimaud Foundation
http://dx.doi.org/10.1101/029496 2015-10-20 Bioinformatics FASTmC: a suite of predictive models for non-reference-based estimations of DNA methylation Adam J Bewick|Brigitte T Hofmeister|Kevin J Lee|Xiaoyu Zhang|Dave W Hall|Robert J Schmitz University of Georgia
http://dx.doi.org/10.1101/029421 2015-10-20 Genetics CC BY-ND Reconstructing Genetic History of Siberian and Northeastern European Populations Emily H.M. Wong|Andrey Khrunin|Larissa Nichols|Dmitry Pushkarev|Denis Khokhrin|Dmitry Verbenko|Oleg Evgrafov|James Knowles|John Novembre|Svetlana Limborska|Anton Valouev University of Southern California, Keck School of Medicine;|Russian Academy of Sciences;|Illumina, Inc., Advanced Research Group, San Diego, CA, USA;|University of Southern California;|University of Chicago
http://dx.doi.org/10.1101/029488 2015-10-20 Genetics CC BY-NC-ND Aberrant gene expression in autism Jinting Guan|Ence Yang|Jizhou Yang|Gang Wang|Yong Zeng|Guoli Ji|James J Cai Xiamen University; Texas A&M University;|Texas A&M University; Peking University Health Science Center;|Texas A&M University;|Xiamen University
http://dx.doi.org/10.1101/029447 2015-10-19 Cell Biology CC BY Sticky-flares: real-time tracking of mRNAs... or of endosomes? David Mason|Raphael Levy University of Liverpool
http://dx.doi.org/10.1101/029462 2015-10-19 Animal Behavior and Cognition CC BY Hierarchical compression of C. elegans locomotion reveals phenotypic differences in the organisation of behaviour Alex Gomez-Marin|Greg J Stephens|Andre EX Brown Champalimaud Centre for the Unknown, Lisbon (PT);|Vrije Universiteit Amsterdam (NL);|Imperial College, London (GB)
http://dx.doi.org/10.1101/029454 2015-10-19 Developmental Biology CC BY-NC-ND Expansion of haematopoietic stem cells during development Ion Udroiu Universita Roma Tre
http://dx.doi.org/10.1101/029470 2015-10-19 Evolutionary Biology CC BY-NC-ND Modes of migration and multilevel selection in evolutionary multiplayer games Yuriy Pichugin|Chaitanya S. Gokhale|Julian Garcia|Arne Traulsen|Paul B. Rainey Max-Planck-Institute for Evolutionary Biology;|New Zealand Institute For Advanced Study, Massey University at Albany;|Monash University
http://dx.doi.org/10.1101/028001 2015-10-19 Genetics Genetic evidence that lower circulating FSH levels lengthen menstrual cycle, increase age at menopause, and impact reproductive health: a UK Biobank study Katherine S Ruth|Robin N Beaumont|Jessica Tyrrell|Samuel E Jones|Marcus A Tuke|Hanieh Yaghootkar|Andrew R Wood|Rachel M Freathy|Michael N Weedon|Timothy M Frayling|Anna Murray University of Exeter Medical School;|University of Exeter
http://dx.doi.org/10.1101/029439 2015-10-18 Evolutionary Biology Enhancement of larval immune system traits as a correlated response to selection for rapid development in Drosophila melanogaster Punyatirtha Dey|Kanika Mendiratta|Joy Bose|Amitabh Joshi Thermo Fisher Scientific, First Technology Place, 3EPIP, Whitefield, Bengaluru 560 066, India.;|Aditi Staffing, Aditi Staffing Pvt Ltd, C4,Elm Building, Wing A Manyata SEZ Business Park, Nagavara,;|Evolutionary Biology Laboratory, Evolutionary & Organismal Biology Unit, Jawaharlal Nehru Centre for
http://dx.doi.org/10.1101/029371 2015-10-18 Evolutionary Biology CC BY-NC-ND Gene tree discordance causes apparent substitution rate variation Fabio K. Mendes|Matthew W. Hahn Indiana University
http://dx.doi.org/10.1101/029397 2015-10-18 Evolutionary Biology CC BY Viruses are a dominant driver of protein adaptation in mammals David Enard|Le Cai|Carina Gwenapp|Dmitri A Petrov Stanford University
http://dx.doi.org/10.1101/029405 2015-10-18 Neuroscience Dynamic information routing in complex networks Christoph Kirst|Marc Timme|Demian Battaglia The Rockefeller University;|Max Plank Institute for Dynamics and Self-Organization, Goettingen, Germany;|Institute of Systems Neuroscience, Aix-Marseille University, France
http://dx.doi.org/10.1101/029314 2015-10-16 Neuroscience CC BY-NC-ND Visual features as stepping stones toward semantics: Explaining object similarity in IT and perception with non-negative least squares. Kamila M Jozwik|Nikolaus Kriegeskorte|Marieke Mur Medical Research Council Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/029355 2015-10-16 Biophysics Continuum mechanics modeling of Drosophila mesoderm invagination based on spherical harmonics accounts for long-range tissue remodeling Khaled Khairy|William Lemon|Fernando Amat|Philipp Keller Howard Hughes Medical Institute
http://dx.doi.org/10.1101/029306 2015-10-16 Genomics CC BY-NC-ND A practical guide to de novo genome assembly using long reads Mahul Chakraborty|James G. Baldwin-Brown|Anthony D. Long|J.J. Emerson University of California, Irvine
http://dx.doi.org/10.1101/029363 2015-10-16 Zoology Changes in the milk metabolome of the giant panda (Ailuropoda melanoleuca) with time after birth: Three phases in early lactation and progressive individual differences Tong Zhang|Rong Zhang|Liang Zhang|Zhihe Zhang|Rong Hou|Hairui Wang|Kati Loeffler|David G Watson|Malcolm W Kennedy University of Strathclyde;|Chengdu Research Base of Giant Panda Breeding;|International Fund for Animal Welfare;|University of Glasgow
http://dx.doi.org/10.1101/029348 2015-10-16 Neuroscience CC BY-ND Bivariate spatial point patterns in the retina: a reproducible review Stephen J Eglen University of Cambridge
http://dx.doi.org/10.1101/029041 2015-10-16 Bioinformatics CC BY-ND Robust Classification of Protein Variation Using Structural Modeling and Large-Scale Data Integration Evan H. Baugh|Riley Simmons-Edler|Christian L. Mueller|Rebecca F. Alford|Natalia Volfovsky|Alex E. Lash|Richard Bonneau New York University;|Simons Foundation;|Carnegie Mellon University;|New York University, Simons Foundation
http://dx.doi.org/10.1101/029322 2015-10-16 Zoology CC BY-ND Blood circulation in the tunicate Corella inflata (Corellidae). Michael W Konrad Science Is Art
http://dx.doi.org/10.1101/011064 2015-10-15 Bioinformatics CC BY-ND A pedagogical walkthrough of computational modeling and simulation of Wnt signaling pathway using static causal models in Matlab Shriprakash Sinha
http://dx.doi.org/10.1101/029165 2015-10-15 Ecology Individual-based Integral Projection Models: The role of size-structure on extinction risk and establishment success Sebastian Schreiber|Noam Ross University of California, Davis;|EcoHealth Alliance
http://dx.doi.org/10.1101/029173 2015-10-15 Evolutionary Biology The Great Migration and African-American genomic diversity Soheil Baharian|Maxime Barakatt|Christopher R Gignoux|Suyash Shringarpure|Jacob Errington|William J Blot|Carlos D Bustamante|Eimear E Kenny|Scott M Williams|Melinda C Aldrich|Simon Gravel McGill University;|Stanford Univesity;|International Epidemiology Institute;|Stanford University;|The Icahn School of Medicine at Mount Sinai;|Dartmouth College;|Vanderbilt University School of Medicine
http://dx.doi.org/10.1101/029199 2015-10-15 Genomics CC BY Major improvements to the Heliconius melpomene genome assembly used to confirm 10 chromosome fusion events in 6 million years of butterfly evolution John Davey|Mathieu Chouteau|Sarah L. Barker|Luana Maroja|Simon W. Baxter|Fraser Simpson|Mathieu Joron|James Mallet|Kanchon K. Dasmahapatra|Chris D. Jiggins University of Cambridge, United Kingdom;|Centre d???Ecologie Fonctionnelle et Evolutive, France;|Department of Zoology, University of Cambridge, United Kingdom;|Department of Biology, Williams College, United States;|School of Biological Sciences, University of Adelaide, Australia;|Department of Genetics, Evolution and Environment, University College London, United Kingdom;|Department of Organismic and Evolutionary Biology, Harvard University, France;|Department of Biology, University of York, United States
http://dx.doi.org/10.1101/029207 2015-10-15 Evolutionary Biology CC BY-NC-ND Dissecting the genetic basis of a complex cis-regulatory adaptation Santiago Naranjo|Justin Smith|Carlo Artieri|Mian Zhang|Yiqi Zhou|Michael Palmer|Hunter Fraser Stanford
http://dx.doi.org/10.1101/029249 2015-10-15 Evolutionary Biology Evolution of increased larval competitive ability in Drosophila melanogaster without increased larval feeding rate Manaswini Sarangi|Archana Nagarajan|Snigdhadip Dey|Joy Bose|Amitabh Joshi Jawaharlal Nehru Centre for Advanced Scientific Research;|University of Stavanger;|Ecole Normale Superieure, Paris
http://dx.doi.org/10.1101/029256 2015-10-15 Neuroscience CC BY-NC-ND An integrated homeostatic reinforcement learning theory of motivation explains the transition to cocaine addiction Mehdi Keramati|Audrey Durand|Paul Girardeau|Boris Gutkin|Serge Ahmed Gatsby Computational Neuroscience Unit, University College London, London, WC1N 3AR, UK;|Universite de Bordeaux, Institut des Maladies Neurodegeneratives, Rue Leo-Saignat, Bordeaux, France.;|Ecole Normale Superieure
http://dx.doi.org/10.1101/029082 2015-10-14 Evolutionary Biology CC BY-NC Sex and Ageing: The Role of Sexual Recombination in Longevity Phillip Robert Smith Applied evolution
http://dx.doi.org/10.1101/029124 2015-10-14 Neuroscience CC BY-NC-ND Spike Detection Using FRI Methods and Protein Calcium Sensors: Performance Analysis and Comparisons Stephanie Reynolds|Jon Onativia|Caroline S Copeland|Simon R Schultz|Pier Luigi Dragotti Imperial College London
http://dx.doi.org/10.1101/029009 2015-10-14 Systems Biology Feedback Control in Planarian Stem Cell Systems Marc Mangel|Michael B Bonsall|Aziz Aboobaker University of California Santa Cruz;|University of Oxford
http://dx.doi.org/10.1101/022806 2015-10-14 Cancer Biology|Cell Biology Cancer evolution simulation identifies possible principles underlying intratumor heterogeneity Atsushi Niida|Satoshi Ito|Georg Tremmel|Seiya Imoto|Ryutaro Uchi|Yusuke Takahashi|Koshi Mimori|Satoru Miyano Institute of Medical Science, University of Tokyo;|Kyushu University Beppu Hospital
http://dx.doi.org/10.1101/019562 2015-10-14 Genomics CC BY-NC-ND A flexible, efficient binomial mixed model for identifying differential DNA methylation in bisulfite sequencing data Amanda J Lea|Jenny Tung|Xiang Zhou Duke University;|University of Michigan
http://dx.doi.org/10.1101/029090 2015-10-14 Neuroscience CC BY-NC-ND Rapid three dimensional two photon neural population scanning Renaud Schuck|Peter Quicke|Caroline Copeland|Stefania Garasto|Luca A Annecchino|June Kyu Hwang|Simon Schultz Imperial College London
http://dx.doi.org/10.1101/029108 2015-10-14 Neuroscience CC BY-NC-ND Multi-Unit Activity contains information about spatial stimulus structure in mouse primary visual cortex Marie Tolkiehn|Simon Schultz Imperial College London
http://dx.doi.org/10.1101/029033 2015-10-14 Evolutionary Biology CC BY-NC-ND Gene Regulatory Evolution During Speciation in a Songbird Christopher N. Balakrishnan|John H. Davidson East Carolina University
http://dx.doi.org/10.1101/029017 2015-10-14 Genetics CC BY Estimating the respective contributions of human and viral genetic variation to HIV control Istvan Bartha|Paul J McLaren|Chanson Brumme|Richard Harrigan|Amalio Telenti|Jacques Fellay Ecole Polytechnique Federale de Lausanne;|University of Manitoba;|BC Centre for Excellence in HIV/AIDS, Vancouver, Canada;|J Craig Venter Institute
http://dx.doi.org/10.1101/029116 2015-10-14 Synthetic Biology CC BY-NC-ND A synthetic gene circuit for measuring autoregulatory feedback control. Miquel Angel Schikora-Tamarit|Carlos Toscano-Ochoa|Julia Domingo Espinos|Lorena Espinar|Lucas Carey Universitat Pompeu Fabra
http://dx.doi.org/10.1101/029066 2015-10-14 Systems Biology An Effective Model of HL-60 Differentiation Ryan Tasseff|Holly A Jensen|Johanna Congleton|Andrew Yen|Jeffrey D Varner Cornell University
http://dx.doi.org/10.1101/028977 2015-10-13 Microbiology CC BY-NC-ND CRISPR system acquisition and evolution of an obligate intracellular Chlamydia-related bacterium Claire Bertelli|Ousmane Cisse|Brigida Rusconi|Carole Kebbi-Beghdadi|Antony Croxatto|Alexander Goesmann|Francois Collyn|Gilbert Greub University Hospital Center and University of Lausanne;|Justus-Liebig-University Giessen
http://dx.doi.org/10.1101/028936 2015-10-13 Genomics Benchmarking inverse statistical approaches for protein structure and design with exactly solvable models Hugo Jacquin|Amy Gilson|Eugene Shakhnovich|Simona Cocco|Remi Monasson Laboratoire de Physique Statistique de l'Ecole Normale Superieure;|Department of Chemistry and Chemical Biology, Harvard University, 12 Oxford Street, Cambridge, MA 02;|Laboratoire de Physique Statistique de l 'Ecole Normale Superieure;|Laboratoire de Physique Teorique de l'Ecole Normale Superieure
http://dx.doi.org/10.1101/028969 2015-10-13 Evolutionary Biology Phylogenomic Reconstruction Supports Supercontinent Origins for Leishmania Kelly M Harkins|Rachel S Schwartz|Reed Cartwright|Anne Stone University of California Santa Cruz, Arizona State University;|Arizona State University
http://dx.doi.org/10.1101/028993 2015-10-13 Systems Biology Population heterogeneity in the epithelial to mesenchymal transition is controlled by NFAT and phosphorylated Sp1 Russell Gould|Anirikh Chakrabarti|Jeffrey Varner|Jonathan Butcher Cornell University
http://dx.doi.org/10.1101/028886 2015-10-13 Genomics Nucleotide excision repair is impaired by binding of transcription factors to DNA Radhakrishnan Sabarinathan|Loris Mularoni|Jordi Deu-Pons|Abel Gonzalez-Perez|Nuria Lopez-Bigas University Pompeu Fabra;|IMIM Hospital del Mar Medical Research Institute and Universitat Pompeu Fabra
http://dx.doi.org/10.1101/028985 2015-10-13 Cell Biology Loss of Dicer1 in mouse embryonic fibroblasts impairs ER stress-induced apoptosis Ananya Gupta|Danielle Read|Deepu Oommen|Afshin Samali|SANJEEV GUPTA National University of Ireland Galway, Ireland;|National university of ireland Galway
http://dx.doi.org/10.1101/025387 2015-10-13 Bioinformatics CC BY-NC-ND Differential transcript usage from RNA-seq data: isoform pre-filtering improves performance of count-based methods Charlotte Soneson|Katarina L Matthes|Malgorzata Nowicka|Charity W Law|Mark D Robinson Institute of Molecular Life Sciences, University of Zurich;|Division of Chronic Disease Epidemiology, Epidemiology, Biostatistics and Prevention Institute (EPBI;|Molecular Medicine Division, Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/028951 2015-10-13 Genetics Interaction between variants in CLU and MS4A4E modulates Alzheimer's disease risk Mark T. W. Ebbert|Kevin L. Boehme|Mark E. Wadsworth|Lyndsay A. Staley|Shubhabrata Mukherjee|Paul K. Crane|Perry G. Ridge|John S. K. Kauwe Brigham Young University;|University of Washington
http://dx.doi.org/10.1101/028894 2015-10-13 Ecology CC BY Declining relative humidity in the Thompson River Valley near Kamloops, British Columbia, Canada: 1990-2012 Sierra Rayne|Kaya Forest Chemologica Research;|Saskatchewan Polytechnic
http://dx.doi.org/10.1101/028902 2015-10-13 Bioinformatics CC BY-NC-ND Coevolutionary landscape inference and the context-dependence of mutations in beta-lactamase TEM-1 Matteo Figliuzzi|Herve Jacquier|Alexander Schug|Olivier Tenaillon|Martin Weigt Sorbonne Universités, UPMC, UMR 7238, Computational and Quantitative Biology, Paris, France;|INSERM, IAME, UMR 1137, Paris, France;|Steinbuch Centre for Computing, Karlsruhe Institute for Technologie, Eggenstein-Leopoldshafen
http://dx.doi.org/10.1101/022947 2015-10-12 Evolutionary Biology CC BY-NC-ND Purging of deleterious variants due to drift and founder effect in Italian populations with extended autozygosity Massimiliano Cocca|Marc Pybus|Pier Francesco Palamara|Erik Garrison|Michela Traglia|Cinzia F Sala|Sheila Ulivi|Yasin Memari|Anja Kolb-Kokocinski|Shane McCarthy|Richard Durbin|Paolo Gasparini|Daniela Toniolo|Nicole Soranzo|Vincenza Colonna University of Trieste;|Universitat Pompeu Fabra;|Harvard T. H. Chan School of Public Health;|Wellcome Trust Sanger Institite;|San Raffaele Scientific Institute;|Institute for Maternal and Child Health IRCCS Burlo Garofolo;|Wellcome Trust Sanger Institute;|National Research Council
http://dx.doi.org/10.1101/028555 2015-10-12 Genomics The interdependent nature of multi-loci associations can be revealed by 4C-Seq Tingting Jiang|Ramya Raviram|Pedro P Rocha|Valentina Snetkova|Charlotte Proudhon|Sana Badri|Richard Bonneau|Jane A Skok|Yuval Kluger Yale University School of Medicine;|New York University School of Medicine;|New York University
http://dx.doi.org/10.1101/011684 2015-10-11 Evolutionary Biology Adaptation to larval crowding in Drosophila ananassae and Drosophila nasuta nasuta: increased larval competitive ability without increased larval feeding rate Archana Nagarajan|Sharmila Bharathi Natarajan|Mohan Jayaram|Ananda Thammanna|Sudarshan Chari|Joy Bose|Shreyas V. Jois|Amitabh Joshi University of Stavanger;|University of Pennsylvania;|Indian Institute of Science;|Jubilant Biosys Ltd.;|Michigan State University;|University of Osnabrueck;|Department of Animal Physiology, Zoology Institute, Biocenter, Cologne 50674, Germany;|Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/028878 2015-10-11 Genomics CC BY-NC-ND Buffet-Style Expression Factor-Adjusted Discovery Increases the Yield of Robust Expression Quantitative Trait Loci Peter Castaldi|Maen Obeidat|Eitan Halper-Stromberg|Andrew Lamb|Robert Chase|Margaret Parker|Vincent Carey|Ruth Tal-Singer|Edwin Silverman|Peter Pare|Don Sin|Craig Hersh BWH/Harvard Medical School;|UBC;|University of Colorado;|BWH;|GSK
http://dx.doi.org/10.1101/028845 2015-10-11 Genomics CC BY-NC Integrated analysis of oral tongue squamous cell carcinoma identifies key variants and pathways linked to risk habits, HPV, clinical parameters and tumor recurrence Neeraja M Krishnan|Saurabh Gupta|Vinayak Palve|Linu Varghese|Swetansu Pattnaik|Prachi Jain|Costerwell Khyriem|Arun K Hariharan|Kunal Dhas|Jayalakshmi Nair|Manisha Pareek|Venkatesh K Prasad|Gangotri Siddappa|Amritha Suresh|Vikram D Kekatpure|Moni A Kuriakose|Binay Panda Ganit Labs, Bio-IT Centre, Institute of Bioinformatics and Applied Biotechnology;|Integrated Head and Neck Oncology Program, Mazumdar Shaw Centre for Translational Research;|Head and Neck Oncology, Mazumdar Shaw Medical Centre;|Ganit Labs, Bio-IT Centre, Institute of Bioinformatics and Applied Biotechnology and Strand Life Sci
http://dx.doi.org/10.1101/016477 2015-10-10 Genetics CC BY-NC-ND Eight thousand years of natural selection in Europe Iain Mathieson|Iosif Lazaridis|Nadin Rohland|Swapan Mallick|Nick Patterson|Songul Alpaslan Roodenberg|Eadaoin Harney|Kristin Stewardson|Daniel Fernandes|Mario Novak|Kendra Sirak|Cristina Gamba|Eppie R. Jones|Bastien Llamas|Stanislav Dryomov|Joseph Pickrell|Juan Luis Arsuaga|Jose Maria Bermudez de Castro|Eudald Carbonell|Fokke Gerritsen|Aleksandr Khokhlov|Pavel Kuznetsov|Marina Lozano|Harald Meller|Oleg Mochalov|Vayacheslav Moiseyev|Manuel A. Rojo Guerra|Jacob Roodenberg|Josep Maria Verges|Johannes Krause|Alan Cooper|Kurt W. Alt|Dorcas Brown|David Anthony|Carles Lalueza-Fox|Wolfgang Haak|Ron Pinhasi|David Reich Harvard Medical School, Department of Genetics, Boston MA, USA;|Broad Institute of MIT and Harvard, Cambridge Massachusetts 02142, USA;|Independent researcher, Santpoort-Noord, The Netherlands;|Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA;|School of Archaeology and Earth Institute, Belfield, University College Dublin, Dublin 4, Ireland;|Smurfit Institute of Genetics, Trinity College Dublin, Dublin 2, Ireland;|Australian Centre for Ancient DNA, University of Adelaide, Adelaide, South Australia 5005, Australia;|Siberian Branch of the Russian Academy of Sciences, Novosibirsk 630090, Russia;|New York Genome Center, New York NY, USA;|Centro Mixto UCM-ISCIII de Evolucion y Comportamiento Humanos, Madrid, Spain;|Centro Nacional de Investigacion sobre Evolucion Humana (CENIEH), 09002 Burgos, Spain;|Institut Catala de Paleoecologia Humana i Evolucio Social, 43007. Tarragona, Spain.;|Netherlands Institute in Turkey, Istiklal Caddesi, Nur-i Ziya Sokak 5, Beyoglu, Istanbul, Turkey;|Volga State Academy of Social Sciences and Humanities, Samara 443099, Russia;|Saxony-Anhalt and State Museum of Prehistory, D- 06114 Halle, Germany;|Peter the Great Museum of Anthropology and Ethnography (Kunstkamera) RAS,199034, Russia;|Department of Prehistory and Archaeology, University of Valladolid, Spain;|The Netherlands Institute for the Near East, Leiden, RA-2300, The Netherlands;|Max Planck Institute for the Science of Human History, D-07745 Jena, Germany;|Anthropology Department, Hartwick College, Oneonta, New York 13820, USA;|Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra), Barcelona, Spain
http://dx.doi.org/10.1101/028811 2015-10-09 Systems Biology CC BY-NC-ND Current systems biology approaches in hazard assessment of nanoparticles Friederike Ehrhart|Chris Evelo|Egon Willighagen 1Department of Bioinformatics - BiGCat, NUTRIM, Maastricht University
http://dx.doi.org/10.1101/028795 2015-10-09 Evolutionary Biology CC BY-NC-ND The evolutionary advantage of heritable phenotypic heterogeneity Oana Carja|Joshua B Plotkin University of Pennsylvania
http://dx.doi.org/10.1101/028761 2015-10-09 Bioinformatics Mat-aCGH: a Matlab toolbox for simultaneous multisample aCGH data analysis and visualization Majid Mohammadi|Hossein Sharifi Noghabi Faculty of Technology, Policy and Management, Delft University of Technology, Netherlands;|SCIIP
http://dx.doi.org/10.1101/028746 2015-10-09 Systems Biology CC BY-NC-ND Cell-cell interactions and evolution using evolutionary game theory David Basanta H. Lee Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/009951 2015-10-09 Bioinformatics CC BY HiFive: a tool suite for easy and efficient HiC and 5C data analysis Michael EG Sauria|Jennifer E Phillips-Cremins|Victor G Corces|James Taylor Johns Hopkins University;|University of Pennsylvania;|Emory University
http://dx.doi.org/10.1101/014217 2015-10-09 Evolutionary Biology CC BY-NC-ND Diversity of Mycobacterium tuberculosis across evolutionary scales Mary B O'Neill|Tatum D Mortimer|Caitlin S Pepperell University of Wisconsin - Madison
http://dx.doi.org/10.1101/028753 2015-10-09 Evolutionary Biology CC BY-NC-ND Trees, Population Structure, F-statistics! Benjamin M Peter University of Chicago
http://dx.doi.org/10.1101/028803 2015-10-09 Bioinformatics Distinct genomic and epigenomic features demarcate hypomethylated blocks in colon cancer Mahfuza Sharmin|Hector Corrada Bravo|Sridhar S. Hannenhalli University of Maryland, College Park
http://dx.doi.org/10.1101/022046 2015-10-09 Neuroscience CC BY-NC-ND A NEW METHOD TO DETECT EVENT-RELATED POTENTIALS BASED ON PEARSON'S CORRELATION Patrizio Tressoldi|William Giroldini|Luciano Pederzoli|Marco Bilucaglia|Simone Melloni Dipartimento di Psicologia Generale, Universita di Padova, Italy;|EvanLab, Firenze, Italy
http://dx.doi.org/10.1101/028787 2015-10-09 Bioinformatics Heterogeneity of Transcription Factor binding specificity models within and across cell lines Mahfuza Sharmin|Hector Corrada Bravo|Sridhar S. Hannenhalli University of Maryland, College Park
http://dx.doi.org/10.1101/021402 2015-10-09 Ecology CC BY Synthetic datasets and community tools for the rapid testing of ecological hypotheses Timothee Poisot|Dominique Gravel|Shawn Leroux|Spencer A Wood|Marie-Josee Fortin|Benjamin Baiser|Alyssa R Cirtwill|Miguel B Araujo|Daniel B Stouffer Universite de Montreal;|UQAR;|Memorial University;|Univeristy of Washington;|University of Toronto;|University of Florida;|University of Canterbury;|Museo Nacional de Ciencias Naturales
http://dx.doi.org/10.1101/023309 2015-10-09 Bioinformatics CC BY-NC-ND destiny – diffusion maps for large-scale single-cell data in R Philipp Angerer|Laleh Haghverdi|Maren Buttner|Fabian Theis|Carsten Marr|Florian Buettner Helmholtz-Zentrum München
http://dx.doi.org/10.1101/021683 2015-10-09 Evolutionary Biology Life history evolution in response to changes in metapopulation structure in an arthropod herbivore Annelies De Roissart|Nicky Wybouw|David Renault|Thomas Van Leeuwen|Dries Bonte Ghent University;|University of Amsterdam;|University of Rennes
http://dx.doi.org/10.1101/028738 2015-10-08 Evolutionary Biology CC BY Biogeographic dating of speciation times using paleogeographically informed processes Michael J Landis UC Berkeley
http://dx.doi.org/10.1101/028571 2015-10-08 Animal Behavior and Cognition CC BY Social context modulates idiosyncrasy of behaviour in the gregarious cockroach Blaberus discoidalis James Crall|Andre Souffrant|Dominic Akandwanaho|Sawyer Hescock|Sarah Callan|W Melissa Coronado|Maude Baldwin|Benjamin de Bivort Harvard University
http://dx.doi.org/10.1101/028654 2015-10-08 Plant Biology Single molecule sequencing of THCA synthase reveals copy number variation in modern drug-type Cannabis sativa L. Kevin J McKernan|Yvonne Helbert|Vasisht Tadigotla|Stephen McLaughlin|Jessica Spangler|Lei Zhang|Douglas Smith Courtagen Life Sciences
http://dx.doi.org/10.1101/019513 2015-10-08 Genetics CC BY-NC-ND Genetic interactions contribute less than additive effects to quantitative trait variation in yeast Joshua S Bloom|Iulia Kotenko|Meru J Sadhu|Sebastian Treusch|Frank W Albert|Leonid Kruglyak UCLA;|Princeton University;|Twist Bioscience
http://dx.doi.org/10.1101/014977 2015-10-08 Genomics CC BY-NC Discovery and characterization of Alu repeat sequences via precise local read assembly Julia H Wildschutte|Alayna A Baron|Nicolette M Diroff|Jeffrey M Kidd University of Michigan
http://dx.doi.org/10.1101/028597 2015-10-08 Ecology CC BY-NC-ND Insights into the phenology of migration and survival of a long migrant land bird Benedicte Madon|Eric Le Nuz|Cedric Ferlat|Yves Hingrat RENECO Wildlife Preservation
http://dx.doi.org/10.1101/028696 2015-10-08 Bioinformatics CC BY clonotypeR--high throughput analysis of T cell antigen receptor sequences Charles Plessy|Encarnita Mariotti-Ferrandiz|Ri-Ichiroh Manabe|Shohei Hori RIKEN Center for Life Science Technologies, Division of Genomics Technologies;|University Pierre et Marie Curie, UPMC/CNRS UMR7211 - INSERM U959, France;|RIKEN Center for Integrative Medical Sciences, Laboratory for Immune Homeostasis, Japan.
http://dx.doi.org/10.1101/028670 2015-10-08 Evolutionary Biology A segregating inversion generates fitness variation in a yellow monkeyflower (Mimulus guttatus) population John Kelly|John Willis|Young Wha Lee|Lila Fishman University of Kansas, United States;|Duke University, United States;|University of Montana, United States
http://dx.doi.org/10.1101/028662 2015-10-08 Ecology CC BY-NC-ND Within and among-population variation in vital rates and population dynamics in a variable environment Simone Vincenzi|Marc Mangel|Dusan Jesensek|John Carlos Garza|Alain J Crivelli University of California Santa Cruz;|Tolmin Angling Association;|Southwest Fisheries Science Center;|Station Biologique de la Tour du Valat
http://dx.doi.org/10.1101/028647 2015-10-08 Evolutionary Biology CC BY-NC Evaluating the performance of selection scans to detect selective sweeps in domestic dogs Florencia Schlamp|Julian van der Made|Rebecca Stambler|Lewis Chesebrough|Adam R Boyko|Philipp W Messer Cornell University
http://dx.doi.org/10.1101/026740 2015-10-08 Evolutionary Biology Genetic structure of the stingless bee Tetragonisca angustula Flavio O Francisco|Leandro R Santiago|Yuri M Mizusawa|Benjamin P Oldroyd|Maria C Arias University of Sao Paulo;|University of Sydney
http://dx.doi.org/10.1101/025833 2015-10-08 Systems Biology CC BY-NC Landscape structure and management alter the outcome of a pesticide ERA: evaluating impacts of endocrine disruption using the ALMaSS European Brown Hare model Chris J. Topping|Lars Dalby|Flemming Skov Aarhus University
http://dx.doi.org/10.1101/022483 2015-10-07 Microbiology CC BY-ND Unearthing the microbial ecology of soil carbon cycling with DNA-SIP Charles Pepe-Ranney|Ashley N Campbell|Chantal Koechli|Sean T Berthrong|Daniel H Buckley Cornell University;|Butler University
http://dx.doi.org/10.1101/028472 2015-10-07 Cell Biology Results of an attempt to reproduce the STAP phenomenon Shin Aizawa CDB, RIKEN Kobe
http://dx.doi.org/10.1101/021485 2015-10-07 Evolutionary Biology CC BY-NC-ND Variability in group size and the evolution of collective action Jorge Pena|Georg Noldeke Max Planck Institute for Evolutionary Biology;|Faculty of Business and Economics, University of Basel
http://dx.doi.org/10.1101/016949 2015-10-07 Microbiology CC BY-NC-ND Variation in rural African gut microbiota is strongly correlated with colonization by Entamoeba and subsistence Elise R Morton|Joshua Lynch|Alain Froment|Sophie Lafosse|Evelyne Heyer|Molly Przeworski|Ran Blekhman|Laure Segurel University of Minnesota;|CNRS-MNHN;|Columbia University
http://dx.doi.org/10.1101/028548 2015-10-06 Pharmacology CC BY-NC-ND Efficient Generation and Selection of Virtual Populations in Quantitative Systems Pharmacology Models Richard Allen|Theodore R Rieger|Cynthia J Musante Pfizer Inc;|Pfizer, Inc
http://dx.doi.org/10.1101/028464 2015-10-06 Bioinformatics CC BY-NC-ND Integrative tissue-specific functional annotations in the human genome provide novel insights on many complex traits and improve signal prioritization in genome wide association studies Qiongshi Lu|Ryan Lee Powles|Qian Wang|Beixin Julie He|Hongyu Zhao Yale University;|Yale Univeristy;|Yale School of Medicine
http://dx.doi.org/10.1101/028324 2015-10-06 Evolutionary Biology CC BY-NC-ND Mitochondrial introgression suggests extensive ancestral hybridization events among Saccharomyces species David Peris|Armando Arias|Sandi Orlic|Carmela Belloch|Laura Perez-Traves|Amparo Querol|Eladio Barrio Cavanilles Institute of Biodiversity and Evolution, University of Valencia;|Department of Food Biotechnology. Institute of Agrochemistry and Food Technology (IATA), CSIC
http://dx.doi.org/10.1101/028514 2015-10-06 Neuroscience CC BY-NC-ND Hemodynamic response function in resting brain: disambiguating neural events and autonomic effects Guorong Wu|Daniele Marinazzo Southwest University, Chongqing, China;|University of Ghent
http://dx.doi.org/10.1101/028456 2015-10-06 Bioinformatics CC BY 3D RNA from evolutionary couplings Caleb Weinreb|Torsten Gross|Chris Sander|Debora S Marks Department of Systems Biology, Harvard Medical School;|Universitatsmedizin Berlin Institut fur Pathologie;|Computational Biology Center, Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/028506 2015-10-06 Microbiology CC BY-NC-ND Time-kill curve analysis and pharmacodynamic functions for in vitro evaluation of antimicrobials against Neisseria gonorrhoeae Sunniva Foerster|Magnus Unemo|Lucy J Hathaway|Nicola Low|Christian L Althaus University of Bern;|Orebro University
http://dx.doi.org/10.1101/027359 2015-10-06 Bioinformatics Algorithmic Methods to Infer the Evolutionary Trajectories in Cancer Progression Giulio Caravagna|Alex Graudenzi|Daniele Ramazzotti|Rebeca Sanz-Pamplona|Luca De Sano|Giancarlo Mauri|Victor Moreno|Marco Antoniotti|Bud Mishra University of Milan Bicocca, Milan, Italy;|Catalan Institute of Oncology, IDIBELL, and CIBERESP, L'Hospitalet de Llobregat, Spain;|Courant Institute of Mathematical Sciences, New York University, USA
http://dx.doi.org/10.1101/026963 2015-10-06 Bioinformatics CC BY-NC Construction of the third generation Zea mays haplotype map Robert Bukowski|Xiaosen Guo|Yanli Lu|Cheng Zou|Bing He|Zhengqin Rong|Bo Wang|Dawen Xu|Bicheng Yang|Chuanxiao Xie|Longjiang Fan|Shibin Gao|Xun Xu|Gengyun Zhang|Yingrui Li|Yinping Jiao|John Doebley|Jeffrey Ross-Ibarra|Vince Buffalo|Edward S Buckler|Yunbi Xu|Jinsheng Lai|Doreen Ware|Qi Sun Institute of Biotechnology, Cornell University;|BGI-Shenzhen, Shenzhen 518083, China;|Maize Research Institute, Sichuan Agricultural University, Wenjiang 611130, Sichuan, China;|Institute of Crop Science, Chinese Academy of Agricultural Sciences/National Key Facilities for Cro;|Institute of Crop Science, Chinese Academy of Agricultural Sciences;|6Institute of Crop Science and Institute of Bioinformatics, Department of Agronomy, Zhejiang Univ.;|4Maize Research Institute, Sichuan Agricultural University, Wenjiang 611130, Sichuan, China;|Cold Spring Harbor Laboratory, Cold Spring Harbor, New York, USA;|Department of Genetics, University of Wisconsin, Madison, Wisconsin, USA;|Department of Plant Sciences, University of California, Davis, California, USA;|US Department of Agriculture-Agricultural Research Service, Ithaca, NY 14853;|13National Maize Improvement Center, China Agricultural University
http://dx.doi.org/10.1101/015180 2015-10-06 Systems Biology CC BY-NC-ND A minimalistic resource allocation model to explain ubiquitous increase in protein expression with growth rate Uri Barenholz|Leeat Keren|Eran Segal|Ron Milo Weizmann Institute of Science
http://dx.doi.org/10.1101/028142 2015-10-06 Bioinformatics CC BY Characterising Complex Enzyme Reaction Data Handan Melike Donertas|Sergio Martinez Cuesta|Syed Asad Rahman|Janet M. Thornton Department of Biological Sciences, Middle East Technical University, Ankara, Turkey.;|University of Cambridge;|EMBL-EBI
http://dx.doi.org/10.1101/028423 2015-10-05 Ecology CC BY Aquatic insects of a lowland rainforest in Papua New Guinea: assemblage structure in relation to habitat type Jan Klecka Institute of Entomology, Biology Centre of the Czech Academy of Sciences
http://dx.doi.org/10.1101/028415 2015-10-05 Cancer Biology CC BY-NC-ND Convergent architecture of the transcriptome of human cancer Lihua Zou Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/028449 2015-10-05 Bioinformatics CC BY Investigating the importance of anatomical homology for cross-species phenotype comparisons using semantic similarity. Prashanti Manda|Christopher Mungall|James Balhoff|Hilmar Lapp|Todd Vision University of North Carolina, Chapel Hill;|Lawrence Berkeley National Laboratory;|RTI International;|Duke University
http://dx.doi.org/10.1101/015404 2015-10-05 Developmental Biology CC BY FGF/MAPK signaling sets the switching threshold of a bistable circuit controlling cell fate decisions in ES cells Christian Schroter|Pau Rue|Jonathan P Mackenzie|Alfonso Martinez Arias University of Cambridge;|Univeristy of Cambridge
http://dx.doi.org/10.1101/028357 2015-10-05 Evolutionary Biology CC BY-NC-ND Evolving synergetic interactions Bin Wu|Jordi Arranz|Jinming Du|Da Zhou|Arne Traulsen Max-Planck Institute for Evolutionary Biology;|Peking University;|Xiamen University;|MPI Evolutionary Biology
http://dx.doi.org/10.1101/027896 2015-10-05 Neuroscience CC BY-NC-ND TRPA1 tunes mosquito thermotaxis to host temperatures Roman A Corfas|Leslie B Vosshall The Rockefeller University
http://dx.doi.org/10.1101/028340 2015-10-04 Genetics Skin transcriptome profiles associated with coat color in goat Yongdong Peng|Xiaohui Liu|Liying Geng|Chuansheng Zhang|Zhengzhu Liu|Yuanfang Gong|Hongqiang Li|Xianglong Li Hebei Normal University of Science and Technology, China;|Agricultural University of Hebei Province, China
http://dx.doi.org/10.1101/028274 2015-10-04 Ecology CC BY Recent Greater Sage Grouse (Centrocercus urophasianus) Population Dynamics in Wyoming Are Primarily Driven by Climate, not Oil and Gas Development Rob R. Ramey|Joseph L Thorley|Alexander S Ivey Wildlife Science International Inc.;|Poisson Consulting Ltd.;|Terra Cognito GIS Services Inc.
http://dx.doi.org/10.1101/028308 2015-10-04 Genomics CC BY-NC A genome-wide resource for the analysis of protein localisation in Drosophila Mihail Sarov|Chritiane Barz|Helena Jambor|Marco Y Hein|Christopher Schmied|Dana Suchold|Bettina Stender|Stephan Janosch|Vinay K.J. Vikas|R.T. Krisnan|K. Aishwarya|Irene R.S. Ferreira|Radoslaw K. Ejsmont|Katja Finkl|Susanne Hasse|Philipp Kaempfer|Nicole Plewka|Elisabeth Vinis|Siegfried Schloissnig|Elisabeth Knust|Volker Hartenstein|Matthias Mann|Mani Ramaswami|K. VijayRaghavan|Pavel Tomancak|Frank Schnorrer Max Planck Institute of Molecular Cell Biology and Genetics;|Max Planck Institute of Biochemistry,;|Max Planck Institute of Biochemistry;|National Centre for Biological Sciences, Tata Institute of Fundamental Research;|Heidelberg Institute of Theoretical Studies;|Department of Molecular Cell and Developmental Biology, University of California;|Institute of Neuroscience, Trinity College Dublin
http://dx.doi.org/10.1101/028290 2015-10-04 Genomics Nanopore sequencing detects structural variants in cancer Alexis L. Norris|Rachael E. Workman|Yunfan Fan|James R. Eshleman|Winston Timp Johns Hopkins University School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/028217 2015-10-04 Bioinformatics CC BY-NC-ND Resolving Complex Structural Genomic Rearrangements using a Randomized Approach Xuefang Zhao|Sarah B. Emery|Bridget Myers|Jeffrey M. Kidd|Ryan E. Mills University of Michigan
http://dx.doi.org/10.1101/028316 2015-10-03 Neuroscience CC BY-NC Inferred Model of the Prefrontal Cortex Activity Unveils Cell Assemblies and Memory Replay Gaia Tavoni|Ulisse Ferrari|Francesco Paolo Battaglia|Simona Cocco|Remi Monasson Laboratoires de Physique Statistique et Théorique, École Normale Supérieure;|Laboratoires de Physique Statistique et Théorique,École Normale Supérieure;|Donders Institute for Brain, Cognition and Behaviour, Radboud Universiteit, Nijmegen, The Netherland;|Laboratoire de Physique Statistique, École Normale Supérieure;|Laboratoire de Physique Théorique, École Normale Supérieure
http://dx.doi.org/10.1101/021592 2015-10-03 Bioinformatics CC BY-NC-ND Accurate, fast, and model-aware transcript expression quantification with Salmon Rob Patro|Geet Duggal|Carl Kingsford Stony Brook University;|Carnegie Mellon University
http://dx.doi.org/10.1101/028266 2015-10-03 Systems Biology CC BY-NC-ND A Dynamical Model for the Low Efficiency of Induced Pluripotent Stem Cell Reprogramming Hussein Abdallah|Domitilla Del Vecchio|Yili Qian Massachusetts Institute of Technology
http://dx.doi.org/10.1101/026559 2015-10-03 Systems Biology CC BY-NC-ND Decomposing variability in protein levels from noisy expression, genome duplication and partitioning errors during cell-divisions Mohammad Soltani|Cesar Augusto Vargas-Garcia|Duarte Antunes|Abhyudai Singh University of Delaware;|Eindhoven University of Technology
http://dx.doi.org/10.1101/028019 2015-10-03 Molecular Biology CC BY-NC-ND Stochastic Analysis Of An Incoherent Feedforward Genetic Motif Thierry Platini|Mohammad Soltani|Abhyudai Singh Coventry University;|University of Delaware
http://dx.doi.org/10.1101/028167 2015-10-03 Systems Biology CC BY-NC-ND Mechanisms of blood homeostasis: lineage tracking and a neutral model of cell populations in rhesus macaque Sidhartha Goyal|Sanggu Kim|Irvin S. Y. Chen|Tom Chou University of Toronto;|UCLA
http://dx.doi.org/10.1101/028183 2015-10-03 Physiology CC BY-NC-ND Two phases of aging separated by the Smurf transition as a public path to death Emilie Dambroise|Lea Monnier|Lu Ruisheng|Hugo Aguilaniu|Jean-Stephane Joly|Herve Tricoire|Michael Rera Institut IMAGINE;|ENS de Lyon UMR5262;|Neuro-PSI UMR 9197;|Universite Paris Diderot/Unite BFA UMR 8251
http://dx.doi.org/10.1101/028191 2015-10-03 Bioinformatics SinaPlot: an enhanced chart for simple and truthful representation of single observations over multiple classes Nikos Sidiropoulos|Sina Hadi Sohi|Nicolas Rapin|Frederik Otzen Bagger University of Copenhagen
http://dx.doi.org/10.1101/028225 2015-10-03 Bioinformatics CC BY QuicK-mer: A rapid paralog sensitive CNV detection pipeline Feichen Shen|Jeffrey Kidd University of Michigan
http://dx.doi.org/10.1101/028241 2015-10-03 Genetics CC BY-NC-ND Gene discovery for Mendelian conditions via social networking: de novo variants in KDM1A cause developmental delay and distinctive facial features Jessica Chong|Joon-Ho Yu|Peter Lorentzen|Karen Park|Seema M Jamal|Holly K Tabor|Anita Rauch|Margarita Sifuentes Saenz|Eugen Boltshauser|Karynne E Patterson|Deborah A Nickerson|Michael J Bamshad University of Washington;|Department of Political Science, University of California, Berkeley;|citizen scientist;|University of Washington, Seattle Children's Research Institute;|Institute for Medical Genetics, University of Zurich, Zurich, Switzerland;|Department of Pediatrics, University of Colorado, Aurora, CO 80045, USA
http://dx.doi.org/10.1101/027912 2015-10-02 Biophysics Molecular stripping in the NFκB/IκB/DNA genetic regulatory network Davit Potoyan|Weihua Zheng|Elizabeth Komives|Peter Wolynes Rice University;|University of California, San Diego
http://dx.doi.org/10.1101/028159 2015-10-02 Cancer Biology Comparing cancer cell lines and tumor samples by genomic profiles Rileen Sinha|Nikolaus Schultz|Chris Sander Icahn School of Medicine at Mount Sinai;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/028092 2015-10-02 Genetics CC BY-NC-ND Beyond Animals and Plants: Dynamic Maternal Effects in the Fungus Neurospora crassa Kolea C. K. Zimmerman|Daniel A Levitis|Anne Pringle Harvard University;|Bates College;|University of Wisconsin
http://dx.doi.org/10.1101/028175 2015-10-02 Evolutionary Biology CC BY-NC-ND Deep learning for population genetic inference Sara Sheehan|Yun S. Song Smith College;|University of California, Berkeley
http://dx.doi.org/10.1101/028076 2015-10-02 Neuroscience CC BY Complete firing-rate response of neurons with complex intrinsic dynamics Maximilian A Puelma Touzel|Fred Wolf Max Planck Institute for Dynamics and SelfOrganization (MPIDS), Goettingen, Germany
http://dx.doi.org/10.1101/028209 2015-10-02 Microbiology Habitat Fluctuations Drive Species Covariation in the Human Microbiota Charles K. Fisher|Thierry Mora|Aleksandra M. Walczak Ecole normale superieure
http://dx.doi.org/10.1101/023721 2015-10-02 Genetics Genome-Wide Scan for Adaptive Divergence and Association with Population-Specific Covariates mathieu gautier INRA (UMR CBGP)
http://dx.doi.org/10.1101/014415 2015-10-01 Evolutionary Biology CC BY-NC-ND Origins of cattle on Chirikof Island, Alaska elucidated from genome-wide SNP genotypes Jared E. Decker|Jeremy F. Taylor|Matthew A. Cronin|Leeson J. Alexander|Juha Kantanen|Ann Millbrooke|Robert D. Schnabel|Michael D. MacNeil University of Missouri;|University of Alaska Fairbanks;|USDA ARS;|University of Eastern Finland;|Embry-Riddle Aeronautical University;|Delta G
http://dx.doi.org/10.1101/028050 2015-10-01 Bioinformatics CC BY-NC-ND Indel variant analysis of short-read sequencing data with Scalpel Han Fang|Ewa A. Grabowska|Kanika Arora|Vladimir Vacic|Michael C. Zody|Ivan Iossifov|Jason A. ORawe|Yiyang Wu|Laura T Jimenez Barron|Julie Rosenbaum|Michael Ronemus|Yoon-ha Lee|Zihua Wang|Gholson J. Lyon|Michael Wigler|Michael C. Schatz|Giuseppe Narzisi Cold Spring Harbor Laboratory;|New York Genome Center
http://dx.doi.org/10.1101/028043 2015-10-01 Genetics CC BY-NC A glance at recombination hotspots in the domestic cat Hasan Alhaddad|Chi Zhang|Bruce Rannala|Leslie A Lyons Kuwait University, Kuwait;|Swedish Museum of Natural History, Sweden;|University of California Davis, United States;|University of Missouri - Columbia, College of Veterinary Medicine, United States
http://dx.doi.org/10.1101/027979 2015-10-01 Cancer Biology CC BY-NC-ND From concept to clinic: mathematically informed immunotherapy Rachel Walker|Heiko Enderling H Lee Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/028035 2015-10-01 Genomics CC BY A robust example of collider bias in a genetic association study Felix Day|Robert Scott|Ken Ong|John Perry University of Cambridge
http://dx.doi.org/10.1101/023770 2015-10-01 Biochemistry Structure and conformational states of the bovine mitochondrial ATP synthase by cryo-EM Anna Zhou|Alexis Rohou|Daniel G Schep|John V Bason|Martin G Montgomery|John E Walker|Nikolaus Grigorieff|John L Rubinstein The Hospital for Sick Children;|HHMI Janelia Research Campus;|MRC Mitochondrial Biology Unit;|The Hospital for SIck Children
http://dx.doi.org/10.1101/026401 2015-10-01 Bioengineering CC BY-NC-ND Growing neuronal islands on multi-electrode arrays using an Accurate Positioning-μCP device Robert Samhaber|Manuel Schottdorf|Ahmed El Hady|Kai Broeking|Andreas Daus|Christiane Thielemann|Walter Stuehmer|Fred Wolf MPI of Experimental Medicine;|MPI for Dynamics and Self-Organization;|University of Aschaffenburg
http://dx.doi.org/10.1101/027961 2015-10-01 Evolutionary Biology CC BY-NC-ND Detecting and quantifying changing selection intensities from time-sampled polymorphism data Hyunjin Shim|Stefan Laurent|Matthieu Foll|Jeffrey Jensen EPFL, Switzerland;|International Agency for Research on Cancer, Switzerland
http://dx.doi.org/10.1101/027946 2015-10-01 Neuroscience CC BY Neuronal actin dynamics, spine density and neuronal dendritic complexity are regulated by CAP2 Atul Kumar|Lars Paeger|Kosmas Kosmas|Peter Kloppenburg|Angelika Noegel|Vivek Peche Institute of Biochemistry I, Medical Faculty, University of Cologne;|Biocenter, Institute for Zoology, University of Cologne, Cologne;|Biochemistry-I, Medical Faculty, University of Cologne
http://dx.doi.org/10.1101/027870 2015-10-01 Bioinformatics Sphinx: modeling transcriptional heterogeneity in single-cell RNA-Seq Jinghua Gu|Qiumei Du|Xuan Wang|Pingjian Yu|Wei Lin Baylor Institute for Immunology Research
http://dx.doi.org/10.1101/027920 2015-10-01 Neuroscience DoOR 2.0 - Comprehensive Mapping of Drosophila melanogaster Odorant Responses Daniel Muench|C. Giovanni Galizia University of Konstanz
http://dx.doi.org/10.1101/027953 2015-09-30 Genomics Modular Combinatorial Binding among Human Trans-acting Factors Reveals Direct and Indirect Factor Binding Yuchun Guo|David K. Gifford Massachusetts Institute of Technology
http://dx.doi.org/10.1101/027854 2015-09-30 Microbiology Microbiome engineering could select for more virulent pathogens Luke McNally|Pedro F Vale|Sam P Brown University of Edinburgh;|Georgia Institute of Technology
http://dx.doi.org/10.1101/027995 2015-09-30 Evolutionary Biology CC BY-NC-ND Modelling the role of immunity in reversion of viral antigenic sites Carmen H. S. Chan|Lloyd P. Sanders|Mark M. Tanaka University of New South Wales;|ETH Zurich
http://dx.doi.org/10.1101/027839 2015-09-30 Ecology CC BY-NC-ND Automated discovery of relationships, models and principles in ecology Pedro Cardoso|Paulo AV Borges|Jose C Carvalho|Francois Rigal|Rosalina Gabriel|Jose Cascalho|Luis Correia Finnish Museum of Natural History - University of Helsinki;|University of the Azores;|University of Lisbon
http://dx.doi.org/10.1101/027805 2015-09-29 Molecular Biology CC BY Targeted reduction of highly abundant transcripts with pseudo-random primers Ophelie Arnaud|Sachi Kato|Stephane Poulain|Charles Plessy RIKEN Center for Life Science Technologies, Division of Genomics Technologies
http://dx.doi.org/10.1101/027797 2015-09-29 Genomics CC BY-ND Tying down loose ends in the Chlamydomonas genome Frederick R. Cross Rockefeller University, United States
http://dx.doi.org/10.1101/027813 2015-09-29 Evolutionary Biology Genetic structure of island and mainland populations of a Neotropical bumble bee species Flavio O Francisco|Leandro R Santiago|Yuri M Mizusawa|Benjamin P Oldroyd|Maria C Arias University of Sao Paulo;|University of Sydney
http://dx.doi.org/10.1101/027771 2015-09-29 Genetics CC BY-ND Genetic risk for autism spectrum disorders and neuropsychiatric variation in the general population Elise B Robinson|Beate St Pourcain|Verneri Anttila|Jack Kosmicki|Brendan Bulik-Sullivan|Jakob Grove|Julian Maller|Kaitlin E Samocha|Stephan Sanders|Stephan Ripke|Joanna Martin|Mads V Hollegaard|Thomas Werge|David M Hougaard|Benjamin M Neale|David Evans|David Skuse|Preben Bo Mortensen|Anders Borglum|Angelica Ronald|George Davey Smith|Mark J Daly Massachusetts General Hospital;|Max Planck Institute for Psycholinguistics;|Harvard Medical School;|Broad Institute;|University of Aarhus;|University of California, San Francisco;|Statens Serum Institut;|The Lundbeck Foundation Initiative for Integrative Psychiatric Research;|University of Bristol;|Institute of Child Health;|Birkbeck, University of London
http://dx.doi.org/10.1101/027821 2015-09-29 Ecology CC BY-NC-ND COMADRE: a global database of animal demography Roberto Salguero Gomez|Owen Jones|Ruth Archer|Christoph Bein|Hendrink de Burh|Claudia Farack|Fraence Gottschalk|Alexander Hartmann|Anne Henning|Gabriel Hoppe|Gesa Roemer|Tara Ruoff|Veronika Sommer|Julia Wille|Jakob Voigt|Stefan Zeh|Dirk Vieregg|Yvonne Buckley|Judy Che-Castaldo|David Hodgson|Alexander Scheuerlein|Hal Caswell|James Vaupel University of Queensland;|University of Southern Denmark;|Max Planck Institute for Demographic Research;|University of Maryland;|Trinity College Dublin;|SESYNC;|Exeter University;|University of Amsterdam
http://dx.doi.org/10.1101/027722 2015-09-28 Evolutionary Biology CC BY On the causes of evolutionary transition:transversion bias Arlin Stoltzfus|Ryan W. Norris IBBR; NIST;|Department of Evolution, Ecology and Organismal Biology, The Ohio State University, Lima, OH 45804
http://dx.doi.org/10.1101/027763 2015-09-28 Genomics CC BY-NC-ND Fractality and Entropic Scaling in the Chromosomal Distribution of Conserved Noncoding Elements in the Human Genome Dimitris Polychronopoulos|Labrini Athanasopoulou|Yannis Almirantis NCSR "Demokritos";|Jozef Stefan Institute
http://dx.doi.org/10.1101/027730 2015-09-28 Cell Biology CC BY-NC-ND Investigation of the cellular reprogramming phenomenon referred to as stimulus-triggered acquisition of pluripotency (STAP) Hitoshi Niwa RIKEN Center for Developmental Biology (CDB)
http://dx.doi.org/10.1101/027243 2015-09-28 Biochemistry Mechanism-based sirtuin enzyme activation Xiangying Guan|Alok Upadhyay|Raj Chakrabarti Division of Fundamental Research, PMC Advanced Technology
http://dx.doi.org/10.1101/027623 2015-09-28 Microbiology Study of Antimicrobial Activity of Ethnomedically Important Plant Murraya paniculata Abhijit Nath|Mrinal Kanti Bhattacharjee Department of Botany and Biotechnology, Karimganj College
http://dx.doi.org/10.1101/027607 2015-09-28 Bioinformatics CC BY-NC-ND One Codex: A Sensitive and Accurate Data Platform for Genomic Microbial Identification Samuel S Minot|Niklas Krumm|Nicholas B Greenfield One Codex (Reference Genomics, Inc.)
http://dx.doi.org/10.1101/023127 2015-09-28 Genomics CC BY-NC-ND Cancer classification in the genomic era: five contemporary problems Qingxuan Song|Sofia D Merajver|Jun Z Li Department of Human Genetics, University of Michigan;|Department of Internal Medicine and Epidemiology, University of Michigan
http://dx.doi.org/10.1101/027110 2015-09-28 Ecology CC BY Elevating the status of code in ecology K. A. S. Mislan|Jeffrey M. Heer|Ethan P. White University of Washington;|University of Florida
http://dx.doi.org/10.1101/027714 2015-09-28 Bioinformatics CC BY-ND MG7: Configurable and scalable 16S metagenomics data analysis Alexey Alekhin|Evdokim Kovach|Marina Manrique|Pablo Pareja-Tobes|Eduardo Pareja|Raquel Tobes|Eduardo Pareja-Tobes oh no sequences! Research Group, Era7 Bioinformatics
http://dx.doi.org/10.1101/027425 2015-09-28 Evolutionary Biology CC BY-NC-ND An Option Space for Early Neural Evolution Gaspar Jekely|Fred Keijzer|Peter Godfrey Smith Max Planck Institute for Developmental Biology;|Department of Theoretical Philosophy, University of Groningen;|Philosophy Program, The Graduate Center, City University of New York
http://dx.doi.org/10.1101/015651 2015-09-27 Genomics CC BY-NC-ND Exome Sequencing and Prediction of Long-Term Kidney Allograft Function Laurent Mesnard|Thangamani Muthukumar|Maren Burbach|Carol Li|Huimin Shang|Darshana Dadhania|John R Lee|Vijay K Sharma|Jenny Xiang|Caroline Suberbielle|Maryvonnick Carmagnat|Nacera Ouali|Eric Rondeau|John Friedewald|Michael Abecassis|Manikkam Suthanthiran|Fabien Campagne Weill Cornell Medical College;|Weill Cornell Medical College; New York Presbyterian Hospital;|Laboratoire d'histocompatibilite Hopital Saint Louis APHP, Paris, France;|INSERM UMR1155 et Service des Urgences Nephrologiques et Transplantation Renale, APHP, Hopital Tenon;|Northwestern University Feinberg School of Medicine
http://dx.doi.org/10.1101/027664 2015-09-27 Synthetic Biology CRISPR/Cas9-Assisted Transformation-Efficient Reaction (CRATER), a novel method for selective transformation Lynn J. Rothschild|Daniel T. Greenberg|Jack R. Takahashi|Kirsten A. Thompson|Akshay J. Maheshwari|Ryan E. Kent|Griffin McCutcheon|Joseph D. Shih|Charles L. Calvet|Tyler D. Devlin|Tina Ju|Daniel P. Kunin|Erica K. Lieberman|Thai Nguyen|Forrest G. Tran|Daniel Z. Xiang|Kosuke Fujishima NASA Ames;|Brown University;|Stanford University;|University Affiliated Research Center, NASA Ames Research Center;|Millenium Engineering Inc.
http://dx.doi.org/10.1101/027680 2015-09-27 Systems Biology CC BY-ND Principles of studying a cell - a non-boastful paper for all molecular biologists Han Chen|Xionglei He Sun Yat-sen University
http://dx.doi.org/10.1101/021741 2015-09-26 Bioinformatics CC BY-NC-ND SARTools: a DESeq2- and edgeR-based R pipeline for comprehensive differential analysis of RNA-Seq data Hugo Varet|Jean-Yves Coppee|Marie-Agnes Dillies Institut Pasteur
http://dx.doi.org/10.1101/027631 2015-09-25 Biophysics CC BY-NC-ND Tyrosination of α-Tubulin Controls The Initiation of Processive Dynein-Dynactin Motility Richard J McKenney|Walter Huynh|Ronald D. Vale|Minhaj Sirajuddin UCSF;|inStem, Bangalore
http://dx.doi.org/10.1101/027615 2015-09-25 Microbiology Antimicrobial Activity of Ethnobotanical Plant Psidium Guajava Abhijit Nath|Mrinal Kanti Bhattacharjee Department of Botany and Biotechnology, Karimganj College
http://dx.doi.org/10.1101/027599 2015-09-25 Evolutionary Biology Estimating diversification rates from the fossil record Gilles Didier|Marine Fau|Michel Laurin CNRS;|Museum National d'Histoire Naturelle de Paris
http://dx.doi.org/10.1101/027581 2015-09-25 Genetics CC BY-NC-ND The impact of host metapopulation structure on the population genetics of colonizing bacteria Elina Numminen|Michael U Gutmann|Mikhail Shubin|Pekka Marttinen|Guillaume Meric|Willem van Schaik|Teresa Coque|Fernando Baquero|Rob Willems|Samuel K Sheppard|Edward J Feil|William P Hanage|Jukka Corander University of Helsinki;|Aalto University;|University of Swansea;|University Medical Center Utrecht;|Ramon y Cajal University Hospital;|University of Bath;|Harvard University
http://dx.doi.org/10.1101/020107 2015-09-25 Evolutionary Biology CC BY-NC The evolution, diversity and host associations of rhabdoviruses Ben Longdon|Gemma GR Murray|William J Palmer|Jonathan P Day|Darren J Parker|John J Welch|Darren J Obbard|Francis M Jiggins University of Cambridge;|University of St Andrews;|University of Edinburgh
http://dx.doi.org/10.1101/027367 2015-09-25 Physiology CC BY-NC-ND Suboptimal larval habitats modulate oviposition of the malaria vector mosquito Anopheles gambiae Eunho Suh|Dong-Hwan Choe|Ahmed M Saveer|Laurence J Zwiebel Vanderbilt University;|University of California Riverside
http://dx.doi.org/10.1101/011890 2015-09-25 Bioinformatics CC BY-NC-ND Generalised empirical Bayesian methods for discovery of differential data in high-throughput biology Thomas J Hardcastle University of Cambridge
http://dx.doi.org/10.1101/027490 2015-09-25 Genetics CC BY Variants in the FTO and CDKAL1 loci have recessive effects on risk of obesity and type 2 diabetes respectively Andrew R Wood|Jessica Tyrell|Robin Beaumont|Samuel E Jones|Marcus A Tuke|Katherine S Ruth|Hanieh Yaghootkar|Rachel Freathy|Anna Murray|Timothy M Frayling|Michael N Weedon University of Exeter
http://dx.doi.org/10.1101/021436 2015-09-25 Bioinformatics CC BY-NC-ND Discovery of methylation loci and analyses of differential methylation from replicated high-throughput sequencing data Thomas J Hardcastle University of Cambridge
http://dx.doi.org/10.1101/027508 2015-09-24 Genomics CC BY-ND Temporal regulation of dUTP biosynthesis limits uracil incorporation during early DNA replication Jay R. Hesselberth|Debra Suzi Bryan University of Colorado School of Medicine, United States
http://dx.doi.org/10.1101/027532 2015-09-24 Physiology CC BY-ND Effects of diet on plumage coloration and pigment deposition in red and yellow domestic canaries Rebecca Koch|Kevin McGraw|Geoffrey Hill Auburn University;|Arizona State University
http://dx.doi.org/10.1101/019687 2015-09-24 Systems Biology The effects of time-varying temperature on delays in genetic networks Marcella M Gomez|Richard M Murray|Matthew R Bennett Rice University;|Caltech
http://dx.doi.org/10.1101/015230 2015-09-24 Bioinformatics CC BY Minimum Information for Reporting Next Generation Sequence Genotyping (MIRING): Guidelines for Reporting HLA and KIR Genotyping via Next Generation Sequencing Steven J. Mack|Robert P Milius|Benjamin D Gifford|Jurgen Sauter|Jan Hofmann|Kazutoyo Osoegawa|James Robinson|Mathjis Groeneweg|Gregory S Turenchalk|Alex Adai|Cherie Holcomb|Erik H Rozemuller|Maarten T Penning|Michael L Heuer|Chunlin Wang|Marc L Salit|Alexander H Schmidt|Peter R Parham|Carlheinz Muller|Tim Hague|Gottfried Fischer|Marcelo Fernandez-Vina|Jill A Hollenbach|Paul J Norman|Martin Maiers Children's Hospital Oakland Research Institute;|National Marrow Donor Program;|One Lambda, Thermo Fisher Scientific;|DKMS German Bone Marrow Donor Center;|German Bone Marrow Donor Center;|Stanford University;|Anthony Nolan Research Institute; University College London Cancer Institute;|Maastricht University Medial Center;|Roche Sequencing;|Roche Molecular Systems;|GenDx;|Stanford University, Stanford, CA, USA.;|Zentrales Knochenmarkspender-Register Deutschland;|Omixon;|Medical University of Vienna;|University of California, San Francisco
http://dx.doi.org/10.1101/024513 2015-09-24 Bioinformatics CC BY-NC-ND Toward high-throughput predictive modeling of protein binding/unbinding kinetics See Hong Chiu|Lei Xie The Graduate Center, CUNY;|The Graduate Center, CUNY and Hunter College, CUNY
http://dx.doi.org/10.1101/027375 2015-09-24 Developmental Biology CC BY-ND Glial and neuronal Semaphorin signaling instruct the development of a functional myotopic map for Drosophila walking Durafshan Sakeena Syed|Swetha B.M.|O. Venkateswara Reddy|Heinrich Reichert|VijayRaghavan K. National Centre for Biological Sciences, Tata Institute of Fundamental Research. Bangalore, India;|National Centre for Biological Sciences, Tata Institute of Fundamental Research; Manipal University;|Biozentrum, University of Basel.
http://dx.doi.org/10.1101/027417 2015-09-23 Evolutionary Biology Social selection parapatry in an Afrotropical sunbird Jay P McEntee|Joshua Penalba|Chacha Werema|Elia Mulungu|Maneno Mbilinyi|David Moyer|Louis Hansen|Jon Fjeldsaa|Rauri C.K. Bowie Museum of Vertebrate Zoology and Dept. of Integrative Biology, University of California, Berkeley;|Australian National University, Canberra, Australia;|University of Dar-es-salaam, Tanzania;|PO Box 934, Iringa, Tanzania;|Tanzania Bird Atlas, Iringa, Tanzania;|Field Museum of Natural History, Chicago, USA;|Center for Macroecology, Evolution and Climate, University of Copenhagen, Denmark;|1Museum of Vertebrate Zoology and Dept. of Integrative Biology, University of California, Berkeley
http://dx.doi.org/10.1101/027466 2015-09-23 Evolutionary Biology CC BY-NC-ND Phototaxis and the origin of visual eyes Nadine Randel|Gaspar Jekely Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/027433 2015-09-23 Evolutionary Biology CC BY-NC-ND Summer temperature can predict the distribution of wild yeast populations Heather A. Robinson|Ana Pinharanda|Douda Bensasson University of Manchester;|University of Cambridge
http://dx.doi.org/10.1101/027441 2015-09-23 Evolutionary Biology CC BY-NC-ND Parental effects and the evolution of phenotypic memory Bram Kuijper|Rufus A Johnstone University College London;|University of Cambridge
http://dx.doi.org/10.1101/021907 2015-09-23 Evolutionary Biology CC BY Accounting for genotype uncertainty in the estimation of allele frequencies in autopolyploids Paul D Blischak|Laura S Kubatko|Andrea D Wolfe Ohio State University;|The Ohio State University
http://dx.doi.org/10.1101/023317 2015-09-23 Genomics CC BY-NC-ND GOTHiC, a simple probabilistic model to resolve complex biases and to identify real interactions in Hi-C data Borbala Mifsud|Inigo Martincorena|Elodie Darbo|Robert Sugar|Stefan Schoenfelder|Peter Fraser|Nicholas Luscombe The Francis Crick Institute;|The Wellcome Trust Sanger Institute;|EMBL-European Bioinformatics Institute;|The Babraham Institute
http://dx.doi.org/10.1101/027383 2015-09-22 Genomics Speciation driven by hybridization and chromosomal plasticity in a wild yeast Jean-Baptiste Leducq|Lou Nielly-Thibault|Guillaume Charron|Chris Eberlein|Jukka-Pekka Verta|Pedram Samani|Kayla Sylvester|Chris Todd Hittinger|Graham Bell|Christian R Landry Universite de Montreal;|Universite Laval;|McGill University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/027342 2015-09-22 Genetics CC BY-NC-ND FINEMAP: Efficient variable selection using summary data from genome-wide association studies Christian Benner|Chris C.A. Spencer|Samuli Ripatti|Matti Pirinen Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland;|Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK
http://dx.doi.org/10.1101/027391 2015-09-22 Evolutionary Biology Sustained fitness gains and variability in fitness trajectories in the long-term evolution experiment with Escherichia coli Richard E Lenski|Michael J Wiser|Noah Ribeck|Zachary D Blount|Joshua R Nahum|James Jeffrey Morris|Luis Zaman|Caroline B Turner|Brian D Wade|Rohan Maddamsetti|Alita R Burmeister|Elizabeth J Baird|Jay Bundy|Nkrumah A Grant|Kyle J Card|Maia Rowles|Kiyana Weatherspoon|Spiridon E Papoulis|Rachel Sullivan|Colleen Clark|Joseph S Mulka|Neerja Hajela Michigan State University;|University of Alabama at Birmingham;|University of Washington;|University of Pittsburgh School of Medicine;|University of Tennessee
http://dx.doi.org/10.1101/027326 2015-09-22 Immunology CC BY Glucose modulates Drosophila longevity and immunity independent of the microbiota. Anthony Galenza|Jaclyn Hutchinson|Bart Hazes|Shelagh Campbell|Edan Foley University of Alberta
http://dx.doi.org/10.1101/027334 2015-09-22 Genomics CC BY ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo Gabriel E. Zentner|Sivakanthan Kasinathan|Beibei Xin|Remo Rohs|Steven Henikoff Fred Hutchinson Cancer Research Center;|University of Southern California;|Fred Hutchinson Cancer Reseearch Center
http://dx.doi.org/10.1101/017863 2015-09-21 Neuroscience CC BY Development of social behaviour in young zebrafish. Elena Dreosti|Goncalo Lopes|Adam R. Kampff|Stephen W. Wilson University College London;|Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/027276 2015-09-21 Bioinformatics CC BY-NC Haplotype synthesis analysis in public reference data reveals functional variants underlying known genome-wide associated susceptibility loci Andre Lacour|Tim Becker German Center for Neurodegenerative Diseases (DZNE), Bonn, Germany
http://dx.doi.org/10.1101/027078 2015-09-21 Ecology CC BY Maintained electrical transmission corridors can provide valuable bumblebee habitat for conservation and ecosystem service provision Bruce Hill|Ignasi Bartomeus Dunedin City Council;|Estacion Biologica de Donana (EBD-CSIC)
http://dx.doi.org/10.1101/015743 2015-09-21 Evolutionary Biology CC BY-NC Association mapping reveals the role of mutation-selection balance in the maintenance of genomic variation for gene expression. Emily B. Josephs|Young Wha Lee|John R. Stinchcombe|Stephen I. Wright University of Toronto
http://dx.doi.org/10.1101/027003 2015-09-21 Evolutionary Biology CC BY-NC-ND Rolling the Dice Twice: Evolving Reconstructed Ancient Proteins in Extant Organisms Betul Kacar Harvard University
http://dx.doi.org/10.1101/027144 2015-09-21 Evolutionary Biology CC BY-NC-ND Systematic Review of the Research on Morphological Modularity Borja Esteve-Altava Royal Veterinary College
http://dx.doi.org/10.1101/005553 2015-09-19 Systems Biology CC BY-NC-ND Differential stoichiometry among core ribosomal proteins Nikolai Slavov|Stefan Semrau|Edoardo Airoldi|Bogdan Budnik|Alexander van Oudenaarden Harvard University;|Leiden University;|Hubrecht Institute
http://dx.doi.org/10.1101/026930 2015-09-19 Microbiology CC BY-NC-ND Complete assembly of novel environmental bacterial genomes by MinIONTM sequencing Daniel J Turner|Xiaoguang Dai|Simon Mayes|Sissel Juul Oxford Nanopore Technologies
http://dx.doi.org/10.1101/026971 2015-09-18 Bioinformatics WU-CRISPR: characteristics of functional guide RNAs for the CRISPR/Cas9 system Nathan Wong|Weijun Liu|Xiaowei Wang Washington University School of Medicine
http://dx.doi.org/10.1101/027227 2015-09-18 Bioinformatics CC BY-ND Genomic variant calling: Flexible tools and a diagnostic data set Michael Lawrence|Melanie A Huntley|Eric Stawiski|Art Owen|Thomas D Wu|Leonard D Goldstein|Yi Cao|Jeremiah Degenhardt|Jason Young|Joseph Guillory|Sherry Heldens|Marlena Jackson|Somasekar Seshagiri|Robert Gentleman Genentech;|Stanford;|Gilead Biosciences;|Yale;|23andMe
http://dx.doi.org/10.1101/027185 2015-09-18 Genetics CC BY A cost analysis of a cancer genetic service model in the UK Ingrid Slade|Helen Hanson|Angela George|Kelly Kohut|Ann Strydom|Sarah Wordsworth|Nazneen Rahman University of Oxford;|The Institute of Cancer Research, London;|The Royal Marsden NHS Foundation Trust
http://dx.doi.org/10.1101/027169 2015-09-18 Ecology Simultaneous enhancement of multiple stability properties using two-parameter control methods in Drosophila melanogaster Sudipta Tung|Abhishek Mishra|Sutirth Dey Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/027219 2015-09-18 Bioinformatics Laplacian eigenmaps and principal curves for high resolution pseudotemporal ordering of single-cell RNA-seq profiles Kieran Campbell|Chris P Ponting|Caleb Webber University of Oxford
http://dx.doi.org/10.1101/027151 2015-09-18 Genomics Structure and evolutionary history of a large family of NLR proteins in the zebrafish Kerstin Howe|Philipp Schiffer|Julia Zielinski|Thomas Wiehe|Gavin Laird|John Marioni|Onuralp Soylemez|Fyodor Kondrashov|Maria Leptin Wellcome Trust Sanger Institute;|The European Molecular Biology Laboratory;|Institut f??r Genetik, Universit??t zu K??ln;|Centre for Genomic Regulation;|University of Cologne
http://dx.doi.org/10.1101/027177 2015-09-18 Neuroscience Enhancing burst activation and propagation in cultured neuronal networks by photo-stimulation Ghazaleh Afshar|Ahmed El Hady|Theo Geisel|Walter Stuehmer|Fred Wolf Max Planck Institute for Dynamics and Self Organization;|Max Planck Institute for Experimental Medicine;|Max Planck for Dynamics and Self Organization
http://dx.doi.org/10.1101/027060 2015-09-18 Cancer Biology ZNF191 Inhibits Hepatocellular Carcinoma Metastasis via DLG1-mediated YAP1 Inactivation Di Wu|Guoyuan Liu|Songmin Jiang|Long Yu State Key Laboratory of Genetic Engineering, Fudan University;|Department of Pathology, School of Basic Medical Sciences, Fudan University
http://dx.doi.org/10.1101/027086 2015-09-17 Evolutionary Biology CC BY-NC-ND Diverse phenotypic and genetic responses to short-term selection in evolving Escherichia coli populations Marcus M Dillon|Nicholas P Rouillard|Brian Van Dam|Romain Gallet|Vaughn S Cooper University of New Hampshire;|INRA UMR BGPI Cirad;|University of Pittsburgh
http://dx.doi.org/10.1101/027045 2015-09-17 Bioinformatics A pathway-centric view of spatial proximity in the 3D nucleome across cell lines Hiren Karathia|Carl Kingsford|Michelle Girvan|Sridhar Hannenhalli Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA;|Computational Biology Department, Carnegie Mellon University, Pittsburgh, PA, USA;|Department of Physics, University of Maryland, College Park, MD, USA
http://dx.doi.org/10.1101/022160 2015-09-17 Genetics CC BY High Frequency Haplotypes are Expected Events, not Historical Figures Elsa G Guillot|Murray P Cox University of Lausanne;|Massey University
http://dx.doi.org/10.1101/026914 2015-09-16 Evolutionary Biology Non-null Effects of the Null Range in Biogeographic Models: Exploring Parameter Estimation in the DEC Model Kathryn A Massana|Jeremy M Beaulieu|Nicholas J Matzke|Brian C O'Meara University of Tennessee, Knoxville;|University of Tennessee
http://dx.doi.org/10.1101/026922 2015-09-16 Bioinformatics CC BY-NC-ND Improved metagenome assemblies and taxonomic binning using long-read circular consensus sequence data Jeremy A. Frank|Yao Pan|Ave Tooming-Klunderud|Vincent G.H. Eijsink|Alice C. McHardy|Alexander J. Nederbragt|Phillip B. Pope Norwegian University of Life Sciences;|Helmholtz Centre for Infection Research;|University of Oslo
http://dx.doi.org/10.1101/026955 2015-09-16 Genomics Single-cell phenotyping of human induced pluripotent stem cells by high-throughput imaging Hans Christian Volz|Florian Heigwer|Tatjana Wuest|Marta Galach|Jochen Utikal|Hugo A. Katus|Michael Boutros University Hospital Heidelberg;|German cancer Research Center (DKFZ);|Sanquin Blood Supply;|German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/026591 2015-09-16 Evolutionary Biology CC BY-NC-ND Inference of complex population histories using whole-genome sequences from multiple populations Matthias Steinrucken|John A. Kamm|Yun S. Song University of Massachusetts, Amherst;|University of California, Berkeley
http://dx.doi.org/10.1101/026948 2015-09-16 Genomics Characterizing transcriptional heterogeneity through pathway and gene set overdispersion analysis Jean Fan|Neeraj Salathia|Rui Liu|Gwen Kaeser|Yun Yung|Joseph L Herman|Fiona Kaper|Jian-Bing Fan|Kun Zhang|Jerold Chun|Peter Kharchenko Harvard Medical School;|Illumina Inc;|UCSD;|Scripps Research Institute;|Harvard Medical Schoool;|Illumina Inc.
http://dx.doi.org/10.1101/020255 2015-09-16 Genomics Approximately independent linkage disequilibrium blocks in human populations Tomaz Berisa|Joseph K. Pickrell New York Genome Center;|New York Genome Center, Columbia University
http://dx.doi.org/10.1101/025536 2015-09-16 Evolutionary Biology CC BY Low base-substitution mutation rate in the ciliate Tetrahymena thermophila Hongan Long|David J Winter|Allan Y-C Chang|Way Sun|Steven H. Whu|Mariel Balboa|Ricardo BR Azevedo|Reed A Cartwright|Michael Lynch|Rebecca A Zufall Indiana University;|Arizona State University;|University Of Houston;|University of Houston
http://dx.doi.org/10.1101/018291 2015-09-16 Plant Biology CC BY-NC-ND Latent developmental and evolutionary shapes embedded within the grapevine leaf Daniel H Chitwood|Laura L Klein|Regan O'Hanlon|Steven Chacko|Matthew Greg|Cassandra Kitchen|Allison J Miller|Jason P Londo Donald Danforth Plant Science Center;|Saint Louis University;|USDA/ARS, Grape Genetics Research Unit
http://dx.doi.org/10.1101/026898 2015-09-15 Bioinformatics CC BY-NC Diffantom: whole-brain diffusion MRI phantoms derived from real datasets of the Human Connectome Project Oscar Esteban|Emmanuel Caruyer|Alessandro Daducci|Meritxell Bach-Cuadra|Maria-J. Ledesma-Carbayo|Andres Santos Biomedical Image Technologies (BIT), ETSI Telecom., Universidad Politecnica de Madrid, Madrid, Spain;|CNRS, IRISA (UMR 6074), VisAGeS research group, Rennes, France;|Signal Processing Laboratory (LTS5), Ecole Polytechnique Federale de Lausanne (EPFL);|Dept. of Radiology, CIBM, University Hospital Center (CHUV) and University of Lausanne (UNIL)
http://dx.doi.org/10.1101/026856 2015-09-15 Bioinformatics CC BY-NC IDENTIFICATION OF GENOMIC REGIONS CARRYING A CAUSAL MUTATION IN UNORDERED GENOMES Pilar Corredor-Moreno|Ed Chalstrey|Carlos A Lugo|Dan MacLean The Sainsbury Laboratory
http://dx.doi.org/10.1101/026872 2015-09-15 Bioinformatics CC BY-NC Bayesian Gaussian Process Latent Variable Models for pseudotime inference in single-cell RNA-seq data Kieran Campbell|Christopher Yau University of Oxford
http://dx.doi.org/10.1101/026831 2015-09-15 Genomics CC BY-NC Widespread shortening of 3' untranslated regions and increased exon inclusion characterize the human macrophage response to infection Athma A Pai|Golshid Baharian|Ariane Page Sabourin|Yohann Nedelec|Jean-Christophe Grenier|Katherine J Siddle|Anne Dumaine|Vania Yotova|Christopher B Burge|Luis B Barreiro MIT;|University of Montreal;|Sainte-Justine Hospital Research Centre;|Harvard University
http://dx.doi.org/10.1101/026823 2015-09-15 Neuroscience CC BY-NC-ND The neurotranscriptome of the Aedes aegypti mosquito Benjamin J Matthews|Carolyn S McBride|Matthew DeGennaro|Orion Despo|Leslie B Vosshall The Rockefeller University
http://dx.doi.org/10.1101/018937 2015-09-15 Ecology Size Structures Sensory Hierarchy in Ocean Life Erik Andreas Martens|Navish Wadhwa|Nis Sand Jacobsen|Christian Lindemann|Ken Haste Andersen|Andre Visser University of Copenhagen;|Technical University of Denmark
http://dx.doi.org/10.1101/026351 2015-09-15 Bioinformatics Integrated Genome Browser: visual analytics platform for genomics Nowlan H. Freese|David C. Norris|Ann E. Loraine University of North Carolina at Charlotte
http://dx.doi.org/10.1101/026534 2015-09-15 Bioinformatics CC BY-NC-ND Using Cell line and Patient samples to improve Drug Response Prediction Cheng Zhao|Ying Li|Zhaleh Safikhani|Benjamin Haibe-Kains|Anna Goldenberg University of Toronto;|Princess Margaret Cancer Centre;|University Health Network;|SickKids Research Institute/University of Toronto
http://dx.doi.org/10.1101/026757 2015-09-14 Evolutionary Biology Inference of multiple-wave population admixture by modeling decay of linkage disequilibrium with multiple exponential functions Ying Zhou|Kai Yuan|Yaoliang Yu|Xumin Ni|Pengtao Xie|Eric P Xing|Shuhua Xu CAS-MPG Partner Institute for Computational Biology, China;|Carnegie Mellon University, China;|Beijing Jiaotong University, United States
http://dx.doi.org/10.1101/026765 2015-09-14 Ecology Species range expansion constrains the ecological niches of resident butterflies. Helene Audusseau|Maryline Le Vaillant|Niklas Janz|Soren Nylin|Bengt Karlsson|Reto Schmucki Stockholm University;|MNHN-CNRS-UPMC-CESAB Paris
http://dx.doi.org/10.1101/026781 2015-09-14 Genetics CC BY-NC-ND Analytical limits of hybrid identification using genetic markers: an empirical and simulation study in Hippolais warblers Jan O Engler|Soenke Twietmeyer|Jean Secondi|Ortwin Elle|Axel Hochkirch Zoological Researchmuseum Alexander Koenig;|Nationalparkforstamt Eifel;|LUNAM Universite, GECCO & UMR CNRS 6554 University of Angers;|Trier University, Biogeography Department
http://dx.doi.org/10.1101/018531 2015-09-14 Genomics Measuring the Landscape of CpG Methylation of Individual Repetitive Elements Yuta Suzuki|Jonas Korlach|Stephen W. Turner|Tatsuya Tsukahara|Junko Taniguchi|Hideaki Yurino|Wei Qu|Jun Yoshimura|Yuji Takahashi|Jun Mitsui|Shoji Tsuji|Hiroyuki Takeda|Shinichi Morishita The University of Tokyo;|Pacific Biosciences
http://dx.doi.org/10.1101/025494 2015-09-14 Ecology CC BY-NC-ND Social structure and drivers behind asynchronous burrow associations of the desert tortoise Pratha Sah|Kenneth E. Nussear|Todd C. Esque|Christina M. Aiello|Peter J. Hudson|Shweta Bansal Georgetown University;|University of Nevada Reno;|U. S. Geological Survey;|Penn State University
http://dx.doi.org/10.1101/026732 2015-09-13 Evolutionary Biology CC BY-NC-ND How sex-biased dispersal affects conflict over parental investment Bram Kuijper|Rufus A Johnstone University College London;|University of Cambridge, Department of Zoology
http://dx.doi.org/10.1101/026716 2015-09-13 Ecology CC BY-NC-ND Prioritization of sites for plant species restoration in the Chilean Biodiversity Hotspot: A spatial multi-criteria decision analysis approach Ignacio C Fernandez|Narkis S Morales Arizona State University;|Macquarie university
http://dx.doi.org/10.1101/026724 2015-09-13 Zoology CC BY-NC-ND Distribution and abundance of the West Indian manatee (Trichechus manatus) in the Panama Canal Giselle Muschett|Juliana Vianna Macquarie University;|Pontificia Universidad Catolica de Chile
http://dx.doi.org/10.1101/025874 2015-09-13 Genomics Allele-specific expression reveals interactions between genetic variation and environment David A Knowles|Joe R Davis|Anil Raj|Xiaowei Zhu|James B Potash|Myrna M Weissman|Jianxin Shi|Douglas F Levinson|Sara Mostafavi|Stephen B Montgomery|Alexis Battle Stanford University;|University of Iowa Hospitals & Clinics;|Columbia University and New York State Psychiatric Institute;|National Cancer Institute;|University of British Columbia;|Johns Hopkins University
http://dx.doi.org/10.1101/026674 2015-09-12 Neuroscience CC BY-NC-ND Connectome of a model local cortical circuit flexibly shapes layer-dependent multi-frequency oscillations Markus Helmer|Xue Jie Chen|Wei Wei|Fred Wolf|Demian Battaglia Max Planck Institute for Dynamics and Self-Organization, Department of Nonlinear Dynamics, Goettinge;|Psychology Department, Brandeis University, Waltham, MA, United States of America;|Center for Neural Sciences, New York University, New York, NY, United States of America;|Institut de Neurosciences des Systemes, Aix-Marseille Universite, Marseille, France
http://dx.doi.org/10.1101/026682 2015-09-12 Neuroscience CC BY-NC-ND Model-free Estimation of Tuning Curves and Their Attentional Modulation, Based on Sparse and Noisy Data Markus Helmer|Vladislav Kozyrev|Valeska Stephan|Stefan Treue|Theo Geisel|Demian Battaglia Max Planck Institute for Dynamics and Self-organization;|Institute of Neuroinformatics, Ruhr-University Bochum, Germany;|Cognitive Neuroscience Laboratory, German Primate Center, G ̈ ottingen, Germany;|Max Planck Institute for Dynamics and Self-Organization, Department of Nonlinear Dynamics, Goettinge;|Institut de Neurosciences des Systemes, Aix-Marseille Universite, Marseille, France
http://dx.doi.org/10.1101/022368 2015-09-12 Scientific Communication Accelerating Scientific Publication in Biology Ronald D Vale University of California San Francisco
http://dx.doi.org/10.1101/026153 2015-09-11 Bioinformatics CC BY-NC-ND Revisiting inconsistency in large pharmacogenomic studies Zhaleh Safikhani|Mark Freeman|Petr Smirnov|Nehme El-Hachem|Adrian She|Rene Quevedo|Anna Goldenberg|Nicolai Juul Birkbak|Christos Hatzis|Leming Shi|Andrew H Beck|Hugo JWL Aerts|John Quackenbush|Benjamin Haibe-Kains Princess Margaret Cancer Centre, Canada;|Institut de recherches cliniques de Montreal, Canada;|Hospital of Sick Children, Canada;|University College London, United Kingdom;|Yale University School of Medicine;|Fudan University, China;|Beth Israel Deaconess Medical Center, USA;|Dana-Farber Cancer Institute, USA;|University Health Network
http://dx.doi.org/10.1101/026625 2015-09-11 Genetics CC BY-ND The effects of both recent and long-term selection and genetic drift are readily evident in North American barley breeding populations Ana M Poets|Mohsen Mohammadi|Kiran Seth|Hongyun Wang|Thomas J.Y. Kono|Zhou Fang|Gary J Muehlbauer|Kevin P Smith|Peter L Morrell University of Minnesota
http://dx.doi.org/10.1101/026658 2015-09-11 Evolutionary Biology CC BY-NC-ND Selection on network dynamics drives differential rates of protein domain evolution Brian K Mannakee|Ryan N Gutenkunst University of Arizona
http://dx.doi.org/10.1101/026567 2015-09-11 Genomics Immunosequencing reveals diagnostic signatures of chronic viral infection in T cell memory Ryan Emerson|William DeWitt|Marissa Vignali|Jenna Gravley|Cindy Desmarais|Christoper Carlson|John Hansen|Mark Rieder|Harlan Robins Adaptive Biotechnologies;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/026518 2015-09-11 Evolutionary Biology CC BY-ND EvolQG - An R package for evolutionary quantitative genetics Diogo Melo|Guilherme Garcia|Alex Hubbe|Ana Paula Assis|Gabriel Marroig Departamento de Genetica e Biologia Evolutiva, Instituto de Biociencias, Universidade de Sao Paulo;|Departamento de Oceanografia, Instituto de Geociencias, Universidade Federal da Bahia
http://dx.doi.org/10.1101/026641 2015-09-11 Evolutionary Biology Mapping phylogenetic trees to reveal distinct patterns of evolution Michelle Kendall|Caroline Colijn Imperial College London
http://dx.doi.org/10.1101/026583 2015-09-10 Ecology CC BY A Model For Sea Lice (Lepeophtheirus salmonis) Dynamics In A Seasonally Changing Environment) Matthew A Rittenhouse|Crawford W Revie|Amy Hurford Memorial University of Newfoundland;|University of Prince Edward Island
http://dx.doi.org/10.1101/020883 2015-09-10 Neuroscience CC BY-NC Striatal dynamics explain duration judgments Thiago S. Gouvea|Tiago Monteiro|Asma Motiwala|Sofia Soares|Christian K. Machens|Joseph J. Paton Champalimaud Centre for the Unknown, Lisbon, Portugal
http://dx.doi.org/10.1101/020214 2015-09-10 Bioinformatics CC BY-ND Pyvolve: a flexible Python module for simulating sequences along phylogenies Stephanie J Spielman|Claus O Wilke University of Texas at Austin
http://dx.doi.org/10.1101/026500 2015-09-09 Neuroscience Long-delay learning in intraoral conditioned taste aversion Thomas A. Houpt|Jennifer A. Cassell|Stephanie McCormack|Bumsup Kwon|Gary Tiffany|Jeffrey Lorch Florida State University
http://dx.doi.org/10.1101/026492 2015-09-09 Evolutionary Biology Selection on heritable heterozygosity but no response to selection. Why? Tim Coulson|Sonya Clegg University of Oxford
http://dx.doi.org/10.1101/026476 2015-09-09 Systems Biology CC BY-NC-ND Characterizing and comparing phylogenies from their Laplacian spectrum Eric Lewitus|Helene Morlon IBENS
http://dx.doi.org/10.1101/017632 2015-09-09 Evolutionary Biology CC BY-NC-ND Phylogenomic analyses support traditional relationships within Cnidaria Felipe Zapata|Freya E Goetz|Stephen A Smith|Mark Howison|Stefan Siebert|Samuel Church|Steven M Sanders|Cheryl Lewis Ames|Catherine S McFadden|Scott C France|Marymegan Daly|Allen G Collins|Steven HD Haddock|Casey Dunn|Paulyn Cartwright Brown University;|Smithsonian Museum of Natural History;|University of Michigan;|University of Pittsburgh;|Harvey Mudd College;|The University of Louisiana at Lafayette;|Ohio State University;|National Systematics Laboratory of NOAA's Fisheries Service;|Monterey Bay Aquarium Research Institute;|University of Kansas
http://dx.doi.org/10.1101/006940 2015-09-09 Evolutionary Biology CC BY Convergent Evolution During Local Adaptation to Patchy Landscapes Peter L. Ralph|Graham Coop Computational Biology and Bioinformatics, University of Southern California;|University of California: Davis
http://dx.doi.org/10.1101/026435 2015-09-09 Genomics Effects of reference databases' refinements on the validity of molecular definitions of 15,371 candidate human-specific regulatory sequences Gennadi Glinsky University of California, San Diego
http://dx.doi.org/10.1101/026427 2015-09-09 Evolutionary Biology Divergent MLS1 promoters lie on a fitness plateau for gene expression Andrew C Bergen|Gerilyn M Olsen|Justin C Fay Washington University in St. Louis
http://dx.doi.org/10.1101/026419 2015-09-09 Neuroscience CC BY-NC Structural constraints to information flow within cortical circuits: a TMS/EEG-dMRI study Enrico Amico|Olivier Bodart|Olivia Gosseries|Lizette Heine|Mario Rosanova|Pieter Van Mierlo|Charlotte Martial|Marcello Massimini|Daniele Marinazzo|Steven Laureys University of Liege and University of Ghent;|University of Liege;|University of Wisconsin and University of Liege;|University of Milan;|University of Ghent
http://dx.doi.org/10.1101/026385 2015-09-08 Bioinformatics pcaReduce: Hierarchical Clustering of Single Cell Transcriptional Profiles Justina Zurauskiene|Christopher Yau University of Oxford
http://dx.doi.org/10.1101/026286 2015-09-08 Genetics CC BY-NC-ND An Accurate Genetic Clock David H Hamilton University of Maryland, College Park, United States
http://dx.doi.org/10.1101/026294 2015-09-08 Genomics CC BY-NC-ND Development of EST-SSR annotated database in olive (Olea europaea) sami said adawy|morad mokhtar mokhtar|Alsamman Mahmoud Alsamman|Mahmoud m Sakr Agricultural Genetic engineering Research Institute, Egypt;|Academy of Scientific Research and Technology, Egypt
http://dx.doi.org/10.1101/026278 2015-09-08 Genetics Modeling Continuous Admixture Ying Zhou|Hongxiang Qiu|Shuhua Xu CAS-MPG Partner Institute for Computational Biology, China;|The Chinese University of Hong Kong, Shatin, China
http://dx.doi.org/10.1101/026310 2015-09-08 Bioinformatics CC BY-NC Evolution of genes neighborhood within reconciled phylogenies: an ensemble approach Cedric Chauve|Yann Ponty|Joao Paulo Peirera Zanetti Simon Fraser University;|CNRS-LIX, Ecole Polytechnique;|Institute of Computing, University of Campinas
http://dx.doi.org/10.1101/026336 2015-09-08 Ecology CC BY-NC-ND Combining niche modelling, land use-change, and genetic information to assess the conservation status of Pouteria splendens populations in Central Chile Narkis S Morales|Ignacio C Fernandez|Basilio A Carrasco|Cristina Orchard Macquarie University;|Arizona State University;|Pontificia Universidad Catolica de Chile;|Fundacion ECOMABI
http://dx.doi.org/10.1101/026302 2015-09-08 Cancer Biology CC BY Passenger DNA alterations reduce cancer fitness in cell culture and mouse models Christopher D McFarland|Julia A Yaglom|Jonathan W Wojtkowiak|Jacob G Scott|David L Morse|Michael Y Sherman|Leonid A Mirny Department of Biology, Stanford University, Stanford, CA, USA;|Department of Biochemistry, Boston University School of Medicine, Boston, MA,;|Department of Cancer Imaging and Metabolism, H. Lee Moffitt Cancer Center and Research Institute, Ta;|Integrated Mathematical Oncology Department, H. Lee Moffitt Cancer Center and Research Institute, Ta;|Department of Biochemistry, Boston University School of Medicine, Boston, MA, USA;|Institute for Medical Engineering and Sciences, Massachusetts Institute of Technology, Cambridge, MA
http://dx.doi.org/10.1101/024158 2015-09-08 Bioengineering CC BY-NC-ND A digital approach to protein identification and quantity estimation using tandem nanopores, peptidases, and database search G Sampath Unaffiliated
http://dx.doi.org/10.1101/026260 2015-09-07 Evolutionary Biology Quantitative Genetics Meets Integral Projection Models: Unification of Widely Used Methods from Ecology and Evolution Tim Coulson|Floriane Plard|Susanne Schindler|Arpat Ozgul|Jean-Michel Gaillard Oxford;|Stanford University;|Zurich;|University of Lyon
http://dx.doi.org/10.1101/026229 2015-09-07 Biophysics Exact solutions of coupled multispecies linear reaction-diffusion equations on a uniformly growing domain Matthew Simpson|Jesse Sharp|Liam Morrow|Ruth Baker Queensland University of Technology;|Univeristy of Oxford
http://dx.doi.org/10.1101/026252 2015-09-07 Evolutionary Biology Selection for mitochondrial quality drives the evolution of sexes with a dedicated germline Arunas Radzvilavicius|Zena Hadjivasiliou|Nick Lane|Andrew Pomiankowski University College London
http://dx.doi.org/10.1101/024927 2015-09-07 Genomics CC BY-NC-ND The vgll3 locus controls age at maturity in wild and domesticated Atlantic salmon(Salmo salar L.) males Fernando Ayllon|Erik Kjrner-Semb|Tomasz Furmanek|Vidar Wennevik|Monica F Solberg|Geir Dahle|Geir Lasse Taranger|Kevin A Glover|Markus S Almen|Carl J Rubin|Rolf B Edvardsen|Anna Wargelius Institute of Marine Research;|Uppsala Universitet
http://dx.doi.org/10.1101/022178 2015-09-07 Evolutionary Biology CC BY-NC-ND Low but significant genetic differentiation underlies biologically meaningful phenotypic divergence in a large Atlantic salmon population Tutku Aykanat|Susan E Johnston|Panu Orell|Eero Niemela|Jaakko Erkinaro|Craig R Primmer University of Turku;|University of Edinburgh;|Natural Resource Institute Finland
http://dx.doi.org/10.1101/026203 2015-09-06 Evolutionary Biology Overlapping Genes and Size Constraints in Viruses - An Evolutionary Perspective Nadav Brandes|Michal Linial The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/025734 2015-09-06 Ecology CC BY-NC-ND Sampling networks of ecological interactions Pedro Jordano Estacion Biologica de Donana, EBD-CSIC
http://dx.doi.org/10.1101/018846 2015-09-06 Biochemistry A novel SOD1-dependent mechanism for the iron-induced production of toxic SOD1 and oxidative stress that initiates ALS Liang Zhong Lim|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/026161 2015-09-06 Crucial Roles of the Arp2/3 Complex during Mammalian Corticogenesis Pei-Shan Wang|Fu-Sheng Chou|Fengli Guo|Praveen Suraneni|Sheng Xia|Sree Ramachandran|Rong Li Stowers Institute for Medical Research;|Boston Children's Hospital;|Northwestern University;|Johns Hopkins University
http://dx.doi.org/10.1101/026195 2015-09-06 Microbiology CC BY-NC-ND Prediction of Hfq in actinobacteria Nagamani Bora|Alan C Ward|Wonyong Kim Nottingham University;|Newcastle University;|Chung Ang University
http://dx.doi.org/10.1101/026013 2015-09-04 Evolutionary Biology CC BY-NC-ND Evolutionary dynamics of roX lncRNA function and genomic occupancy Jeffrey Jerome Quinn|Qiangfeng C Zhang|Plamen Georgiev|Ibrahim A Ilik|Asifa Akhtar|Howard Y Chang Stanford University;|Tsinghua University;|Max Planck Institute;|Max Planck Institute of Immunobiology and Epigenetics
http://dx.doi.org/10.1101/026021 2015-09-04 Evolutionary Biology Evolutionary quantitative genomics of Populus trichocarpa Ilga Porth|Jaroslav Klapste|Athena D McKown|Jonathan La Mantia|Robert D Guy|Paer K Ingvarsson|Richard Hamelin|Shawn D Mansfield|Juergen Ehlting|Carl J Douglas|Yousry A El-Kassaby Universite Laval;|University of British Columbia;|Umea University;|University of Victoria
http://dx.doi.org/10.1101/025999 2015-09-03 Bioinformatics CC BY Privacy-Preserving Microbiome Analysis Using Secure Computation Justin Wagner|Joseph N. Paulson|Xiao-Shun Wang|Bobby Bhattacharjee|Hector Corrada Bravo University of Maryland, College Park, Center for Bioinformatics and Computational Biology;|University of Maryland, College Park, Maryland Cybersecurity Center;|University of Maryland
http://dx.doi.org/10.1101/026088 2015-09-03 Evolutionary Biology Genetic evidence challenges the native status of a threatened freshwater fish (Carassius carassius) in England Daniel L Jeffries|Gordon H Copp|Lori-Jayne Lawson Handley|Carl D Sayer|Bernd Hanfling University of Hull, UK;|Salmon & Freshwater Team, Cefas and Bournemouth University, UK;|University College London, UK
http://dx.doi.org/10.1101/026062 2015-09-03 Bioinformatics CC BY-NC-ND A Comparison of Methods: Normalizing High-Throughput RNA Sequencing Data Rahul Reddy Stanford University
http://dx.doi.org/10.1101/026112 2015-09-03 Microbiology Cationic Peptides Facilitate Iron-induced Mutagenesis in Bacteria Alexandro Rodriguez-Rojas|Olga Makarova|Uta Mueller|Jens Rolff Free University of Berlin
http://dx.doi.org/10.1101/013243 2015-09-03 Developmental Biology CC BY-NC-ND Testis-expressed cluster of microRNAs 959-964 controls spermatid differentiation in Drosophila Sergei Ryazansky|Elena Mikhaleva|Natalia Akulenko|Oxana Olenkina Institute of Molecular Genetics
http://dx.doi.org/10.1101/026039 2015-09-03 Immunology CC BY-NC-ND Small Heat Shock Proteins and Eicosanoid Pathways Modulate Caspase-1 Activity in the Fat Bodies of Antheraea pernyi Cong fen Zhang|Lei Wang|Guoqing Wei|Cen Qian|Lishang Dai|Yu Sun|Bao jian Zhu|Chao liang Liu College of Life Science and Engineering, Southwest University of Science and Technology, China;|College of Life Sciences, Anhui Agricultural University, China
http://dx.doi.org/10.1101/026005 2015-09-02 Biochemistry CC BY A Novel Method and Simple On-line Tool for Maximum Likelihood Calibration of Immunoblots and other Measurements that are Quantified in Batches Steven S Andrews|Suzannah Rutherford Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/025957 2015-09-02 Evolutionary Biology CC BY-NC-ND Extreme Mitogenomic Variation Without Cryptic Speciation in Chaetognaths Ferdinand Marletaz|Yannick Le Parco|Shenglin Liu|Katja Peijnenburg University of Oxford;|Aix-Marseille Universite;|University of Amsterdam
http://dx.doi.org/10.1101/025973 2015-09-02 Evolutionary Biology Comparing RADseq and microsatellites to infer complex phylogeographic patterns, a real data informed perspective in the Crucian carp, Carassius carassius, L. Daniel L Jeffries|Gordon H Copp|Lori-Jayne Lawson Handley|Hakan Olsen|Carl D Sayer|Bernd Hanfling Evolutionary Biology Group, School of Biological, Biomedical and Environmental Sciences, Hardy Build;|Salmon & Freshwater Team, Cefas, Pakefield Road, Lowestoft, Suffolk NR33 0HT, UK, and Departme;|Södertörn University;|Environmental Change Research Centre, Department of Geography, University College London, Pearson Bu
http://dx.doi.org/10.1101/017913 2015-09-02 Evolutionary Biology CC BY-NC-ND Brain composition in Heliconius butterflies, post-eclosion growth and experience dependent neuropil plasticity Stephen H Montgomery|Richard M Merrill|Swidbert R Ott University College London;|University of Cambridge;|University of Leicester
http://dx.doi.org/10.1101/025916 2015-09-02 Genomics Brain Transcriptional Profiles of Male Alternative Reproductive Tactics in Bluegill Sunfish Charlyn Partridge|Matthew MacManes|Rosemary Knapp|Bryan Neff Grand Valley State University;|University of New Hampshire;|University of Oklahoma;|University of Western Ontario
http://dx.doi.org/10.1101/025908 2015-09-01 Cancer Biology The landscape of T cell infiltration in human cancer and its association with antigen presenting gene expression Yasin Senbabaoglu|Andrew G Winer|Ron S Gejman|Ming Liu|Augustin Luna|Irina Ostrovnaya|Nils Weinhold|William Lee|Samuel D Kaffenberger|Ying Bei Chen|Martin H Voss|Jonathan A Coleman|Paul Russo|Victor E Reuter|Timothy A Chan|Emily H Cheng|David A Scheinberg|Ming O Li|James J Hsieh|Chris Sander|Ari Hakimi Memorial Sloan Kettering Cancer Center;|Memorial Sloan Kettering Cancer Cente
http://dx.doi.org/10.1101/025866 2015-09-01 Evolutionary Biology Incomplete domestication of South American grain amaranth (Amaranthus caudatus) from its wild relatives Markus G Stetter|Thomas Muller|Karl Schmid University of Hohenheim
http://dx.doi.org/10.1101/025858 2015-09-01 Bioinformatics CC BY-ND Teaser: Individualized benchmarking and optimization of read mapping results for NGS data Moritz Smolka|Philipp Rescheneder|Michael C Schatz|Arndt von Haeseler|Fritz J Sedlazeck Max F. Perutz Laboratories;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/024422 2015-09-01 Animal Behavior and Cognition How can we study the evolution of animal minds? Maxime Cauchoix|Alexis Chaine IAST;|SEEM
http://dx.doi.org/10.1101/025890 2015-09-01 Molecular Biology CC BY Sampling the conformational space of the catalytic subunit of human γ-secretase Xiao-chen Bai|Eeson Rajendra|Guanghui Yang|Yigong Shi|Sjors Scheres MRC Laboratory of Molecular Biology;|Tsinghua University
http://dx.doi.org/10.1101/025882 2015-09-01 Developmental Biology Species Tailoured Contribution of Volumetric Growth and Tissue Convergence to Posterior Body Elongation in Vertebrates Benjamin Steventon|Fernando Duarte|Ronan Lagadec|Sylvie Mazan|Jean-François Nicolas|Estelle Hirsinger University of Cambridge;|Universite Paul Sabatier;|Station Biologique, Roscoff;|Institut Pasteur;|Institut Biologie Paris Seine
http://dx.doi.org/10.1101/025841 2015-09-01 Systems Biology CC BY-NC-ND Protein homeostasis imposes a barrier on functional integration of horizontally transferred genes in bacteria Shimon Bershtein|Adrian Serohijos|Sanchari Bhattacharyya|Michael Manhart|Jeong-Mo Choi|Wangmen Mu|Jingwen Zhou|Eugene Shakhnovich Hatvard and Ben Gurion University of the Negev;|Harvard and University of Montreal;|Harvard University;|3State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, Jiangsu, China;|4School of Biotechnology and Key Laboratory of Industrial Biotechnology, Ministry of Education, Jian
http://dx.doi.org/10.1101/023523 2015-09-01 Neuroscience CC BY Estimating directed connectivity from cortical recordings and reconstructed sources Margarita Papadopoulou|Karl J Friston|Daniele Marinazzo University of Ghent;|The Wellcome Trust Centre for Neuroimaging, University College London
http://dx.doi.org/10.1101/025411 2015-09-01 Bioinformatics CC BY-NC-ND Modelizing Drosophila melanogaster longevity curves using a new discontinuous 2-Phases of Aging model Herve Tricoire|Michael Rera Université Paris Diderot/CNRS
http://dx.doi.org/10.1101/025791 2015-08-31 Genomics CC BY Genome-wide characterization of PRE-1 reveals a hidden evolutionary relationship between suidae and primates Hao Yu|Qingyan Wu|Jing Zhang|Ying Zhang|Chao Lu|Yunyun Cheng|Zhihui Zhao|Andreas Windemuth|Di Liu|Linlin Hao College of Animal Science, Jilin University;|Abcam, Firefly BioWorks Inc, United States;|Heilongjiang Academy of Agricultural Sciences
http://dx.doi.org/10.1101/025817 2015-08-31 Neuroscience CC BY-NC-ND Change Blindness in 3D Virtual Reality Madis Vasser|Markus Kangsepp|Jaan Aru Institute of Psychology, University of Tartu;|Institute of Computer Science, University of Tartu
http://dx.doi.org/10.1101/025742 2015-08-30 Ecology CC BY-NC-ND Do we need demographic data to forecast population responses to climate change? Andrew T. Tredennick|Peter B. Adler Utah State University
http://dx.doi.org/10.1101/025726 2015-08-29 Ecology CC BY Phylogenetic community structure metrics and null models: a review with new methods and software Eliot T Miller|Damien R Farine|Christopher H Trisos University of Idaho;|Oxford University; Smithsonian Tropical Research Institute;|South African Environmental Observation Network
http://dx.doi.org/10.1101/016733 2015-08-29 Biophysics CC BY Mapping the Conformational Landscape of a Dynamic Enzyme by XFEL and Multitemperature Crystallography Daniel A Keedy|Lillian R Kenner|Matthew Warkentin|Rahel Woldeyes|Michael C Thompson|Aaron S Brewster|Andrew H Van Benschoten|Elizabeth L Baxter|Jesse B Hopkins|Monarin Uervirojnangkoorn|Scott E McPhillps|Jinhu Song|Roberto Alonso-Mori|James M Holton|William I Weis|Axel T Brunger|S. Michael Soltis|Henrik Lemke|Ana Gonzalez|Nicholas K Sauter|Aina E Cohen|Henry van den Bedem|Robert E Thorne|James Fraser UCSF;|Cornell;|LBNL;|SLAC;|Stanford
http://dx.doi.org/10.1101/025650 2015-08-29 Bioinformatics CC BY Genome scaffolding with PE-contaminated mate-pair libraries Kristoffer Sahlin|Rayan Chikhi|Lars Arvestad Computational Biology;|University of Lille 1;|Stockholm University
http://dx.doi.org/10.1101/025700 2015-08-29 Evolutionary Biology CC BY-NC-ND The mysterious orphans of Mycoplasmataceae Tatiana Tatarinova|Inna Lysnyansky|Yuri Nikolsky|Alexander Bolshoy USC;|M\;|Skolkovo Foundation;|University of Haifa
http://dx.doi.org/10.1101/025767 2015-08-29 Bioinformatics CC BY Modeling of RNA-seq fragment sequence bias reduces systematic errors in transcript abundance estimation Michael I Love|John B Hogenesch|Rafael A Irizarry Harvard TH Chan School of Public Health;|Perelman School of Medicine, University of Pennsylvania;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/025635 2015-08-28 Neuroscience Tissue-specific tagging of endogenous loci in Drosophila melanogaster Kate Koles|Anna R Yeh|Avital A Rodal Brandeis University
http://dx.doi.org/10.1101/025676 2015-08-28 Bioinformatics Simultaneously inferring T cell fate and clonality from single cell transcriptomes Michael J.T. Stubbington|Tapio Lonnberg|Valentina Proserpio|Simon Clare|Anneliese O. Speak|Gordon Dougan|Sarah A. Teichmann EMBL-EBI;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/020974 2015-08-28 Genetics CC BY Identification of Slco1a6 as a candidate gene that broadly affects gene expression in mouse pancreatic islets Jianan Tian|Mark P. Keller|Angie T. Oler|Mary E. Rabaglia|Kathryn L. Schueler|Donald S. Stapleton|Aimee Teo Broman|Wen Zhao|Christina Kendziorski|Brian S. Yandell|Bruno Hagenbuch|Karl W Broman|Alan D. Attie University of Wisconsin-Madison;|University of Kansas Medical Center
http://dx.doi.org/10.1101/018952 2015-08-27 Ecology CC BY-NC Invasive plants as novel food resources, the pollinators' perspective Ignasi Bartomeus|Jochen Frund|Neal M. Williams EBD-CSIC;|University of Guelph;|University of California
http://dx.doi.org/10.1101/025619 2015-08-27 Genetics Implications of simplified linkage equilibrium SNP simulation Sang Hong Lee University of New England
http://dx.doi.org/10.1101/025486 2015-08-27 Ecology Resurrection of the island rule – human-driven extinctions have obscured a basic evolutionary pattern Sren Faurby|Jens-Christian Svenning Aarhus University
http://dx.doi.org/10.1101/025601 2015-08-27 Genetics CC BY-ND Genome wide estimates of mutation rates and spectrum in Schizosaccharomyces pombe indicate CpG sites are highly mutagenic despite the absence of DNA methylation Megan G Behringer|David W Hall University of Georgia
http://dx.doi.org/10.1101/025585 2015-08-26 Genomics Determinants of RNA metabolism in the Schizosaccharomyces pombe genome Philipp Eser|Leonhard Wachutka|Kerstin C Maier|Carina Demel|Mariana Boroni|Srignanakshi Iyer|Patrick Cramer|Julien Gagneur Max-Planck-Institute for Biophysical Chemistry;|Ludwig-Maximilians Universität
http://dx.doi.org/10.1101/025544 2015-08-26 Ecology CC BY Re-examining the relationship between virus and microbial cell abundances in the global oceans Charles H. Wigington|Derek L. Sonderegger|Corina P.D. Brussaard|Alison Buchan|Jan F. Finke|Jed Fuhrman|Jay T. Lennon|Mathias Middelboe|Curtis A. Suttle|Charles Stock|William H. Wilson|K. Eric Wommack|Steven W. Wilhelm|Joshua S. Weitz Georgia Institute of Technology;|Northern Arizona University;|University of Amsterdam, The Netherlands;|University of Tennessee-Knoxville;|University of British Columbia;|University of Southern California;|Indiana University;|University of Copenhagen;|Geophysical Fluid Dynamics Laboratory;|Plymouth Marine Laboratory;|Delaware Biotechnology Institute
http://dx.doi.org/10.1101/025502 2015-08-26 Evolutionary Biology CC BY-NC-ND Fitness-valley crossing with generalized parent-offspring transmission Matthew Osmond|Sarah P Otto University of British Columbia
http://dx.doi.org/10.1101/025445 2015-08-25 Cancer Biology A comparative analysis of network mutation burdens across 21 tumor types augments discovery from cancer genomes Heiko Horn|Michael S. Lawrence|Jessica Xin Hu|Elizabeth Worstell|Nina Ilic|Yashaswi Shrestha|Eejung Kim|Atanas Kamburov|Alireza Kashani|William C. Hahn|Jesse S. Boehm|Gad Getz|Kasper Lage Massachusetts General Hospital;|The Broad Institute of MIT and Harvard;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/025510 2015-08-25 Systems Biology CC BY-NC-ND Systems Biology Approach to Model the Life Cycle of Trypanosoma cruzi Alejandra Carrea|Luis Diambra Universidad Nacional de La Plata
http://dx.doi.org/10.1101/025429 2015-08-25 Cancer Biology CC BY-NC-ND Further genetic diversification in multiple tumors and an evolutionary perspective on therapeutics Yong Tao|Zheng Hu|Shaoping Ling|Shiou-Hwie Yeh|Weiwei Zhai|Ke Chen|Chunyan Li|Yu Wang|Kaile Wang|Hurng-Yi Wang|Eric A Hungate|Kenan Onel|Jiang Liu|Changqing Zeng|Richard R Hudson|Pei-Jer Chen|Xuemei Lu|Chung-I Wu Beijing Institute of Genomics, Chinese Academy of Sciences;|National Taiwan University and Hospital;|Department of Ecology and Evolution, University of Chicago;|Department of Pediatrics, University of Chicago
http://dx.doi.org/10.1101/025361 2015-08-25 Ecology Leaf traits drive differences in biomass partitioning among major plant functional types Remko A Duursma|Daniel S Falster University of Western Sydney;|Macquarie University
http://dx.doi.org/10.1101/025452 2015-08-25 Systems Biology CC BY-NC-ND Determination of Ubiquitin Fitness Landscapes Under Different Chemical Stresses in a Classroom Setting David Mavor|James Fraser UCSF
http://dx.doi.org/10.1101/025437 2015-08-25 Bioinformatics CC BY-NC-ND OEFinder: A user interface to identify and visualize ordering effects in single-cell RNA-seq data Ning Leng|Jeea Choi|Li-Fang Chu|James Thomson|Christina Kendziorski|Ron Stewart Morgridge Institute for Research;|University of Wisconsin Madison
http://dx.doi.org/10.1101/025288 2015-08-25 Cell Biology CC BY Strong Components of Epigenetic Memory in Cultured Human Fibroblasts Related to Site of Origin and Donor Age Nikolay A Ivanov|Ran Tao|Joshua G Chenoweth|Anna Brandtjen|Michelle I Mighdoll|John D Genova|Ronald D McKay|Yankai Jia|Daniel R Weinberger|Joel E Kleinman|Thomas M Hyde|Andrew E Jaffe Lieber Institute for Brain Development
http://dx.doi.org/10.1101/013474 2015-08-24 Evolutionary Biology CC BY A Spatial Framework for Understanding Population Structure and Admixture. Gideon Bradburd|Peter L. Ralph|Graham Coop University of California, Davis;|University of Southern California
http://dx.doi.org/10.1101/025114 2015-08-24 Neuroscience Control of sensory ectopic spike initiation by descending modulatory projection neurons Carola Stadele|Wolfgang Stein Ulm University;|Illinois State University
http://dx.doi.org/10.1101/025247 2015-08-24 Developmental Biology The beetle amnion and serosa functionally interact as apposed epithelia Stefan Koelzer|Maarten Hilbrant|Thorsten Horn|Kristen A. Panfilio University of Cologne
http://dx.doi.org/10.1101/025379 2015-08-24 Genetics Construction of relatedness matrices using genotyping-by-sequencing data Ken G Dodds|John C McEwan|Rudiger Brauning|Rayna M Anderson|Tracey C van Stijn|Theodor Kristjansson|Shannon M Clarke AgResearch;|Stofnfiskur
http://dx.doi.org/10.1101/025353 2015-08-24 Evolutionary Biology CC BY-NC-ND Phylogeographic Inference Using Approximate Likelihoods Brian C O'Meara|Nathan D Jackson|Ariadna E Morales-Garcia|Bryan C Carstens University of Tennessee-Knoxville;|The Ohio State University
http://dx.doi.org/10.1101/012757 2015-08-24 Evolutionary Biology CC BY Selection against maternal microRNA target sites in maternal transcripts Antonio Marco University of Essex
http://dx.doi.org/10.1101/025346 2015-08-23 Biophysics Cell-cell communication enhances the capacity of cell ensembles to sense shallow gradients during morphogenesis David Ellison|Andrew Mugler|Matthew Brennan|Sung Hoon Lee|Robert Huebner|Eliah Shamir|Laura A Woo|Joseph Kim|Patrick Amar|Ilya Nemenman|Andrew J Ewald|Andre Levchenko Johns Hopkins University;|Purdue University;|Yale University;|Université Paris-Sud;|Emory University
http://dx.doi.org/10.1101/009522 2015-08-23 Physiology CC BY Viscous deformation of relaxing ventricle and pulsatile blood propelling (numerical model) Yuri Kamnev private initiative
http://dx.doi.org/10.1101/025254 2015-08-23 Evolutionary Biology CC BY-NC-ND The marbled crayfish as a paradigm for saltational speciation by autopolyploidy and parthenogenesis in animals Gunter Vogt|Cassandra Falckenhayn|Anne Schrimpf|Katharina Schmid|Katharina Hanna|Jorn Panteleit|Mark Helm|Ralf Schulz|Frank Lyko Deutsches Krebsforschungszentrum;|University of Koblenz-Landau;|University of Mainz
http://dx.doi.org/10.1101/014803 2015-08-22 Bioinformatics CC BY-NC-ND dbSUPER: a database of super-enhancers in mouse and human genome Aziz Khan|Xuegong Zhang Bioinformatics Division, TNLIST/ Department of Automation, Tsinghua University, China
http://dx.doi.org/10.1101/025148 2015-08-22 Genetics CC BY Snake venom gland cDNA sequencing using the Oxford Nanopore MinION portable DNA sequencer John F Mulley|Adam D Hargreaves Bangor University;|Oxford University
http://dx.doi.org/10.1101/024448 2015-08-21 Bioinformatics CC BY Fasta-O-Matic: a tool to sanity check and if needed reformat FASTA files Jennifer Marie Shelton|Susan J Brown Kansas State University
http://dx.doi.org/10.1101/025221 2015-08-21 Cell Biology CC BY-ND A transient ischemic environment induces reversible compaction of chromatin Ina Kirmes|Aleksander Szczurek|Kirti Prakash|Iryna Charapitsa|Christina Heiser|Michael Musheev|Florian Schock|Karolina Fornalczyk|Dongyu Ma|Udo Birk|Christoph Cremer|George Reid Institute of Molecular Biology, Mainz;|Department of Molecular Biophysics, University of Łódź, Poland.;|Centre for Biomedicine and Medical Technology Mannheim;|Institute for Molecular Biology, Mainz
http://dx.doi.org/10.1101/025239 2015-08-21 Bioengineering Integrating Gene Synthesis and Microfluidic Protein Analysis for Rapid Protein Engineering Matthew C Blackburn|Ekaterina Petrova|Bruno E Correia|Sebastian Josef Maerkl Institute of Bioengineering, School of Engineering, EPFL
http://dx.doi.org/10.1101/025262 2015-08-21 Bioinformatics A Graph Theoretical Approach to Data Fusion Justina Zurauskiene|Paul DW Kirk|Michael PH Stumpf Imperial College London;|MRC Biostatistics Unit
http://dx.doi.org/10.1101/025197 2015-08-21 Cancer Biology Why cancer cells have a more hyperpolarised mitochondrial membrane potential and emergent prospects for therapy Michael D Forrest University of Warwick
http://dx.doi.org/10.1101/025205 2015-08-21 Molecular Biology CC BY-NC-ND A novel recombinant DNA system for high efficiency affinity purification of proteins in Saccharomyces cerevisiae Brian H Carrick|Lixuan HaO|Philip J Smaldino|David R Engelke University of Michigan, United States;|Washington University in St. Louis, United States
http://dx.doi.org/10.1101/025189 2015-08-21 Animal Behavior and Cognition Pollen contaminated with field-relevant levels of cyhalothrin affects honey bee survival, nutritional physiology, and pollen consumption behavior Adam G Dolezal|Jimena Carrillo-Tripp|Wyatt Allen Miller|Bryony B Bonning|Amy L Toth Iowa State University
http://dx.doi.org/10.1101/025064 2015-08-20 Bioinformatics CC BY SFS_CODE: More Efficient and Flexible Forward Simulations Ryan D. Hernandez|Lawrence H. Uricchio UCSF;|Stanford University
http://dx.doi.org/10.1101/025098 2015-08-20 Bioinformatics CC BY Statistical Inference of a Convergent Antibody Repertoire Response to Influenza Vaccine Nicolas Strauli|Ryan Hernandez University of California, San Francisco;|UCSF
http://dx.doi.org/10.1101/025171 2015-08-20 Microbiology CC BY-NC-ND Shift and adapt: the costs and benefits of karyotype variations Aleeza C Gerstein|Judith Berman University of Minnesota;|Tel Aviv University
http://dx.doi.org/10.1101/025130 2015-08-20 Genomics Timing and scope of genomic expansion within Annelida: evidence from homeoboxes in the genome of the earthworm Eisenia fetida Allison S Zwarycz|Carlos W Nossa|Nicholas H Putnam|Joseph Ryan Whitney Laboratory for Marine Bioscience;|Rice University
http://dx.doi.org/10.1101/025106 2015-08-20 Evolutionary Biology Genomic and gene-expression comparisons among phage-resistant type-IV pilus mutants of Pseudomonas syringae pathovar phaseolicola Mark J Sistrom|Derek Park|Heath O'Brien|Zheng Wang|David Guttman|Jeffrey P. Townsend|Paul Turner UC Merced, United States;|Yale University, United States;|University of Toronto, Canada
http://dx.doi.org/10.1101/016485 2015-08-20 Ecology CC BY The structure of probabilistic networks Timothee Poisot|Alyssa Cirtwill|Kevin Cazelles|Dominique Gravel|Marie-Josee Fortin|Daniel Stouffer Université de Montréal;|University of Canterbury;|Université du Qu?bec à Rimouski;|UQAR;|University of Toronto
http://dx.doi.org/10.1101/023432 2015-08-20 Biophysics CC BY-NC Super-resolution imaging reveals structurally distinct periodic patterns of chromatin along pachytene chromosomes Kirti Prakash|David Fournier|Stefan Redl|Gerrit Best|Mate Borsos|Rene Ketting|KiKue Tachibana-Konwalski|Christoph Cremer|Udo Birk Institute of Molecular Biology (IMB), Ackermannweg 4, 55128, Mainz, Germany;|Department of Molecular Spectroscopy, Max Planck Institute for Polymer Research, Ackermannweg 10, 55;|Institute of Molecular Biotechnology of the Austrian Academy of Sciences (IMBA), Vienna Biocenter Ca
http://dx.doi.org/10.1101/024992 2015-08-20 Evolutionary Biology CC BY A simple approach for maximizing the overlap of phylogenetic and comparative data Matthew W. Pennell|Richard G. FitzJohn|William K. Cornwell University of British Columbia;|Macquarie University;|University of New South Wales
http://dx.doi.org/10.1101/025015 2015-08-20 Genomics CC BY-ND Using Ancient Samples in Projection Analysis Melinda A Yang|Montgomery Slatkin UC Berkeley, United States;|University of California, United States
http://dx.doi.org/10.1101/024695 2015-08-20 Evolutionary Biology CC BY-NC-ND Sex-dependent dominance at a single locus maintains variation in age at maturity in Atlantic salmon Nicola J Barson|Tutku Aykanat|Kjetil Hindar|Matthew Baranski|Geir H Bolstad|Peder Fiske|Celeste Jacq|Arne Jensen|Susan E Johnston|Sten Karlsoon|Matthew Kent|Eero Niemela|Torfinn Nome|Tor F Naesje|Panu Orell|Atso Romakkaniemi|Harald Saegrov|Kurt Urdal|Jaakko Erkinaro|Sigbjrn Lien|Craig R Primmer Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences;|University of Turku;|Norwegian Institute for Nature Research;|Nofima;|Norwegian Institute for Nature Research, Trondheim;|University of Edinburgh, UK;|CIGENE and Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences;|Natural Resources Institute Finland, Oulu FI- 90014, FINLAND;|Animal and Aquacultural Sciences, Norwegian University of Life Sciences;|Norwegian Institute for Nature Research (NINA), NO-7485 Trondheim, NORWAY;|Radgivande Biologer, Bergen
http://dx.doi.org/10.1101/024224 2015-08-20 Genomics CC BY-NC-ND Transcriptomic Characterization of Soybean Roots in Response to Bradyrhizobium Infection by RNA Sequencing He Qingyuan|Yang Hongyan|Wu Ping|Li Zhengpeng|Wang Songhua|Zhu Changwei Anhui Science and Technology;|Nanjing Agricultural University
http://dx.doi.org/10.1101/025122 2015-08-20 Zoology The rediscovery of Strix butleri (Hume, 1878) in Oman and Iran, with molecular resolution of the identity of Strix omanensis Robb, van den Berg and Constantine, 2013 Magnus S. Robb|George Sangster|Mansour Aliabadian|Arnoud B. van den Berg|Mark Constantine|Martin Irestedt|Ali Khani|Seyed Babak Musavi|Joao M. G. Nunes|Maia Sarrouf Willson|Alyn J. Walsh The Sound Approach;|Swedish Museum of Natural History;|Ferdowsi University of Mashh;|Khorasan-e Razavi Provincial Office of the Department of the Environment, Mashhad;|Nature photographer, Mashhad;|Parque Ecológico do Funchal;|Environment Society of Oman;|Wildfowl Reserve, North Slobland, Wexford, Ireland
http://dx.doi.org/10.1101/025023 2015-08-20 Microbiology CC BY-NC-ND Efficient Disruption and Replacement of an Effector Gene in the Oomycete Phytophthora sojae using CRISPR/Cas9 Yufeng Fang|Brett M Tyler Oregon State University
http://dx.doi.org/10.1101/013847 2015-08-19 Bioinformatics The LUX Score: A Metric for Lipidome Homology Chakravarthy Marella|Andrew Torda|Dominik Schwudke Research Center Borstel;|Hamburg University
http://dx.doi.org/10.1101/024570 2015-08-19 Genetics CC BY-NC A computational approach to estimating nondisjunction frequency in Saccharomyces cerevisiae Daniel Chu|Sean M Burgess UC Davis;|University of California, Davis
http://dx.doi.org/10.1101/023978 2015-08-19 Bioinformatics|Evolutionary Biology CC BY-NC-ND The impact of partitioning on phylogenomic accuracy Diego Darriba|David Posada Heidelberg Institute for Theoretical Studies;|Universidad de Vigo
http://dx.doi.org/10.1101/020966 2015-08-18 Bioinformatics CC BY Tools and pipelines for BioNano data: molecule assembly pipeline and FASTA super scaffolding tool Jennifer Marie Shelton|Michelle C Coleman|Nic Herndon|Nanyan Lu|Ernest T Lam|Thomas Anantharaman|Palak Sheth|Susan J Brown Kansas State University;|BioNano Genomics
http://dx.doi.org/10.1101/021832 2015-08-18 Genetics CC BY-ND Concerted activities of Mcm4, Sld3 and Dbf4 in control of origin activation and DNA replication fork progression Yi-Jun Sheu|Justin B Kinney|Bruce Stillman C;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/024976 2015-08-18 Bioinformatics CC BY-NC-ND Genome ARTIST: a robust, high-accuracy aligner tool for mapping transposon insertions and self-insertions Alexandru Al. Ecovoiu|Iulian Constantin Ghionoiu|Andrei Mihai Ciuca|Attila Cristian Ratiu Department of Genetics; Faculty of Biology; University of Bucharest; Bucharest; Romania;|Exenne Technologies; Pitesti; Romania
http://dx.doi.org/10.1101/024893 2015-08-18 Bioinformatics CC BY-NC-ND WMP: A novel comprehensive wheat miRNA database, including related bioinformatics software Mohamed Amine Remita|Etienne Lord|Zahra Agharbaoui|Mickael Leclercq|Mohamed Badawi|Vladirmir Makarenkov|Fathey Sarhan|Abdoulaye Banire Diallo Université du Québec à Montréal;|McGill University
http://dx.doi.org/10.1101/024794 2015-08-18 Neuroscience The human experience with intravenous levodopa Shan H Siddiqi|Natalia K Abraham|Christopher L Geiger|Morvarid Karimi|Joel S Perlmutter|Kevin J Black Washington University School of Medicine;|University of Ottawa;|University of Washington, Seattle
http://dx.doi.org/10.1101/024877 2015-08-18 Scientific Communication CC BY Classifying Aging as a Disease in the context of ICD-11 Alex Zhavoronkov|Bhupinder Bhullar The Biogerontology Research Foundation;|Novartis Pharma AG
http://dx.doi.org/10.1101/024935 2015-08-17 Genomics CC BY-NC-ND CG methylation covaries with differential gene expression between leaf and floral bud tissues of Brachypodium distachyon Kyria Roessler|Shohei Takuno|Brandon Gaut UC Irvine;|Graduate University for Advanced Studies
http://dx.doi.org/10.1101/024281 2015-08-17 Evolutionary Biology CC BY Life history effects on the molecular clock of autosomes and sex chromosomes Guy Amster|Guy Sella Columbia University
http://dx.doi.org/10.1101/024844 2015-08-17 Molecular Biology CC BY TET1 Modulates H4K16 Acetylation by Interacting with hMOF to Regulate Expression of DNA Repair Genes and Oncogenic Transformation Jianing Zhong|Xianfeng Li|Wanshi Cai|Yan Wang|Shanshan Dong|Jianan Zhang|Jie Yang|Kangli Wang|Fengbiao Mao|Cheng Zeng|Yuanyuan Li|Jinyu Wu|Huanming Yang|Xingzhi Xu|Zhong Sheng Sun Institute of Genomic Medicine, Wenzhou Medical University;|Beijing Institutes of Life Science, Chinese Academy of Sciences;|Beijing Key Laboratory of DNA Damage Response and College of Life Sciences, Capital Normal Universit
http://dx.doi.org/10.1101/024745 2015-08-17 Bioinformatics CC BY-NC-ND Data science identifies novel drug interactions that prolong the QT interval Tal Lorberbaum|Kevin J Sampson|Raymond L Woosley|Robert S Kass|Nicholas P Tatonetti Columbia University;|AZCERT, Inc.
http://dx.doi.org/10.1101/024828 2015-08-17 Immunology CC BY-NC-ND Dynamical System Modeling to Simulate Donor T Cell Response to Whole Exome Sequencing-Derived Recipient Peptides Demonstrates Different Alloreactivity Potential In HLA-Matched and Mismatched Donor-Recipient Pairs Badar Abdul Razzaq|Allison Scalora|Vishal Koparde|Jeremy Meier|Musa Mahmood|Salman Salman|Max Jameson-Lee|Myrna Serrano|Nihar Sheth|Mark Voelkner|David Kobulnicky|Catherine Roberts|Andrea Ferreira-Gonzalez|Masoud Manjili|Gregory Buck|Michael Neale|Amir Toor Virginia Commonwealth University, Richmond, VA
http://dx.doi.org/10.1101/024810 2015-08-17 Synthetic Biology Quorum-sensing synchronization of synthetic toggle switches: A design based on monotone dynamical systems theory Evgeni Nikolaev|Eduardo Sontag Rutgers
http://dx.doi.org/10.1101/019554 2015-08-17 Evolutionary Biology CC BY-NC-ND Shifts in diversification rates linked to biogeographic movement into new areas, an example of disparate continental distributions and a recent radiation in the Andes Simon Uribe-Convers|David C Tank University of Idaho
http://dx.doi.org/10.1101/024679 2015-08-16 Bioinformatics CC BY Cookiecutter: a tool for kmer-based read filtering and extraction Ekaterina Starostina|Gaik Tamazian|Pavel Dobrynin|Stephen O'Brien|Aleksey Komissarov 2Center for Algorithmic Biotechnology, Institute of Translational Biomedicine, St. Petersburg State;|Theodosius Dobzhansky Center for Genome Bioinformatics, St. Petersburg State University
http://dx.doi.org/10.1101/024737 2015-08-16 Bioinformatics CC BY-NC-ND Optimal Point Process Filtering of the Coalescent Process Kris V Parag|Oliver G Pybus University of Oxford
http://dx.doi.org/10.1101/024711 2015-08-14 Evolutionary Biology CC BY-ND Genome divergence and gene flow between Drosophila simulans and D. mauritiana Sarah B. Kingan|Anthony J. Geneva|Jeffrey P. Vedanayagam|Daniel Garrigan University of Rochester
http://dx.doi.org/10.1101/024661 2015-08-14 Cell Biology CC BY-NC-ND Evidence of a role for radiation-induced lysosomal damage in non-targeted effects: an experimental and theoretical analysis Scott Bright|Alexander George Fletcher|David Fell|Munira A. Kadhim Oxford Brookes University;|University of Oxford
http://dx.doi.org/10.1101/024646 2015-08-14 Genomics An integrative model of leukocyte genomics and organ dysfunction in heart failure patients requiring mechanical circulatory support Nicholas Wisniewski|Galyna Bondar|Christoph Rau|Jay Chittoor|Eleanor Chang|Azadeh Esmaeili|Mario Deng University of California, Los Angeles
http://dx.doi.org/10.1101/024653 2015-08-14 Neuroscience Synergy of AMPA and NMDA receptor currents in dopaminergic neurons: a modeling study Denis Zakharov|Lapis Christopher|Boris Gutkin|Alexey Kuznetsov Nonlinear dynamics department, Institute of Applied Physics, RAS;|Department of Psychology, IUPUI;|Group of Neural Theory, ENS;|Department of Mathematical Sciences, IUPUI
http://dx.doi.org/10.1101/024174 2015-08-13 Neuroscience Can mindfulness meditation alter consciousness? An integrative interpretation Jordi Manuello|Ugo Vercelli|Andrea Nani|Tommaso Costa|Franco Cauda Università degli studi di Torino;|University of Turin
http://dx.doi.org/10.1101/020917 2015-08-13 Biophysics CC BY-NC-ND CTFFIND4: Fast and accurate defocus estimation from electron micrographs Alexis Rohou|Nikolaus Grigorieff Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/024299 2015-08-13 Synthetic Biology CC BY-ND Complete absence of thebaine biosynthesis under home-brew fermentation conditions Drew Endy|Stephanie Galanie|Christina D Smolke Stanford University
http://dx.doi.org/10.1101/019174 2015-08-13 Immunology The NADPH oxidase and microbial killing by neutrophils, with a particular emphasis on the proposed antimicrobial role of myeloperoxidase within the phagocytic vacuole Adam P Levine|Anthony W Segal Division of Medicine, University College London
http://dx.doi.org/10.1101/024588 2015-08-13 Genomics Genomic analysis of allele-specific expression in the mouse liver Ashutosh K Pandey|Robert W Williams University of Tennessee Health Science Center, United States
http://dx.doi.org/10.1101/024596 2015-08-13 Evolutionary Biology Successful asexual lineages of the Irish potato Famine pathogen are triploid Ying Li|Qian Zhou|Kun Qian|Theo van der Lee|Sanwen Huang Chinese Academy of Agricultural Sciences;|Plant Research International, Wageningen University
http://dx.doi.org/10.1101/024521 2015-08-13 Neuroscience BRAINformat: A Data Standardization Framework for Neuroscience Data Oliver Rubel|Mr. Prabhat|Peter Denes|David Conant|Edward Chang|Kristofer Bouchard Lawrence Berkeley National Laboratory;|UCSF Medical Center
http://dx.doi.org/10.1101/024497 2015-08-12 Cancer Biology CC BY-ND Comment on "Variation in cancer risk among tissues can be explained by the number of stem cell divisions" Maxime Tarabichi|Vincent Detours IRIBHM - Universite Libre de Bruxelles
http://dx.doi.org/10.1101/019067 2015-08-12 Bioinformatics CC BY-NC Rail-RNA: Scalable analysis of RNA-seq splicing and coverage Abhinav Nellore|Leonardo Collado-Torres|Andrew E Jaffe|Jose Alquicira-Hernandez|Jacob Pritt|James Morton|Jeffrey T Leek|Ben Langmead Johns Hopkins University;|Johns Hopkins Bloomberg School of Public Health;|Lieber Institute for Brain Development;|National Autonomous University of Mexico;|University of Colorado Boulder
http://dx.doi.org/10.1101/024430 2015-08-12 Bioinformatics Fuzzy-FishNet: A highly precise distribution-free network approach for feature selection in clinical proteomics Wilson Wen Bin Goh Tianjin University
http://dx.doi.org/10.1101/024471 2015-08-12 Evolutionary Biology CC BY-NC Gap gene regulatory dynamics evolve along a genotype network Anton Crombach|Karl R Wotton|Eva Jimenez-Guri|Johannes Jaeger Centre for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/024208 2015-08-12 Developmental Biology CC BY Oxygen changes drive non-uniform scaling in Drosophila melanogaster embryogenesis Steven Gregory Kuntz|Michael B. Eisen University of California, Berkeley;|University of California Berkeley
http://dx.doi.org/10.1101/017855 2015-08-12 Genomics CC BY Genome-wide analysis reveals novel regulators of growth in Drosophila melanogaster Sibylle Chantal Vonesch|David Lamparter|Trudy FC Mackay|Sven Bergmann|Ernst Hafen ETH Zurich;|University of Lausanne;|North Carolina State University
http://dx.doi.org/10.1101/024455 2015-08-12 Genomics CC BY-NC-ND Clinical metagenomic identification of Balamuthia mandrillaris encephalitis and assembly of the draft genome: the critical need for reference strain sequencing Alexander L Greninger|Kevin Messacar|Thelma Dunnebacke-Dixon|Samia N Naccache|Scot Federman|Jerome Bouquet|David Mirsky|Yosuke Nomura|Shigeo Yagi|Carol Glaser|Michael Vollmer|Craig A. Press|Bette K Klenschmidt-DeMasters|Samuel R Dominguez|Charles Y Chiu University of California, San Francisco;|University of Colorado;|California Department of Public Health;|Children's Hospital Colorado;|John Muir Hospital
http://dx.doi.org/10.1101/024463 2015-08-12 Genomics CC BY-NC-ND First intron length in mammals is associated with 5′ exon skipping rate Seung Gu Park|Sridhar Hannenhalli Center for Bioinformatics and Computational Biology, University of Maryland, College Park, MD, USA
http://dx.doi.org/10.1101/024398 2015-08-12 Genomics Crowdsourcing: Spatial clustering of low-affinity binding sites amplifies in vivo transcription factor occupancy Justin Malin|Daphne Ezer|Xiaoyan Ma|Steve Mount|Hiren Karathia|Seung Gu Park|Boris Adryan|Sridhar Hannenhalli University of Maryland;|University of Cambridge
http://dx.doi.org/10.1101/002485 2015-08-11 Genomics CC BY Epistasis within the MHC contributes to the genetic architecture of celiac disease Ben Goudey|Gad Abraham|Eder Kikianty|Qiao Wang|Dave Rawlinson|Fan Shi|Izhak Haviv|Linda Stern|Adam Kowalczyk|Michael Inouye NICTA Victoria Research Lab, The University of Melbourne, Parkville, Victoria 3010, Australia;|Medical Systems Biology, Department of Pathology and Department of Microbiology & Immunology, The Un;|Department of Mathematics, University of Johannesburg, PO Box 524, Auckland Park 2006, South Africa;|Bar Ilan University, Safed, Israel;|Centre for Systems Genomics, School of BioSciences, University of Melbourne
http://dx.doi.org/10.1101/024414 2015-08-11 Systems Biology CC BY-NC-ND A Molecular Classification of Human Mesenchymal Stromal Cells Florian Rohart|Elizabeth Mason|Nicholas Matigian|Rowland Mosbergen|Othmar Korn|Tyrone Chen|Suzanne Butcher|Jatin Patel|Kerry Atkinson|Kiarash Khosrotehrani|Nicholas Fisk|Kim-Anh Le Cao|Christine A Wells The University of Queensland
http://dx.doi.org/10.1101/024323 2015-08-11 Genomics CC BY-ND A single chromosome assembly of Bacteroides fragilis strain BE1 from Illumina and MinION nanopore sequencing data Judith Risse|Marian Thomson|Garry Blakely|Georgios Koutsovoulos|Mark Blaxter|Mick Watson University of Edinburgh
http://dx.doi.org/10.1101/024315 2015-08-10 Ecology CC BY-NC A common framework for identifying linkage rules across different types of interactions Ignasi Bartomeus|Dominique Gravel|Jason Tylianakis|Marcelo Aizen|Ian Dickie|Maud Bernard-Verdier Estación Biológica de Doñana (EBD-CSIC);|Université du Québec;|University of Canterbury;|Universidad Nacional del Comahue;|Lincoln University
http://dx.doi.org/10.1101/024349 2015-08-10 Molecular Biology A conserved interaction between a C-terminal motif in Norovirus VPg and the HEAT-1 domain of eIF4G is essential for translation initiation Eoin N Leen|Frederic Sorgeloos|Samantha Correia|Yasmin Chaudhry|Fabien Cannac|Chiara pastore|Yingqi Xu|Stephen C Graham|Stephen J Matthews|Ian G Goodfellow|Stephen Curry Imperial College;|University of Cambridge
http://dx.doi.org/10.1101/024273 2015-08-10 Genomics Endogenous human stem cell-associated retroviruses Gennadi Glinsky University of California, San Diego
http://dx.doi.org/10.1101/024083 2015-08-10 Genetics Integrative approaches for large-scale transcriptome-wide association studies Alexander Gusev|Arthur Ko|Huwenbo Shi|Gaurav Bhatia|Wonil Chung|Brenda WJ Penninx|Rick Jansen|Eco JC de Geus|Dorret I Boomsma|Fred A Wright|Patrick F Sullivan|Elina Nikkola|Marcus Alvarez|Mete Civelek|Aldons J Lusis|Terho Lehtimaki|Emma Raitoharju|Mika Kahonen|Ilkka Seppala|Olli Raitakari|Johanna Kuusisto|Markku Laakso|Alkes L Price|Paivi Pajukanta|Bogdan Pasaniuc Harvard School of Public Health;|UCLA;|VU Medical Center;|VU University;|NC State University;|University of North Carolina;|University of Tampere School of Medicine;|University of Turku;|University of Eastern Finland and Kuopio University Hospital;|University of California Los Angeles
http://dx.doi.org/10.1101/024232 2015-08-10 Bioinformatics CC BY-NC-ND Manta: Rapid detection of structural variants and indels for clinical sequencing applications Xiaoyu Chen|Ole Schulz-Trieglaff|Richard Shaw|Bret Barnes|Felix Schlesinger|Anthony J. Cox|Semyon Kruglyak|Christopher T. Saunders Illumina, Inc;|Illumina Cambridge Ltd.;|Illumina Cambridge Ltd
http://dx.doi.org/10.1101/024356 2015-08-10 Genomics Landscape and dynamics of transcription initiation in the malaria parasite Plasmodium falciparum Sophie Adjalley|Christophe Chabbert|Bernd Klaus|Vicent Pelechano|Lars Steinmetz EMBL
http://dx.doi.org/10.1101/017467 2015-08-10 Ecology CC BY-NC-ND A quantitative review of relationships between ecosystem services Heera Lee|Sven Lautenbach University of Bonn
http://dx.doi.org/10.1101/024190 2015-08-10 Evolutionary Biology CC BY-NC-ND Cross-species transmission and differential fate of an endogenous retrovirus in three mammal lineages Xiaoyu Zhuo|Cedric Feschotte department of human genetics, University of Utah
http://dx.doi.org/10.1101/024240 2015-08-10 Genetics Atp6v1b2 Plays Important Roles in the Early Development of Hearing, the Pectoral Fin, the Cardiovascular System, and the Swim Bladder of the Zebrafish, Supporting a Role for the Gene in Syndromic Hearing Loss Yongyi Yuan|Xue Gao|Feng Xin|Pu Dai Chinese PLA General Hospital, China
http://dx.doi.org/10.1101/023937 2015-08-10 Evolutionary Biology CC BY-NC-ND Distribution of gene tree histories under the coalescent model with gene flow Yuan Tian|Laura Kubatko Department of Evolution, Ecology, and Organismal Biology, The Ohio State University;|Department of Evolution, Ecology, Organismal Biology and Department of Statistics, OSU
http://dx.doi.org/10.1101/024216 2015-08-08 Bioengineering CC BY-NC-ND Targeted insertion in well-characterized Drosophila cell lines using φC31 integrase Lucy Cherbas|Jennifer F. Hackney|Lei Gong|Claire Salzer|Eric Mauser|Dayu Zhang|Peter Cherbas Indiana University, United States;|Arizona State University, United States;|Zhejiang Agriculture and Forestry University, United States
http://dx.doi.org/10.1101/024109 2015-08-07 Evolutionary Biology CC BY-NC More efficacious drugs lead to harder selective sweeps in the evolution of drug resistance in HIV-1 Alison F Feder|Soo-Yon Rhee|Robert W Shafer|Dmitri A Petrov|Pleuni S Pennings Stanford Universoty;|Stanford University;|San Francisco State University
http://dx.doi.org/10.1101/022301 2015-08-07 Bioinformatics CC BY-ND Fast and efficient QTL mapper for thousands of molecular phenotypes Halit Ongen|Alfonso Buil|Andrew Brown|Emmanouil Dermitzakis|Olivier Delaneau University of Geneva
http://dx.doi.org/10.1101/023820 2015-08-07 Evolutionary Biology Mammalian development does not recapitulate suspected key transformations in the evolution of the mammalian middle ear Hector Ramirez-Chaves|Stephen Wroe|Lynne Selwood|Lyn Hinds|Chris Leigh|Daisuke Koyabu|Nikolay Kardjilov|Vera Weisbecker University of Queensland;|School of Environmental and Rural Science;|University of Melbourne;|CSIRO Health and Biosecurity Flagship;|Adelaide University;|University of Tokyo;|Helmholtz Zentrum Berlin
http://dx.doi.org/10.1101/024133 2015-08-07 Genetics CC BY-NC Isolation-By-Distance-and-Time in a stepping-stone model Nicolas Duforet-Frebourg|Montgomery Slatkin UC Berkeley
http://dx.doi.org/10.1101/024117 2015-08-07 Genomics CC BY-ND Impact of the X chromosome and sex on regulatory variation Kimberly R Kukurba|Princy Parsana|Kevin S Smith|Zachary Zappala|David A Knowles|Marie-Julie Fave|Xin Li|Xiaowei Zhu|James B Potash|Myrna M Weissman|Jianxin Shi|Anshul Kundaje|Douglas F Levinson|Philip Awadalla|Sara Mostafavi|Alexis Battle|Stephen B Montgomery Stanford;|Johns Hopkins;|University of Montreal;|University of Iowa Hospitals and Clinics;|Columbia University;|National Cancer Institute;|UBC
http://dx.doi.org/10.1101/024026 2015-08-06 Evolutionary Biology CC BY-NC Decreased transcription factor binding levels nearby primate pseudogenes suggests regulatory degeneration Gavin M Douglas|Michael D Wilson|Alan M Moses University of Toronto
http://dx.doi.org/10.1101/024034 2015-08-06 Bioinformatics CC BY-NC-ND DADA2: High resolution sample inference from amplicon data Benjamin J Callahan|Paul J McMurdie|Michael J Rosen|Andrew W Han|Amy J Johnson|Susan P Holmes Stanford University;|Second Genome
http://dx.doi.org/10.1101/024059 2015-08-06 Cancer Biology CC BY-NC-ND An integrated transcriptomics and proteomics study of Head and Neck Squamous Cell Carcinoma – methodological and analytical considerations. Anupama Rajan Bhat|Manoj Kumar Gupta|Priya Krithivasan|Kunal Dhas|Jayalakshmi Nair|Ram Bhupal Reddy|Sudheendra HV|Sandip Chavan|Harsha Vardhan|Sujatha Darsi|Lavanya Balakrishnan|Shanmukh Katragadda|Vikram Kekatpure|Amritha Suresh|Pramila Tata|Binay Panda|Moni A Kuriakose|Ravi Sirdeshmukh Strand Life Sciences;|Institute of Bioinformatics;|Ganit Labs, Bio-IT Centre, Institute of Bioinformatics and Applied Biotechnology;|Head and Neck Oncology, Mazumdar Shaw Medical Centre;|Head and Neck Oncology, Mazumadar Shaw Medical Centre;|Head and Neck Oncology, Mazumdar Shaw Medical Centre & Mazumdar;|Mazumdar Shaw Center for Translational Research
http://dx.doi.org/10.1101/023846 2015-08-06 Animal Behavior and Cognition CC BY-NC-ND A value-based behavioural choice underlies phototaxis in Drosophila. E. Axel Gorostiza|Julien Colomb|Bjorn Brembs Institute of Zoology–Neurogenetics, Universität Regensburg, Regensburg, Germany;|Institute of Biology–Neurobiology, Freie Universität, Berlin, Germany
http://dx.doi.org/10.1101/024000 2015-08-05 Genetics CC BY-NC Disentangling sources of selection on exonic transcriptional enhancers Rachel M Agoglia|Hunter B Fraser Stanford University
http://dx.doi.org/10.1101/024018 2015-08-05 Plant Biology CC BY-NC-ND Light-induced indeterminacy alters shade avoiding tomato leaf morphology Daniel H. Chitwood|Ravi Kumar|Aashish Ranjan|Julie Pelletier|Brad Townsley|Yasunori Ichihashi|Ciera Martinez|Kristina Zumstein|John Harada|Julin Maloof|Neelima Sinha Donald Danforth Plant Science Center;|University of California at Davis
http://dx.doi.org/10.1101/023994 2015-08-05 Bioengineering CC BY-NC-ND A circuit theory of protein structure G Sampath Unaffiliated
http://dx.doi.org/10.1101/023838 2015-08-05 Genetics CC BY How to develop objective-driven comprehensive science outreach initiatives aiming at multiple audiences Sanjai Patel|Andreas Prokop The University of Manchester
http://dx.doi.org/10.1101/023986 2015-08-05 Evolutionary Biology Trait Evolution on Phylogenetic Networks Dwueng-Chwuan Jhwueng|Brian O'Meara Feng-Chia University;|U. of Tennessee, Knoxville
http://dx.doi.org/10.1101/015958 2015-08-05 Neuroscience CC BY-NC-ND A matter of attention: Crossmodal congruence enhances and impairs performance in a novel trimodal matching paradigm Jonas Misselhorn|Jonathan Daume|Andreas K. Engel|Uwe Friese University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/018515 2015-08-05 Cancer Biology CC BY-NC-ND SCT promoter methylation is a highly discriminative biomarker for lung and many other cancers Adwait Sathe|Xiaotu Ma|Michael Zhang University of Texas at Dallas;|St. Jude's Children's Hospital, Memphis
http://dx.doi.org/10.1101/023929 2015-08-04 Bioinformatics CC BY-NC-ND Correcting bias from stochastic insert size in read pair data — applications to structural variation detection and genome assembly Kristoffer Sahlin|Mattias Franberg|Lars Arvestad Royal Institute of Technology (KTH);|Karolinska Institutet;|Stockholm University
http://dx.doi.org/10.1101/011809 2015-08-04 Genetics CC BY-NC-ND Visualizing spatial population structure with estimated effective migration surfaces Desislava Petkova|John Novembre|Matthew Stephens University of Chicago
http://dx.doi.org/10.1101/023895 2015-08-04 Plant Biology The P25 protein of Potato virus X suppresses accumulation of 24nt siRNAs in the N. benthamiana transgenic line 16c Shahinez Garcia|Christophe Himber|Olivier Voinnet Institut de Biologie Moléculaire des Plantes;|ETH-Zürich
http://dx.doi.org/10.1101/023903 2015-08-04 Evolutionary Biology CC BY Infinitely Long Branches and an Informal Test of Common Ancestry Leonardo de Oliveira Martins|David Posada Imperial College London;|University of Vigo
http://dx.doi.org/10.1101/022657 2015-08-04 Evolutionary Biology CC BY-NC Monoallelic methylation and allele specific expression in a social insect Kate D Lee|Zoe N Lonsdale|Maria Kyriakidou|Despina Nathanael|Harindra E Amarasinghe|Eamonn B Mallon University of Leicester
http://dx.doi.org/10.1101/023739 2015-08-04 Genetics Werner syndrome helicase modulates G4 DNA-dependent transcription and opposes mechanistically distinct senescence-associated gene expression programs Weiliang Tang|Ana I. Robles|Richard P. Beyer|Lucas T. Gray|Giang Hong Nguyen|Junko Oshima|Nancy Maizels|Curtis C. Harris|Raymond J. Monnat University of Washington;|US National Cancer Institute
http://dx.doi.org/10.1101/023622 2015-08-04 Evolutionary Biology|Genomics CC BY Perturbative formulation of general continuous-time Markov model of sequence evolution via insertions/deletions, Part IV: Incorporation of substitutions and other mutations Kiyoshi Ezawa|Dan Graur|Giddy Landan Kyushu Institute of Technology;|University of Houston;|Heinrich-Heine University
http://dx.doi.org/10.1101/023606 2015-08-04 Evolutionary Biology CC BY Perturbative formulation of general continuous-time Markov model of sequence evolution via insertions/deletions, Part II: Perturbation analyses Kiyoshi Ezawa|Dan Graur|Giddy Landan Kyushu Institute of Technology;|University of Houston;|Heinrich-Heine University
http://dx.doi.org/10.1101/023614 2015-08-04 Bioinformatics|Evolutionary Biology CC BY Perturbative formulation of general continuous-time Markov model of sequence evolution via insertions/deletions, Part III: Algorithm for first approximation Kiyoshi Ezawa|Dan Graur|Giddy Landan Kyushu Institute of Technology;|University of Houston;|Heinrich-Heine University
http://dx.doi.org/10.1101/016931 2015-08-03 Plant Biology CC BY GLO-Roots: an imaging platform enabling multidimensional characterization of soil-grown roots systems Ruben Rellan-Alvarez|Guillaume Lobet|Heike Lindner|Pierre-Luc M Pradier|Jose Sebastian|Muh-Ching Yee|Yu Geng|Charlotte Trontin|Therese LaRue|Amanda Schrager Lavelle|Cara H Haney|Rita Nieu|Julin N Maloof|John P Vogel|Jose R Dinneny Carnegie Institution for Science;|PhytoSYSTEMS, Université de Liége;|Stanford University;|University of California, Davis;|Harvard Medical School/Massachusetts General Hospital;|United States Department of Agriculture;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/012476 2015-08-03 Ecology CC BY-NC The effect of nutrient availability on global forest carbon balance is uncertain Enzai Du Beijing Normal University
http://dx.doi.org/10.1101/021444 2015-08-03 Bioinformatics On enhancing variation detection through pan-genome indexing Daniel Valenzuela|Niko Valimaki|Esa Pitkanen|Veli Makinen Department of Computer Science, University of Helsinki;|Department of Medical Genetics, University of Helsinki;|University of Helsinki
http://dx.doi.org/10.1101/023754 2015-08-03 Bioinformatics CC BY-ND Comparing Variant Call Files for Performance Benchmarking of Next-Generation Sequencing Variant Calling Pipelines John G. Cleary|Ross Braithwaite|Kurt Gaastra|Brian S Hilbush|Stuart Inglis|Sean A Irvine|Alan Jackson|Richard Littin|Mehul Rathod|David Ware|Justin M. Zook|Len Trigg|Francisco M. De La Vega Real Time Genomics;|3National Institute of Standards and Technology;|Stanford University School of Medicine
http://dx.doi.org/10.1101/023788 2015-08-03 Evolutionary Biology Population genomic scans reveal novel genes underlie convergent flowering time evolution in the introduced range of Arabidopsis thaliana Billie Gould|John R Stinchcombe Michigan State University, United States;|University of Toronto, Canada
http://dx.doi.org/10.1101/023887 2015-08-03 Genomics Genomic DNA transposition induced by human PGBD5 Anton Henssen|Elizabeth Henaff|Eileen Jiang|Amy R Eisenberg|Julianne R Carson|Camila Villasante|Mondira Ray|Eric Still|Melissa Burns|Jorge Gandara|Cedric Feschotte|Christopher E. Mason|Alex Kentsis Memorial Sloan Kettering Cancer Center;|WeillCornell College of Medicine;|Boston Children's Hospital;|Weill Cornell Medical College;|University of Utah School of Medicine;|MSKCC
http://dx.doi.org/10.1101/023861 2015-08-03 Genomics Species Tree Estimation from Genome-wide Data with Guenomu Leonardo de Oliveira Martins|David Posada Imperial College London;|University of Vigo
http://dx.doi.org/10.1101/010777 2015-08-03 Neuroscience CC BY-NC Supervised learning sets benchmark for robust spike rate inference from calcium imaging signals Lucas Theis|Philipp Berens|Emmanouil Froudarakis|Jacob Reimer|Miroslav Roman-Roson|Thomas Baden|Thomas Euler|Andreas S Tolias|Matthias Bethge University of Tübingen;|Baylor College of Medicine
http://dx.doi.org/10.1101/023796 2015-08-03 Biochemistry CC BY Avoiding accuracy-limiting pitfalls in the study of protein-ligand interactions with isothermal titration calorimetry Sarah E. Boyce|Joel Tellinghuisen|John D. Chodera Schro ̈dinger, 120 West 45th St, New York, NY 10036;|Department of Chemistry, Vanderbilt University, Nashville, TN 37235;|Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/023713 2015-08-02 Genetics CC BY-NC-ND Multilocus sex determination revealed in two populations of gynodioecious wild strawberry, Fragaria vesca subsp. bracteata Tia-Lynn Ashman|Jacob Tennessen|Rebecca Dalton|Rajanikanth Govindarajulu|Mathew Koski|Aaron Liston University of Pittsburgh, United States;|Oregon State University, United States
http://dx.doi.org/10.1101/023689 2015-08-01 Neuroscience CC BY-NC-ND Biomimetic and Non-biomimetic Extraction of Motor Control Signals Through Matched Filtering of Neural Population Dynamics Islam S Badreldin|Karim G Oweiss University of Florida
http://dx.doi.org/10.1101/023655 2015-07-31 Evolutionary Biology The constant philopater hypothesis: a new life history invariant for dispersal evolution Antonio M. M. Rodrigues|Andy Gardner University of Cambridge;|University of St Andrews
http://dx.doi.org/10.1101/023663 2015-07-31 Zoology Phylogenetic relationships of the Helmeted Woodpecker (Dryocopus galeatus): A case of interspecific mimicry? Brett W. Benz|Mark B. Robbins|Kevin J. Zimmer American Museum of Natural History;|University of Kansas Biodiversity Institute;|Los Angeles County Museum of Natural History
http://dx.doi.org/10.1101/023440 2015-07-31 Genetics The contribution of rare variation to prostate cancer heritability Nicholas Mancuso|Nadin Rohland|Kristin Rand|Arti Tandon|Alexander Allen|Dominique Quinque|Swapan Mallick|Heng Li|Alex Stram|Xin Sheng|Zsofia Kote-Jarai|Douglas F Easton|Rosalind A Eeles|Loic Le Marchand|Alex Lubwama|Daniel Stram|Stephen Watya|David V Conti|Brian Henderson|Christopher Haiman|Bogdan Pasaniuc|David Reich David Geffen School of Medicine, University of California at Los Angeles;|Department of Genetics, Harvard Medical School;|Department of Preventive Medicine, Keck School of Medicine, University of Southern California;|The Institute of Cancer Research;|Centre for Cancer Genetic Epidemiology, University of Cambridge;|Epidemiology Program, University of Hawaii Cancer Center;|School of Public Health, Makerere University College of Health Sciences
http://dx.doi.org/10.1101/023572 2015-07-31 Bioengineering OptoDyCE: Automated System for High-Throughput All-Optical Dynamic Cardiac Electrophysiology Aleksandra Klimas|Jinzhu Yu|Christina M. Ambrosi|John C. Williams|Harold Bien|Emilia Entcheva Stony Brook University
http://dx.doi.org/10.1101/023630 2015-07-31 Ecology CC BY-ND Comparison of biochemical, histological and morphological response of muscle-based condition indices to varying food levels in pre-flexion Dicentrarchus labrax (L.) larvae Ignacio A Catalan|Maria Pilar Olivar|Elisa Berdalet IMEDEA (CSIC-UIB);|ICM (CSIC)
http://dx.doi.org/10.1101/023648 2015-07-31 Genetics CC BY-NC-ND FORGE: multivariate calculation of gene-wide p-values from Genome-Wide Association Studies Authors and Affiliations Inti Inal Pedroso|Michael R Barnes|Anbarasu Lourdusamy|Ammar Al-Chalabi|Gerome Breen King's College London;|Department of Computational Biology, GlaxoSmithKline,Stevenage, Hertfordshire, United Kingdom.
http://dx.doi.org/10.1101/023697 2015-07-31 Systems Biology CC BY-NC-ND Information Processing by Simple Molecular Motifs and Susceptibility to Noise Siobhan McMahon|Oleg Lenive|Sarah Filippi|Michael Stumpf Imperial College London;|Oxford University;|Imperial
http://dx.doi.org/10.1101/023515 2015-07-31 Bioinformatics Inverting proteomics analysis provides powerful insight into the peptide/protein conundrum Wilson Wen Bin Goh|Limsoon Wong Tianjin University
http://dx.doi.org/10.1101/023507 2015-07-31 Ecology Stabilizing the dynamics of laboratory populations of Drosophila melanogaster through upper and lower limiter controls Sudipta Tung|Abhishek Mishra|Sutirth Dey Indian Institute of Science Education and Research-Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/023556 2015-07-31 Neuroscience INSULIN GROWTH FACTOR I AND ITS RECEPTOR ARE ANTAGONISTIC MODULATORS OF GLUCOSE HANDLING BY ASTROCYTES Edwin Hernandez|Ana M Fernandez|Alberto Perez Alvarez|Sara Mederos|Paloma Perez Domper|Pablo Bascunana|Ruben Fernandez de la Rosa|Mercedes Delgado|Miguel Angel Pozo|Antonio Miranda Vizuete|Diego Guerrero Gomez|Estefania Moreno|Peter J McCormick|Andrea Santi|Laura Genis|Angel Trueba Saiz|Cristina Garcia-Caceres|Matthias Tschop|Alfonso Araque|Gertrudis Perea|Eduardo D Martin|Ignacio Torres Aleman Cajal Institute;|Eppendorf Center for Molecular Neurobiology Hamburg,;|Instituto Pluridisciplinar UCM;|IBIS Seville;|Barcelona University;|East Anglia University, Norwich;|Institute for Diabetes and Obesity, Munich,;|Universidad de Castilla La Mancha
http://dx.doi.org/10.1101/023549 2015-07-30 Microbiology CC BY-NC-ND Genomic signatures of experimental adaptation to antimicrobial peptides in Staphylococcus aureus Paul R Johnston|Adam J Dobson|Jens Rolff Freie Universität Berlin;|University College London
http://dx.doi.org/10.1101/023580 2015-07-30 Bioinformatics CC BY-NC-ND Elucidating Variants in Systemic JIA from Analysis of Illumina & Ion Torrent Exome Data Mohammed Rahman Systemic JIA Foundation
http://dx.doi.org/10.1101/023499 2015-07-30 Bioinformatics CC BY Dissecting the roles of local packing density and longer-range effects in protein sequence evolution Amir Shahmoradi|Claus O Wilke University of Texas Austin;|The University of Texas at Austin
http://dx.doi.org/10.1101/023481 2015-07-30 Evolutionary Biology Evolution of color phenotypes in two distantly related species of stick insect: different ecological regimes acting on similar genetic architectures Aaron Comeault|Clarissa Ferreira|Stuart Dennis|Victor Soria-Carrasco|Patrik Nosil University of North Carolina;|University of Sheffield
http://dx.doi.org/10.1101/023408 2015-07-30 Bioinformatics CC BY-NC Circlator: automated circularization of genome assemblies using long sequencing reads Martin Hunt|Nishadi De Silva|Thomas D Otto|Julian Parkhill|Jacqueline A Keane|Simon R Harris Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/023374 2015-07-29 Genetics CC BY Maximum Likelihood Estimation of Biological Relatedness from Low Coverage Sequencing Data Mikhail Lipatov|Komal Sanjeev|Rob Patro|Krishna Veeramah Stony Brook University
http://dx.doi.org/10.1101/012260 2015-07-29 Evolutionary Biology CC BY Synthesis of phylogeny and taxonomy into a comprehensive tree of life Cody Hinchliff|Stephen A Smith|James F Allman|J Gordon Burleigh|Ruchi Chaudhary|Lyndon M Cognill|Keith A Crandall|Jiabin Deng|Bryan T Drew|Romina Gazis|Karl Gude|David S Hibbett|Laura A Katz|H Dail Laughinghouse IV|Emily Jane McTavish|Peter E. Midford|Christopher L Owen|Richard Ree|Jonathan A Rees|Doug E Soltis|Tiffani Williams|Karen Ann Cranston University of Michigan;|Interrobang Corporation;|University of Floria;|University of Florida;|Field Museum of Natural History;|George Washington University;|Clark University;|Michigan State University;|Smith College;|Kansas University;|National Evolutionary Synthesis Center;|Texas A&M University;|National Evolutionary Synthesis Center / Duke University
http://dx.doi.org/10.1101/022590 2015-07-29 Bioengineering CC BY Adaptive Evolution for Increased Biomass and Magnetic Nanoparticle Productivity of Magnetotactic Bacteria Karthik Sekar|Javin P Oza Northwestern University
http://dx.doi.org/10.1101/023465 2015-07-29 Evolutionary Biology CC BY-NC-ND Hybrid-Lambda: simulation of multiple merger and Kingman gene genealogies in species networks and species trees Sha Zhu|James H Degnan|Sharyn J Goldstien|Bjarki Eldon 1Wellcome Trust Centre for Human Genetics, University of Oxford;|University of New Mexico;|University of Canterbury;|Technische Universitat Berlin
http://dx.doi.org/10.1101/023382 2015-07-28 Evolutionary Biology CC BY Crowdsourced geometric morphometrics enable rapid large-scale collection and analysis of phenotypic data Jonathan Chang|Michael E Alfaro UCLA
http://dx.doi.org/10.1101/023390 2015-07-28 Genetics Length Distribution of Ancestral Tracks under a General Admixture Model and Its Applications in Population History Inference Xumin Ni|Xiong Yang|Wei Guo|Kai Yuan|Ying Zhou|Zhiming Ma|Shuhua Xu Department of Mathematics, School of Science, Beijing Jiaotong University, China;|CAS-MPG Partner Institute for Computational Biology, China;|Institute of Applied Mathematics, Academy of Mathematics and Systems Science, CAS, China
http://dx.doi.org/10.1101/001016 2015-07-28 Evolutionary Biology CC BY-NC-ND Predictability of adaptive evolution under the successive fixation assumption Sandeep Venkataram|Diamantis Sellis|Dmitri A Petrov Stanford University
http://dx.doi.org/10.1101/022970 2015-07-28 Evolutionary Biology CC BY Assessment of cladistic data availability for living mammals Thomas Guillerme|Natalie Cooper Trinity College Dublin;|Natural History Museum, London
http://dx.doi.org/10.1101/023366 2015-07-28 Bioengineering CC BY A rapid and tunable method to temporally control Cas9 expression enables the identification of essential genes and the interrogation of functional gene interactions in vitro and in vivo. Serif Senturk|Nitin H Shirole|Dawid D. Nowak|Vincenzo Corbo|Alexander Vaughan|David A. Tuveson|Lloyd C. Trotman|Adam Kepecs|Frank Stegmeier|Raffaella Sordella cshl;|CSHL
http://dx.doi.org/10.1101/023283 2015-07-28 Plant Biology Phenotypic analysis of Arabidopsis transgenic plants constitutively expressing the P6 protein from Cauliflower mosaic virus or mutant alleles thereof Angele Geldreich|Christophe Himber|Gabrielle Haas|Mario Keller|Olivier Voinnet IBMP-CNRS;|IBMC-CNRS;|ETH-Z
http://dx.doi.org/10.1101/023226 2015-07-27 Bioengineering A spatio-temporal model for spontaneous thrombus formation in cerebral aneurysms Orestis Malaspinas|Alexis Turjman|Daniel Ribeiro de Sousa|Guillermo Garcia-Cardena|Martine Raes|Phuc-Thien Thomas Nguyen|Yue Zhang|Guy Courbebaisse|Christophe Lelubre|Karim Zouaoui Boudjeltia|Bastien Chopard University of Geneva;|Brigham and Women's Hospital and Harvard Medical School;|CHU de Charleroi;|University of Namur;|CREATIS INSA-Lyon
http://dx.doi.org/10.1101/021634 2015-07-27 Genomics CC BY-NC-ND The power of single molecule real-time sequencing technology in the de novo assembly of a eukaryotic genome Hiroaki Sakai|Ken Naito|Eri Ogiso-Tanaka|Yu Takahashi|Kohtaro Iseki|Chiaki Muto|Kazuhito Satou|Kuniko Teruya|Akino Shiroma|Makiko Shimoji|Takashi Hirano|Takeshi Itoh|Akito Kaga|Norihiko Tomooka National Institute of Agrobiological Sciences;|Okinawa Institute of Advanced Sciences
http://dx.doi.org/10.1101/023069 2015-07-27 Evolutionary Biology CC BY Self-organized patterning and morphogenesis in embryonic epithelia from antagonistic signals and fiber networks. (Topic: Establishment of Spatial and Temporal Patterns) Frederick Cummings|Kai Lu Univ. of California Riverside (emeritus);|Dept of Health Sci, Univ. Macau, Macau
http://dx.doi.org/10.1101/023234 2015-07-27 Evolutionary Biology CC BY-NC-ND Long-term natural selection affects patterns of neutral divergence on the X chromosome more than the autosomes. Melissa Ann Wilson Sayres|Pooja Narang Arizona State University
http://dx.doi.org/10.1101/023333 2015-07-27 Evolutionary Biology CC BY-NC Dis-integrating the fly: A mutational perspective on phenotypic integration and covariation Annat Haber|Ian Dworkin Michigan State University;|McMaster University
http://dx.doi.org/10.1101/023242 2015-07-27 Evolutionary Biology Phylogenetic effective sample size Krzysztof Bartoszek Department of Mathematics, Uppsala University
http://dx.doi.org/10.1101/023275 2015-07-27 Ecology Effect of Localization on the Stability of Mutualistic Ecological Networks Samir Suweis|Jacopo Grilli|Jayanth Banavar|Stefano Allesina|Amos Maritan University of Padova;|University of Maryland;|University of Chicago
http://dx.doi.org/10.1101/023341 2015-07-27 Evolutionary Biology CC BY-NC-ND Dating ancient human samples using the recombination clock Priya Moorjani|Sriram Sankararaman|Qiaomei Fu|Molly Przeworski|Nick J Patterson|David E. Reich Columbia University;|Harvard University;|MIT
http://dx.doi.org/10.1101/023267 2015-07-27 Genetics The genetic basis of cone serotiny in Pinus contorta as a function of mixed-severity and stand-replacement fire regimes Mike Feduck|Philippe Henry|Richard Winder|David Dunn|Rene I Alfaro|Lara vanAkker|Brad Hawkes UNBC;|Pacific Forestry Centre
http://dx.doi.org/10.1101/019877 2015-07-26 Evolutionary Biology CC BY-NC-ND Stable eusociality via maternal manipulation when resistance is costless Mauricio Gonzalez-Forero University of Lausanne
http://dx.doi.org/10.1101/023259 2015-07-26 Ecology 3D tree dimensionality assessment using photogrammetry and small unmanned aerial vehicles Demetrios Gatziolis|Jean F. Lienard|Andre Vogs|Nikolay Strigul USDA Forest Service, Pacific Northwest Research Station, Portland, Oregon;|Department of Mathematics, Washington State University Vancouver, Washington;|volunteer for WSU environmental robotics program, Intel Inc.;|Washington State University
http://dx.doi.org/10.1101/023135 2015-07-24 Evolutionary Biology CC BY-NC-ND Temporal patterns of damage and decay kinetics of DNA retrieved from plant herbarium specimens Clemens L Wei|Verena J Schuenemann|Jane Devos|Gautam Shirsekar|Ella Reiter|Billie A Gould|John R Stinchcombe|Johannes Krause|Hernan A Burbano Max Planck Institute for Developmental Biology;|Institute of Archaeological Sciences, University of Tübingen;|Department of Ecology and Evolutionary Biology, University of Toronto
http://dx.doi.org/10.1101/023168 2015-07-23 Genomics CC BY-NC-ND Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transfer Ruth Davidson|Pranjal Vachaspati|Siavash Mirarab|Tandy Warnow University of Illinois Urbana-Champaign;|University of Texas at Austin, University of California San Diego
http://dx.doi.org/10.1101/023176 2015-07-23 Evolutionary Biology CC BY-NC Non-paradoxical evolutionary stability of the recombination initiation landscape in Saccharomycetes Isabel Lam|Scott Keeney Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/023077 2015-07-23 Evolutionary Biology CC BY-NC-ND Conflict and cooperation in eukaryogenesis: implications for the timing of endosymbiosis and the evolution of sex Arunas L Radzvilavicius|Neil W Blackstone University College London;|Northern Illinois University
http://dx.doi.org/10.1101/023101 2015-07-23 Evolutionary Biology CC BY-NC-ND Stable recombination hotspots in birds Sonal Singhal|Ellen Leffler|Keerthi Sannareddy|Isaac Turner|Oliver Venn|Daniel Hooper|Alva Strand|Qiye Li|Brian Raney|Christopher Balakrishnan|Simon Griffith|Gil McVean|Molly Przeworski Columbia University;|University of Chicago;|University of Oxford;|Beijing Genome Institute;|University of California Santa Cruz;|East Carolina University;|Macquarie University
http://dx.doi.org/10.1101/022640 2015-07-23 Evolutionary Biology CC BY Predicting competition results from growth curves Yoav Ram|Eynat Dellus-Gur|Uri Obolski|Maayan Bibi|Judith Berman|Lilach Hadany Tel-Aviv University
http://dx.doi.org/10.1101/023085 2015-07-23 Bioinformatics CC BY Ancestral gene synteny reconstruction improves extant species scaffolding Yoann Anselmetti|Vincent Berry|Cedric Chauve|Annie Chateau|Eric Tannier|Severine Berard Institut des Sciences de l'Evolution de Montpellier;|Institut de Biologie computationnelle (IBC) - LIRMM;|Simon Fraser university;|LBBE - INRA Rhone-Alpes
http://dx.doi.org/10.1101/023093 2015-07-23 Genomics CC BY The Nicrophorus vespilloides genome and methylome, a beetle with complex social behavior Christopher B Cunningham|Lexiang Ji|R. Axel W Wiberg|Jennifer M Shelton|Elizabeth C McKinney|Darren J Parker|Richard B Meagher|Kyle M Benowitz|Eileen M Roy-Zokan|Michael G Ritchie|Susan J Brown|Robert J Schmitz|Allen J Moore University of Georgia;|University of St. Andrews;|Kansas State University
http://dx.doi.org/10.1101/023044 2015-07-22 Evolutionary Biology Adaptation to temporally fluctuating environments by the evolution of maternal effects Snigdhadip Dey|Steve Proulx|Henrique Teotonio Ecole Normale Superieure;|University of California, Santa Barbara;|École Normale Supérieure
http://dx.doi.org/10.1101/023036 2015-07-22 Genomics CC BY ASTRID: Accurate Species TRees from Internode Distances Pranjal Vachaspati|Tandy Warnow University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/022996 2015-07-22 Evolutionary Biology CC BY-NC-ND Coalescence with background and balancing selection in systems with bi- and uniparental reproduction: contrasting partial asexuality and selfing Aneil Agrawal|Matthew Hartfield University of Toronto, Canada;|University of Toronto / University of Aarhus, Canada
http://dx.doi.org/10.1101/022988 2015-07-22 Evolutionary Biology CC BY-NC-ND Estimating K in Genetic Mixture Models Robert Verity|Richard Nichols Imperial College London, United Kingdom;|Queen Mary University of London, United Kingdom
http://dx.doi.org/10.1101/023051 2015-07-22 Plant Biology Phenotypic and genomic differentiation of Arabidopsis thaliana along altitudinal gradients in the North Italian alps Torsten Gunther|Christian Lampei|Ivan Barilar|Karl Schmid Uppsala University;|University of Hohenheim
http://dx.doi.org/10.1101/019018 2015-07-22 Genomics CC BY A vision for ubiquitous sequencing Yaniv Erlich NY Genome Center/Department of Computer Science, Columbia University
http://dx.doi.org/10.1101/023002 2015-07-22 Microbiology CC BY-NC-ND Sulfur Isotope Effects of Dissimilatory Sulfite Reductase William D. Leavitt|Alexander S. Bradley|Andre A. Santos|Ines A.C. Pereira|David T. Johnston Department of Earth and Planetary Sciences, Washington University in St. Louis;|ITQB António Xavier, Universidade Nova de Lisboa;|Harvard University
http://dx.doi.org/10.1101/022871 2015-07-22 Bioengineering CC BY-NC-ND Automatic Synthesis of Anthropomorphic Pulmonary CT Phantoms Daniel Jimenez-Carretero|Raul San Jose Estepar|Mario Diaz Cacio|Maria J Ledesma-Carbayo Biomedical Image Technologies. Universidad Politecnica de Madrid, Madrid, Spain & CIBER-BBN;|Surgical Planning Laboratory, Brigham and Womens' Hospital, Boston, MA, USA
http://dx.doi.org/10.1101/017749 2015-07-22 Evolutionary Biology CC BY-NC-ND Cis-regulatory changes associated with a recent mating system shift and floral adaptation in Capsella Kim A Steige|Johan Reimegard|Daniel Koenig|Douglas G Scofield|Tanja Slotte Uppsala University;|Max Planck Institute for Developmental Biology;|Stockholm University
http://dx.doi.org/10.1101/022897 2015-07-21 Genomics Haplotype-phased synthetic long reads from short-read sequencing James A Stapleton|Jeongwoon Kim|John P Hamilton|Ming Wu|Luiz C Irber|Rohan Maddamsetti|Bryan Briney|Linsey Newton|Dennis R Burton|C Titus Brown|Christina Chan|C Robin Buell|Timothy A Whitehead Michigan State University;|University of Michigan;|The Scripps Research Institute
http://dx.doi.org/10.1101/022905 2015-07-21 Evolutionary Biology CC BY-NC-ND First-step Mutations during Adaptation to Thermal Stress Shift the Expression of Thousands of Genes Back toward the Pre-stressed State Alejandra Rodriguez-Verdugo|Olivier Tenaillon|Brandon Gaut UC Irvine;|INSERM
http://dx.doi.org/10.1101/022913 2015-07-21 Genomics Remodeling of the interphase chromatin domain structures in embryonic stem cells by targeted placement of human-specific regulatory loci Gennadi Glinsky University of California, San Diego
http://dx.doi.org/10.1101/022855 2015-07-20 Genomics CC BY-NC-ND A comparative study of SVDquartets and other coalescent-based species tree estimation methods Jed Chou|Ashu Gupta|Shashank Yaduvanshi|Ruth Davidson|Mike Nute|Siavash Mirarab|Tandy Warnow Department of Mathematics, University of Illinois Urbana-Champaign;|Department of Computer Science, University of Illinois Urbana-Champaign;|Department of Statistics, University of Illinois Urbana-Champaign;|Department of Electrical and Computer Engineering, University of California San Diego
http://dx.doi.org/10.1101/022350 2015-07-20 Microbiology CC BY-NC-ND Combinatorial metabolic engineering of Saccharomyces cerevisiae for terminal alkene production Binbin Chen|Dong-Yup Lee|Matthew Wook Chang Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore;|Department of Chemical and Biomolecular Engineering, National University of Singapore
http://dx.doi.org/10.1101/022889 2015-07-20 Evolutionary Biology Early modern human dispersal from Africa: genomic evidence for multiple waves of migration Francesca Tassi|Silvia Ghirotto|Massimo Mezzavilla|Sibelle Torres Vilaca|Lisa De Santi|Guido Barbujani Department of Life Sciences and Biotechnologies, University of Ferrara;|Institute for Maternal and Child Health‐IRCCS “BurloGarofolo” Trieste, Italy;|Leibniz Institute for Zoo and Wildlife Research, Berlin, Germany;|Department of Life Sciences and Biotechnologies, University of Ferrara, Italy
http://dx.doi.org/10.1101/022863 2015-07-20 Evolutionary Biology CC BY-NC-ND Genetic loci with parent of origin effects cause hybrid seed lethality between Mimulus species Austin G Garner|Amanda M Kenney|Lila Fishman|Andrea L Sweigart University of Virginia, United States;|St. Edwards University, United States;|University of Montana, United States;|University of Georgia, United States
http://dx.doi.org/10.1101/022798 2015-07-19 Evolutionary Biology CC BY-NC-ND Replaying Evolution to Test the Cause of Extinction of One Ecotype in an Experimentally Evolved Population Caroline B. Turner|Zachary D. Blount|Richard E. Lenski Michigan State Universty;|Michigan State University
http://dx.doi.org/10.1101/022772 2015-07-19 Synthetic Biology CC BY-NC-ND Improving fold activation of small transcription activating RNAs (STARs) with rational RNA engineering strategies. Sarai Meyer|James Chappell|Sitara Sankar|Rebecca Chew|Julius B Lucks Cornell University
http://dx.doi.org/10.1101/022814 2015-07-19 Bioinformatics CC BY-NC-ND CUA: a Flexible and Comprehensive Codon Usage Analyzer ZHENGUO ZHANG University of Rochester
http://dx.doi.org/10.1101/022780 2015-07-19 Bioinformatics CC BY-NC-ND MuCor: Mutation Aggregation and Correlation Karl W Kroll|Ann-Katherin Eisfeld|Gerard Lozanski|Clara D Bloomfield|John C Byrd|James S Blachly The Ohio State University
http://dx.doi.org/10.1101/022830 2015-07-19 Genetics CC BY-NC Local and sex-specific biases in crossover vs. noncrossover outcomes at meiotic recombination hotspots in mouse Esther de Boer|Maria Jasin|Scott Keeney Plant Development and (Epi)Genetics, Swammerdam Institute of Life Sciences, University of Amsterdam;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/019646 2015-07-18 Neuroscience CC BY Consistent inter-protocol differences in resting-state functional connectomes between normal aging and mild cognitive impairment Angela Tam|Christian Dansereau|AmanPreet Badhwar|Pierre Orban|Sylvie Belleville|Howard Chertkow|Alain Dagher|Alexandru Hanganu|Oury Monchi|Pedro Rosa-Neto|Amir Shmuel|Seqian Wang|John Breitner|Pierre Bellec McGill University;|Université de Montréal;|Centre de recherche de l'institut universitaire de gériatrie de Montréal
http://dx.doi.org/10.1101/017053 2015-07-18 Developmental Biology Dilp8 requires the neuronal relaxin receptor Lgr3 to couple growth to developmental timing Andres Garelli|Fabiana Heredia|Andreia P. Casimiro|Andre Macedo|Catarina Nunes|Marcia Garcez|Angela R. Mantas Dias|Yanel A. Volonte|Takashi Koyama|Alisson M. Gontijo INIBIBB, CONICET and UNS, Bahía Blanca, Argentina; CEDOC, NMS - FCM, Lisbon, Portugal.;|CEDOC - Chronic Diseases Research Center, NMS - FCM, NOVA University of Lisbon, Lisbon, Portugal.;|INIBIBB, CONICET and UNS, Bahía Blanca, Argentina.;|Instituto Gulbenkian de Ciência, Oeiras, Portugal
http://dx.doi.org/10.1101/018036 2015-07-18 Bioinformatics Ensembler: Enabling high-throughput molecular simulations at the superfamily scale Daniel L Parton|Patrick B Grinaway|Sonya M Hanson|Kyle A Beauchamp|John D Chodera Memorial Sloan-Kettering Cancer Center;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/022731 2015-07-17 Genomics CC BY-NC-ND What’s in your next-generation sequence data? An exploration of unmapped DNA and RNA sequence reads from the bovine reference individual Lynsey K. Whitacre|Polyana C. Tizioto|JaeWoo Kim|Tad S. Sonstegard|Steven G. Schroeder|Leeson J. Alexander|Juan F. Medrano|Robert D. Schnabel|Jeremy F. Taylor|Jared E. Decker University of Missouri;|Recombinetics Inc.;|Animal Genetics and Improvement Laboratory, USDA-ARS;|USDA-ARS LARRL;|University of California Davis
http://dx.doi.org/10.1101/022723 2015-07-17 Genetics CC BY Iron Age and Anglo-Saxon genomes from East England reveal British migration history Stephan Schiffels|Wolfgang Haak|Pirita Paajanen|Bastien Llamas|Elizabeth Popescu|Louise Lou|Rachel Clarke|Alice Lyons|Richard Mortimer|Duncan Sayer|Chris Tyler-Smith|Alan Cooper|Richard Durbin Wellcome Trust Sanger Institute;|Australian Centre for Ancient DNA;|Oxford Archaeology East;|Oxford Archaeology South;|University of Central Lancashire
http://dx.doi.org/10.1101/022673 2015-07-17 Genomics CC BY-NC-ND Improving the Efficiency of Genomic Selection in Chinese Simmental beef cattle Jiangwei Xia|Yang Wu|Huizhong Fang|Wengang Zhang|Yuxin Song|Lupei Zhang|Xue Gao|Yan Chen|Junya Li|Huijiang Gao Institute of Animal Science, Chinese Academy of Agricultural Science, China
http://dx.doi.org/10.1101/022715 2015-07-17 Bioinformatics CC BY Scalable multi whole-genome alignment using recursive exact matching Jasper Linthorst|Marc Hulsman|Henne Holstege|Marcel Reinders VU University Medical Center;|Delft University of Technology
http://dx.doi.org/10.1101/022764 2015-07-17 Genomics Adaptive divergence in the bovine genome William Barendse|Sean McWilliam|Rowan J Bunch|Blair E Harrison CSIRO
http://dx.doi.org/10.1101/022756 2015-07-17 Developmental Biology CC BY-NC-ND The C. elegans ephrin EFN-4 functions non-cell autonomously with heparan sulfate proteoglycans to promote axon outgrowth and branching Alicia A Schwieterman|Alyse N Steves|Vivian Yee|Cory J Donelson|Aaron Pital|Taylor Voyles|Austin M Howard|Danielle E Ereddia|Kelsie S Effrein|Jonathan L McMurry|Brian D Ackley|Andrew D Chisholm|Martin L Hudson Kennesaw State University, United States;|University of California, Santa Cruz, United States;|University of Kansas, United States;|University of California San Diego, United States
http://dx.doi.org/10.1101/022681 2015-07-17 Genetics Polymorphisms in oxidative pathway related genes and susceptibility to inflammatory bowel disease Nezha Senhaji|Sellama Nadifi|Aurora Serrano|Daniel Leon Rodriguez|Nadia Serbati|Mehdi Karkouri|Wafaa Badre|Javier Martin Faculty of Medecine and Pharmacy of Casablanca;|Instituto de Parasitología y Biomedicina López-Neyra;|Pathology Department, CHU Ibn Rochd;|Gastroenterology Department, CHU Ibn Rochd
http://dx.doi.org/10.1101/018457 2015-07-16 Evolutionary Biology CC BY Site-specific amino-acid preferences are mostly conserved in two closely related protein homologs Michael B Doud|Orr Ashenberg|Jesse Bloom Fred Hutchinson Cancer Research Center; University of Washington Dept. Genome Sciences;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/016709 2015-07-16 Evolutionary Biology CC BY-NC-ND The fate of a mutation in a fluctuating environment Ivana Cvijovic|Benjamin H. Good|Elizabeth R. Jerison|Michael M. Desai Harvard University
http://dx.doi.org/10.1101/022699 2015-07-16 Evolutionary Biology CC BY-ND Adaptive variation in human toll-like receptors is contributed by introgression from both Neandertals and Denisovans Michael Dannemann|Aida M. Andres|Janet Kelso Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/022665 2015-07-16 Bioinformatics CC BY-NC metaCCA: Summary statistics-based multivariate meta-analysis of genome-wide association studies using canonical correlation analysis Anna Cichonska|Juho Rousu|Pekka Marttinen|Antti J Kangas|Pasi Soininen|Terho Lehtimaki|Olli T Raitakari|Marjo-Riitta Jarvelin|Veikko Salomaa|Mika Ala-Korpela|Samuli Ripatti|Matti Pirinen Helsinki Institute for Information Technology HIIT, Department of Computer Science, Aalto University;|Computational Medicine, Institute of Health Sciences, University of Oulu and Oulu UniversityHospital;|Department of Clinical Chemistry, Fimlab Laboratories, University of Tampere School of Medicine;|Department of Clinical Physiology and Nuclear Medicine, University of Turku;|Department of Epidemiology and Biostatistics, Imperial College London;|National Institute for Health and Welfare, Helsinki, Finland;|Institute for Molecular Medicine Finland FIMM, University of Helsinki, Finland
http://dx.doi.org/10.1101/022616 2015-07-16 Bioinformatics CC BY A Profile-Based Method for Measuring the Impact of Genetic Variation Nicole E Wheeler|Lars Barquist|Fatemeh Ashari Ghomi|Robert A Kingsley|Paul P Gardner School of Biological Sciences, University of Canterbury, Christchurch, New Zealand.;|Institute for Molecular Infection Biology, University of Wuerzburg, Wuerzburg, Germany.;|Institute of Food Research, Norwich Research Park, Norwich, UK.
http://dx.doi.org/10.1101/022533 2015-07-16 Ecology CC BY-ND Floral resource-landscapes and pollinator-mediated interactions in plant communities Henning Nottebrock|Baptiste Schmid|Katharina Mayer|Celine Devaux|Karen J. Esler|Katrin Boehning-Gaese|Matthias Schleuning|Jorn Pagel|Frank Schurr University of Hohenheim;|Senckenberg Biodiversity and Climate Research Centre (BiK-F);|Stellenbosch University;|Institut des Sciences de l’Evolution
http://dx.doi.org/10.1101/022574 2015-07-15 Evolutionary Biology CC BY-NC-ND Inference of super-exponential human population growth via efficient computation of the site frequency spectrum for generalized models Feng Gao|Alon Keinan Cornell University
http://dx.doi.org/10.1101/022525 2015-07-15 Biochemistry CC BY-NC-ND Evolution-Based Functional Decomposition of Proteins Olivier Rivoire|Kimberly A. Reynolds|Rama Ranganathan CNRS & Université Joseph Fourier;|UT Southwestern Medical Center
http://dx.doi.org/10.1101/022566 2015-07-15 Ecology CC BY-ND Diversity waves in collapse-driven population dynamics Sergei Maslov|Kim Sneppen University of Illinois at Urbana-Champaign;|Niels Bohr Institute, University of Copenhagen
http://dx.doi.org/10.1101/022608 2015-07-15 Systems Biology Comprehensive mapping of mammalian transcriptomes identifies conserved genes associated with different cell differentiation states Yang Yang|Yu-Cheng Thomas Yang|Jiapei Yuan|Xiaohua Shen|Zhi John Lu|Jingyi Jessica Li Tsinghua University;|University of California, Los Angeles
http://dx.doi.org/10.1101/022632 2015-07-15 Genomics CC BY-NC-ND Investigating the Evolutionary Importance of Denisovan Introgressions in Papua New Guineans and Australians Ya Hu|Qiliang Ding|Yi Wang|Shuhua Xu|Yungang He|Minxian Wang|Jiucun Wang|Li Jin Fudan University;|CAS-MPG Partner Institute for Computational Biology
http://dx.doi.org/10.1101/021857 2015-07-15 Genomics The distribution and impact of common copy-number variation in the genome of the domesticated apple, Malus x domestica Borkh. James Boocock|David Chagne|Tony R Merriman|Mik Black University of Otago;|The New Zealand Institute for Plant & Food Research Ltd
http://dx.doi.org/10.1101/013490 2015-07-15 Bioinformatics CC BY-NC Oxford Nanopore Sequencing, Hybrid Error Correction, and de novo Assembly of a Eukaryotic Genome Sara Goodwin|James Gurtowski|Scott Ethe-Sayers|Panchajanya Deshpande|Michael Schatz|W Richard McCombie Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/022376 2015-07-14 Biophysics CC BY-NC-ND Gctf: real-time CTF determination and correction Kai Zhang MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/022442 2015-07-13 Neuroscience CC BY-ND Endocannabinoids regulate mAChR-evoked theta rhythm IPSCs in hippocampus Ai-Hui Tang|Daniel A Nagode|Bradley E Alger University of Maryland School of Medicine, Department of Physiology;|Dept. Biology, University of Maryland, College Park
http://dx.doi.org/10.1101/022475 2015-07-13 Neuroscience CC BY-NC-ND Fundamental Structure and Modulation of Neuronal Excitability: Synaptic Control of Coding, Resonance, and Network Synchronization Christoph Kirst|Julian Ammer|Felix Felmy|Andreas Herz|Martin Stemmler Rockefeller University;|Lduwig-Maximilians-Universität München
http://dx.doi.org/10.1101/022467 2015-07-13 Systems Biology CC BY-NC Diagnostic Assessment of Osteosarcoma Chemoresistance Based on Virtual Clinical Trials Katarzyna A Rejniak|Mark C Lloyd|Damon R Reed|Marilyn M Bui Moffitt Cancer Center
http://dx.doi.org/10.1101/022434 2015-07-13 Bioinformatics CC BY-NC-ND Accelerating Protein Structure Prediction using Particle Swarm Optimization on GPU Hamed Khakzad|Yasaman Karami|Seyed Shahriar ARAB Iran University of Science and Technology;|Tarbiat Modares University
http://dx.doi.org/10.1101/022491 2015-07-13 Cancer Biology CC BY-NC-ND Gibbs Free Energy of Protein-Protein Interactions Reflects Tumor Stage Edward Rietman|Alex Bloemendal|John Platig|Jack Tuszynski|Giannoula Lakka Klement U. Mass, Amherst;|Broad Inst.;|Dana Farber Cancer Inst;|U. Alberta, Canada;|Molecular Oncology Institute, Tufts
http://dx.doi.org/10.1101/022459 2015-07-13 Bioinformatics A max-margin model for predicting residue-base contacts in protein-RNA interactions Kengo Sato|Shunya Kashiwagi|Yasubumi Sakakibara Keio University
http://dx.doi.org/10.1101/022400 2015-07-12 Bioengineering CC BY-NC-ND Graphene oxide chemically decorated with hybrid Ag-Ru/chitosan nanoparticles: fabrication and properties Murugan Veerapandian|Suresh Neethirajan University of Guelph;|http://bionanolab.ca
http://dx.doi.org/10.1101/022418 2015-07-12 Genetics Haplotypes of common SNPs can explain missing heritability of complex diseases Gaurav Bhatia|Alexander Gusev|Po-Ru Loh|Bjarni J Vilhjalmsson|Stephan Ripke|Shaun Purcell|Eli Stahl|Mark Daly|Teresa R de Candia|Kenneth S Kendler|Michael C O'Donovan|Sang Hong Lee|Naomi R Wray|Benjamin M Neale|Matthew C Keller|Noah A Zaitlen|Bogdan Pasaniuc|Jian Yang|Alkes L Price Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA, USA.;|Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA, USA;|Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT, Cambridge, MA, USA;|Department of Psychology and Neuroscience, University of Colorado, Boulder, Boulder, CO, USA;|Virginia Institute for Psychiatric and Behavioral Genetics, Department of Psychiatry, VCU, VA, USA;|Cardiff University;|Queensland Brain Institute, The University of Queensland, Brisbane, Queensland, Australia;|Institute for Behavioral Genetics, University of Colorado, Boulder, Boulder, CO, USA;|Lung Biology Center, School of Medicine, University of California, San Francisco, CA, USA;|Department of Pathology and Laboratory Medicine, University of California Los Angeles, CA, USA;|The University of Queensland Diamantina Institute, The Translation Research Institute, Austrailia
http://dx.doi.org/10.1101/022384 2015-07-12 Genetics CC BY-NC-ND Maize pan-transcriptome provides novel insights into genome complexity and quantitative trait variation Minliang Jin|Haijun Liu|Cheng He|Junjie Fu|Yingjie Xiao|Yuebin Wang|Weibo Xie|Guoying Wang|Jianbing Yan National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University;|College of agriculture and biotechnology, China Agricultural University;|Institute of Crop Science, Chinese Academy of Agricultural Sciences
http://dx.doi.org/10.1101/021410 2015-07-11 Systems Biology Some remarks on moments for stochastic chemical kinetics Eduardo Sontag|Abhyudai Singh Rutgers University;|University of Delaware
http://dx.doi.org/10.1101/022145 2015-07-10 Evolutionary Biology CC BY Taxonomy - for Computers Nico Franz|Beckett Sterner Arizona State University;|The Field Museum
http://dx.doi.org/10.1101/022335 2015-07-10 Bioinformatics CC BY Automated and accurate estimation of gene family abundance from shotgun metagenomes Stephen Nayfach|Patrick H. Bradley|Stacia K. Wyman|Timothy J. Laurent|Alex Williams|Jonathan A. Eisen|Katherine S. Pollard|Thomas J. Sharpton Gladstone Institute of Cardiovascular Disease;|University of California, Davis;|Oregon State University
http://dx.doi.org/10.1101/022343 2015-07-10 Bioinformatics CC BY EC-PSI: Associating Enzyme Commission Numbers with Pfam Domains Seyed Ziaeddin Alborzi|Marie-Dominique Devignes|David W. RITCHIE INRIA Nancy Grand-Est;|CNRS
http://dx.doi.org/10.1101/022244 2015-07-10 Evolutionary Biology CC BY Coevolution of male and female reproductive traits drive cascading reinforcement in Drosophila yakuba Aaron A Comeault|Aarti Venkat|Daniel R Matute University of North Carolina, Chapel Hill;|University of Chicago
http://dx.doi.org/10.1101/021071 2015-07-10 Neuroscience Correspondence between resting state activity and brain gene expression Guang-Zhong Wang|T. Grant Belgard|Deng Mao|Leslie Chen|Stefano Berto|Todd Preuss|Hanzhang Lu|Daniel Geschwind|Genevieve Konopka UT Southwestern Medical Center;|UCLA;|Emory University
http://dx.doi.org/10.1101/012583 2015-07-10 Neuroscience CC BY-NC-ND Pre-synaptic inhibition of afferent feedback in the macaque spinal cord does not modulate with cycles of peripheral oscillations around 10 Hz Ferran Galan|Stuart N Baker Newcastle University
http://dx.doi.org/10.1101/022293 2015-07-09 Bioinformatics CC BY-NC-ND Protein binding and methylation on looping chromatin accurately predict distal regulatory interactions Sean Whalen|Rebecca M. Truty|Katherine S. Pollard Gladstone Institutes;|RebeccaTruty@gmail.com
http://dx.doi.org/10.1101/022251 2015-07-09 Developmental Biology CC BY-NC-ND Coalescent models for developmental biology and the spatio-temporal dynamics of growing tissues. Patrick Smadbeck|Michael P.H. Stumpf Imperial College London
http://dx.doi.org/10.1101/011320 2015-07-08 Neuroscience Wide field-of-view, twin-region two-photon imaging across extended cortical networks Jeffrey N. Stirman|Ikuko T. Smith|Michael W. Kudenov|Spencer L. Smith UNC-Chapel Hill;|NCSU
http://dx.doi.org/10.1101/022269 2015-07-08 Genetics CC BY-NC-ND Simple multi-trait analysis identifies novel loci associated with growth and obesity measures Xia Shen|Xiao Wang|Zheng Ning|Yakov Tsepilov|Masoud Shirali|Blair H. Smith|Lynne J. Hocking|Sandosh Padmanabhan|Caroline Hayward|David J. Porteous|Yudi Pawitan|Chris S. Haley|Yurii S. Aulchenko Karolinska Institutet;|Stockholm University;|Novosibirsk State University;|University of Edinburgh;|University of Dundee;|University of Aberdeen;|University of Glasgow
http://dx.doi.org/10.1101/022277 2015-07-08 Bioinformatics HTS-IBIS: fast and accurate inference of binding site motifs from HT-SELEX data Yaron Orenstein|Ron Shamir Tel-Aviv university;|Tel-Aviv University
http://dx.doi.org/10.1101/022202 2015-07-08 Evolutionary Biology CC BY-NC-ND How competition affects evolutionary rescue Matthew Miles Osmond|Claire de Mazancourt Redpath Museum, McGill University
http://dx.doi.org/10.1101/022194 2015-07-08 Genomics CC BY-NC-ND Whole genome sequence analyses of Western Central African Pygmy hunter-gatherers reveal a complex demographic history and identify candidate genes under positive natural selection PingHsun Hsieh|Krishna R Veeramah|Joseph Lachance|Sarah A Tishkoff|Jeffrey D Wall|Michael F Hammer|Ryan N Gutenkunst University of Arizona;|Stony Brook University;|Georgia Institute of Technology;|University of Pennsylvania;|University of California, San Fransisco
http://dx.doi.org/10.1101/022236 2015-07-08 Evolutionary Biology CC BY Eukaryotic core histone diversification in light of the histone doublet and DNA topo II genes of Marseilleviridae Albert J Erives University of Iowa, United States
http://dx.doi.org/10.1101/021915 2015-07-08 Bioinformatics CC BY-NC SPARTA: Simple Program for Automated reference-based bacterial RNA-seq Transcriptome Analysis Benjamin K Johnson|Matthew B Scholz|Tracy K Teal|Robert B Abramovitch Michigan State University;|Institute for Cyber Enabled Research, Michigan State University;|Data Carpentry
http://dx.doi.org/10.1101/022137 2015-07-07 Bioengineering CC BY-NC-ND Automated segmentation of skin strata in reflectance confocal microscopy depth stacks Samuel Hames|Marco Ardigo|H. Peter Soyer|Andrew P. Bradley|Tarl W. Prow The University of Queensland;|2. San Gallicano Dermatological Institute - IRCCS, Rome, Italy;|1. Dermatology Research Centre, The University of Queensland, School of Medicine, Translational Res;|3. The University of Queensland, School of Information Technology and Electrical Engineering
http://dx.doi.org/10.1101/022079 2015-07-07 Plant Biology CC BY-NC-ND Tomato I2 immune receptor can be engineered to confer partial resistance to the oomycete Phytophthora infestans in addition to the fungus Fusarium oxysporum Artemis Giannakopoulou|John F. C. Steele|Maria Eugenia Segretin|Tolga O. Bozkurt|Ji Zhou|Silke Robatzek|Mark J. Banfield|Marina Pais|Sophien Kamoun The Sainsbury Laboratory;|John Innes Centre;|INGEBI-CONICET;|Imperial College;|The Genome Analysis Centre
http://dx.doi.org/10.1101/021170 2015-07-07 Genomics TreeQTL: hierarchical error control for eQTL findings Christine Peterson|Marina Bogomolov|Yoav Benjamini|Chiara Sabatti Stanford;|Technion;|Tel Aviv University;|UCLA
http://dx.doi.org/10.1101/022111 2015-07-07 Developmental Biology The relationship between interpregnancy interval (IP) and mother's preceding pregnancies Michel C Vernier|Michael Schulzer|Pierre Vernier University of British Columbia;|University of Alberta
http://dx.doi.org/10.1101/013797 2015-07-07 Synthetic Biology CC BY Controlling E. coli gene expression noise Kyung Hyuk Kim|Kiri Choi|Bryan Bartley|Herbert M Sauro University of Washington
http://dx.doi.org/10.1101/022061 2015-07-07 Evolutionary Biology CC BY Structure and evolutionary history of a large family of NLR proteins in the zebrafish Kerstin Howe|Philipp H Schiffer|Julia Zielinski|Thomas Wiehe|Gavin K Laird|John Marioni|Onuralp Soylemez|Fyodor Kondrashov|Maria Leptin Wellcome Trust Sanger Institute, Cambridge, United Kingdom;|European Molecular Biology Laboratory (EMBL);|Institut für Genetik, Universität zu Köln, Köln, Deutschland;|The European Molecular Biology Laboratory, The European Bioinformatics Institute (EMBL-EBI);|Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), Barcelona, Spain;|The European Molecular Biology Laboratory, Heidelberg, Germany
http://dx.doi.org/10.1101/008268 2015-07-07 Evolutionary Biology CC BY Emergent speciation by multiple Dobzhansky-Muller incompatibilities Tiago Paixao|Kevin E. Bassler|Ricardo B. R. Azevedo The Institute of Science and Technology Austria;|University of Houston
http://dx.doi.org/10.1101/010611 2015-07-07 Genomics CC BY-NC-ND Heterozygous gene truncation delineates the human haploinsufficient genome Istvan Bartha|Antonio Rausell|Paul McLaren|Manuel Tardaguila|Pejman Mohammadi|Nimisha Chaturvedi|Jacques Fellay|Amalio Telenti École Polytechnique Fédérale de Lausanne;|SIB Swiss Institute of Bioinformatics and University Hospital of Lausanne;|SIB Swiss Institute of Bioinformatics, Lausanne and Basel, Switzerland;|J. Craig Venter Institute, La Jolla, CA, US
http://dx.doi.org/10.1101/022103 2015-07-06 Neuroscience CC BY-NC-ND On the dimensionality of olfactory space Marcelo O Magnasco|Andreas Keller|Leslie B Vosshall The Rockefeller University;|HHMI-The Rockefeller University
http://dx.doi.org/10.1101/022020 2015-07-06 Evolutionary Biology CC BY-NC-ND The role of recombination in evolutionary rescue Hildegard Uecker|Joachim Hermisson IST Austria;|University of Vienna
http://dx.doi.org/10.1101/021501 2015-07-06 Genomics Improved ribosome-footprint and mRNA measurements provide insights into dynamics and regulation of yeast translation David E Weinberg|Premal Shah|Stephen W Eichhorn|Jeffrey A Hussmann|Joshua B Plotkin|David P Bartel University of California, San Fransisco;|University of Pennsylvania, Philadelphia;|Massachusetts Institute of Technology;|University of Texas, Austin
http://dx.doi.org/10.1101/022012 2015-07-06 Evolutionary Biology CC BY The Effect of Horizontal Gene Transfer on the Dynamics of Antibiotic Drug Resistance in a Unicellular Population with a Dynamic Fitness Landscape, Repression and De-repression Yoav Atsmon-Raz|Nathaniel Wagner|Emanuel David Tannenbaum Ben Gurion University of the Negev;|Ben Gurion Unversity of the Negev
http://dx.doi.org/10.1101/021998 2015-07-06 Evolutionary Biology CC BY-NC How competition governs whether moderate or aggressive treatment minimizes antibiotic resistance Caroline Colijn|Ted Cohen Imperial College London;|Yale School of Public Health
http://dx.doi.org/10.1101/022038 2015-07-06 Neuroscience Life-span development of functional brain networks as assessed with minimum spanning tree analysis of resting state EEG. Dirk Smit|Eco J.C. de Geus|Maria Boersma|Dorret I Boomsma|Cornelis J Stam VU University Amsterdam;|n/a;|VUmc
http://dx.doi.org/10.1101/022004 2015-07-06 Evolutionary Biology CC BY Flawed evidence for convergent evolution of the circadian CLOCK gene in mole-rats Frederic Delsuc Institut des Sciences de l'Evolution, UMR 5554, CNRS, IRD, EPHE, Université de Montpellier
http://dx.doi.org/10.1101/021725 2015-07-06 Bioinformatics Chromatin interactions correlate with local transcriptional activity in Saccharomyces cerevisiae Zackary N. Scholl|Jianling Zhong|Alexander J. Hartemink Duke University
http://dx.doi.org/10.1101/017608 2015-07-06 Genomics CC BY Genomic prediction of celiac disease targeting HLA-positive individuals Gad Abraham|Alexia Rohmer|Jason A Tye-Din|Michael Inouye University of Melbourne;|University of Strasbourg;|The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/021964 2015-07-05 Evolutionary Biology How obstacles perturb population fronts and alter their genetic structure Wolfram Moebius|Andrew W. Murray|David R. Nelson Harvard University
http://dx.doi.org/10.1101/021923 2015-07-05 Immunology Fluctuating fitness shapes the clone size distribution of immune repertoires Jonathan Desponds|Thierry Mora|Aleksandra Walczak Ecole normale supérieure
http://dx.doi.org/10.1101/021931 2015-07-05 Genomics CC BY-NC-ND Worldwide patterns of human epigenetic variation Oana Carja|Julia L MacIsaac|Sarah M Mah|Brenna M Henn|Michael S Kobor|Marcus W Feldman|Hunter B Fraser Department of Biology, University of Pennsylvania, Philadelphia, PA;|Department of Medical Genetics, University of British Columbia, Vancouver, BC, Canada;|Department of Ecology and Evolution, Stony Brook University, Stony Brook, NY;|Department of Biology, Stanford University, Stanford, CA
http://dx.doi.org/10.1101/017392 2015-07-04 Bioinformatics GERV: A Statistical Method for Generative Evaluation of Regulatory Variants for Transcription Factor Binding Haoyang Zeng|Tatsunori Hashimoto|Daniel D. Kang|David K. Gifford Massachusetts Institute of Technology
http://dx.doi.org/10.1101/007781 2015-07-04 Genomics CC BY-NC-ND Predicting genome sizes and restriction enzyme recognition-sequence probabilities across the eukaryotic tree of life Santiago Herrera|Paula H. Reyes-Herrera|Timothy M. Shank Massachusetts Institute of Technology;|Colombian Corporation for Agricultural Research CORPOICA;|Woods Hole Oceanographic Institution
http://dx.doi.org/10.1101/009795 2015-07-03 Genetics XWAS: a software toolset for genetic data analysis and association studies of the X chromosome Feng Gao|Diana Chang|Arjun Biddanda|Li Ma|Yingjie Guo|Zilu Zhou|Alon Keinan Cornell University
http://dx.doi.org/10.1101/021543 2015-07-02 Scientific Communication Why clinical trials are terminated Theodore R. Pak|Maria Rodriguez|Frederick P. Roth University of Toronto;|Center for Cancer Systems Biology (CCSB), Dana-Farber Cancer Institute, Boston, MA, USA
http://dx.doi.org/10.1101/021840 2015-07-02 Developmental Biology Heterogeneous generation of new cells in the adult echinoderm nervous system Vladimir Mashanov|Olga Zueva|Jose E Garcia-Arraras University of Puerto Rico
http://dx.doi.org/10.1101/021881 2015-07-02 Systems Biology Cellular Population Dynamics Control the Robustness of the Stem Cell Niche Adam L MacLean|Paul Kirk|Michael PH Stumpf Imperial College London;|MRC Biostatistics Unit
http://dx.doi.org/10.1101/021162 2015-07-02 Microbiology CC BY-ND Regulation of yefM/yoeB toxin antitoxin system is independent of ppGpp and inorganic polyphosphate in Escherichia coli. Bhaskar Chandra Mohan Ramisetty SASTRA University
http://dx.doi.org/10.1101/021022 2015-07-02 Bioinformatics CC BY-NC-ND EVfold.org: Evolutionary Couplings and Protein 3D Structure Prediction Robert Sheridan|Robert J. Fieldhouse|Sikander Hayat|Yichao Sun|Yevgeniy Antipin|Li Yang|Thomas Hopf|Debora S. Marks|Chris Sander Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, NY, USA;|Department of Systems Biology, Harvard Medical School, Boston, MA, USA
http://dx.doi.org/10.1101/013375 2015-07-01 Neuroscience Asynchronous Rate Chaos in Spiking Neuronal Circuits Omri Harish|David Hansel Universit? Paris Descartes
http://dx.doi.org/10.1101/021774 2015-07-01 Genomics CC BY-NC The two-speed genomes of filamentous pathogens: waltz with plants Suomeng Dong|Sylvain Raffaele|Sophien Kamoun Nanjing Agricultural University;|INRA and CNRS;|The Sainsbury Laboratory
http://dx.doi.org/10.1101/021790 2015-07-01 Systems Biology Origins of cell-to-cell variability, kinetic proof-reading and the robustness of MAPK signal transduction Sarah Filippi|Chris Barnes|Paul Kirk|Takamasa Kudo|Siobhan McMahon|Takaho Tsuchiya|Takumi Wada|Shinya Kuroda|Michael Stumpf University of Oxford;|University College London;|Imperial College London;|University of Tokyotsuchiya@bi.s.u-tokyo.ac.jp;|University of Tokyo;|Tokyo University
http://dx.doi.org/10.1101/021824 2015-07-01 Genetics CC BY-NC-ND The anatomical distribution of genetic associations Alan B Wells|Nathan Kopp|Xiaoxiao Xu|David R O'Brien|Wei Yang|Arye Nehorai|Tracy L. Adair-Kirk|Raphael Kopan|Joseph D Dougherty Washington University School of Medicine;|Washington University in St. Louis;|Cincinnati Children's Hospital Medical Center
http://dx.doi.org/10.1101/011833 2015-07-01 Bioinformatics SubClonal Hierarchy Inference from Somatic Mutations: automatic reconstruction of cancer evolutionary trees from multi-region next generation sequencing Noushin Niknafs|Violeta Beleva Guthrie|Daniel Q Naiman|Rachel Karchin Johns Hopkins University
http://dx.doi.org/10.1101/021386 2015-06-30 Genetics Mendelian randomization: a premature burial? George Davey Smith University of Bristol
http://dx.doi.org/10.1101/021766 2015-06-30 Biophysics Thermal motion of DNA in an MspA pore Bo Lu|Stephen Fleming|Tamas Szalay|Jene A Golovchenko Harvard University
http://dx.doi.org/10.1101/021733 2015-06-30 Bioinformatics Clustering of mRNA-Seq data for detection of alternative splicing patterns Marla Johnson|Elizabeth Purdom UC Berkeley
http://dx.doi.org/10.1101/021717 2015-06-30 Biochemistry CC BY-NC-ND Cooperative Binding Mitigates the High-Dose Hook Effect Ranjita Dutta Roy|Melanie I Stefan Department of Medicine Solna, Karolinska Institutet, Stockholm, Sweden;|Centre for Integrative Physiology, University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/021709 2015-06-30 Evolutionary Biology CC BY SimPhy: Phylogenomic Simulation of Gene, Locus and Species Trees Diego Mallo|Leonardo de Oliveira Martins|David Posada University of Vigo
http://dx.doi.org/10.1101/021360 2015-06-29 Evolutionary Biology CC BY-NC-ND Evolution of organismal stoichiometry in a 50,000-generation experiment with Escherichia coli Caroline B. Turner|Brian D. Wade|Justin R. Meyer|Richard E. Lenski Michigan State Universty;|Michigan State University;|University of California, San Diego
http://dx.doi.org/10.1101/021642 2015-06-29 Biophysics CC BY-NC Mitotic chromosome compaction via active loop extrusion Anton Goloborodko|John F. Marko|Leonid Mirny Massachusetts Institute of Technology;|Northwestern University;|MIT
http://dx.doi.org/10.1101/021329 2015-06-29 Pharmacology Effects of MDMA on socioemotional feelings, authenticity, and autobiographical disclosure in healthy volunteers in a controlled setting Matthew J Baggott|Jeremy R Coyle|Jennifer D Siegrist|Kathleen J Garrison|Gantt P Galloway|John E Mendelson San Francisco, CA;|University of California, Berkeley;|California Pacific Medical Center Research Institute
http://dx.doi.org/10.1101/021519 2015-06-29 Genomics CC BY-NC-ND Approaches to estimating inbreeding coefficients in clinical isolates of Plasmodium falciparum from genomic sequence data John D O'Brien|Lucas Amenga-Etego|Ruiqi Li Bowdoin Collgee;|Navrongo Health Research Centre;|Bowdoin College
http://dx.doi.org/10.1101/021626 2015-06-27 Bioinformatics CC BY TransRate: reference free quality assessment of de-novo transcriptome assemblies Richard D Smith-Unna|Chris Boursnell|Rob Patro|Julian M Hibberd|Steven Kelly University of Cambridge;|Stony Brook University;|University of Oxford
http://dx.doi.org/10.1101/021535 2015-06-27 Genomics CC BY-NC-ND Mitochondrial DNA Copy Number Variation Across Human Cancers Ed Reznik|Martin Miller|Yasin Senbabaoglu|Nadeem Riaz|William Lee|Chris Sander Memorial Sloan Kettering Cancer Center;|Cancer Research UK, Cambridge Institute;|Sloan Kettering Institute
http://dx.doi.org/10.1101/021618 2015-06-27 Cancer Biology Comprehensive nucleosome mapping of the human genome in cancer progression Brooke Druliner|Daniel Vera|Ruth Johnson|Xiaoyang Ruan|Lynne Apone|Eileen Dimalanta|Fiona Stewart|Lisa Boardman|Jonathan H. Dennis Mayo Clinic;|Florida State University;|New England Biolabs
http://dx.doi.org/10.1101/021600 2015-06-27 Evolutionary Biology Adaptive evolution is substantially impeded by Hill-Robertson interference in Drosophila David Castellano|Marta Coronado|Jose Campos|Antonio Barbadilla|Adam Eyre-Walker Universitat Autonoma de Barcelona;|University of Edinburgh;|University of Sussex
http://dx.doi.org/10.1101/021220 2015-06-26 Ecology CC BY-NC-ND Metacommunities in Dynamic Landscapes Charles Novaes de Santana|Jan Klecka|Gian Marco Palamara|Carlos J. Melian University of Zürich;|Institute of Entomology, Biology Centre of the Czech Academy of Sciences;|Eawag - Swiss Federal Institute of Aquatic Science and Technology
http://dx.doi.org/10.1101/021576 2015-06-26 Bioinformatics CC BY Modeling small RNA competition in C. elegans Joshua Elkington Harvard
http://dx.doi.org/10.1101/021584 2015-06-26 Molecular Biology CC BY Connecting small RNAs and Aging Joshua Elkington Harvard
http://dx.doi.org/10.1101/021568 2015-06-26 Bioinformatics CC BY-NC-ND In Silico Predictive Modeling of CRISPR/Cas9 guide efficiency Nicolo Fusi|Ian Smith|John Doench|Jennifer Listgarten Microsoft Research;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/021527 2015-06-26 Bioinformatics CC BY-NC SSCM: A method to analyze and predict the pathogenicity of sequence variants Sharad Vikram|Matthew D Rasmussen|Eric A Evans|Imran S Haque University of California, San Diego; Counsyl;|Counsyl
http://dx.doi.org/10.1101/009720 2015-06-25 Genetics CC BY-NC Selection of Pairings Reaching Evenly Across the Data (SPREAD): A simple algorithm to design maximally informative fully crossed mating experiments Kolea Zimmerman|Daniel Levitis|Ethan Addicott|Anne Pringle Harvard University;|University of Southern Denmark;|Harvard Forest
http://dx.doi.org/10.1101/014209 2015-06-25 Immunology CC BY-ND Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription Kaur Alasoo|Fernando Martinez Estrada|Christine Hale|Siamon Gordon|Fiona Powrie|Gordon Dougan|Subhankar Mukhopadhyay|Daniel Gaffney Wellcome Trust Sanger Institute;|Botnar Research Centre (NDORMS), University of Oxford;|Sir William Dunn School of Pathology, University of Oxford;|Kennedy Institute of Rheumatology, University of Oxford
http://dx.doi.org/10.1101/021469 2015-06-25 Genetics CC BY-NC A novel test for detecting gene-gene interactions in trio studies Brunilda Balliu|Noah Zaitlen Stanford University School of Medicine, United States;|University of California San Francisco, United States
http://dx.doi.org/10.1101/021428 2015-06-24 Neuroscience CC BY-NC-ND Simple Plans or Sophisticated Habits? State, Transition and Learning Interactions in the Two-step Task. Thomas Akam|Rui Costa|Peter Dayan Champalimaud Neuroscience Program;|Gatsby Computational Neuroscience Unit, UCL
http://dx.doi.org/10.1101/021311 2015-06-23 Neuroscience CC BY-NC-ND Mechanical morphogenesis and the development of neocortical organisation Ophelie Foubet|Roberto Toro Institut Pasteur
http://dx.doi.org/10.1101/021378 2015-06-23 Evolutionary Biology Stochastic evolutionary games in dynamic populations Weini Huang|Christoph Hauert|Arne Traulsen Max Planck Institute for Evolutionary Biology;|The University of British Columbia
http://dx.doi.org/10.1101/020206 2015-06-23 Systems Biology CC BY-NC-ND Extensive post-transcriptional regulation across human tissues Nikolai Slavov|Alexander Franks|Edoardo Airoldi Harvard University
http://dx.doi.org/10.1101/012823 2015-06-22 Bioinformatics Shrinkage of dispersion parameters in the binomial family, with application to differential exon skipping Sean Ruddy|Marla Johnson|Elizabeth Purdom UC, Berkeley
http://dx.doi.org/10.1101/019281 2015-06-22 Genomics CC BY-NC Sequencing ultra-long DNA molecules with the Oxford Nanopore MinION John M Urban|Jacob Bliss|Charles E Lawrence|Susan A Gerbi Brown University
http://dx.doi.org/10.1101/021303 2015-06-22 Evolutionary Biology Machine Learning Biogeographic Processes from Biotic Patterns: A New Trait-Dependent Dispersal and Diversification Model with Model-Choice By Simulation-Trained Discriminant Analysis Jeet Sukumaran|Evan P. Economo|L. Lacey Knowles University of Michigan, Ann Arbor;|Okinawa Institute of Science and Technology Graduate University
http://dx.doi.org/10.1101/012229 2015-06-22 Evolutionary Biology CC BY-NC-ND Evolutionary dynamics of collective action in spatially structured populations Jorge Pena|Georg Noldeke|Laurent Lehmann Max Planck Institute for Evolutionary Biology;|University of Basel;|University of Lausanne
http://dx.doi.org/10.1101/021204 2015-06-22 Neuroscience CC BY-NC-ND Decoding the Population Activity of Grid Cells for Spatial Localization and Goal-Directed Navigation Martin Stemmler|Alexander Mathis|Andreas VM Herz Ludwig-Maximilians-Universität;|Harvard University
http://dx.doi.org/10.1101/021287 2015-06-21 Genetics Genetic basis underlying connection between hyperglycemia and dyslipidemia in Apoe-deficient mice Qian Wang|Andrew Grainger|Ani Manichaikul|Emily Farber|Suna Onengut-Gumuscu|Weibin Shi University of Virginia, United States
http://dx.doi.org/10.1101/021295 2015-06-21 Cell Biology CC BY-NC-ND Could rare amino acids regulate enzymes abundance? valentina agoni University of Pavia - Italy
http://dx.doi.org/10.1101/021147 2015-06-20 Cancer Biology CC BY-NC-ND A New Mutation-Profile-Based Method for Understanding the Evolution of Cancer Somatic Mutations Zhan Zhou|Yangyun Zou|Gangbiao Liu|Jingqi Zhou|Shiming Zhao|Zhixi Su|Gu Xun Fudan University
http://dx.doi.org/10.1101/013938 2015-06-19 Ecology CC BY-NC-ND The effect of carbon subsidies on marine planktonic niche partitioning and recruitment during biofilm assembly Chuck Pepe-Ranney|Ed Hall Cornell University;|Colorado State University
http://dx.doi.org/10.1101/021279 2015-06-19 Ecology CC BY-ND A seasonal copepod ‘lipid pump’ promotes carbon sequestration in the deep North Atlantic Sigrun H. Jonasdottir|Andre W. Visser|Katherine Richardson|Michael R. Heath DTU Aqua;|Copenhagen University;|University of Strathclyde,
http://dx.doi.org/10.1101/021238 2015-06-19 Bioinformatics TESS: Bayesian inference of lineage diversification rates from (incompletely sampled) molecular phylogenies in R Sebastian Hohna|Michael R. May|Brian R. Moore University of California, Berkeley;|University of California, Davis
http://dx.doi.org/10.1101/021253 2015-06-19 Genomics CC BY-NC-ND Exon capture optimization in large-genome amphibians Evan McCartney-Melstad|Genevieve G. Mount|H. Bradley Shaffer University of California, Los Angeles;|Louisiana State University
http://dx.doi.org/10.1101/021246 2015-06-19 Evolutionary Biology A targeted subgenomic approach for phylogenomics based on microfluidic PCR and high throughput sequencing Simon Uribe-Convers|Matthew L Settles|David C Tank University of Idaho
http://dx.doi.org/10.1101/021261 2015-06-19 Bioinformatics CC BY-NC-ND Inference under a Wright-Fisher model using an accurate beta approximation Paula Tataru|Thomas Bataillon|Asger Hobolth Aarhus University
http://dx.doi.org/10.1101/020933 2015-06-19 Genetics An accurate genetic clock David H Hamilton University of Maryland
http://dx.doi.org/10.1101/018929 2015-06-19 Evolutionary Biology CC BY-NC-ND A Chronological Atlas of Natural Selection in the Human Genome during the Past Half-million Years Hang Zhou|Sile Hu|Rostislav Matveev|Qianhui Yu|Jing Li|Philipp Khaitovich|Li Jin|Michael Lachmann|Mark Stoneking|Qiaomei Fu|Kun Tang Key Laboratory of Computational Biology, CAS-MPG Partner Institute for Computational Biology;|Max Planck Institute for Mathematics in the Sciences;|MOE Key Laboratory of Contemporary Anthropology, Fudan University;|Santa Fe Institute;|Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology;|Department of Genetics, Harvard Medical School
http://dx.doi.org/10.1101/020636 2015-06-19 Bioinformatics CC BY-NC-ND Hi-Cpipe: a pipeline for high-throughput chromosome capture Giancarlo Castellano|Francois Le Dily|Antonio Hermoso Pulido|Miguel Beato|Guglielmo Roma IDIBAPS;|CRG;|Centre for Genomic Regulation
http://dx.doi.org/10.1101/021154 2015-06-18 Microbiology CC BY-NC-ND The discovery, distribution and evolution of viruses associated with Drosophila melanogaster Claire L Webster|Fergal M Waldron|Shaun Robertson|Daisy Crowson|Giada Ferrari|Juan F Quintana|Jean-Michel Brouqui|Elizabeth H Bayne|Ben Longdon|Amy H Buck|Brian P Lazzaro|Jewelna Akorli|Penelope R Haddrill|Darren J Obbard School of Life Sciences, University of Sussex, Brighton, UK;|Institute of Evolutionary Biology and Centre for Immunity Infection and Evolution, University of Ed;|School of Life Sciences, University of Nottingham, UK;|Department of Ecology and Evolutionary Biology, University of Toronto, Toronto, Canada;|Institute of Evolutionary Medicine, University of Zurich, Zurich, Switzerland;|Institute of Immunity and Infection Research, and the Centre for Immunity Infection and Evolution, U;|Institute of Cell Biology, University of Edinburgh, Edinburgh, UK;|Department of Genetics, University of Cambridge, Cambridge, UK;|Department of Entomology, Cornell University, Ithaca, NY 14853, USA;|Department of Parasitology, Noguchi Memorial Institute for Medical Research, University of Ghana, Ac;|Centre for Forensic Science, Department of Pure and Applied Chemistry, University of Strathclyde, Ro
http://dx.doi.org/10.1101/021121 2015-06-18 Genetics CC BY Genome Editing in Caenorhabditis briggsae using the CRISPR/Cas9 System Elizabeth Culp|Cory Richman|Devika Sharanya|Bhagwati Gupta McMaster University
http://dx.doi.org/10.1101/021113 2015-06-18 Pharmacology MDMA impairs response to water intake in healthy volunteers Matthew J Baggott|Kathleen J Garrison|Jeremy R Coyle|Gantt P Galloway|Allan J Barnes|Marilyn A Huestis|John E Mendelson San Francisco, CA;|California Pacific Medical Center Research Institute;|University of California, Berkeley;|National Institute on Drug Abuse
http://dx.doi.org/10.1101/021105 2015-06-18 Bioinformatics CC BY-NC-ND PaxtoolsR: Pathway Analysis in R Using Pathway Commons Augustin Luna|Ozgun Babur|Bulent Arman Aksoy|Emek Demir|Chris Sander Computational Biology Center, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA
http://dx.doi.org/10.1101/021063 2015-06-17 Bioinformatics CC BY-ND Biographika: rich interactive data visualizations on the web for the research community Pablo Pareja Tobes|Eduardo Pareja Tobes|Marina Manrique|Eduardo Pareja|Raquel Tobes Era7 Bioinformatics
http://dx.doi.org/10.1101/020164 2015-06-17 Genomics CC BY PrediXcan: Trait Mapping Using Human Transcriptome Regulation Eric R Gamazon|Heather E Wheeler|Kaanan Shah|Sahar V Mozaffari|Keston Aquino-Michaels|Robert J Carroll|Anne E Eyler|Joshua C Denny|Dan L Nicolae|Nancy J Cox|Hae Kyung Im Vanderbilt University;|The University of Chicago
http://dx.doi.org/10.1101/020958 2015-06-17 Evolutionary Biology CC BY-NC-ND Evolution and coexistence in response to a key innovation in a long-term evolution experiment with Escherichia coli Caroline B. Turner|Zachary D. Blount|Daniel H. Mitchell|Richard E. Lenski Michigan State Universty;|Michigan State University
http://dx.doi.org/10.1101/021055 2015-06-16 Neuroscience CC BY-NC Stimulus induced visual cortical networks are recapitulated by spontaneous local and inter-areal synchronization Christopher Lewis|Conrado Bosmann|Thilo Womelsdorf|Pascal Fries Ernst Strüngmann Institute (ESI) for Neuroscience;|Donders Institute for Brain, Cognition and Behaviour;|Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society
http://dx.doi.org/10.1101/020776 2015-06-16 Genetics CC BY-NC-ND Leveraging distant relatedness to quantify human mutation and gene conversion rates Pier Francesco Palamara|Laurent Francioli|Giulio Genovese|Peter Wilton|Alexander Gusev|Hilary Finucane|Sriram Sankararaman|Shamil Sunyaev|Paul Debakker|John Wakeley|Itsik Pe'er|Alkes L. Price Department of Epidemiology, Harvard T. H. Chan School of Public Health;|Department of Medical Genetics, University Medical Center Utrecht;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT;|Department of Organismic and Evolutionary Biology, Harvard University;|Department of Genetics, Harvard Medical School;|{Department of Genetics, Harvard Medical School;|Department of Computer Science, Columbia University
http://dx.doi.org/10.1101/020990 2015-06-16 Bioinformatics Sequence evidence for common ancestry of eukaryotic endomembrane coatomers Vasilis J. Promponas|Katerina R. Katsani|Benjamin J. Blencowe|Christos A. Ouzounis University of Cyprus;|Democritus University of Thrace;|University of Toronto;|Centre for Research & Technology Hellas
http://dx.doi.org/10.1101/021006 2015-06-16 Genetics Signatures of Dobzhansky-Muller Incompatibilities in the Genomes of Recombinant Inbred Lines Maria Colome-Tatche|Frank Johannes University of Groningen and University Medical Centre Groningen;|University of Groningen
http://dx.doi.org/10.1101/020263 2015-06-16 Pathology CC BY-NC-ND PIK3CA Mutational Analysis in Formalin-Fixed, Paraffin-Embedded Archival Tissues of Urothelial Carcinoma of Urinary Bladder Alcides Chaux|Julie S. Cohen|Luciana Schultz|Roula Albadine|Sana Jadallah|Kathleen M. Murphy|Diana Teheri|Mark P. Schoenberg|George J. Netto Norte University;|Kennedy Krieger Institute, Baltimore, MD;|Johns Hopkins University, Baltimore, MD;|ProPath, Dallas, TX
http://dx.doi.org/10.1101/005264 2015-06-15 Bioinformatics CC BY-NC-ND Automation and Evaluation of the SOWH Test with SOWHAT Samuel H. Church|Joseph F. Ryan|Casey W. Dunn Brown University;|Whitney Laboratory for Marine Biosciences
http://dx.doi.org/10.1101/016261 2015-06-15 Evolutionary Biology CC BY-NC-ND No association between plant mating system & geographic range overlap Dena Grossenbacher|Ryan Briscoe Runquist|Emma Goldberg|Yaniv Brandvain University of Minnesota - Twin Cities;|University of Minnesota -- Twin Cities
http://dx.doi.org/10.1101/020909 2015-06-15 Genetics CC BY-NC-ND Linkage disequilibrium between single nucleotide polymorphisms and hypermutable loci Sterling Sawaya|Matt Jones|Matt Keller Colorado University Boulder, United States;|Department of Psychology and Neuroscience, University of Colorado, Boulder, United States;|Institute for Behavioral Genetics CU Boulder, United States
http://dx.doi.org/10.1101/020891 2015-06-15 Synthetic Biology Engineering Modular Viral Scaffolds for Targeted Bacterial Population Editing Hiroki Ando|Sebastien Lemire|Diana Pires|Timothy Lu Massachusetts Institute of Technology
http://dx.doi.org/10.1101/020859 2015-06-15 Bioinformatics CC BY-NC-ND Automated Contamination Detection in Single-Cell Sequencing Markus Lux|Barbara Hammer|Alexander Sczyrba Bielefeld University
http://dx.doi.org/10.1101/020875 2015-06-15 Genomics CC BY-NC-ND Systematic identification of significantly mutated regions reveals a rich landscape of functional molecular alterations across cancer genomes Carlos L. Araya|Can Cenik|Jason A. Reuter|Gert Kiss|Vijay S. Pande|Michael P. Snyder|William J. Greenleaf Stanford University
http://dx.doi.org/10.1101/020842 2015-06-15 Bioinformatics CC BY-NC-ND MAST: A flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA-seq data. Greg Finak|Andrew McDavid|Masanao Yajima|Jingyuan Deng|Vivian Gersuk|Alex K Shalek|Chloe K Slichter|Hannah W Miller|M Julianna McElrath|Martin Prlic|Peter Linsley|Raphael Gottardo Fred Hutchinson Cancer Research Center;|Benaroya Research Institute at Virginia Mason;|Institute for Medical Engineering & Science & Department of Chemistry; Ragon Institute of MGH;;|Fred Hutcinson Cancer Research Center
http://dx.doi.org/10.1101/020867 2015-06-15 Bioinformatics Overcoming analytical reliability issues in clinical proteomics using rank-based network approaches Wilson Wen Bin Goh|Limsoon Wong Tianjin University;|National University of Singapore
http://dx.doi.org/10.1101/019141 2015-06-14 Bioinformatics ZIFA: Dimensionality reduction for zero-inflated single cell gene expression analysis Christopher Yau|Emma Pierson University of Oxford
http://dx.doi.org/10.1101/019398 2015-06-13 Neuroscience CC BY-NC-ND Stochastic models of evidence accumulation in changing environments Alan Veliz-Cuba|Zachary P Kilpatrick|Kresimir Josic University of Houston
http://dx.doi.org/10.1101/020826 2015-06-12 Evolutionary Biology CC BY The Nature, Extent, and Consequences of Genetic Variation in the opa Repeats of Notch in Drosophila Clinton Rice|Danielle Beekman|Liping Liu|Albert J Erives University of Iowa, United States
http://dx.doi.org/10.1101/013177 2015-06-12 Genomics A comprehensive multicenter comparison of whole genome sequencing pipelines using a uniform tumor-normal sample pair Ivo Buchhalter|Barbara Hutter|Tyler S Alioto|Timothy A Beck|Paul C Boutros|Benedikt Brors|Adam P Butler|Sasithorn Chotewutmontri|Robert E Denroche|Sophia Derdak|Nicolle Diessl|Lars Feuerbach|Akihiro Fujimoto|Susanne Grobner|Marta Gut|Nicholas J Harding|Michael Heinold|Lawrence E Heisler|Jonathan Hinton|Natalie Jager|David Jones|Rolf Kabbe|Andrey Korshunov|John D McPherson|Andrew Menzies|Hidewaki Nakagawa|Christopher Previti|Keiran Raine|Paolo Ribeca|Sabine Schmidt|Rebecca Shepherd|Lucy Stebbings|Patrick S Tarpey|Jon W Teague|Laurie Tonon|David A Wheeler|Liu Xi|Takafumi N Yamaguchi|Anne-Sophie Sertier|Stefan M Pfister|Peter J Campbell|Matthias Schlesner|Peter Lichter|Roland Eils|Ivo G Gut|David T W Jones German Cancer Research Center (DKFZ), Heidelberg, Germany;|Centro Nacional de Análisis Genómico (CNAG), Barcelona, Spain;|Ontario Institute for Cancer Research (OICR), Toronto, Canada;|Wellcome Trust Sanger Institute (WTSI), Hinxton, Cambridge, UK;|RIKEN Center for Integrative Medical Sciences, Tokyo, Japan;|Heidelberg University Hospital, Heidelberg, Germany;|Synergie Lyon Cancer Foundation, Lyon, France;|Human Genome Sequencing Center, Baylor College of Medicine, Huston, TX, USA
http://dx.doi.org/10.1101/014936 2015-06-11 Genetics Linkage Disequilibrium and Inversion-Typing of the Drosophila melanogaster Genome Reference Panel David Houle|Eladio J. Marquez Florida State University;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/020784 2015-06-11 Bioinformatics CC BY-ND Excess False Positive Rates in Methods for Differential Gene Expression Analysis using RNA-Seq Data David M Rocke|Luyao Ruan|Yilun Zhang|J. Jared Gossett|Blythe Durbin-Johnson|Sharon Aviran University of California, Davis
http://dx.doi.org/10.1101/020792 2015-06-11 Bioinformatics CC BY-NC-ND bModelTest: Bayesian site model selection for nucleotide data Remco Bouckaert University of Auckland
http://dx.doi.org/10.1101/020685 2015-06-11 Systems Biology CC BY-NC A novel method to enhance the sensitivity of marker detection using a refined hierarchical prior of tissue similarities Shahin Mohammadi|Ananth Grama Purdue University
http://dx.doi.org/10.1101/020800 2015-06-11 Ecology CC BY-NC-ND Environmental DNA reveals that rivers are conveyer belts of biodiversity information Kristy Deiner|Emanuel A. Fronhofer|Elvira Machler|Florian Altermatt Eawag: Swiss Federal Institute of Aquatic Science and Technology;|University of Zurich, Institute of Evolutionary Biology and Environmental Studies
http://dx.doi.org/10.1101/008789 2015-06-11 Genomics CC BY-NC-ND A Genome-Wide Association Analysis Reveals Epistatic Cancellation of Additive Genetic Variance for Root Length in Arabidopsis thaliana Jennifer Lachowiec|Xia Shen|Christine Queitsch|Orjan Carlborg University of Washington;|Karolinska Institutet;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/020743 2015-06-10 Ecology CC BY-NC-ND The migration game in habitat network: the case of tuna Patrizio Mariani|Vlastimil Krivan|Brian R MacKenzie|Christian Mullon Technical University of Denmark;|Dep. of Mathematics and Biomathematics, Faculty of Science, Uni. of South Bohemia, Czech Republic;|RD, Unité de Recherche Ecosystémes Marins Exploités, France
http://dx.doi.org/10.1101/020693 2015-06-10 Molecular Biology CC BY-NC-ND Thiosulfate-hydrogen peroxide redox oscillator as pH driver for ribozyme activity in the RNA world Rowena Ball|John Brindley The Australian National University;|University of Leeds
http://dx.doi.org/10.1101/020719 2015-06-10 Genomics CC BY-NC-ND Fast and sensitive mapping of error-prone nanopore sequencing reads with GraphMap Ivan Sovic|Mile Sikic|Andreas Wilm|Shannon Nicole Fenlon|Swaine Chen|Niranjan Nagarajan Ruder Boskovic Institute;|University of Zagreb, Faculty of Electrical Engineering and Computing;|Genome Institute of Singapore
http://dx.doi.org/10.1101/020529 2015-06-10 Genetics CC BY The Nature, Extent, and Consequences of Cryptic Genetic Variation in the opa Repeats of Notch in Drosophila Clinton Rice|Danielle Beekman|Liping Liu|Albert Erives University of Iowa
http://dx.doi.org/10.1101/016618 2015-06-10 Genetics CC BY-NC-ND Two variance component model improves genetic prediction in family data sets George Tucker|Po-Ru Loh|Iona M MacLeod|Ben J Hayes|Michael E Goddard|Bonnie Berger|Alkes L Price Massachusetts Institute of Technology;|Harvard T.H. Chan School of Public Health;|University of Melbourne;|La Trobe University
http://dx.doi.org/10.1101/015164 2015-06-10 Genetics CC BY Dissection of a complex disease susceptibility region using a Bayesian stochastic search approach to fine mapping Chris Wallace|Antony J Cutler|Nikolas Pontikos|Marcin L Pekalski|Oliver S Burren|Jason D Cooper|Arcadio Rubio Garcia|Ricardo C Ferreira|Hui Guo|Neil M Walker|Deborah J Smyth|Stephen S Rich|Suna Onengut-Gumuscu|Stephen S Sawcer|Maria Ban|Sylvia Richardson|John Todd|Linda Wicker University of Cambridge;|University of Manchester;|University of Virginia;|MRC Biostatistics Unit
http://dx.doi.org/10.1101/013607 2015-06-09 Evolutionary Biology CC BY Independent molecular basis of convergent highland adaptation in maize Shohei Takuno|Peter Ralph|Kelly Swarts|Rob J Elshire|Jeffrey C Glaubitz|Edward S. Buckler|Matthew B Hufford|Jeffrey Ross-Ibarra sokendai;|University of Southern California;|Cornell University;|Iowa State University;|UCDavis
http://dx.doi.org/10.1101/020677 2015-06-09 Systems Biology Cellular reprogramming dynamics follow a simple one-dimensional reaction coordinate Sai Teja Pusuluri|Alex H. Lang|Pankaj Mehta|Horacio E. Castillo Department of Physics and Astronomy and Nanoscale and Quantum Phenomena Institute, Ohio University;|Physics Department and Center for Regenerative Medicine, Boston Univerity
http://dx.doi.org/10.1101/020610 2015-06-09 Bioinformatics CC BY Resolving microsatellite genotype ambiguity in populations of allopolyploid and diploidized autopolyploid organisms using negative correlations between alleles Lindsay V Clark|Andrea Drauch Schreier University of Illinois, Urbana-Champaign;|University of California, Davis
http://dx.doi.org/10.1101/013813 2015-06-09 Microbiology CC BY-NC-ND Non-cyanobacterial diazotrophs mediate dinitrogen fixation in biological soil crusts during early crust formation. Charles Pepe-Ranney|Chantal Koechli|Ruth Potrafka|Cheryl Andam|Erin Eggleston|Ferran Garcia-Pichel|Daniel H Buckley Cornell University;|Arizona State University
http://dx.doi.org/10.1101/020602 2015-06-09 Genomics Genome-wide transcription factor activities are explained by intrinsic conformational dynamics of binding-sites and distal flanking-regions Munazah Andrabi|Andrew Paul Hutchins|Diego Miranda-Saavedra|Hidetoshi Kono|Ruth Nussinov|Kenji Mizuguchi|Shandar Ahmad RIKEN, Japan;|Chinese Academy of Science, China;|Centro de Biología Molecular Severo Ochoa, CSIC/Universidad Autónoma de Madrid;|JAERI, Japan;|NCI, USA;|National Institutes of Biomedical Innovation, Health and Nutrition, Japan;|National Institutes of Biomedical Innovation, Health and Nutrition, Japan
http://dx.doi.org/10.1101/018416 2015-06-09 Genomics A high-throughput RNA-seq approach to profile transcriptional responses Gregory A Moyerbrailean|Gordon O Davis|Chris T Harvey|Donovan Watza|Xiaoquan Wen|Roger Pique-Regi|Francesca Luca Wayne State University;|University of Michigan;|WAYNE STATE UNIVERSITY
http://dx.doi.org/10.1101/020644 2015-06-08 Genetics A gene for social immunity in the burying beetle Nicrophorus vespilloides? William JP Palmer|Ana Duarte|Matthew Schrader|Jonathan P Day|Rebecca Kilner|Francis Jiggins University of Cambridge
http://dx.doi.org/10.1101/020669 2015-06-08 Bioinformatics CC BY-NC-ND WaspAtlas: A Nasonia vitripennis gene database Nathaniel J Davies|Eran Tauber University of Leicester
http://dx.doi.org/10.1101/020586 2015-06-08 Neuroscience CC BY Estimating information flow through a memory system: the utility of meta-analytic methods for genetics Tugce Yildizoglu|Jan-Marek Weislogel|Farhan Mohammad|Edwin S.-Y. Chan|Pryseley N. Assam|Adam Claridge-Chang Duke-NUS Graduate Medical School;|Singapore Clinical Research Institute
http://dx.doi.org/10.1101/020651 2015-06-08 Genomics CC BY Statistical Colocalization of Genetic Risk Variants for Related Autoimmune Diseases in the Context of Common Controls Mary D Fortune|Hui Guo|Oliver Burren|Ellen Schofield|Neil M Walker|Maria Ban|Stephen J Sawcer|John Bowes|Jane Worthington|Anne Barton|Steve Eyre|John A Todd|Chris Wallace Cambridge Institute for Medical Research;|Institute of Population Health, The University of Manchester;|University Neurology Unit, Addenbrooke's Hospital, Cambridge;|Arthritis Research UK Centre for Genetics and Genomics, University of Manchester
http://dx.doi.org/10.1101/018358 2015-06-08 Synthetic Biology CC BY-NC-ND Generating effective models and parameters for RNA genetic circuits Chelsea Y Hu|Jeffrey D Varner|Julius B Lucks Cornell University
http://dx.doi.org/10.1101/020594 2015-06-08 Synthetic Biology CC BY-NC Landauer in the age of synthetic biology: energy consumption and information processing in biochemical networks Pankaj Mehta|Alex H Lang|David J Schwab Boston University;|Northwestern
http://dx.doi.org/10.1101/020578 2015-06-07 Microbiology Generic transcriptional response of E. coli to stress Ranginee Choudhury|Saroj Kant Mohapatra ILS;|National Institute of Biomedical Genomics, Kalyani, West Bengal, India
http://dx.doi.org/10.1101/020560 2015-06-07 Immunology CC BY-ND Ex vivo mycobacterial growth inhibition assay (MGIA) for tuberculosis vaccine testing - a protocol for mouse splenocytes Andrea Andrea Zelmer|Rachel Tanner|Elena Stylianou|Sheldon Morris|Angelo Izzo|Ann Williams|Sally Sharpe|Ilaria Pepponi|Barry Walker|David A Hokey|Helen McShane|Michael Brennan|Helen Fletcher London School of Hygiene and Tropical Medicine;|Oxford University;|Center for Biologics Evaluation and Research;|Colorado State University;|Public Health England;|Aeras
http://dx.doi.org/10.1101/020198 2015-06-07 Genetics The weighting is the hardest part: on the behavior of the likelihood ratio test and score test under weight misspecification in rare variant association studies Camelia C. Minica|Giulio Genovese|Christina M. Hultman|Rene Pool|Jacqueline M. Vink|Conor V. Dolan|Benjamin M. Neale Vrije Universiteit Amsterdam;|The Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard;|The Department of Medical Epidemiology and Biostatistics, Karolinska Institute, Stockholm
http://dx.doi.org/10.1101/017558 2015-06-07 Neuroscience CC BY Echo state networks with multiple read-out modules Andres Laan Tartu University
http://dx.doi.org/10.1101/020537 2015-06-07 Evolutionary Biology Bayesian co-estimation of selfing rate and locus-specific mutation rates for a partially selfing population Benjamin D Redelings|Seiji Kumagai|Liuyang Wang|Andrey Tatarenkov|Ann K. Sakai|Stephen G. Weller|Theresa M. Culley|John C. Avise|Marcy K. Uyenoyama Duke University, United States;|University of California, Irvine, United States;|University of Cincinnati, United States
http://dx.doi.org/10.1101/010355 2015-06-05 Evolutionary Biology CC BY-NC-ND Similar efficacies of selection shape mitochondrial and nuclear genes in Drosophila melanogaster and Homo sapiens Brandon S. Cooper|Chad Burrus|Chao Ji|Matthew W. Hahn|Kristi L. Montooth University of California Davis;|Indiana University;|University of Nebraska Lincoln
http://dx.doi.org/10.1101/018259 2015-06-05 Genomics CC BY Efficient genotype compression and analysis of large genetic variation datasets Ryan M Layer|Neil Kindlon|Konrad J Karczewski|Exome Aggregation Consortium ExAC|Aaron R Quinlan University of Utah;|University of Virginia;|Harvard Medical School;|Exome Aggregation Consortium
http://dx.doi.org/10.1101/020354 2015-06-05 Neuroscience CC BY-NC-ND Response to Comment on ”Two types of asynchronous activity in networks of excitatory and inhibitory spiking neurons” Srdjan Ostojic Ecole Normale Superieure Paris
http://dx.doi.org/10.1101/020511 2015-06-05 Bioengineering CC BY-NC-ND Single Cells of Pseudomonas aeruginosa Exhibit Electrotaxis and Durotaxis Behaviours Lee Preiss|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/020461 2015-06-05 Systems Biology CC BY Limits of aerobic metabolism in cancer cells Alexei Vazquez Beatson Institute for Cancer Research
http://dx.doi.org/10.1101/020487 2015-06-05 Synthetic Biology CC BY-NC-ND Cell-cell communication in yeast using auxin biosynthesis and auxin responsive CRISPR transcription factors Arjun Khakhar|Nicholas Bolten|Jennifer Nemhauser|Eric Klavins University of Washington
http://dx.doi.org/10.1101/020453 2015-06-05 Bioinformatics DISSECT: A new tool for analyzing extremely large genomic datasets Oriol Canela-Xandri|Andy Law|Alan Gray|John A. Woolliams|Albert Tenesa The Roslin Institute;|The Roslin Institute, The University of Edinburgh;|EPCC, The University of Edinburgh
http://dx.doi.org/10.1101/012989 2015-06-05 Neuroscience CC BY-NC-ND Faciotopy—a face-feature map with face-like topology in the human occipital face area Linda Henriksson|Marieke Mur|Nikolaus Kriegeskorte Aalto University;|MRC Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/016527 2015-06-05 Genetics CC BY-NC-ND Contrasting regional architectures of schizophrenia and other complex diseases using fast variance components analysis Po-Ru Loh|Gaurav Bhatia|Alexander Gusev|Hilary K Finucane|Brendan K Bulik-Sullivan|Samuela J Pollack|Schizophrenia Working Group Psychiatric Genomics Consortium|Teresa R de Candia|Sang Hong Lee|Naomi R Wray|Kenneth S Kendler|Michael C O'Donovan|Benjamin M Neale|Nick Patterson|Alkes L Price Harvard T.H. Chan School of Public Health;|Massachusetts Institute of Technology;|Broad Institute of Harvard and MIT;|n/a;|University of Colorado Boulder;|University of Queensland;|Virginia Commonwealth University;|Cardiff University
http://dx.doi.org/10.1101/020420 2015-06-05 Genomics CC BY-NC-ND Rapid metagenomic identification of viral pathogens in clinical samples by real-time nanopore sequencing analysis Alex L Greninger|Samia N Naccache|Scot Federman|Guixia Yu|Placide Mbala|Vanessa Bres|Jerome Bouquet|Doug Stryke|Sneha Somasekar|Jeffrey Linnen|Roger Dodd|Prime Mulembakani|Bradley Schneider|Jean-Jacques Muyembe|Susan Stramer|Charles Y Chiu UCSF;|Metabiota;|Institut National de Recherche Biomédicale;|Hologic;|American Red Cross
http://dx.doi.org/10.1101/020339 2015-06-04 Evolutionary Biology Phylodynamics of H5N1 Highly Pathogenic Avian Influenza in Europe, 2005–2010: Potential for Molecular Surveillance of New Outbreaks Mohammad A. Alkhamis|Brian R. Moore|Andres M. Perez Kuwait Institute for Scientific Research;|University of California, Davis;|University of Minnesota
http://dx.doi.org/10.1101/020396 2015-06-04 Cancer Biology Bringing Down Cancer Aircraft: Searching For Essential Hypomutated Proteins In Skin Melanoma Mikhail Pyatnitskiy|Dmitriy Karpov|Ekaterina Poverennaya|Andrey Lisitsa|Sergei Moshkovskii Institute of Biomedical Chemistry, 119121, Pogodinskaya str, 10, Moscow, Russia
http://dx.doi.org/10.1101/020347 2015-06-03 Animal Behavior and Cognition CC BY-NC-ND BEEtag : a low-cost, image-based tracking system for the study of animal behavior and locomotion James Crall|Nick Gravish|Andrew M Mountcastle|Stacey A Combes Harvard University
http://dx.doi.org/10.1101/020370 2015-06-03 Evolutionary Biology CC BY-NC Evolution of ecological dominance of yeast species in high-sugar environments Kathryn M Williams|Ping Liu|Justin C Fay Washington University
http://dx.doi.org/10.1101/020404 2015-06-03 Bioinformatics CC BY Segmenting Microarrays with Deep Neural Networks Andrew L Jones Biosignatures Limited
http://dx.doi.org/10.1101/020321 2015-06-03 Microbiology When does high-dose antimicrobial chemotherapy prevent the evolution of resistance? Troy Day|Andrew F. Read Queen's University;|Penn State
http://dx.doi.org/10.1101/020388 2015-06-03 Bioinformatics Cpipe: a shared variant detection pipeline designed for diagnostic settings Simon Sadedin|Harriet Dashnow|Paul James|Melanie Bahlo|Denis C Bauer|Andrew Lonie|Sebastian Lunke|Ivan Macciocca|Jason Ross|Kirby R Siemering|Zornitza Stark|Sue White|Graham Taylor|Clara Gaff|Alicia Oshlack|Natalie Thorne Murdoch Childrens Research Institute;|Royal Melbourne Hospital;|Walt and Eliza Hall Institute;|Commonwealth Science and Industrial Research Organisation;|Victorian Life Sciences Computation Initiative;|The University of Melbourne;|Melbourne Genomics Health Alliance;|Australian Genome Research Facility;|Victorian Clinical Genetics Service
http://dx.doi.org/10.1101/020362 2015-06-03 Bioinformatics CC BY A semi-supervised approach uncovers thousands of intragenic enhancers differentially activated in human cells Juan Gonzalez-Vallinas|Amadis Pages|Babita Singh|Eduardo Eyras Universitat Pompeu Fabra
http://dx.doi.org/10.1101/016360 2015-06-03 Evolutionary Biology CC BY-NC-ND PoMo: An Allele Frequency-based Approach for Species Tree Estimation Nicola De Maio|Dominik Schrempf|Carolin Kosiol Nuffield Department of Clinical Medicine, University of Oxford;|Institute of Population Genetics, Vetmeduni Vienna
http://dx.doi.org/10.1101/015032 2015-06-03 Neuroscience Transdermal neuromodulation of noradrenergic activity suppresses psychophysiological and biochemical stress responses in humans William J. Tyler|Alyssa M. Boasso|Hailey M. Mortimore|Rhonda S. Silva|Jonathan D. Charlesworth|Michelle A. Marlin|Kirsten Aebersold|Linh Aven|Daniel Z. Wetmore|Sumon K. Pal Thync, Inc.
http://dx.doi.org/10.1101/019000 2015-06-03 Genomics CC BY Reconstructing A/B compartments as revealed by Hi-C using long-range correlations in epigenetic data Jean-Philippe Fortin|Kasper D Hansen Johns Hopkins University
http://dx.doi.org/10.1101/020149 2015-06-02 Evolutionary Biology A Bayesian Approach for Detecting Mass-Extinction Events When Rates of Lineage Diversification Vary Michael R. May|Sebastian Hohna|Brian R. Moore University of California, Davis;|University of California, Berkeley
http://dx.doi.org/10.1101/004374 2015-06-02 Evolutionary Biology CC BY-NC-ND Phylogenetic ANOVA: The Expression Variance and Evolution (EVE) model for quantitative trait evolution Rori Rohlfs|Rasmus Nielsen University of California, Berkeley
http://dx.doi.org/10.1101/020313 2015-06-02 Cell Biology CC BY Myc-induced cell mixing is required for competitive tissue invasion and destruction Eduardo Moreno|Romain Levayer|Barbara Hauert University of Bern
http://dx.doi.org/10.1101/020271 2015-06-02 Evolutionary Biology CC BY-NC-ND Sequence capture of ultraconserved elements from bird museum specimens John McCormack|Whitney L.E. Tsai|Brant C Faircloth Occidental College;|Louisiana State University
http://dx.doi.org/10.1101/020289 2015-06-02 Bioinformatics CC BY-NC The next 20 years of genome research Michael Schatz Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/016774 2015-06-01 Genomics CC BY-NC Transcriptome Differences between Alternative Sex Determining Genotypes in the House Fly, Musca domestica Richard P Meisel|Jeffrey G Scott|Andrew G Clark University of Houston;|Cornell University
http://dx.doi.org/10.1101/019901 2015-06-01 Bioinformatics CC BY-ND A simple model-based approach to inferring and visualizing cancer mutation signatures Yuichi Shiraishi|Georg Tremmel|Satoru Miyano|Matthew Stephens University of Tokyo;|Univ. of Chicago
http://dx.doi.org/10.1101/020131 2015-05-31 Bioinformatics Improved Algorithms for Finding Edit Distance Based Motifs Soumitra Pal|Sanguthevar Rajasekaran University of Connecticut
http://dx.doi.org/10.1101/020172 2015-05-31 Bioinformatics CC BY-ND Learning quantitative sequence-function relationships from high-throughput biological data Gurinder S Atwal|Justin B Kinney Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/020180 2015-05-31 Microbiology CC BY-NC-ND Discovery of Pandoraea pnomenusa RB38 N-acyl homoserine Lactone Synthase (PpnI) and its Complete Genome Sequence Analysis Kok-Gan Chan|Robson Ee|Kah-Yan How|Siew-Kim Lee|Wai-Fong Yin|Yan-Lue Lim University of Malaya
http://dx.doi.org/10.1101/019257 2015-05-30 Synthetic Biology CC BY-NC-ND Layering genetic circuits to build a single cell, bacterial half adder Adison Wong|Huijuan Wang|Chueh Loo Poh|Richard Kitney Imperial College London;|Nanyang Technological University
http://dx.doi.org/10.1101/008581 2015-05-30 Systems Biology CC BY-NC-ND An analytical approach to bistable biological circuit discrimination using real algebraic geometry Dan Siegal-Gaskins|Elisa Franco|Tiffany Zhou|Richard M Murray California Institute of Technology;|University of California at Riverside
http://dx.doi.org/10.1101/020115 2015-05-29 Genomics Mixed Models for Meta-Analysis and Sequencing Brendan Bulik-Sullivan Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/020123 2015-05-29 Bioinformatics CC BY Optimizing error correction of RNAseq reads Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/019943 2015-05-29 Genomics CC BY-NC-ND Mirror bisulfite sequencing — a method for single-base resolution of hydroxymethylcytosine Xueguang Sun|Darany Tan|Tzu Hung Chung|Xi-Yu Jia Zymo Research Corp
http://dx.doi.org/10.1101/020024 2015-05-29 Bioinformatics CC BY SAM/BAM format v1.5 extensions for de novo assemblies Peter J. A. Cock|James K Bonfield|Bastien Chevreux|Heng Li James Hutton Institute;|Wellcome Trust Sanger Institute;|Department for Human Nutrition and Health, DSM Nutritional Products Ltd.;|Broad Institute
http://dx.doi.org/10.1101/020099 2015-05-29 Bioinformatics CC BY The GL Service: Web Service to Exchange GL String Encoded HLA & KIR Genotypes With Complete and Accurate Allele and Genotype Ambiguity Robert P Milius|Michael Heuer|Mike George|Jane Pollack|Jill A Hollenbach|Steven J Mack|Martin Maiers National Marrow Donor Program;|University of California, San Francisco School of Medicine;|Children's Hospital & Research Center Oakland
http://dx.doi.org/10.1101/019380 2015-05-29 Genomics Character trees from transcriptome data: origin and individuation of morphological characters and the so-called “species signal” Jacob Musser|Gunter Wagner Yale University
http://dx.doi.org/10.1101/019984 2015-05-29 Zoology CC BY-NC-ND The Moose of Isle Royale: An Unnatural Condition? Samuel V Scarpino|Rafael F Guerrero|Philip V Scarpino Santa Fe Institute;|Indiana University;|Indiana University-Purdue University Indianapolis
http://dx.doi.org/10.1101/013227 2015-05-28 Genetics Scaling probabilistic models of genetic variation to millions of humans Prem Gopalan|Wei Hao|David M. Blei|John D. Storey Princeton University;|Columbia University
http://dx.doi.org/10.1101/019893 2015-05-28 Plant Biology CC BY-NC-ND Targeted modification of gene function exploiting homology-directed repair of TALEN-mediated double strand breaks in barley Nagaveni Budhagatapalli|Twan Rutten|Maia Gurushidze|Jochen Kumlehn|Goetz Hensel Leibniz Institute of Plant Genetics and Crop Plant Research (IPK)
http://dx.doi.org/10.1101/018523 2015-05-27 Ecology CC BY-NC-ND DYNAMICS OF AN EXPANDING BLACK RHINOCEROS (Diceros bicornis minor) POPULATION Peter R Law|Brad Fike|Peter C Lent Centre for African Conservation Ecology, Nelson Mandela Metropolitan University, South Africa;|retired;|Department of Zoology and Entomology, University of Fort Hare, South Africa
http://dx.doi.org/10.1101/019851 2015-05-27 Evolutionary Biology CC BY-NC-ND Origins of major archaeal clades do not correspond to gene acquisitions from bacteria Mathieu Groussin|Bastien Boussau|Gergely Szollosi|Laura Eme|Manolo Gouy|Celine Brochier-Armanet|Vincent Daubin Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA, USA;|CNRS, UMR 5558, Laboratoire de Biométrie et Biologie Evolutive, 69622 Villeurbanne, France;|ELTE-MTA;|Department of Biochemistry and Molecular Biology, Dalhousie University, Halifax, Canada
http://dx.doi.org/10.1101/019927 2015-05-27 Synthetic Biology CC BY-NC-ND Deconvolution of gene expression noise into physical dynamics of cognate promoters Angel Goni-Moreno|Ilaria Benedetti|Juhyun Kim|Victor de Lorenzo Centro Nacional de Biotecnologia, CNB-CSIC;|National Centre for Biotechnology, CNB-CSIC. Cantoblanco-Madrid, Spain.
http://dx.doi.org/10.1101/019570 2015-05-27 Genetics CC BY-NC In Vivo Blunt-End Cloning Through CRISPR/Cas9-Facilitated Non-Homologous End-Joining Jonathan M Geisinger|Soren Turan|Sophia Hernandez|Laura P Spector|Michele P Calos Stanford University School of Medicine
http://dx.doi.org/10.1101/019885 2015-05-27 Genomics Detection and interpretation of shared genetic influences on 40 human traits Joseph Pickrell|Tomaz Berisa|Laure Segurel|Joyce Y Tung|David Hinds New York Genome Center;|CNRS;|23andMe, Inc.
http://dx.doi.org/10.1101/019869 2015-05-27 Evolutionary Biology General formulation of Luria-Delbrück distribution of the number of mutants bahram houchmandzadeh CNRS (Centre National de la Recherche Scientifique)
http://dx.doi.org/10.1101/019828 2015-05-26 Evolutionary Biology CC BY-NC-ND A new idea on the evolution of biodiversity Roberto Cazzolla Gatti Tomsk State University
http://dx.doi.org/10.1101/019836 2015-05-26 Ecology CC BY-NC-ND Submerged plants may have substantial growth in shallow water lakes under nitrogen deposition: a theoretical investigation Ashehad A Ali Harvard University
http://dx.doi.org/10.1101/019844 2015-05-26 Genomics CC BY-NC-ND A Unified Architecture of Transcriptional Regulatory Elements Robin Andersson|Albin Sandelin|Charles G Danko University of Copenhagen;|Cornell University
http://dx.doi.org/10.1101/019802 2015-05-24 Evolutionary Biology Endorsing Darwin – Global biogeography of the epipelagic goose barnacles Lepas spp. (Cirripedia, Lepadomorpha) proves cryptic speciation Philipp H. Schiffer|Hans-Georg Herbig University of Cologne
http://dx.doi.org/10.1101/019794 2015-05-24 Genetics CC BY Mining the archives: a cross-platform analysis of gene expression profiles in archival formalin-fixed paraffin-embedded (FFPE) tissue Anna Francina Webster|Paul Zumbo|Jennifer Fostel|Jorge Gandara|Susan D Hester|Leslie Recio|Andrew Williams|Chales Wood|Carole Yauk|Christopher E Mason Environmental Health Science and Research Bureau, Health Canada, Ottawa K1A 0K9, Canada;|Weil Cornell Medical College;|NIEHS;|Weill Cornell Medical College;|EPA;|ILS;|Health Canada
http://dx.doi.org/10.1101/019737 2015-05-24 Evolutionary Biology CC BY-NC-ND Genomic epidemiology of the current wave of artemisinin resistant malaria Roberto Amato|Olivo Miotto|Charles Woodrow|Jacob Almagro-Garcia|Ipsita Sinha|Susana Campino|Daniel Mead|Eleanor Drury|Mihir Kekre|Mandy Sanders|Alfred Amambua-Ngwa|Chanaki Amaratunga|Lucas Amenga-Etego|Tim JC Anderson|Voahangy Andrianaranjaka|Tobias Apinjoh|Elizabeth Ashley|Sarah Auburn|Gordon A Awandare|Vito Baraka|Alyssa Barry|Maciej F Boni|Steffen Borrmann|Teun Bousema|Oralee Branch|Peter C Bull|Kesinee Chotivanich|David J Conway|Alister Craig|Nicholas P Day|Abdoulaye Djimde|Christiane Dolecek|Arjen M Dondorp|Chris Drakeley|Patrick Duffy|Diego F Echeverri-Garcia|Thomas G Egwang|Rick M Fairhurst|Md. Abul Faiz|Caterina I Fanello|Tran Tinh Hien|Abraham Hodgson|Mallika Imwong|Deus Ishengoma|Pharath Lim|Chanthap Lon|Jutta Marfurt|Kevin Marsh|Mayfong Mayxay|Victor Mobegi|Olugbenga Mokuolu|Jacqui Montgomery|Ivo Mueller|Myat Phone Kyaw|Paul N Newton|Francois Nosten|Rintis Noviyanti|Alexis Nzila|Harold Ocholla|Abraham Oduro|Marie Onyamboko|Jean-Bosco Ouedraogo|Aung Pyae Phyo|Christopher V Plowe|Ric N Price|Sasithon Pukrittayakamee|Milijaona Randrianarivelojosia|Pascal Ringwald|Lastenia Ruiz|David Saunders|Alex Shayo|Peter Siba|Shannon Takala-Harrison|Thuy-Nhien Nguyen Thanh|Vandana Thathy|Federica Verra|Nicholas J White|Ye Htut|Victoria J Cornelius|Rachel Giacomantonio|Dawn Muddyman|Christa Henrichs|Cinzia Malangone|Dushyanth Jyothi|Richard D Pearson|Julian C Rayner|Gilean McVean|Kirk Rockett|Alistair Miles|Paul Vauterin|Ben Jeffery|Magnus Manske|Jim Stalker|Bronwyn MacInnis|Dominic P Kwiatkowski University of Oxford, UK; Wellcome Trust Sanger Institute, UK;|University of Oxford, UK; Mahidol-Oxford Tropical Medicine Research Unit, Thailand;|Mahidol-Oxford Tropical Medicine Research Unit, Mahidol University, Thailand;|University of Oxford, UK;|Wellcome Trust Sanger Institute, UK;|MRC Laboratories, The Gambia;|NIH National Institute of Allergy and Infectious Diseases, USA;|Navrongo Health Research Centre, Ghana; Oxford University, UK;|Texas Biomedical Research Institute, USA;|Institut Pasteur de Madagascar;|University of Buea;|Menzies School of Health Research, Australia;|University of Ghana, Ghana;|National Institute for Medical Research, Tanzania; University of Antwerp;|Walter and Eliza Hall Institute, Australia;|Oxford University Clinical Research Unit, Vietnam; Oxford University, UK;|KEMRI-Wellcome Trust Research Programme, Kenya;|London School of Hygiene and Tropical Medicine, UK;|NYU Medical School, USA;|KEMRI-Wellcome Trust Research Programme, Kenya; University of Oxford;|Faculty of Tropical Medicine, Mahidol University, Bangkok, Thailand;|MRC Laboratories, The Gambia; London School of Hygiene and Tropical Medicine, UK;|Liverpool School of Tropical Medicine, Liverpool, UK;|Malaria Research and Training Centre, University of Bamako, Mali;|Purdue University, USA; International Center for Medical Research and Training, Colombia;|Biotech Laboratories, Uganda;|Malaria Research Group & Dev Care Foundation, Dhaka, Bangladesh;|Ghana Health Service, Ministry of Health, Ghana;|National Institute for Medical Research, Tanzania;|National Center for Parasitology, Entomology and Malaria Control, Cambodia;|Department of Immunology and Medicine, USAMC‐AFRIMS, Bangkok, Thailand;|Menzies School of Health Research, Royal Darwin Hospital, Australia;|KEMRI-Wellcome Trust Research Programme, Kenya; University of Oxford, UK;|Wellcome Trust-Mahosot Hospital-Oxford Tropical Medicine Research Collaboration, Lao, PDR;|Department of Paediatrics and Child Health, University of Ilorin, Ilorin, Nigeria;|Dept of Biology and Entomology, Pennsylvania State University, University Park, PA 16802, USA;|Barcelona Centre for International Health Research, Spain; Walter and Eliza Hall Institute,Australia;|Parasitology Research Division, Department of Medical Research-Lower Myanmar, Yangon, Myanmar;|Shoklo Malaria Research Unit, Thailand;|Eijkman Institute for Molecular Biology, Jakarta 10310, Indonesia;|King Fahd University of Petroleum and Minerals, Saudi Arabia;|Malawi Liverpool Wellcome Trust Clinical Research Programme, Malawi;|Navrongo Health Research Centre, Ghana;|University of Kinshasa, DRC;|Institut de Recherche en Sciences de la Sant, Burkina Faso;|Mahidol‐Oxford Tropical Medicine Research Unit; Shoklo Malaria Research Unit, Mae Sot, Thailan;|University of Maryland, USA;|Global Malaria Programme, World Health Organization (WHO), Switzerland;|Universidad Nacional de la Amazonia Peruana, Peru;|Department of Biotechnology and Bioinformatics, The University of Dodoma, Tanzania;|Papua New Guinea Institute of Medical Research, Papua New Guinea;|Department of Medical Research, Lower Myanmar, Yangon, Myanmar;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/019786 2015-05-24 Evolutionary Biology CC BY-NC-ND Ancestral chromatin configuration constrains chromatin evolution on differentiating sex chromosomes in Drosophila Qi Zhou|Doris Bachtrog University of California, Berkeley
http://dx.doi.org/10.1101/019760 2015-05-24 Genomics Deep sequencing of small RNA facilitates tissue and sex specific microRNA discovery in zebrafish Candida Vaz|Choon Wei Wee|Serene Gek Ping Lee|Philip W Ingham|Vivek Tanavde|Sinnakaruppan Mathavan Bioinformatics Institute, Agency for Science Technology and Research;|Molecular Genomics (P) Ltd, 51 Science Park Road, #04-16 The ARIES, Singapore 117586;|Genome Institute of Singapore;|Lee Kong Chian School of Medicine, Nanyang Technological University;|3Bioinformatics Institute, Agency for Science Technology and Research, 30 Biopolis Street, #07-01 Ma
http://dx.doi.org/10.1101/019745 2015-05-24 Evolutionary Biology CC BY-NC-ND RAD sequencing enables unprecedented phylogenetic resolution and objective species delimitation in recalcitrant divergent taxa Santiago Herrera|Timothy M. Shank Massachusetts Institute of Technology & Woods Hole Oceanographic Institution;|Woods Hole Oceanographic Institution
http://dx.doi.org/10.1101/019521 2015-05-23 Plant Biology CC BY-NC-ND RUST FUNGAL EFFECTORS MIMIC HOST TRANSIT PEPTIDES TO TRANSLOCATE INTO CHLOROPLASTS Benjamin Petre|Cecile Lorrain|Diane Saunders|Sebastien Duplessis|Sophien Kamoun The Sainsbury Laboratory;|INRA;|TGAC
http://dx.doi.org/10.1101/016394 2015-05-22 Developmental Biology CC BY-NC-ND Measuring forces and stresses in situ in living tissues Forces-in-tissue workshop participants Univ. Paris Diderot
http://dx.doi.org/10.1101/019661 2015-05-22 Genetics A Perspective on Interaction Tests in Genetic Association Studies Hugues Aschard Harvard School of Public Health
http://dx.doi.org/10.1101/019695 2015-05-22 Synthetic Biology CC BY-NC-ND Protein degradation in a TX-TL cell-free expression system using ClpXP protease Zachary Sun|Jongmin Kim|Vipul Singhal|Richard M Murray Caltech;|California Institute of Technology;|CaltechCalifornia Institute of Technology
http://dx.doi.org/10.1101/019752 2015-05-22 Genomics CC BY-NC-ND Determining Exon Connectivity in Complex mRNAs by Nanopore Sequencing Mohan Bolisetty|Gopinath Rajadinakaran|Brenton Graveley UConn Health
http://dx.doi.org/10.1101/019612 2015-05-22 Evolutionary Biology CC BY A Coalescent Model of a Sweep from a Uniquely Derived Standing Variant Jeremy J Berg|Graham Coop University of California, Davis;|University of California: Davis
http://dx.doi.org/10.1101/019653 2015-05-22 Evolutionary Biology CC BY-NC-ND Endless forms most beau-toe-ful: evolution of the human hallux Zach Throckmorton Lincoln Memorial University-DeBusk College of Osteopathic Medicine
http://dx.doi.org/10.1101/018226 2015-05-22 Neuroscience CC BY-NC-ND On the structure of population activity under fluctuations in attentional state Alexander S Ecker|George H Denfield|Matthias Bethge|Andreas S Tolias Centre for Integrative Neuroscience, Tübingen;|Baylor College of Medicine;|Bernstein Center for Computational Neuroscience
http://dx.doi.org/10.1101/019638 2015-05-22 Systems Biology CC BY-ND Dynamic effects of extrinsic noise in a simple oscillatory gene network with delayed negative-feedback regulation: an electronic modeling approach Moises Santillan Centro de Investigación y Estudios Avanzados del IPN
http://dx.doi.org/10.1101/008375 2015-05-21 Genomics CC BY-NC Sources of PCR-induced distortions in high-throughput sequencing datasets Justus M Kebschull|Anthony M Zador Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/019588 2015-05-21 Systems Biology CC BY Pseudotime estimation: deconfounding single cell time series John E Reid|Lorenz Wernisch MRC BSU
http://dx.doi.org/10.1101/019596 2015-05-21 Bioinformatics CC BY-NC-ND Re-Annotator: Annotation Pipeline for Microarrays Janine Arloth|Daniel Magnus Bader|Simone Roh|Andre Altmann Translational Research Department, Max Planck Institute of Psychiatry;|Ludwig-Maximilians-University Munich;|Department of Neurology and Neurological Sciences, Stanford University, School of Medicine
http://dx.doi.org/10.1101/019604 2015-05-21 Cancer Biology CC BY-NC-ND A non-local model for cancer stem cells and the tumor growth paradox Iacopo Borsi|Antonio Fasano|Mario Primicerio|Thomas Hillen TEA Systemi;|Universita degli Studi di Firenze;|University of Alberta
http://dx.doi.org/10.1101/019455 2015-05-21 Cell Biology Engineering Cell Fate: The Roles of iPSC Transcription Factors, Chemicals, Barriers and Enhancing Factors in Reprogramming and Transdifferentiation Behnam Ebrahimi Yazd Cardiovascular Research Center, Shahid Sadoughi University of Medical Sciences, Yazd, Iran.
http://dx.doi.org/10.1101/019620 2015-05-21 Synthetic Biology CC BY-NC-ND Characterizing and Prototyping Genetic Networks with Cell-Free Transcription-Translation Reactions Melissa K Takahashi|Clarmyra A. Hayes|James Chappell|Zachary Z. Sun|Richard M Murray|Vincent Noireaux|Julius B. Lucks Cornell University;|California Institute of Technology;|Caltech;|University of Minnesota
http://dx.doi.org/10.1101/019471 2015-05-20 Plant Biology The Cf-4 receptor-like protein associates with the BAK1 receptor-like kinase to initiate receptor endocytosis and plant immunity Jelle Postma|Thomas W. H. Liebrand|Guozhi Bi|Alexandre Evrard|Ruby R. Bye|Malick Mbengue|Matthieu H. A. J. Joosten|Silke Robatzek The Sainsbury Laboratory, Norwich Research Park, Norwich, NR4 7UH, United Kingdom;|Laboratory of Phytopathology, Wageningen University, Wageningen, NL;|Laboratory of Phytopathology, Wageningen University, NL;|Laboratory of Phytopathology, Wageningen University, The Netherlands
http://dx.doi.org/10.1101/019414 2015-05-20 Genetics An accurate genetic clock David H Hamilton UMCP
http://dx.doi.org/10.1101/019539 2015-05-20 Bioinformatics CC BY-NC-ND GenoWAP: Post-GWAS Prioritization Through Integrated Analysis of Genomic Functional Annotation Qiongshi Lu|Xinwei Yao|Yiming Hu|Hongyu Zhao Yale University
http://dx.doi.org/10.1101/019547 2015-05-19 Neuroscience Attention selectively gates afferent signal transmission to area V4 Iris Grothe|David Rotermund|Simon D. Neitzel|Sunita Mandon|Udo A. Ernst|Andreas K. Kreiter|Klaus R. Pawelzik Institute for Brain Research, University of Bremen, Germany;|Institute for Theoretical Physics, University of Bremen, Germany
http://dx.doi.org/10.1101/019505 2015-05-19 Bioinformatics CC BY-ND Diagnosis of coronary heart diseases using gene expression profiling; stable coronary artery disease, cardiac ischemia with and without myocardial necrosis Nabila Kazmi|Tom Gaunt University of Bristol
http://dx.doi.org/10.1101/019448 2015-05-19 Bioinformatics A de novo DNA Sequencing and Variant Calling Algorithm for Nanopores Tamas Szalay|Jene A Golovchenko Harvard University
http://dx.doi.org/10.1101/019497 2015-05-19 Ecology Untangling the roles of parasites in food webs with generative network models Abigail Z. Jacobs|Jennifer A. Dunne|Cristopher Moore|Aaron Clauset University of Colorado Boulder;|Santa Fe Institute
http://dx.doi.org/10.1101/019224 2015-05-18 Neuroscience CC BY-NC-ND Cortical microcircuit determination through global perturbation and sparse sampling in grid cells John Widloski|Ila R Fiete University of Texas at Austin
http://dx.doi.org/10.1101/019349 2015-05-18 Bioinformatics CC BY ReproPhylo: An Environment for Reproducible Phylogenomics Amir Szitenberg|Max John|Mark L Blaxter|David H Lunt Evolutionary Biology Group, School of Biological, Biomedical & Environmental Sciences, The Universit;|Institute of Evolutionary Biology, The University of Edinburgh, Edinburgh, UK
http://dx.doi.org/10.1101/019430 2015-05-18 Evolutionary Biology CC BY-ND Worldwide population structure, long term demography, and local adaptation of Helicobacter pylori Valeria Montano|Xavier Didelot|Matthieu Foll|Bodo Linz|Richard Reinhardt|Sebastian Suerbaum|Yoshan Moodley|Jeffrey David Jensen University of Lausanne;|Imperial College London;|Ecole Polytechnique Fédérale de Lausanne (EPFL);|Penn State University;|Max Plank Genome Center Cologne;|Hannover Medical School;|University of Venda
http://dx.doi.org/10.1101/019406 2015-05-17 Cancer Biology miR-551a and miR-551b target GLIPR2 and promote tumor growth in High-Risk Head and Neck Cancer by modulating autophagy Narasimha Kumar Karanam|Michael D Story UT Southwestern Medical Center
http://dx.doi.org/10.1101/015107 2015-05-15 Bioinformatics CC BY Using Mixtures of Biological Samples as Process Controls for RNA-sequencing experiments Jerod Parsons|Sarah Munro|P. Scott Pine|Jennifer McDaniel|Michele Mehaffey|Marc Salit National Institute of Standards and Technology;|Leidos Biomedical Research
http://dx.doi.org/10.1101/019273 2015-05-14 Biophysics The case for absolute ligand discrimination : modeling information processing and decision by immune T cells Paul Francois|Gregoire Altan-Bonnet McGill University;|Memorial Sloan-Kettering
http://dx.doi.org/10.1101/019323 2015-05-14 Genetics The Multi-allelic Genetic Architecture of a Variance-heterogeneity Locus for Molybdenum Accumulation Acts as a Source of Unexplained Additive Genetic Variance Simon K G Forsberg|Matthew E Andreatta|Xin-Yuan Huang|John Danku|David E Salt|Orjan Carlborg Swedish University of Agricultural Sciences;|University of Aberdeen
http://dx.doi.org/10.1101/019307 2015-05-13 Cancer Biology NADH as a cancer medicine Michael D Forrest University of Warwick
http://dx.doi.org/10.1101/019299 2015-05-13 Genetics FIQT: a simple, powerful method to accurately estimate effect sizes in genome scans Tim B Bigdeli|Donghyung Lee|Brien P Riley|Vladimir I Vladimirov|Ayman H Fanous|Kenneth S Kendler|Silviu-Alin Bacanu Virginia Commonwealth University;|Washington DC VA Medical Center
http://dx.doi.org/10.1101/019315 2015-05-13 Bioinformatics CC BY Roary: Rapid large-scale prokaryote pan genome analysis Andrew J Page|Carla A Cummins|Martin Hunt|Vanessa K Wong|Sandra Reuter|Matthew T. G. Holden|Maria Fookes|Jacqueline A Keane|Julian Parkhill Wellcome Trust Sanger Institute;|University of Cambridge;|University of St Andrews
http://dx.doi.org/10.1101/019240 2015-05-13 Evolutionary Biology CC BY-NC-ND Molecular Fossils from Microorganisms Preserved in Glacial Ice P. Buford Price|J. Jeffrey Morris|Ryan C. Bay|Ajeeth Adhikari|Stephen J. Giovannoni|Kevin L. Vergin University of California, Berkeley;|University of Alabama at Birmingham;|Oregon State University
http://dx.doi.org/10.1101/010975 2015-05-13 Systems Biology CC BY Comprehensive comparison of large-scale tissue expression datasets Alberto Santos|Kalliopi Tsafou|Christian Stolte|Sune Frankild|Sean O'Donoghue|Lars Juhl Jensen København Universitet - CPR;|CSIRO;|Ferring Pharmaceuticals
http://dx.doi.org/10.1101/009548 2015-05-12 Bioinformatics CC BY-NC-ND FourCSeq: Analysis of 4C sequencing data Felix A. Klein|Tibor Pakozdi|Simon Anders|Yad Ghavi-Helm|Eileen E. M. Furlong|Wolfgang Huber European Molecular Biology Laboratory (EMBL), Genome Biology Unit
http://dx.doi.org/10.1101/019232 2015-05-12 Microbiology CC BY-NC-ND Ecological and evolutionary adaptations shape the gut microbiome of BaAka African rainforest hunter-gatherers Andres Gomez|Klara Petrzelkova|Carl J Yeoman|Micahel B Burns|Katherine R Amato|Klara Vlckova|David Modry|Angelique Todd|Carolyn A Jost Robbinson|Melissa Remis|Manolito Torralba|Karen E Nelson|Franck Carbonero|H Rex Gaskins|Brenda A Wilson|Rebecca M Stumpf|Bryan A White|Steven R Leigh|Ran Blekhman Department of Ecology, Evolution and Behavior, University of Minnesota, Twin Cities, MN, 55108;|Institute of Vertebrate Biology, Academy of Sciences of the Czech Republic, Brno, Czech Republic;|Department of Animal and Range Sciences, Montana State University, Bozeman, MT, 59717;|Department of Genetics, Cell Biology, and Development, University of Minnesota, Twin Cities, MN, 551;|Department of Anthropology, University of Colorado, Boulder, CO, 80309, USA;|Department of Pathology and Parasitology, Faculty of Veterinary Medicine, University of Veterinary a;|CEITEC, Central European Institute for Technology, Brno, Czech Republic;|World Wildlife Fund, Dzanga-Sangha Protected Areas, Bayanga, Central African Republic;|Department of Anthropology, University of North Carolina, Wilmington, NC, 28403;|Deptartment of Anthropology, Purdue University, West Lafayette, IN, 47907;|The J. Craig Venter Institute, Rockville, MD, 20850;|Department of Food Science, University of Arkansas, Fayetteville, AK, 72704;|hgaskins@illinois.edu;|Department of Microbiology, University of Illinois at Urbana-Champaign, IL, 61801;|Department of Anthropology, University of Illinois at Urbana Champaign, IL, 61801;|Institute for Genomic Biology, University of Illinois at Urbana Champaign, IL, 61801
http://dx.doi.org/10.1101/019216 2015-05-11 Genetics CC BY-NC-ND Bayesian Nonparametric Inference of Population Size Changes from Sequential Genealogies Julia A Palacios|John Wakeley|Sohini Ramachandran Brown University and Harvard University;|Harvard University;|Brown University
http://dx.doi.org/10.1101/019208 2015-05-11 Genetics CC BY Genome Wide Variant Analysis of Simplex Autism Families with an Integrative Clinical-Bioinformatics Pipeline Laura T Jimenez-Barron|Jason A O'Rawe|Yiyang Wu|Margaret Yoon|Han Fang|Ivan Iossifov|Gholson Lyon Cold Spring Harbor Laboratory;|CSHL
http://dx.doi.org/10.1101/019182 2015-05-11 Genetics CC BY Whole genome analysis of an extended pedigree with Prader–Willi Syndrome, hereditary hemochromatosis, and dysautonomia-like symptoms Han Fang|Yiyang Wu|Margaret Yoon|Laura T. Jimenez-Barron|Jason A. O'Rawe|Gareth Highnam|David Mittelman|Gholson Lyon Cold Spring Harbor Laboratory;|Gene by Gene, Ltd., Houston, TX, USA;|Tute Genomics, Inc 150 S 100 W Provo, UT;|CSHL
http://dx.doi.org/10.1101/019190 2015-05-11 Neuroscience Stretch Induced Hyperexcitability of Mice Callosal Pathway Anthony Fan|Kevin Stebbings|Daniel Llano|Taher Saif University of Illinois at Urbana - Champaign;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/018622 2015-05-11 Bioengineering Evaluating different passive optical clearing protocols for two-photon deep tissue imaging in adult intact visceral and neuronal organs R.C Vlieg|C Gillespie|W M Steve Lee University of Twente;|Australian National University
http://dx.doi.org/10.1101/011601 2015-05-11 Evolutionary Biology CC BY-NC-ND Strong selective sweeps on the X chromosome in the human-chimpanzee ancestor explain its low divergence Julien Y Dutheil|Kasper Munch|Kiwoong Nam|Thomas Mailund|Mikkel Schierup Max Planck Institute for Evolutionary Biology;|Aarhus University;|University of Aarhus
http://dx.doi.org/10.1101/019158 2015-05-10 Evolutionary Biology CC BY-NC Coalescent times and patterns of genetic diversity in species with facultative sex: effects of gene conversion, population structure and heterogeneity Matthew Hartfield|Stephen I. Wright|Aneil F. Agrawal University of Toronto / University of Aarhus, Canada;|University of Toronto, Canada
http://dx.doi.org/10.1101/018671 2015-05-09 Ecology CC BY-ND Diverse Early Life-History Strategies in Migratory Amazonian Catfish: Implications for Conservation and Management Jens C Hegg|Tommaso Giarrizzo|Brian P Kennedy University of Idaho;|Universidade Federal do Pará
http://dx.doi.org/10.1101/011841 2015-05-09 Evolutionary Biology CC BY-NC-ND The rate and molecular spectrum of spontaneous mutations in the GC-rich multi-chromosome genome of Burkholderia cenocepacia Marcus M Dillon|Way Sung|Michael Lynch|Vaughn S Cooper University of New Hampshire;|Indiana University;|Indiana University at Bloomington
http://dx.doi.org/10.1101/009308 2015-05-09 Neuroscience Pinwheel-dipole configuration in cat early visual cortex Jerome Ribot|Alberto Romagnoni|Chantal Milleret|Daniel Bennequin|Jonathan D. Touboul Collège de France;|Université Paris Diderot;|Collège de France & INRIA
http://dx.doi.org/10.1101/019109 2015-05-08 Bioinformatics Improving the Power of Structural Variation Detection by Augmenting the Reference Jan Schroeder|Santhosh Girirajan|Anthony T Papenfuss|Paul Medvedev The University of Melbourne;|Pennsylvania State University;|The Pennsylvania State University
http://dx.doi.org/10.1101/019125 2015-05-08 Evolutionary Biology CC BY-NC-ND Mitochondria, mutations and sex: a new hypothesis for the evolution of sex based on mitochondrial mutational erosion Justin Havird|Matthew D Hall|Damian Dowling Colorado State University;|Monash University
http://dx.doi.org/10.1101/019133 2015-05-08 Bioengineering Two-Dimensional Mapping of 3D Data from Confocal Microscopy Anthony Fan|Justin Cassidy|Richard W. Carthew|Sascha Hilgenfeldt University of Illinois at Urbana-Champaign;|Northwestern University
http://dx.doi.org/10.1101/019117 2015-05-08 Systems Biology CC BY Open science resources for the discovery and analysis of Tara Oceans Data Stephane Pesant|Fabrice Not|Marc Picheral|Stefanie Kandels-Lewis|Noan Le Bescot|Gabriel Gorsky|Daniele Iudicone|Eric Karsenti|Sabrina Speich|Romain Trouble|Celine Dimier|Sarah Searson PANGAEA, Data Publisher for Earth and Environmental Science, 28359, Bremen, Germany;|CNRS, UMR 7144, Station Biologique de Roscoff, Roscoff, France;|CNRS, UMR 7093, LOV, Observatoire océanologique, F-06230 Villefranche/mer, France;|Structural and Computational Biology, European Molecular Biology Laboratory, Meyerhofstr. 1, 69117;|Laboratory of Ecology and Evolution of Plankton, Stazione Zoologica Anton Dohrn, Naples, Italy;|European Molecular Biology Laboratory, Meyerhofstrasse 1, 69117 Heidelberg, Ge;|Department of Geosciences, Laboratoire de Météorologie Dynamique (LMD),;|Tara Expéditions, Base Tara, 11 boulevard Bourdon, Paris, France;|Department of Oceanography, University of Hawaii at Manoa, Honolulu, HI, USA
http://dx.doi.org/10.1101/010843 2015-05-08 Bioinformatics Sharing and specificity of co-expression networks across 35 human tissues Emma Pierson|GTEx Consortium|Daphne Koller|Alexis Battle|Sara Mostafavi Department of Computer Science, Stanford University;|GTEx Consortium;|Department of Computer Science, Johns Hopkins University;|Department of Microbiology and Immunology, Harvard Medical School
http://dx.doi.org/10.1101/019042 2015-05-07 Bioinformatics CC BY-NC-ND Removing unwanted variation in a differential methylation analysis of Illumina HumanMethylation450 array data Jovana Maksimovic|Johann A Gagnon-Bartsch|Terence P Speed|Alicia Oshlack Murdoch Childrens Research Institute;|Department of Statistics, University of California;|Bioinformatics Division, Walter and Eliza Hall Institute
http://dx.doi.org/10.1101/019034 2015-05-07 Biophysics CC BY-NC-ND Perspectives on Quorum sensing in Fungi Sarangam Majumdar|Subhoshmita Mondal National Institute of Technology , Rourkela;|Department of Chemical Engineering, Jadavpur University, Kolkata-700032, India
http://dx.doi.org/10.1101/019075 2015-05-07 Evolutionary Biology Bayesian Inference of Divergence Times and Feeding Evolution in Grey Mullets (Mugilidae) Francesco Santini|Michael R. May|Giorgio Carnevale|Brian R. Moore Department of Evolution and Ecology, University of California, Davis, Davis, CA, U.S.A.;|Dipartimento di Scienze della Terra, Universita degli Studi di Torino, Torino, Italy
http://dx.doi.org/10.1101/014308 2015-05-07 Evolutionary Biology CC BY-NC-ND Fleas (Siphonaptera) are Cretaceous, and Evolved with Theria Qiyun Zhu|Michael W Hastriter|Michael F Whiting|Katharina Dittmar University at Buffalo, State University of New York;|Brigham Young University
http://dx.doi.org/10.1101/008110 2015-05-07 Bioinformatics CAPRI: Efficient Inference of Cancer Progression Models from Cross-sectional Data Daniele Ramazzotti|Giulio Caravagna|Loes Olde Loohuis|Alex Graudenzi|Ilya Korsunsky|Giancarlo Mauri|Marco Antoniotti|Bud Mishra Universit? degli Studi Milano-Bicocca, Milano, Italy;|Center for Neurobehavioral Genetics, University of California Los Angeles, Los Angeles, USA;|Courant Institute of Mathematical Sciences, New York University, New York, USA
http://dx.doi.org/10.1101/019026 2015-05-06 Microbiology CC BY Comparison Between Non-Catheterized And Catheter Associated Urinary Tract Infections Caused By Extended Spectrum Β-Lactamase Producing Escherichia Coli And Klebsiella Pneumoniae Fouzia Ashraf|Shagufta Shagufta Iram|Gul-e-zar Riaz|Farhan Rasheed|Mahmood Shaukat Allama Iqbal Medical College, Allama Shabbir Ahmed Usmani Road, Lahore 54550 Pakistan;|Allama Iqbal Medical College, Allama Shabbir Ahmed Usmani Road, Lahore 54550 Pakistan.
http://dx.doi.org/10.1101/018994 2015-05-06 Evolutionary Biology CC BY-NC-ND Negative Niche Construction Favors the Evolution of Cooperation Brian D Connelly|Katherine J Dickinson|Sarah P Hammarlund|Benjamin Kerr University of Washington
http://dx.doi.org/10.1101/017244 2015-05-06 Evolutionary Biology Genetic variability under the seedbank coalescent Jochen Blath|Bjarki Eldon|Adrian Casanova|Noemi Kurt|Maite Wilke-Berenguer TU Berlin;|Institute fur Mathematik, Technische Universitat Berlin
http://dx.doi.org/10.1101/012518 2015-05-06 Bioinformatics CC BY CIDER: a pipeline for detecting waves of coordinated transcriptional regulation in gene expression time-course data Marco Mina|Giuseppe Jurman|Cesare Furlanello Bruno Kessler Foundation (FBK);|Fondazione Bruno Kessler;|FBK
http://dx.doi.org/10.1101/018085 2015-05-05 Genomics CC BY Building Genomic Analysis Pipelines in a Hackathon Setting with Bioinformatician Teams: DNA-seq, Epigenomics, Metagenomics and RNA-seq Ben Busby|Allissa Dillman|Claire L. Simpson|Ian Fingerman|Sijung Yun|David M. Kristensen|Lisa Federer|Naisha Shah|Matthew C. LaFave|Laura Jimenez-Barron|Manusha Pande|Wen Luo|Brendan Miller|Cem Mayden|Dhruva Chandramohan|Kipper Fletez-Brant|Paul W. Bible|Sergej Nowoshilow|Alfred Chan|Eric JC Galvez|Jeremy Chignell|Joseph N. Paulson|Manoj Kandpal|Suhyeon Yoon|Esther Asaki|Abhinav Nellore|Adam Stine|Robert Sanders|Jesse Becker|Matt Lesko|Mordechai Abzug|Eugene Yaschenko National Center for Biotechnology Information;|, Uniformed Services University of the Health Sciences;|National Human Genome Research Institute;|National Institute of Diabetes and Digestive and Kidney Diseases;|National Institutes of Health;|National Institute of Allergy and Infectious Diseases;|Cold Spring Harbor Laboratory;|University of Michigan;|National Cancer Institute;|Johns Hopkins University;|Weill Cornell Medical College;|Johns Hopkins Bloomberg School of Public Health;|National Institute of Arthritis and Musculoskeletal and Skin Diseases;|Technische Universität Dresden;|John Wayne Cancer Institute at Saint John's Health Center;|Helmholtz Centre for Infection Research;|Colorado State University;|University of Maryland;|Feinberg School of Medicine, Northwestern University
http://dx.doi.org/10.1101/018978 2015-05-05 Genomics Sequencing of 15,622 gene-bearing BACs reveals new features of the barley genome Maria Munoz-Amatriain|Stefano Lonardi|MingCheng Luo|Kavitha Madishetty|Jan Svensson|Matthew Moscou|Steve Wanamaker|Tao Jiang|Andris Kleinhofs|Gary Muehlbauer|Roger Wise|Nils Stein|Yaqin Ma|Edmundo Rodriguez|Dave Kudrna|Prasanna R Bhat|Shiaoman Chao|Pascal Condamine|Shane Heinen|Josh Resnik|Rod Wing|Heather N Witt|Matthew Alpert|Marco Beccuti|Serdar Bozdag|Francesca Cordero|Hamid Mirebrahim|Rachid Ounit|Yonghui Wu|Frank You|Jie Zheng|Hana Simkova|Jaroslav Dolezel|Jane Grimwood|Jeremy Schmutz|Denisa Duma|Lothar Altschmied|Tom Blake|Phil Bregitzer|Laurel Cooper|Muharrem Dilbirligi|Anders Falk|Leila Feiz|Andreas Graner|Perry Gustafson|Patrick Hayes|Peggy Lemaux|Jafar Mammadov|Timothy Close University of California Riverside;|University of California Davis;|Nordic Genetic Resource Center;|The Sainsbury Laboratory;|Washington State University;|University of Minnesota;|USDA-ARS / Iowa State University;|IPK Gatersleben;|Universidad Autonoma Agraria Antonio Narro;|Arizona Genomics Institute;|Monsanto Research Center, India;|USDA-ARS Fargo;|University of Turin;|Marquette University;|Google Inc.;|Agriculture and Agri-Food Canada;|Nanyang Technological University, Singapore;|Institute of Experimental Botany, Czech Republic;|JGI & Hudson Alpha Genome Sequencing Center;|Montana State University;|USDA-ARS, Aberdeen;|Oregon State University;|The Scientific and Technological Research Council of Turkey;|Swedish University of Agricultural Sciences;|Cornell University;|USDA / University of Missouri;|University of California Berkeley;|Dow AgroSciences LLC
http://dx.doi.org/10.1101/018986 2015-05-05 Evolutionary Biology Theoretical consequences of the Mutagenic Chain Reaction for manipulating natural populations Robert Unckless|Philipp Messer|Andrew Clark Cornell University
http://dx.doi.org/10.1101/018705 2015-05-05 Bioinformatics CC BY-NC-ND GO-PCA: An Unsupervised Method to Explore Biological Heterogeneity Based on Gene Expression and Prior Knowledge Florian Wagner Duke University
http://dx.doi.org/10.1101/018960 2015-05-05 Biophysics CC BY Obstructions in Vascular Networks. Critical vs Non-critical Topological Sites for Blood Supply Aimee Torres Rojas|Alejandro Meza Romero|Ignacio Pagonabarraga|Rui Travasso|Eugenia Corvera Poire Universidad Nacional Autónoma de México;|Universitat de Barcelona;|Universidade de Coimbra
http://dx.doi.org/10.1101/014043 2015-05-04 Bioinformatics CC BY NCBI BLAST+ integrated into Galaxy Peter J. A. Cock|John M. Chilton|Bjorn Gruning|James E. Johnson|Nicola Soranzo The James Hutton Institute;|Minnesota Supercomputing Institute, University of Minnesota;|Department of Computer Science, Albert-Ludwigs-University of Freiburg;|The Genome Analysis Centre (TGAC)
http://dx.doi.org/10.1101/018879 2015-05-04 Biophysics CC BY Exposing hidden alternative backbone conformations in X-ray crystallography using qFit Daniel A Keedy|James Fraser|Henry van den Bedem UCSF;|SLAC National Accelerator Laborator
http://dx.doi.org/10.1101/018895 2015-05-03 Microbiology Tropical Soil Metagenome Library Reveals Complex Microbial Assemblage Kok Gan Chan|Zahidah Ismail University of Malaya
http://dx.doi.org/10.1101/018911 2015-05-03 Microbiology CC BY-NC-ND Designing and interpreting limiting dilution assays: general principles and applications to the latent reservoir for HIV-1 Daniel I S Rosenbloom|Oliver Elliott|Alison L Hill|Timothy J Henrich|Janet M Siliciano|Robert F Siliciano Columbia University Medical Center;|Harvard University;|Brigham and Women's Hospital;|Johns Hopkins University School of Medicine;|Johns Hopkins University School of Medicine; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/018887 2015-05-03 Microbiology Genome analysis leads to discovery of Quorum Sensing Genes in Cedecea neteri Kian-Hin Tan|Kok-Gan Chan University of Malaya
http://dx.doi.org/10.1101/005009 2015-05-02 Ecology Data-intensive modeling of forest dynamics Jean F Lienard|Dominique Gravel|Nikolay Strigul Washington State University, Vancouver WA;|Universite du Quebec a Rimouski, Quebec, Canada;|Washington State University
http://dx.doi.org/10.1101/018804 2015-05-01 Bioinformatics CC BY Replication is Recursion; or, Lambda: the Biological Imperative Scott Federhen self
http://dx.doi.org/10.1101/018853 2015-05-01 Bioinformatics CC BY-NC Using the Phenoscape Knowledgebase to relate genetic perturbations to phenotypic evolution Prashanti Manda|James P Balhoff|Hilmar Lapp|Paula Mabee|Todd Vision University of North Carolina;|Duke University;|University of South Dakota
http://dx.doi.org/10.1101/018820 2015-04-30 Evolutionary Biology Driven to Extinction: On the Probability of Evolutionary Rescue from Sex-Ratio Meiotic Drive Robert Unckless|Andrew Clark Cornell University
http://dx.doi.org/10.1101/018747 2015-04-30 Pathology Mass spectrometry-based quantitation of Her2 in gastroesophageal tumor tissue: Comparison to IHC and FISH Daniel Catenacci|Wei-Li Liao|Lei Zhao|Emma Whitcomb|Les Henderson|peng Xu|Emily O'Day|Sheeno Thyparambil|Kathleen Bengali|Jamar Uzzell|Marlene Darflur|Fabiola Cecchi|Adele Blackler|David Krisman|Yung-Jue Bang|John Hart|Shu-Yuan Xiao|Sang Mee Lee|Jon Burrows|Todd Hembrough University of Chicago, Department of Medicine, Section of Hematology/Oncology;|Oncoplex Dx;|University of Chicago, Department of Pathology;|Emma.Whitcomb@uchospitals.edu;|Seoul National University College of Medicine, Seoul, Korea;|University of Chicago, Department of Health Studies, Chicago, IL
http://dx.doi.org/10.1101/018762 2015-04-30 Genomics CC BY Surveying the relative impact of mRNA features on local ribosome profiling read density in 28 datasets. Patrick O'Connor|Dmitry Andreev|Pavel Baranov University College Cork;|Lomonosov Moscow State University
http://dx.doi.org/10.1101/018788 2015-04-30 Bioinformatics Fine-mapping cellular QTLs with RASQUAL and ATAC-seq Natsuhiko Kumasaka|Andrew Knights|Daniel Gaffney Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/018770 2015-04-30 Genetics CC BY-NC-ND The complex admixture history and recent southern origins of Siberian populations Irina Pugach|Rostislav Matveev|Viktor Spitsyn|Sergey Makarov|Innokentiy Novgorodov|Vladimir Osakovsky|Mark Stoneking|Brigitte Pakendorf Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany;|Max Planck Institute for Mathematics in the Sciences, Leipzig, Germany;|Research Centre for Medical Genetics, Federal State Budgetary Institution, Moscow, Russian Federatio;|Institute of Foreign Philology and Regional Studies, North-Eastern Federal University, Yakutsk;|Institute of Health, North-Eastern Federal University, Yakutsk, Russian Federation;|Laboratoire Dynamique du Langage, UMR5596, CNRS and Université Lyon Lumière 2, Lyon, Fra
http://dx.doi.org/10.1101/018754 2015-04-30 Genomics CC BY-NC-ND Distinct nucleosome distribution patterns in two structurally and functionally differentiated nuclei of a unicellular eukaryote Jie Xiong|Shan Gao|Wen Dui|Wentao Yang|Xiao Chen|Sean D Taverna|Ronald E. Pearlman|Wendy Ashlock|Wei Miao|Yifan Liu Department of Pathology, University of Michigan;|Institute of Evolution & Marine Biodiversity, Ocean University of China;|Key Laboratory of Aquatic Biodiversity and Conservation, Institute of Hydrobiology, Chinese Academy;|Department of Pharmacology and Molecular Sciences and The Center for Epigenetics, Johns Hopkins Uni;|Department of Biology, York University
http://dx.doi.org/10.1101/018796 2015-04-30 Evolutionary Biology CC BY-NC-ND Climatic niches in phylogenetic comparative studies: a review of challenges and approaches Lara Budic|Carsten Dormann University of Freiburg
http://dx.doi.org/10.1101/018697 2015-04-30 Evolutionary Biology CC BY-NC-ND Detecting recent selective sweeps while controlling for mutation rate and background selection Christian D. Huber|Michael DeGiorgio|Ines Hellmann|Rasmus Nielsen University of California, Los Angeles;|Pennsylvania State University;|Ludwig-Maximilians-Universität München;|University of California, Berkeley
http://dx.doi.org/10.1101/018721 2015-04-30 Genetics Standing genetic variation as a major contributor to adaptation in the Virginia chicken lines selection experiment Zheya Sheng|Mats E Pettersson|Christa F Honaker|Paul B Siegel|Orjan Carlborg Swedish University of Agricultural Sciences;|Virginia Polytechnic Institute and State University
http://dx.doi.org/10.1101/018713 2015-04-30 Bioinformatics CC BY The "Gini index" in genetics: measuring genetic architecture complexity of quantitative traits Xia Shen Karolinska Institutet
http://dx.doi.org/10.1101/018739 2015-04-30 Bioinformatics CC BY-ND Controlling False Positive Rates in Methods for Differential Gene Expression Analysis using RNA-Seq Data David M Rocke|Luyao Ruan|J. Jared Gossett|Blythe Durbin-Johnson|Sharon Aviran University of California Davis;|University of California, Davis
http://dx.doi.org/10.1101/015438 2015-04-30 Synthetic Biology CC BY-NC-ND Engineering Transcriptional Regulator Effector Specificity using Computational Design and In Vitro Rapid Prototyping: Developing a Vanillin Sensor Emmanuel Lorenzo Cornejo de los Santos|Joseph T Meyerowitz|Stephen L Mayo|Richard M Murray California Institute of Technology
http://dx.doi.org/10.1101/018655 2015-04-28 Genomics CC BY Systems medicine links microbial inflammatory response with glycoprotein-associated mortality risk Scott C Ritchie|Peter Wurtz|Artika P Nath|Gad Abraham|Aki S Havulinna|Antti J Kangas|Pasi Soininen|Kristiina Aalto|Ilkka Seppala|Emma Raitoharju|Marko Salmi|Mikael Maksimow|Satu Mannisto|Mika Kahonen|Markus Juonala|Terho Lehtimaki|Sirpa Jalkanen|Markus Perola|Olli Raitakari|Veikko Salomaa|Mika Ala-Korpela|Johannes Kettunen|Michael Inouye The University of Melbourne;|University of Oulu;|National Institute for Health and Welfare, Finland;|University of Turku;|University of Tampere;|Turku University Hospital
http://dx.doi.org/10.1101/018549 2015-04-28 Ecology CC BY-NC-ND Regime shifts in the Anthropocene: drivers, risks, and resilience Juan Carlos Carlos Rocha|Garry D Peterson|Reinette Oonsie Biggs Stockholm University;|Stockholm Resilience Centre, Stockholm University
http://dx.doi.org/10.1101/018606 2015-04-27 Evolutionary Biology Selection for Intermediate Genotypes Enables a Key Innovation in Phage Lambda Alita Burmeister|Richard Lenski|Justin Meyer Michigan State University;|University of California, San Diego
http://dx.doi.org/10.1101/018481 2015-04-27 Ecology Big city, small world: Density, contact rates, and transmission of dengue across Pakistan. Moritz U. G. Kraemer|T. Alex Perkins|Derek A.T. Cummings|Rubeena Zakar|Simon I. Hay|David L. Smith|Robert C. Reiner University of Oxford;|University of Notre Dame;|Johns Hopkins University;|University of Punjab;|University of Indiana
http://dx.doi.org/10.1101/018648 2015-04-27 Genetics Proteins linked to autosomal dominant and autosomal recessive disorders harbor characteristic rare missense mutation distribution patterns Tychele Turner|Christopher Douville|Dewey Kim|Peter D Stenson|David N Cooper|Aravinda Chakravarti|Rachel Karchin Johns Hopkins University School of Medicine;|Johns Hopkins University;|Cardiff University
http://dx.doi.org/10.1101/018432 2015-04-27 Bioengineering CC BY-NC-ND A quasi-digital approach to peptide sequencing using tandem nanopores with endo- and exo-peptidases G Sampath Unaffiliated
http://dx.doi.org/10.1101/004473 2015-04-26 Neuroscience The invariance hypothesis implies domain-specific regions in visual cortex Joel Z. Leibo|Qianli Liao|Fabio Anselmi|Tomaso Poggio MIT
http://dx.doi.org/10.1101/018564 2015-04-26 Genomics CC BY-NC Rapid antibiotic resistance predictions from genome sequence data for S. aureus and M. tuberculosis. Phelim Bradley|N Claire Gordon|Timothy M Walker|Laura Dunn|Simon Heys|Bill Huang|Sarah Earle|Louise J Pankhurst|Luke Anson|Mariateresa de Cesare|Paolo Piazza|Antonina A Votintseva|Tanya Golubchik|Daniel J Wilson|David H Wyllie|Roland Diel|Stefan Niemann|Silke Feuerriegel|Thomas A Kohl|Nazir Ismail|Shaheed V Omar|E Grace Smith|David Buck|Gil McVean|A Sarah Walker|Tim Peto|Derrick Crook|Zamin Iqbal Wellcome Trust Centre for Human Genetics, University of Oxford;|Nuffield Department of Medicine, University of Oxford;|Institute for Epidemiology, University Medical Hospital Schleswig-Holstein, Kiel, Germany;|Molecular Mycobacteriology,Forschungszentrum Borstel, Germany;|Centre for Tuberculosis, National Institute for Communicable Diseases, Johannesberg, S. Africa;|Public Health England
http://dx.doi.org/10.1101/018580 2015-04-26 Biophysics CC BY Pluripotency Conversion of Gene Studied from Quantum Folding Theory Liaofu Luo Inner Mongolia University
http://dx.doi.org/10.1101/018572 2015-04-26 Genomics CC BY-NC-ND Integrative analysis of RNA, translation and protein levels reveals distinct regulatory variation across humans Can Cenik|Elif Sarinay Cenik|Gun W Byeon|Fabian Grubert|Sophie I Candille|Damek Spacek|Bilal Alsallakh|Hagen Tilgner|Carlos L Araya|Hua Tang|Emiliano Ricci|Michael P Snyder Stanford University;|Vienna University of Technology;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/018465 2015-04-24 Microbiology CC BY-NC-ND Metagenome-assembled genomes uncover a global brackish microbiome Luisa W Hugerth|John Larsson|Johannes Alneberg|Markus V Lindh|Catherine Legrand|Jarone Pinhassi|Anders F Andersson KTH Royal Institute of Technology;|Linnaeus University
http://dx.doi.org/10.1101/018507 2015-04-24 Genetics CC BY-NC-ND Predicting genetic interactions from Boolean models of biological networks Laurence Calzone|Emmanuel Barillot|Andrei Zinovyev Insitut Curie;|Institut Curie
http://dx.doi.org/10.1101/018366 2015-04-23 Genomics Elephantid genomes reveal the molecular bases of Woolly Mammoth adaptations to the arctic Vincent Lynch|Oscar C. Bedoya-Reina|Aakrosh Ratan|Michael Sulak|Daniela I. Drautz-Moses|George H. Perry|Webb Miller|Stephan C. Schuster The University of Chicago;|Pennsylvania State University,;|Pennsylvania State University;|Nanyang Technological University
http://dx.doi.org/10.1101/018473 2015-04-23 Ecology CC BY-NC-ND THE REGIME SHIFTS DATABASE: A FRAMEWORK FOR ANALYZING REGIME SHIFTS IN SOCIAL-ECOLOGICAL SYSTEMS Reinette Oonsie Biggs|Garry D Peterson|Juan Carlos Carlos Rocha Stockholm Resilience Centre, Stockholm University
http://dx.doi.org/10.1101/017996 2015-04-23 Evolutionary Biology CC BY-NC-ND The African wolf is a missing link in the wolf-like canid phylogeny Eli K. Rueness|Pal Trosvik|Anagaw Atickem|Claudio Sillero-Zubiri|Emiliano Trucchi University of Oslo;|Oxford University;|University of Vienna
http://dx.doi.org/10.1101/018424 2015-04-22 Developmental Biology CC BY Tribolium castaneum as a model for microRNA evolution, expression and function during short germband development Maria Ninova|Matthew Ronshaugen|Sam Griffiths-Jones University of Manchester
http://dx.doi.org/10.1101/015156 2015-04-22 Bioinformatics CC BY-NC-ND Discovery of large genomic inversions using pooled clone sequencing Marzieh Eslami Rasekh|Giorgia Chiatante|Mattia Miroballo|Joyce Tang|Mario Ventura|Chris T Amemiya|Evan E. Eichler|Francesca Antonacci|Can Alkan Bilkent University;|University of Bari;|Benaroya Research Institute;|Univ. of Washington
http://dx.doi.org/10.1101/009803 2015-04-22 Evolutionary Biology CC BY The role of standing variation in geographic convergent adaptation Peter L. Ralph|Graham Coop Computational Biology and Bioinformatics, University of Southern California;|UC Davis
http://dx.doi.org/10.1101/012500 2015-04-22 Evolutionary Biology CC BY-NC Reproductive workers show queen-like geneexpression in an intermediately eusocialinsect, the buff-tailed bumble bee Bombusterrestris. Mark C Harrison|Robert L Hammond|Eamonn B Mallon University of Leicester
http://dx.doi.org/10.1101/008458 2015-04-22 Ecology CC BY The downward spiral: eco-evolutionary feedback loops lead to the emergence of ‘elastic’ ranges Alexander Kubisch|Anna-Marie Winter|Emanuel A. Fronhofer University of Hohenheim;|University of Oslo;|Eawag: Swiss Federal Institute of Aquatic Science and Technology
http://dx.doi.org/10.1101/018408 2015-04-22 Neuroscience CC BY-NC-ND Reverse-correlation analysis of navigation dynamics in Drosophila larva using optogenetics Luis Hernandez-Nunez|Jonas Belina|Mason Klein|Guangwei Si|Lindsey Claus|John R Carlson|Aravinthan D.T. Samuel Department of Physics and Center for Brain Science, Harvard University, Cambridge, MA 02138;|Department of Molecular, Cellular, and Developmental Biology, Yale University, New Haven CT 06511
http://dx.doi.org/10.1101/018374 2015-04-21 Animal Behavior and Cognition CC BY Social feedback and the emergence of rank in animal society Elizabeth Hobson|Simon DeDeo National Institute for Mathematical and Biological Synthesis;|Indiana University
http://dx.doi.org/10.1101/014324 2015-04-21 Biochemistry CC BY The biological functions of Naa10—from amino-terminal acetylation to human disease Max Doerfel|Gholson Lyon Cold Spring Harbor Laboratory;|CSHL
http://dx.doi.org/10.1101/018317 2015-04-21 Synthetic Biology A cell-free framework for biological systems engineering Henrike Niederholtmeyer|Zachary Sun|Yutaka Hori|Enoch Yeung|Amanda Verpoorte|Richard M Murray|Sebastian J Maerkl EPFL;|Caltech;|Ecole Polytechnique Federeale de Lausanne (EPFL)
http://dx.doi.org/10.1101/018333 2015-04-21 Bioinformatics Bandage: interactive visualisation of de novo genome assemblies Ryan R Wick|Mark B Schultz|Justin Zobel|Kathryn E Holt University of Melbourne
http://dx.doi.org/10.1101/018325 2015-04-21 Genetics Genetic Basis of Transcriptome Diversity in Drosophila melanogaster Wen Huang|Mary Anna Carbone|Michael Magwire|Jason Peiffer|Richard Lyman|Eric Stone|Robert Anholt|Trudy Mackay NC State University
http://dx.doi.org/10.1101/012799 2015-04-20 Bioinformatics CC BY-NC-ND BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data Andrey V. Kartashov|Artem Barski CCHMC
http://dx.doi.org/10.1101/017673 2015-04-20 Bioinformatics CC BY-NC-ND Do count-based differential expression methods perform poorly when genes are expressed in only one condition? Xiaobei Zhou|Mark D Robinson University of Zurich
http://dx.doi.org/10.1101/018218 2015-04-20 Evolutionary Biology CC BY-NC-ND Low levels of transposable element activity in Drosophila mauritiana: causes and consequences Robert Kofler|Christian Schlotterer VetMedUni Wien
http://dx.doi.org/10.1101/018283 2015-04-20 Genetics Relationship between LD Score and Haseman-Elston Regression Brendan Bulik-Sullivan Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/018234 2015-04-18 Bioinformatics CC BY-NC-ND benchNGS : An approach to benchmark short reads alignment tools Farzana Rahman|Mehedi Hassan|Alona Martin Kryshchenko|Inna Dubchak|Nikolai Nickolai Alexandrov|Tatiana Tatarinova University of South Wales;|Children's Hospital Los Angeles, Los Angeles, California, United States;|Joint Genome Institute;|International Rice Research Institute;|University of Southern California
http://dx.doi.org/10.1101/017723 2015-04-18 Microbiology CC BY-NC-ND Multiple new species of Ophiocordyceps on ants Joao Araujo|David P Hughes Pennsylvania State University;|Penn State University
http://dx.doi.org/10.1101/012211 2015-04-17 Genomics Gene expression associated with white syndromes in a reef building coral, Acropora hyacinthus. Rachel M Wright|Galina V Aglyamova|Eli Meyer|Mikhail V Matz University of Texas at Austin;|Oregon State University
http://dx.doi.org/10.1101/009670 2015-04-17 Genomics Estimating gene expression and codon specific translational efficiencies, mutation biases, and selection coefficients from genomic data alone. Michael Gilchrist|Wei-Chen Chen|Premal Shah|Cedric L. Landerer|Russell Zaretzki Department of Ecology & Evolutionary Biology, University of Tennessee Knoxville;|Center for Biologics Evaluation and Research, Food and Drug Administration;|Department of Biology, University of Pennsylvania;|Department of Business Analytics and Statistics, University of Tennessee Knoxville
http://dx.doi.org/10.1101/018200 2015-04-17 Bioinformatics CC BY-ND benchmarkR: an R package for benchmarking genome-scale methods Xiaobei Zhou|Charity W Law|Mark D Robinson University of Zurich
http://dx.doi.org/10.1101/018044 2015-04-17 Evolutionary Biology CC BY-NC-ND The design and analysis of binary variable traits in common garden genetic experiments of highly fecund species to assess heritability Sarah W Davies|Samuel Scarpino|Thanapat Pongwarin|James Scott|Mikhail V Matz The University of Texas at Austin;|Santa Fe Institute
http://dx.doi.org/10.1101/018176 2015-04-16 Animal Behavior and Cognition CC BY Intensity matching in cuttlefish Andres Laan Tartu University
http://dx.doi.org/10.1101/018184 2015-04-16 Cancer Biology CC BY-NC Cancer stem cell plasticity as tumor growth promoter and catalyst of population collapse Jan Poleszczuk|Heiko Enderling H Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/018192 2015-04-16 Evolutionary Biology CC BY-ND Is there such a thing as Landscape Genetics? Rodney J Dyer Department of Biology, Virginia Commonwealth University
http://dx.doi.org/10.1101/018150 2015-04-16 Genetics Fulfilling the promise of Mendelian randomization Joseph Pickrell New York Genome Center
http://dx.doi.org/10.1101/018168 2015-04-16 Bioinformatics CC BY Measuring the Contribution of Genomic Predictors to Improving Estimator Precision in Randomized trials Prasad Patil|Michael A Rosenblum|Jeffrey T Leek Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/018093 2015-04-15 Bioinformatics CC BY-NC-ND A Statistical Framework to Predict Functional Non-Coding Regions in the Human Genome Through Integrated Analysis of Annotation Data Qiongshi Lu|Yiming Hu|Jiehuan Sun|Yuwei Cheng|Kei-Hoi Cheung|Hongyu Zhao Yale University
http://dx.doi.org/10.1101/018127 2015-04-15 Microbiology CC BY-NC Enumeration of coliform bacteria and characterization of Escherichia coli isolated from Staff Club swimming pool in Ile-Ife, Nigeria Tolutope Oluseyi Akeju Obafemi Awolowo University, Ile-Ife
http://dx.doi.org/10.1101/018101 2015-04-15 Evolutionary Biology CC BY-NC-ND Capturing heterotachy through multi-gamma site models Remco Bouckaert|Peter Lockhart University of Auckland;|Massey University
http://dx.doi.org/10.1101/013649 2015-04-15 Genomics CC BY-NC A pooling-based approach to mapping genetic variants associated with DNA methylation Irene Miriam Kaplow|Julia L MacIsaac|Sarah M Mah|Lisa M McEwen|Michael S Kobor|Hunter B Fraser Stanford University;|University of British Columbia
http://dx.doi.org/10.1101/014092 2015-04-15 Neuroscience Oscillatory signatures of crossmodal congruence effects: An EEG investigation employing a visuotactile pattern matching paradigm Florian Goschl|Uwe Friese|Jonathan Daume|Peter Konig|Andreas K. Engel University Medical Center Hamburg-Eppendorf;|University Medical Center Hamburg-Eppendorf; Institute of Cognitive Science
http://dx.doi.org/10.1101/015214 2015-04-15 Bioinformatics CC BY-NC-ND A multi-method approach for proteomic network inference in 11 human cancers Yasin Senbabaoglu|Selcuk Onur Sumer|Giovanni Ciriello|Nikolaus Schultz|Chris Sander Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/004036 2015-04-15 Evolutionary Biology CC BY Bias and measurement error in comparative analyses: a case study with the Ornstein Uhlenbeck model Gavin Huw Thomas|Natalie Cooper|Chris Venditti|Andrew Meade|Robert P Freckleton University of Sheffield;|Trinity College Dublin;|University of Reading
http://dx.doi.org/10.1101/018069 2015-04-15 Evolutionary Biology CC BY-NC-ND Natural selection defines the cellular complexity Han Chen|Xionglei He Sun Yat-sen University
http://dx.doi.org/10.1101/018010 2015-04-15 Systems Biology CC BY-NC-ND Impact of the species compartment definition on quantitative modeling of microbial communities Marko Budinich|Jeremie Bourdon|Damien Eveillard Université de Nantes
http://dx.doi.org/10.1101/017319 2015-04-14 Microbiology CC BY External Microbiota of Western United States Bats: Does It Matter Where You Are From? Ara Kooser|Jason C Kimble|Jesse M Young|Debbie C Buecher|Ernest W Valdez|Andrea Porras-Alfaro|Diana E Northup University of New Mexico;|Unaffiliated;|USGS;|Western Illinois University
http://dx.doi.org/10.1101/018077 2015-04-14 Evolutionary Biology CC BY-NC-ND Phylogenetic analysis supports a link between DUF1220 domain number and primate brain expansion Fabian Zimmer|Stephen H Montgomery University College London
http://dx.doi.org/10.1101/018051 2015-04-14 Scientific Communication CC BY-NC-ND Association of TSH level above 2.1 mlU/L and first trimester pregnancy loss in anti-TPO antibody negative women Yisrat Jahan|Enayetur Raheem|Mohammad Akteruzzaman|M Anwar Hussain|Rezaul Karim|Rifat Ara Jahan Maternal and Child Health Institute, Dhaka, Bangladesh;|University of Northern Colorado;|Ministry of Planning, Government of Bangladesh;|Bangabandhu Sheikh Mujib Medical University, Dhaka, Bangladesh;|University of Windsor
http://dx.doi.org/10.1101/017962 2015-04-13 Evolutionary Biology Concurrent origins of the genetic code and the homochirality of life, and the origin and evolution of biodiversity. Part I: Observations and explanations Dirson Jian Li Xi'an Jiaotong University
http://dx.doi.org/10.1101/017947 2015-04-13 Bioinformatics CC BY-ND Interrogating conserved elements of diseases using Boolean combinations of orthologous phenotypes John O Woods|Matthew Z Tien|Edward M Marcotte The University of Texas at Austin;|University of Texas
http://dx.doi.org/10.1101/018028 2015-04-13 Bioinformatics CC BY-NC-ND Bayesian Modeling of Epigenetic Variation in Multiple Human Cell Types Yu Zhang|Feng Yue|Ross C. Hardison Pennsylvania State University;|Pennsylvania State University College of Medicine
http://dx.doi.org/10.1101/017954 2015-04-13 Ecology CC BY-NC-ND Informed movement and dispersal in experimental metacommunities Emanuel A. Fronhofer|Jan Klecka|Carlos J. Melian|Florian Altermatt Eawag: Swiss Federal Institute of Aquatic Science and Technology;|Biology Centre of the Czech Academy of Sciences
http://dx.doi.org/10.1101/017897 2015-04-13 Neuroscience CC BY Fast ventral stream neural activity enables rapid visual categorization Maxime Cauchoix|Sebastien M Crouzet|Denis Fize|Thomas Serre CNRS;|CNRS / Université Toulouse 3;|Brown University
http://dx.doi.org/10.1101/017988 2015-04-13 Evolutionary Biology Concurrent origins of the genetic code and the homochirality of life, and the origin and evolution of biodiversity. Part II: Technical appendix Dirson Jian Li Xi'an Jiaotong University
http://dx.doi.org/10.1101/017939 2015-04-12 Bioinformatics CIDANE: Comprehensive isoform discovery and abundance estimation Stefan Canzar|Sandro Andreotti|David Weese|Knut Reinert|Gunnar W. Klau Toyotal Technological Institute at Chicago;|Institute of Computer Science, Freie Universität Berlin;|Life Sciences, Centrum Wiskunde & Informatica (CWI)
http://dx.doi.org/10.1101/011080 2015-04-11 Systems Biology Inference of cell-cell interactions from population density characteristics and cell trajectories on static and growing domains Robert Ross|Christian A Yates|Ruth E Baker University of Oxford;|University of Bath
http://dx.doi.org/10.1101/017889 2015-04-10 Molecular Biology Methods for distinguishing between protein-coding and long noncoding RNAs and the elusive biological purpose of translation of long noncoding RNAs Gali Housman|Igor Ulitsky Weizmann Institute of Science;|Weizmann Institute
http://dx.doi.org/10.1101/017848 2015-04-10 Genomics CC BY-NC-ND MicroRNAs provide the first evidence of genetic link between diapause and aging in vertebrates Luca Dolfi|Mario Baumgart|Marco Groth|Matthias Platzer|Alessandro Cellerino Bio@SNS, Scuola Normale Superiore;|Leibniz Isntitute for Age Research, Leibniz Institute;|Leibniz Isntitute for Age Research, Fritz Lipmann Institute;|Leibniz Institute for Age Reserach -Fritz Lipmann Institute;|Scuola Normale Superiore
http://dx.doi.org/10.1101/013417 2015-04-10 Evolutionary Biology CC BY-NC-ND Geographic range size is predicted by plant mating system Dena Grossenbacher|Ryan Briscoe Runquist|Emma Goldberg|Yaniv Brandvain University of Minnesota -- Twin Cities
http://dx.doi.org/10.1101/017871 2015-04-10 Evolutionary Biology CC BY-ND Predicting Carriers of Ongoing Selective Sweeps Without Knowledge of the Favored Allele Roy Ronen|Glenn Tesler|Ali Akbari|Shay Zakov|Noah A Rosenberg|Vineet Bafna University of California, San Diego;|University of California San Diego;|Stanford University
http://dx.doi.org/10.1101/017806 2015-04-09 Neuroscience In vivo characterization of the connectivity and subcomponents of the human globus pallidus Patrick Beukema|Timothy Verstynen|Fang-Cheng Yeh University of Pittsburgh;|Carnegie Mellon University;|frank.yeh@gmail.com
http://dx.doi.org/10.1101/014183 2015-04-09 Evolutionary Biology CC BY Geometric constraints dominate the antigenic evolution of influenza H3N2 hemagglutinin Austin G Meyer|Claus O Wilke University of Texas at Austin;|The University of Texas at Austin
http://dx.doi.org/10.1101/017822 2015-04-09 Bioinformatics CC BY-NC-ND Choosing subsamples for sequencing studies by minimizing the average distance to the closest leaf Jonathan T. L. Kang|Peng Zhang|Sebastian Zollner|Noah A. Rosenberg Stanford University;|Johns Hopkins University;|University of Michigan
http://dx.doi.org/10.1101/017731 2015-04-09 Bioinformatics CC BY-NC-ND MEGSA: A powerful and flexible framework for analyzing mutual exclusivity of tumor mutations Xing Hua|Paula L. Hyland|Jing Huang|Bin Zhu|Neil E. Caporaso|Maria Teresa Landi|Nilanjan Chatterjee|Jianxin Shi Division of Cancer Epidemiology and Genetics, National Cancer Institute;|Center for Cancer Research, National Cancer Institute
http://dx.doi.org/10.1101/017798 2015-04-09 Neuroscience Comment on “Two types of asynchronous activity in networks of excitatory and inhibitory spiking neurons” Rainer Engelken|Farzad Farkhooi|David Hansel|Carl van Vreeswijk|Fred Wolf Max Planck Institute for Dynamics and SelfOrganization (MPIDS), Goettingen, Germany;|Institut für Mathematik, Technische Universität Berlin;|CNRS and University Maris Descartes Paris France
http://dx.doi.org/10.1101/017772 2015-04-09 Genomics Comprehensive identification and characterization of conserved small ORFs in animals Sebastian D Mackowiak|Henrik Zauber|Chris Bielow|Denise Thiel|Kamila Kutz|Lorenzo Calviello|Guido Mastrobuoni|Nikolaus Rajewsky|Stefan Kempa|Matthias Selbach|Benedikt Obermayer Max-Delbrück-Center for Molecular Medicine, Berlin Institute for Medical Systems Biology;|Max-Delbrück-Center for Molecular Medicine, Berlin Institute of Health;|Max-Delbrück-Center for Molecular Medicine
http://dx.doi.org/10.1101/017814 2015-04-09 Synthetic Biology Prototyping 1,4-butanediol (BDO) biosynthesis pathway in a cell-free transcription-translation (TX-TL) system Yong Y Wu|Stephanie Culler|Julia Khandurina|Stephen Van Dien|Richard M Murray California Institute of Technology;|Genomatica
http://dx.doi.org/10.1101/012690 2015-04-08 Evolutionary Biology CC BY-NC-ND Limits to adaptation along environmental gradients Jitka Polechova|Nick Barton IST Austria
http://dx.doi.org/10.1101/013367 2015-04-08 Evolutionary Biology Rethinking inheritance, yet again: inheritomes, contextomes and dynamic phenotypes N. G. Prasad|Sutirth Dey|Amitabh Joshi|T.N.C. Vidya Indian Institute of Science Education and Research Mohali;|Indian Institute of Science Education and Research Pune;|Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/011007 2015-04-08 Evolutionary Biology E. coli populations in unpredictably fluctuating environments evolve to face novel stresses through enhanced efflux activity Shraddha Madhav Karve|Sachit Daniel|Yashraj Chavhan|Abhishek Anand|Somendra Singh Kharola|Sutirth Dey Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/017699 2015-04-08 Bioinformatics CC BY-NC-ND Phylogenetic tree inference from local gene content Galina Glazko|Michael Gensheimer|Arcady Mushegian Stowers Institute for Medical Research
http://dx.doi.org/10.1101/017707 2015-04-08 Animal Behavior and Cognition CC BY Changes in postural syntax characterize sensory modulation and natural variation of C. elegans locomotion Roland F. Schwarz|Robyn Branicky|Laura J. Grundy|William R. Schafer|Andre E.X. Brown European Bioinformatics Institute;|MRC Laboratory of Molecular Biology;|Imperial College London, MRC Clinical Sciences Centre
http://dx.doi.org/10.1101/008797 2015-04-07 Genetics Cross-population Joint Analysis of eQTLs: Fine Mapping and Functional Annotation Xiaoquan Wen|Francesca Luca|Roger Pique-Regi University of Michigan;|Wayne State University
http://dx.doi.org/10.1101/017681 2015-04-07 Evolutionary Biology Adaptive evolution of anti-viral siRNAi genes in bumblebees Sophie Helbing|Michael Lattorff Martin-Luther University Halle-Wittenberg;|Martin-Luther-Universität Halle-Wittenberg
http://dx.doi.org/10.1101/017657 2015-04-07 Genetics CC BY Tissue-specific Enrichment of Lymphoma Risk Loci in Regulatory Elements James E Hayes|Gosia Trynka|Joseph Vijai|Kenneth Offit|Soumya Raychaudhuri|Robert Klein Weill Cornell Graduate School of Medical Sciences;|Wellcome Trust Sanger Institute;|Memorial Sloan-Kettering Cancer Center;|Brigham and Women's Hospital;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/017665 2015-04-07 Bioinformatics CC BY The Impact of High-Performance Computing Best Practice Applied to Next-Generation Sequencing Workflows Pierre Carrier|Bill Long|Richard Walsh|Jef Dawson|Carlos P. Sosa|Brian Haas|Timothy Tickle|Thomas William Cray Inc.;|Broad Institute;|TU Dresden
http://dx.doi.org/10.1101/013268 2015-04-07 Bioengineering Division of Labor in Hand Usage Is Associated with Higher Hand Performance in Free-Ranging Bonnet Macaques, Macaca radiate Madhur Mangalam|Nisarg Desai|Mewa Singh University of Georgia;|Indian Institute of Science Education and Research, Pune;|University of Mysore
http://dx.doi.org/10.1101/014498 2015-04-06 Genomics An Atlas of Genetic Correlations across Human Diseases and Traits Brendan Bulik-Sullivan|Hilary K Finucane|Verneri Anttila|Alexander Gusev|Felix R Day|ReproGen Consortium|Psychiatric Genomics Consortium|Anorexia Nervosa Genetic Consortium Wellcome Trust Consortium 3|Laramie Duncan|John R.B. Perry|Nick Patterson|Elise Robinson|Mark J Daly|Alkes L Price|Benjamin M Neale Broad Institute of MIT and Harvard;|Massachusetts Institute of Technology, department of Mathematics;|Harvard T.H. Chan School of Public Health;;|MRC Epidemiology Unit, University of Cambridge School of Clinical Medicine;|NA
http://dx.doi.org/10.1101/017194 2015-04-06 Bioinformatics CC BY-ND Index-based map-to-sequence alignment in large eukaryotic genomes Davide Verzotto|Axel M Hillmer|Audrey S M Teo|Niranjan Nagarajan Genome Institute of Singapore
http://dx.doi.org/10.1101/017624 2015-04-06 Biochemistry Rich structure landscapes in both natural and artificial RNAs revealed by mutate-and-map analysis Pablo Cordero|Rhiju Das Stanford University
http://dx.doi.org/10.1101/016964 2015-04-06 Systems Biology CC BY-NC-ND Simulation of population development in the predator-prey system under changing conditions of interaction Alexandr N. Tetearing Saint Petersburg State University, Russia
http://dx.doi.org/10.1101/017590 2015-04-06 Genomics CC BY-NC-ND Genome of octoploid plant maca (Lepidium meyenii) illuminates genomic basis for high altitude adaptation in the central Andes Jun Sheng|Wei Chen|Yang Dong|Liangsheng Zhang|Jing Zhang|Yang Tian|Liang Yan|Guanghui Zhang|Xiao Wang|Yan Zeng|Jiajin Zhang|Xiao Ma|Yuntao Tan|Ni Long|Yangzi Wang|Yujin Ma|Yu Xue|Shumei Hao|Shengchao Yang|Wen Wang Yunnan Agricultural University;|Kunming University of Science and Technology;|Tongji University;|Huazhong University of Science and Technology;|Jilin University;|Pu’er Institute of Pu-er Tea;|Chinese Academy of Sciences;|Yunnan University
http://dx.doi.org/10.1101/017574 2015-04-06 Pathology CC BY-NC-ND Mutual predators: A descriptive cross-sectional study to identify prevalence and co-relation of Hepatitis C Virus and Human Immunodeficiency Virus type-1 coinfection Fouzia Ashraf|Dalaq Aiysha|Muhammad Tajamal|Shahzeb Shahzeb Javed|Saamia Saamia Tahir|Omar Ali|Mahmood Shaukat Allama Iqbal Medical College / Jinnah Hospital;|King Edward Medical University and Mayo Hospital Road;|CMH Lahore Medical College & Institute of Dentistry
http://dx.doi.org/10.1101/010363 2015-04-06 Genetics CC BY-NC-ND Whole-genome sequencing is more powerful than whole-exome sequencing for detecting exome variants Aziz Belkadi|Alexandre Bolze|Yuval Itan|Aurelie Cobat|Quentin B Vincent|Alexander Antipenko|Lei Shang|Bertrand Boisson|Jean-Laurent Casanova|Laurent Abel Paris Descartes University, Imagine Institute;|University of California San Francisco;|The Rockefeller University;|The Rockefeller University, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/017582 2015-04-06 Bioinformatics An integrative somatic mutation analysis to identify pathways linked with survival outcomes across 19 cancer types Sunho Park|Seung-Jun Kim|Donghyeon Yu|Samuel Pena-Llopis|Jianjiong Gao|Jin Suk Park|Hao Tang|Beibei Chen|Jiwoong Kim|Jessie Norris|Xinlei Wang|Min Chen|Minsoo Kim|Jeongsik Yong|Zabi WarDak|Kevin S Choe|Michael Story|Timothy K. Starr|Jae-Ho Cheong|Tae Hyun Hwang University of Texas Southwestern Medical Center;|University of Maryland at Baltimore;|Memorial Sloan Kettering Cancer Center;|Southern Methodist University;|University of Texas at Dallas;|University of Minnesota Twin Cities;|Yonsei University College of Medicine, Seoul, Korea
http://dx.doi.org/10.1101/017509 2015-04-04 Bioinformatics CC BY-NC-ND Isoform-level Ribosome Occupancy Estimation Guided by Transcript Abundance with Ribomap Hao Wang|Joel McManus|Carl Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/010215 2015-04-04 Bioinformatics CC BY FinisherSC : A repeat-aware tool for upgrading de-novo assembly using long reads Ka Kit Lam|Kurt LaButti|Asif Khalak|David Tse UC Berkeley;|Joint Genome Institute;|Pacific Biosciences;|Department of Electrical Engineering, Stanford University
http://dx.doi.org/10.1101/017525 2015-04-03 Ecology Evolutionarily induced alternative states and coexistence in systems with apparent competition Sebastian Schreiber|Swati Patel University of California, Davis
http://dx.doi.org/10.1101/017483 2015-04-03 Genomics CC BY Mycobacterial infection induces a specific human innate immune response John D Blischak|Ludovic Tailleux|Amy Mitrano|Luis B Barreiro|Yoav Gilad University of Chicago;|Institut Pasteur;|University of Montreal
http://dx.doi.org/10.1101/017475 2015-04-03 Evolutionary Biology CC BY-NC-ND Denisovan Ancestry in East Eurasian and Native American Populations. Pengfei Qin|Mark Stoneking Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/017327 2015-04-03 Neuroscience CC BY-NC-ND Non-dichotomous inference using bootstrapped evidence D. Sam Schwarzkopf UCL
http://dx.doi.org/10.1101/017434 2015-04-03 Genetics CC BY-NC-ND Autosomal dominant multiple pterygium syndrome is caused by mutations in MYH3 Jessica X Chong|Lindsay C Burrage|Anita E Beck|Colby T Marvin|Margaret J McMillin|Kathryn M Shively|Kati J Buckingham|Carlos A Bacino|Mahim Jain|Yasemin Alanay|Susan A Berry|John C Carey|Richard A Gibbs|Brendan H Lee|Deborah Krakow|Jay Shendure|Deborah A Nickerson|University Washington Center Mendelian Genomics|Michael J Bamshad University of Washington;|Baylor College of Medicine;|University of Washington, Seattle Children's Hospital;|Acibadem School of Medicine;|University of Minnesota;|University of Utah;|University of California Los Angeles;|University of Washington Center for Mendelian Genomics
http://dx.doi.org/10.1101/017459 2015-04-02 Genomics CC BY-NC Abundant contribution of short tandem repeats to gene expression variation in humans Melissa Gymrek|Thomas Willems|Haoyang Zeng|Barak Markus|Mark J Daly|Alkes L Price|Jonathan Pritchard|Yaniv Erlich MIT/Harvard;|MIT;|Whitehead Institute for Biomedical Research;|MGH;|Harvard School of Public Health;|Stanford University;|New York Genome Center
http://dx.doi.org/10.1101/010868 2015-04-02 Zoology CC BY-NC-ND The Histology of Nanomia bijuga (Hydrozoa: Siphonophora) Samuel H Church|Stefan Siebert|Pathikrit Bhattacharyya|Casey W Dunn Brown University
http://dx.doi.org/10.1101/016998 2015-04-02 Genomics RNAseq in the mosquito maxillary palp: a little antennal RNA goes a long way David C. Rinker|Xiaofan Zhou|Ronald Jason Pitts|Patrick L. Jones|Antonis Rokas|LJ Zwiebel Vanderbilt University;|Genzyme and Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/017368 2015-04-01 Ecology Historic and prehistoric human-driven extinctions have reshaped global mammal diversity patterns Sren Faurby|Jens-Christian Svenning Aarhus University
http://dx.doi.org/10.1101/017426 2015-04-01 Bioengineering On the Optimal Use of Isotherm Models for the Characterization of Biosorption of Lead Onto Algae F. Brouers|Tariq Al-Musawi Liège University/Department of Chemical Engineering;|University of Baghdad/ Environmental Engineering Department
http://dx.doi.org/10.1101/017384 2015-04-01 Genetics CC BY-NC CRISPR with independent transgenes is a safe and robust alternative to autonomous gene drives in basic research Fillip Port|Nadine Muschalik|Simon L Bullock MRC-LMB
http://dx.doi.org/10.1101/017376 2015-04-01 Bioinformatics Un-complicating protein complex prediction. Konstantinos Koutroumpas|Francois Kepes institute of Systems and Synthetic Biology
http://dx.doi.org/10.1101/017418 2015-04-01 Neuroscience CC BY-NC-ND Crossvalidation in brain imaging analysis Nikolaus Kriegeskorte MRC
http://dx.doi.org/10.1101/016667 2015-04-01 Evolutionary Biology CC BY-NC-ND The Evolution of Cooperation by the Hankshaw Effect Sarah P Hammarlund|Brian D Connelly|Katherine J Dickinson|Benjamin Kerr University of Washington
http://dx.doi.org/10.1101/007252 2015-04-01 Bioinformatics CC BY-ND Conservation of expression regulation throughout the animal kingdom Michael Kuhn|Andreas Beyer TU Dresden;|University of Cologne
http://dx.doi.org/10.1101/017343 2015-03-31 Genetics CC BY-NC-ND Neanderthal Genomics Suggests a Pleistocene Time Frame for the First Epidemiologic Transition Charlotte Jane Houldcroft|Simon Underdown UCL Institute of Child Health;|Oxford Brookes University
http://dx.doi.org/10.1101/017301 2015-03-30 Genetics Simple genetic models for autism spectrum disorder Swagatam Mukhopadhyay|Michael Wigler|Dan Levy Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/017285 2015-03-30 Plant Biology CC BY-NC Developmental plasticity of Arabidopsis thaliana accessions across an ambient temperature range Carla Ibanez|Yvonne Poeschl|Tom Peterson|Julia Bellstadt|Kathrin Denk|Andreas Gogol-Doring|Marcel Quint|Carolin Delker Department of Molecular Signal Processing, Leibniz Institute of Plant Biochemistry;|German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig
http://dx.doi.org/10.1101/017202 2015-03-30 Plant Biology CC BY-NC-ND Processes driving nocturnal transpiration and implications for estimating land evapotranspiration Victor Resco de Dios|Jacques Roy|Juan Pedro Ferrio|Josu Alday|Damien Landais|Alexandru Milcu|Arthur Gessler Universitat de Lleida;|CNRS;|University of Liverpool;|WSL
http://dx.doi.org/10.1101/016816 2015-03-30 Immunology CC BY-NC Novel APC-like properties of human NK cells directly regulate T cell activation Jacob Hanna|Ofer Mandelboim The Lautenberg Center for General and Tumor Immunology, Hebrew UniversityHadassah Medical School, J
http://dx.doi.org/10.1101/017277 2015-03-29 Genetics CC BY-NC-ND Network analysis of genome-wide selective constraint reveals a gene network active in early fetal brain intolerant of mutation Jinmyung Choi|Parisa Shooshtari|Kaitlin E Samocha|Mark J Daly|Chris Cotsapas Yale School of Medicine;|Massachusetts General Hospital
http://dx.doi.org/10.1101/017251 2015-03-29 Cancer Biology CC BY-NC-ND Disturbance of poised chromatin coincides with increased expression of developmental genes in cancer Stephan H Bernhart|Helene Kretzmer|Frank Juhling|Peter F Stadler|Steve Hoffmann University Leipzig
http://dx.doi.org/10.1101/010371 2015-03-29 Evolutionary Biology CC BY-NC-ND Social evolution and genetic interactions in the short and long term Jeremy Van Cleve University of Kentucky
http://dx.doi.org/10.1101/013441 2015-03-29 Ecology CC BY-NC-ND The Ecological Forecast Horizon, and examples of its uses and determinants Owen L Petchey|Mikael Pontarp|Thomas M Massie|Sonia Kefi|Arpat Ozgul|Maja Weilenmann|Gian Marco Palamara|Florian Altermatt|Blake J Matthews|Jonathan M Levine|Dylan Z Childs|Brian J McGill|Michael E Schaepman|Bernhard Schmid|Piet Spaak|Andrew P Beckerman|Frank Pennekamp|Ian S Pearse University of Zurich;|Université de Montpellier II;|Eeawag, Kastanienbaum;|ETH Zurich;|University of Sheffield;|University of Maine;|Eawag, Dübendorf;|The Illinois Natural History Survey
http://dx.doi.org/10.1101/017210 2015-03-28 Neuroscience CC BY-NC-ND Visual cues determine hippocampal directional selectivity Lavanya Acharya|Zahra M. Aghajan|Cliff Vuong|Jason Moore|Mayank Mehta UCLA
http://dx.doi.org/10.1101/016493 2015-03-27 Evolutionary Biology CC BY-NC-ND Long live the alien: studying the fate of the genomic diversity along the long-term dynamics of an extremely successful invader, the crested porcupine. Emiliano Trucchi|Benoit Facon|Paolo Gratton|Emiliano Mori|Nils Chr Stenseth|Sissel Jentoft University of Vienna, Austria/University of Oslo, Norway;|INRA, UMR1062, CBGP, France;|Max Planck Institute for Evolutionary Biology, Germany;|University of Turin, Italy;|University of Oslo, Norway
http://dx.doi.org/10.1101/017186 2015-03-27 Genetics CC BY-NC-ND Using targeted re-sequencing for identification of candidate genes and SNPs for a QTL affecting the pH value of chicken muscle Xidan Li|Xiaodong Liu|Javad Nadaf|Elisabeth Le Bihan-Duval|Cecile Berri|Ian C. Dunn|Richard Talbot|D. J. de Koning Swedish University of Agricultural Sciences;|The Linnaeus Center for Bioinformatics, Uppsala University;|The Roslin Institute and R(D)SVS, University of Edinburgh;|INRA, UR83
http://dx.doi.org/10.1101/011486 2015-03-27 Microbiology Independent Co-option of a Tailed Bacteriophage into a Killing Complex in Pseudomonas Kevin L Hockett|Tanya Renner|David A Baltrus University of Arizona
http://dx.doi.org/10.1101/005033 2015-03-27 Bioinformatics CC BY-ND bíogo: a simple high-performance bioinformatics toolkit for the Go language R Daniel Kortschak|David L Adelson University of Adelaide
http://dx.doi.org/10.1101/012922 2015-03-26 Neuroscience Dynamic reorganization of brain functional networks during cognition Micha Bola|Bernhard Sabel University of Magdeburg
http://dx.doi.org/10.1101/017129 2015-03-26 Evolutionary Biology How complexity originates: The evolution of animal eyes Todd H Oakley|Daniel I Speiser UC Santa Barbara;|University of South Carolina
http://dx.doi.org/10.1101/017103 2015-03-26 Bioinformatics CC BY MMR: A Tool for Read Multi-Mapper Resolution Andre Kahles|Jonas Behr|Gunnar Ratsch Memorial Sloan Kettering Cancer Center;|Universität Basel
http://dx.doi.org/10.1101/017160 2015-03-26 Molecular Biology CC BY-ND Accurate Isothermal Amplification Reaction Rate Determination Using High-Frequency Sampling Thomas Beals Thorne Diagnostics, Inc.
http://dx.doi.org/10.1101/017137 2015-03-26 Neuroscience A large-scale circuit mechanism for hierarchical dynamical processing in the primate cortex Rishidev Chaudhuri|Kenneth Knoblauch|Marie-Alice Gariel|Henry Kennedy|Xiao-Jing Wang The University of Texas at Austin;|Stem cell and Brain Research Institute, INSERM U846;|New York University
http://dx.doi.org/10.1101/017145 2015-03-26 Neuroscience Repellent compound with larger protective zone than DEET identified through activity-screening of Ir40a neurons, does not require Or function Tom Guda|PInky Kain|Kavita R Sharma|Christine K Pham|Anandasankar Ray University of California Riverside
http://dx.doi.org/10.1101/017152 2015-03-26 Evolutionary Biology CC BY Entire genome transcription across evolutionary time exposes non-coding DNA to de novo gene emergence Rafik Neme|Diethard Tautz Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/017087 2015-03-26 Bioinformatics CC BY-NC-ND Large-Scale Search of Transcriptomic Read Sets with Sequence Bloom Trees Brad Solomon|Carleton Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/016881 2015-03-26 Evolutionary Biology CC BY-NC-ND Selective strolls: fixation and extinction in diploids are slower for weakly selected mutations than for neutral ones fabrizio mafessoni|Michael Lachmann Max Planck for Evolutionary Anthropology;|Santa Fe Institute
http://dx.doi.org/10.1101/015925 2015-03-26 Cancer Biology CC BY-NC-ND Phase i trials in melanoma: A framework to translate preclinical findings to the clinic Eunjung Kim|Vito W. Rebecca|Keiran S.M. Smalley|Alexander R.A. Anderson Moffitt Cancer Center and Research Institute;|University of Pennsylvania
http://dx.doi.org/10.1101/017046 2015-03-25 Biophysics CC BY-ND Interventional Nerve Visualization via the Intrinsic Anisotropic Optical Properties of the Nerves Kenneth Chin|Andries Meijerink|Patrick Chin UVA;|Utrecht University;|EPO
http://dx.doi.org/10.1101/017061 2015-03-25 Ecology CC BY-NC Exploring the effects of high concentration of glucose on soil microbial community: An experimental study using the soil of North Bangalore Anshuman Swain Indian Institute of Science
http://dx.doi.org/10.1101/017020 2015-03-25 Evolutionary Biology CC BY-NC-ND Adaptation, Clonal Interference, and Frequency-Dependent Interactions in a Long-Term Evolution Experiment with Escherichia coli Rohan Maddamsetti|Richard E. Lenski|Jeffrey E. Barrick Michigan State University, United States;|The University of Texas at Austin, United States
http://dx.doi.org/10.1101/013623 2015-03-25 Bioinformatics CC BY Software for the analysis and visualization of deep mutational scanning data Jesse D Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/016980 2015-03-25 Genetics Threshold trait architecture of Hsp90-buffered variation Charles C Carey|Kristen F Gorman|Becky Howsmon|Charles Kooperberg|Aaron K Aragaki|Suzannah Rutherford Fred Hutchinson Cancer Research Center;|Université de Montréal;|Seattle Children's Research Institute
http://dx.doi.org/10.1101/016972 2015-03-24 Evolutionary Biology CC BY-NC-ND Recombining without hotspots: A comprehensive evolutionary portrait of recombination in two closely related species of Drosophila Caiti Smukowski Heil|Chris Ellison|Matthew Dubin|Mohamed Noor University of Washington;|University of California Berkeley;|Duke University
http://dx.doi.org/10.1101/016956 2015-03-24 Genetics Genome-wide Association Study for Number of Vertebrae in an F2 Large White × Minzhu Population of Pigs Longchao Zhang|Xin Liu|Jing Liang|Kebin Zhao|Hua Yan|Na Li|Lei Pu|Yuebo Zhang|Huibi Shi|Ligang Wang|Lixian Wang Institute of Animal Science, Chinese Academy of Agricultural Sciences, China
http://dx.doi.org/10.1101/016691 2015-03-24 Systems Biology CC BY-NC-ND Simulation of population development in the predator-prey system under changing conditions of interaction Alexandr N. Tetearing Saint Petersburg State University
http://dx.doi.org/10.1101/016006 2015-03-24 Evolutionary Biology CC BY-ND The origins of a novel butterfly wing patterning gene from within a family of conserved cell cycle regulators Nicola Nadeau|Carolina Pardo-Diaz|Annabel Whibley|Megan Ann Supple|Richard Wallbank|Grace C. Wu|Luana Maroja|Laura Ferguson|Heather Hines|Camilo Salazar|Richard ffrench-Constant|Mathieu Joron|William Owen McMillan|Chris Jiggins University of Sheffield;|Universidad del Rosario;|Muséum National d'Histoire Naturelle;|Smithsonian Tropical Research Institute/North Carolina State University;|University of Cambridge;|University of California at Berkeley;|Williams College;|University of Oxford;|North Carolina State University;|University of Exeter in Cornwall;|Smithsonian Tropical Research Institute;|Cambridge
http://dx.doi.org/10.1101/016915 2015-03-23 Synthetic Biology CC BY-NC-ND Dynamic signal processing by ribozyme-mediated RNA circuits to control gene expression Shensi Shen|Guillermo Rodrigo|Satya Prakash|Eszter Majer|Thomas E Landrain|Boris Kirov|Jose Antonio Daros|Alfonso Jaramillo Institute of Systems and Synthetic Biology;|University of Warwick;|Instituto de Biología Molecular y Celular de Plantas;|Instituto de Biología Molecular y Celular de Plantas
http://dx.doi.org/10.1101/016923 2015-03-23 Developmental Biology CC BY The unusual gene order in the Echinoderm Hox cluster is related to the embryo and larva symmetries Spyros Papageorgiou Institute of Biology, NCSR 'Demokritos'
http://dx.doi.org/10.1101/016865 2015-03-22 Genetics CC BY-NC-ND Exploring functional variation affecting ceRNA regulation in humans Mulin Jun Li|Jiexing Wu|Peng Jiang|Wei Li|Yun Zhu|Daniel Fernandez|Russell J. H. Ryan|Yiwen Chen|Junwen Wang|Jun S. Liu|X. Shirley Liu The University of Hong Kong;|Harvard University;|Harvard School of Public Health;|Massachusetts General Hospital and Harvard Medical School;|The University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/010199 2015-03-22 Evolutionary Biology CC BY-NC Species delimitation and phylogeny estimation under the multispecies coalescent Graham R Jones Gothenburg University
http://dx.doi.org/10.1101/016832 2015-03-22 Evolutionary Biology CC BY-ND Cline coupling and uncoupling in a stickleback hybrid zone Tim Vines|Anne Dalziel|Arianne Albert|Thor Veen|Patricia Schulte|Dolph Schluter University of British Columbia;|Université Laval;|BC Women's Hospital and Health Care Center;|University of Texas Austin
http://dx.doi.org/10.1101/016857 2015-03-22 Genomics CC BY-NC-ND SumVg: Total heritability explained by all variants in genome-wide association studies based on summary statistics with standard error estimates Hon-Cheong SO|Pak C. SHAM Department of Psychiatry, Queen Mary Hospital;|Department of Psychiatry, University of Hong Kong
http://dx.doi.org/10.1101/016873 2015-03-22 Genomics CC BY-NC-ND The advent of genome-wide association studies for bacteria Peter E Chen|B Jesse Shapiro Université de Montréal
http://dx.doi.org/10.1101/016808 2015-03-21 Genomics CSN and CAVA: variant annotation tools for rapid, robust next-generation sequencing analysis in the clinic Marton Munz|Elise Ruark|Anthony Renwick|Emma Ramsay|Matthew Clarke|Shazia Mahamdallie|Victoria Cloke|Sheila Seal|Ann Strydom|Gerton Lunter|Nazneen Rahman Wellcome Trust Centre for Human Genetics;|Division of Genetics & Epidemiology, Institute of Cancer Research;|Division of Genetics & Epidemiology; TGLclinical, Institute of Cancer Research;|TGLclinical, Institute of Cancer Research;|Division of Genetics & Epidemiology, TGLclinical, ICR; The Royal Marsden NHS Foundation Trust
http://dx.doi.org/10.1101/011031 2015-03-21 Neuroscience Distinct behavioral effects of prefrontal and parietal cortex inactivations on an accumulation of evidence task in the rat Jeffrey C Erlich|Bingni W Brunton|Chunyu A Duan|Timothy D Hanks|Carlos D Brody NYU-Shanghai;|University of Washington;|Princeton University;|HHMI & Princeton University
http://dx.doi.org/10.1101/016758 2015-03-20 Bioinformatics CC BY-ND Bio4j: a high-performance cloud-enabled graph-based data platform Pablo Pareja-Tobes|Raquel Tobes|Marina Manrique|Eduardo Pareja|Eduardo Pareja-Tobes oh no sequences! research group, Era7 bioinformatics
http://dx.doi.org/10.1101/016824 2015-03-20 Cancer Biology CC BY-NC-ND Spatial model predicts dispersal and cell turnover cause reduced intra-tumor heterogeneity Bartlomiej Waclaw|Ivana Bozic|Meredith E Pittman|Ralph H Hruban|Bert Vogelstein|Martin A Nowak The University of Edinburgh;|Program for Evolutionary Dynamics, Harvard University;|The Sol Goldman Pancreatic Cancer Research Center, Department of Pathology, Johns Hopkins University;|Ludwig Center and Howard Hughes Medical Institute, Johns Hopkins Kimmel Cancer Center
http://dx.doi.org/10.1101/016790 2015-03-20 Evolutionary Biology CC BY-NC-ND Breaking through evolutionary constraint by environmental fluctuations Marjon GJ de Vos|Alexandre Dawid|Vanda Sunderlikova|Sander J Tans IST Austria;|Univ. Grenoble Alpes, LIPhy, F-38000 Grenoble, France. CNRS, LIPhy, F-38000 Grenoble, France.;|FOM Institute AMOLF
http://dx.doi.org/10.1101/016519 2015-03-20 Bioinformatics CC BY LINKS: Scaffolding genome assemblies with kilobase-long nanopore reads Rene L Warren|Benjamin P Vandervalk|Steven JM Jones|Inanc Birol BC Genome Sciences Centre
http://dx.doi.org/10.1101/016782 2015-03-20 Evolutionary Biology CC BY-NC Repeatability of evolution on epistatic landscapes Benedikt Bauer|Chaitanya S Gokhale Max Planck Institute for Evolutionary Biology;|New Zealand Institute for Advanced Study, Massey University
http://dx.doi.org/10.1101/016675 2015-03-19 Genomics CC BY-NC-ND Sex chromosome dosage compensation in Heliconius butterflies: global yet still incomplete? James R Walters|Thomas J Hardcastle|Chris Jiggins University of Kansas;|University of Cambridge
http://dx.doi.org/10.1101/015305 2015-03-19 Plant Biology CC BY-NC Natural Variants of ELF3 Affect Thermomorphogenesis by Transcriptionally Modulating PIF4-Dependent Auxin Response Genes Anja Raschke|Carla Ibanez|Kristian Karsten Ullrich|Muhammad Usman Anwer|Sebastian Becker|Annemarie Glockner|Jana Trenner|Kathrin Denk|Bernhard Saal|Xiaodong Sun|Min Ni|Seth Jon Davis|Carolin Delker|Marcel Quint Leibniz Institute of Plant Biochemistry;|Max Planck Institute for Plant Breeding Research;|PlantaServ GmbH;|University of Minnesota Twin Cities;|University of York, Max Planck Institute for Plant Breeding Research
http://dx.doi.org/10.1101/016725 2015-03-19 Neuroscience Self-organization of Computation in Neural Systems Christian Tetzlaff|Sakyasingha Dasgupta|Tomas Kulvicius|Florentin Worgotter Georg-August University, Göttingen
http://dx.doi.org/10.1101/013896 2015-03-19 Synthetic Biology CC BY RNA-guided gene drives can efficiently and reversibly bias inheritance in wild yeast James E DiCarlo|Alejandro Chavez|Sven L Dietz|Kevin M Esvelt|George M Church Department of Genetics, Harvard Medical School;|Wyss Institute for Biologically Inspired Engineering, Harvard Medical School
http://dx.doi.org/10.1101/010074 2015-03-18 Bioinformatics CC BY largeQvalue: A program for calculating FDR estimates with large datasets Andrew Anand Brown Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/016683 2015-03-17 Bioinformatics Distributed Bayesian Networks Reconstruction on the Whole Genome Scale Alina Frolova|Bartek Wilczynski Institute of Molecular Biology and Genetics of NASU;|Institute of Informatics University of Warsaw
http://dx.doi.org/10.1101/016659 2015-03-17 Bioinformatics CC BY regionReport: Interactive reports for region-based analyses Leonardo Collado-Torres|Andrew E Jaffe|Jeffrey T Leek Johns Hopkins Bloomberg School of Public Health;|Lieber Institute for Brain Development
http://dx.doi.org/10.1101/016238 2015-03-17 Evolutionary Biology CC BY-ND Introgression obscures and reveals historical relationships among the American live oaks Deren Eaton|Antonio Gonzalez-Rodriguez|Andrew Hipp|Jeannine Cavender-Bares Yale University;|Univerisidad Nacional Autonoma de Mexico, Morelia;|Morton Arboretum;|University of Minnesota
http://dx.doi.org/10.1101/016642 2015-03-17 Genomics CC BY Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions Alicia Schep|Jason D Buenrostro|Sarah K Denny|Katja Schwartz|Gavin Sherlock|William J Greenleaf Stanford University
http://dx.doi.org/10.1101/016592 2015-03-17 Genomics CC BY Dimensionality and the statistical power of multivariate genome-wide association studies Eladio J. Marquez|David Houle The Jackson Laboratory for Genomic Medicine;|Florida State University
http://dx.doi.org/10.1101/016576 2015-03-17 Bioinformatics Latent epistatic interaction model identifies loci associated with human working memory Janos Z Kelemen|Christian Vogler|Angela Beck|Dominique de Quervain|Andreas Papassotiropoulos|Niko Beerenwinkel ETH Zurich;|University of Basel;|ETH Zurich, D-BSSE
http://dx.doi.org/10.1101/001685 2015-03-16 Developmental Biology CC BY-NC-ND Stem cells in Nanomia bijuga (Siphonophora), a colonial animal with localized growth zones Stefan Siebert|Freya E. Goetz|Samuel H. Church|Pathikrit Bhattacharyya|Felipe Zapata|Steven H.D. Haddock|Casey W. Dunn Brown University;|National Museum of Natural History, Smithsonian Institution, Washington;|Department of Ecology and Evolutionary Biology, Brown University;|Monterey Bay Aquarium Research Institute
http://dx.doi.org/10.1101/010348 2015-03-16 Neuroscience CC BY NeuroVault.org: A web-based repository for collecting and sharing unthresholded statistical maps of the human brain Krzysztof Jacek Gorgolewski|Gael Varoquaux|Gabriel Rivera|Yannick Schwartz|Satrajit S. Ghosh|Camille Maumet|Vanessa Sochat|Thomas E. Nichols|Russell A. Poldrack|Jean-Baptiste Poline|Tal Yarkoni|Daniel S. Margulies Max Planck Research Group Neuroanatomy and Connectivity;|INRIA Parietal, Neurospin;|InfoCortex UG;|McGovern Institute for Brain Research, Massachusetts Institute of Technology;|Warwick Manufacturing Group, University of Warwick;|Stanford University;|Department of Statistics, University of Warwick;|Department of Psychology, Stanford University;|Helen Wills Neuroscience Institute, University of California at Berkeley;|Department of Psychology, University of Texas at Austin
http://dx.doi.org/10.1101/010686 2015-03-16 Bioinformatics CC BY SomaticSignatures: Inferring Mutational Signatures from Single Nucleotide Variants Julian S. Gehring|Bernd Fischer|Michael Lawrence|Wolfgang Huber European Molecular Biology Laboratory;|Genentech, Inc, Bioinformatics and Computational Biology
http://dx.doi.org/10.1101/010082 2015-03-14 Evolutionary Biology Scaling properties of evolutionary paths in a biophysical model of protein adaptation Michael Manhart|Alexandre V. Morozov Harvard University;|Rutgers University
http://dx.doi.org/10.1101/016451 2015-03-14 Biophysics CC BY Low cost, high performance processing of single particle cryo-electron microscopy data in the cloud Michael A. Cianfrocco|Andres E. Leschziner Harvard University
http://dx.doi.org/10.1101/016428 2015-03-14 Genetics CC BY-ND Calculating the Human Mutation Rate by Using a NUMT from the Early Oligocene Ian Logan Exmouth, UK
http://dx.doi.org/10.1101/016436 2015-03-14 Neuroscience CC BY-NC-ND Intersubject information mapping: revealing canonical representations of complex natural stimuli. Nikolaus Kriegeskorte MRC - Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/016543 2015-03-14 Genetics CC BY-NC-ND Beyond 2/3 and 1/3: the complex signatures of sex-biased admixture on the X chromosome Amy Goldberg|Noah A Rosenberg Stanford University
http://dx.doi.org/10.1101/016337 2015-03-14 Evolutionary Biology CC BY The Spatial Mixing of Genomes in Secondary Contact Zones Alisa Sedghifar|Yaniv Brandvain|Peter L. Ralph|Graham Coop University of California, Davis;|University of Minnesota - Twin Cities;|University of Southern California;|University of California: Davis
http://dx.doi.org/10.1101/012831 2015-03-13 Genetics|Genomics CC BY Indication of family-specific DNA methylation patterns in developing oysters Claire E. Olson|Steven B. Roberts University of Washington
http://dx.doi.org/10.1101/016410 2015-03-12 Microbiology CC BY-ND Cryptic haplotypes of "Candidatus Liberibacter africanus" Warrick Nelson|Sandrine Eveillard|Marie-Pierre Dubrana|Joseph Bove The New Zealand Institute for Plant and Food Research Limited;|Université Bordeaux and INRA
http://dx.doi.org/10.1101/016295 2015-03-11 Developmental Biology A Branching Process to Characterize the Dynamics of Stem Cell Differentiation david miguez Universidad autónoma de Madrid
http://dx.doi.org/10.1101/016329 2015-03-11 Neuroscience Hippocampal Spine Head Sizes are Highly Precise Thomas M Bartol|Cailey Bromer|Justin P Kinney|Michael A Chirillo|Jennifer N Bourne|Kristen M Harris|Terrence J Sejnowski Salk Institute;|McGovern Institute for Brain Research, Massachusetts Institute of Technology;|Center for Learning and Memory, Department of Neuroscience, University of Texas
http://dx.doi.org/10.1101/016402 2015-03-11 Molecular Biology CC BY-NC-ND Proteomic analysis of Dhh1 complexes reveals a role for Hsp40 chaperone Ydj1 in yeast P-body assembly Gregory A. Cary|Dani B.N. Vinh|Patrick May|Rolf Kuestner|Aimee M. Dudley Carnegie Mellon University, United States;|None, United States;|Luxembourg Centre for Systems Biomedicine, Luxembourg;|Matrix Genetics, Inc., United States;|Pacific Northwest Diabetes Research Institute, United States
http://dx.doi.org/10.1101/015552 2015-03-11 Bioinformatics CC BY A complete bacterial genome assembled de novo using only nanopore sequencing data Nicholas James Loman|Joshua Quick|Jared T Simpson University of Birmingham;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/016378 2015-03-10 Paleontology CC BY-NC Fables and foibles: a critical analysis of the Palaeoflora database and the Coexistence approach for palaeoclimate reconstruction Guido Grimm|Thomas Denk|Johannes Martin Bouchal|Alastair John Potts University of Vienna;|Swedish Museum of Natural History;|Nelson-Mandela Metropolitan University
http://dx.doi.org/10.1101/016352 2015-03-10 Bioinformatics CC BY-NC-ND Metassembler: Merging and optimizing de novo genome assemblies Alejandro Hernandez Wences|Michael Schatz CSHL;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/016162 2015-03-10 Systems Biology Dynamics of miRNA driven feed-forward loop depends upon miRNA action mechanisms Maria Duk|Maria Samsonova|Alexander Samsonov Ioffe Institute;|St.Petersburg State Polytechnical University
http://dx.doi.org/10.1101/016345 2015-03-10 Bioinformatics CC BY ISMapper: Identifying insertion sequences in bacterial genomes from short read sequence data Jane Hawkey|Mohammad Hamidian|Ryan R Wick|David J Edwards|Helen Billman-Jacobe|Ruth M Hall|Kathryn E Holt The University of Melbourne;|The University of Sydney
http://dx.doi.org/10.1101/016246 2015-03-10 Bioinformatics CC BY-NC-ND Revisiting the Structure/Function Relationships of H/ACA(-like) RNAs: A Unified Model for Euryarchaea and Crenarchaea Claire Toffano-Nioche|Daniel Gautheret|Fabrice Leclerc Institute for Integrative Biology of the Cell (I2BC)
http://dx.doi.org/10.1101/006155 2015-03-10 Plant Biology CC BY-ND Transgenic expression of the dicotyledonous pattern recognition receptor EFR in rice leads to ligand-dependent activation of defense responses Benjamin Schwessinger|Ofir Bahar|Thomas Nicolas|Nicolas Holton|Vladimir Nekrasov|Randy Ruan|Patrick Canlas|Arsalan Daudi|Christopher Petzold|Vasanth Singan|Rita Kuo|Mansi Chovatia|Chris Daum|Joshua Heazlewood|Cyril Zipfel|Pamela Ronald UC Davis;|Sainsbury Laboratory;|Joint Bioenergy Institute;|Department of Energy Joint Genome Institute;|Joint Bioenergy Institue;|Sainsubry Laboratory
http://dx.doi.org/10.1101/016311 2015-03-09 Evolutionary Biology CC BY-NC-ND Phylogeography by Diffusion on a Sphere Remco Bouckaert University of Auckland
http://dx.doi.org/10.1101/016303 2015-03-09 Developmental Biology CC BY-NC-ND Tissue dynamics of the forebrain neural plate Stephen Young|Joel N Jennings|Guy B Blanchard|Alexandre J Kabla|Richard Adams University of Cambridge
http://dx.doi.org/10.1101/010140 2015-03-09 Scientific Communication CC BY-NC-ND An evidence assessment tool for ecosystem services and conservation studies Anne-Christine Mupepele|Jessica C. Walsh|William J. Sutherland|Carsten F. Dormann Biometry and Environmental System Analysis, University of Freiburg;|University of Cambridge
http://dx.doi.org/10.1101/014407 2015-03-09 Neuroscience Crossmodal integration improves sensory detection thresholds in the ferret Karl Jonas Hollensteiner|Florian Pieper|Gerhard Engler|Peter Konig|Andreas Karl Engel University Medical Center Hamburg-Eppendorf;|University of Osnabr?ck
http://dx.doi.org/10.1101/016188 2015-03-08 Microbiology CC BY-ND Intragenomic homogeneity on Liberibacter 16S rDNA confirms phylogeny and explains ecological strategy Warrick R Nelson|Nelson A Wulff|Joseph M Bove The New Zealand Institute for Plant and Food Ressearch Limited;|Fundecitrus;|Université Bordeaux Ségalen
http://dx.doi.org/10.1101/016196 2015-03-07 Bioinformatics CC BY-NC-ND Differential expression analysis of RNA sequencing data by incorporating non-exonic mapped reads Hung-I Harry Chen|Yuanhang Liu|Yi Zou|Zhao Lai|Devanand Sarkar|Yufei Huang|Yidong Chen UTHSCSA;|Virginia Commonwealth University;|UTSA
http://dx.doi.org/10.1101/016212 2015-03-07 Neuroscience Different Coupling Modes Mediate Cortical Cross-Frequency Interactions Randolph F Helfrich|Christoph S Herrmann|Andreas K Engel|Till R Schneider University Medical Center Hamburg-Eppendorf;|University of Oldenburg
http://dx.doi.org/10.1101/016063 2015-03-07 Genomics svviz: a read viewer for validating structural variants Noah Spies|Justin M Zook|Marc Salit|Arend Sidow Stanford University;|National Institute of Standards and Technology
http://dx.doi.org/10.1101/016204 2015-03-07 Genomics CC BY-NC-ND Mutational oncogenic signatures on structurally resolved protein interacting interfaces Luz Garcia-Alonso|Joaquin Dopazo European Bioinformatics Institute;|CIPF
http://dx.doi.org/10.1101/011346 2015-03-06 Bioinformatics CC BY-NC-ND Interactive analysis and quality assessment of single-cell copy-number variations Tyler Garvin|Robert Aboukhalil|Jude Kendall|Timour Baslan|Gurinder S Atwal|James Hicks|Michael Wigler|Michael Schatz Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/013961 2015-03-06 Developmental Biology CC BY-ND Mbd3/NuRD is a Key Inhibitory Module During the Induction and Maintenance of Naïve Pluripotency Asaf Zviran|Yoach Rais|Nofar Mor|Noa Novershtern|Jacob H Hanna Weizmann Institute of Science
http://dx.doi.org/10.1101/016154 2015-03-06 Genomics CC BY Pathway based factor analysis of gene expression data produces highly heritable phenotypes that associate with age Andrew Anand Brown|Zhihao Ding|Ana Vinuela|Dan Glass|Leopold Parts|Timothy Spector|John Winn|Richard Durbin Wellcome Trust Sanger Institute;|King's College London;|University of Toronto;|Microsoft Research Cambridge;|Sanger Institute
http://dx.doi.org/10.1101/016139 2015-03-06 Cell Biology Efficient APC/C substrate degradation in cells undergoing mitotic exit depends on K11 ubiquitin linkages Mingwei Min|Tycho Mevissen|Maria De Luca|David Komander|Catherine Lindon University of Cambridge Department of Genetics;|Medical Research Council Laboratory of Molecular Biology
http://dx.doi.org/10.1101/016121 2015-03-06 Evolutionary Biology CC BY-NC A Comparison of Methods to Measure Fitness in Escherichia coli Michael J Wiser|Richard E Lenski Michigan State University
http://dx.doi.org/10.1101/016089 2015-03-06 Bioinformatics CC BY-NC-ND Similarity Estimation Between DNA Sequences Based on Local Pattern Histograms of Binary Images Yusei Kobori|Satoshi Mizuta Graduate School of Science and Technology, Hirosaki University
http://dx.doi.org/10.1101/016030 2015-03-06 Developmental Biology CC BY-NC-ND Nitric oxide regulates growth coordination during regeneration Jacob S. Jaszczak|Jacob B. Wolpe|Anh Q. Dao|Adrian Halme University of Virginia School of Medicine;|University of Virginia
http://dx.doi.org/10.1101/016097 2015-03-06 Genomics Tools and best practices for allelic expression analysis Stephane E Castel|Ami Levy-Moonshine|Pejman Mohammadi|Eric Banks|Tuuli Lappalainen New York Genome Center;|Broad Institute;|New York Genome Center and Columbia University
http://dx.doi.org/10.1101/016105 2015-03-06 Ecology CC BY-NC-ND Detecting Signals of Seasonal Influenza Severity through Age Dynamics Elizabeth C Lee|Cecile Viboud|Lone Simonsen|Farid Khan|Shweta Bansal Georgetown University;|National Institutes of Health;|George Washington University;|IMS Health
http://dx.doi.org/10.1101/016022 2015-03-04 Genomics CC BY-NC-ND Bacterial Infection Remodels the DNA Methylation Landscape of Human Dendritic Cells Alain Pacis|Ludovic Tailleux|John Lambourne|Vania Yotova|Anne Dumaine|Anne Danckaert|Francesca Luca|Jean-Christophe Grenier|Kasper Hansen|Brigitte Gicquel|Miao Yu|Athma Pai|Jenny Tung|Chuan He|Tomi Pastinen|Roger Pique-Regi|Yoav Gilad|Luis Barreiro CHU Sainte-Justine Research Center;|Pasteur Institut;|McGill University;|Wayne State University;|Johns Hopkins Bloomberg School of Public Health;|University of Chicago;|Massachusetts Institute of Technology;|Duke University;|University of Montreal
http://dx.doi.org/10.1101/015974 2015-03-04 Neuroscience CC BY-NC-ND Complexity of dendritic SER increases at enlarging synapses during LTP Michael Chirillo|Jennifer Bourne|Laurence Lindsey|Kristen Harris The University of Texas at Austin;|UC Denver - Anschutz Medical Campus;|Google Seattle
http://dx.doi.org/10.1101/012682 2015-03-04 Genetics Testing for genetic associations in arbitrarily structured populations Minsun Song|Wei Hao|John D. Storey National Cancer Institute, National Institutes of Health;|Princeton University
http://dx.doi.org/10.1101/012740 2015-03-04 Evolutionary Biology CC BY-NC-ND Fitness costs in spatially structured environments Florence Debarre Wissenschaftskolleg zu Berlin
http://dx.doi.org/10.1101/015859 2015-03-04 Bioinformatics Modeling Linkage Disequilibrium Increases Accuracy of Polygenic Risk Scores Bjarni Vilhjalmsson|Jian Yang|Hilary Kiyo Finucane|Alexander Gusev|Sara Lindstrom|Stephan Ripke|Giulio Genovese|Po-Ru Loh|Gaurav Bhatia|Ron Do|Tristian Hayeck|Hong-Hee Won|Schizophrenia Working Group of the Psychiatric Genomics Consortium|the Discovery, Biology, and Risk of Inherited Variants in Breast Cancer (DRIVE) study|Sekar Kathiresan|Michele Pato|Carlos Pato|Rulla Tamimi|Eli Stahl|Noah Zaitlen|Bogdan Pasaniuc|Mikkel Schierup|Phillip De Jager|Nikolaos Patsopoulos|Steven A McCarroll|Mark Daly|Shaun Purcell|Daniel Chasman|Benjamin Neale|Mike Goddard|Peter M Visscher|Peter Kraft|Nick J Patterson|Alkes L Price Bioinformatics Research Centre, Aarhus University;|Queensland Brain Institute, The University of Queensland, Brisbane, Queensland, Australia.;|MIT;|Harvard School of Public Health;|Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT;|Harvard T.H. Chan School of Public Health;|Schizophrenia Working Group of the Psychiatric Genomics Consortium;|the Discovery, Biology, and Risk of Inherited Variants in Breast Cancer (DRIVE) study;|Keck School of Medicine, USC;|Icahn School of Medicine at Mount Sinai;|University of California San Francisco;|University of California Los Angeles;|University of Aarhus;|Brigham & Women's Hospital;|Massachusetts General Hospital and The Broad Institute;|Stanley Center for Psychiatric Research, Broad Institute of MIT;|Division of Preventive Medicine, Brigham and Women's Hospital;|Massachusetts General Hospital;|University of Melbourne;|University of Queensland
http://dx.doi.org/10.1101/015941 2015-03-04 Genetics CC BY-NC-ND Methylation-sensitive expression of a DNA demethylase gene serves as an epigenetic rheostat Ben P Williams|Daniela Pignatta|Steven Henikoff|Mary Gehring Whitehead Institute for Biomedical Research;|Fred Hutchinson Cancer Research Center Seattle
http://dx.doi.org/10.1101/014829 2015-03-03 Evolutionary Biology CC BY-ND Epistasis and Entropy Kristina Crona American University
http://dx.doi.org/10.1101/015867 2015-03-03 Bioinformatics CC BY BamHash: a checksum program for verifying the integrity of sequence data Arna Oskarsdottir|Gisli Masson|Pall Melsted deCODE Genetics/Amgen;|University of Iceland
http://dx.doi.org/10.1101/015966 2015-03-03 Evolutionary Biology The interplay between DNA methylation and sequence divergence in recent human evolution Irene Hernando-Herraez|Holger Heyn|Marcos Fernandez-Callejo|Enrique Vidal|Hugo Fernandez-Bellon|Javier Prado-Martinez|Andrew J Sharp|Manel Esteller|Tomas Marques-Bonet Institute of Evolutionary Biology (UPF-CSIC), PRBB, 08003 Barcelona, Spain.;|Cancer Epigenetics and Biology Program (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), 08;|Centro Nacional de Análisis Genómico (CNAG), Parc Científic de Barcelona, Spain;|Parc Zoològic de Barcelona, Parc de la Ciutadella s/n, Barcelona, Spain;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/015883 2015-03-02 Cancer Biology CC BY-NC-ND A Pan-cancer catalogue of driver protein interaction interfaces Eduard Porta-Pardo|Thomas Hrabe|Adam Godzik Sanford-Burnham Medical Research Institute
http://dx.doi.org/10.1101/015800 2015-03-02 Evolutionary Biology CC BY-NC Speciation in Heliconius Butterflies: Minimal Contact Followed by Millions of Generations of Hybridisation Simon Henry Martin|Anders Eriksson|Krzysztof M. Kozak|Andrea Manica|Chris D. Jiggins University of Cambridge
http://dx.doi.org/10.1101/015891 2015-03-02 Molecular Biology CC BY-NC-ND Identification of novel transcriptional regulators of PKA subunits in Saccharomyces cerevisiae by Quantitative Promoter–Reporter Screening Constanza Maria Pautasso|Katherine Chatfield-Reed|Gordon Chua|Vanina Zaremberg|Silvia Rossi Quíamica Biológica,IQUIBICEN, Facultad de Ciencias Exactas y Naturales, UBA, Argentina;|Department of Biological Sciences, University of Calgary, Calgary, Alberta, Canada;|Quíamica Biológica,IQUIBICEN, Facultad Ciencias Exactas y Naturales, UBA Argentina
http://dx.doi.org/10.1101/015909 2015-03-02 Genomics Distinctive Features of a Saudi Genome Ibrahim B. Alabdulkareem|Anthony J. Robertson|Sami Al Garawi|Mohammed Aljumah|Saeed Al-Turki|Mohammed A Al Balwi King Abdullah International Medical Research Center, Ministry of National Guard Health Affairs;|King Abdullah University of Science and Technology, Jeddah, Kingdom of Saudi Arabia;|King Abdullah International Medical Research Center, Ministry of National Guard Health Affairs;|Department of Pathology and Laboratory Medicine, King Abdulaziz Medical City
http://dx.doi.org/10.1101/015917 2015-03-02 Evolutionary Biology CC BY Selection and explosive growth may hamper the performance of rare variant association tests Lawrence H. Uricchio|John S. Witte|Ryan D. Hernandez UCSF
http://dx.doi.org/10.1101/015818 2015-03-01 Evolutionary Biology CC BY Recent evolution in Rattus norvegicus is shaped by declining effective population size Eva E Deinum|Daniel L Halligan|Rob W Ness|Yao-Hua Zhang|Lin Cong|Jian-Xu Zhang|Peter D Keightley University of Edinburgh;|Chinese Academy of Sciences;|Heilongjiang Academy of Agricultural Sciences,
http://dx.doi.org/10.1101/015826 2015-03-01 Biochemistry CC BY Chemical integration of proteins in signaling and development Jeffrey M. Dick Chiang Mai University
http://dx.doi.org/10.1101/015875 2015-03-01 Genetics Mutation rate estimation for 15 autosomal STR loci in a large population from Mainland China Zhuo Zhao|Hua Wang|Jie Zhang|Zhi-Peng Liu|Ming Liu|Yuan Zhang|Li Sun|Hui Zhang Tianjin Entry-Exit Inspection Quarantine Bureau;|Beijing Entry-Exit Inspection Quarantine Bureau
http://dx.doi.org/10.1101/004192 2015-02-28 Systems Biology CC BY-NC-ND Epigenetic Landscape Models: The Post-Genomic Era Jose Davila-Velderrain|Juan Carlos Martinez-Garcia|Elena R Alvarez-Buylla Universidad Nacional Autonoma de Mexico (UNAM);|Cinvestav-IPN;|Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/015784 2015-02-27 Evolutionary Biology Tandem repeat variation in human and great ape populations and its impact on gene expression divergence Tugce Bilgin Sonay|Tiago Carvalho|Mark Robinson|Maja Greminger|Michael Krutzen|David Comas|Gareth Highnam|David Mittelman|Andrew Sharp|Tomas Marques-Bonet|Andreas Wagner University of Zurich;|Institute of Evolutionary Biology (UPF-CSIC);|Virginia Tech;|Mount Sinai School of Medicine;|institut de Biologia Evolutiva (UPF/CSIC)
http://dx.doi.org/10.1101/015792 2015-02-27 Systems Biology Analog nitrogen sensing in Escherichia coli enables high fidelity information processing Michal Komorowski|Jorg Schumacher|Volker Behrends|Tomasz Jetka|Mark H Bennett|Angelique Ale|Sarah Filippi|John W Pinney|Jake G Bundy|Martin Buck|Michael PH Stumpf Polish Academy of Sciences;|Imperial College London
http://dx.doi.org/10.1101/015750 2015-02-27 Neuroscience A high performing brain-machine interface driven by low-frequency local field potentials alone and together with spikes Sergey D Stavisky|Jonathan C Kao|Paul Nuyujukian|Stephen I Ryu|Krishna V Shenoy Stanford University
http://dx.doi.org/10.1101/015776 2015-02-27 Systems Biology CC BY-NC-ND Sequence-based model of gap gene regulatory network Konstantin N Kozlov|Vitaly V Gursky|Ivan V Kulakovskiy|Maria G Samsonova St.Petersburg Polytechnic University;|Ioffe Physical-Technical Institute;|Engelhardt Institute of Molecular Biology
http://dx.doi.org/10.1101/007765 2015-02-27 Evolutionary Biology Postmating reproductive barriers contribute to the incipient sexual isolation of US and Caribbean Drosophila melanogaster Joyce Y Kao|Seana Lymer|Sea H Hwang|Albert Sung|Sergey V Nuzhdin University of Southern California
http://dx.doi.org/10.1101/015297 2015-02-27 Bioengineering CC BY-NC-ND Peptide sequencing in an electrolytic cell with two nanopores in tandem and exopeptidase G Sampath Unaffiliated
http://dx.doi.org/10.1101/008763 2015-02-26 Bioinformatics CC BY Leveraging transcript quantification for fast computation of alternative splicing profiles Gael P Alamancos|Amadis Pages|Juan L Trincado|Nicolas Bellora|Eduardo Eyras Universitat Pompeu Fabra, Barcelona Spain;|Universitat Pompeu Fabra, Barcelona, Spain;|CONICET-UNComahue, Bariloche, Río Negro, Argentina
http://dx.doi.org/10.1101/015727 2015-02-26 Genetics Phen-Gen: Combining Phenotype and Genotype to Analyze Rare Disorders Asif Javed|Saloni Agrawal|Pauline Ng Genome Institute of Singapore
http://dx.doi.org/10.1101/015719 2015-02-26 Genomics CC BY Protein Domain Hotspots Reveal Functional Mutations across Genes in Cancer Martin L Miller|Ed Reznik|Nicholas P Gauthier|Bulent Arman Aksoy|Anil Korkut|Jianjion Gao|Giovanni Ciriello|Nikolaus Schultz|Chris Sander University of Cambridge;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/015693 2015-02-26 Genomics CC BY-NC-ND Extensive de novo mutation rate variation between individuals and across the genome of Chlamydomonas reinhardtii Rob W Ness|Andrew D Morgan|Radhakrishnan B Vasanthakrishnan|Nick Colegrave|Peter D Keightley University of Edinburgh
http://dx.doi.org/10.1101/015677 2015-02-26 Neuroscience CC BY-NC-ND Restoration of Sp4 in forebrain GABAergic neurons rescues hypersensitivity to ketamine in Sp4 hypomorphic mice Kerin K Higa|Baohu Ji|Mahalah R Buell|Risbrough B Victoria|Susan B Powell|Jared W Young|Mark A Geyer|Xianjin Zhou UCSD;|University of California San Diego
http://dx.doi.org/10.1101/015685 2015-02-26 Evolutionary Biology CC BY-NC-ND Catch me if you can: Adaptation from standing genetic variation to a moving phenotypic optimum Sebastian Matuszewski|Joachim Hermisson|Michael Kopp ??cole polytechnique f??d??ral de Lausanne (EPFL), Switzerland;|University of Vienna, Austria;|Aix-Marseille University, France
http://dx.doi.org/10.1101/014456 2015-02-25 Ecology Disturbance opens recruitment sites for bacterial colonization in activated sludge David Vuono|Junko Munakata Marr|John Spear|Jorg Drewes Colorado School of Mines;|Technical University of Munich
http://dx.doi.org/10.1101/015669 2015-02-24 Bioinformatics Quality assessment for different haplotyping methods and GWAS sensitivity to phasing errors Giovanni Busonera|Marco Cogoni|Gianluigi Zanetti CRS4
http://dx.doi.org/10.1101/015628 2015-02-24 Evolutionary Biology CC BY Risks inherent to mitochondrial replacement Edward H Morrow|Klaus Reinhardt|Jonci N Wolff|Damian K Dowling University of Sussex;|Technische Universitaet Dresden;|Monash University;|damian.dowling@monash.edu
http://dx.doi.org/10.1101/002634 2015-02-24 Ecology CC BY mangal - making ecological network analysis simple Timothee E Poisot|Benjamin Baiser|Jennifer A Dunne|Sonia Kefi|Francois Massol|Nicolas Mouquet|Tamara N Romanuk|Daniel B Stouffer|Spencer A Wood|Dominique Gravel Université du Québec à Rimouski;|U Florida;|Santa Fe Institute;|ISEM;|CNRS;|Dalhousie University;|U. Canterbury;|Idaho State University;|UQAR
http://dx.doi.org/10.1101/011361 2015-02-23 Evolutionary Biology CC BY-ND The developmental transcriptome of contrasting Arctic charr (Salvelinus alpinus) morphs Johannes Gudbrandsson|Ehsan P Ahi|Sigridur R Franzdottir|Kalina H Kapralova|Bjarni K Kristjansson|Sophie S Steinhaeuser|Isak M Johannesson|Valerie H Maier|Sigurdur S Snorrason|Zophonias O Jonsson|Arnar Palsson University of Iceland;|Holar University College
http://dx.doi.org/10.1101/015602 2015-02-23 Genetics CC BY Multiple hypothesis correction is vital and undermines reported mtDNA links to diseases including AIDS, cancer, and Huntingdon's Iain G Johnston Imperial College London
http://dx.doi.org/10.1101/015495 2015-02-23 Plant Biology CC BY-NC Genomic Diversity and Climate Adaptation in Brachypodium Pip B Wilson|Jared Streich|Justin Borevitz ANU
http://dx.doi.org/10.1101/014910 2015-02-23 Evolutionary Biology CC BY Key role of amino acid repeat expansions in the functional diversification of duplicated transcription factors Nuria Rado-Trilla|Krisztina Arato|Cinta Pegueroles|Alicia Raya|Susana de la Luna|M.Mar Alba Hospital del Mar Research Institute (IMIM);|Centre for Genomic Regulation (CRG);|Center for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/015586 2015-02-23 Evolutionary Biology CC BY-NC-ND Fecundity selection theory: concepts and evidence Daniel Pincheira-Donoso|John Hunt University of Lincoln;|University of Exeter
http://dx.doi.org/10.1101/015594 2015-02-23 Neuroscience CC BY-NC-ND The brain of the beholder: honouring individual representational idiosyncrasies Ian Charest|Nikolaus Kriegeskorte MRC - Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/015511 2015-02-22 Bioengineering CC BY-NC-ND Ff-nano, Short Functionalized Nanorods Derived from Ff (f1, fd or M13) Filamentous Bacteriophage Sadia Sattar|Nicholas J Bennett|Wesley Wen|Jenness M Guthrie|Len F Blackwell|James F Conway|Jasna Rakonjac Massey University;|Science Haven, Palmerston North, New Zealand;|University of Pittsburgh
http://dx.doi.org/10.1101/014902 2015-02-20 Evolutionary Biology CC BY-NC-ND Coevolutionary analyses require phylogenetically deep alignments and better null models to accurately detect inter-protein contacts within and between species Aram Avila-Herrera|Katherine Pollard University of California San Francisco;|Gladstone Institutes, UCSF
http://dx.doi.org/10.1101/015578 2015-02-20 Bioinformatics CC BY The In Silico Genotyper (ISG): an open-source pipeline to rapidly identify and annotate nucleotide variants for comparative genomics applications Jason W Sahl|Stephen M Beckstrom-Sternberg|James Babic-Sternberg|John D Gillece|Crystal M Hepp|Raymond K Auerbach|Waibhav Tembe|David M Wagner|Paul S Keim|Talima Pearson Northern Arizona University;|Translational Genomics Research Institute;|Stanford University School of Medicine;|Formerly at Translational Genomics Research Institute
http://dx.doi.org/10.1101/015503 2015-02-20 Bioinformatics CC BY The Use of Distributions in SBML Models Herbert M Sauro|Lucian Smith University of Washington
http://dx.doi.org/10.1101/015529 2015-02-20 Evolutionary Biology CC BY-NC-ND Directional variation in evolution: consequences for the fitness landscape metaphor Philip Gerlee Chalmers University of Technology
http://dx.doi.org/10.1101/015537 2015-02-20 Bioinformatics SHAPE directed RNA folding Dominik Luntzer|Ronny Lorenz|Ivo L Hofacker|Peter F Stadler|Michael T. Wolfinger University of Vienna, Institute for Theoretical Chemistry;|University of Leipzig, Bioinformatics, Department of Computer Science;|University of Vienna, Austria
http://dx.doi.org/10.1101/015446 2015-02-19 Bioinformatics CC BY-ND Differential Evolution Approach to Detect Recent Admixture Konstantin Kozlov|Dmitry Chebotarov|Mehedi Hassan|Petr Triska|Martin Triska|Pavel Flegontov|Tatiana V Tatarinova St.Petersburg State Polytechnical University;|IRRI;|University of South Wales;|Instituto de Patologia e Imunologia Molecular da Universidade do Porto (IPATIMUP);|USC;|University of Ostrava
http://dx.doi.org/10.1101/011957 2015-02-19 Neuroscience CC BY A diffusive homeostatic signal maintains neural heterogeneity and responsiveness in cortical networks Yann Sweeney|Jeanette Hellgren Kotaleski|Matthias H Hennig University of Edinburgh;|Royal Institute of Technology
http://dx.doi.org/10.1101/015479 2015-02-19 Plant Biology CC BY-NC-ND The NLR helper protein NRC3 but not NRC1 is required for Pto-mediated cell death in Nicotiana benthamiana Chih-Hang Wu|Khaoula Belhaj|Tolga O. Bozkurt|Sophien Kamoun The Sainsbury Laboratory
http://dx.doi.org/10.1101/015453 2015-02-19 Ecology Where the elements go when it rains: carbon and nutrient stocks of soil amended with stabilised organic matter. Ee Ling Ng|Cassandra R Schefe|Timothy R Cavagnaro|Antonio F Patti Future Soils;|Riverine Plains Inc.;|University of Adelaide;|Monash University
http://dx.doi.org/10.1101/015370 2015-02-19 Bioinformatics CC BY derfinder: Software for annotation-agnostic RNA-seq differential expression analysis Leonardo Collado Torres|Alyssa C Frazee|Michael I Love|Rafael A Irizarry|Andrew E Jaffe|Jeffrey Leek Johns Hopkins Bloomberg School of Public Health;|Dana-Farber Cancer Institute;|Lieber Institute for Brain Development
http://dx.doi.org/10.1101/009282 2015-02-18 Genomics CC BY Origins and impacts of new exons Jason Merkin*|Ping Chen*|Maria Alexis|Sampsa Hautaniemi|Christopher Burge Novartis Institute for Biomedical Research;|University of Helsinki;|MIT
http://dx.doi.org/10.1101/015412 2015-02-18 Genomics CC BY-NC Systematic discovery and classification of human cell line essential genes Traver Hart|Megha Chandrashekhar|Michael Aregger|Zachary Steinhart|Kevin R Brown|Stephane Angers|Jason Moffat University of Toronto
http://dx.doi.org/10.1101/015396 2015-02-18 Genetics CC BY-NC-ND Genetic evidence for an origin of the Armenians from Bronze Age mixing of multiple populations Marc Haber|Massimo Mezzavilla|Yali Xue|David Comas|Paolo Gasparini|Pierre Zalloua|Chris Tyler-Smith The Wellcome Trust Sanger Institute;|Institut de Biologia Evolutiva (CSIC–UPF);|University of Trieste;|The Lebanese American University
http://dx.doi.org/10.1101/013037 2015-02-17 Genetics CC BY Genetic Analysis of Substrain Divergence in NOD Mice Petr Simecek|Gary A Churchill|Hyuna Yang|Lucy B Rowe|Lieselotte Herberg|David V Serreze|Edward H Leiter The Jackson Laboratory;|AbbVie;|Diabetes Research Institute
http://dx.doi.org/10.1101/014647 2015-02-17 Evolutionary Biology CC BY-NC-ND Harsh environments and "fast" human life histories: What does the theory say? Ryan Baldini UC Davis
http://dx.doi.org/10.1101/015289 2015-02-17 Genetics Different DNA repair pathways are required following excision and integration of the DNA cut & paste transposon piggyBat in Saccharomyces cerevisiae. Weifeng She|Courtney Busch Cambouris|Nancy L. Craig Johns Hopkins University School of Medicine, United States
http://dx.doi.org/10.1101/015321 2015-02-17 Evolutionary Biology CC BY-NC-ND Non-adaptive evolution of the m. palmaris longus in the Homininae. Zach Throckmorton|Nicole Forth|Nathanial Thomas Lincoln Memorial University-DeBusk College of Osteopathic Medicine
http://dx.doi.org/10.1101/015339 2015-02-17 Bioinformatics CC BY-NC-ND Flaw or discovery? Calculating exact p-values for genome-wide association studies in inbred populations Xia Shen Karolinska Institutet
http://dx.doi.org/10.1101/014688 2015-02-16 Paleontology Community stability and selective extinction during Earth's greatest mass extinction Peter D Roopnarine|Kenneth D Angielczyk California Academy of Sciences;|Field Museum of Natural History
http://dx.doi.org/10.1101/015198 2015-02-16 Neuroscience Spike sorting for large, dense electrode arrays Cyrille Rossant|Shabnam N Kadir|Dan F. M. Goodman|John Schulman|Mariano Belluscio|Gyorgy Buzsaki|Kenneth D. Harris UCL;|Imperial College London;|UC Berkeley;|NYU
http://dx.doi.org/10.1101/015222 2015-02-15 Bioinformatics CC BY A GENE FEATURE ENUMERATION APPROACH FOR DESCRIBING HLA ALLELE POLYMORPHISM Steven J. Mack Children's Hospital Oakland Research Institute
http://dx.doi.org/10.1101/015172 2015-02-13 Evolutionary Biology CC BY Selection constrains phenotypic evolution in a functionally important plant trait Christopher D Muir University of British Columbia
http://dx.doi.org/10.1101/013011 2015-02-13 Bioinformatics ViennaNGS: A toolbox for building efficient next-generation sequencing analysis pipelines Michael T. Wolfinger|Jorg Fallmann|Florian Eggenhofer|Fabian Amman University of Vienna, Austria
http://dx.doi.org/10.1101/014894 2015-02-11 Genomics A pan-cancer signature of neutral tumor evolution Andrea Sottoriva|Trevor Graham The Institute of Cancer Research;|Barts Cancer Institute
http://dx.doi.org/10.1101/015123 2015-02-11 Genetics Effect of E-Cadherin (CDH1) -160C/A polymorphism on prostate cancer risk: a meta-analysis Bo Yang|Yi He|Xiaofei Wen|Hui Liu|Guoqiang Liao|Feng Liu|Weifeng Wang|Jidong Hao|Jun Ouyang Shanghai Zhoupu Hospital, China;|Jiaxing No.1 Hospital, China;|Shanghai East Hospital affiliated to Tongji University, China;|Suzhou No.1 Hospital affiliated to Suzhou University, China
http://dx.doi.org/10.1101/015149 2015-02-11 Bioinformatics CC BY-NC-ND Learning Immune-Defectives Graph through Group Tests Abhinav Ganesan|Sidharth Jaggi|Venkatesh Saligrama The Chinese University of Hong Kong;|Boston University
http://dx.doi.org/10.1101/015115 2015-02-11 Immunology Inferring processes underlying B-cell repertoire diversity. Yuval Elhanati|Zachary Sethna|Quentin Marcou|Curtis G Callan|Thierry Mora|Aleksandra M Walczak Ecole normale supérieure;|Princeton University
http://dx.doi.org/10.1101/015131 2015-02-11 Biochemistry CC BY The experimental determination of redox-potential of mutated cytochrome c with eight charge changing substitutions Vasily Ptushenko|Rita V Chertkova A.N.Belozersky Institute of Physico-Chemical Biology, M.V. Lomonosov Moscow State University;|Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences
http://dx.doi.org/10.1101/013433 2015-02-10 Genetics CC BY-NC-ND Massive migration from the steppe is a source for Indo-European languages in Europe Wolfgang Haak|Iosif Lazaridis|Nick Patterson|Nadin Rohland|Swapan Mallick|Bastien Llamas|Guido Brandt|Susanne Nordenfelt|Eadaoin Harney|Kristin Stewardson|Qiaomei Fu|Alissa Mittnik|Eszter Banffy|Christos Economou|Michael Francken|Susanne Friederich|Rafael Garrido Pena|Fredrik Hallgren|Valery Khartanovich|Aleksandr Khokhlov|Michael Kunst|Pavel Kuznetsov|Harald Meller|Oleg Mochalov|Vayacheslav Moiseyev|Nicole Nicklisch|Sandra L. Pichler|Roberto Risch|Manuel A. Rojo Guerra|Christina Roth|Anna Szecsenyi-Nagy|Joachim Wahl|Matthias Meyer|Johannes Krause|Dorcas Brown|David Anthony|Alan Cooper|Kurt Werner Alt|David Reich Australian Centre for Ancient DNA, University of Adelaide;|Department of Genetics, Harvard Medical School, Boston, MA;|Broad Institute of Harvard and MIT, Cambridge, MA;|Institute of Anthropology, Johannes Gutenberg University of Mainz;|Institute for Archaeological Sciences, University of Tübingen, Tübingen, 72074, Germany;|Institute of Archaeology, Research Centre for the Humanities, Hungarian Academy of Science;|Archaeological Research Laboratory, Stockholm University, 114 18, Sweden;|Department of Paleoanthropology, University of Tubingen, Tubingen, D-72070, Germany;|State Office for Heritage Management and Archaeology Saxony-Anhalt and State Heritage Museum;|Departamento de Prehistoria y Arqueologia, Universidad Autonoma de Madrid, E-28049 Madrid, Spain;|The Cultural Heritage Foundation, Västerås, 722 12, Sweden;|Peter the Great Museum of Anthropology and Ethnography (Kunstkamera) RAS, St. Petersburg, Russia;|Volga State Academy of Social Sciences and Humanities, 443099 Russia, Samara, M. Gor'kogo, 65/67;|Deutsches Archaeologisches Institut, E-28002 Madrid, Spain;|Institute for Prehistory and Archaeological Science, University of Basel, CH-4003 Basel, Switzerland;|Departamento de Prehistòria, Universitat Autonoma de Barcelona, E-08193 Barcelona, Spain;|Departamento de Prehistòria y Arqueolgia, Universidad de Valladolid, E-47002 Valladolid, Spain;|State Office for Cultural Heritage Management Baden-Wurttemberg, Osteology, Konstanz, Germany;|Max Planck Institute for Evolutionary Anthropology, Leipzig, 04103, Germany;|Anthropology Department, Hartwick College, Oneonta, NY;|Institute of Anthropology, Johannes Gutenberg University of Mainz, D-55128 Mainz, Germany;|Department of Genetics, Harvard Medical School, Boston, MA, 02115, USA
http://dx.doi.org/10.1101/015065 2015-02-10 Genetics CC BY-NC-ND Novel bioinformatics approach to investigate quantitative phenotype-genotype associations in neuroimaging studies Sejal Patel|Min Tae M Park|Mallar M Chakravarty|Jo Knight Campbell Family Mental Health Research Institute, Centre for Addiction and Mental Health;|Cerebral Imaging Centre, Douglas Mental Health University Institute, McGill University
http://dx.doi.org/10.1101/015099 2015-02-10 Genomics Uncovering Long Palindromic Sequences in Rice (Oryza sativa subsp. indica) Genome Asadollah Ahmadikhah|Elmira Katanchi Kheiavi|Ali Mohammadian Mosammam Shahid Beheshti University;|University of Zanjan
http://dx.doi.org/10.1101/007542 2015-02-10 Evolutionary Biology CC BY-NC-ND Exploiting evolutionary non-commutativity to prevent the emergence of bacterial antibiotic resistance Daniel Nichol|Peter Jeavons|Alexander G Fletcher|Robert A Bonomo|Philip K Maini|Jerome L Paul|Robert A Gatenby|Alexander RA Anderson|Jacob G Scott University of Oxford, Department of Computer Science;|University of Oxford, Mathematical Institute;|Louis Stokes Cleveland Department of Veteran Affairs Medical Center;|University of Cincinnati;|H. Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/015057 2015-02-09 Neuroscience Can rodents conceive hyperbolic spaces? Eugenio Urdapilleta|Francesca Troiani|Federico Stella|Alessandro Treves Limbo - SISSA : via Bonomea 265, 34136 Trieste, Italy
http://dx.doi.org/10.1101/015040 2015-02-09 Neuroscience CC BY Decoding of human hand actions to handle missing limbs in Neuroprosthetics Jovana Belic|Aldo Faisal Royal Institute of Technology;|Imperial College London
http://dx.doi.org/10.1101/015016 2015-02-08 Bioinformatics Relationship between tumor grade and geometrical complexity in prostate cancer Jose Llanos Perez|Eduardo Tejera Puente|Elena Izquierdo Kulich|Juvencio A Betancourt MAr|Manuel Nistal|Pilar Gonzalez Peramato|Mar Royuela Garcia|Jose Manuel Nieto Villar|Maria De Miguel Mexican Institute Of Complex Systems;|Universidad de las Américas;|University of Havana;|Mexican Institute of Complex Systems;|La Paz Hospital Research Institute;|University of Alcalá
http://dx.doi.org/10.1101/014662 2015-02-07 Bioinformatics CC BY-NC Assembly by Reduced Complexity (ARC): a hybrid approach for targeted assembly of homologous sequences. Samual S Hunter|Robert T Lyon|Brice A.J. Sarver|Kayla Hardwick|Larry J Forney|Matthew L Settles University of Idaho;|Washington State University;|University of Montana
http://dx.doi.org/10.1101/011189 2015-02-07 Biophysics Phase transitions in tumor growth: II prostate cancer cell lines Jose Llanos Perez|Juvencio A Betancourt Mar|Maria P De Miguel|Elena Izquierdo Kulich|Mar Royuela Garcia|Eduardo Tejera|Jose M Nieto Villar Mexican Institute of Complex Systems;|La Paz Hospital Research Institute;|University of Havana;|University of Alcalá;|Universidad de las Américas
http://dx.doi.org/10.1101/015008 2015-02-07 Genomics CC BY iCAGES: integrated CAncer GEnome Score for comprehensively prioritizing cancer driver genes in personal genomes Chengliang Dong|Hui Yang|Zeyu He|Xiaoming Liu|Kai Wang University of Southern California;|New York University;|The University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/014993 2015-02-07 Genomics CC BY Optimal Haplotype Assembly from High-Throughput Mate-Pair Reads Govinda M Kamath|Eren Sasoglu|David Tse Stanford University;|University of California, Berkeley
http://dx.doi.org/10.1101/014944 2015-02-06 Evolutionary Biology Mitochondrial Genomes of Giant Deers Suggest their Late Survival in Central Europe Alexander Immel|Dorothee G. Drucker|Tina K. Jahnke|Susanne C. Munzel|Verena J. Schuenemann|Marion Bonazzi|Alexander Herbig|Claus-Joachim Kind|Johannes Krause University of Tübingen, Institute for Achaeological Sciences;|Department of Geosciences, Palaeobiology, University of Tübingen, Tübingen, Germany;|State Office for Cultural Heritage Baden-Wuerttemberg, 73728 Esslingen, Germany;|Institute for Archaeological Sciences, Archaeozoology, University Tübingen, Tübingen, Ger;|Institute for Archaeological Sciences, University of Tübingen, Tübingen, Germany;|Institute of Clinical Molecular Biology, Kiel University, Kiel, Germany;|Institute for Archaeological Sciences, University of Tübingen, Tübingen
http://dx.doi.org/10.1101/014951 2015-02-06 Bioinformatics CC BY Histoimmunogenetics Markup Language 1.0: Reporting Next Generation Sequencing-based HLA and KIR Genotyping Robert P Milius|Michael Heuer|Daniel Valiga|Kathryn J Doroschak|Caleb J. Kennedy|Yung-Tsi Bolon|Joel Schneider|Jane Pollack|Hwa Ran Kim|Nezih Cereb|Jill A Hollenbach|Steven J Mack|Martin Maiers National Marrow Donor Program;|HistoGenetics, LLC;|University of California–San Francisco;|Children's Hospital & Research Center Oakland
http://dx.doi.org/10.1101/014985 2015-02-06 Genomics Improving access to endogenous DNA in ancient bones and teeth Peter de Barros Damgaard|Ashot Margaryan|Hannes Schroeder|Ludovic Orlando|Eske Willerslev|Morten E Allentoft Centre for GeoGenetics, Natural History Museum, University of Copenhagen;|Centre for GeoGenetics, University of Copenhagen & Faculty of Archaeology, L
http://dx.doi.org/10.1101/014928 2015-02-05 Genomics CC BY-NC-ND Evolution of selenophosphate synthetases: emergence and relocation of function through independent duplications and recurrent subfunctionalization Marco Mariotti|Didac Santesmasses|Salvador Capella-Gutierrez|Andrea Mateo|Carme Arnan|Rory Johnson|Salvatore D'Aniello|Sun Hee Yim|Vadim N Gladyshev|Florenci Serras|Montserrat Corominas|Toni Gabaldon|Roderic Guigo CRG;|Universitat de Barcelona;|Stazione Zoologica Anton Dohrn;|Harvard Medical School
http://dx.doi.org/10.1101/010314 2015-02-05 Genomics CC BY-NC-ND Recent evolution of the mutation rate and spectrum in Europeans Kelley Harris UC Berkeley
http://dx.doi.org/10.1101/014589 2015-02-04 Cancer Biology CC BY-NC-ND Dynamics of preventive and reactive cancer control using low-impact treatments Andrei R. R. Akhmetzhanov|Michael E. Hochberg Universit? Montpellier II
http://dx.doi.org/10.1101/014886 2015-02-04 Genomics CC BY-NC-ND A Pleiotropy-Informed Bayesian False Discovery Rate adapted to a Shared Control Design Finds New Disease Associations From GWAS Summary Statistics James Liley|Chris Wallace University of Cambridge
http://dx.doi.org/10.1101/014837 2015-02-04 Evolutionary Biology CC BY Natural Selection Shapes the Mosaic Ancestry of the Drosophila Genetic Reference Panel and the D. melanogaster Reference Genome John E Pool University of Wisconsin-Madison
http://dx.doi.org/10.1101/014720 2015-02-04 Neuroscience CC BY-NC A literature-based meta-analysis of brain-wide electrophysiological diversity Shreejoy J Tripathy|Shawn D Burton|Matthew Geramita|Richard C Gerkin|Nathaniel N Urban University of British Columbia;|Carnegie Mellon University;|University of Pittsburgh;|Arizona State University
http://dx.doi.org/10.1101/014100 2015-02-04 Genetics Integrating crop growth models with whole genome prediction through approximate Bayesian computation Frank Technow|Carlos D. Messina|L. Radu Totir|Mark Cooper DuPont Pioneer
http://dx.doi.org/10.1101/014845 2015-02-04 Genomics CC BY-ND Global determinants of mRNA degradation rates in Saccharomyces cerevisiae Benjamin Neymotin|Victoria Ettorre|David Gresham NYU
http://dx.doi.org/10.1101/014696 2015-02-03 Cancer Biology CC BY-NC-ND A Hydrodynamic Approach To Cancer Alexander Pinkowski|Walter Lilienblum University of Karslruhe, Germany, former research scientist;|University of Magdeburg, Germany, Professor emeritus
http://dx.doi.org/10.1101/014787 2015-02-03 Systems Biology CC BY-NC-ND A mechanistic link between cellular trade-offs, gene expression and growth Andrea Y. Weisse|Diego A. Oyarzun|Vincent Danos|Peter S. Swain University of Edinburgh;|Imperial College London
http://dx.doi.org/10.1101/014811 2015-02-03 Evolutionary Biology CC BY Molecular evolutionary consequences of island colonisation Jennifer James|Robert Lanfear|Adam Eyre-Walker University of Sussex;|1. Macquarie University, 2. The Australian National University, Canberra
http://dx.doi.org/10.1101/014779 2015-02-03 Ecology CC BY-NC-ND Difference in the impacts of the neonicotinoid dinotefuran administered through sugar syrup from that through pollen paste on a honeybee colony in the long-term field experiment Toshiro Yamada|Yasuhiro Yamada|Kazuko Yamada Kanazawa University;|University of Tokyo;|Shika Bee Farm
http://dx.doi.org/10.1101/014795 2015-02-03 Ecology CC BY-NC-ND Long-term field experiment on the impacts of the neonicotinoid dinotefuran and the organophosphate fenitrothion on a honeybee colony Toshiro Yamada|Yasuhiro Yamada|Kazuko Yamada Kanazawa University;|University of Tokyo;|Shika Bee Farm
http://dx.doi.org/10.1101/014738 2015-02-03 Biophysics CC BY-NC-ND Side-chain-directed model and map validation for 3D Electron Cryomicroscopy Benjamin A Barad|Nathaniel Echols|Ray Yu-Ruei Wang|Yifan Cheng|Frank DiMaio|Paul D Adams|James S Fraser UCSF;|LBL;|University of Washington;|UW
http://dx.doi.org/10.1101/014639 2015-02-02 Genetics CC BY-NC-ND Transition densities and sample frequency spectra of diffusion processes with selection and variable population size Daniel Zivkovic|Matthias Steinrucken|Yun S. Song|Wolfgang Stephan LMU Munich;|University of California, Berkeley
http://dx.doi.org/10.1101/014019 2015-02-02 Bioinformatics PDMQ - Protein Digestion Multi Query software tool to perform in silico digestion of protein/peptide sequences Reka Haraszi|Csongor Tasi|Angela Juhasz|Szabolcs Makai independent consultant;|Agricultural Institute, Centre for Agricultural Research, Hungarian Academy of Sciences
http://dx.doi.org/10.1101/014365 2015-02-02 Systems Biology CC BY-NC DeDaL: Cytoscape 3.0 app for producing and morphing data-driven and structure-driven network layouts Urszula Czerwinska|Laurence Calzone|Emmanuel Barillot|Andrei Zinovyev Institut Curie;|Insitut Curie
http://dx.doi.org/10.1101/014654 2015-02-02 Bioinformatics CC BY-NC SWORD - a highly efficient protein database search Robert Vaser|Dario Pavlovic|Matija Korpar|Mile Sikic University of Zagreb, Faculty of Electrical Engineering and Computing;|Microblink Ltd
http://dx.doi.org/10.1101/014704 2015-02-02 Biophysics Quantifying transport in crowded biochemical environments Ruth E Baker|Matthew J Simpson University of Oxford;|Queensland Univeristy of Technology
http://dx.doi.org/10.1101/011106 2015-02-01 Evolutionary Biology CC BY The genetic architecture of local adaptation I: The genomic landscape of foxtail pine (Pinus balfouriana Grev. & Balf.) as revealed from a high-density linkage map Christopher J Friedline|Brandon M Lind|Erin M Hobson|Douglas E Harwood|Annette Delfino Mix|Patricia E Maloney|Andrew J Eckert Virginia Commonwealth University;|USDA Pacific Southwest Research Station;|University of California, Davis
http://dx.doi.org/10.1101/013730 2015-01-31 Neuroscience Simultaneous Monitoring of Behavior & Peripheral Clocks in Drosophila Reveals Unstructured Sleep in an Alzheimer's Model Eleonora Khabirova|Ko-Fan Chen|John S O'Neill|Damian C Crowther Department of Genetics, University of Cambridge;|Cell Biology Division, MRC Laboratory of Molecular Biology;|Neuroscience iMED, MedImmune Limited
http://dx.doi.org/10.1101/014605 2015-01-30 Ecology CC BY Multi-trait eco-evolutionary dynamics explain niche diversity and evolved neutrality in forests Daniel S Falster|Ake Brannstrom|Mark Westoby|Ulf Dieckmann Macquarie University, Australia;|Umeå University, Sweden;|International Institute for Applied Systems Analysis, Austria
http://dx.doi.org/10.1101/007906 2015-01-30 Bioinformatics Gene regulatory network inference from perturbed time-series expression data via ordered dynamical expansion of non-steady state actors Mahdi Zamanighomi|Mostafa Zamanian|Michael J Kimber|Zhengdao Wang Iowa State University;|Northwestern University
http://dx.doi.org/10.1101/014613 2015-01-30 Evolutionary Biology CC BY-NC-ND An exon-capture system for the entire class Ophiuroidea Andrew Forrest Hugall|Timothy D O'Hara|Sumitha Hunjan|Roger Nilsen|Adnan Moussalli Museum Victoria;|University of Georgia
http://dx.doi.org/10.1101/007831 2015-01-30 Systems Biology CC BY Branching and oscillations in the epigenetic landscape of cell-fate determination Jomar Fajardo Rabajante|Ariel Lagdameo Babierra University of the Philippines
http://dx.doi.org/10.1101/004416 2015-01-29 Evolutionary Biology CC BY-NC-ND The Evolution of Power and the Divergence of Cooperative Norms Michael D Makowsky|Paul E Smaldino Johns Hopkins University;|University of California, Davis
http://dx.doi.org/10.1101/014563 2015-01-29 Neuroscience PREDICTABILITY OF AUTISM, SCHIZOPHRENIC AND OBSESSIVE SPECTRA DIAGNOSIS. TOWARD A DAMAGE NETWORK APPROACH Franco Cauda|Tommaso Costa|Luciamo Fava|Sara Palermo|Francesca Bianco|Sergio Duca|Giuliano Geminiani|Karina Tatu|Roberto Keller University of Turin;|Universita Piemonte Orientale;|ADULT AUTISM CENTER, ASL TO2, TURIN, ITALY;|GCS-fMRI
http://dx.doi.org/10.1101/014571 2015-01-29 Genetics CC BY-NC Permutation Testing in the Presence of Polygenic Variation Mark Abney University of Chicago
http://dx.doi.org/10.1101/011536 2015-01-29 Physiology CC BY The conversion of systolic volume into systolic pressure (the development of numerical model) Yuri Kamnev private initiative
http://dx.doi.org/10.1101/014548 2015-01-29 Neuroscience Modulating pathological oscillations by rhythmic non-invasive brain stimulation – a therapeutic concept? Lutz A Krawinkel|Andreas K Engel|Friedhelm C Hummel Department of Neurology, University Medical Center Hamburg-Eppendorf;|Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/014522 2015-01-29 Molecular Biology A unique HMG-box domain of mouse Maelstrom binds structured RNA but not double stranded DNA Pavol Genzor|Alex Bortvin Department of Embryology, Carnegie Institution for Science;|Dept. of Embryology, Carnegie Institution for Science
http://dx.doi.org/10.1101/014530 2015-01-29 Genomics Mediated pleiotropy between psychiatric disorders and autoimmune disorders revealed by integrative analysis of multiple GWAS Qian Wang|Can Yang|Joel Gelernter|Hongyu Zhao Yale Univeristy;|Hong Kong Baptist University;|Yale University
http://dx.doi.org/10.1101/014514 2015-01-28 Neuroscience CC BY-NC-ND Generators and connectivity of the early auditory evoked gamma band response. Nenad Polomac|Gregor Leicht|Guido Nolte|Christina Andreou|Till R. Schneider|Saskia Steinmann|Andreas K. Engel|Christoph Mulert University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/014423 2015-01-27 Neuroscience Large-scale cortical synchronization promotes multisensory processing: An EEG study of visual-tactile pattern matching Peng Wang|Florian Goschl|Uwe Friese|Peter Konig|Andreas K. Engel University Medical Center Hamburg-Eppendorf;|University Medical Center Hamburg-Eppendorf, University of Osnabrück
http://dx.doi.org/10.1101/014472 2015-01-27 Bioinformatics Sincell: Bioconductor package for the statistical assessment of cell-state hierarchies from single-cell RNA-seq data Miguel Julia|Amalio Telenti|Antonio Rausell Vital-IT group, SIB Swiss Institute of Bioinformatics;|J Craig Venter Institute
http://dx.doi.org/10.1101/005660 2015-01-27 Neuroscience Practopoiesis: Or how life fosters a mind Danko Nikolic Max Planck Institute for Brain Research
http://dx.doi.org/10.1101/011940 2015-01-27 Bioinformatics CC BY-NC-ND Alignment by numbers: sequence assembly using compressed numerical representations Avraam Tapinos|Bede Constantinides|Douglas B Kell|David L Robertson University of Manchester
http://dx.doi.org/10.1101/013581 2015-01-27 Biochemistry CC BY-NC-ND Homology- and coevolution-consistent structural models of bacterial copper-tolerance protein CopM support a ?metal sponge? function and suggest regions for metal-dependent protein-protein interactions Luciano A Abriata ?cole Polytechnique F?d?rale de Lausanne
http://dx.doi.org/10.1101/014480 2015-01-27 Evolutionary Biology CC BY-NC-ND Ebola virus is evolving but not changing: no evidence for functional change in EBOV from 1976 to the 2014 outbreak Abayomi S Olabode|Xiaowei Jiang|David L Robertson|Simon C Lovell University of Manchester;|University of Cambridge
http://dx.doi.org/10.1101/014449 2015-01-27 Biophysics A population density and moment-based approach to modeling domain Ca-mediated inactivation of L-type Ca channels Xiao Wang|Kiah Hardcastle|Seth H Weinberg|Gregory D Smith The College of William & Mary;|The College of William and Mary
http://dx.doi.org/10.1101/014431 2015-01-27 Cell Biology Ca-activation kinetics modulate successive puff/spark amplitude, duration and inter-event-interval correlations in a Langevin model of stochastic Ca release Xiao Wang|Yan Hao|Seth H Weinberg|Gregory D Smith The College of William & Mary;|The College of William and Mary
http://dx.doi.org/10.1101/014464 2015-01-27 Evolutionary Biology CC BY-NC-ND A Single Gene Causes an Interspecific Difference in Pigmentation in Drosophila Yasir H. Ahmed-Braimah|Andrea L. Sweigart University of Rochester, United States;|University of Georgia, United States
http://dx.doi.org/10.1101/013169 2015-01-26 Physiology CC BY-NC-ND Umbilical cord occlusions in near-term ovine fetus induce increased beat-to-beat heart rate variability correlating to decreases in neuroinflammation: a case for the afferent cholinergic anti-inflammatory pathway? Martin G Frasch|Mark Szynkaruk|Andrew P Prout|Karen Nygard|Ruud Veldhuizen|Robert Hammond|Bryan S Richardson Universite de Montreal;|Dept. of Obstetrics and Gynaecology, Lawson Health Research Institute;|Microscopy Imaging@Biotron, University of Western Ontario;|Dept. of Physiology and Pharmacology, University of Western Ontario, London, ON, Canada;|Dept. Of Pathology, University of Western Ontario, London, ON, Canada;|Dept. of Obstetrics and Gynaecology, Lawson Health Research Institute, and Dept. of Physiology and P
http://dx.doi.org/10.1101/014357 2015-01-26 Animal Behavior and Cognition CC BY-NC-ND Large-scale assessment of olfactory preferences and learning in Drosophila melanogaster: behavioral and genetic measures Elisabetta Versace|Julia Katharina Reisenberger Institut fùr Populationsgenetik, Vetmeduni, Vienna, Austria
http://dx.doi.org/10.1101/014381 2015-01-26 Evolutionary Biology Evolution of Conditional Cooperativity Between HOXA11 and FOXO1 Through Allosteric Regulation Mauris C. Nnamani|Soumya Ganguly|Vincent J. Lynch|Laura S. Mizoue|Yingchun Tong|Heather Darling|Monika Fuxreiter|Jens Meiler|Gunter P. Wagner Yale University;|Vanderbilt University;|University of Chicago;|University of Colorado Boulder;|University of Debrecen
http://dx.doi.org/10.1101/014399 2015-01-26 Bioinformatics CC BY Do Read Errors Matter for Genome Assembly? Ilan Shomorony|Thomas Courtade|David Tse UC Berkeley;|Stanford University
http://dx.doi.org/10.1101/014373 2015-01-26 Neuroscience Intrinsic coupling modes reveal the functional architecture of cortico-tectal networks Iain Stitt|Edgar Galindo-Leon|Florian Pieper|Gerhard Engler|Eva Fiedler|Thomas Stieglitz|Andreas K Engel Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf, 2024;|Department of Microsystems Engineering, University of Freiburg, 79110 Freiburg, Germany
http://dx.doi.org/10.1101/014290 2015-01-26 Genetics CC BY Genetics of intra-species variation in avoidance behavior induced by a thermal stimulus in C. elegans Rajarshi Ghosh|Joshua S Bloom|Aylia Mohammadi|Molly E Schumer|Peter Andolfatto|William S Ryu|Leonid Kruglyak Baylor College of Medicine;|UCLA;|University of Toronto;|Princeton University
http://dx.doi.org/10.1101/014316 2015-01-24 Animal Behavior and Cognition CC BY-NC-ND Retrieval-extinction within the memory reconsolidation window does not influence appetitive choice Akram Bakkour|Tom Schonberg|Ashleigh Hover|Russell Poldrack University of Texas at Austin
http://dx.doi.org/10.1101/014340 2015-01-24 Evolutionary Biology CC BY Bayesian priors for tree calibration: Evaluating two new approaches based on fossil intervals Ryan W Norris|Cory L Strope|David M McCandlish|Arlin Stoltzfus Ohio State University, Lima;|North Carolina State University;|University of Pennsylvania;|National Institute of Standards and Technology
http://dx.doi.org/10.1101/014225 2015-01-24 Evolutionary Biology CC BY Cryptic and not-so-cryptic species in the complex Holothuria (Thymiosycia) impatiens (Forsskål, 1775) (Echinodermata: Holothuroidea) Francois Michonneau Florida Museum of Natural History, University of Florida
http://dx.doi.org/10.1101/014241 2015-01-23 Genetics CC BY-ND Partitioning heritability by functional category using GWAS summary statistics Hilary Kiyo Finucane|Brendan Bulik-Sullivan|Alexander Gusev|Gosia Trynka|Yakir Reshef|Po-Ru Loh|Verneri Anttilla|Han Xu|Chongzhi Zang|Kyle Farh|Stephan Ripke|Felix Day|ReproGen Consortium|Schizophrenia Working Group of the Psychiatric Genetics Consortium|RACI Consortium|Shaun Purcell|Eli Stahl|Sara Lindstrom|John R.B. Perry|Yukinori Okada|Soumya Raychaudhuri|Mark Daly|Nick Patterson|Benjamin M. Neale|Alkes L. Price Massachusetts Institute of Technology;|Broad Institute of Harvard and MIT;|Harvard T.H. Chan School of Public Health;|Brigham and Women's Hospital;|Harvard School of Engineering and Applied Sciences;|The Broad Institute of Harvard and MIT;|Dana-Farber Cancer Institute;|University of Cambridge School of Clinical Medicine;|NA;|Mount Sinai School of Medicine;|Tokyo Medical and Dental University
http://dx.doi.org/10.1101/014274 2015-01-23 Bioinformatics CC BY Linked annotations: a middle ground for manual curation of biomedical databases and text corpora Tatyana Goldberg|Shrikant Vinchurkar|Juan Miguel Cejuela|Lars Juhl Jensen|Burkhard Rost Technical University of Munich;|University of Copenhagen
http://dx.doi.org/10.1101/014258 2015-01-23 Bioinformatics CC BY Segmentation of Noisy Signals Generated By a Nanopore Jacob Matthew Schreiber|Kevin Karplus University of Washington;|University of California, Santa Cruz
http://dx.doi.org/10.1101/014282 2015-01-23 Evolutionary Biology CC BY More than meets the eye: diversity and geographic patterns in sea cucumbers Francois Michonneau|Sarah McPherson|P. Mark O'Loughlin|Gustav Paulay Florida Museum of Natural History, University of Florida;|Florida Museum of Natural History;|Museum Victoria
http://dx.doi.org/10.1101/014233 2015-01-23 Cancer Biology CC BY-NC-ND Edge effects in game theoretic dynamics of spatially structured tumours Artem Kaznatcheev|Jacob G Scott|David Basanta H. Lee Moffitt Cancer Center and Research Institute;|H. Lee Moffitt Cancer Center and Research Institute and University of Oxford
http://dx.doi.org/10.1101/013698 2015-01-23 Bioinformatics CC BY-NC-ND JAFFA: High sensitivity transcriptome-focused fusion gene detection. Nadia M Davidson|Ian J Majewski|Alicia Oshlack Murdoch Childrens Research Insitute;|The Walter and Eliza Hall Institute;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/011692 2015-01-23 Evolutionary Biology CC BY-NC-ND Tissue-specific evolution of protein coding genes in human and mouse Nadezda Kryuchkova-Mostacci|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/014167 2015-01-23 Molecular Biology CC BY-NC Folding of Aquaporin 1: Multiple evidence that helix 3 can shift out of the membrane core Minttu T Virkki|Nitin Agrawal|Elin Edsbacker|Susana Cristobal|Arne Elofsson|Anni Kauko Stockholm University;|Turku University;|Linköping University;|Department of Biosciences, Biochemistry, Åbo Akademi, FI-20520 Turku, Finland
http://dx.doi.org/10.1101/014175 2015-01-23 Molecular Biology CC BY-NC The positive inside rule is stronger when followed by a transmembrane helix. Minttu T Virkki|Christoph Peters|Daniel Nilsson|Therese Sorensen|Susana Cristobal|Bjorn Wallner|Arne Elofsson Stockholm University;|Linköping University
http://dx.doi.org/10.1101/014001 2015-01-22 Genetics Ancestry specific association mapping in admixed populations Line Skotte|Thorfinn Sand S Korneliussen|Ida Moltke|Anders Albrechtsen University of Copenhagen;|University of Chicago;|Copenhagen University
http://dx.doi.org/10.1101/014142 2015-01-22 Systems Biology CC BY-NC-ND Revisiting Demand Rules for Gene Regulation Mahendra K. Prajapat|Kirti Jain|Debika Choudhury|Gauri S. Choudhary|Supreet Saini Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/014118 2015-01-22 Microbiology CC BY-NC-ND Genome specialization and decay of the strangles pathogen, Streptococcus equi, is driven by persistent infection Simon R Harris|Carl Robinson|Karen F Steward|Katy S Webb|Romain Paillot|Julian Parkhill|Matthew T G Holden|Andrew S Waller Wellcome Trust Sanger Institute;|Animal Health Trust;|University of St. Andrew
http://dx.doi.org/10.1101/014134 2015-01-22 Neuroscience CC BY-NC Building the Ferretome Dmitrii I Sukhinin|Andreas K Engel|Paul Manger|Claus C Hilgetag University Medical Center Hamburg-Eppendorf;|University of the Witwatersrand
http://dx.doi.org/10.1101/014159 2015-01-22 Neuroscience CC BY-NC-ND Resting state MEG oscillations show long-range temporal correlations of phase synchrony that break down during finger-tapping Maria Botcharova|Luc Berthouze|Matthew J Brookes|Gareth R Barnes|Simon F Farmer University College London, UK;|University of Sussex, UK;|University of Nottingham, UK
http://dx.doi.org/10.1101/014126 2015-01-22 Bioinformatics CC BY-NC-ND Alternative splicing QTLs in European and African populations using Altrans, a novel method for splice junction quantification Halit Ongen|Emmanouil T Dermitzakis University of Geneva, Geneva Medical School
http://dx.doi.org/10.1101/014076 2015-01-22 Bioinformatics CC BY-NC-ND Reproducibility Of Parameter Learning With Missing Observations in Naive Wnt Bayesian Network Trained on Normal/Adenomas Samples and Doxycycline Treated LS174T Cell Lines Shriprakash Sinha -
http://dx.doi.org/10.1101/014050 2015-01-21 Genetics CC BY A variant in TAF1 is associated with a new syndrome with severe intellectual disability and characteristic dysmorphic features Jason O'Rawe|Yiyang Wu|Alan Rope|Laura T. Jimenez Barron|Jeffrey Swensen|Han Fang|David Mittelman|Gareth Highnam|Reid Robison|Edward Yang|Kai Wang|Gholson Lyon Cold Spring Harbor Laboratory;|Department of Medical Genetics, Northwest Kaiser Permanente, Portland, OR, USA;|Caris Life Sciences, Phoenix, Arizona, USA;|Gene by Gene, Ltd., Houston, TX, USA;|Utah Foundation for Biomedical Research, Salt Lake City, UT, USA;|Department of Radiology, Boston Children's Hospital, Boston, MA, USA;|Zilkha Neurogenetic Institute, Department of Psychiatry and Preventive Medicine, University of South;|CSHL
http://dx.doi.org/10.1101/014068 2015-01-21 Genomics CC BY-NC-ND Empirical determinants of adaptive mutations in yeast experimental evolution Celia Payen|Anna B Sunshine|Giang T Ong|Jamie L Pogachar|Wei Zhao|Maitreya J Dunham University of Washington
http://dx.doi.org/10.1101/013771 2015-01-21 Genomics CC BY-NC Inexpensive Multiplexed Library Preparation for Megabase-Sized Genomes Michael Baym|Sergey Kryazhimskiy|Tami D. Lieberman|Hattie Chung|Michael M. Desai|Roy Kishony Harvard Medical School;|Harvard University
http://dx.doi.org/10.1101/006783 2015-01-20 Evolutionary Biology CC BY-ND Hybrid origins and the earliest stages of diploidization in the highly successful recent polyploid Capsella bursa-pastoris Gavin Douglas|Gesseca Gos|Kim Steige|Adriana Salcedo|Karl Holm|J. Arvid Agren|Khaled Hazzouri|Wei Wang|Adrian E. Platts|Emily B. Josephs|Robert J. Williamson|Barbara Neuffer|Martin Lascoux|Tanja Slotte|Stephen Wright University of Toronto;|Uppsala University;|New York University at Abu Dhabi;|McGill University;|University of Osnabrueck;|Stockholm University
http://dx.doi.org/10.1101/014035 2015-01-20 Genomics Mutation detection in candidate genes for parauberculosis resistance in sheep Bianca Moioli|Luigi De Grossi|Roberto Steri|Silvia D'Andrea|Fabio Pilla Consiglio per la Ricerca e la sperimentazione in Agricoltura, Italy;|2.Istituto Zooprofilattico Sperimentale, Italy;|Universit?? degli Studi del Molise, Italy
http://dx.doi.org/10.1101/013946 2015-01-20 Evolutionary Biology Dissecting phylogenetic signal and accounting for bias in whole-genome data sets: a case study of the Metazoa Marek L Borowiec|Ernest K Lee|Joanna C Chiu|David C Plachetzki The University of California, Davis;|The American Museum of Natural History;|The University of New Hampshire
http://dx.doi.org/10.1101/014027 2015-01-20 Evolutionary Biology CC BY-NC-ND The genetics of resistance to Morinda fruit toxin during the postembryonic stages in Drosophila sechellia Yan Huang|Deniz Erezyilmaz Stony Brook University
http://dx.doi.org/10.1101/013987 2015-01-19 Evolutionary Biology CC BY-NC-ND Rates of karyotypic evolution in Estrildid finches differ between island and continental clades Daniel M Hooper|Trevor D Price Committee on Evolutionary Biology - University of Chicago;|Ecology and Evolution - University of Chicago
http://dx.doi.org/10.1101/013979 2015-01-19 Genomics CC BY-NC-ND RNA-seq: primary cells, cell lines and heat stress Carl J Schmdt|Elizabeth M Pritchett|Liang Sun|Richard V.N. Davis|Allen Hubbard|Kalmia E Kniel|Sarah M Markland|Qing Wang|Chris Ashwell|Michael Persia|Max F. Rothschild|Susan J. Lamont University of Delaware;|NCSU;|Virginia Tech University;|Iowa State University
http://dx.doi.org/10.1101/013888 2015-01-19 Genetics CC BY-ND Genetic Variation, Not Cell Type of Origin, Underlies Regulatory Differences in iPSCs Courtney L Kagan|Nicholas E Banovich|Bryan J Pavlovic|Kristen Patterson|Irene Gallego Romero|Jonathan K Pritchard|Yoav Gilad University of Chicago;|Stanford University
http://dx.doi.org/10.1101/013912 2015-01-18 Plant Biology CC BY-NC-ND In plants, decapping prevents RDR6-dependent production of small interfering RNAs from endogenous mRNAs Angel Emilio Martinez de Alba|Ana Moreno|Marc Gabriel|Allison C Mallory|Aurelie Christ|Remi Bounon|Sandrine Balzergue|Sebastien Aubourg|Daniel Gautheret|Martin D Crespi|Herve Vaucheret|Alexis Maizel Institut Jean-Pierre Bourgin, INRA;|Institut des Sciences du Végétal,CNRS;|Institute for Integrative Biology of the Cell, Paris Sud University;|Unité de Recherche en Génomique Végétale, INRA;|University of Heidelberg
http://dx.doi.org/10.1101/013953 2015-01-18 Developmental Biology CC BY-NC Digit evolution in gymnophthalmid lizards Juliana Roscito|Pedro M. S. Nunes|Miguel T Rodrigues Universidade de São Paulo;|Departamento de Zoologia, Centro de Ciências Biológicas, Universidade Federal de Pernam;|Departamento de Zoologia, Instituto de Biociências, Universidade de São Paulo-SP, Brasi
http://dx.doi.org/10.1101/004325 2015-01-16 Evolutionary Biology CC BY Behavioral variation in Drosophila melanogaster: no evidence for common alleles of large- effect at the foraging gene in a population from North Carolina, USA Thomas Turner|Christopher C Giauque|Daniel R Schrider|Andrew D Kern University of California, Santa Barbara;|Department of Biology, Dartmouth College;|Department of Genetics, Rutgers University
http://dx.doi.org/10.1101/010728 2015-01-16 Evolutionary Biology CC BY-NC-ND Multicellularity makes somatic differentiation evolutionarily stable Mary Elizabeth Wahl|Andrew Wood Murray Harvard University
http://dx.doi.org/10.1101/013920 2015-01-16 Bioinformatics CC BY-NC-ND MultiMeta: an R package for meta-analysing multi-phenotype genome-wide association studies Dragana Vuckovic|Paolo Gasparini|Nicole Soranzo|Valentina Iotchkova University of Trieste;|University of Trieste - IRCCS Burlo Garofolo;|Wellcome Trust Sanger Institute - University of Cambridge;|Wellcome Trust Sanger Institute - European Bioinformatics Institute
http://dx.doi.org/10.1101/013904 2015-01-16 Cell Biology CC BY Mbd3 and deterministic reprogramming Paul Bertone|Brian Hendrich|Jose C.R. Silva University of Cambridge
http://dx.doi.org/10.1101/012849 2015-01-16 Genomics Principles governing A-to-I RNA editing in the breast cancer transcriptome Debora Fumagalli|David Gacquer|Francoise Rothe|Anne Lefort|Frederick Libert|David Brown|Naima Kheddoumi|Adam Shlien|Tomasz Konopka|Roberto Salgado|Denis Larsimont|Kornelia Polyak|Karen Willard-Gallo|Christine Desmedt|Martine Piccart|Marc Abramowicz|Peter J Campbell|Christos Sotiriou|Vincent Detours Institut Jules Bordet;|Université Libre de Bruxelles (ULB);|Wellcome Trust Sanger Institute;|Dana-Farber Cancer Institute;|Hopital Erasme - ULB
http://dx.doi.org/10.1101/013870 2015-01-16 Bioengineering Extracorporeal Photoimmunotherapy for Circulating Tumor Cells Angelo Gaitas|Gwangseong Kim Florida International University
http://dx.doi.org/10.1101/013862 2015-01-16 Bioinformatics CC BY Phylesystem: a git-based data store for community curated phylogenetic estimates Emily Jane B. McTavish|Cody E. Hinchliff|James F. Allman|Joseph W. Brown|Karen A. Cranston|Mark T. Holder|Jonathan A. Rees|Stephen A. Smith University of Kansas;|University of Michigan;|Interrobang Corp.;|Duke University
http://dx.doi.org/10.1101/013821 2015-01-16 Plant Biology CC BY-NC-ND Identification of an Arabidopsis Aminotransferase that Facilitates Tryptophan and Auxin Homeostasis Michael Pieck|Youxi Yuan|Jason Godfrey|Christopher Fisher|Sanda Zolj|Nicholas Thomas|Connie Wu|Julian Ramos|Norman Lee|Jennifer Normanly|John Celenza Boston University, United States;|University of Massachusetts, Amherst, United States;|Boston University, United States
http://dx.doi.org/10.1101/013763 2015-01-15 Molecular Biology CC BY Strong spurious transcription likely a cause of DNA insert bias in typical metagenomic clone libraries Kathy N Lam|Trevor C Charles University of Waterloo
http://dx.doi.org/10.1101/013854 2015-01-15 Genomics CC BY Model based normalization improves differential expression calling in low-depth RNA-seq Pavel Zakharov|Alexey Sergushichev|Alexander Predeus|Maxim Artyomov Department of Pathology & Immunology, Washington University in St. Louis;|ITMO University, Saint Petersburg, Russia
http://dx.doi.org/10.1101/013839 2015-01-15 Systems Biology CC BY-NC-ND From system-wide differential gene expression to perturbed regulatory factors: a combinatorial approach Gaurang Mahajan|Shekhar C Mande NCCS
http://dx.doi.org/10.1101/013789 2015-01-14 Genomics Chromosomal Inversion Symmetry: Generalized Chargaff Rules Sagi Shporer|Benny Chor|David Horn Tel Aviv University
http://dx.doi.org/10.1101/013805 2015-01-14 Bioinformatics CC BY-NC SW#db: GPU-accelerated exact sequence similarity database search Matija Korpar|Martin Sosic|Dino Blazeka|Mile Sikic Mikroblink;|University of Zagreb, Faculty of Electrical Engineering and Computing
http://dx.doi.org/10.1101/013755 2015-01-13 Evolutionary Biology CC BY-NC-ND The Time-Scale of Recombination Rate Evolution in Great Apes Laurie S Stevison|August E Woerner|Jeffrey M Kidd|Joanna L Kelley|Krishna R Veeramah|Kimberly F McManus|Carlos D Bustamante|Michael F Hammer|Jeffrey D Wall University of California San Francisco;|University of Arizona;|University of Michigan;|Washington State University;|Stony Brook University;|Stanford University
http://dx.doi.org/10.1101/013722 2015-01-13 Evolutionary Biology CC BY-NC-ND The P-element strikes again: the recent invasion of natural Drosophila simulans populations Robert Kofler|Tom Hill|Viola Nolte|Andrea Betancourt|Christian Schlotterer VetMedUni Wien
http://dx.doi.org/10.1101/013714 2015-01-13 Bioengineering CC BY-NC-ND Efficient Assembly and Verification of ZFNs and TALENs for Modifying Porcine ApoE gene Xu Huarong|Li Tuo|Guo Yang|Li Hongfei|Wang Ling|Zhang Zhiying|Wang Xin College of Animal Science and Technology, Northwest A&F University, China
http://dx.doi.org/10.1101/013706 2015-01-13 Genomics CC BY-NC-ND Selection-, age-, and exercise-dependence of skeletal muscle gene expression patterns in a rat model of metabolic fitness Yu-yu Ren|Lauren G Koch|Steven L Britton|Nathan R Qi|Mary K Treutelaar|Charles F Burant|Jun Z Li University of Michigan
http://dx.doi.org/10.1101/013458 2015-01-12 Bioinformatics CC BY-NC-ND SCIE: Information Extraction for Spinal Cord Injury Preclinical Experiments - A Webservice and Open Source Toolkit Andreas Stockel|Benjamin Paassen|Raphael Dickfelder|Jan Philip Gopfert|Nicole Brazda|Hans Werner Muller|Philipp Cimiano|Matthias Hartung|Roman Klinger Bielefeld University;|HHU Düsseldorf;|University of Stuttgart
http://dx.doi.org/10.1101/013540 2015-01-11 Evolutionary Biology CC BY The origin and evolution of maize in the American Southwest Rute R da Fonseca|Bruce D Smith|Nathan Wales|Enrico Cappellini|Pontus Skoglund|Matteo Fumagalli|Jose Alfredo Samaniego|Christian Care|Maria C Avila-Arcos|David E Hufnagel|Thorfinn Sand Korneliussen|Filipe Garrett Vieira|Mattias Jakobsson|Bernardo Arriaza|Eske Willerslev|Rasmus Nielsen|Matthew B Hufford|Anders Albrechtsen|Jeffrey Ross-Ibarra|M Thomas P Gilbert The Bioinformatics Centre, University of Copenhagen, 2200 Copenhagen, Denmark;|Department of Anthropology, National Museum of Natural History, Smithsonian Institution, Washington;|Centre for GeoGenetics, University of Copenhagen, 1350 Copenhagen, Denmark;|Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA;|Department of Integrative Biology, University of California, Berkeley, California 94720-3140, USA;|Department of Genetics, Stanford University School of Medicine, Stanford, California 94305, USA;|Department of Ecology, Evolution, & Organismal Biology, Iowa State University, 50011, USA;|Department of Evolutionary Biology, Uppsala University, Uppsala 752 36, Sweden;|Instituto de Alta Investigación, Universidad de Tarapacá, 15101 Arica, Chile;|Department of Integrative Biology and Statistics, University of California, Berkeley, California 947;|Department of Plant Sciences, Center for Population Biology and Genome Center, University of Califor
http://dx.doi.org/10.1101/013680 2015-01-11 Ecology CC BY Evolutionary processes make invasion speed difficult to predict Ben Phillips University of Melbourne
http://dx.doi.org/10.1101/013656 2015-01-11 Genetics CC BY-NC De novo Mutations in NALCN Cause a Syndrome of Congenital Contractures of the Limbs and Face with Hypotonia, and Developmental Delay Jessica X Chong|Margaret J McMillin|Kathryn M Shively|Anita E Beck|Colby T Marvin|Jose R Armenteros|Kati J Buckingham|Naomi T Nkinsi|Evan A Boyle|Margaret N Berry|Maureen Bocian|Nicola Foulds|Maria Luisa Giovannucci Uzielli|Chad Haldeman-Englert|Raoul CM Hennekam|Paige Kaplan|Antonie D Kline|Catherine L Mercer|Malgorzata JM Nowaczyk|Jolien S Klein Wassink-Ruiter|Elizabeth W McPherson|Regina A Moreno|Angela E Scheuerle|Vandana Shashi|Cathy A Stevens|John C Carey|Arnaud Monteil|Philippe Lory|Holly K Tabor|Joshua D Smith|Jay Shendure|Deborah A Nickerson|Michael J Bamshad University of Washington;|Wake Forest School of Medicine;|University of California Irvine;|University of Southampton;|University of Florence;|University of Amsterdam;|Children's Hospital of Philadelphia;|Greater Baltimore Medical Center;|McMaster University;|University Medical Centre Groningen;|Marshfield Clinic;|Universidad de la Frontera;|University of Texas Southwestern Medical Center;|Wake Forest School of Medicine, Duke University Medical Center;|University of Tennessee College of Medicine;|University of Utah;|Université Montpellier, Institut de Génomique Fonctionnelle;|Seattle Children's Research Institute
http://dx.doi.org/10.1101/013672 2015-01-11 Cancer Biology CC BY-NC Estimating stem cell fractions in hierarchically organized tumors Benjamin Werner|Jacob G Scott|Andrea Sottoriva|Alexander RA Anderson|Arne Traulsen|Philipp M Altrock Max Planck Institute for Evolutionary Biology;|H. Lee Moffitt Cancer Center and Research Institute and University of Oxford;|Centre for Evolution and Cancer, The Institute of Cancer Research, London;|H. Lee Moffitt Cancer Center and Research Institute;|Harvard University
http://dx.doi.org/10.1101/013599 2015-01-11 Immunology CC BY-ND On The Organization Of Human T Cell Receptor Loci. Amir Ahmed Toor|Abdullah Ahmed Toor|Masoud H Manjili Virginia Commonwealth University;|Deep Run High School
http://dx.doi.org/10.1101/013664 2015-01-10 Genomics CC BY-NC-ND Putative G-quadruplex forming sequence signatures in genes differentially transcribed upon loss of BLM or WRN helicases John Smestad|Louis J Maher Mayo Clinic College of Medicine
http://dx.doi.org/10.1101/013615 2015-01-10 Bioinformatics CC BY-NC Merging OpenLifeData with SADI services using Galaxy and Docker Mikel Egana Aranguren University of Basque Country (UPV/EHU)
http://dx.doi.org/10.1101/013631 2015-01-10 Genomics CC BY-ND Reprogramming LCLs to iPSCs Results in Recovery of Donor-Specific Gene Expression Signature Samantha M Thomas|Courtney Kagan|Bryan J Pavlovic|Jonathan Burnett|Kristen Patterson|Jonathan K Pritchard|Yoav Gilad University of Chicago;|Stanford University
http://dx.doi.org/10.1101/013573 2015-01-09 Evolutionary Biology SWS2 visual pigment evolution as a test of historically contingent patterns of plumage color evolution in Warblers Natasha Bloch|James M Morrow|Belinda SW Chang|Trevor D Price University of Chicago;|University of Toronto
http://dx.doi.org/10.1101/010116 2015-01-08 Genomics RNA-Seq analysis and annotation of a draft blueberry genome assembly identifies candidate genes involved in fruit ripening, biosynthesis of bioactive compounds, and stage-specific alternative splicing Vikas Gupta|April Dawn Estrada|Ivory Clabaugh Blakley|Rob Reid|Ketan Patel|Mason D. Meyer|Stig Uggerhoj Andersen|Allan F. Brown|Mary Ann Lila|Ann Loraine University of Aarhus;|University of North Carolina at Charlotte;|NMRC-Frederick;|NC State University
http://dx.doi.org/10.1101/009175 2015-01-08 Genetics CC BY Non-crossover gene conversions show strong GC bias and unexpected clustering in humans Amy L. Williams|Giulio Geneovese|Thomas Dyer|Nicolas Altemose|Katherine Truax|Goo Jun|Nick Patterson|Simon R. Myers|Joanne E. Curran|Ravi Duggirala|John Blangero|David Reich|Molly Przeworski Cornell University;|Broad Institute of Harvard and MIT;|Texas Biomedical Research Institute;|Oxford University;|University of Michigan;|Harvard Medical School;|Columbia University;|-
http://dx.doi.org/10.1101/013532 2015-01-07 Systems Biology CC BY-NC-ND Multi -omics and metabolic modelling pipelines: challenges and tools for systems microbiology Marco Fondi|Pietro Lio University of Florence;|University of Cambridge
http://dx.doi.org/10.1101/008813 2015-01-07 Ecology The dark side of theoretical ecology Lev V. Kalmykov Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences
http://dx.doi.org/10.1101/013516 2015-01-06 Neuroscience Olfactory receptors are sensitive to molecular volume of odorants Majid Saberi|Hamed Seyed-allaei School of Cognitive Science, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran;|Institute for Research in Fundamental Sciences (IPM)
http://dx.doi.org/10.1101/009084 2015-01-06 Evolutionary Biology Secondary contact and local adaptation contribute to genome-wide patterns of clinal variation in Drosophila melanogaster Alan O. Bergland|Ray Tobler|Josefa Gonzalez|Paul Schmidt|Dmitri Petrov Stanford University;|Vetmeduni;|CSIC-Universitat Pompeu Fabra;|University of Pennsylvania
http://dx.doi.org/10.1101/013508 2015-01-06 Genomics CC BY-NC Widespread localisation of long noncoding RNAs to ribosomes: Distinguishing features and evidence for regulatory roles. Juna Carlevaro-Fita|Anisa Rahim|Roderic Guigo|Leah Vardy|Rory Johnson CRG;|IMB
http://dx.doi.org/10.1101/013482 2015-01-06 Genetics Neurospora heterokaryons with complementary duplications and deficiencies in their constituent nuclei provide an approach to identify nucleus-limited genes. Dev Ashish Giri|Rekha S|Durgadas P. Kasbekar Centre for DNA Fingerprinting and Diagnostics (CDFD), India;|Centre for DNA Fingerprinting and Diagnostics, India
http://dx.doi.org/10.1101/011171 2015-01-05 Evolutionary Biology Epidemiological and evolutionary analysis of the 2014 Ebola virus outbreak Marta Luksza|Trevor Bedford|Michael Lassig Institute for Advanced Study;|Fred Hutchinson Cancer Research Center;|Institute for Theoretical Physics, University of Cologne
http://dx.doi.org/10.1101/013425 2015-01-03 Bioinformatics When Less is More: "Slicing" Sequencing Data Improves Read Decoding Accuracy and De Novo Assembly Quality Stefano Lonardi|Hamid Mirebrahim|Steve Wanamaker|Matthew Alpert|Gianfranco Ciardo|Denisa Duma|Timothy J Close University of California, Riverside;|Iowa State University;|Baylor College of Medicine
http://dx.doi.org/10.1101/013136 2015-01-03 Neuroscience CC BY-NC-ND Animal Models of Epilepsy: Legacies and New Directions Brian Grone|Scott Baraban University of California, San Francisco
http://dx.doi.org/10.1101/007922 2015-01-03 Systems Biology CC BY-NC-ND Shadow enhancers enable Hunchback bifunctionality in the Drosophila embryo Max Staller|Ben J. Vincent|Meghan D.J. Bragdon|Tara Lydiard-Martin|Zeba Wunderlich|Javier Estrada|Angela DePace Harvard Medical School
http://dx.doi.org/10.1101/013383 2015-01-02 Systems Biology CC BY-NC Design and strain selection criteria for bacterial communication networks Claudio Angione|Giovanni Carapezza|Jole Costanza|Pietro Lio|Giuseppe Nicosia University of Cambridge;|University of Catania;|IIT Milan
http://dx.doi.org/10.1101/012930 2015-01-02 Biophysics CC BY From deep TLS validation to ensembles of atomic models built from elemental motions Alexandre Urzhumtsev|Pavel Afonine|Andrew H Van Benschoten|James Fraser|Paul D Adams Institut de Génétique et de Biologie Moléculaire et Cellulaire, CNRS;|Lawrence Berkeley National Laboratory;|UCSF;|Lawrence Berkeley National Laboratory and UC Berkeley
http://dx.doi.org/10.1101/012955 2015-01-02 Biophysics CC BY Predicting X-ray Diffuse Scattering from Translation Libration Screw Structural Ensembles Andrew Van Benschoten|Pavel Afonine|Thomas Terwilliger|Michael Wall|Colin Jackson|Nicholas Sauter|Paul Adams|Alexandre Urzhumtsev|James Fraser UCSF;|Lawrence Berkeley National Laboratory;|Los Alamos National Laboratory;|Los Alamos National LaboratoryJ;|Australian National University;|Lawrence Berkeley National Laboratory and UC Berkeley;|Institut de Génétique et de Biologie Moléculaire et Cellulaire, CNRS
http://dx.doi.org/10.1101/013276 2014-12-30 Genetics CC BY-NC-ND Genome-engineering with CRISPR-Cas9 in the mosquito Aedes aegypti Kathryn E Kistler|Leslie B Vosshall|Benjamin J Matthews The Rockefeller University;|The Rockefeller University and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/013359 2014-12-30 Biophysics CC BY-NC-ND Too packed to change: site-specific substitution rates and side-chain packing in protein evolution Maria Laura Marcos|Julian Echave Universidad Nacional de San Martín
http://dx.doi.org/10.1101/012443 2014-12-30 Neuroscience The neural correlates of consciousness in sleep: a no-task, within-state paradigm Francesca Siclari|Joshua J LaRocque|Giulio Bernardi|Bradley R Postle|Giulio Tononi University of Wisconsin, Madison, USA;|University of Wisconsin Madison, USA;|University of Wisconein Madison, USA;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/013334 2014-12-30 Bioengineering CC BY-NC-ND Practice of Cardiac Auscultation:Clinical perspectives and its implications on computer aided diagnosis Subhamoy Mandal|Roshan Joy Martis|Kayapada Mandana|Rajendra U Acharya,|Jyotirmoy Chatterjee|Ajoy K Ray TU München;|Ngee Ann Polytechnic, Singapore;|Fortis Hospital, Kolkata, India;|IIT Kharagpur
http://dx.doi.org/10.1101/013342 2014-12-30 Genomics A nested parallel experiment demonstrates differences in intensity-dependence between RNA-seq and microarrays David G. Robinson|Jean Wang|John D. Storey Princeton University
http://dx.doi.org/10.1101/013326 2014-12-29 Evolutionary Biology CC BY-NC-ND Reconstructing gene content in the last common ancestor of cellular life: is it possible, should it be done, and are we making any progress? Arcady Mushegian n/a
http://dx.doi.org/10.1101/013318 2014-12-29 Evolutionary Biology CC BY-NC-ND High-resolution genomic surveillance of 2014 ebolavirus using shared subclonal variants Kevin J Emmett|Albert K Lee|Hossein Khiabanian|Raul Rabadan Columbia University
http://dx.doi.org/10.1101/013284 2014-12-27 Genetics A FISH-based chromosome map for the European corn borers yields insights into ancient chromosomal fusions in the silkworm. Yuji Yasukochi|Mizuki Ohno|Fukashi Shibata|Akiya Jouraku|Ryo Nakano|Yukio Ishikawa|Ken Sahara National Institute of Agrobiological Sciences, Japan;|Iwate University, Japan;|Ehime University, Japan;|NARO Institute of Fruit Tree Science, Japan;|The University of Tokyo, Japan
http://dx.doi.org/10.1101/005363 2014-12-26 Evolutionary Biology CC BY-NC-ND Sperm should evolve to make female meiosis fair. Yaniv Brandvain|Graham Coop University of Minnesota - Twin Cities;|University of California: Davis
http://dx.doi.org/10.1101/009472 2014-12-26 Bioinformatics CC BY-NC-ND Accounting for experimental noise reveals that mRNA levels, amplified by post-transcriptional processes, largely determine steady-state protein levels in yeast Gabor Csardi|Alexander Franks|David S. Choi|Eduardo M. Airoldi|D. Allan Drummond Harvard University;|University of Chicago
http://dx.doi.org/10.1101/013250 2014-12-26 Genomics CC BY-NC-ND DNA-guided establishment of canonical nucleosome patterns in a eukaryotic genome Leslie Y Beh|Noam Kaplan|Manuel M Muller|Tom W Muir|Laura F Landweber Princeton University;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/013201 2014-12-24 Bioinformatics CC BY RAX2: genome-wide detection of condition-associated transcription variation Yuan-De Tan|Jixin Deng|Joel R Neilson Department of Molecular Physiology and Biophysics and Dan L. Duncan Cancer Center, Baylor College of
http://dx.doi.org/10.1101/012997 2014-12-24 Genomics A Comprehensive Assessment of Somatic Mutation Calling in Cancer Genomes Tyler S Alioto|Sophia Derdak|Timothy A Beck|Paul C Boutros|Lawrence Bower|Ivo Buchhalter|Matthew D Eldridge|Nicholas J Harding|Lawrence Edward Heisler|Eivind Hovig|David T W Jones|Andrew G Lynch|Sigve Nakken|Paolo Ribeca|Anne-Sophie Sertier|Jared T Simpson|Paul Spellman|Patrick Tarpey|Laurie Tonon|Daniel Vodak|Takafumi N Yamaguchi|Sergi Beltran Agullo|Marc Dabad|Robert E Denroche|Philip Ginsbach|Simon C Heath|Emanuele Raineri|Charlotte L Anderson|Benedikt Brors|Ruben Drews|Roland Eils|Akihiro Fujimoto|Francesc Castro Giner|Minghui He|Pablo Hennings-Yeomans|Barbara Hutter|Natalie Jager|Rolf Kabbe|Cyriac Kandoth|Semin Lee|Louis Letourneau|Singer Ma|Hidewaki Nakagawa|Nagarajan Paramasivam|Anne-Marie Patch|Myron Peto|Matthias Schlesner|Sahil Seth|David Torrents|David A Wheeler|Liu Xi|John Zhang|Daniela S Gerhard|Victor Quesada|Rafael Valdes-Mas|Marta Gut|Peter J Campbell|Thomas J Hudson|John D McPherson|Xose S Puente|Ivo G Gut Centro Nacional de Análisis Genómico (CNAG), Barcelona, Spain;|Ontario Institute for Cancer Research (OICR), Toronto, Canada;|Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK;|German Cancer Research Center (DKFZ), Heidelberg, Germany;|Norwegian Cancer Genomics Consortium, Institute for Cancer Research, Oslo University Hospital,Norway;|Synergie Lyon Cancer Foundation, Lyon, France;|Knight Cancer Institute, Portland, OR, USA;|Wellcome Trust Sanger Institute (WTSI), Hinxton, Cambridge, UK;|Institute for Cancer Genetics and Informatics, Oslo, Norway;|mdabad@pcb.ub.es;|Victorian Life Sciences Computation Initiative, Melbourne, Australia;|RIKEN Center for Integrative Medical Sciences, Tokyo, Japan;|BGI-Shenzen, Shenzen, China;|The Genome Institute, St. Louis, MO, USA;|Harvard Medical School, Boston, MA, USA;|McGill University, Montreal, Canada;|DNAnexus, Mountain View, CA, USA;|Queensland Centre for Medical Genomics, Brisbane, Australia;|MD Anderson Cancer Center, Houston, TX, USA;|Barcelona Supercomputing Center (BSC), Barcelona, Spain;|Human Genome Sequencing Center, Baylor College of Medicine, Huston, TX, USA;|MD Anderson Cancer Center, Houston, TX, USA and Harvard Medical School, Boston, MA, USA;|National Cancer Institute, Bethesda, MD, USA;|Universidad de Oviedo - IUOPA, Oviedo, Spain;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/013144 2014-12-23 Biophysics CC BY-NC-ND Public good diffusion limits microbial mutualism Rajita Menon|Kirill S. Korolev Boston University
http://dx.doi.org/10.1101/013185 2014-12-23 Neuroscience The Neural Marketplace: I. General Formalism and Linear Theory Sarah N Lewis|Kenneth Daniel Harris Imperial College London;|University College London
http://dx.doi.org/10.1101/013151 2014-12-23 Genomics CC BY-NC-ND Mapping bias overestimates reference allele frequencies at the HLA genes in the 1000 Genomes Project phase I data Debora Yoshihara Caldeira Brandt|Vitor Rezende da Costa Aguiar|Barbara Domingues Bitarello|Kelly Nunes|Jerome Goudet|Diogo Meyer University of S??o Paulo;|University of São Paulo;|University of Lausanne
http://dx.doi.org/10.1101/010991 2014-12-23 Developmental Biology CC BY The role of TORC1 in muscle development in Drosophila. Isabelle Hatfield|Innocence Harvey|Erika R. Yates|JeAnna R. Redd|Lawrence T. Reiter|Dave Bridges UTHSC
http://dx.doi.org/10.1101/008672 2014-12-23 Evolutionary Biology Direct gamete sequencing reveals no evidence for segregation distortion in house mouse hybrids Russ Corbett-Detig|Emily Jacobs-Palmer|Daniel Hartl|Hopi Hoekstra UC Berkeley;|Harvard
http://dx.doi.org/10.1101/011742 2014-12-23 Ecology CC BY-NC-ND Flies Infected by Zombie Fungi in an Urban Fragment B. C. Barbosa|T. T. Maciel Federal University of Brazil;|Federal University of Juiz de Fora
http://dx.doi.org/10.1101/011403 2014-12-23 Bioinformatics CC BY ENVIRONMENTS and EOL: identification of Environment Ontology terms in text and the annotation of the Encyclopedia of Life Evangelos Pafilis|Sune P Frankild|Julia Schnetzer|Lucia Fanini|Sarah Faulwetter|Christina Pavloudi|Aikaterini Vasileiadou|Patrick Leary|Jennifer Hammock|Katja Schulz|Cynthia S Parr|Christos Arvanitidis|Lars Juhl Jensen Hellenic Centre for Marine Research (HCMR);|University of Copenhagen;|MM-MPI Bremen;|Marine Biology Laboratory;|National Museum of Natural History, Smithsonian Institution
http://dx.doi.org/10.1101/013128 2014-12-22 Molecular Biology Pollen feeding proteomics: salivary proteins of the passion flower butterfly, Heliconius melpomene Desiree Harpel|Darron A Cullen|Swidbert Ott|Chris D Jiggins|James R Walters University of Kansas;|KU Leuven, Belgium;|University of Leicester;|University of Cambridge
http://dx.doi.org/10.1101/013110 2014-12-22 Synthetic Biology CC BY-NC-ND Quantifying cellular capacity to identify gene expression designs with reduced burden Francesca Ceroni|Rhys J R Algar|Guy-Bart Stan|Tom Ellis Imperial College London
http://dx.doi.org/10.1101/010041 2014-12-22 Ecology CC BY-NC-ND Bacterial diversity along a 2 600 km river continuum Domenico Savio|Lucas Sinclair|Umer Z. Ijaz|Philipp Stadler|Alfred P. Blaschke|Georg H. Reischer|Guenter Bloeschl|Robert L. Mach|Alexander K.T. Kirschner|Andreas H. Farnleitner|Alexander Eiler Vienna University of Technology;|Uppsala University;|University of Glasgow;|Medical University Vienna
http://dx.doi.org/10.1101/013052 2014-12-22 Evolutionary Biology CC BY-NC-ND The evolutionarily stable distribution of fitness effects Daniel P. Rice|Benjamin H. Good|Michael M. Desai Harvard University, United States
http://dx.doi.org/10.1101/013078 2014-12-22 Neuroscience Stimulus set meaningfulness and neurophysiological differentiation: a functional magnetic resonance imaging study Melanie Boly|Shuntaro Sasai|Olivia Gosseries|Masafumi Oizumi|Adenauer Casali|Marcello Massimini|Giulio Tononi University of Wisconsin;|University of Liege;|Riken Brain Sciences Institute;|University of Milan
http://dx.doi.org/10.1101/013086 2014-12-22 Ecology CC BY-NC-ND Real-world Interaction Networks Buffer Impact of Small Evolutionary Shifts On Biodiversity Gabriel E Leventhal|Liyu Wang|Roger D Kouyos ETH Zurich
http://dx.doi.org/10.1101/012880 2014-12-20 Synthetic Biology Highly-efficient Cas9-mediated transcriptional programming Alejandro Chavez|Jonathan Scheiman|Suhani Vora|Benjamin W Pruitt|Marcelle Tuttle|Eswar Iyer|Samira Kiani|Christopher D Guzman|Daniel J. Wiegand|Dimtry Ter-Ovanesyan|Jonathan L Braff|Noah Davidsohn|Ron Weiss|John Aach|Collins J Collins|George M Church Wyss Institute at Harvard University;|Wyss Institute at Harvard;|Massachusetts Institute of Technology;|Harvard Genetics
http://dx.doi.org/10.1101/013045 2014-12-20 Bioinformatics CC BY FORGE : A tool to discover cell specific enrichments of GWAS associated SNPs in regulatory regions. Ian Dunham|Eugene Kulesha|Valentina Iotchkova|Sandro Morganella|Ewan Birney European Molecular Biology Laboratory European Bioinformatics Institute
http://dx.doi.org/10.1101/012963 2014-12-19 Plant Biology Phytophthora infestans RXLR-WY effector AVR3a associates with a Dynamin-Related Protein involved in endocytosis of a plant pattern recognition receptor Angela Chaparro-Garcia|Simon Schwizer|Jan Sklenar|Kentaro Yoshida|Jorunn I. B. Bos|Sebastian Schornack|Alexandra M. E. Jones|Tolga O. Bozkurt|Sophien Kamoun The Sainsbury Laboratory;|Boyce Thompson Institute for Plant Research;|Kobe University;|James Hutton Institute;|Sainsbury Laboratory, University of Cambridge;|University of Warwick;|Imperial College London
http://dx.doi.org/10.1101/013003 2014-12-19 Evolutionary Biology CC BY-NC-ND Imperfect drug penetration leads to spatial monotherapy and rapid evolution of multi-drug resistance Stefany Moreno-Gamez|Alison L Hill|Daniel I.S. Rosenbloom|Dmitri A. Petrov|Martin A Nowak|Pleuni Pennings University of Groningen;|Harvard University;|Columbia University;|Stanford University;|San Francisco State University
http://dx.doi.org/10.1101/013029 2014-12-19 Molecular Biology CC BY-NC-ND E. coli OxyS non-coding RNA does not trigger RNAi in C. elegans Alper Akay|Peter Sarkies|Eric Alexander Miska University of Cambridge
http://dx.doi.org/10.1101/012971 2014-12-19 Genetics Using Bayesian multilevel whole-genome regression models for partial pooling of estimation sets in genomic prediction Frank Technow|L. Radu Totir DuPont Pioneer
http://dx.doi.org/10.1101/012906 2014-12-19 Genetics CC BY Expansion of the HSFY gene family in pig lineages Benjamin M Skinner|Kim Lachani|Carole A Sargent|Fengtang Yang|Peter JI Ellis|Toby Hunt|Beiyuan Fu|Sandra Louzada|Carol Churcher|Chris Tyler-Smith|Nabeel A Affara University of Cambridge;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/012914 2014-12-19 Genomics CC BY The pig X and Y chromosomes: structure, sequence and evolution Benjamin M Skinner|Carole A Sargent|Carol Churcher|Toby Hunt|Javier Herrero|Jane Loveland|Matt Dunn|Sandra Louzada|Beiyuan Fu|William Chow|James Gilbert|Siobhan Austin-Guest|Kathryn Beal|Denise Carvalho-Silva|William Cheng|Daria Gordon|Darren Grafham|Matt Hardy|Jo Harley|Heidi Hauser|Philip Howden|Kerstin Howe|Kim Lachani|Peter JI Ellis|Daniel Kelly|Giselle Kerry|James Kerwin|Bee Ling Ng|Glen Threadgold|Thomas Wileman|Jonathan MD Wood|Fengtang Yang|Jen Harrow|Nabeel A Affara|Chris Tyler-Smith University of Cambridge;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/012864 2014-12-17 Biophysics CC BY A biophysical approach to predicting protein-DNA binding energetics George Locke|Alexandre V Morozov Rutgers University, Department of Physics & Astronomy, United States
http://dx.doi.org/10.1101/012872 2014-12-17 Genomics CC BY-ND Common binding by redundant group B Sox proteins is evolutionarily conserved in Drosophila Sarah H Carl|Steven Russell University of Cambridge
http://dx.doi.org/10.1101/006122 2014-12-17 Genomics Natural selection constrains neutral diversity across a wide range of species. Russell B. Corbett-Detig|Daniel L. Hartl|Timothy B. Sackton Harvard University
http://dx.doi.org/10.1101/007690 2014-12-16 Evolutionary Biology Can the site-frequency spectrum distinguish exponential population growth from multiple-merger coalescents? Bjarki Eldon|Matthias Birkner|Jochen Blath|Fabian Freund TU Berlin;|JGU Mainz;|University of Hohenheim
http://dx.doi.org/10.1101/012856 2014-12-16 Evolutionary Biology Origin and cross-century dynamics of an avian hybrid zone Andrea Morales-Rozo|Elkin A. Tenorio|Matthew D. Carling|Carlos Daniel Cadena Universidad de los Andes;|University of Wyoming
http://dx.doi.org/10.1101/012815 2014-12-16 Physiology CC BY Estimation of erythrocyte surface area in mammals Ion Udroiu Università Roma Tre
http://dx.doi.org/10.1101/012807 2014-12-16 Evolutionary Biology Modeling and quantifying frequency-dependent fitness in microbial populations with cross-feeding interactions Noah Ribeck|Richard E. Lenski Michigan State University
http://dx.doi.org/10.1101/012591 2014-12-15 Bioinformatics HISAT: Hierarchical Indexing for Spliced Alignment of Transcripts Daehwan Kim|Ben Langmead|Steven Salzberg Johns Hopkins University School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/012617 2014-12-15 Systems Biology CC BY-NC-ND Biological Organization, Biological Information, and Knowledge Mauricio Vieira Kritz National Laboratory for Scientific Computation
http://dx.doi.org/10.1101/012658 2014-12-15 Cancer Biology CC BY-NC-ND Tissue-specific cancer paradox and mutation rates Valentina Agoni University of Pavia
http://dx.doi.org/10.1101/012666 2014-12-14 Ecology CC BY-NC-ND Connecting people and ideas from around the world: global innovation platforms for next-generation ecology and beyond Peter Sgaard Jrgensen|Frederic Barraquand|Vincent Bonhomme|Timothy J Curran|Ellen Cieraad|Thomas Ezard|Laureano Gherardi|R. Andrew Hayes|Timothee Poisot|Roberto Salguero-Gomez|Lucia DeSoto|Brian Swartz|Jennifer M. Talbot|Brian Wee|Naupaka Zimmerman Center for Macroecology Evolution and Climate, Natural History Museum of Denmark, U of Copenhagen;|Department of Arctic and Marine Biology, University of Tromsø, Norway;|French Institute of Pondicherry, 11 Saint Louis Street, Pondicherry 605 001, France;|6Department of Ecology, Lincoln University, Lincoln 7640, New Zealand;|Landcare Research, Lincoln 7640, New Zealand;|Centre for Biological Sciences, University of Southampton, Life Sciences Building 85, Highfield Cam;|School of Life Sciences, Arizona State University, Tempe, Arizona 85287 USA;|Horticulture and Forestry Science, Department of Agriculture, Fisheries and Forestry, Brisbane, QL;|Québec Centre for Biodiversity Sciences, McGill University, Montréal (QC), Canada;|School of Biological Sciences, The University of Queensland, QLD 4072, Australia.;|Centre for Functional Ecology, University of Coimbra, Portugal;|Department of Earth and Environmental Science, University of Pennsylvania, Philadelphia, PA 19104;|Department of Biology, Boston University, MA 02215, USA;|National Ecological Observatory Network (NEON) Inc, Washington, DC 20009, USA.;|School of Plant Sciences, University of Arizona, Tucson, AZ 85721, USA
http://dx.doi.org/10.1101/011122 2014-12-13 Biophysics|Developmental Biology Exact solutions of linear reaction-diffusion processes on a uniformly growing domain: Criteria for successful colonization Matthew J Simpson Queensland University of Technology
http://dx.doi.org/10.1101/012716 2014-12-13 Ecology CC BY-NC-ND The utility of visual estimation in the rapid assessment of grass abundance for studies of foraging Hansraj Gautam|G.G. Potdar|T.N.C. Vidya Jawaharlal Nehru Centre for Advanced Scientific Research;|Yashwantrao Chavan College of Science
http://dx.doi.org/10.1101/012708 2014-12-13 Cancer Biology CC BY Integrative Analysis of Transcriptome Variation in Uterine Carcinosarcoma and Comparison to Sarcoma and Endometrial Carcinoma Natalie Davidson|Kjong-Van Lehmann|Andre Kahles|Alexendar Perez|Gunnar Ratsch Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/012732 2014-12-13 Genomics More Signal, Less Noise: Single-primer Adenylation Method (SAM) for the Efficient Preparation of DNA for Transposon Sequencing (TnSeq) Sam Willcocks|Richard Stabler|Brendan Wren The London School of Hygiene and Tropical Medicine
http://dx.doi.org/10.1101/012641 2014-12-12 Systems Biology CC BY-ND Model checking to assess T-helper cell plasticity Wassim Abou-Jaoude|Pedro Monteiro|Aurelien Naldi|Maximilien Grandclaudon|Vassili Soumelis|Claudine Chaouiya|Denis Thieffry Institut de Biologie de l'Ecole Normale Supérieure, Paris, France;|INESC-ID;|Centre Intégratif de Génomique, Université de Lausanne, Switzerland;|Laboratoire d'Immunologie Clinique - Institut Curie, Paris, France;|Instituto Gulbenkian de Ciência, Oeiras, Portugal
http://dx.doi.org/10.1101/006015 2014-12-12 Bioinformatics CC BY Polyester: simulating RNA-seq datasets with differential transcript expression Alyssa C Frazee|Andrew E Jaffe|Ben Langmead|Jeffrey Leek Johns Hopkins Bloomberg School of Public Health;|Lieber Institute for Brain Development;|Johns Hopkins University
http://dx.doi.org/10.1101/012625 2014-12-12 Genomics CC BY An annotated consensus genetic map for Pinus taeda L. and extent of linkage disequilibrium in three genotype-phenotype discovery populations Jared W. Westbrook|Vikram E. Chhatre|Le-Shin Wu|Srikar Chamala|Leandro Gomide Neves|Patricio Munoz|Pedro J Martinez-Garcia|David B. Neale|Matias Kirst|Keithanne Mockaitis|C. Dana Nelson|Gary F. Peter|John M. Davis|Craig S. Echt University of Florida;|University of Vermont;|Indiana University;|RAPiD Genomics LLC;|University of California Davis;|USDA Forest Service
http://dx.doi.org/10.1101/012559 2014-12-12 Genomics CC BY The Avian RNAseq Consortium: a community effort to annotate the chicken genome Jacqueline Smith|David W Burt The Roslin Institute
http://dx.doi.org/10.1101/012567 2014-12-12 Immunology Mouse conventional dendritic cells can be universally classified based on the mutually exclusive expression of XCR1 and SIRPα Stephanie Gurka|Evelyn Hartung|Martina Becker|Richard A. Kroczek Robert Koch-Institute
http://dx.doi.org/10.1101/012609 2014-12-12 Developmental Biology Genome-wide Ultrabithorax binding analysis reveals highly targeted genomic loci at developmental regulators and a potential connection to Polycomb-mediated regulation Daria Shlyueva|Antonio C.A. Meireles-Filho|Michaela Pagani|Alexander Stark 1Research Institute of Molecular Pathology (IMP), Vienna Biocenter (VBC);|École Polytechnique Fédérale de Lausanne
http://dx.doi.org/10.1101/011569 2014-12-11 Bioinformatics CC BY Heterogeneous Network Edge Prediction: A Data Integration Approach to Prioritize Disease-Associated Genes Daniel S Himmelstein|Sergio E Baranzini UCSF
http://dx.doi.org/10.1101/012534 2014-12-11 Systems Biology Reconstruction of Gene Regulatory Networks based on Repairing Sparse Low-rank Matrices Young Hwan Chang|Roel Dobbe|Palak Bhushan|Joe W. Gray|Claire J. Tomlin UC Berkeley;|Oregon Health and Science University
http://dx.doi.org/10.1101/012542 2014-12-11 Genomics Widespread polycistronic transcripts in mushroom-forming fungi revealed by single-molecule long-read mRNA sequencing Sean Gordon|Elizabeth Tseng|Asaf Salamov|Jiwei Zhang|Xiandong Meng|Zhiying Zhao|Dongwan Don Kang|Jason Underwood|Igor V Grigoriev|Melania Figueroa|Jonathan S Schilling|Feng Chen|Zhong Wang DOE JGI;|Pacific Biosciences;|DOE JGi;|University of Minnesota;|LBNL;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/003178 2014-12-11 Evolutionary Biology CC BY-NC-ND DISSECT: an assignment-free Bayesian discovery method for species delimitation under the multispecies coalescent Graham Jones|Bengt Oxelman Gothenburg University
http://dx.doi.org/10.1101/012310 2014-12-09 Neuroscience CC BY-NC-ND Bridging psychology and genetics using large-scale spatial analysis of neuroimaging and neurogenetic data Andrew S Fox|Luke J Chang|Krzysztof J Gorgolewski|Tal Yarkoni University of Wisconsin-Madison;|University of Colorado Boulder;|Stanford University;|University of Texas at Austin
http://dx.doi.org/10.1101/012492 2014-12-09 Systems Biology CC BY-NC Incorporating pushing in exclusion process models of cell migration Christian A Yates|Andrew Parker|Ruth E Baker University of Bath;|University of Oxford
http://dx.doi.org/10.1101/012526 2014-12-09 Systems Biology CC BY-NC-ND Conserved units of co-expression in bacterial genomes: an evolutionary insight into gene regulation Ivan Junier|Olivier Rivoire Center for Genomic Regulation (CRG);|CNRS
http://dx.doi.org/10.1101/012435 2014-12-09 Evolutionary Biology Host-parasite coevolution in populations of constant and variable size Yixian Song|Chaitanya Gokhale|Andrei Papkou|Hinrich Schulenburg|Arne Traulsen Max Planck Institute for Evolutionary Biology;|New Zealand Institute for Advanced Study, Massey University, Auckland, New Zealand;|Department of Evolutionary Ecology and Genetics, University of Kiel, Kiel, Germany;|MPI Evolutionary Biology
http://dx.doi.org/10.1101/009209 2014-12-09 Genomics CC BY-NC-ND Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell type-specific expression Maxwell W Libbrecht|Ferhat Ay|Michael M Hoffman|David M Gilbert|Jeffrey A Bilmes|William Stafford Noble University of Washington;|Princess Margaret Cancer Centre;|Florida State University;|U. Washington
http://dx.doi.org/10.1101/009837 2014-12-09 Evolutionary Biology Reticulate speciation and adaptive introgression in the Anopheles gambiae species complex Jacob Crawford|Michelle M. Riehle|Wamdaogo M. Guelbeogo|Awa Gneme|N'fale Sagnon|Kenneth D. Vernick|Rasmus Nielsen|Brian P. Lazzaro University of California, Berkeley;|University of Minnesota, St. Paul;|4.Centre National de Recherche et de Formation sur le Paludisme;|Institut Pasteur;|Cornell University
http://dx.doi.org/10.1101/012369 2014-12-09 Evolutionary Biology|Physiology An experimental test of the relationship between melanism and desiccation survival in insects Subhash Rajpurohit|Lisa Marie Peterson|Andrew Orr|Anthony J. Marlon|Allen G Gibbs University of Nevada
http://dx.doi.org/10.1101/012401 2014-12-08 Bioinformatics CC BY-NC-ND DensiTree 2: Seeing Trees Through the Forest Remco Bouckaert|Joseph Heled University of Auckland
http://dx.doi.org/10.1101/012468 2014-12-08 Genomics CC BY-NC-ND Evaluating intra- and inter-individual variation in the human placental transcriptome David A Hughes|Martin Kircher|Zhisong He|Song Guo|Genevieve L Fairbrother|Carlos S Moreno|Philipp Khaitovich|Mark Stoneking Universitat Pompeu Fabra;|University of Washington;|CAS-MPG Partner Institute for Computational Biology;|Obstetrics and Gynecology of Atlanta;|Department of Pathology and Laboratory Medicine and Department of Biomedical Informatics, Emory Univ;|Max-Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/012344 2014-12-08 Physiology CC BY-ND Online Self-Report Data for Duchenne Muscular Dystrophy confirms natural history and can be used to assess for therapeutic benefits Richard T Wang|Cheri A Silverstein Fadlon|J Wes Ulm|Ivana Jankovic|Ascia Eskin|Ake Lu|Vanessa Miller|Rita M Cantor|Ning Li|Robert Elashoff|Ann S Martin|Holly Peay|Stanley F Nelson UCLA;|PatientCrossroads;|Parent Project Muscular Dystrophy
http://dx.doi.org/10.1101/011973 2014-12-08 Scientific Communication CC BY From peer-reviewed to peer-reproduced: a role for data standards, models and computational workflows in scholarly publishing Alejandra Gonzalez-Beltran|Peter Li|Jun Zhao|Maria Susana Avila-Garcia|Marco Roos|Mark Thompson|Eelke van der Horst|Rajaram Kaliyaperumal|Ruibang Luo|Tin-Lap Lee|Tak-wah Lam|Scott C. Edmunds|Susanna-Assunta Sansone|Philippe Rocca-Serra Oxford e-Research Centre, University of Oxford;|GigaScience, BGI HK Research Institute;|InfoLab21, Lancaster University;|Nuffield Department of Medicine, Experimental Medicine Division, John Radcliffe Hospital;|Department of Human Genetics, Leiden University Medical Center;|HKU-BGI Bioinformatics Algorithms and Core Technology Research Laboratory & Department of Computer S;|School of Biomedical Sciences and CUHK-BGI Innovation Institute of Trans-omics, The Chinese Universi
http://dx.doi.org/10.1101/007492 2014-12-08 Bioinformatics CC BY-NC-ND QuASAR: Quantitative Allele Specific Analysis of Reads Chris Harvey|Gregory A Moyebrailean|Omar Davis|Xiaoquan Wen|Francesca Luca|Roger Pique-Regi Wayne State University;|Univ. Michigan
http://dx.doi.org/10.1101/007559 2014-12-08 Genomics Which genetic variants in DNase I sensitive regions are functional? Gregory A Moyerbrailean|Chris T Harvey|Cynthia A Kalita|Xiaoquan Wen|Francesca Luca|Roger Pique-Regi Wayne State University;|Univ. Michigan
http://dx.doi.org/10.1101/012385 2014-12-08 Genomics CC BY-NC-ND The genomic signature of social interactions regulating honey bee caste development Svjetlana Vojvodic|Brian R Johnson|Brock Harpur|Clement Kent|Amro Zayed|Kirk E Anderson|Timothy Linksvayer Rowan University;|University of California Davis;|York University, Canada;|Janelia Research Campus HHMI;|USDA Carl Hayden Bee Research Center;|University of Pennsylvania
http://dx.doi.org/10.1101/012393 2014-12-08 Microbiology CC BY-NC Genetic relateness of Haemophilus parasuis among reference strains and Chinese epidemic isolates min yue university of pennsylvania;|-
http://dx.doi.org/10.1101/012179 2014-12-05 Bioinformatics CC BY SpeedSeq: Ultra-fast personal genome analysis and interpretation Colby Chiang|Ryan M Layer|Gregory G Faust|Michael R Lindberg|David B Rose|Erik P Garrison|Gabor T Marth|Aaron R Quinlan|Ira M Hall Washington University in St. Louis;|University of Virginia;|Wellcome Trust Sanger Institute;|University of Utah School of Medicine
http://dx.doi.org/10.1101/012112 2014-12-05 Genomics Revealing missing isoforms encoded in the human genome by integrating genomic, transcriptomic and proteomic data Zhiqiang Hu|Hamish S. Scott|Guangrong Qin|Guangyong Zheng|Xixia Chu|Lu Xie|David L. Adelson|Bergithe E. Oftedal|Parvalthy Venugopal|Milena Barbic|Christopher N. Hahn|Bing Zhang|Xiaojing Wang|Nan Li|Chaochun Wei Shanghai Jiao Tong University;|Center for Cancer Biology;|Shanghai Center for Bioinformation Technology;|Chinese Academy of Science;|University of Adelaide;|Centre for Cancer Biology;|Centre for Cancer Biolgoy;|Vanderbilt University;|Second Military Medical University
http://dx.doi.org/10.1101/007369 2014-12-05 Evolutionary Biology CC BY-ND Comparative analysis of principal components can be misleading Josef C Uyeda|Daniel S. Caetano|Matthew W Pennell University of Idaho
http://dx.doi.org/10.1101/012237 2014-12-05 Neuroscience Structured dynamics of neural activity across developing neocortex James B Ackman|Hongkui Zeng|Michael C Crair UC Santa Cruz;|Allen Institute for Brain Science;|Yale University
http://dx.doi.org/10.1101/012278 2014-12-05 Genetics Likelihood Estimation with Incomplete Array Variate Observations Deniz Akdemir Cornell University
http://dx.doi.org/10.1101/012195 2014-12-04 Neuroscience CC BY-NC-ND Networks that learn the precise timing of event sequences Alan Veliz-Cuba|Harel Shouval|Kresimir Josic|Zachary Kilpatrick University of Houston;|University of Texas Medical School
http://dx.doi.org/10.1101/012203 2014-12-04 Genomics CC BY When to use Quantile Normalization? Stephanie C. Hicks|Rafael A. Irizarry Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/012161 2014-12-04 Bioinformatics Searching and Indexing Genomic Databases via Kernelization Travis Gagie|Simon J Puglisi University of Helsinki
http://dx.doi.org/10.1101/012138 2014-12-04 Evolutionary Biology CC BY-NC-ND Global geographic patterns of sexual size dimorphism in birds: Support for a latitudinal trend? Nicholas R Friedman|Vladimir Remes Palacký University
http://dx.doi.org/10.1101/012104 2014-12-03 Ecology A mechanistic model of the S-shaped population growth Lev V. Kalmykov Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, 142290 Pushchino,
http://dx.doi.org/10.1101/011148 2014-12-03 Systems Biology CC BY-NC-ND Natural Variation in Preparation for Nutrient Depletion Reveals a Cost-Benefit Tradeoff Jue Wang|Esha Atolia|Bo Hua|Yonatan Savir|Renan Escalante-Chong|Michael Springer Harvard Medical School
http://dx.doi.org/10.1101/011734 2014-12-03 Systems Biology CC BY-NC Stochasticity and negative feedback lead to pulsed dynamics and distinct gene activity patterns Samuel Zambrano|Marco E. Bianchi|Alessandra Agresti|Nacho Molina San Raffaele University, San Raffaele Scientific Institute;|San Raffaele University;|San Raffaele Scientific Institute;|University of Edinburgh
http://dx.doi.org/10.1101/012005 2014-12-03 Genetics CC BY-NC-ND Explicit modeling of ancestry improves polygenic risk scores and BLUP prediction Chia-Yen Chen|Jiali Han|David J. Hunter|Peter Kraft|Alkes L. Price Massachusetts General Hospital;|Indiana University;|Harvard School of Public Health
http://dx.doi.org/10.1101/012096 2014-12-03 Evolutionary Biology CC BY-NC Detecting the anomaly zone in species trees and evidence for a misleading signal in higher-level skink phylogeny (Squamata: Scincidae). Charles W Linkem|Vladimir N. Minin|Adam D Leache University of Washington, Seattle
http://dx.doi.org/10.1101/008318 2014-12-02 Cell Biology Choosing an appropriate modelling framework for analysing multispecies co-culture cell biology experiments Deborah C Markham|Matthew J Simpson|Ruth E Baker University of Oxford;|Queensland University of Technology
http://dx.doi.org/10.1101/012070 2014-12-02 Genomics CC BY The infant airway microbiome in health and disease impacts later asthma development Shu Mei Teo|Danny Mok|Kym Pham|Merci Kusel|Michael Serralha|Niamh Troy|Barbara J Holt|Belinda J Hales|Michael L Walker|Elysia Hollams|Yury H Bochkov|Kristine Grindle|Sebastian L Johnston|James E Gern|Peter D Sly|Patrick G Holt|Kathryn E Holt|Michael Inouye University of Melbourne;|Telethon Kids Institute;|University of Wisconsin;|Imperial College London;|University of Queensland
http://dx.doi.org/10.1101/012062 2014-12-01 Neuroscience CC BY-NC-ND Activation of dorsal raphe serotonergic neurons promotes persistent waiting independently of reinforcing effects Madalena Fonseca|Masayoshi Murakami|Zachary F. Mainen Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/012021 2014-11-30 Evolutionary Biology CC BY Bet-hedging, seasons and the evolution of behavioral diversity in Drosophila Jamey Kain|Sarah Zhang|Mason Klein|Aravinthan Samuel|Benjamin de Bivort Harvard University
http://dx.doi.org/10.1101/011999 2014-11-29 Neuroscience CC BY-NC NODE DETECTION USING HIGH-DIMENSIONAL FUZZY PARCELLATION APPLIED TO THE INSULAR CORTEX Ugo Vercelli|Matteo Diano|Tommaso Costa|Sergio Duca|Giuliano Geminiani|Alessandro Vercelli|Franco Cauda Torino University;|†Department of Psychology, University of Turin, Turin, Italy;|*CCS fMRI, Koelliker Hospital, Turin, Italy;|‡Department of Neuroscience, AOU San Giovanni Battista, Turin, Italy
http://dx.doi.org/10.1101/012013 2014-11-29 Genomics CC BY-NC-ND msCentipede: Modeling heterogeneity across genomic sites improves accuracy in the inference of transcription factor binding Anil Raj|Heejung Shim|Yoav Gilad|Jonathan K Pritchard|Matthew Stephens Department of Genetics, Stanford University, Stanford;|Department of Human Genetics, University of Chicago, Chicago;|Department of Genetics, Department Biology, Stanford University and Howard Hughes Medical Institute;|Department of Human Genetics, Department of Statistics, University of Chicago, Chicago
http://dx.doi.org/10.1101/011908 2014-11-29 Animal Behavior and Cognition Division of Labor: A Democratic Approach to Understanding Manual Asymmetries in Non-Human Primates Madhur Mangalam|Nisarg Desai|Mewa Singh University of Georgia, Athens, United States of America;|Indian Institute of Science Education and Research, Pune, India;|University of Mysore, Mysore, India
http://dx.doi.org/10.1101/011932 2014-11-29 Ecology An Integrated Modelling Framework for the Forest-based Bioeconomy Sarah Mubareka|Ragnar Jonsson|Francesca Rinaldi|Giulia Fiorese|Jesus San-Miguel-Ayanz|Ola Sallnas|Claudia Baranzelli|Roberto Pilli|Carlo Lavalle|Alban Kitous European Commission, Joint Research Centre, Institute for Environment and Sustainability;|European Commission, Joint Research Centre, Institute for Prospective Technological Studies
http://dx.doi.org/10.1101/011916 2014-11-29 Animal Behavior and Cognition Division of Labor in Hand Usage Is Associated with Higher Hand Performance in Free-Ranging Bonnet Macaques, Macaca radiata Madhur Mangalam|Nisarg Desai|Mewa Singh University of Georgia, Athens, United States of America;|Indian Institute of Science Education and Research, Pune;|University of Mysore, Mysore, India
http://dx.doi.org/10.1101/011965 2014-11-29 Ecology Estimating the effects of water-induced shallow landslides on soil erosion Claudio Bosco|Graham Sander Loughborough University, Department of Civil and Building Engineering Loughborough, United Kingdom
http://dx.doi.org/10.1101/004184 2014-11-28 Evolutionary Biology CC BY Flexible methods for estimating genetic distances from nucleotide data Simon Joly|David J Bryant|Peter J Lockhart Montreal Botanical Garden;|University of Otago;|Massey University
http://dx.doi.org/10.1101/011882 2014-11-28 Bioinformatics CC BY-NC-ND Reveel: large-scale population genotyping using low-coverage sequencing data Lin Huang|Bo Wang|Ruitang Chen|Sivan Bercovici|Serafim Batzoglou Stanford University
http://dx.doi.org/10.1101/011866 2014-11-27 Evolutionary Biology Demographic inference using genetic data from a single individual: separating population size variation from population structure Olivier Mazet|Willy Rodriguez|Lounes Chikhi INSA Toulouse;|Institut de Mathématiques de Toulouse (IMT);|Universitè de Toulouse, UPS, EDB, F-31062 Toulouse, France
http://dx.doi.org/10.1101/011858 2014-11-26 Systems Biology CC BY-ND On the scope and limitations of baker's yeast as a model organism for studying human tissue-specific pathways Shahin Mohammadi|Baharak Saberidokht|Shankar Subramaniam|Ananth Grama Purdue Universi;|Purdue Univeristy;|UCSD;|Purdue University
http://dx.doi.org/10.1101/011783 2014-11-26 Animal Behavior and Cognition Social communication in mice – Are there optimal cage conditions? Allain-Thibeault FERHAT|Anne-Marie Le Sourfd|Fabrice de Chamont|Jean-Christophe Olivo- Marin|Thomas Bourgeron|Elodie Ey Institut Pasteur
http://dx.doi.org/10.1101/011791 2014-11-26 Bioinformatics CC BY FlexAID: Revisiting docking on non native-complex structures Francis Gaudreault|Rafael Najmanovich Université de Sherbrooke
http://dx.doi.org/10.1101/011817 2014-11-26 Evolutionary Biology Recent Y chromosome divergence despite ancient origin of dioecy in poplars (Populus) Armando Geraldes|Charles A Hefer|Arnaud Capron|Natalia Kolosova|Felix Martinez-Nunez|Raju Y Soolanayakanahally|Brian Stanton|Robert D Guy|Shawn D Mansfield|Carl J Douglas|Quentin C B Cronk University of British Columbia;|Agriculture and Agri-Food Canada;|Greenwood Resources
http://dx.doi.org/10.1101/010876 2014-11-25 Bioinformatics CC BY CNVkit: Copy number detection and visualization for targeted sequencing using off-target reads Eric Talevich|A. Hunter Shain|Thomas Botton|Boris C. Bastian Departments of Dermatology and Pathology, University of California, San Francisco
http://dx.doi.org/10.1101/011775 2014-11-25 Genetics CC BY-NC-ND Spider web DNA: a new spin on noninvasive genetics of predator and prey Charles Cong Yang Xu|Ivy J Yen|Dean Bowman|Cameron R. Turner University of Notre Dame;|Potawatomi Zoo
http://dx.doi.org/10.1101/004572 2014-11-24 Evolutionary Biology CC BY-NC Detecting patterns of species diversification in the presence of both rate shifts and mass extinctions Sacha Laurent|Marc Robinson-Rechavi|Nicolas Salamin University of Lausanne
http://dx.doi.org/10.1101/011767 2014-11-24 Bioinformatics Mixture models reveal multiple positional bias types in RNA-Seq data and lead to accurate transcript concentration estimates Andreas Tuerk|Gregor Wiktorin|Serhat Guler Lexogen GmbH
http://dx.doi.org/10.1101/011759 2014-11-24 Genomics CC BY-NC Genetic landscape of populations along the Silk Road: admixture and migration patterns Massimo Mezzavilla|Diego Vozzi|Nicola Pirastu|Giorgia Girotto|Pio D'Adamo|Paolo Gasparini|Vincenza Colonna Institute for Maternal and Child Health - IRCCS Burlo Garofolo, Trieste, Italy;|National Research Council
http://dx.doi.org/10.1101/009126 2014-11-24 Biophysics CC BY-ND DNA Denaturing through UV-C Photon Dissipation: A Possible Route to Archean Non-enzymatic Replication Karo Michaelian|Norberto Santillan Padilla Instituto de Física, UNAM;|Facultad de Ciencias, UNAM
http://dx.doi.org/10.1101/011700 2014-11-24 Bioinformatics CC BY Cell-Line Annotation on Europe PubMed Central Jee-Hyub Kim EMBL-EBI
http://dx.doi.org/10.1101/003087 2014-11-24 Biophysics Chromatin Loops as Allosteric Modulators of Enhancer-Promoter Interactions Boryana Doyle|Geoffrey Fudenberg|Maxim Imakaev|Leonid Mirny MIT;|Harvard
http://dx.doi.org/10.1101/011676 2014-11-24 Plant Biology CC BY-NC-ND A systematic simulation of the effect of salicylic acid on sphingolipid metabolism Chao Shi|Jian Yin|Zhe Liu|Jian-Xin Wu|Qi Zhao|Jian Ren|Nan Yao Sun Yat-sen University
http://dx.doi.org/10.1101/011718 2014-11-20 Bioinformatics CC BY-ND CLASS: Accurate and Efficient Splice Variant Annotation from RNA-seq Reads Li Song|Sarven Sabunciyan|Liliana D Florea Johns Hopkins University
http://dx.doi.org/10.1101/008623 2014-11-20 Evolutionary Biology Estimating the temporal and spatial extent of gene flow among sympatric lizard populations (genus Sceloporus) in the southern Mexican highlands Jared A Grummer|Martha L. Calderon|Adrian Nieto Montes-de Oca|Eric N Smith|Fausto Mendez-de la Cruz|Adam Leache University of Washington;|Universidad Nacional de Colombia;|Universidad Nacional Autónoma de México;|University of Texas at Arlington
http://dx.doi.org/10.1101/011668 2014-11-19 Bioinformatics CC BY-NC-ND A novel computational approach for genome-wide prediction of small RNAs in bacteria Lei Li|Hoi Shan Kwan Institute for Molecular Infection Biology;|School of Life Sciences, The Chinese University of Hong Kong
http://dx.doi.org/10.1101/011635 2014-11-19 Plant Biology Distinct regulatory modules identified in the promoters of wheat Glu-1 genes suggest different regulatory mechanisms Szabolcs Makai|Laszlo Tamas|Angela Juhasz MTA ATK;|Eotvos University, Department of Plant Physiology and Molecular Biology;|MTA ATK, Department of Applied Genomics
http://dx.doi.org/10.1101/011650 2014-11-19 Bioinformatics CC BY-NC-ND FusionCatcher - a tool for finding somatic fusion genes in paired-end RNA-sequencing data Daniel Nicorici|Mihaela Satalan|Henrik Edgren|Sara Kangaspeska|Astrid Murumagi|Olli Kallioniemi|Sami Virtanen|Olavi Kilkku Orion Corporation;|Florida Hospital Heartland Medical Center;|Institute for Molecular Medicine Finland
http://dx.doi.org/10.1101/011429 2014-11-19 Evolutionary Biology CC BY-NC-ND Increased evolutionary rate in the 2014 West African Ebola outbreak is due to transient polymorphism and not positive selection Stephanie J. Spielman|Austin G. Meyer|Claus O. Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/009464 2014-11-19 Genetics CC BY-NC-ND Accounting for eXentricities: Analysis of the X chromosome in GWAS reveals X-linked genes implicated in autoimmune diseases Diana Chang|Feng Gao|Li Ma|Aaron Sams|Andrea Slavney|Yedael Waldman|Paul Billing-Ross|Aviv Madar|Richard Spritz|Alon Keinan Cornell University;|University of Colorado
http://dx.doi.org/10.1101/010330 2014-11-19 Animal Behavior and Cognition CC BY-ND How predator hunting-modes affect prey behaviour: Capture deterrence in Drosophila melanogaster Abhijna Parigi|Cody Porter|Megan Cermak|William R. Pitchers|Ian Dworkin Michigan State University;|University of Wyoming
http://dx.doi.org/10.1101/011585 2014-11-18 Bioinformatics CC BY Triticeae resources in Ensembl Plants Dan M Bolser|Arnaud Kerhornou|Brandon Walts|Paul Kersey EMBL-European Bioinformatics Institute
http://dx.doi.org/10.1101/011593 2014-11-18 Evolutionary Biology Expansion load: recessive mutations and the role of standing genetic variation Stephan Peischl|Laurent Excoffier University of Berne
http://dx.doi.org/10.1101/011577 2014-11-18 Evolutionary Biology Phenotypic Convergence in Bacterial Adaptive Evolution to Ethanol Stress Takaaki Horinouchi|Shingo Suzuki|Takashi Hirasawa|Naoaki Ono|Tetsuya Yomo|Hiroshi Shimizu|Chikara Furusawa RIKEN;|Tokyo Institute of Technology;|Nara Institute of Science and Technology;|Osaka University
http://dx.doi.org/10.1101/009423 2014-11-18 Biophysics CC BY-NC-ND Relationship between protein thermodynamic constraints and variation of evolutionary rates among sites Julian Echave|Eleisha L. Jackson|Claus O. Wilke Universidad Nacional de San Martin;|The University of Texas at Austin
http://dx.doi.org/10.1101/011502 2014-11-18 Genomics Full-genome evolutionary histories of selfing, splitting and selection in Caenorhabditis Cristel G. Thomas|Wei Wang|Richard Jovelin|Rajarshi Ghosh|Tatiana Lomasko|Quang Trinh|Leonid Kruglyak|Lincoln D Stein|Asher D Cutter University of Toronto;|Baylor College of Medicine;|Ontario Institute for Cancer Research;|UCLA
http://dx.doi.org/10.1101/011494 2014-11-17 Molecular Biology CC BY-ND Polymerase ζ activity is linked to replication timing in humans: evidence from mutational signatures Vladimir B Seplyarskiy|Georgii A. Bazykin|Ruslan A. Soldatov Moscow State University
http://dx.doi.org/10.1101/011528 2014-11-17 Genomics CC BY-NC The impact of comorbidity of intellectual disability on estimates of autism prevalence among children enrolled in US special education Andrew Polyak|Richard M Kubina|Santhosh Girirajan The Pennsylvania State University;|Penn State University
http://dx.doi.org/10.1101/011510 2014-11-17 Genomics CC BY-NC Gene discovery and functional assessment of rare copy-number variants in neurodevelopmental disorders Janani Iyer|Santhosh Girirajan The Pennsylvania State University;|Penn State University
http://dx.doi.org/10.1101/002832 2014-11-17 Bioinformatics CC BY Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 Michael I Love|Wolfgang Huber|Simon Anders Harvard School of Public Health;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/011460 2014-11-15 Bioinformatics CC BY-NC-ND A robust statistical framework for reconstructing genomes from metagenomic data Dongwan Don Kang|Jeff Froula|Rob Egan|Zhong Wang Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/011452 2014-11-15 Evolutionary Biology CC BY-ND How Well Can We Detect Shifts in Rates of Lineage Diversification? A Simulation Study of Sequential AIC Methods Michael R May|Brian R Moore University of California, Davis
http://dx.doi.org/10.1101/011445 2014-11-15 Bioinformatics Circumstantial Evidence? Comparison of Statistical Learning Methods using Functional Annotations for Prioritizing Risk Variants Sarah A Gagliano|Reena Ravji|Michael R Barnes|Michael E Weale|Jo Knight Centre for Addiction and Mental Health;|Queen Mary University of London;|King's College London
http://dx.doi.org/10.1101/010629 2014-11-14 Evolutionary Biology CC BY-NC-ND Bayesian analyses of Yemeni mitochondrial genomes suggest multiple migration events with Africa and Western Eurasia Deven Nikunj Vyas|Andrew Kitchen|Aida Teresa Miro-Herrans|Laurel Nichole Pearson|Ali Al-Meeri|Connie Jo Mulligan Department of Anthropology and Genetics Institute, University of Florida, Gainesville, Florida;|Department of Anthropology, University of Iowa, Iowa City, Iowa;|Department of Anthropology, University of Texas at Austin, Austin, Texas;|Department of Anthropology, Penn State University, University Park, Pennsylvania;|Department of Clinical Biochemistry, University of Sana'a, Sana'a, Yemen
http://dx.doi.org/10.1101/011437 2014-11-14 Genetics CC BY R/qtlcharts: interactive graphics for quantitative trait locus mapping Karl W Broman University of Wisconsin - Madison
http://dx.doi.org/10.1101/009407 2014-11-14 Genomics MUSiCC: A marker genes based framework for metagenomic normalization and accurate profiling of gene abundances in the microbiome. Ohad Manor|Elhanan Borenstein University of Washington
http://dx.doi.org/10.1101/011387 2014-11-14 Immunology V genes in rodents from whole genome sequencing data David Olivieri|Santiago Gambon-Cerda|Francisco Gambon-Deza Universidad de Vigo;|Servicio Gallego de Salud (SERGAS),Hospital do Meixoeiro
http://dx.doi.org/10.1101/011411 2014-11-13 Molecular Biology CC BY-NC Sequence and primer independent stochastic heterogeneity in PCR amplification efficiency revealed by single molecule barcoding Katharine Best|Theres Oakes|James M Heather|John Shawe-Taylor|Benny Chain UCL
http://dx.doi.org/10.1101/011379 2014-11-13 Zoology CC BY-NC-ND Recognition and identification of species in the Bombus lucorum-complex - A review and outlook Silas Bossert University of Vienna
http://dx.doi.org/10.1101/008615 2014-11-12 Systems Biology CC BY-NC Modelling reactions catalysed by carbohydrate-active enzymes Onder Kartal|Oliver Ebenhoh University of Zurich;|Heinrich-Heine-University Düsseldorf
http://dx.doi.org/10.1101/011353 2014-11-12 Genomics CC BY-ND Accurate Identification of Active Transcriptional Regulatory Elements from Global Run-On and Sequencing Data Charles G Danko|Stephanie L Hyland|Leighton J Core|Andre L Martins|Colin T Waters|Hyung Won Lee|Vivian G Cheung|W. Lee Kraus|John T. Lis|Adam Siepel Cornell University;|University of Michigan, Ann Arbor;|University of Texas Southwestern Medical Center;|Cold Spring Harbor Labs
http://dx.doi.org/10.1101/010389 2014-11-11 Bioinformatics CC BY-ND Mapping a viral phylogeny onto outbreak trees to improve host transmission inference Stephen P Velsko|Jonathan E Allen LLNL
http://dx.doi.org/10.1101/009555 2014-11-10 Neuroscience CC BY-NC-ND Abnormal X Chromosome Inactivation in Females with Major Psychiatric Disorders Baohu Ji|Kerin K Higa|John Kelsoe|Xianjin Zhou UCSD
http://dx.doi.org/10.1101/011262 2014-11-10 Cancer Biology CC BY-NC CGMD: An integrated database of Cancer Genes and Markers Pradeep K Jangampalli Adi|Kranthi K Konidala|Nanda K Yellapu|Balasubramanyam L|Bhaskar Matcha Sri Venkateswara University, Division of Animal Biotechnology, Department of Zoology, Tirupati - 51;|Biomedical Informatics Centre, Vector Control Research Centre, Indian Council of Medical Research,
http://dx.doi.org/10.1101/008714 2014-11-10 Evolutionary Biology A Consistent Estimator of the Evolutionary Rate Krzysztof Bartoszek|Serik Sagitov Uppsala University;|University of Gothenburg
http://dx.doi.org/10.1101/006684 2014-11-10 Evolutionary Biology CC BY-NC-ND Long-term balancing selection in LAD1 maintains a missense trans-species polymorphism in humans, chimpanzees and bonobos Joao C. Teixeira|Cesare de Filippo|Antje Weihmann|Juan R. Meneu|Fernando Racimo|Michael Dannemann|Birgit Nickel|Anne Fischer|Michel Halbwax|Claudine Andre|Rebeca Atencia|Matthias Meyer|Genis Parra|Svante Paabo|Aida M. Andres Max Planck Institute for Evolutionary Anthropology;|University of California - Berkeley;|International Center for Insect Physiology and Ecology, Nairobi;|Clinique veétérinaire du Dr. Jacquemin, Maisons-Alfort;|Lola Ya Bonobo sanctuary, Kinshasa;|Réserve Naturelle Sanctuaire à Chimpanzés de Tchimpounga, Jane Goodall Institute,
http://dx.doi.org/10.1101/011304 2014-11-10 Genetics Ovarian embryonal rhabdomyosarcoma is a rare manifestation of the DICER1 syndrome Leanne de Kock|Harriet Druker|Evan Weber|Nancy Hamel|Jeffery Traubici|David Malkin|Jocelyne Arseneau|Dorothee Bouron-Dal Soglio|John R. Priest|William D. Foulkes McGill University;|The Hospital for Sick Children;|Research Institute of the McGill University Health Centre;|esearch Institute of the McGill University Health Centre;|CHU-Sainte Justine;|Not applicable
http://dx.doi.org/10.1101/005314 2014-11-10 Evolutionary Biology Phylogenetic confidence intervals for the optimal trait value Krzysztof Bartoszek|Serik Sagitov Department of Mathematics, Uppsala University;|Mathematical Sciences, Chalmers University of Technology and the Unviersity of Gothenburg
http://dx.doi.org/10.1101/005561 2014-11-10 Evolutionary Biology Quantifying the effects of anagenetic and cladogenetic evolution Krzysztof Bartoszek Uppsala University
http://dx.doi.org/10.1101/011288 2014-11-10 Systems Biology CC BY Modes of interaction between individuals dominate the topologies of real world networks Insuk Lee|Eiru Kim|Edward M. Marcotte Yonsei University;|University of Texas
http://dx.doi.org/10.1101/011296 2014-11-10 Neuroscience CC BY-NC Where's the noise? Key features of neuronal variability and inference emerge from self-organized learning Christoph Hartmann|Andreea Lazar|Jochen Triesch Frankfurt Institute for Advanced Studies (FIAS);|Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society
http://dx.doi.org/10.1101/011270 2014-11-09 Genetics CC BY-NC-ND A multivariate genome-wide association analysis of 10 LDL subfractions, and their response to statin treatment, in 1868 Caucasians Heejung Shim|Daniel I Chasman|Joshua D Smith|Samia Mora|Paul M Ridker|Deborah A Nickerson|Ronald M Krauss|Matthew Stephens University of Chicago;|Brigham and Womens Hospital and Harvard Medical School;|University of Washington, Seattle;|Childrens Hospital Oakland Research Institute
http://dx.doi.org/10.1101/011247 2014-11-08 Evolutionary Biology CC BY A Hidden Markov Model for Investigating Recent Positive Selection through Haplotype Structure Hua Chen|Jody Hey|Montgomery Slatkin BIG;|CCGG;|UC-Berkeley
http://dx.doi.org/10.1101/011205 2014-11-07 Bioinformatics Tools and Methods from the Anopheles 16 Genome Project Aaron Steele|Michael C. Fontaine|Andres Martin|Scott J Emrich University of Notre Dame;|University of Groningen
http://dx.doi.org/10.1101/011221 2014-11-07 Genomics CC BY-ND WASP: allele-specific software for robust discovery of molecular quantitative trait loci Bryce van de Geijn|Graham McVicker|Yoav Gilad|Jonathan Pritchard University of Chicago;|Stanford University
http://dx.doi.org/10.1101/011072 2014-11-07 Ecology CC BY-NC-ND Bemovi, software for extracting BEhaviour and MOrphology from VIdeos. Frank Pennekamp|Nicolas Schtickzelle|Owen L. Petchey University of Zurich;|Université catholique de Louvain
http://dx.doi.org/10.1101/011213 2014-11-07 Evolutionary Biology CC BY-NC-ND What to compare and how: comparative transcriptomics for Evo-Devo Julien Roux|Marta Rosikiewicz|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/011197 2014-11-06 Bioinformatics CC BY Annotating RNA motifs in sequences and alignments Paul P Gardner|Hisham Eldai University of Canterbury
http://dx.doi.org/10.1101/010967 2014-11-06 Molecular Biology CC BY Resolving microbial microdiversity with high accuracy full length 16S rRNA Illumina sequencing Catherine Burke|Aaron E Darling University of Technology Sydney
http://dx.doi.org/10.1101/011130 2014-11-06 Bioinformatics CC BY Identifying highly-penetrant disease causal mutations using next generation sequencing: Guide to whole process Mesut Erzurumluoglu University of Bristol
http://dx.doi.org/10.1101/008359 2014-11-04 Cell Biology CC BY TACC3-ch-TOG track the growing tips of microtubules independently of clathrin and Aurora-A phosphorylation Cristina Gutierrez-Caballero|Selena G Burgess|Richard Bayliss|Stephen J Royle Warwick Medical School;|University of Leicester
http://dx.doi.org/10.1101/011023 2014-11-04 Evolutionary Biology CC BY-NC-ND GC-content evolution in bacterial genomes: the biased gene conversion hypothesis expands. Florent Lassalle|Severine Perian|Thomas Bataillon|Xavier Nesme|Laurent Duret|Vincent Daubin CNRS, UCBL, UMR 5558, Laboratoire de Biometrie et Biologie Evolutive, 69622 Villeurbanne, France;|Aarhus University, Bioinformatics Research Center, Århus C, Denmark;|CNRS, INRA UMR 5557, Ecologie Microbienne, 69622 Villeurbanne, France
http://dx.doi.org/10.1101/008938 2014-11-04 Developmental Biology CC BY-ND Systematic Imaging Reveals Features of Localized mRNAs and Their Changing Subcellular Destinations in Development Helena Jambor|Vineeth Surendranath|Alex T. Kalinka|Pavel Mejstrik|Stephan Saalfeld|Pavel Tomancak Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/011049 2014-11-03 Systems Biology CC BY-NC-ND Phenotypic heterogeneity implements a game theoretic mixed strategy in a clonal microbial population David Healey|Jeff Gore Massachusetts Institute of Technology
http://dx.doi.org/10.1101/011056 2014-11-03 Systems Biology CC BY-NC-ND Reverse enGENEering of regulatory networks from Big Data: a guide for a biologist Andrey Morgun|Xiaoxi Dong|Anatoly Yambartsev|Stephen Ramsey|lina Thomas|Natalia Shulzhenko OSU;|oregon state university;|Department of Statistics, Institute of Mathematics and Statistics, University of Sao Paulo
http://dx.doi.org/10.1101/002626 2014-11-03 Developmental Biology Production of systemically circulating Hedgehog by the intestine couples nutrition to growth and development Jonathan Rodenfels|Oksana Lavrynenko|Sophie Ayciriex|Julio L Sampaio|Maria Carvalho|Andrej Shevchenko|Suzanne Eaton Max-Planck-Institute for Cell Biology and Genetics;|Max-Planck-Institute of Cell Biology and Genetics
http://dx.doi.org/10.1101/010983 2014-10-31 Neuroscience CC BY-NC-ND Frequently Asked Questions for: The Atoms of Neural Computation Gary F Marcus|Adam Henry Marblestone|Thomas Linus Dean NYU;|MIT;|Google
http://dx.doi.org/10.1101/010959 2014-10-31 Evolutionary Biology Analyses of Eurasian wild and domestic pig genomes reveals long-term gene-flow during domestication Laurent A.F. Frantz|Joshua Schraiber|Ole Madsen|Hendrik-Jan Megens|Alex Cagan|Mirte Bosse|Yogesh Paudel|Richard P.M.A. Crooijmans|Greger Larson|Martien A.M. Groenen Animal Breeding and Genomics Group, Wageningen University;|University of Washington;|Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology;|Research Laboratory for Archeology, Oxford
http://dx.doi.org/10.1101/010900 2014-10-31 Genetics Establishing the characteristics of an effective pharmacogenetic test for clozapine induced agranulocytosis Moira Verbelen|David A Collier|Dan Cohen|James H MacCabe|Cathryn M Lewis King's College London;|Eli Lilly and Company Ltd;|Mental Health Care Organization North-Holland North
http://dx.doi.org/10.1101/004002 2014-10-31 Evolutionary Biology CC BY Model adequacy and the macroevolution of angiosperm functional traits Matthew Pennell|Richard G FitzJohn|William K Cornwell|Luke J Harmon University of Idaho;|Macquarie University;|University of New South Wales
http://dx.doi.org/10.1101/010751 2014-10-30 Neuroscience Arousal and locomotion make distinct contributions to cortical activity patterns and visual encoding Martin Vinck|Renata Batista-Brito|Ulf Knoblich|Jessica A Cardin Yale University, Department of Neurobiology
http://dx.doi.org/10.1101/010942 2014-10-30 Evolutionary Biology Comparative genomics reveals the origins and diversity of arthropod immune systems William J Palmer|Francis M Jiggins Department of Genetics, University of Cambridge
http://dx.doi.org/10.1101/010884 2014-10-30 Bioinformatics CC BY-ND Enhanced Transcriptome Maps from Multiple Mouse Tissues Reveal Evolutionary Constraint in Gene Expression for Thousands of Genes Dmitri Pervouchine|Sarah Djebali|Alessandra Breschi|Carrie A Davis|Pablo Prieto Barja|Alex Dobin|Andrea Tanzer|Julien Lagarde|Chris Zaleski|Lei-Hoon See|Meagan Fastuca|Jorg Drenkow|Huaien Wang|Giovanni Bussotti|Baikang Pei|Suganthi Balasubramanian|Jean Monlong|Arif Harmanci|Mark Gerstein|Michael A Beer|Cedric Notredame|Roderic Guigo|Thomas R Gingeras Centre for Genomic Regulation and UPF;|Cold Spring Harbor Laboratory, Functional Genomics;|Institute for Theoretical Chemistry, University of Vienna;|Program in Computational Biology and Bioinformatics, Yale University;|Department of Human Genetics, McGill University;|Johns Hopkins University
http://dx.doi.org/10.1101/010926 2014-10-30 Bioinformatics CC BY Genome-wide comparative analysis reveals human- mouse regulatory landscape and evolution Olgert Denas|Richard Sandstrom|Yong Cheng|Kathryn Beal|Javier Herrero|Ross Hardison|James Taylor Emory University;|University of Washington;|Stanford University;|EBI;|The Genome Analysis Centre;|Penn State University;|Johns Hopkins University
http://dx.doi.org/10.1101/010918 2014-10-29 Evolutionary Biology Exploring the phenotypic space and the evolutionary history of a natural mutation in Drosophila melanogaster Anna Ullastres|Natalia Petit|Josefa Gonzalez Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra);|Institute of Evolutionary Biology
http://dx.doi.org/10.1101/010850 2014-10-29 Evolutionary Biology CC BY Landscape and evolutionary dynamics of terminal-repeat retrotransposons in miniature (TRIMs) in 48 whole plant genomes Dongying Gao|Yupeng Li|Brian Abernathy|Scott Jackson Center for Applied Genetic Technologies, University of Georgia
http://dx.doi.org/10.1101/003863 2014-10-29 Neuroscience CC BY-ND Application of the radial distribution function for quantitative analysis of neuropil microstructure in stratum radiatum of CA1 region in hippocampus. Yuriy Mishchenko Toros University
http://dx.doi.org/10.1101/010793 2014-10-28 Ecology CC BY-NC-ND Settlement, growth and survival of eastern oysters on alternative reef substrates Seth J. Theuerkauf|Russell P. Burke|Romuald N. Lipcius North Carolina State University;|Christopher Newport University;|Virginia Institute of Marine Science, College of William & Mary
http://dx.doi.org/10.1101/010819 2014-10-28 Evolutionary Biology CC BY-NC Introns structure patterns of variation in nucleotide composition in Arabidopsis thaliana and rice protein-coding genes Adrienne Ressayre|Sylvain Glemin|Pierre Montalent|Laurana Serres-Giardi|Christine Dillmann|Johann Joets INRA/Univ. Paris Sud/CNRS;|CNRS - Univeristé Montpellier II;|INRA, UMR 1345 IRHS;|Univ. Paris Sud/INRA/CNRS
http://dx.doi.org/10.1101/009746 2014-10-28 Evolutionary Biology CC BY-NC-ND Collective action and the collaborative brain Sergey Gavrilets University of Tennessee
http://dx.doi.org/10.1101/010785 2014-10-28 Genetics CC BY-ND Genome-wide association study of carbon and nitrogen metabolism in the maize nested association mapping population Nengyi Zhang|Yves Gibon|Nicholas Lepak|Pinghua Li|Lauren Dedow|Charles Chen|Yoon-Sup So|Jason Wallace|Karl Kremling|Peter Bradbury|Thomas Brutnell|Mark Stitt|Edward Buckler Cornell University; BASF;|Max Planck Institute of Molecular Plant Physiology;|USDA-ARS;|Cornell University; Shandong Agricultural University;|Cornell University; University of California - Riverside;|Cornell University; CIMMYT;|North Carolina State University; Chonbuk National University;|Cornell University;|Cornell University; Donald Danforth Plant Science Center;|USDA-ARS, Cornell University
http://dx.doi.org/10.1101/010801 2014-10-28 Bioinformatics CC BY-NC-ND FORMAL: A model to identify organisms present in metagenomes using Monte Carlo Simulation Genivaldo Gueiros Z. Silva|Bas E. Dutilh|Robert A. Edwards San Diego State University;|Radboud University Medical Centre
http://dx.doi.org/10.1101/010835 2014-10-28 Developmental Biology CC BY-NC-ND A framework for the analysis of symmetric and asymmetric divisions in developmental processes Pau Rue|Yung Hae Kim|Hjalte List Larsen|Anne Grapin-Botton|Alfonso Martinez Arias University of Cambridge;|DanStem, University of Copenhagen
http://dx.doi.org/10.1101/009589 2014-10-27 Ecology Applying Geospatial Semantic Array Programming for a Reproducible Set of Bioclimatic Indices in Europe Giovanni Caudullo European Commision, Joint Research Centre
http://dx.doi.org/10.1101/010702 2014-10-27 Genomics CC BY-NC-ND DNA methylation and gene expression dynamics during cotton ovule and fiber development Qingxin Song|Xueying Guan|Z. Jeffrey Chen University of Texas at Austin
http://dx.doi.org/10.1101/010769 2014-10-27 Genomics CC BY-NC-ND Extensive capsule locus variation and large-scale genomic recombination within the Klebsiella pneumoniae clonal complex 258/11. Kelly L Wyres|Claire Gorrie|David J Edwards|Heiman FL Wertheim|Li Yang Hsu|Nguyen Van Kinh|Ruth Zadoks|Stephen Baker|Kathryn E Holt IBM Research - Australia; Bio21 Institute, University of Melbourne;|Bio21 Institute, University of Melbourne;|Wellcome Trust Major Overseas Programme, Oxford University Clinical Research Unit;|National Hospital for Tropical Diseases, Hanoi, Vietnam;|College of Medical, Veterinary and Life Sciences, University of Glasgow; Moredun Research Institute;|Wellcome Trust Major Overseas Programme, Oxford University Clinical Research Unit; LSHTM;|Bio21 Istitute, University of Melbourne
http://dx.doi.org/10.1101/010546 2014-10-27 Genomics Transcriptome Sequencing Reveals Widespread Gene-Gene and Gene-Environment Interactions Alfonso Buil|Andrew A Brown|Tuuli Lappalainen|Ana Vinuela|Matthew N Davies|Houfeng F Zheng|Brent J Richards|Daniel Glass|Kerrin S Small|Richard Durbin|Timothy D Spector|Emmanouil T Dermitzakis University of Geneva;|Wellcome Trust Sanger Institute;|Department of Genetic Medicine and Development;|Department of Twin Research, Kings College London;|Department of Medicine, Human Genetics, Epidemiology and Biostatistics McGill Univer;|Department of Medicine, Human Genetics, Epidemiology and Biostatistics McGill University;|Emmanouil T. Dermitzakis Department of Genetic Medicine and Development, University of Geneva
http://dx.doi.org/10.1101/004507 2014-10-27 Bioinformatics CC BY Using 2k + 2 bubble searches to find SNPs in k-mer graphs Reda Younsi|Dan MacLean The Sainsbury Laboratory
http://dx.doi.org/10.1101/007476 2014-10-27 Genomics CC BY-NC-ND Bayesian mixture analysis for metagenomic community profiling. Sofia Morfopoulou|Vincent Plagnol University College London Genetics Institute
http://dx.doi.org/10.1101/010710 2014-10-25 Genomics Extrapolating histone marks across developmental stages, tissues, and species: an enhancer prediction case study John Anthony Capra Vanderbilt University
http://dx.doi.org/10.1101/010652 2014-10-24 Developmental Biology Interplay of TGFb superfamily members governs optic fissure closure Stephan Heermann|Priska Eckert|Juan L Mateo|Eleni Roussa|Belal Rahhal|Aimee Zuniga|Kerstin Krieglstein|Joachim Wittbrodt COS Heidelberg;|Molecular Embryology Freiburg;|Developmental Genetics, Basel
http://dx.doi.org/10.1101/010595 2014-10-24 Evolutionary Biology Deciphering the genetic and transcriptional basis of cross-stress responses in Escherichia coli under complex evolutionary scenarios Violeta Zorraquino-Salvo|Semarhy Quinones-Soto|Minseung Kim|Navneet Rai|Ilias Tagkopoulos UC Davis Genome Center;|UC Davis Department of Computer Science;|UC Davis Department of Computer Science & Genome Center
http://dx.doi.org/10.1101/009373 2014-10-24 Evolutionary Biology CC BY-NC-ND Genome-Wide Mapping In A House Mouse Hybrid Zone Reveals Hybrid Sterility Loci And Dobzhansky-Muller Interactions Leslie Turner|Bettina Harr Max Planck Insitute for Evolutionary Biology;|Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/006791 2014-10-24 Neuroscience CC BY-NC-ND Bonsai: An event-based framework for processing and controlling data streams Goncalo Lopes|Niccolo Bonacchi|Joao Frazao|Joana P. Neto|Bassam V. Atallah|Sofia Soares|Luis Moreira|Sara Matias|Pavel M. Itskov|Patricia A. Correia|Roberto E. Medina|Lorenza Calcaterra|Elena Dreosti|Joseph J. Paton|Adam R. Kampff Champalimaud Neuroscience Programme, Champalimaud Centre for the Unknown, Lisbon, Portugal;|Department of Cell and Developmental Biology, University College London, Gower Street, London
http://dx.doi.org/10.1101/010637 2014-10-24 Genetics CC BY A 22,403 marker composite genetic linkage map for cassava (Manihot esculenta Crantz) derived from ten populations International Cassava Genetic Map Consortium University of California, Berkeley
http://dx.doi.org/10.1101/008037 2014-10-23 Genomics CC BY-ND Long-read, whole genome shotgun sequence data for five model organisms Kristi E Kim|Paul Peluso|Primo Baybayan|Patricia Jane Yeadon|Charles Yu|William Fisher|Chen-Shan Chin|Nicole A Rapicavoli|David R Rank|Joachim Li|David Catcheside|Susan E Celniker|Adam M Phillippy|Casey M Bergman|Jane M Landolin Pacific Biosciences of California Inc.;|Flinders University;|Lawrence Berkeley National Laboratory;|University of California San Francisco;|National Biodefense Analysis and Countermeasures Center;|University of Manchester
http://dx.doi.org/10.1101/010645 2014-10-23 Evolutionary Biology CC BY-NC-ND A systematic survey of an intragenic epistatic landscape Claudia Bank|Ryan T. Hietpas|Jeffrey D. Jensen|Daniel N.A. Bolon EPFL;|Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School;|School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne
http://dx.doi.org/10.1101/010603 2014-10-22 Neuroscience Automated placement of stereotactic injections using a laser scan of the skull Margaret Henderson|Vadim Pinskiy|Alexander Tolpygo|Stephen Savoia|Pascal Grange|Partha Mitra Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/010587 2014-10-22 Bioinformatics CC BY-NC-ND A theoretical justification for single molecule peptide sequencing Jagannath Swaminathan|Alexander A. Boulgakov|Edward M. Marcotte University of Texas at Austin;|University of Texas
http://dx.doi.org/10.1101/010553 2014-10-21 Evolutionary Biology Heterochrony explains convergent testis evolution in primates Ekin Saglican|Ezgi Ozkurt|Haiyang Hu|Babur Erdem|Philipp Khaitovich|Mehmet Somel METU;|PICB
http://dx.doi.org/10.1101/010561 2014-10-20 Neuroscience High-field Functional Magnetic Resonance Imaging of Vocalization Processing in Marmosets Srivatsun Sadagopan|Nesibe Z Temiz|Henning U Voss The Rockefeller University;|Weill Cornell Medical College
http://dx.doi.org/10.1101/007351 2014-10-20 Bioinformatics CC BY-NC-ND Rapid Core-Genome Alignment and Visualization for Thousands of Intraspecific Microbial Genomes Todd J. Treangen|Brian D. Ondov|Sergey Koren|Adam M. Phillippy NBACC
http://dx.doi.org/10.1101/010520 2014-10-20 Ecology Effect sizes and standardization in neighborhood models of forest stands Peter Stoll|David J Murrell|David M Newbery University of Bern;|University College London
http://dx.doi.org/10.1101/007005 2014-10-20 Genetics CC BY-NC-ND Stable heteroplasmy at the single cell level is facilitated by inter-cellular exchange of mtDNA Anitha D Jayaprakash|Erica Benson|Swapna Gone|Raymond Liang|Jaehee Shim|Luca Lambertini|Masoud M Toloue|Mike Wigler|Stuart Aaronson|Ravi Sachidanandam Icahn School Medicine at Mount Sinai;|Icahn School of Medicine at Mount Sinai;|Bioo Scientific Corp.;|Icahn School of medicine at Mount Sinai;|Cold Spring Harbor Laboratories
http://dx.doi.org/10.1101/010504 2014-10-19 Systems Biology CC BY-ND Cooperative development of logical modelling standards and tools with CoLoMoTo Aurelien Naldi|Pedro T Monteiro|Christoph Mussel|Hans A Kestler|Denis Thieffry|Ioannis Xenarios|Julio Saez-Rodriguez|Tomas Helikar|Claudine Chaouiya Center for Integrative Genomics (CIG), University of Lausanne, Switzerland;|Instituto de Engenharia de Sistemas e Computadores (INESC-ID), Lisbon, Portugal;|Medical Systems Biology, Ulm University, Germany;|-;|Institut de Biologie de l'Ecole Normale Supérieure (IBENS) - UMR CNRS 8197 - INSERM 1024;|Swiss-Prot & Vital-IT group, Swiss Institute of Bioinformatics (SIB), Lausanne, Switzerland;|European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, United Kingdom;|Department of Biochemistry, University of Nebraska-Lincoln, Lincoln, USA;|Instituto Gulbenkian de Ciência (IGC), Oeiras, Portugal
http://dx.doi.org/10.1101/010538 2014-10-19 Bioinformatics CC BY-NC GalDrive: Pipeline for comparative identification of driver mutations using the Galaxy framework Saket Kumar Choudhary|Santosh B Noronha Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/010256 2014-10-19 Cancer Biology CC BY-NC-ND Integrative Genome-wide Analysis of the Determinants of RNA Splicing in Kidney Renal Clear Cell Carcinoma Kjong-Van Lehmann|Andre Kahles|Cyriac Kandoth|William Lee|Nikolaus Schultz|Oliver Stegle|Gunnar Ratsch Memorial Sloan Kettering Cancer Center;|Computational Biology Center, Memorial Kettering Cancer Center;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/010512 2014-10-18 Bioinformatics Ancestry Composition: A Novel, Efficient Pipeline for Ancestry Deconvolution Eric Y Durand|Chuong B Do|Joanna L Mountain|J. Michael Macpherson 23andMe, Inc.;|School of Computational Sciences, Chapmap University
http://dx.doi.org/10.1101/010496 2014-10-17 Plant Biology CC BY-NC Using more than the oldest fossils: Dating Osmundaceae by three Bayesian clock approaches Guido Grimm|Pashalia Kapli|Benjamin Bomfleur|Stephen McLoughlin|Susanne S Renner Swedish Museum of Natural History;|Natural History Museum of Crete and Biology Department, University of Crete;|Swedish Museum of Natural History, Department of Palaeobiology;|Systematic Botany and Mycology, University of Munich
http://dx.doi.org/10.1101/010488 2014-10-17 Bioinformatics Making sense of RNA-Seq data: from low-level processing to functional analysis Oleg Moskvin|Sean McIlwain|Irene Ong University of Wisconsin-Madison
http://dx.doi.org/10.1101/000257 2014-10-16 Genetics CC BY-NC-ND Matchmaker, Matchmaker, Make Me a Match: Migration of Populations via Marriages in the Past Sang Hoon Lee|Robyn Ffrancon|Daniel M. Abrams|Beom Jun Kim|Mason A. Porter Sungkyunkwan University;|University of Gothenburg;|Northwestern University;|University of Oxford
http://dx.doi.org/10.1101/010413 2014-10-16 Immunology CC BY-NC Antimicrobial peptides play a functional role in bumblebee anti-trypanosome defense Soni Deshwal|Eamonn Mallon University of Leicester
http://dx.doi.org/10.1101/010405 2014-10-16 Bioinformatics CC BY-NC-ND An open framework for biodiversity databases Miklos Ban|Zsolt Vegvari|Sandor Berces University of Debrecen;|Hortobagy National Park Directorate;|Hortobagy National Park Direcorate
http://dx.doi.org/10.1101/010397 2014-10-16 Bioinformatics CC BY-NC Publishing DisGeNET as Nanopublications Nuria Queralt Rosinach|Tobias Kuhn|Christine Chichester|Michel Dumontier|Ferran Sanz|Laura Ines Furlong GRIB-IMIM-UPF;|ETH Zurich;|Swiss Institue of Bioinformatics, CMU;|Stanford University
http://dx.doi.org/10.1101/010322 2014-10-15 Evolutionary Biology Panpulmonate habitat transitions: tracing the evolution of Acochlidia (Heterobranchia,Gastropoda) Katharina M. Jorger|Bastian Brenzinger|Timea P. Neusser|Alexander V. Martynov|Nerida G. Wilson|Michael Schrodl Department Biology II, Ludwig-Maximilians-Universität;|Mollusca Department, SNSB-Bavarian State Collection of Zoology;|Zoological Museum of Moscow State University;|Western Australien Museum
http://dx.doi.org/10.1101/002287 2014-10-14 Systems Biology CC BY-NC-ND Predicting growth conditions from internal metabolic fluxes in an in-silico model of E. coli Viswanadham Sridhara|Austin G. Meyer|Piyush Rai|Jeffrey E. Barrick|Pradeep Ravikumar|Daniel Segre|Claus O Wilke The University of Texas at Austin;|Boston University
http://dx.doi.org/10.1101/008706 2014-10-14 Neuroscience CC BY A high resolution 7-Tesla resting-state fMRI test-retest dataset with cognitive and physiological measures Krzysztof Jacek Gorgolewski|Natacha Mendes|Domenica Wilfling|Elisabeth Wladimirow|Claudine J. Gauthier|Tyler Bonnen|Florence J. M. Ruby|Robert Trampel|Pierre-Louis Bazin|Roberto Cozatl|Jonathan Smallwood|Daniel S. Margulies Max Planck Institute for Human Cognitive and Brain Sciences;|University of York
http://dx.doi.org/10.1101/010249 2014-10-10 Microbiology A simple method for constructing magnetic Escherichia coli Yong-jun Lu|Mengyi Sun School of life sciences, Sun Yat-sen university
http://dx.doi.org/10.1101/010231 2014-10-10 Evolutionary Biology CC BY-ND Massive bursts of transposable element activity in Drosophila Robert Kofler|Viola Nolte|Christian Schlotterer VetMedUni Wien
http://dx.doi.org/10.1101/010207 2014-10-10 Genetics CC BY Association Mapping across Numerous Traits Reveals Patterns of Functional Variation in Maize Jason G Wallace|Peter Bradbury|Nengyi Zhang|Yves Gibon|Mark Stitt|Edward Buckler Cornell University;|USDA-ARS;|INRA;|Max Planck Institute of Molecular Plant Physiology
http://dx.doi.org/10.1101/000919 2014-10-10 Bioinformatics Inferring tree causal models of cancer progression with probability raising Loes Olde Loohuis|Giulio Caravagna|Alex Graudenzi|Daniele Ramazzotti|Giancarlo Mauri|Marco Antoniotti|Bud Mishra City University New York;|Universit? degli Studi di Milano-Bicocca;|Courant Institute of Mathematical Sciences
http://dx.doi.org/10.1101/010173 2014-10-09 Evolutionary Biology CC BY-NC-ND Quantification of GC-biased gene conversion in the human genome Sylvain Glemin|Peter F Arndt|Philipp W Messer|Dmitri Petrov|Nicolas Galtier|Laurent Duret CNRS - Université Montpellier 2;|Max Planck Institute for Molecular Genetics;|Stanford University;|CNRS, Université Lyon 1
http://dx.doi.org/10.1101/010181 2014-10-09 Ecology CC BY-NC Pollinators, pests and soil properties interactively shape oilseed rape yield Ignasi Bartomeus|Vesna Gagic|Riccardo Bommarco Estación Biológica de Doñana (EBD-CSIC);|Swedish University of Agricultural Sciences, Department of Ecology, Uppsala.
http://dx.doi.org/10.1101/010165 2014-10-08 Developmental Biology Epithelial flow into the optic cup facilitated by suppression of BMP drives eye morphogenesis Stephan Heermann|Lucas Schuetz|Steffen Lemke|Kerstin Krieglstein|Joachim Wittbrodt COS Heidelberg;|Anatomy Freiburg
http://dx.doi.org/10.1101/010132 2014-10-08 Bioinformatics Inference of interactions between chromatin modifiers and histone modifications: from ChIP-Seq data to chromatin-signaling Juliane Perner|Julia Lasserre|Sarah Kinkley|Martin Vingron|Ho-Ryun Chung Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/010066 2014-10-08 Neuroscience Selective corticostriatal plasticity during acquisition of an auditory discrimination task Qiaojie Xiong|Petr Znamenskiy|Anthony Zador CSHL
http://dx.doi.org/10.1101/010124 2014-10-08 Synthetic Biology CC BY-NC-ND State-dependent information processing in gene regulatory networks Marcal Gabalda-Sagarra|Lucas Carey|Jordi Garcia-Ojalvo Universitat Pompeu Fabra
http://dx.doi.org/10.1101/008805 2014-10-08 Genomics CC BY-ND The projection of a test genome onto a reference population and applications to humans and archaic hominins Melinda A Yang|Kelley Harris|Montgomery Slatkin UC Berkeley;|University of California, Berkeley
http://dx.doi.org/10.1101/010090 2014-10-07 Bioinformatics CC BY Use of OWL within the Gene Ontology Christopher J Mungall|Heiko Dietze|David Osumi-Sutherland LBNL;|EBI
http://dx.doi.org/10.1101/010058 2014-10-06 Molecular Biology CC BY-NC-ND Microbial community composition and diversity via 16S rRNA gene amplicons: evaluating the Illumina platform Lucas Sinclair|Omneya Ahmed Osman|Stefan Bertilsson|Alexander Eiler Uppsala University
http://dx.doi.org/10.1101/010033 2014-10-06 Genomics CC BY Skip and bin: pervasive alternative splicing triggers degradation by nuclear RNA surveillance in fission yeast Danny A Bitton|Sophie R Atkinson|Charalampos Rallis|Graeme C Smith|David A Ellis|Daniel C Jeffares|Yuan Chen|Michal Malecki|Sandra Codlin|Michal Lubas|Jean-Francois Lemay|Francois Bachand|Cristina Cotobal|Samuel Marguerat|Juan Mata|Torben Heick Jensen|Jurg Bahler UCL;|Aarhus University;|Sherbrooke Univ;|Sherbrooke University;|Univ of Cambridge;|Cambridge Cancer Centre
http://dx.doi.org/10.1101/009597 2014-10-06 Ecology Predicting Future Forest Ranges Using Array-based Geospatial Semantic Modelling Elise Mulder Osenga Earthzine
http://dx.doi.org/10.1101/000687 2014-10-06 Genetics CC BY Human genetics and clinical aspects of neurodevelopmental disorders Gholson J Lyon|Jason O'Rawe CSHL;|Cold Spring Harbor
http://dx.doi.org/10.1101/010017 2014-10-04 Genetics Leveraging ancestry to improve causal variant identification in exome sequencing for monogenic disorders Robert P Brown|Hane Lee|Ascia Eskin|Gleb Kichaev|Kirk E Lohmueller|Bruno Reversade|Stanley F Nelson|Bogdan Pasaniuc UCLA;|A*STAR
http://dx.doi.org/10.1101/009985 2014-10-03 Ecology CC BY A continuum of specialists and generalists in empirical communities Timothee Poisot|Sonia Kefi|Serge Morand|Michal Stanko|Pablo Marquet|Michael Hochberg Université du Québec à Rimouski;|Université Montpellier 2;|CIRAD;|Slovak Academy of Sciences;|Pontificia Universidad Catolica de Chile;|UM2
http://dx.doi.org/10.1101/009977 2014-10-03 Ecology CC BY Ongoing worldwide homogenization of human pathogens Timothee Poisot|Charles Nunn|Serge Morand University of Canterbury;|Duke University;|CIRAD
http://dx.doi.org/10.1101/001750 2014-10-03 Biophysics Shifts in stability and control effectiveness during evolution of Paraves support aerial maneuvering hypotheses for flight origins Dennis Evangelista|Sharlene Cam|Tony Huynh|Austin Kwong|Homayun Mehrabani|Kyle Tse|Robert Dudley University of North Carolina at Chapel Hill;|University of California, Berkeley;|University of California, Berkekley
http://dx.doi.org/10.1101/009944 2014-10-03 Genomics CC BY-NC Phinch: An interactive, exploratory data visualization framework for –Omic datasets Holly M Bik University of Birmingham, UK;|-
http://dx.doi.org/10.1101/009902 2014-10-03 Bioinformatics CC BY Crowdsourcing RNA structural alignments with an online computer game Jerome Waldispuhl|Arthur Kam|Paul Gardner McGill University;|University of Canterbury
http://dx.doi.org/10.1101/009969 2014-10-03 Genetics CC BY Fitting the Balding-Nichols model to forensic databases Rori Rohlfs|Vitor R.C. Aguiar|Kirk E. Lohmueller|Amanda M. Castro|Alessandro C.S. Ferreira|Vanessa C.O. Almeida|Iuri D. Louro|Rasmus Nielsen University of California, Berkeley;|Universidade Federal do Espìrito Santo;|University of California, Los Angeles;|Univeristy of California, Berkeley
http://dx.doi.org/10.1101/010009 2014-10-03 Genomics CC BY-NC-ND Deep Sequencing revealed "Plant Like Transcripts" in mosquito Anopheles culicifacies: an Evolutionary Puzzle Punita Sharma|Swati Sharma|Ashwani Mishra|Tina Thomas|Tanwee Das De|Sonia Verma|Vandana Kumari|Suman Lata|Namita Singh|Kailash Pandey|Rajnikant Dixit Host-Parasite Interaction Biology Group, National Institute of Malaria Research, Delhi;|3NxGenBio Lifesciences, C-451, Yojna Vihar, Delhi (India);|Department of Bio & Nanotechnology, Guru Jambheshwar University, Hisar-India
http://dx.doi.org/10.1101/009928 2014-10-03 Evolutionary Biology CC BY-NC-ND Inference of evolutionary forces acting on human biological pathways Josephine T Daub|Isabelle Dupanloup|Marc Robinson-Rechavi|Laurent Excoffier University of Berne;|University of Lausanne
http://dx.doi.org/10.1101/009936 2014-10-03 Neuroscience CC BY-NC-ND Explaining the hierarchy of visual representational geometries by remixing of features from many computational vision models Seyed-Mahdi Khaligh-Razavi|Linda Henriksson|Kendrick Kay|Nikolaus Kriegeskorte MRC Cognition and Brain Sciences Unit;|Brain Research Unit, O.V. Lounasmaa Laboratory, Aalto University;|Department of Psychology, Washington University in St. Louis
http://dx.doi.org/10.1101/009993 2014-10-03 Developmental Biology CC BY DevoWorm: differentiation waves and computation in C. elegans embryogenesis Bradly Alicea|Steve McGrew|Richard Gordon|Stephen Larson|Tim Warrington|Mark Watts Orthogonal Research;|New Light Industries, Ltd.;|Gulf Specimen Marine Laboratory;|MetaCell, LLC;|Simon Fraser University;|University of Texas-Austin
http://dx.doi.org/10.1101/004119 2014-10-03 Genomics CC BY-NC-ND Natural CMT2 variation is associated with genome-wide methylation changes and temperature seasonality Xia Shen|Jennifer De Jonge|Simon Forsberg|Mats Pettersson|Zheya Sheng|Lars Hennig|Orjan Carlborg Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/009878 2014-10-02 Cancer Biology Systematic identification of cancer driving signaling pathways based on mutual exclusivity of genomic alterations Ozgun Babur|Mithat Gonen|Bulent Arman Aksoy|Nikolaus Schultz|Giovanni Ciriello|Chris Sander|Emek Demir Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/009829 2014-10-02 Evolutionary Biology Diversifying mechanisms in the on-farm evolution of crop mixtures Mathieu Thomas|Stephanie Thepot|Sophie Jouanne-Pin|Nathalie Galic|Carine Remoue|Isabelle Goldringer INRA;|ARVALIS
http://dx.doi.org/10.1101/009886 2014-10-02 Genomics CC BY-NC-ND The Drosophila Genome Nexus: a population genomic resource of 605 Drosophila melanogaster genomes, including 197 genomes from a single ancestral range population Justin Lack|Charis Cardeno|Marc Crepeau|William Taylor|Russ Corbett-Detig|Kristian Stevens|Charles H. Langley|John Pool University of Wisconsin-Madison;|University of California, Davis;|UC Berkeley;|Univ. Cal. Davis
http://dx.doi.org/10.1101/001826 2014-10-01 Ecology Expertly validated models suggest responses to climate change are related to species traits: a phylogenetically-controlled analysis of the Order Lagomorpha Katie Leach|Ruth Kelly|Alison Cameron|W.Ian Montgomery|Neil Reid Queen's University Belfast
http://dx.doi.org/10.1101/009845 2014-10-01 Neuroscience CC BY Quantitative differences in developmental profiles of spontaneous activity in cortical and hippocampal cultures Paul Charlesworth|Ellese Cotterill|Andrew Morton|Seth Grant|Stephen Eglen University of Cambridge;|University of Edinburgh
http://dx.doi.org/10.1101/009571 2014-09-30 Evolutionary Biology|Microbiology CC BY-NC-ND Human Cytomegalovirus Intrahost Evolution--A New Avenue for Understanding and Controlling Herpesvirus Infections Nicholas Renzette|Laura Gibson|Jeffrey D. Jensen|Timothy F. Kowalik University of Massachusetts Medical School;|Ecole Polytechnique F?d?rale de Lausanne
http://dx.doi.org/10.1101/009811 2014-09-30 Evolutionary Biology CC BY-NC-ND Analysis of geographic patterns of molecular, morphological, and bioclimatic variation to evaluate hypotheses of species boundaries in the South American montane genus Escallonia (Escalloniaceae) Felipe Zapata Brown University
http://dx.doi.org/10.1101/001107 2014-09-29 Cancer Biology|Genomics CC BY U2AF1 mutations alter splice site recognition in hematological malignancies Janine O Ilagan|Aravind Ramakrishnan|Brian Hayes|Michele E Murphy|Ahmad S Zebari|Philip Bradley|Robert K Bradley FHCRC
http://dx.doi.org/10.1101/009761 2014-09-29 Cancer Biology CC BY-NC-ND On the correlation of CTCF binding and c-myc amplification in human prostate cancer cell lines Tobias T. Fleischmann|Gunter Assum Universität Ulm
http://dx.doi.org/10.1101/009456 2014-09-29 Evolutionary Biology CC BY On the prospect of identifying adaptive loci in recently bottlenecked populations Yu-Ping Poh|Vera S Domingues|Hopi Hoekstra|Jeffrey Jensen UMass Medical School;|Harvard University;|EPFL
http://dx.doi.org/10.1101/003806 2014-09-29 Evolutionary Biology CC BY-ND Unravelling the diversity behind Ophiocordyceps unilateralis complex: Three new species of Zombie-Ant fungus from Brazilian Amazon Joao Araujo|Harry C Evans|David M Geiser|William P Mackay|David P Hughes Pennsylvania State University;|CAB International;|University of Texas
http://dx.doi.org/10.1101/009134 2014-09-29 Genomics CC BY Characterization of the transcriptome, nucleotide sequence polymorphism, and natural selection in the desert adapted mouse Peromyscus eremicus Matthew D MacManes|Michael B Eisen University of New Hampshire;|University of California, Berkeley
http://dx.doi.org/10.1101/009753 2014-09-29 Ecology CC BY-ND On Modeling the Macroecology of Baleen Whale Migration James Watson|Bruna Favetta|Charles Stock Stockholm University;|Princeton Unviversity;|Geophysical Fluid Dynamics Laboratory, NOAA
http://dx.doi.org/10.1101/009688 2014-09-27 Synthetic Biology Cooperative riboregulation in living cells through allosteric programming of toehold activation Guillermo Rodrigo|Satya Prakash|Shensi Shen|Eszter Majer|Jose-Antonio Daros|Alfonso Jaramillo Universidad Politécnica de Valencia;|School of Life Sciences, University of Warwick, Coventry CV4 7AL, United Kingdom;|Institute of Systems and Synthetic Biology, Université d'Évry Val d'Essonne;|niversidad Politécnica de Valencia
http://dx.doi.org/10.1101/009340 2014-09-26 Genetics The genetic ancestry of African, Latino, and European Americans across the United States. Katarzyna Bryc|Eric Y. Durand|J Michael Macpherson|David Reich|Joanna Mountain 23andMe;|Chapman University;|Harvard Medical School
http://dx.doi.org/10.1101/009696 2014-09-26 Genetics CC BY-NC-ND WFABC: a Wright-Fisher ABC-based approach for inferring effective population sizes and selection coefficients from time-sampled data Matthieu Foll|Hyunjin Shim|Jeffrey D. Jensen Ecole Polytechnique Fédérale de Lausanne (EPFL);|Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/002816 2014-09-26 Genetics CC BY-NC-ND Widespread signals of convergent adaptation to high altitude in Asia and America Matthieu Foll|Oscar E. Gaggiotti|Josephine T. Daub|Alexandra Vatsiou|Laurent Excoffier École Polytechnique Fédérale de Lausanne (EPFL);|University of St Andrews;|University of Berne;|Université de Grenoble
http://dx.doi.org/10.1101/009613 2014-09-26 Genomics CC BY A reference bacterial genome dataset generated on the MinION™ portable single-molecule nanopore sequencer Josh Quick|Aaron Quinlan|Nicholas Loman University of Birmingham;|University of Virginia
http://dx.doi.org/10.1101/008987 2014-09-25 Synthetic Biology Engineering a circular riboregulator in Escherichia coli William Rostain|Shensi Shen|Teresa Cordero|Guillermo Rodrigo|Alfonso Jaramillo University of Warwick, Université d'Evry;|Université d'Evry;|University of Warwick;|Université d'Evry, Universidad Politécnica de Valencia
http://dx.doi.org/10.1101/009654 2014-09-25 Genomics CC BY-NC-ND Thinking too positive? Revisiting current methods of population-genetic selection inference Claudia Bank|Gregory B Ewing|Anna Ferrer-Admettla|Matthieu Foll|Jeffrey D Jensen School of Life Sciences, EPFL;|School of Life Sciences, EPFL and Department of Biology and Biochemistry, University of Fribourg
http://dx.doi.org/10.1101/009563 2014-09-24 Evolutionary Biology CC BY-NC-ND On the unfounded enthusiasm for soft selective sweeps Jeffrey D. Jensen EPFL
http://dx.doi.org/10.1101/009498 2014-09-22 Genomics CC BY-NC-ND An Approximate Bayesian Computation Approach to Examining the Phylogenetic Relationships among the Four Gibbon Genera using Whole Genome Sequence Data Krishna Veeramah|August E Woerner|Laurel Johnstone|Ivo Gut|Marta Gut|Tomas Marques-Bonet|Lucia Carbone|Jeff D Wall|Michael F Hammer Stony Brook University;|University of Arizona;|Parc Cientıfic de Barcelona;|Universitat Pompeu Fabra;|Oregon Health and Science University;|University of California San Francisco
http://dx.doi.org/10.1101/009506 2014-09-22 Genetics CC BY Molecular phenotypes that are causal to complex traits can have low heritability and are expected to have small influence. Leopold Parts European Molecular Biology Laboratory
http://dx.doi.org/10.1101/009480 2014-09-21 Evolutionary Biology CC BY-NC Synthesizing Combination Therapies for Evolutionary Dynamics of Disease for Nonlinear Pharmacodynamics Vanessa Jonsson|Nikolai Matni|Richard M. Murray Caltech
http://dx.doi.org/10.1101/009449 2014-09-19 Genetics The genetic architecture of neurodevelopmental disorders Kevin J Mitchell Trinity College Dublin
http://dx.doi.org/10.1101/009431 2014-09-19 Genomics Virulence genes are a signature of the microbiome in the colorectal tumor microenvironment Michael B Burns|Joshua Lynch|Timothy K Starr|Dan Knights|Ran Blekhman University of Minnesota
http://dx.doi.org/10.1101/008508 2014-09-19 Ecology CC BY Quantifying and understanding reproductive allocation schedules in plants: a lifetime of decisions Elizabeth Heidi Wenk|Daniel Stein Falster Biological Sciences, Macquarie University NSW 2109, Australia
http://dx.doi.org/10.1101/009365 2014-09-18 Evolutionary Biology Self-fertilization and inbreeding limit the scope for sexual antagonism Samuel J. Tazzyman|Jessica K. Abbott ETH Zürich;|Lund University
http://dx.doi.org/10.1101/009357 2014-09-18 Genetics CC BY-NC-ND Different tastes for different individuals Kohei Fujikura TeraCode Genetics
http://dx.doi.org/10.1101/009258 2014-09-18 Genomics CC BY-NC-ND Disentangling effects of colocalizing genomic annotations to functionally prioritize non-coding variants within complex trait loci Gosia Trynka|Harm-Jan Westra|Kamil Slowikowski|Xinli Hu|Han Xu|Barbara E Stranger|Buhm Han|Soumya Raychaudhuri Wellcome Trust Sanger Institute;|Brigham and Women's Hospital, Harvard Medical School;|Harvard School of Public Health;|University of Chicago
http://dx.doi.org/10.1101/009274 2014-09-18 Evolutionary Biology CC BY-NC-ND SpeciesGeoCoder: Fast categorisation of species occurrences for analyses of biodiversity, biogeography, ecology and evolution Mats Topel|Maria Fernanda Calio|Alexander Zizka|Ruud Scharn|Daniele Silvestro|Alexandre Antonelli Department of Biological and Environmental Sciences, University of Gothenburg;|Universidade de São Paulo, Instituto de Biociências, Departamento de Botânica
http://dx.doi.org/10.1101/009290 2014-09-18 Genomics mInDel: an efficient pipeline for high-throughput InDel marker discovery Yuanda Lv|Yuhe Liu|Xiaoling Zhang|Han Zhao Jiangsu Academy of Agricultural Sciences;|University of Illinois
http://dx.doi.org/10.1101/009332 2014-09-18 Bioinformatics CC BY-NC-ND MyGene.info: gene annotation query as a service Chunlei Wu|Adam Mark|Andrew I. Su The Scripps Research Institute
http://dx.doi.org/10.1101/006148 2014-09-17 Bioinformatics Reducing INDEL calling errors in whole-genome and exome sequencing data Han Fang|Yiyang Wu|Giuseppe Narzisi|Jason A. O'Rawe|Laura T. Jimenez Barron|Julie Rosenbaum|Michael Ronemus|Ivan Iossifov|Michael C. Schatz|Gholson J. Lyon Cold Spring Harbor Laboratory;|New York Genome Center;|Centro de Ciencias Genomicas, Universidad Nacional Autonoma de Mexico, Cuernavaca, Morelos, MX
http://dx.doi.org/10.1101/007823 2014-09-17 Microbiology Single molecule-level detection and long read-based phasing of epigenetic variations in bacterial methylomes John Beaulaurier|Shijia Zhu|Robert Sebra|Xue-Song Zhang|Chaggai Rosenbluh|Gintaras Deikus|Nan Shen|Diana Munera|Matthew K Waldor|Martin Blaser|Andrew Chess|Eric Schadt|Gang Fang Icahn School of Medicine at Mount Sinai;|New York University School of Medicine;|Brigham and Women's Hospital, Harvard Medical School, and the Howard Hughes Medical Institute
http://dx.doi.org/10.1101/009191 2014-09-17 Genomics CC BY-NC-ND Inference of Gorilla demographic and selective history from whole genome sequence data Kimberly F. McManus|Joanna L. Kelley|Shiya Song|Krishna Veeramah|August E. Woerner|Laurie S. Stevison|Oliver A. Ryder|Jeffrey M. Kidd|Jeffrey D. Wall|Carlos D. Bustamante|Michael F. Hammer Stanford University;|Washington State University;|University of Michigan, Ann Arbor;|Stonybrook University;|University of Arizona;|University of California San Francisco;|San Diego Zoo Institute of Conservation Research;|-
http://dx.doi.org/10.1101/009217 2014-09-16 Genomics CC BY-NC-ND An introduction to LifeLines DEEP: study design and baseline characteristics Ettje F Tigchelaar|Alexandra Zhernakova|Jackie A.M. Dekens|Gerben Hermes|Agnieszka Baranska|Zlatan Mujagic|Morris A Swertz|Angelica M Munoz|Patrick Deelen|Maria C Cenit|Lude Franke|Salome Scholtens|Ronald P Stolk|Cisca Wijmenga|Edith J.M. Feskens University Medical Center Groningen ;|University of Antioquia Colombia;|University Medical Center Groningen;
http://dx.doi.org/10.1101/009225 2014-09-16 Genomics CC BY-NC-ND Century-scale methylome stability in a recently diverged Arabidopsis thaliana lineage Joerg Hagmann|Claude Becker|Jonas Muller|Oliver Stegle|Rhonda C Meyer|Korbinian Schneeberger|Joffrey Fitz|Thomas Altmann|Joy Bergelson|Karsten Borgwardt|Detlef Weigel Department of Molecular Biology, Max Planck Institute for Developmental Biology;|European Molecular Biology Laboratory;|The Leibniz Institute of Plant Genetics and Crop Plant Research;|Department of Plant Developmental Biology, Max Planck Institute for Plant Breeding Research;|Department of Ecology and Evolution, University of Chicago;|Max Planck Institute for Developmental Bi
http://dx.doi.org/10.1101/009068 2014-09-16 Biophysics Oncogenic mutations of the EGF-Receptor ectodomain reveal an unexpected mechanism for ligand-independent activation LAURA ORELLANA|ADAM HOSPITAL|MODESTO OROZCO SCIENCE FOR LIFE LABORATORY;|INSTITUTE FOR RESEARCH IN BIOMEDICINE BARCELONA
http://dx.doi.org/10.1101/009183 2014-09-16 Genomics CC BY-NC Functional Antagonism Between CELF and Mbnl Proteins in the Cytoplasm Eric T. Wang|Amanda J. Ward|Jennifer Cherone|Thomas T. Wang|Jimena Giudice|Thomas A. Cooper|Christopher B. Burge MIT;|Baylor College of Medicine
http://dx.doi.org/10.1101/002964 2014-09-16 Bioinformatics T-lex2: genotyping, frequency estimation and re-annotation of transposable elements using single or pooled next-generation sequencing data Anna-Sophie Fiston-Lavier|Maite G. Barron|Dmitri A. Petrov|Josefa Gonzalez Institut des Sciences de l'Evolution-UMR5554 CNRS-Université Montpellier 2;|Institut de Biologia Evolutiva (CSIC-Universitat Pompeu Fabra);|Stanford University, Dept. of Biology
http://dx.doi.org/10.1101/004762 2014-09-15 Bioinformatics Sequence co-evolution gives 3D contacts and structures of protein complexes Thomas A. Hopf|Charlotta P.I. Scharfe|Joao P.G.L.M. Rodrigues|Anna G. Green|Chris Sander|Alexandre M.J.J. Bonvin|Debora S. Marks Harvard Medical School, TU München;|Harvard Medical School, Universität Tübingen;|Utrecht University;|Harvard Medical School;|Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/008185 2014-09-15 Bioinformatics CC BY-NC Interpretable per Case Weighted Ensemble Method for Cancer Associations Adrin Jalali|Nico Pfeifer Max Planck Institute for Informatics;|Max Plank Institute for Informatics
http://dx.doi.org/10.1101/009100 2014-09-14 Evolutionary Biology CC BY Conservation and structural analysis of the Xenopus laevis phospho-proteome Jeffrey R Johnson|Silvia D Santos|Tasha Johnson|Ursula Pieper|Andrej Sali|Nevan J Krogan|Pedro Beltrao UCSF;|MRC Clinical Sciences Centre, Imperial College;|EMBL-EBI
http://dx.doi.org/10.1101/009092 2014-09-13 Evolutionary Biology Population genomic analysis uncovers African and European admixture in Drosophila melanogaster populations from the southeastern United States and Caribbean Islands Joyce Y Kao|Asif Zubair|Matthew P Salomon|Sergey V Nuzhdin|Daniel Campo University of Southern California
http://dx.doi.org/10.1101/005686 2014-09-12 Cancer Biology Cancer-associated recurrent mutations in RNase III domains of DICER1 Bulent Arman Aksoy|Anders Jacobsen|Robert J Fieldhouse|William Lee|Emek Demir|Giovanni Ciriello|Nikolaus Schultz|Debora S Marks|Chris Sander Computational Biology Center, Memorial Sloan-Kettering Cancer Center;|Department of Systems Biology, Harvard Medical School
http://dx.doi.org/10.1101/009027 2014-09-12 Genetics CC BY Behavioral individuality reveals genetic control of phenotypic variability Julien F Ayroles|Sean M Buchanan|Chelsea Jenney|Kyobi Skutt-Kakaria|Jennifer Grenier|Andrew G Clark|Daniel L Hartl|Benjamin L de Bivort Harvard University;|Cornell University
http://dx.doi.org/10.1101/008961 2014-09-12 Neuroscience CC BY-NC-ND Intrinsic cortical dynamics dominate population responses to natural images across human visual cortex Linda Henriksson|Seyed-Mahdi Khaligh-Razavi|Kendrick Kay|Nikolaus Kriegeskorte Aalto University;|MRC Cognition and Brain Sciences Unit;|Department of Psychology, Washington University in St. Louis
http://dx.doi.org/10.1101/008995 2014-09-11 Neuroscience CC BY-NC-ND General markers of conscious visual perception and their timing Renate Rutiku|Jaan Aru|Annika Tallinn|Talis Bachmann Institute of Psychology, University of Tartu;|Institute for Computer Science, University of Tartu;|Institute of Public Law, University of Tartu
http://dx.doi.org/10.1101/009001 2014-09-11 Bioinformatics CC BY-NC Average genome size estimation enables accurate quantification of gene family abundance and sheds light on the functional ecology of the human microbiome Stephen Nayfach|Katherine S Pollard University of California San Francisco;|Gladstone Institutes, University of California San Francisco
http://dx.doi.org/10.1101/006825 2014-09-11 Genomics Probabilities of Fitness Consequences for Point Mutations Across the Human Genome Brad Gulko|Ilan Gronau|Melissa J Hubisz|Adam Siepel Cornell University
http://dx.doi.org/10.1101/005819 2014-09-11 Evolutionary Biology CC BY Natural variation in teosinte at the domestication locus teosinte branched1 (tb1) Laura Vann|Thomas Kono|Tanja Pyha j arvi|Matthew B Hufford|Jeffrey Ross-Ibarra University of California, Davis;|University of Minnesota Twin Cities;|University of Oulu;|Iowa State University
http://dx.doi.org/10.1101/008201 2014-09-11 Cancer Biology CC BY-NC-ND Perturbation biology models predict c-Myc as an effective co-target in RAF inhibitor resistant melanoma cells Anil Korkut|Weiqing Wang|Emek Demir|B?lent Arman Aksoy|Xiaohong Jing|Evan Molinelli|?zg?n Babur|Debra Bemis|David B Solit|Christine Pratilas|Chris Sander Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/008953 2014-09-10 Genomics The Sea Lamprey Meiotic Map Resolves Ancient Vertebrate Genome Duplications Jeramiah Smith University of Kentucky
http://dx.doi.org/10.1101/006064 2014-09-10 Evolutionary Biology CC BY-NC-ND Recombination impacts damaging and disease mutation accumulation in human populations Julie Hussin|Alan Hodgkinson|Youssef Idaghdour|Jean-Christophe Grenier|Jean-Philippe Goulet|Elias Gbeha|Elodie Hip-Ki|Philip Awadalla University of Oxford;|CHU Sainte-Justine;|Université de Montréal
http://dx.doi.org/10.1101/008920 2014-09-09 Neuroscience CC BY-NC-ND Mechanisms for multiple activity modes of VTA dopamine neurons Andrew M. Oster|Philippe Faure|Boris S. Gutkin Department of Mathematics, Eastern Washington University, Cheney, WA, USA;|Centre National de la Recherche Scientifique;|Ecole Normale Superiuere
http://dx.doi.org/10.1101/008912 2014-09-09 Genomics CC BY-NC-ND Genome-wide characterization of RNA editing in chicken: lack of evidence for non-A-to-I events Laure Fresard|Sophie Leroux|Pierre-Francois Roux|C Klopp|Stephane Fabre|Diane Esquerre|Patrice Dehais|Anis Djari|David Gourichon|Sandrine Lagarrigue|Frederique Pitel UMR INRA / INPT ENSAT / INPT ENVT, GenPhySE, INRA, 31326 Castanet Tolosan, France;|Agrocampus Ouest, INRA, UMR PEGASE, F-35000 Rennes, France;|INRA, Sigenae UR875 Biométrie et Intelligence Artificielle, F-31326 Castanet-Tolosan, France;|UMR GenPhySE, GeT-PlaGe Genotoul, INRA, F-31326 Castanet-Tolosan, France;|UMR GenPhySE, Sigenae UR875 Biométrie et Intelligence Artificielle, F-31326 Castanet-Tolosan;|INRA, PEAT Pôle d'Expérimentation Avicole de Tours, F- 37380 Nouzilly, France
http://dx.doi.org/10.1101/008946 2014-09-09 Systems Biology CC BY-NC-ND Extensive Decoupling of Metabolic Genes in Cancer Ed Reznik|Chris Sander Computational Biology Center, Sloan-Kettering Institute
http://dx.doi.org/10.1101/006635 2014-09-09 Neuroscience CC BY-NC-ND Detecting pairwise correlations in spike trains: an objective comparison of methods and application to the study of retinal waves. Catherine Sarah Cutts|Stephen J Eglen University of Cambridge
http://dx.doi.org/10.1101/008896 2014-09-09 Bioinformatics CC BY MDTraj: a modern, open library for the analysis of molecular dynamics trajectories Robert T McGibbon|Kyle A Beauchamp|Christian R Schwantes|Lee-Ping Wang|Carlos X Hernandez|Matthew P Harrigan|Thomas J Lane|Jason M Swails|Vijay S Pande Stanford University;|Sloan-Kettering Institute;|Rutgers University
http://dx.doi.org/10.1101/008904 2014-09-08 Animal Behavior and Cognition SPOILS OF WAR AND PEACE: ENEMY ADOPTION AND QUEEN-RIGHT COLONY FUSION FOLLOW COSTLY INTRASPECIFIC CONFLICT IN ACACIA ANTS Kathleen P. Rudolph|Jay P. McEntee University of Florida;|University of Arizona
http://dx.doi.org/10.1101/008466 2014-09-08 Evolutionary Biology Rational design and adaptive management of combination therapies for Hepatitis C virus infection Ruian Ke|Claude Loverdo|Hangfei Qi|Ren Sun|James O Lloyd-Smith Los Alamos National Laboratory;|2CNRS / UPMC Univ Paris 06;|University of California, Los Angeles,;|University of California, Los Angeles
http://dx.doi.org/10.1101/000026 2014-09-08 Genetics CC BY A Population Genetic Signature of Polygenic Local Adaptation Jeremy J Berg|Graham Coop University of California, Davis
http://dx.doi.org/10.1101/008862 2014-09-08 Evolutionary Biology|Genomics CC BY-ND Generation of a Panel of Induced Pluripotent Stem Cells From Chimpanzees: a Resource for Comparative Functional Genomics Irene Gallego Romero|Bryan J Pavlovic|Irene Hernando-Herraez|Nicholas E Banovich|Courtney L Kagan|Jonathan E Burnett|Constance H Huang|Amy Mitrano|Claudia I Chavarria|Inbar F Ben-Nun|Yingchun Li|Karen Sabatini|Trevor R Leonardo|Mana Parast|Tomas Marques-Bonet|Louise C Laurent|Jeanne F Loring|Yoav Gilad University of Chicago;|Institute of Evolutionary Biology;|The Scripps Research Institute;|University of California San Diego;|Centro Nacional de Análisis Genómico
http://dx.doi.org/10.1101/008854 2014-09-08 Zoology CC BY Myoinhibitory peptide regulates feeding in the marine annelid Platynereis Elizabeth A Williams|Markus Conzelmann|Gaspar Jekely Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/008847 2014-09-06 Bioinformatics CC BY-NC-ND DiffVar: A new method for detecting differential variability with application to methylation in cancer and aging Belinda Phipson|Alicia Oshlack Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/003665 2014-09-05 Bioinformatics CC BY Flexible analysis of transcriptome assemblies with Ballgown Alyssa C Frazee|Geo Pertea|Andrew E Jaffe|Ben Langmead|Steven L Salzberg|Jeffrey T Leek Johns Hopkins Bloomberg School of Public Health;|Johns Hopkins University School of Medicine;|Lieber Institute for Brain Development;|Johns Hopkins University
http://dx.doi.org/10.1101/007047 2014-09-05 Evolutionary Biology CC BY-NC-ND Chromosomal distribution of cyto-nuclear genes in a dioecious plant with sex chromosomes Josh Hough|J Arvid Agren|Spencer CH Barrett|Stephen I Wright University of Toronto
http://dx.doi.org/10.1101/008755 2014-09-04 Genetics CC BY Mixed Model with Correction for Case-Control Ascertainment Increases Association Power tristan hayeck|Noah Zaitlen|Po-Ru Loh|Bjarni Vilhjalmsson|Samuela Pollack|Alexander Gusev|Jian Yang|Guo-Bo Chen|Michael E. Goddard|Peter M. Visscher|Nick Patterson|Alkes Price Harvard School of Public Health;|3Department of Medicine, Lung Biology Center, University of California;|Department of Epidemiology, Harvard School of Public Health, Boston;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT;|Queensland Brain Institute, University of Queensland;|Faculty of Land and Food Resources, University of Melbourne, Melbourne, Australia;|Department of Biostatistics, Harvard School of Public Health
http://dx.doi.org/10.1101/008839 2014-09-04 Cancer Biology Glucose-lactate metabolic cooperation in cancer: insights from a spatial mathematical model and implications for targeted therapy Jessica McGillen|Catherine J Kelly|Alicia Martinez-Gonzalez|Natasha K Martin|Eamonn A Gaffney|Philip K Maini|Victor M Perez-Garcia University of Oxford;|University of Castilla-La Mancha;|Bristol University
http://dx.doi.org/10.1101/008771 2014-09-04 Synthetic Biology CC BY-ND Synthetic logic circuits using RNA aptamer against T7 RNA polymerase Jongmin Kim|Juan F Quijano|Enoch Yeung|Richard M Murray California Institute of Technology;|Universidad Autónoma de Nuevo León;|Caltech
http://dx.doi.org/10.1101/008540 2014-09-04 Evolutionary Biology Sensitivity of quantitative traits to mutational effects, number of loci, and population history Joshua G. Schraiber|Michael J. Landis University of Washington;|University of California, Berkeley
http://dx.doi.org/10.1101/008748 2014-09-03 Bioinformatics CC BY-NC-ND OncoRep: An n-of-1 reporting tool to support genome-guided treatment for breast cancer patients using RNA-sequencing Tobias Meiner|Kathleen M. Fisch|Louis Gioia|Andrew I. Su The Scripps Research Institute
http://dx.doi.org/10.1101/008664 2014-09-03 Genetics CC BY-NC-ND Tracing the genetic origin of Europe's first farmers reveals insights into their social organization Anna Szecsenyi-Nagy|Guido Brandt|Victoria Keerl|Janos Jakucs|Wolfgang Haak|Sabine Moller-Rieker|Kitti Kohler|Balazs Mende|Marc Fecher|Krisztian Oross|Tibor Paluch|Anett Osztas|Viktoria Kiss|Gyorgy Palfi|Erika Molnar|Katalin Sebok|Andras Czene|Tibor Paluch|Mario Slaus|Mario Novak|Nives Pecina-Slaus|Brigitta Osz|Vanda Voicsek|Krisztina Somogyi|Gabor Toth|Bernd Kromer|Eszter Banffy|Kurt Alt HAS, Research Centre for the Humanities;|Johannes Gutenberg University;|HAS, Research Centre for the Humanities,;|University of Adelaide;|University of Szeged;|University of ELTE;|Directorate of Pest County Museums;|Móra Ferenc Museum;|Croatian Academy of Sciences and Arts,;|University College Dublin;|University of Zagreb;|National Heritage Protection Centre of the Hungarian National Museum,;|University of West Hungary;|Curt-Engelhorn-Centre for Archaeometry;|German Archaeological Institute;|University of Basel
http://dx.doi.org/10.1101/005637 2014-09-03 Cancer Biology CC BY-NC Higher gene expression variability in the more aggressive subtype of chronic lymphocytic leukemia Simone Ecker|Vera Pancaldi|Daniel Rico|Alfonso Valencia Spanish National Cancer Research Centre (CNIO)
http://dx.doi.org/10.1101/005082 2014-09-03 Bioinformatics CC BY-NC-ND diCal-IBD: demography-aware inference of identity-by-descent tracts in unrelated individuals Paula Tataru|Jasmine A. Nirody|Yun S. Song Bioinformatics Research Centre, Aarhus University, Denmark;|Biophysics Graduate Group, University of California, Berkeley, USA;|Computer Science Division, University of California, Berkeley, USA
http://dx.doi.org/10.1101/008730 2014-09-02 Developmental Biology Dimorphic development in Streblospio benedicti: genetic analysis of morphological differences between larval types Christina Zakas|Matthew V Rockman New York University
http://dx.doi.org/10.1101/003319 2014-09-02 Genetics CC BY-NC-ND Genetic influences on translation in yeast Frank W. Albert|Dale Muzzey|Jonathan S. Weissman|Leonid Kruglyak University of California, Los Angeles;|University of California, San Francisco
http://dx.doi.org/10.1101/003657 2014-09-02 Ecology CC BY Exploring the spatially explicit predictions of the Maximum Entropy Theory of Ecology Daniel McGlinn|Xiao Xiao|Justin Kitzes|Ethan P White College of Charleston;|Utah State University;|UC Berkeley
http://dx.doi.org/10.1101/008656 2014-09-02 Bioinformatics CC BY-NC-ND BoCluSt: bootstrap clustering stability algorithm for community detection in networks Carlos Garcia Santiago de Compostela University
http://dx.doi.org/10.1101/008631 2014-09-02 Biophysics CC BY A Fast 3 x N Matrix Multiply Routine for Calculation of Protein RMSD Imran S Haque|Kyle A Beauchamp|Vijay S Pande Stanford University
http://dx.doi.org/10.1101/008680 2014-09-02 Evolutionary Biology CC BY Rate and cost of adaptation in the Drosophila genome Stephan Schiffels|Michael Lassig|Ville Mustonen Wellcome Trust Sanger Institute;|Institute for Theoretical Physics, University of Cologne
http://dx.doi.org/10.1101/008698 2014-09-02 Bioinformatics CC BY-NC-ND ProbAlign: a re-alignment method for long sequencing reads Feng Zeng|Rui Jiang|Guoli Ji|Ting Chen Xiamen University;|Tsinghua University;|University of Southern California
http://dx.doi.org/10.1101/004887 2014-09-02 Ecology Pushed beyond the brink: Allee effects, environmental stochasticity, and extinction Gregory Roth|Sebastian Schreiber University of California, Davis
http://dx.doi.org/10.1101/003780 2014-09-02 Evolutionary Biology Protected polymorphisms and evolutionary stability of patch-selection strategies in stochastic environments Steve Evans|Alexandru Hening|Sebastian Schreiber University of California, Berkeley;|Oxford University;|University of California, Davis
http://dx.doi.org/10.1101/008649 2014-09-01 Molecular Biology CC BY-ND Conditional U1 Gene Silencing in Toxoplasma gondii Manuela S Pieperhoff|Gurman S Pall|Elena Jimenez-Ruis|Sujaan Das|Eleanor H Wong|Joanne Heng|Sylke Mueller|Michael J Blackman|Markus Meissner University of Glasgow;|National Institute for Medical Research
http://dx.doi.org/10.1101/008607 2014-09-01 Microbiology Mucosal effects of tenofovir 1% gel Florian Hladik|Adam Burgener|Lamar Ballweber|Raphael Gottardo|Slim Fourati|James Y Dai|Mark J Cameron|Lucia Vojtech|Johanna Strobl|Sean M Hughes|Craig Hoesley|Philip Andrew|Sherri Johnson|Jeanna Piper|David R Friend|T Blake Ball|Ross D. Cranston|Kenneth H Mayer|M Juliana McElrath|Ian McGowan Fred Hutchinson Cancer Research Center;|Department of Medical Microbiology, University of Manitoba, Winnipeg, Canada;|Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, USA;|Public Health Sciences Division, Fred Hutchinson Cancer Research Center, Seattle, USA;|Vaccine and Gene Therapy Institute, Florida, Port St. Lucie, USA;|Obstetrics and Gynecology, University of Washington, Seattle, USA;|University of Alabama, Birmingham, USA;|FHI 360, Durham, USA;|Division of AIDS, NIAID, NIH, Bethesda, USA;|CONRAD, Eastern Virginia Medical School, Arlington, USA;|University of Pittsburgh School of Medicine, Pittsburgh, USA;|Fenway Health, Beth Israel Deaconess Hospital and Harvard Medical School, Boston, USA
http://dx.doi.org/10.1101/005447 2014-08-29 Genomics CC BY-NC-ND Nuclear stability and transcriptional directionality separate functionally distinct RNA species Robin Andersson|Peter Refsing Andersen|Eivind Valen|Leighton Core|Jette Bornholdt|Mette Boyd|Torben Heick Jensen|Albin Sandelin University of Copenhagen;|Aarhus university;|Harvard University;|Cornell University;|Aarhus University
http://dx.doi.org/10.1101/008557 2014-08-29 Neuroscience CC BY-NC Local Fields of the Hippocampus: More than Meets the Eye Gautam Agarwal Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/008565 2014-08-29 Neuroscience CC BY Neuronal control of locomotor handedness in Drosophila Sean M Buchanan|Jamey S Kain|Benjamin L de Bivort Harvard University;|Machaon Diagnostics
http://dx.doi.org/10.1101/007120 2014-08-29 Bioinformatics CC BY-NC-ND MINI REVIEW: Statistical methods for detecting differentially methylated loci and regions Mark D Robinson|Abdullah Kahraman|Charity W Law|Helen Lindsay|Malgorzata Nowicka|Lukas M Weber|Xiaobei Zhou University of Zurich
http://dx.doi.org/10.1101/008516 2014-08-28 Animal Behavior and Cognition CC BY-NC-ND Amino acid and carbohydrate tradeoffs by honey bee nectar foragers and their implications for plant-pollinator interactions Harmen P. Hendriksma|Karmi L. Oxman|Sharoni Shafir The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/008490 2014-08-28 Genomics The Genetic Architecture of Gene Expression Levels in Wild Baboons Jenny Tung|Xiang Zhou|Susan C Alberts|Matthew Stephens|Yoav Gilad Duke University;|University of Michigan;|University of Chicago
http://dx.doi.org/10.1101/008524 2014-08-28 Ecology CC BY-NC-ND Nutritional aspects of honey bee-collected pollen and constraints on colony development in the eastern Mediterranean Dorit Avni|Harmen P. Hendriksma|Arnon Dag|Zehava Uni|Sharoni Shafir The Hebrew University of Jerusalem;|Agricultural Research Organization;|The Hebrew Universit of Jerusalem
http://dx.doi.org/10.1101/008532 2014-08-28 Evolutionary Biology C. elegans harbors pervasive cryptic genetic variation for embryogenesis Annalise Paaby|Amelia White|David Riccardi|Kristin Gunsalus|Fabio Piano|Matthew Rockman New York University
http://dx.doi.org/10.1101/008482 2014-08-27 Genetics CC BY-NC-ND Sexual dimorphism in epigenomic responses of stem cells to extreme fetal growth Fabien Delahaye|Neil Ari Wijetunga|Hye J Heo|Jessica N Tozour|Yong Mei Zhao|John M Greally|Francine H Einstein Albert Einstein College of Medicine
http://dx.doi.org/10.1101/008474 2014-08-27 Genetics CC BY Genomic and transcriptomic insights into the regulation of snake venom production Adam D Hargreaves|Martin T Swain|Matthew J Hegarty|Darren W Logan|John F Mulley Bangor University;|Aberystwyth University;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/008433 2014-08-27 Bioinformatics CC BY-NC ReNette: a web-infrastructure for reproducible network analysis Michele Filosi|Shamar Droghetti|Ernesto Arbitrio|Roberto Visintainer|Samantha Riccadonna|Giuseppe Jurman|Cesare Furlanello Fondazione Bruno Kessler;|Fondazione Edmund Mach
http://dx.doi.org/10.1101/003871 2014-08-27 Developmental Biology CC BY Brachyury cooperates with Wnt/β-Catenin signalling to elicit Primitive Streak like behaviour in differentiating mouse ES cells. David Andrew Turner|Pau Rue|Jonathan P Mackenzie|Eleanor Davies|Alfonso Martinez Arias University of Cambridge;|Univeristy of Cambridge
http://dx.doi.org/10.1101/008409 2014-08-25 Bioinformatics CC BY edgeRun: an R package for sensitive, functionally relevant differential expression discovery using an unconditional exact test Emmanuel Dimont|Jiantao Shi|Rory Kirchner|Winston Hide Harvard School of Public Health
http://dx.doi.org/10.1101/008417 2014-08-25 Bioinformatics CC BY Proportionality: a valid alternative to correlation for relative data David Lovell|Vera Pawlowsky-Glahn|Juan Jose Egozcue|Samuel Marguerat|Jurg Bahler CSIRO;|Dept. d'Informàtica, Matemàtica Aplicada i Estadística. U. de Girona;|Dept. Applied Mathematics III, U. Politécnica de Catalunya, Barcelona;|MRC Clinical Sciences Centre, Imperial College London, UK.;|Research Department of Genetics, Evolution and Environment, University College London, UK.
http://dx.doi.org/10.1101/008425 2014-08-25 Bioinformatics CC BY DISEASES: Text mining and data integration of disease–gene associations Sune Pletscher-Frankild|Albert Palleja|Kalliopi Tsafou|Janos X Binder|Lars Juhl Jensen Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark;|European Molecular Biology Laboratory, Heidelberg, Germany
http://dx.doi.org/10.1101/005926 2014-08-25 Neuroscience CC BY-NC-ND Untangling cross-frequency coupling in neuroscience Juhan Aru|Jaan Aru|Viola Priesemann|Michael Wibral|Luiz Lana|Gordon Pipa|Wolf Singer|Raul Vicente Max-Planck Institute for Brain Research;|Institute of Computer Science, University of Tartu;|Max-Planck Institute for Dynamics and Self-Organization;|MEG Unit, Brain Imaging Center, Goethe University;|Institute of Cognitive Science, University of Osnabrueck
http://dx.doi.org/10.1101/008326 2014-08-25 Bioinformatics Inference of Cancer Progression Models with Biological Noise Ilya Korsunsky|Daniele Ramazzotti|Giulio Caravagna|Bud Mishra Courant Institute of Mathematical Sciences, New York University, New York, USA;|Università degli Studi Milano-Bicocca, Milano, Italy
http://dx.doi.org/10.1101/007096 2014-08-25 Evolutionary Biology Stress-Induced Mutagenesis and Complex Adaptation Yoav Ram|Lilach Hadany Tel-Aviv University
http://dx.doi.org/10.1101/001784 2014-08-25 Evolutionary Biology CC BY-NC-ND Global Epistasis Makes Adaptation Predictable Despite Sequence-Level Stochasticity Sergey Kryazhimskiy|Daniel Paul Rice|Elizabeth Jerison|Michael M Desai Harvard University
http://dx.doi.org/10.1101/006023 2014-08-25 Evolutionary Biology CC BY-NC-ND Restriction and recruitment - gene duplication and the origin and evolution of snake venom toxins Adam D Hargreaves|Martin T Swain|Matthew J Hegarty|Darren W Logan|John F Mulley Bangor University;|Aberystwyth University;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/008383 2014-08-23 Bioinformatics CC BY-NC-ND Omics Pipe: A Computational Framework for Reproducible Multi-Omics Data Analysis Kathleen M Fisch|Tobias Meiner|Louis Gioia|Jean-Christophe Ducom|Tristan Carland|Salvatore Loguercio|Andrew I. Su The Scripps Research Institute;|J. Craig Venter Institute
http://dx.doi.org/10.1101/008284 2014-08-23 Developmental Biology Frequent and Transient Acquisition of Pluripotency During Somatic Cell Trans-differentiation with iPSC Reprogramming Factors Itay Maza|Inbal Casoi|Sergey Viukov|Yoach Rais|Asaf Zviran|Shay Geula|Vladislav Krupalnik|Mirie Zerbib|Rada Massarwa|Noa Novershtern|Jacob Hanna Weizmann Institute of Science
http://dx.doi.org/10.1101/008367 2014-08-22 Genomics CC BY Population split time estimation and X to autosome effective population size differences inferred using physically phased genomes Shiya Song|Elzbieta Sliwerska|Jeffrey M Kidd University of Michigan
http://dx.doi.org/10.1101/007039 2014-08-21 Evolutionary Biology CC BY-NC-ND Phylogenomic analyses of deep gastropod relationships reject Orthogastropoda Felipe Zapata|Nerida G. Wilson|Mark Howison|Sonia CS Andrade|Katharina M. Jorger|Michael Schrodl|Freya E. Goetz|Gonzalo Giribet|Casey W. Dunn Department of Ecology and Evolutionary Biology, Brown University, Providence, RI 02912, USA;|Western Australian Museum, Welshpool WA 6106, Australia;|Center for Computation and Visualization, Brown University, Providence, RI 02906, USA;|Departamento de Zootecnia, ESALQ-USP, Piracicaba-SP 13418-900, Brazil;|SNSB-Bavarian State Collection of Zoology, Munich 81247, Germany;|Department of Invertebrate Zoology, Smithsonian Museum of Natural History, Washington DC, USA;|Museum of Comparative Zoology, Department of Organismic and Evolutionary Biology, Harvard University;|Department of Ecology and Evolutionary Biology, Brown University, Providence, RI 02906, USA
http://dx.doi.org/10.1101/008276 2014-08-21 Genetics CC BY Robust Population Structure Inference and Correction in the Presence of Known or Cryptic Relatedness Matthew P Conomos|Michael B Miller|Timothy A Thornton University of Washington;|University of Minnesota
http://dx.doi.org/10.1101/008227 2014-08-21 Genetics CC BY-NC-ND Dead or just asleep? Variance of microsatellite allele distributions in the human Y-chromosome. Joe Flood Independent researcher
http://dx.doi.org/10.1101/008235 2014-08-20 Evolutionary Biology CC BY Coordinated Evolution of Influenza A Surface Proteins Alexey D. Neverov|Sergey Kryazhimskiy|Joshua B. Plotkin|Georgii A. Bazykin M.V. Lomonosov Moscow State University;|Harvard University;|University of Pennsylvania;|Institute for Information Transmission Problems of the Russian Academy of Sciences
http://dx.doi.org/10.1101/008250 2014-08-20 Evolutionary Biology Protein folding and binding can emerge as evolutionary spandrels through structural coupling Michael Manhart|Alexandre V Morozov Rutgers University
http://dx.doi.org/10.1101/008219 2014-08-20 Genomics Genome-wide Comparative Analysis Reveals Possible Common Ancestors of NBS Domain Containing Genes in Hybrid Citrus sinensis Genome and Original Citrus clementina Genome Yunsheng Wang|Lijuan Zhou|Dazhi Li|Amy Lawton-Rauh|Pradip K. Srimani|Liangying Dai|Yongping Duan|Feng Luo College of Plant Protection, Hunan Agricultural University, Changsha, China;|3Agricultural Research Service, U.S. Horticultural Research Laboratory, Fort Pierce, USA;|National Center for Citrus Improvement, Hunan Agricultural University, Changsha, China;|5Department of Genetics and Biochemistry, Clemson University, Clemson, USA;|School of Computing, Clemson University, Clemson, USA;|Agricultural Research Service, U.S. Horticultural Research Laboratory, Fort Pierce, USA
http://dx.doi.org/10.1101/001347 2014-08-20 Evolutionary Biology CC BY Evaluating the use of ABBA-BABA statistics to locate introgressed loci Simon H. Martin|John W. Davey|Chris D. Jiggins University of Cambridge
http://dx.doi.org/10.1101/008193 2014-08-19 Evolutionary Biology An amino acid polymorphism in the Drosophila insulin receptor demonstrates pleiotropic and adaptive function in life history traits Annalise B. Paaby|Alan O. Bergland|Emily L. Behrman|Paul S. Schmidt New York University;|Stanford University;|University of Pennsylvania
http://dx.doi.org/10.1101/008151 2014-08-19 Evolutionary Biology CC BY-NC-ND Quantitative Genetics and Modularity in cranial and mandibular morphology of Calomys expulsus Guilherme Garcia|Rui Cerqueira|Erika Hingst-Zaher|Gabriel Marroig University of São Paulo;|Federal University of Rio de Janeiro;|Instituto Butantan
http://dx.doi.org/10.1101/002824 2014-08-19 Bioinformatics CC BY HTSeq - A Python framework to work with high-throughput sequencing data Simon Anders|Paul Theodor Pyl|Wolfgang Huber European Molecular Biology Laboratory
http://dx.doi.org/10.1101/008144 2014-08-19 Genomics CC BY-NC-ND The genomic landscape of polymorphic human nuclear mitochondrial insertions Gargi Dayama|Sarah B Emery|Jeffrey M Kidd|Ryan E Mills University of Michigan;|University ofMichigan
http://dx.doi.org/10.1101/008169 2014-08-19 Systems Biology CC BY Dual autogenous control of the multiple antibiotic resistance phenotype in Escherichia coli Guillermo Rodrigo|Djordje Bajic|Ignacio Elola|Juan F Poyatos IBMCP-CSIC;|Spanish National Biotechnology Centre (CNB-CSIC)
http://dx.doi.org/10.1101/008177 2014-08-19 Neuroscience CC BY-NC-ND Statistical mechanics of multistable perception Gurinder Singh Atwal Cold Spring Harbor
http://dx.doi.org/10.1101/007310 2014-08-19 Synthetic Biology Selection of chromosomal DNA libraries using a multiplex CRISPR system in Saccharomyces cerevisiae Owen W Ryan|Jeffrey M Skerker|Matthew J Maurer|Xin Li|Jordan C Tsai|Snigdha Poddar|Michael E Lee|Will DeLoache|John E Dueber|Adam P Arkin|Jamie Cate University of California, Berkeley
http://dx.doi.org/10.1101/008136 2014-08-18 Genomics CC BY Genome sequencing of the perciform fish Larimichthys crocea provides insights into stress adaptation Jingqun Ao|Yinnan Mu|Li-Xin Xiang|DingDing Fan|MingJi Feng|Shicui Zhang|Qiong Shi|Lv-Yun Zhu|Ting Li|Yang Ding|Li Nie|Qiuhua Li|Wei-ren Dong|Liang Jiang|Bing Sun|XinHui Zhang|Mingyu Li|Hai-Qi Zhang|ShangBo Xie|YaBing Zhu|XuanTing Jiang|Xianhui Wang|Pengfei Mu|Wei Chen|Zhen Yue|Zhuo Wang|Jun Wang|Jian-Zhong Shao|Xinhua Chen Third Institute of Oceanography, State Oceanic Administration;|ZheJiang University;|BGI-Shenzhen;|Ocean University of China;|Shenzhen University
http://dx.doi.org/10.1101/008128 2014-08-18 Biophysics CC BY Side-binding proteins modulate actin filament dynamics Alvaro H. Crevenna|Marcelino Arciniega|Aurelie Dupont|Kaja Kowalska|Oliver Lange|Roland Wedlich-Soldner|Don C. Lamb Ludwig-Maximilians Universität München;|Max Planck Institute of Biochemistry;|Technische Universität München;|Universität Münster
http://dx.doi.org/10.1101/008078 2014-08-16 Evolutionary Biology CC BY-NC-ND Understanding Admixture Fractions Mason Liang|Rasmus Nielsen UC Berkeley
http://dx.doi.org/10.1101/008052 2014-08-15 Genomics CC BY Transposable elements contribute to activation of maize genes in response to abiotic stress Irina Makarevitch|Amanda J Waters|Patrick T West|Michelle C Stitzer|Jeffrey Ross-Ibarra|Nathan M Springer Hamline University, University of Minnesota;|University of Minnesota;|University of California Davis;|UCDavis
http://dx.doi.org/10.1101/007971 2014-08-15 Developmental Biology CC BY-NC-ND Orb prevents autophagy in the Drosophila germline through translational repression of Atg12 mRNA Isabelle Busseau|Stephanie Pierson|Dany Severac|Christelle Dantec|Martine Simonelig IGH CNRS UPR1142 141 rue de la Cardonille 34396 Montpellier cedex 5 FRANCE;|Montpellier GenomiX, 141 rue de la Cardonille, 34396 Montpellier Cedex 5, France
http://dx.doi.org/10.1101/007963 2014-08-14 Bioinformatics CC BY-NC-ND RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research Andrew S. Warren|Cristina Aurrecoechea|Brian Brunk|Prerak Desai|Scott Emrich|Gloria I. Giraldo-Calderon|Omar Harb|Deborah Hix|Daniel Lawson|Dustin Machi|Chunhong Mao|Michael McClelland|Eric Nordberg|Maulik Shukla|Leslie B. Vosshall|Alice R. Wattam|Rebecca Will|Hyun Seung Yoo|Bruno Sobral Virginia Tech;|Center for Tropical & Emerging Global Diseases, University of Georgia, Athens, GA 30602, USA;|Penn Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA 19104;|University of California, Department of Microbiology and Molecular Genetics, Irvine, California, US;|Department of Computer Science and Engineering, University of Notre Dame, Notre Dame, IN 46556, USA;|Department of Biological Sciences, University of Notre Dame, Notre Dame, IN 46556, USA;|Virginia Bioinformatics Institute, Virginia Tech, Blacksburg, VA 24060, USA;|European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK;|University of California, Department of Microbiology and Molecular Genetics, Irvine, California, USA;|The Rockefeller University, Howard Hughes Medical Institute, New York, NY 10065, USA
http://dx.doi.org/10.1101/008011 2014-08-14 Genetics CC BY-NC-ND Estimating strength of polygenic selection with principal components analysis of spatial genetic variation Davide Piffer Ulster Institute for Social Research
http://dx.doi.org/10.1101/007930 2014-08-14 Evolutionary Biology CC BY-NC-ND How cultural transmission facilitates a long juvenile learning period Ryan Baldini UC Davis
http://dx.doi.org/10.1101/007948 2014-08-14 Bioinformatics CC BY The importance of study design for detecting differentially abundant features in high-throughput experiments Huaien Luo|Juntao Li|Kuan Hui Burton Chia|Paul Robson|Niranjan Nagarajan Genome Institute of Singapore
http://dx.doi.org/10.1101/008003 2014-08-14 Bioinformatics CC BY-NC-ND Assembling Large Genomes with Single-Molecule Sequencing and Locality Sensitive Hashing Konstantin Berlin|Sergey Koren|Chen-Shan Chin|James Drake|Jane M Landolin|Adam M Phillippy University of Maryland, College Park, MD;|National Biodefense Analysis and Countermeasures Center;|Pacific Biosciences
http://dx.doi.org/10.1101/008029 2014-08-14 Zoology The impact of radio-tags on Ruby-throated Hummingbirds (Archilochus colubris) Theodore J Zenzal|Robert H Diehl|Frank R Moore University of Southern Mississippi;|U.S. Geological Survey, Northern Rocky Mountain Science Center
http://dx.doi.org/10.1101/007955 2014-08-14 Evolutionary Biology CC BY-NC-ND A Distance Method to Reconstruct Species Trees In the Presence of Gene Flow Lingfei Cui|Laura Kubatko The Ohio State University
http://dx.doi.org/10.1101/007914 2014-08-13 Animal Behavior and Cognition CC BY A quantitative analysis of objective feather colour assessment: measurements in the lab are more reliable than in the field Iker Vaquero-Alba|Andrew McGowan|Daniel Pincheira-Donoso|Matthew R. Evans|Sasha R.X. Dall University of Exeter;|University of Lincoln;|Queen Mary, University of London
http://dx.doi.org/10.1101/005850 2014-08-13 Genetics CC BY The Genetic Legacy of the Expansion of Turkic-Speaking Nomads Across Eurasia Bayazit Yunusbayev|Mait Metspalu|Ene Metspalu|Albert Valeev|Sergei Litvinov|Ruslan Valiev|Vita Akhmetova|Elena Balanovska|Oleg Balanovsky|Shahlo Turdikulova|Dilbar Dalimova|Pagbajabyn Nymadawa|Ardeshir Bahmanimehr|Hovhannes Sahakyan|Kristiina Tambets|Sardana Fedorova|Nikolay Barashkov|Irina Khidiatova|Evelin Mihailov|Rita Khusainova|Larisa Damba|Miroslava Derenko|Boris Malyarchuk|Ludmila Osipova|Mikhail Voevoda|Levon Yepiskoposyan|Toomas Kivisild|Elza Khusnutdinova|Richard Villems Estonian Biocentre;|University of Tartu;|Institute of Biochemistry and Genetics;|Bashkir State University;|Research Centre for Medical Genetics;|Vavilov Institute for General Genetics;|Institute of Bioorganic Chemistry;|Mongolian Academy of Medical Sciences;|Shiraz University of Medical Sciences;|Yakut Research Center of Complex Medical Problems;|Estonian Genome Center;|Institute of Internal Medicine;|Institute of Biological Problems of the North;|Institute of Cytology and Genetics;|Institute of Molecular Biology;|University of Cambridge
http://dx.doi.org/10.1101/007898 2014-08-12 Genomics Facile semi-automated forensic body fluid identification by multiplex solution hybridization of NanoString® barcode probes to specific mRNA targets Patrick Danaher|Robin Lynn White|Erin Hanson|Jack Ballantyne NanoString Technologies;|National Center for Forensic Science;|University of Central Florida, National Center for Forensic Science
http://dx.doi.org/10.1101/002550 2014-08-12 Neuroscience CC BY-NC-ND Noradrenergic plasticity of olfactory sensory neuron inputs to the main olfactory bulb Dennis Eckmeier|Stephen David Shea CSHL;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/006171 2014-08-12 Genomics CC BY-NC Methylation QTLs are associated with coordinated changes in transcription factor binding, histone modifications, and gene expression levels. Nicholas E Banovich|Xun Lan|Graham McVicker|Bryce Van de Geijn|Jacob F Degner|John D. Blischak|Julien Roux|Jonathan K. Pritchard|Yoav Gilad University of Chicago;|Standford University;|Stanford University;|Stanford University, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/007849 2014-08-12 Evolutionary Biology CC BY-NC-ND A codon model of nucleotide substitution with selection on synonymous codon usage Laura Kubatko|Premal Shah|Radu Herbei|Michael Gilchrist The Ohio State University;|University of Pennsylvania;|University of Tennessee - Knoxville
http://dx.doi.org/10.1101/007864 2014-08-11 Developmental Biology CC BY-NC-ND A versatile two-step CRISPR- and RMCE-based strategy for efficient genome engineering in Drosophila Xu Zhang|Wouter Koolhaas|Frank Schnorrer Max Planck Institute of Biochemistry
http://dx.doi.org/10.1101/007807 2014-08-09 Synthetic Biology Expanding xylose metabolism in yeast for plant cell wall conversion to biofuels Xin Li|Vivian Y Yu|Yuping Lin|Kulika Chomvong|Raissa Estrela|Julie M Liang|Elizabeth Znameroski|Joanna Feehan|Soo Rin Kim|Yong-Su Jin|N Louise Glass|Jamie Cate University of California, Berkeley;|University of Illinois, Urbana-Champaign;|University of California;|UC Berkeley
http://dx.doi.org/10.1101/007773 2014-08-09 Microbiology CC BY Induced sensitivity of Bacillus subtilis colony morphology to mechanical media compression Jessica K. Polka|Pamela A. Silver Harvard Medical School
http://dx.doi.org/10.1101/007799 2014-08-09 Genetics CC BY-NC-ND Efficient Bayesian mixed model analysis increases association power in large cohorts Po-Ru Loh|George Tucker|Brendan K Bulik-Sullivan|Bjarni J Vilhjalmsson|Hilary K Finucane|Daniel I Chasman|Paul M Ridker|Benjamin M Neale|Bonnie Berger|Nick Patterson|Alkes L Price Harvard School of Public Health;|Massachusetts Institute of Technology;|Broad Institute of Harvard and MIT;|Brigham and Women's Hospital
http://dx.doi.org/10.1101/007716 2014-08-08 Plant Biology CC BY-NC Growth of Primary and Lateral Roots of Vicia faba L. in the Solution of Calcium Sulfate Michael Pyshnov none
http://dx.doi.org/10.1101/007757 2014-08-08 Ecology Mapping migration in a songbird using high-resolution genetic markers Kristen C Ruegg|Eric Anderson|Kristina Paxton|Vanessa Apkenas|Sirena Lao|Rodney Siegel|Dave DeSante|Frank Moore|Thomas B Smith University of California, Santa Cruz;|NOAA;|University of Hawaii;|University of California, Los Angeles;|Institute for Bird Populations;|University of Southern Mississippi
http://dx.doi.org/10.1101/007740 2014-08-08 Ecology Seasonality dynamics of avian influenza occurrences in Central and West Africa Trevon Fuller|Mariette Ducatez|Kevin Njabo|Emanuel Couacy-Hymann|Tony Chasar|G L Aplogan|Sirena Lao|F Awoume|A Tehou|Q Langeois|Scott Krauss|Thomas B Smith UCLA;|Institut National de la Recherche Agronomique;|Central Laboratory for Animal Diseases (LANADA), Bingerville, Côte d'Ivoire;|Laboratoire de Diagnostic Vétérinaire et de S&rosurveillance (LADISERO), Parakou, Benin;|Laboratoire Vétérinaire de Lomé, Lomé, Togo;|Centre National de Gestion de Réserve de Faune (CENAGREF), Cotonou, Benin;|Department of Infectious Diseases, St. Jude Children's Research Hospital
http://dx.doi.org/10.1101/005934 2014-08-08 Bioengineering A Tandem Cell for Nanopore-based DNA Sequencing with Exonuclease G Sampath Unaffiliated
http://dx.doi.org/10.1101/007732 2014-08-07 Ecology CC BY-ND Spatial distribution and seasonal fluctuations of Drosophila on Santa Catalina Island with an emphasis on the repleta species group Joyce Y Kao|Sergey V Nuzhdin University of Southern California
http://dx.doi.org/10.1101/007617 2014-08-07 Ecology The impacts of historical barriers on floristic patterns of plant groups with different dispersal abilities in the Ryukyu Archipelago, Japan Koh Nakamura|Rempei Suwa|Tetsuo Denda|Masatsugu Yokota Biodiversity Research Center, Academia Sinica;|Laboratory of Ecology and Systematics, Faculty of Science, University of the Ryukyus
http://dx.doi.org/10.1101/007625 2014-08-07 Ecology The architectural stratification and woody species diversity in subtropical evergreen broadleaf forests along a latitudinal thermal gradient of the Ryukyu Archipelago, Japan Sm Feroz|Rempei Suwa|Koh Nakamura|Akio Hagihara|Masatsugu Yokota Laboratory of Ecology and Systematics, Faculty of Science, University of the Ryukyus;|Biodiversity Research Center, Academia Sinica
http://dx.doi.org/10.1101/007724 2014-08-07 Bioinformatics CC BY Benchmarking undedicated cloud computing providers for analysis of genomic datasets. Seyhan Yazar|George EC Gooden|David A Mackey|Alex Hewitt University of Western Australia;|University of Melbourne
http://dx.doi.org/10.1101/005579 2014-08-07 Bioinformatics CC BY-ND Lighter: fast and memory-efficient error correction without counting Li Song|Liliana Florea|Ben Langmead Johns Hopkins University
http://dx.doi.org/10.1101/007666 2014-08-06 Bioinformatics NxTrim: optimized trimming of Illumina mate pair reads Jared O'Connell|Ole Schulz-Trieglaff|Emma Carlson|Matthew M Hims|Niall A Gormley|Anthony J Cox Illumina Cambridge Ltd.
http://dx.doi.org/10.1101/007708 2014-08-06 Animal Behavior and Cognition Ontogeny of aerial righting and wing flapping in juvenile birds Dennis Evangelista|Sharlene Cam|Tony Huynh|Igor Krivitskiy|Robert Dudley University of North Carolina at Chapel Hill;|University of California, Berkeley
http://dx.doi.org/10.1101/007674 2014-08-06 Evolutionary Biology CC BY-NC-ND How to make a kin selection model when marginal fitness is non-linear? Roberto H. Schonmann|Robert Boyd|Renato Vicente University of California at Los Angeles;|Arizona State University;|University of Sao Paulo
http://dx.doi.org/10.1101/007682 2014-08-06 Evolutionary Biology CC BY-NC-ND The evolution of cooperation under local regulation and non-additive gene action: building on Hamilton's ideas Roberto H. Schonmann|Robert Boyd|Renato Vicente University of California at Los Angeles;|Arizona State University;|University of Sao Paulo
http://dx.doi.org/10.1101/001008 2014-08-05 Synthetic Biology Efficient Search, Mapping, and Optimization of Multi-protein Genetic Systems in Diverse Bacteria Iman Farasat|Manish Kushwaha|Jason Collens|Michael Easterbrook|Matthew Guido|Howard M Salis Penn State University
http://dx.doi.org/10.1101/007658 2014-08-05 Bioengineering CC BY In Silico Design of Self-Optimizing Integrated Metabolic and Gene Regulatory Networks Timo Maarleveld|Bennet K NG|Herbert Sauro|Kyung Kim Centrum Wiskunde Informatica;|University of Washington
http://dx.doi.org/10.1101/006437 2014-08-04 Genetics CC BY-NC-ND The conserved PFT1 tandem repeat is crucial for proper flowering in Arabidopsis thaliana Pauline Rival|Maximilian O Press|Jacob Bale|Tanya Grancharova|Soledad F Undurraga|Christine Queitsch University of Washington;|Universidad Mayor Centro de Genómica y Bioinformática
http://dx.doi.org/10.1101/006411 2014-08-04 Evolutionary Biology CC BY-NC-ND Hsp90 promotes kinase evolution Jennifer Lachowiec|Tzitziki Lemus|Elhanan Borenstein|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/004564 2014-08-04 Genomics CC BY Crowdsourced analysis of ash and ash dieback through the Open Ash Dieback project: A year 1 report on datasets and analyses contributed by a self-organising community. Diane Saunders|Kentaro Yoshida|Christine Sambles|Rachel Glover|Bernardo Clavijo|Manuel Corpas|Daniel Bunting|Suomeng Dong|Ghanasyam Rallapalli|Matthew Clark|David Swarbreck|Sarah Ayling|Matthew Bashton|Steve Collin|Tsuyoshi Hosoya|Anne Edwards|Lisa Crossman|Graham Etherington|Joe Win|Liliana Cano|David Studholme|J Allan Downie|Mario Caccamo|Sophien Kamoun|Dan MacLean The Genome Analysis Centre;|The Sainsbury Laboratory;|University of Exeter;|FERA;|Newcastle University;|Norfolk Wildlife Trust;|National Museum of Nature and Science, Japan;|John Innes Centre;|Sequence Analysis
http://dx.doi.org/10.1101/007591 2014-08-01 Genomics CC BY-NC-ND The meta-epigenomic structure of purified human stem cell populations is defined at cis-regulatory sequences N. Ari Wijetunga|Fabien Delahaye|Yong Mei Zhao|Aaron Golden|Jessica C Mar|Francine H. Einstein|John M. Greally Albert Einstein College of Medicine
http://dx.doi.org/10.1101/007609 2014-08-01 Bioinformatics CC BY-NC A comparison of control samples for ChIP-seq of histone modifications Christoffer Flensburg|Sarah A Kinkel|Andrew Keniry|Marnie Blewitt|Alicia Oshlack Cancer and Haematology Division, Walter and Eliza Hall Institute and Department;|Division of Molecular Medicine, Walter and Eliza Hall Institute;|1Bioinformatics Group, Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/007583 2014-08-01 Bioinformatics CC BY UniqTag: Content-derived unique and stable identifiers for gene annotation Shaun D Jackman|Joerg Bohlmann|Inanc Birol University of British Columbia;|Genome Sciences Centre, British Columbia Cancer Agency
http://dx.doi.org/10.1101/007641 2014-08-01 Bioinformatics CC BY-NC-ND Faster sequence alignment through GPU-accelerated restriction of the seed-and-extend search space Richard Wilton|Tamas Budavari|Ben Langmead|Sarah J Wheelan|Steven Salzberg|Alex Szalay Johns Hopkins University;|Johns Hopkins University SOM
http://dx.doi.org/10.1101/007633 2014-08-01 Genetics CC BY-NC-ND Calling genotypes from public RNA-sequencing data enables identification of genetic variants that affect gene-expression levels Patrick Deelen|Daria Zhernakova|Mark de Haan|Marijke van der Sijde|Marc Jan Bonder|Juha Karjalainen|K. Joeri van der Velde|Kristin M. Abbott|Jingyuan Fu|Cisca Wijmenga|Richard J. Sinke|Morris A. Swertz|Lude Franke University of Groningen, University Medical Centre Groningen
http://dx.doi.org/10.1101/007344 2014-07-31 Genetics CC BY-NC-ND Efficient site-specific editing of the C. elegans genome Donglei Zhang|Michael Glotzer The University of Chicago
http://dx.doi.org/10.1101/007518 2014-07-30 Evolutionary Biology Reproductive isolation of hybrid populations driven by genetic incompatibilities Molly Schumer|Rongfeng Cui|Gil G Rosenthal|Peter Andolfatto Princeton University;|Texas A&M University
http://dx.doi.org/10.1101/007575 2014-07-29 Ecology CC BY-NC ResistanceGA: An R package for the optimization of resistance surfaces using genetic algorithms William E Peterman University of Illinois
http://dx.doi.org/10.1101/003921 2014-07-29 Evolutionary Biology CC BY-NC-ND Estimating Phylogeny from microRNA Data: A Critical Appraisal Robert Thomson|David Plachetzki|Luke Mahler|Brian Moore University of Hawaii at Manoa;|University of New Hampshire;|University of California, Davis
http://dx.doi.org/10.1101/007567 2014-07-29 Bioinformatics CC BY poRe: an R package for the visualization and analysis of nanopore sequencing data Mick Watson|Marian Thomson|Judith Risse|Javier Santoyo-Lopez|Richard Talbot|Karim Gharbi|Mark Blaxter Edinburgh Genomics, University of Edinburgh
http://dx.doi.org/10.1101/007526 2014-07-28 Bioinformatics Classification of RNA-Seq Data via Bagging Support Vector Machines Gokmen Zararsiz|Dincer Goksuluk|Selcuk Korkmaz|Vahap Eldem|Izzet Parug Duru|Ahmet Ozturk|Turgay Unver Erciyes University;|Hacettepe University;|İstanbul University;|Marmara University;|Cankiri Karatekin University
http://dx.doi.org/10.1101/006627 2014-07-28 Genomics CC BY SRST2: Rapid genomic surveillance for public health and hospital microbiology labs Michael Inouye|Harriet Dashnow|Lesley Raven|Mark B Schultz|Bernard J Pope|Takehiro Tomita|Justin Zobel|Kathryn E Holt Medical Systems Biology, Dept of Pathology, The University of Melbourne;|Department of Biochemistry and Molecular Biology, Bio21 Institute, University of Melbourne;|Medical Systems Biology, Department of Pathology, The University of Melbourne;|Victorian Life Sciences Computation Initiative, The University of Melbourne;|Department of Microbiology and Immunology, The University of Melbourne;|Department of Computing and Information Systems, The University of Melbourne
http://dx.doi.org/10.1101/006387 2014-07-28 Genetics CC BY-NC-ND The overdue promise of short tandem repeat variation for heritability. Maximilian Press|Keisha D. Carlson|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/007500 2014-07-28 Genomics CC BY-NC-ND MIPSTR: a method for multiplex genotyping of germ-line and somatic STR variation across many individuals Keisha Dawn Carlson|Peter H Sudmant|Maximilian Oliver Press|Evan E Eichler|Jay Shendure|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/007484 2014-07-26 Genomics Long non-coding RNA discovery in Anopheles gambiae using deep RNA sequencing Adam M Jenkins|Robert M Waterhouse|Alan S Kopin|Marc A.T. Muskavitch Boston College;|University of Geneva Medical School, Massachusetts Institute of Technology, The Broad Institute;|Tufts Medical Center;|Boston College, Biogen Idec
http://dx.doi.org/10.1101/007377 2014-07-26 Scientific Communication CC BY-NC-ND Characterization of the Peer Review Network at the Center for Scientific Review, National Institutes of Health Kevin Boyack|Mei-Ching Chen|George Chacko SciTech Strategies Inc.;|National Institutes of Health;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/001321 2014-07-26 Cancer Biology Effect of glycogen synthase kinase-3 inactivation on mouse mammary gland development and oncogenesis Joanna Dembowy|Hibret A Adissu|Jeff C Liu|Eldad Zacksenhaus|James Robert Woodgett Lunenfeld-Tanenbaum Research Institute;|Toronto Centre for Phenogenomics;|Toronto General Research Institute
http://dx.doi.org/10.1101/007468 2014-07-25 Bioinformatics CC BY Data mining of Gene expression profiles of Saccharomyces cerevisiae in response to mild heat stress response Kaiyuan Ji|Wenli Ma|Wenling Zheng Southern Medical University
http://dx.doi.org/10.1101/007450 2014-07-25 Neuroscience Near-optimal decoding of transient stimuli from coupled neuronal subpopulations James Trousdale|Samuel R. Carroll|Fabrizio Gabbiani|Kresimir Josic University of Houston;|University of Utah;|Baylor College of Medicine
http://dx.doi.org/10.1101/006098 2014-07-25 Ecology CC BY-NC-ND Burrow architectural types of the Atlantic ghost crab, Ocypode quadrata (Fabricius, 1787) (Brachyura: Ocypodidae), in Brazil Willian T. A. F. Silva|Tereza C. S. Calado Integrated Laboratories of Marine and Natural Sciences (LabMar), Federal University of Alagoas
http://dx.doi.org/10.1101/006932 2014-07-25 Systems Biology CC BY A curated C. difficile strain 630 metabolic network: prediction of essential targets and inhibitors Mathieu Larocque|Thierry Chenard|Rafael Najmanovich University of Sherbrooke
http://dx.doi.org/10.1101/007443 2014-07-24 Bioinformatics CC BY-NC-ND Extraction of relations between genes and diseases from text and large-scale data analysis: implications for translational research Alex Bravo|Janet Pinero|Nuria Queralt|Michael Rautschka|Laura I. Furlong GRIB-IMIM-UPF;|rautschy@gmail.com
http://dx.doi.org/10.1101/007435 2014-07-24 Biophysics Null Models for Community Detection in Spatially-Embedded, Temporal Networks Marta Sarzynska|Elizabeth A Leicht|Gerardo Chowell|Mason A Porter xford Centre for Industrial and Applied Mathematics, Mathematical Institute, University of Oxford, O;|CABDyN Complexity Centre, University of Oxford, Oxford, OX1 1HP, UK;|Mathematical, Computational \& Modeling Sciences Center, School of Human Evolution and Social Change;|Oxford Centre for Industrial and Applied Mathematics, Mathematical Institute, University of Oxford,
http://dx.doi.org/10.1101/007419 2014-07-24 Genomics CC BY-NC-ND Comparative Performance of Two Whole Genome Capture Methodologies on Ancient DNA Illumina Libraries Maria Avila-Arcos|Marcela Sandoval-Velasco|Hannes Schroeder|Meredith L Carpenter|Anna-Sapfo Malaspinas|Nathan Wales|Fernando Penaloza|Carlos D Bustamante|M. Thomas P Gilbert Stanford University;|Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen;|Department of Genetics, Stanford University School of Medicine;|Centre for GeoGenetics, Natural History Museum of Denmark;|Department of Genetics, Stanford University School of Medicine, Stanford
http://dx.doi.org/10.1101/007427 2014-07-23 Bioinformatics CC BY Butter: High-precision genomic alignment of small RNA-seq data Michael J Axtell Pennsylvania State University
http://dx.doi.org/10.1101/007393 2014-07-23 Evolutionary Biology CC BY-NC-ND The emergence of network structure, complementarity and convergence from basic ecological and genetic processes Francisco Encinas-Viso|Carlos J. Melian|Rampal S Etienne CSIRO;|EAWAG;|Univeristy of Groningen
http://dx.doi.org/10.1101/007401 2014-07-23 Bioinformatics CC BY Poretools: a toolkit for analyzing nanopore sequence data Nicholas Loman|Aaron Quinlan University of Birmingham;|University of Virginia
http://dx.doi.org/10.1101/007385 2014-07-22 Systems Biology CC BY-NC-ND Negative Feedback Facilitates Temperature Robustness in Biomolecular Circuit Dynamics Shaunak Sen|Richard M Murray Indian Institute of Technology Delhi;|Caltech
http://dx.doi.org/10.1101/001677 2014-07-21 Ecology CC BY Beyond species: why ecological interaction networks vary through space and time Timothee Poisot|Daniel B Stouffer|Dominique Gravel Université du Québec à Rimouski;|University of Canterbury
http://dx.doi.org/10.1101/004481 2014-07-21 Evolutionary Biology CC BY-NC-ND Predicting evolutionary site variability from structure in viral proteins: buriedness, packing, flexibility, and design Amir Shahmoradi|Dariya K. Sydykova|Stephanie J. Spielman|Eleisha L. Jackson|Eric T. Dawson|Austin G. Meyer|Claus O. Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/007294 2014-07-21 Microbiology CC BY-ND A New Perspective on HIV Cure Florian Hladik Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/007278 2014-07-21 Animal Behavior and Cognition Exaggerated estrous swellings and male mate choice in primates: testing the reliable indicator hypothesis in the Amboseli baboons. Courtney L Fitzpatrick|Jeanne Altmann|Susan C Alberts Duke University; National Evolutionary Synthesis Center;|Princeton University; National Museums of Kenya;|Duke University, National Museums of Kenya
http://dx.doi.org/10.1101/007336 2014-07-21 Genetics CC BY Non-respiratory functions of Saccharomyces cerevisiae mitochondria are required for optimal attractiveness to Drosophila melanogaster Kelly M Schiabor|Allison S Quan|Michael Eisen University of California Berkeley
http://dx.doi.org/10.1101/007260 2014-07-19 Bioinformatics CC BY-ND Aligning sequence from molecular inversion probes Brent S Pedersen University of Colorado
http://dx.doi.org/10.1101/007237 2014-07-18 Systems Biology CC BY-NC-ND Expression noise facilitates the evolution of gene regulation Luise Wolf|Olin K Silander|Erik J van Nimwegen Biozentrum, University of Basel
http://dx.doi.org/10.1101/007211 2014-07-17 Bioinformatics CC BY-NC Assessing allele specific expression across multiple tissues from RNA-seq read data Matti Pirinen|Tuuli Lappalainen|Noah A Zaitlen|GTEx Consortium|Emmanouil T Dermitzakis|Peter Donnelly|Mark I McCarthy|Manuel A Rivas Institute for Molecular Medicine Finland;|New York Genome Center;|Department of Medicine, University of California, San Francisco;|GTEx Consortium;|Department of Genetic Medicine and Development, University of Geneva;|Wellcome Trust Centre for Human Genetics, University of Oxford
http://dx.doi.org/10.1101/007229 2014-07-17 Systems Biology CC BY Rewiring of genetic networks in response to modification of genetic background Djordje Bajic|Clara Moreno|Juan F Poyatos Spanish National Biotechnology Centre (CNB-CSIC)
http://dx.doi.org/10.1101/006809 2014-07-17 Animal Behavior and Cognition CC BY-NC-ND Big Behavioral Data: Psychology, Ethology and the Foundations of Neuroscience Alex Gomez-Marin|Joseph J Paton|Adam R Kampff|Rui M Costa|Zachary M Mainen Champalimaud Neuroscience Programme, Champalimaud Centre for the Unknown, Lisbon, Portugal
http://dx.doi.org/10.1101/007203 2014-07-17 Synthetic Biology CC BY-ND Concerning RNA-Guided Gene Drives for the Alteration of Wild Populations Kevin M Esvelt|Andrea L Smidler|Flaminia Catteruccia|George M Church Wyss Institute for Biologically Inspired Engineering, Harvard Medical School;|Harvard School of Public Health, Harvard Medical School;|Harvard School of Public Health
http://dx.doi.org/10.1101/007161 2014-07-16 Evolutionary Biology CC BY-NC-ND No evidence that sex and transposable elements drive genome size variation in evening primroses J Arvid Agren|Stephan Greiner|Marc TJ Johnson|Stephen I Wright University of Toronto;|Max Planck Institute of Molecular Plant Physiology;|University of Toronto at Mississauga
http://dx.doi.org/10.1101/007187 2014-07-16 Molecular Biology CC BY Reagent contamination can critically impact sequence-based microbiome analyses Susannah Salter|Michael J Cox|Elena M Turek|Szymon T Calus|William O Cookson|Miriam F Moffatt|Paul Turner|Julian Parkhill|Nick Loman|Alan W Walker Wellcome Trust Sanger Institute;|Molecular Genetics and Genomics, National Heart and Lung Institute, Imperial College London;|Institute of Microbiology and Infection, University of Birmingham;|Centre for Tropical Medicine, Nuffield Department of Medicine, University of Oxford;|Pathogen Genomics, Wellcome Trust Sanger Institute;|Microbiology Group, Rowett Institute of Nutrition and Health, University of Aberdeen
http://dx.doi.org/10.1101/005207 2014-07-16 Bioinformatics CC BY-NC-ND RNA-seq gene profiling - a systematic empirical comparison Nuno A Fonseca|John A Marioni|Alvis Brazma EMBL-EBI;|European Molecular Biology Laboratory - European Bioinformatics Institute
http://dx.doi.org/10.1101/007153 2014-07-15 Genomics CC BY-NC-ND THE GENETIC LANDSCAPE OF TRANSCRIPTIONAL NETWORKS IN A COMBINED HAPLOID/DIPLOID PLANT SYSTEM Jukka-Pekka Verta|Christian R Landry|John J MacKay Universit? Laval
http://dx.doi.org/10.1101/003988 2014-07-15 Genetics CC BY Sharing of Very Short IBD Segments between Humans, Neandertals, and Denisovans Gundula Povysil|Sepp Hochreiter Johannes Kepler University, Linz
http://dx.doi.org/10.1101/007112 2014-07-15 Cell Biology Massively calcified endosomal death (MCED) of endothelial cells Larry Weisenthal Weisenthal Cancer Group
http://dx.doi.org/10.1101/007088 2014-07-14 Bioinformatics CC BY-NC-ND Benchmark Analysis of Algorithms for Determining and Quantifying Full-length mRNA Splice Forms from RNA-Seq Data Katharina Hayer|Angel Pizzaro|Nicholas L Lahens|John B Hogenesch|Gregory R Grant University of Pennsylvania, Institute for Translational Medicine and Therapeutics;|Amazon AWS;|University of Pennsylvania;|University of Pennsylvania, Dept of Pharmacology;|University of Pennsylvania, Dept. of Genetics
http://dx.doi.org/10.1101/006817 2014-07-14 Ecology A solution to the biodiversity paradox by logical deterministic cellular automata Lev V. Kalmykov|Vyacheslav L. Kalmykov Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences;|Institute of Cell Biophysics, Russian Academy of Sciences
http://dx.doi.org/10.1101/000992 2014-07-13 Cancer Biology CC BY Mutated SF3B1 is associated with transcript isoform changes of the genes UQCC and RPL31 both in CLLs and uveal melanomas Alejandro Reyes|Carolin Blume|Vicent Pelechano|Petra Jakob|Lars M Steinmetz|Thorsten Zenz|Wolfgang Huber European Molecular Biology Laboratory;|National Centre for Tumour Diseases and German Cancer Research Centre;|European Molecular Biology Laboratory and Stanford University
http://dx.doi.org/10.1101/007062 2014-07-11 Genomics CC BY-NC Ligation-anchored PCR unveils immune repertoire of TCR-beta from whole blood Fan Gao|Kai Wang MIT;|USC
http://dx.doi.org/10.1101/007021 2014-07-11 Scientific Communication CC BY-NC-ND A plea for evidence in ecosystem service science: a framework and its application Anne-Christine Mupepele|Carsten F. Dormann University of Freiburg
http://dx.doi.org/10.1101/007054 2014-07-11 Genomics CC BY Assessing the prevalence of mycoplasma contamination in cell culture via a survey of NCBI?s RNA-seq archive Anthony O Olarerin-George|John B Hogenesch University of Pennsylvania
http://dx.doi.org/10.1101/006999 2014-07-10 Ecology CC BY-NC Extracting robust trends in species' distributions from unstructured opportunistic data: a comparison of methods Nick JB Isaac|Arco J van Strien|Tom A August|Marnix P de Zeeuw|David B Roy Centre for Ecology & Hydrology;|Statistics Netherlands
http://dx.doi.org/10.1101/002295 2014-07-10 Bioinformatics CC BY-ND Modeling bi-modality improves characterization of cell cycle on gene expression in single cells Lucas Dennis|Andrew McDavid|Patrick Danaher|Greg Finak|Michael Krouse|Alice Wang|Philippa Webster|Joseph Beechem|Raphael Gottardo NanoString Technologies;|Fred Hutchinson Cancer Research Center;|BD Biosciences
http://dx.doi.org/10.1101/004671 2014-07-10 Genomics CC BY-NC-ND The Landscape of Human STR Variation Thomas F. Willems|Melissa Gymrek|Gareth Highnam|- The 1000 Genomes Project|David Mittelman|Yaniv Erlich Whitehead Institte for Biomedical Research;|Whitehead Institute for Biomedical Research;|Virginia Tech;|-
http://dx.doi.org/10.1101/006981 2014-07-09 Evolutionary Biology CC BY-NC-ND Extraordinarily wide genomic impact of a selective sweep associated with the evolution of sex ratio distorter suppression Emily A Hornett|Bruce Moran|Louise A Reynolds|Sylvain Charlat|Samuel Tazzyman|Nina Wedell|Chris D Jiggins|Gregory Hurst University of Cambridge;|University of Liverpool;|Univ. of Lyon;|ETH Zurich;|University of Exeter;|Cambridge
http://dx.doi.org/10.1101/006924 2014-07-08 Immunology V genes in primates from whole genome shotgun data David N Olivieri|Francisco Gambon-Deza Universidad de Vigo;|SERGAS, Hospital do Meixoeiro
http://dx.doi.org/10.1101/006973 2014-07-08 Genomics Improved genome inference in the MHC using a population reference graph Alexander Dilthey|Charles J Cox|Zamin Iqbal|Matthew R Nelson|Gil McVean University of Oxford;|GSK;|Oxford
http://dx.doi.org/10.1101/006965 2014-07-08 Immunology The whole diagram of the discovered host immunological pathways Wanchung Hu Shin Kong Hospital
http://dx.doi.org/10.1101/006908 2014-07-07 Bioinformatics CC BY Recurrent alternative splicing isoform switches in tumor samples provide novel signatures of cancer Endre Sebestyen|Micha Zawisza|Eduardo Eyras Universitat Pompeu Fabra, Barcelona Spain;|Universitat Politècnica de Catalunya;|Universitat Pompeu Fabra, Barcelona, Spain
http://dx.doi.org/10.1101/006833 2014-07-07 Bioinformatics CC BY-NC-ND A BRIEF SURVEY ON BIO INSPIRED OPTIMIZATION ALGORITHMS FOR MOLECULAR DOCKING Mayukh Mukhopadhyay Tata Consultancy Services
http://dx.doi.org/10.1101/006916 2014-07-04 Cell Biology Products of the Parkinson's-disease related glyoxalase DJ-1, D-lactate and glycolate, support mitochondrial membrane potential and neuronal survival Yusuke Toyoda|Cihan Erkut|Francisco Pan-Montojo|Sebastian Boland|Martin P. Stewart|Daniel J. M?ller|Wolfgang Wurst|Anthony A. Hyman|Teymuras V. Kurzchalia Max Planck Institute of Molecular Cell Biology and Genetics;|Neurologische Klinik und Poliklinik, Klinikum der Universit?t Muenchen;|Department of Biosystems Science and Engineering, ETH Z?rich;|Munich Cluster for Systems Neurology (SyNergy), Adolf Butenandt Institute
http://dx.doi.org/10.1101/006890 2014-07-03 Biophysics The dynamics of sperm cooperation in a competitive environment Heidi S. Fisher|Luca Giomi|Hopi E Hoekstra|L. Mahadevan Harvard University;|SISSA, International School for Advanced Studies
http://dx.doi.org/10.1101/006841 2014-07-03 Genomics CC BY-NC Single haplotype assembly of the human genome from a hydatidiform mole Karyn Meltz Steinberg|Valerie K Schneider|Tina A Graves-Lindsay|Robert S Fulton|Richa Agarwala|John Huddleston|Sergey A Shiryayev|Aleksandr Morgulis|Urvashi Surti|Wesley C Warren|Deanna M Church|Evan E Eichler|Richard K Wilson The Genome Institute at Washington University School of Medicine;|National Center for Biotechnology Information, National Library of Medicine, NIH;|University of Washington;|University of Pittsburgh;|Personalis, Inc.
http://dx.doi.org/10.1101/006866 2014-07-03 Genomics CC BY-NC Sequencing of the human IG light chain loci from a hydatidiform mole BAC library reveals locus-specific signatures of genetic diversity Corey T Watson|Karyn Meltz Steinberg|Tina A Graves-Lindsay|Rene L Warren|Maika Malig|Jacqueline E Schein|Richard K Wilson|Rob Holt|Evan Eichler|Felix Breden Icahn School of Medicine at Mount Sinai;|The Genome Institute at Washington University School of Medicine;|BC Cancer Agency;|University of Washington;|Univ. of Washington;|Simon Fraser University
http://dx.doi.org/10.1101/006775 2014-07-02 Systems Biology CC BY-NC Modeling Cellular Information Processing Using a Dynamical Approximation of Cellular mRNA Bradly Alicea Orthogonal Research
http://dx.doi.org/10.1101/004283 2014-06-30 Physiology CC BY Weight Loss in Response to Food Deprivation Predicts The Extent of Diet Induced Obesity in C57BL/6J Mice Matthew J. Peloqiun|Dave Bridges UTHSC
http://dx.doi.org/10.1101/000653 2014-06-30 Developmental Biology CC BY An interplay between extracellular signalling and the dynamics of the exit from pluripotency drives cell fate decisions in mouse ES cells David A Turner|Jamie Trott|Penelope Hayward|Pau Rue|Alfonso Martinez Arias Department of Genetics. University of Cambridge. Cambridge CB2 3EH. UK.;|Wellcome Trust Centre for Stem Cell Research, University of Cambridge, Cambridge CB2 1QR, UK.
http://dx.doi.org/10.1101/006445 2014-06-30 Evolutionary Biology CC BY-NC-ND False facts and false views: coalescent analysis of truncated data Einar Arnason University of Iceland
http://dx.doi.org/10.1101/002709 2014-06-30 Evolutionary Biology CC BY-NC Differential gene expression and alternative splicing in insect immune specificity Carolyn Riddell|Juan David Lobaton Garces|Sally Adams|Seth M Barribeau|David Twell|Eamonn Mallon University of Leicester;|University of Warwick;|ETH Zurich
http://dx.doi.org/10.1101/006742 2014-06-28 Evolutionary Biology CC BY-NC-ND Efficient inference of population size histories and locus-specific mutation rates from large-sample genomic variation data Anand Bhaskar|Y.X. Rachel Wang|Yun S. Song University of California, Berkeley
http://dx.doi.org/10.1101/006734 2014-06-28 Evolutionary Biology CC BY-NC-ND Multi-locus analysis of genomic time series data from experimental evolution Jonathan Terhorst|Yun S. Song University of California, Berkeley
http://dx.doi.org/10.1101/006700 2014-06-28 Evolutionary Biology CC BY-NC The effective founder effect in a spatially expanding population Benjamin Marco Peter|Montgomery Slatkin University of California, Berkeley
http://dx.doi.org/10.1101/006726 2014-06-28 Genomics Improved vectors and genome-wide libraries for CRISPR screening Neville E Sanjana|Ophir Shalem|Feng Zhang Broad Institute and MIT
http://dx.doi.org/10.1101/006692 2014-06-27 Bioinformatics CC BY Reconstructing subclonal composition and evolution from whole genome sequencing of tumors Amit G. Deshwar|Shankar Vembu|Christina K. Yung|Gun Ho Jang|Lincoln Stein|Quaid Morris University of Toronto;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/006676 2014-06-27 Immunology Regulatory vs. helper CD4+ T-cell ratios and the progression of HIV/AIDS disease Wilfred Ndifon|Jonathan Dushoff|Daniel Coombs African Institute for Mathematical Sciences;|McMaster University;|University of British Columbia
http://dx.doi.org/10.1101/006650 2014-06-27 Bioinformatics CC BY Formalization of Genome Interval Relations Christopher John Mungall LBNL
http://dx.doi.org/10.1101/006643 2014-06-27 Evolutionary Biology CC BY Genetic dissection of courtship song variation using the Drosophila Synthetic Population Resource Alison Pischedda|Veronica A Cochrane|Wesley G Cochrane|Thomas L. Turner University of California, Santa Barbara;|Oregon Health and Science University;|Scripps Research Institute, Florida
http://dx.doi.org/10.1101/005876 2014-06-26 Neuroscience CC BY-NC-ND Rapid transcriptional response to physiological neuronal activity in vivo revealed by transcriptome sequencing Yarden Katz|Tarciso Velho|Vincent Butty|Christopher B. Burge|Carlos Lois MIT
http://dx.doi.org/10.1101/005470 2014-06-26 Biophysics Bio-inspired design of ice-retardant devices based on benthic marine invertebrates: the effect of surface texture Homayun Mehrabani|Neil Ray|Kyle Tse|Dennis Evangelista University of California, Berkeley;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/006585 2014-06-26 Bioinformatics CC BY svaseq: removing batch effects and other unwanted noise from sequencing data Jeffrey Leek Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/006569 2014-06-25 Zoology CC BY-ND The mandibular gland in Nasonia vitripennis (Hymenoptera: Pteromalidae) Istvan Miko|Andrew Deans Pennsylvania State University
http://dx.doi.org/10.1101/006619 2014-06-25 Neuroscience Converging structural and functional connectivity of orbitofrontal, dorsolateral prefrontal, and posterior parietal cortex in the human striatum Kevin Jarbo|Timothy Verstynen Carnegie Mellon University, Dept. of Psychology
http://dx.doi.org/10.1101/006601 2014-06-25 Genomics CC BY Redefining Genomic Privacy: Trust and Empowerment Arvind Narayanan|Kenneth Yocum|David Glazer|Nita Farahany|Maynard Olson|Lincoln D. Stein|James B. Williams|Jan A. Witkowski|Robert C. Kain|Yaniv Erlich Princeton;|Illumina;|Google;|Duke University;|University of Washington;|University of Toronto;|Cold Spring Harbor Laboratory;|Whitehead Institute
http://dx.doi.org/10.1101/006577 2014-06-25 Bioinformatics Accurate prediction of transmembrane β-barrel proteins from sequences Sikander Hayat|Chris Sander|Arne Elofsson|Debora S. Marks Dept. of Systems Biology, Harvard Medical School, Boston, USA;|Computational Biology Center, Memorial Sloan-Kettering Cancer Center, New York, New York, USA;|Science for Life Laboratory and Department of Biochemistry and Biophysics, Stockholm University
http://dx.doi.org/10.1101/006593 2014-06-25 Molecular Biology ADP-ribose derived Nuclear ATP is Required for Chromatin Remodeling and Hormonal Gene Regulation Roni H. G. Wright|Francois LeDily|Daniel Soronellas|Andy Pohl|Jaume Bonet|A. Silvina Nacht|Guillermo P Vicent|Michael Wierer|Baldo Oliva|Miguel Beato Centre de Regulaci? Gen?mica (CRG);|Structural Bioinformatics Laboratory, Universitat Pompeu Fabra (UPF),;|Centre de Regulaci? Gen?mica (CRG),;|Max Plank Institut f?r Biochemie
http://dx.doi.org/10.1101/006510 2014-06-24 Neuroscience CC BY Preparation of Synaptosomes from Postmortem Human Prefrontal Cortex Neil R Smalheiser|Giovanni Lugli University of Illinois at Chicago
http://dx.doi.org/10.1101/006551 2014-06-24 Bioinformatics CC BY-NC-ND Compression of short-read sequences using path encoding Carl Kingsford|Rob Patro Carnegie Mellon University
http://dx.doi.org/10.1101/006452 2014-06-24 Genomics CC BY-NC-ND Autosomal admixture levels are informative about sex bias in admixed populations Amy Goldberg|Paul Verdu|Noah A Rosenberg Stanford University;|CNRS MNHN Univ. Paris Diderot;|Stanford
http://dx.doi.org/10.1101/006486 2014-06-24 Evolutionary Biology CC BY Are phylogenetic patterns the same in anthropology and biology? David Morrison Uppsala University
http://dx.doi.org/10.1101/005942 2014-06-24 Genomics CC BY Copy number networks to guide combinatorial therapy for cancer and other disorders Andy Lin|Desmond James Smith UCLA
http://dx.doi.org/10.1101/005041 2014-06-23 Microbiology CC BY The inherent mutational tolerance and antigenic evolvability of influenza hemagglutinin Bargavi Thyagarajan|Jesse D Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/006478 2014-06-23 Genomics Estimating cellular pathways from an ensemble of heterogeneous data sources Alexander Franks|Florian Markowetz|Edoardo Airoldi Harvard University;|Cancer Research UK Cambridge Institute
http://dx.doi.org/10.1101/006361 2014-06-23 Bioinformatics CC BY-NC Finite-state discrete-time Markov chain models of gene regulatory networks Vladimir Skornyakov|Maria Skornyakova|Antonina Shurygina|Pavel Skornyakov Kogan Research Institute of Neurocybernetics, Southern Federal University, Rostov-on-Don, Russia;|none
http://dx.doi.org/10.1101/005587 2014-06-22 Bioinformatics CC BY Inferring restrictions in the temporal order of mutations during tumor progression: effects of passengers, evolutionary models, and sampling Ramon Diaz-Uriarte Dept. Biochemistry, Universidad Autonoma de Madrid, and IIBM Alberto Sols (UAM-CSIC), Madrid, Spain
http://dx.doi.org/10.1101/006213 2014-06-20 Cell Biology CC BY-NC Using Polysome Isolation with Mechanism Alteration to Uncover Transcriptional and Translational Dynamics in Key Genes Bradly Alicea Orthogonal Research
http://dx.doi.org/10.1101/003400 2014-06-20 Neuroscience CC BY-NC Optimizing Real Time fMRI Neurofeedback for Therapeutic Discovery and Development Luke Stoeckel|Kathleen A. Garrison|Satrajit S Ghosh|Paul Wighton|Colleen A. Hanlon|Jodi M. Gilman|Stephanie Greer|Nicholas B. Turk-Browne|Megan T. deBettencourt|Dustin Scheinost|Cameron Craddock|Todd Thompson|Vanessa Calderon|Clemens C. Bauer|Mark George|Hans C. Breiter|Susan Whitfield-Gabrieli|John D. Gabrieli|Stephen M. LaConte|Laurence M. Hirshberg|Judson A. Brewer|Michelle Hampson|Andre Van Der Kouwe|Sean Mackey|Anne E Evins Massachusetts General Hospital and Harvard Medical School;|Yale University School of Medicine, Department of Psychiatry;|McGovern Institute for Brain Research (MIT);|Athinoula A. Martinos Center, MGH Department of Radiology;|Medical University of South Carolina, Department of Psychiatry;|MGH Department of Psychiatry, Harvard Medical School, Athinoula A. Martinos Center;|University of California at Berkeley, Department of Neuroscience;|Princeton University, Department of Psychology;|Princeton Neuroscience Institute;|Yale University School of Medicine, Department of Diagnostic Radiology;|Child Mind Institute;|MGH Department of Psychiatry;|Universidad Nacional Autonoma de Mexico, Instituto de Neurobiologia;|MGH Dept. of Psychiatry, Northwestern University Feinberg School of Medicine, Dept. of Psychiatry;|Virginia Tech, School of Biomedical Engineering and Sciences, Virginia Tech Carilion Research Instit;|Alpert Medical School of Brown University, Department of Psychiatry and Human Behavior;|Yale University School of Medicine, University of Massachusetts Medical Department of Psychiatry;|Stanford University School of Medicine, Department of Anesthesia;|MGH Department of Psychiatry, Harvard Medical School
http://dx.doi.org/10.1101/006353 2014-06-19 Neuroscience Combining genome-scale Drosophila 3D neuroanatomical data by bridging template brains James D. Manton|Aaron D. Ostrovsky|Lea Goetz|Marta Costa|Torsten Rohlfing|Gregory S. X. E. Jefferis Division of Neurobiology, MRC Laboratory of Molecular Biology, Cambridge, CB2?0QH, UK;|SRI International, Neuroscience Program, Center for Health Sciences, Menlo Park, CA, USA
http://dx.doi.org/10.1101/006403 2014-06-19 Bioinformatics CC BY-ND Beyond library size: a field guide to NGS normalization Jelena Aleksic|Sarah H Carl|Michaela Frye University of Cambridge
http://dx.doi.org/10.1101/002345 2014-06-19 Genetics CC BY-NC-ND Approximation to the distribution of fitness effects across functional categories in human segregating polymorphisms Fernando Racimo|Joshua G Schraiber University of California, Berkeley
http://dx.doi.org/10.1101/006395 2014-06-18 Bioinformatics CC BY-NC Error correction and assembly complexity of single molecule sequencing reads. Hayan Lee|James Gurtowski|Shinjae Yoo|Shoshana Marcus|W. Richard McCombie|Michael Schatz Cold Spring Harbor Laboratory;|Brookhaven National Laboratory
http://dx.doi.org/10.1101/001370 2014-06-18 Bioinformatics Accurate detection of de novo and transmitted INDELs within exome-capture data using micro-assembly Giuseppe Narzisi|Jason A O'Rawe|Ivan Iossifov|Han Fang|Yoon-ha Lee|Zihua Wang|Yiyang Wu|Gholson J Lyon|Michael Wigler|Michael C Schatz Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/001834 2014-06-17 Genomics Illumina TruSeq synthetic long-reads empower de novo assembly and resolve complex, highly repetitive transposable elements Rajiv C McCoy|Ryan W Taylor|Timothy A Blauwkamp|Joanna L Kelley|Michael Kertesz|Dmitry Pushkarev|Dmitri A Petrov|Anna-Sophie Fiston-Lavier Stanford University;|Illumina, Inc.;|Washington State University;|Institut des Sciences de l'Evolution-Montpellier
http://dx.doi.org/10.1101/006247 2014-06-16 Developmental Biology CC BY-ND Comparison of the 3D organization of sperm and fibroblast genomes using the Hi-C approach Nariman Battulin|Veniamin S Fishman|Alexander M Mazur|Mikhail Pomaznoy|Anna A Khabarova|Dmitry A Afonnikov|Egor B Prokhortchouk|Oleg L Serov Institute of Cytology and Genetics, Novosibirsk, Russia;|Center of Bioengineering, Russian Academy of Sciences, Moscow, Russia
http://dx.doi.org/10.1101/003269 2014-06-16 Ecology Early warning signs in social-ecological networks Samir Suweis|Paolo D'Odorico Universiyt of Padova;|University of Virginia
http://dx.doi.org/10.1101/006338 2014-06-13 Bioinformatics CC BY Evaluation of de novo transcriptome assemblies from RNA-Seq data Bo Li|Nathanael Fillmore|Yongsheng Bai|Mike Collins|James A Thomson|Ron Stewart|Colin Dewey University of California, Berkeley;|University of Wisconsin-Madison;|Morgridge Institute for Research
http://dx.doi.org/10.1101/006312 2014-06-13 Developmental Biology CC BY Establishment of regions of genomic activity during the Drosophila maternal to zygotic transition Xiao-Yong Li|Melissa Harrison|Tommy Kaplan|Michael Eisen University of California, Berkeley;|University of Wisconsin, Madison;|Hebrew University of Jerusalem;|University of California Berkeley
http://dx.doi.org/10.1101/005405 2014-06-13 Bioinformatics Powerful tests for multi-marker association analysis using ensemble learning Badri Padhukasahasram|Chandan K Reddy|L. Keoki Williams Henry Ford Health System;|Wayne State University
http://dx.doi.org/10.1101/006288 2014-06-13 Zoology CC BY Mitochondrial DNA variation and structure among North American populations of Megaselia scalaris Bret S Lesavoy|Suzanne E McGaugh|Mohamed A.F. Noor Duke University
http://dx.doi.org/10.1101/006270 2014-06-12 Genomics CC BY-NC-ND Musashi proteins are post-transcriptional regulators of the epithelial-luminal cell state Yarden Katz|Feifei Li|Nicole Lambert|Ethan M Sokol|Wai-Leong Tam|Albert W Cheng|Edoardo M Airoldi|Christopher J Lengner|Piyush B Gupta|Zhengquan Yu|Rudolf Jaenisch|Christopher B Burge MIT;|China Agricultural University;|Harvard University;|University of Pennsylvania
http://dx.doi.org/10.1101/004010 2014-06-12 Genomics CC BY-NC-ND MixMir: microRNA motif discovery from gene expression data using mixed linear models LIYANG Diao|Antoine Marcais|Scott Norton|Kevin C. Chen Rutgers, The State University of New Jersey;|Universite de Lyon;|University of Connecticut;|Rutgers, The State University of New Jersey
http://dx.doi.org/10.1101/006221 2014-06-11 Genomics CC BY-NC-ND Accounting for biases in riboprofiling data indicates a major role for proline and not positive amino acids in stalling translation Carlo G. Artieri|Hunter B. Fraser Stanford University;|Stanford
http://dx.doi.org/10.1101/006205 2014-06-11 Evolutionary Biology The rugged adaptive landscape of an emerging plant RNA virus Jasna Lalic|Santiago F. Elena CSIC
http://dx.doi.org/10.1101/006163 2014-06-11 Genomics CC BY-NC Genome-wide Identification of Zero Nucleotide Recursive Splicing in Drosophila Michael O Duff|Sara Olson|Xintao Wei|Ahmad Osman|Alex Plocik|Mohan Bolisetty|Susan Celniker|Brenton Graveley UConn Health Center;|LBNL
http://dx.doi.org/10.1101/003848 2014-06-11 Evolutionary Biology CC BY An experimentally informed evolutionary model improves phylogenetic fit to divergent lactamase homologs Jesse D Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/005900 2014-06-11 Genomics CC BY-NC Complete plastid genome assembly of invasive plant, Centaurea diffusa Kathryn G Turner|Christopher J Grassa University of British Columbia
http://dx.doi.org/10.1101/006130 2014-06-10 Genomics CC BY Validation of methods for Low-volume RNA-seq Peter Acuna Combs|Michael B Eisen University of California, Berkeley
http://dx.doi.org/10.1101/004317 2014-06-10 Molecular Biology Comprehensive mutational scanning of a kinase in vivo reveals substrate-dependent fitness landscapes Alexandre Melnikov|Peter Rogov|Li Wang|Andreas Gnirke|Tarjei S Mikkelsen Broad Institute
http://dx.doi.org/10.1101/002428 2014-06-09 Evolutionary Biology CC BY-NC-ND Evidence for widespread positive and negative selection in coding and conserved noncoding regions of Capsella grandiflora Robert J Williamson|Emily B Josephs|Adrian E Platts|Khaled M Hazzouri|Annabelle Haudry|Mathieu Blanchette|Stephen I Wright University of Toronto;|McGill University;|New York University Abu Dhabi;|Universite Lyon
http://dx.doi.org/10.1101/006106 2014-06-09 Synthetic Biology CC BY-NC-ND Characterization of a rationally engineered phaCAB operon with a hybrid promoter design Iain Bower|Bobby Wenqiang Chi|Matthew Ho Wai Chin|Sisi Fan|Margarita Kopniczky|Jemma Pilcher|James Strutt|Richard Kelwick|Alexander Webb|Kirsten Jensen|Guy-Bart Stan|Richard Kitney|Paul Freemont Imperial College London
http://dx.doi.org/10.1101/006072 2014-06-07 Developmental Biology CC BY-NC-ND Gene co-expression modules underlying polymorphic and monomorphic zooids in the colonial hydrozoan, Hydractinia symbiolongicarpus David C Plachetzki|M. Sabrina Pankey|Brian R Johnson|Eric J Ronne|Artyom Kopp|Richard K Grosberg The University of New Hampshire;|The University of California at Santa Barbara;|The University of California at Davis
http://dx.doi.org/10.1101/006080 2014-06-07 Biochemistry CC BY Efficient isolation of specific genomic regions retaining molecular interactions by the iChIP system using recombinant exogenous DNA-binding proteins Toshitsugu Fujita|Hodaka Fujii Research Institute for Microbial Diseases, Osaka University
http://dx.doi.org/10.1101/005967 2014-06-06 Bioinformatics CC BY Identification, annotation and visualisation of extreme changes in splicing from RNA-seq experiments with SwitchSeq Mar Gonzalez-Porta|Alvis Brazma EMBL-EBI
http://dx.doi.org/10.1101/005983 2014-06-06 Genomics CC BY Avoiding test set bias with rank-based prediction Prasad Patil|Peirre-Olivier Bachant-Winner|Benjamin Haibe-Kains|Jeffrey T Leek Johns Hopkins Bloomberg School of Public Health;|Institute de Reserches Clinques de Montreal;|Princess Margaret Cancer Center
http://dx.doi.org/10.1101/006031 2014-06-06 Evolutionary Biology CC BY-NC-ND Testing the Toxicofera: comparative reptile transcriptomics casts doubt on the single, early evolution of the reptile venom system Adam D Hargreaves|Martin T Swain|Darren W Logan|John F Mulley Bangor University;|Aberystwyth University;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/006049 2014-06-06 Ecology CC BY-NC-ND A comparison of the gobiid fauna between a shoal and an island habitat in the central Visayas (Philippines) Klaus M. Stiefel|Alistair Merrifield|Matt Reed|David B. Joyce University of Western Sydney;|NPS Medicinewise;|Evolution Diving
http://dx.doi.org/10.1101/006056 2014-06-06 Genetics CC BY-NC-ND Transcriptomic analysis of the lesser spotted catshark (Scyliorhinus canicula) pancreas, liver and brain reveals molecular level conservation of vertebrate pancreas function John F Mulley|Adam D Hargreaves|Matthew J Hegarty|R. Scott Heller|Martin T Swain Bangor University;|Aberystwyth University;|Novo Nordisk
http://dx.doi.org/10.1101/005991 2014-06-06 Bioinformatics CC BY-NC-ND iRAP - an integrated RNA-seq Analysis Pipeline Nuno A. Fonseca|Robert Petryszak|John Marioni|Alvis Brazma EMBL-EBI;|European Molecular Biology Laboratory - European Bioinformatics Institute
http://dx.doi.org/10.1101/002188 2014-06-05 Bioinformatics CC BY-NC-ND Significantly distinct branches of hierarchical trees: A framework for statistical analysis and applications to biological data Guoli Sun|Alexander Krasnitz Stony Brook University;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/005140 2014-06-05 Neuroscience CC BY-NC-ND Collecting reward to defend homeostasis: A homeostatic reinforcement learning theory Mehdi Keramati|Boris Gutkin Group for Neural Theory, INSERM U960, Ecole Normale Supérieure, Paris, France.
http://dx.doi.org/10.1101/005777 2014-06-04 Paleontology CC BY-NC Osmunda pulchella sp. nov. from the Jurassic of Swedenreconciling molecular and fossil evidence in the phylogeny of Osmundaceae Benjamin Bomfleur|Guido W Grimm|Stephen McLoughlin Swedish Museum of Natural History
http://dx.doi.org/10.1101/005892 2014-06-04 Genomics Power analysis of artificial selection experiments using efficient whole genome simulation of quantitative traits Darren Kessner|John Novembre UCLA;|University of Chicago
http://dx.doi.org/10.1101/005918 2014-06-04 Bioinformatics Simultaneous estimation of transcript abundances and transcriptspecific fragment distributions of RNA-Seq data with the Mix2 model Andreas Tuerk|Gregor Wiktorin Lexogen GmbH
http://dx.doi.org/10.1101/003889 2014-06-04 Biophysics Spatial epidemiology of networked metapopulation: An overview Lin WANG|Xiang Li The University of Hong Kong;|Fudan University
http://dx.doi.org/10.1101/005868 2014-06-04 Evolutionary Biology Origin and evolution of the self-organizing cytoskeleton in the network of eukaryotic organelles Gaspar Jekely Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/005793 2014-06-03 Evolutionary Biology How the tortoise beats the hare: Slow and steady adaptation in structured populations suggests a rugged fitness landscape in bacteria Joshua R. Nahum|Peter Godfrey-Smith|Brittany N. Harding|Joseph H. Marcus|Jared Carlson-Stevermer|Benjamin Kerr Michigan State University;|City University of New York;|University of Washington;|University of Wisconsin
http://dx.doi.org/10.1101/005751 2014-06-03 Evolutionary Biology Genomic, transcriptomic and phenomic variation reveals the complex adaptation of modern maize breeding Haijun Liu|Xiaqing Wang|Marilyn Warburton|Weiwei Wen|Minliang Jin|Min Deng|Jie Liu|Hao Tong|Qingchun Pan|Xiaohong Yang|Jianbing Yan National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University;|United States Department of Agriculture, Agricultural Research Service;|China Agricultural University
http://dx.doi.org/10.1101/004994 2014-06-03 Ecology An appraisal of the classic forest succession paradigm with the shade tolerance index Jean F Lienard|Ionut Florescu|Nikolay Strigul Washington State University, Vancouver WA;|Stevens Institute of Technology, Hoboken, NJ
http://dx.doi.org/10.1101/005835 2014-06-03 Microbiology Bacillus Calmette-Guerin infection in NADPH oxidase deficiency: defective mycobacterial sequestration and granuloma formation Christine Deffert|Michela G. Schappi|Jean-Claude Pache|Julien Cachat|Dominique Vesin|Ruth Bisig|Xiaojuan Ma Mulone|Tiina Kelkka|Rikard Holmdahl|Irene Garcia|Maria L. Olleros|Karl-Heinz Krause Medical Faculty and University of Geneva;|Department of Pathology and Immunology, Medical Faculty and University of Geneva;|Division of Clinical Pathology, Department of Pathology and Immunology, University of Geneva;|Section of Medical Inflammation Research, Medicity Research Laboratory, University of Turku
http://dx.doi.org/10.1101/001545 2014-06-02 Bioinformatics CC BY Exploring community structure in biological networks with random graphs Pratha Sah|Lisa O. Singh|Aaron Clauset|Shweta Bansal Georgetown University;|University of Colorado
http://dx.doi.org/10.1101/005249 2014-06-02 Evolutionary Biology A field test for frequency-dependent selection on mimetic colour patterns in Heliconius butterflies Patricio Alejandro Salazar Carrion|Martin Stevens|Robert T. Jones|Imogen Ogilvie|Chris Jiggins Universidad Tecnológica Indoamérica;|University of Exeter;|Muséum National d'Histoire Naturelle;|University of Cambridge
http://dx.doi.org/10.1101/005702 2014-05-31 Systems Biology CC BY High-throughput functional annotation of influenza A virus genome at single-nucleotide resolution Nicholas C. Wu|Arthur P. Young|Laith Q. Al-Mawsawi|C. Anders Olson|Jun Feng|Hangfei Qi|Shu-Hwa Chen|I-Hsuan Lu|Chung-Yen Lin|Robert G. Chin|Harding H. Luan|Nguyen Nguyen|Stanley F. Nelson|Xinmin Li|Ting-Ting Wu|Ren Sun University of California, Los Angeles;|Academia Sinica
http://dx.doi.org/10.1101/005728 2014-05-31 Neuroscience CC BY Boymaw, Overexpressed in Brains with Major Psychiatric Disorders, May Encode a Small Protein to Inhibit Mitochondrial Function and Protein Translation Baohu Ji|Minjung Kim|Kerin Higa|Xianjin Zhou University of California, San Diego;|University of California San Diego
http://dx.doi.org/10.1101/005694 2014-05-31 Genetics CC BY The genetic basis of energy conservation in the sulfate-reducing bacterium Desulfovibrio alaskensis G20 Morgan Price|Jayashree Ray|Kelly M Wetmore|Jennifer V. Kuehl|Stefan Bauer|Adam M Deutschbauer|Adam P Arkin Lawrence Berkeley Lab;|Energy Biosciences Institute
http://dx.doi.org/10.1101/005710 2014-05-31 Neuroscience CC BY Inhibition of protein translation by the DISC1-Boymaw fusion gene from a Scottish family with major psychiatric disorders Baohu Ji|Kerin Higa|Minjung Kim|Lynn Zhou|Jared Young|Mark Geyer|Xianjin Zhou University of California, San Diego;|La Jolla High School
http://dx.doi.org/10.1101/005736 2014-05-31 Genomics CC BY-NC-ND Phylogenetic Identification and Functional Characterization of Orthologs and Paralogs across Human, Mouse, Fly, and Worm Yi-Chieh Wu|Mukul S Bansal|Matthew D Rasmussen|Javier Herrero|Manolis Kellis Massachusetts Institute of Technology;|University of Connecticut;|Cornell University;|University College London Cancer Institute
http://dx.doi.org/10.1101/005652 2014-05-28 Evolutionary Biology Cis-regulatory elements and human evolution Adam Siepel|Leonardo Arbiza Cornell University
http://dx.doi.org/10.1101/005512 2014-05-28 Evolutionary Biology CC BY-NC Dynamics of a combined medea-underdominant population transformation system Chaitanya Gokhale|Richard Guy Reeves|Floyd A Reed Massey University;|Department of Genetics, Max Planck Institute for Evolutionary Biology;|Department of Biology, University of Hawaii at M ̄anoa
http://dx.doi.org/10.1101/005611 2014-05-28 Bioinformatics CC BY-NC-ND A comparative study of techniques for differential expression analysis on RNA-Seq data Zong Hong Zhang|Dhanisha J. Jhaveri|Vikki M. Marshall|Denis C. Bauer|Janette Edson|Ramesh K. Narayanan|Gregory J. Robinson|Andreas E. Lundberg|Perry F. Bartlett|Naomi R. Wray|Qiongyi Zhao The University of Queensland, Queensland Brain Institute;|Swedish University of Agricultural Sciences, Department of Clinical Sciences
http://dx.doi.org/10.1101/005629 2014-05-28 Systems Biology CC BY-NC-ND Extensive Regulation of Metabolism and Growth during the Cell Division Cycle Nikolai Slavov|David Botstein|Amy Caudy Harvard University;|Princeton University;|University of Toronto
http://dx.doi.org/10.1101/005645 2014-05-28 Cell Biology CC BY-NC Artificially inducing close apposition of endoplasmic reticulum and mitochondria induces mitochondrial fragmentation. Victoria J Miller|David J Stephens University of Bristol
http://dx.doi.org/10.1101/003194 2014-05-28 Evolutionary Biology CC BY-NC-ND Phylogenetic tree shapes resolve disease transmission patterns Jennifer Gardy|Caroline Colijn British Columbia Centre for Disease Control;|Imperial College London
http://dx.doi.org/10.1101/005496 2014-05-27 Plant Biology CC BY-NC Different profile of transcriptome between wheat Yunong 201 and its high-yield mutant Yunong 3114 Feng Chen|Zhongdong Dong|Ning Zhang|Xiangfen Zhang|Dangqun Cui Henan Agricultural University
http://dx.doi.org/10.1101/005504 2014-05-27 Developmental Biology CC BY-NC-ND The methylome of the human frontal cortex across development Andrew E Jaffe|Yuan Gao|Ran Tao|Thomas M Hyde|Daniel R Weinberger|Joel E Kleinman Lieber Institute for Brain Development
http://dx.doi.org/10.1101/005603 2014-05-27 Genetics CC BY-NC-ND Reconstructing Austronesian population history in Island Southeast Asia Mark Lipson|Po-Ru Loh|Nick Patterson|Priya Moorjani|Ying-Chin Ko|Mark Stoneking|Bonnie Berger|David Reich MIT;|Broad Institute of Harvard and MIT;|Harvard Medical School;|China Medical University;|Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/005462 2014-05-27 Genomics CC BY-NC Human genomic regions with exceptionally high or low levels of population differentiation identified from 911 whole-genome sequences Vincenza Colonna|Qasim Ayub|Yuan Chen|Luca Pagani|Pierre Luisi|Marc Pybus|Erik Garrison|Yali Xue|Chris Tyler-Smith The Wellcome Trust Sanger Institute;|Universitat Pompeu Fabra-CSIC;|Boston College
http://dx.doi.org/10.1101/005538 2014-05-26 Physiology CC BY-NC-ND Hip and knee kinematics display complex and time-varying sagittal kinematics during repetitive stepping: Implications for design of a functional fatigue model of the knee extensors and flexors Corey Scholes|Michael McDonald|Anthony Parker Sydney Orthopaedic Research Institute;|Queensland University of Technology;|Institute of Health and Biomedical Innovation, QUT
http://dx.doi.org/10.1101/005546 2014-05-26 Genomics CC BY-ND Alternative splicing detection workflow needs a careful combination of sample prep and bioinformatics analysis Matteo Carrara|Josephine Lum|Francesca Cordero|Marco Beccuti|Michael Poidinger|Susanna Donatelli|Raffaele A Calogero|Francesca Zolezzi Department of Molecular Biotechnology and Health Sciences, University of Torino;|Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (A*STAR) Singapore;|Department of Computer Science, University of Torino
http://dx.doi.org/10.1101/005454 2014-05-24 Pharmacology CC BY-ND Novel Natural Product Discovery from Marine Sponges and their Obligate Symbiotic Organisms Regina Monaco|Rena Quinlan Hunter College;|Lehman College
http://dx.doi.org/10.1101/005348 2014-05-23 Genetics CC BY-NC-ND Inferring human population size and separation history from multiple genome sequences Stephan Schiffels|Richard Durbin Wellcome Trust Sanger Institute;|Sanger Institute
http://dx.doi.org/10.1101/003905 2014-05-22 Genetics CC BY LIMIX: genetic analysis of multiple traits Christoph Lippert|Francesco Paolo Casale|Barbara Rakitsch|Oliver Stegle Microsoft Research;|EMBL - EBI;|Max Planck Institute for Intelligent Systems
http://dx.doi.org/10.1101/005439 2014-05-22 Genomics CC BY-NC-ND Profiling direct mRNA-microRNA interactions using synthetic biotinylated microRNA-duplexes Shivangi Wani|Nicole Cloonan QIMR Berghofer Medical Research Institute
http://dx.doi.org/10.1101/005413 2014-05-22 Molecular Biology A genome-wide analysis of Cas9 binding specificity using ChIP-seq and targeted sequence capture Henriette O'Geen|Isabelle M. Henry|Mital S. Bhakta|Joshua F. Meckler|David J. Segal University of California, Davis
http://dx.doi.org/10.1101/005355 2014-05-21 Bioinformatics Inference of phenotype-defining functional modules of protein families for microbial plant biomass degraders Sebastian Gil Anthony Konietzny|Phillip Byron Pope|Aaron Weimann|Alice Carolyn McHardy Heinrich-Heine-University Düsseldorf;|Norwegian University of Life Sciences
http://dx.doi.org/10.1101/005330 2014-05-21 Evolutionary Biology CC BY-NC-ND The distribution of deleterious genetic variation in human populations Kirk E Lohmueller UCLA
http://dx.doi.org/10.1101/005397 2014-05-21 Cancer Biology Differences in sensitivity to EGFR inhibitors could be explained by described biochemical differences between oncogenic Ras mutants Edward C Stites Washington University School of Medicine
http://dx.doi.org/10.1101/005371 2014-05-21 Genomics CC BY IVT-seq reveals extreme bias in RNA-sequencing Nicholas F Lahens|Ibrahim Halil Kavakli|Ray Zhang|Katharina Hayer|Michael B Black|Hannah Dueck|Angel Pizarro|Junhyong Kim|Rafael A Irizarry|Russell S Thomas|Gregory R Grant|John B Hogenesch University of Pennsylvania;|Koç University;|The Hamner Institutes for Health Sciences;|Amazon Web Services;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/005322 2014-05-19 Evolutionary Biology CC BY-NC-ND Adaptation to a novel predator in Drosophila melanogaster: How well are we able to predict evolutionary responses? Michael DeNieu|William Pitchers|Ian Dworkin Michigan State University
http://dx.doi.org/10.1101/005298 2014-05-19 Neuroscience CC BY-ND Ultra fast tissue staining with chemical tags Johannes Kohl|Julian Ng|Sebastian Cachero|Michael-John Dolan|Ben Sutcliffe|Daniel Kruger|Shahar Frechter|Gregory SXE Jefferis MRC Laboratory of Molecular Biology;|Heidelberg University
http://dx.doi.org/10.1101/003723 2014-05-19 Bioinformatics CC BY READemption - A tool for the computational analysis of deep-sequencing-based transcriptome data Konrad Ulrich Forstner|Jorg Vogel|Cynthia Mira Sharma Institute for Molecular Infection Biology/Research Center for Infectious Diseases;|Institute for Molecular Infection Biology;|Research Centre for Infectious Diseases
http://dx.doi.org/10.1101/005223 2014-05-19 Evolutionary Biology CC BY-NC-ND Strategic Social Learning and the Population Dynamics of Human Behavior: The Game of Go Bret A Beheim|Calvin Thigpen|Richard McElreath University of New Mexico;|University of California, Davis
http://dx.doi.org/10.1101/005215 2014-05-19 Developmental Biology CC BY Generation of Aggregates of Mouse ES Cells that Show Symmetry Breaking, Polarisation and Emergent Collective Behaviour in vitro. Peter Baillie-Johnson|Susanne C van den Brink|Tina Balayo|David A Turner|Alfonso Martinez Arias University of Cambridge;|Univeristy of Cambridge
http://dx.doi.org/10.1101/005231 2014-05-16 Bioinformatics CC BY-NC SraTailor: GUI software for visualizing high-throughput sequence read archives Shinya Oki|Kazumitsu Maehara|Yasuyuki Ohkawa|Chikara Meno Kyushu university
http://dx.doi.org/10.1101/005256 2014-05-16 Microbiology CC BY-NC-ND A putative antiviral role of plant cytidine deaminases Susana Martin|Jose M. Cuevas|Ana Grande-Perez|Santiago F. Elena IBMCP (CSIC-UPV);|Universidad de Málaga
http://dx.doi.org/10.1101/005181 2014-05-15 Bioinformatics CC BY A new insight for the screening of potential β-lactamase inhibitors Vijai Singh|Dharmendra Kumar Chaudhary Department of Biotechnology, Invertis University, Bareilly- Lucknow NH-24, Bareilly 243123, India;|Department of Biotechnology, H.N.B. Garhwal Central University, Badshahithaul 249199, UK, India
http://dx.doi.org/10.1101/005165 2014-05-14 Bioinformatics CC BY-NC qqman: an R package for visualizing GWAS results using Q-Q and manhattan plots Stephen D. Turner University of Virginia
http://dx.doi.org/10.1101/005173 2014-05-14 Systems Biology CC BY-NC-ND Locus architecture affects mRNA expression levels in Drosophila embryos Tara Lydiard-Martin|Meghan Bragdon|Kelly B Eckenrode|Zeba Wunderlich|Angela H DePace Harvard University
http://dx.doi.org/10.1101/004911 2014-05-14 Bioinformatics CC BY-ND Application of Global Transcriptome Data in Gene Ontology Classification and Construction of a Gene Ontology Interaction Network Mario Fruzangohar|Esmaeil Ebrahimie|David L Adelson The University of Adelaide;|University of Adelaide
http://dx.doi.org/10.1101/005090 2014-05-14 Genetics Cosi2 : An efficient simulator of exact and approximate coalescent with selection Ilya Shlyakhter|Pardis C. Sabeti|Stephen F. Schaffner Broad Institute, Harvard University;|Broad Institute
http://dx.doi.org/10.1101/005124 2014-05-13 Genetics CC BY When genomes collide: multiple modes of germline misregulation in a dysgenic syndrome of Drosophila virilis Mauricio A. Galdos|Alexandra A. Erwin|Michelle L. Wickersheim|Chris C. Harrison|Kendra D. Marr|Justin Blumenstiel University of Kansas
http://dx.doi.org/10.1101/005074 2014-05-12 Genomics CC BY CasFinder: Flexible algorithm for identifying specific Cas9 targets in genomes John Aach|Prashant Mali|George M Church Harvard Medical School
http://dx.doi.org/10.1101/005066 2014-05-12 Neuroscience Independent Theta Phase Coding Accounts for CA1 Population Sequences and Enables Flexible Remapping Angus Chadwick|Mark C. W. van Rossum|Matthew F. Nolan University of Edinburgh
http://dx.doi.org/10.1101/005058 2014-05-12 Genomics CC BY Diversity and evolution of centromere repeats in the maize genome Paul Bilinski|Kevin Distor|Jose Gutierrez-Lopez|Gabriela Mendoza Mendoza|Jinghua Shi|R. Kelly Dawe|Jeffrey Ross-Ibarra University of California Davis;|University of Georgia
http://dx.doi.org/10.1101/005025 2014-05-11 Systems Biology Module organizational principles and dynamics in biological networks Chun-Yu Lin|Tsai-ling Lee|Yi-Wei Lin|Yu-Shu Lo|Chih-Ta Lin|Jinn-Moon Yang Institute of Bioinformatics and Systems Biology, National Chiao Tung University;|Institute of Bioinformatics, National Chiao Tung University
http://dx.doi.org/10.1101/005017 2014-05-09 Evolutionary Biology CC BY-NC-ND Background selection as baseline for nucleotide variation across the Drosophila genome Josep M Comeron University of Iowa
http://dx.doi.org/10.1101/004986 2014-05-09 Ecology CC BY-NC-ND Spatial variation in water loss predicts terrestrial salamander distribution and population dynamics William Peterman|Raymond D Semlitsch University of Illinois;|University of Missouri
http://dx.doi.org/10.1101/004960 2014-05-09 Systems Biology Mycoplasma stress response: adaptive regulation or broken brakes? Pavel V Mazin|Gleb Y Fisunov|Alexey Y Gorbachev|Ilya A Altukhov|Tatiana A Semashko|Dmitry G Alexeev|Vadim M Govorun Research Institute of Physical-Chemical Medicine
http://dx.doi.org/10.1101/004978 2014-05-08 Pharmacology Evidences of a cytotoxic activity of S-adenosylmethionine on OCI-AML3 cells Kathrin Aprile von Hohenstaufen|Irina Puoti|Marisa Meloni|Barbara De Servi Liber Augustalis Biomedical Research Association;|VitroScreen, In vitro research Laboratory
http://dx.doi.org/10.1101/004903 2014-05-08 Genetics CC BY-NC-ND Differential relationships between habitat fragmentation and within-population genetic diversity of three forest-dwelling birds Benjamin Zuckerberg|Matt Carling|Roi Dor|Elise Ferree|Garth Spellman|Andrea Townsend University of Wisconsin;|University of Wyoming;|Tel Aviv University;|Claremont Colleges;|Black Hills State University;|UC Davis
http://dx.doi.org/10.1101/004895 2014-05-07 Genetics Genetic dissection of MAPK-mediated complex traits across S. cerevisiae Sebastian Treusch|Frank W Albert|Joshua S Bloom|Iulia E Kotenko|Leonid Kruglyak Lewis Sigler Institute for Integrative Genomics, Princeton University;|Department of Human Genetics, University of California, Los Angeles;|Howard Hughes Medical Institute, Department of Human Genetics, University of California, Los Angeles;|Lewis Sigler Institute for Integrative Genomics, Princeton University, Princeton;|Howard Hughes Medical Institute, Department of Human Genetics, Department of Biological Chemistry, U
http://dx.doi.org/10.1101/004820 2014-05-07 Ecology Some plants dont play games: An ideal free distribution explains the root production of plants that do not engage in a tragedy of the commons game. Gordon McNickle|Joel S Brown Wilfrid Laurier University;|University of Illinois at Chicago
http://dx.doi.org/10.1101/004788 2014-05-06 Systems Biology CC BY-NC-ND A gene expression atlas of a bicoid-depleted Drosophila embryo reveals early canalization of cell fate Max V Staller|Charless C Fowlkes|Meghan D.J. Bragdon|Zeba B. Wunderlich|Angela DePace Harvard Medical School;|University of California Irvine
http://dx.doi.org/10.1101/004853 2014-05-06 Genomics CC BY-NC MOSAIC EPIGENETIC DYSREGULATION OF ECTODERMAL CELLS IN AUTISM SPECTRUM DISORDER Esther R. Berko|Masako Suzuki|Faygel Beren|Christophe Lemetre|Christine M. Alaimo|R. Brent Calder|Karen Ballaban-Gil|Batya Gounder|Kaylee Kampf|Jill Kirschen|Shahina B. Maqbool|Zeineen Momin|David M. Reynolds|Natalie Russo|Lisa Shulman|Edyta Stasiek|Jessica Tozour|Maria Valicenti-McDermott|Shenglong Wang|Brett S. Abrahams|Joseph Hargitai|Dov Inbar|Zhengdong Zhang|Joseph D. Buxbaum|Sophie Molholm|John J. Foxe|Robert W. Marion|Adam Auton|John Greally Albert Einstein College of Medicine;|Stern College for Women, Yeshiva University;|Children's Hospital at Montefiore;|New York University;|Schneider Childrens Medical Center, Petach Tikvah, Israel;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/004846 2014-05-06 Cancer Biology Cooperation between Noncanonical Ras Network Mutations in Cancer Edward C Stites|Paul C Trampont|Lisa B Haney|Scott F Walk|Kodi S Ravichandran Washington University School of Medicine;|University of Virginia
http://dx.doi.org/10.1101/004861 2014-05-06 Neuroscience CC BY-NC-ND Missing kinaesthesia challenges precise naturalistic cortical prosthetic control Ferran Galan|Mark R Baker|Kai Alter|Stuart N Baker Institute of Neuroscience, Newcastle University
http://dx.doi.org/10.1101/004804 2014-05-06 Neuroscience CC BY-NC-ND Visual areas exert feedforward and feedback influences through distinct frequency channels Andre M Bastos|Julien Vezoli|Conrado A Bosman|Jan-Mathijs Schoffelen|Robert Oostenveld|Jarrod R Dowdall|Peter De Weerd|Henry Kennedy|Pascal Fries Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|Donders Institute for Brain, Cognition and Behaviour;|Stem Cell and Brain Research Institute, INSERM U846
http://dx.doi.org/10.1101/004796 2014-05-06 Genomics N-BLR, a primate-specific non-coding transcript, modulates the epithelial-to-mesenchymal transition and leads to colorectal cancer invasion and migration Isidore Rigoutsos|Sang Kil Lee|Su Youn Nam|Tina Catela Ivkovic|Martin Pichler|Simona Rossi|Peter Clark|Jing Yi|Hui Ling|Masayoshi Shimizu|Roxana Simona Redis|Maitri Yogen Shah|Xinna Zhang|Eun Jung Jung|Aristotelis Tsirigos|Li Huang|Jana Ferdin|Roberta Gafa|Riccardo Spizzo|Milena Nicoloso|Maryam Shariati|Aida Tiron|Jen Jen Yeh|Raul Teruel|Sonia Melo|Lianchun Xiao|Elsa Renee Flores|Massimo Negrini|Menashe Bar Eli|Sendurai Mani|Chang-Gong Liu|Ioana Berindan-Neagoe|Manel Esteller|Michael Keating|Giovanni Lanza|George Calin Jefferson Medical College/Thomas Jefferson University;|Yonsei University College of Medicine, Seoul, Korea;|National Cancer Center, Goyang, Korea;|Ruder Boskovic Institute, Zagreb, Croatia;|The University of Texas M. D. Anderson Cancer Center, Houston, TX, USA.;|Swiss Institute of Bioinformatics, Quartier Sorge, Bâtiment Génopode, Switzerland.;|Computational Medicine Center, Thomas Jefferson University, Philadelphia, PA, USA.;|Department of Experimental Therapeutics, The University of Texas M. D. Anderson Cancer Center, Houst;|Center for RNA interference and non-coding RNA, The University of Texas M. D. Anderson Cancer Center;|Department of Surgery, School of Medicine, Gyeongsang National University, Jin-ju, South Korea;|Computational Genomics Group, Computational Biology Center, IBM Thomas J Watson Research Center, New;|Department of Cancer Biology, The University of Texas M. D. Anderson Cancer Center, Houston, TX, USA;|Department of Experimental and Diagnostic Medicine, University of Ferrara, Ferrara, Italy.;|CRO, National Cancer Institute, 33081 Aviano - Italy;|Department of Molecular Pathology, The University of Texas M. D. Anderson Cancer Center, Houston, TX;|Departments of Surgery and Pharmacology, Lineberger Comprehensive Cancer Center, University of North;|Centro Regional de Hemodonación, University of Murcia, Spain.;|Division of Quantitative Science, The University of Texas M. D. Anderson Cancer Center, Houston, TX,;|Department of Molecular and Cellular Biology, The University of Texas M. D. Anderson Cancer Center,;|UMF Cluj-Napoca, Department of Genomics, Cluj-Napoca, Romania.;|Cancer Epigenetics and Biology Program (PEBC), Bellvitge Biomedical Research Institute (IDIBELL), 08;|Department of Leukemia, The University of Texas M. D. Anderson Cancer Center, Houston, TX, USA.
http://dx.doi.org/10.1101/004739 2014-05-05 Bioinformatics Automatic Classification of Human Epithelial Type 2 Cell Indirect Immunofluorescence Images using Cell Pyramid Matching Arnold Wiliem|Conrad Sanderson|Yongkang Wong|Peter Hobson|Rodney Minchin|Brian Lovell University of Queensland;|NICTA;|National University of Singapore;|Sullivan Nicolaides Pathology
http://dx.doi.org/10.1101/004747 2014-05-05 Neuroscience CC BY Pre-trial exogenous visual flicker does not affect behavioral or EEG signatures of conflict processing Michael X Cohen|Fraser William Steel University of Amsterdam
http://dx.doi.org/10.1101/002683 2014-05-05 Evolutionary Biology CC BY-NC-ND Evolutionary rates for multivariate traits: the role of selection and genetic variation William Pitchers|Jason B. Wolf|Tom Tregenza|John Hunt|Ian Dworkin Michigan State University;|University of Bath;|University of Exeter, Tremough Campus
http://dx.doi.org/10.1101/004713 2014-05-04 Genetics Spatial localization of recent ancestors for admixed individuals Wen-Yun Yang|Alexander Platt|Charleston Wen-Kai Chiang|Eleazar Eskin|John Novembre|Bogdan Pasaniuc UCLA;|University of Chicago;|University of California Los Angeles
http://dx.doi.org/10.1101/004705 2014-05-03 Genetics CC BY-NC Comparison of Y-chromosomal lineage dating using either evolutionary or genealogical Y-STR mutation rates Chuan-Chao Wang|Li Hui Fudan University
http://dx.doi.org/10.1101/004689 2014-05-01 Evolutionary Biology CC BY-NC-ND Detection and Polarization of Introgression in a Five-taxon Phylogeny James B Pease|Matthew W. Hahn Indiana University
http://dx.doi.org/10.1101/004655 2014-04-30 Bioinformatics Accounting for sources of bias and uncertainty in copy number-based statistical deconvolution of heterogeneous tumour samples Christopher Yau University of Oxford
http://dx.doi.org/10.1101/004663 2014-04-30 Neuroscience Functional knockout of forebrain protein 14-3-3 disrupts conditioned taste aversion learning Adam Kimbrough|Yuying Wu|Yi Zhou|Thomas A. Houpt Dept. Biological Science, Program in Neuroscience, Florida State University;|Dept. Biomedical Sciences, College of Medicine, Program in Neuroscience, Florida State University
http://dx.doi.org/10.1101/004648 2014-04-30 Immunology Ontogenic, phenotypic, and functional characterization of XCR1+ dendritic cells leads to a consistent classification of intestinal dendritic cells based on the expression of XCR1 and SIRPα Martina Becker|Steffen Guttler|Annabell Bachem|Evelyn Hartung|Ahmed Mora|Anika Jakel|Andreas Hutloff|Volker Henn|Hans Werner Mages|Stephanie Gurka|Richard A. Kroczek Robert Koch-Institute
http://dx.doi.org/10.1101/004622 2014-04-29 Bioinformatics Graph-based data integration predicts long-range regulatory interactions across the human genome Sofie Demeyer|Tom Michoel The University of Edinburgh
http://dx.doi.org/10.1101/004614 2014-04-29 Genomics Characterizing a collective and dynamic component of chromatin immunoprecipitation enrichment profiles in yeast Lucas D. Ward|Junbai Wang|Harmen J. Bussemaker Columbia University
http://dx.doi.org/10.1101/004259 2014-04-28 Systems Biology Disentangling Multidimensional Spatio-Temporal Data into their Common and Aberrant Responses Young Hwan Chang|Jim Korkola|Dhara N. Amin|Mark M. Moasser|Jose M. Carmena|Joe W. Gray|Claire J. Tomlin Department of Electrical Engineering and Computer Sciences, University of California, Berkeley;|Dept. of Biomedical Engineering and the Center for Spatial Systems Biomedicine, OHSU;|Department of Medicine, Helen Diller Family Comprehensive Cancer Center, UCSF;|Dept. of EECS, Helen Wills Neuroscience Institute,UC Berkeley and UCB/UCSF Graduate program in BIOE
http://dx.doi.org/10.1101/004382 2014-04-28 Immunology CC BY-NC-ND Lack of association between Toll Like Receptor-2 & Toll Like Receptor-4 Gene Polymorphisms and Iranian Asthmatics risk or features hamid bahrami|saeed daneshmandi|Ali Akbar Pourfathollah|hasan haidarnazhad tarbiat modares university
http://dx.doi.org/10.1101/004580 2014-04-28 Synthetic Biology Regulatory RNA design through evolutionary computation and strand displacement William Rostain|Thomas E Landrain|Guillermo Rodrigo|Alfonso Jaramillo University of Warwick;|Institute of Systems and Synthetic Biology
http://dx.doi.org/10.1101/002899 2014-04-27 Evolutionary Biology CC BY An experimentally determined evolutionary model dramatically improves phylogenetic fit Jesse D Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/004556 2014-04-25 Biochemistry MOHCA-seq: RNA 3D models from single multiplexed proximity-mapping experiments Clarence Cheng|Fang-Chieh Chou|Wipapat Kladwang|Siqi Tian|Pablo Cordero|Rhiju Das Stanford University
http://dx.doi.org/10.1101/004499 2014-04-24 Synthetic Biology CC BY-NC In vivo generation of DNA sequence diversity for cellular barcoding Ian Peikon|Diana Gizatullina|Anthony Zador Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/004457 2014-04-24 Biophysics Cell size regulation in bacteria Ariel Amir Harvard University
http://dx.doi.org/10.1101/004424 2014-04-23 Evolutionary Biology CC BY-NC Soft selective sweeps in complex demographic scenarios Benjamin A Wilson|Dmitri Petrov|Philipp W Messer Stanford University
http://dx.doi.org/10.1101/004440 2014-04-23 Evolutionary Biology CC BY-NC-ND The evolution of genetic diversity in changing environments Oana Carja|Uri Liberman|Marcus W. Feldman Stanford University;|Tel Aviv University
http://dx.doi.org/10.1101/004432 2014-04-23 Synthetic Biology An integrated RNA and CRISPR/Cas toolkit for multiplexed synthetic circuits and endogenous gene regulation in human cells Lior Nissim|Samuel D Perli|Alexandra Fridkin|Pablo Perez-Pinera|Timothy Lu MIT;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/004465 2014-04-23 Evolutionary Biology CC BY-ND A novel Bayesian method for inferring and interpreting the dynamics of adaptive landscapes from phylogenetic comparative data Josef C Uyeda|Luke J Harmon University of Idaho
http://dx.doi.org/10.1101/003384 2014-04-23 Systems Biology CC BY-ND Metabolic free energy and biological codes: a 'Data Rate Theorem' aging model Rodrick Wallace New York State Psychiatric Institute
http://dx.doi.org/10.1101/000869 2014-04-21 Microbiology Virulence in a Pseudomonas syringae Strain with a Small Repertoire of Predicted Effectors Kevin L Hockett|Marc T Nishimura|Erick Karlsrud|Kevin Dougherty|David A Baltrus University of Arizona;|UNC Chapel Hill
http://dx.doi.org/10.1101/004366 2014-04-21 Genomics CC BY-NC-ND Quantitative comparison of single-cell sequencing methods using hippocampal neurons Luwen Ning|Guan Wang|Zhoufang Li|Wen Hu|Qingming Hou|Yin Tong|Meng Zhang|Li Qin|Xiaoping Chen|Heng-Ye Man|Pinghua Liu|Jiankui He South University of Science and Technology of China;|Boston University;|Boston University; Chinese Academy of Sciences;|Chinese Academy of Sciences
http://dx.doi.org/10.1101/004390 2014-04-21 Pathology CC BY Notorious Novel Avian Influenza Viruses H10N8 and H7N9 in China in 2013 Co-originated from H9N2 Liang Chen|Feng Zhu|Chenglong Xiong|Zhijie Zhang|Lufang Jiang|Rui Li|Genming Zhao|Yue Chen|Qingwu Jiang Department of Sanitary Microbiology, School of Public Health, Fudan University;|Department of critical care medicine, the first affiliated hospital of Nanchang University;|Department of Epidemiology and Biostatistics, School of Public Health, Fudan University;|Department of Epidemiology and Community Medicine, Faculty of Medicine, University of Ottawa;|Key Laboratory of Public Health Safety, Ministry of Education
http://dx.doi.org/10.1101/001214 2014-04-21 Neuroscience CC BY-NC-ND Conneconomics: The Economics of Dense, Large-Scale, High-Resolution Neural Connectomics Adam H Marblestone|Evan R Daugharthy|Reza Kalhor|Ian D Peikon|Justus M Kebschull|Seth L Shipman|Yuriy Mishchenko|Je Hyuk Lee|David A Dalrymple|Bradley M Zamft|Konrad P Kording|Edward S Boyden|Anthony M Zador|George M Church Harvard University;|Cold Spring Harbor Labs;|Toros University;|Harvard Medical School;|Nemaload;|Rehabilitation Institute of Chicago;|MIT
http://dx.doi.org/10.1101/004309 2014-04-21 Genetics CC BY Regulatory variants explain much more heritability than coding variants across 11 common diseases Alexander Gusev|S Hong Lee|Benjamin M Neale|Gosia Trynka|Bjarni J Vilhjalmsson|Hilary Finucane|Han Xu|Chongzhi Zang|Stephan Ripke|Eli Stahl|n/a Schizophrenia Working Group of the PGC|n/a SWE-SCZ Consortium|Anna K Kahler|Christina M Hultman|Shaun M Purcell|Steven A McCarroll|Mark Daly|Bogdan Pasaniuc|Patrick F Sullivan|Naomi R Wray|Soumya Raychaudhuri|Alkes L Price Harvard School of Public Health;|The University of Queensland, Queensland Brain Institute, Brisbane, Queensland, Australia.;|Analytic and Translational Genetics Unit, Massachusetts General Hospital and Harvard Medical School,;|Division of Genetics, Brigham and Womens Hospital, Harvard Medical School, Boston, Massachusetts, U;|Harvard School of Public Health, Boston, Massachusetts, USA.;|Department of Mathematics, Massachusetts Institute of Technology, Massachusetts, USA.;|Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard Scho;|The Department of Psychiatry at Mount Sinai School of Medicine, New York, New York, USA.;|n/a;|Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden;|Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, Massachusett;|Department of Pathology and Laboratory Medicine, Geffen School of Medicine at UCLA, Los Angeles, Cal;|Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, US
http://dx.doi.org/10.1101/004341 2014-04-21 Immunology Quantifying selection in immune receptor repertoires Yuval Elhanati|Anand Murugan|Curtis G Callan Jr.|Thierry Mora|Aleksandra Walczak Ecole normale supérieure;|Stanford University;|Princeton University
http://dx.doi.org/10.1101/004242 2014-04-20 Systems Biology Exact Reconstruction of Gene Regulatory Networks using Compressive Sensing Young Hwan Chang|Joe W. Gray|Claire J. Tomlin Department of Electrical Engineering and Computer Sciences, University of California, Berkeley;|Dept. of Biomedical Engineering and the Center for Spatial Systems Biomedicine, OHSU
http://dx.doi.org/10.1101/004291 2014-04-18 Genomics CC BY-NC-ND Quantitative comparison of single-cell sequencing methods using hippocampal neurons Luwen Ning|Guan Wang|Zhoufang Li|Wen Hu|Qingming Hou|Yin Tong|Meng Zhang|Li Qin|Xiaoping Chen|Hengye Man|Pinghua Liu|Jiankui He South University of Science and Technology of China;|Boston University;|Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences;|Guangzhou Institutes of Biomedicine and Health, Chinese Academy of Sciences,
http://dx.doi.org/10.1101/004267 2014-04-17 Evolutionary Biology Gradual divergence and diversification of mammalian duplicate gene functions Raquel Assis|Doris Bachtrog Pennsylvania State University;|University of California, Berkeley
http://dx.doi.org/10.1101/000521 2014-04-17 Evolutionary Biology CC BY-NC-ND Pathways to social evolution: reciprocity, relatedness, and synergy Jeremy Van Cleve|Erol Akcay National Evolutionary Synthesis Center;|University of Pennsylvania
http://dx.doi.org/10.1101/004234 2014-04-17 Genomics CC BY-NC-ND Genetic Influences on Brain Gene Expression in Rats Selected for Tameness and Aggression Henrike Heyne|Susann Lautenschlaeger|Ronald Nelson|Francois Besnier|Maxime Rotival|Alexander Cagan|Rimma Kozhemyakina|Irina Plyusnina|Lyudmila Trut|Orjan Carlborg|Enrico Petretto|Leonid Kruglyak|Svante Paabo|Torsten Schoeneberg|Frank Albert University of Leipzig;|Swedish University of Agricultural Sciences;|University of Bergen;|Imperial College London;|Max Planck Institute for Evolutionary Anthropology;|Institute of Cytology and Genetics;|University of California
http://dx.doi.org/10.1101/003939 2014-04-15 Evolutionary Biology CC BY Evolutionary Multiplayer Games Chaitanya S Gokhale|Arne Traulsen Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/002675 2014-04-15 Cell Biology CC BY Non-specificity of Pitstop 2 in clathrin-mediated endocytosis Anna K Willox|Yasmina M.E. Sahraoui|Stephen J Royle University of Liverpool;|University of Warwick
http://dx.doi.org/10.1101/004226 2014-04-15 Ecology CC BY-NC-ND Building a better frog trap: The benefits of mal-adaptive habitat choice for metapopulations with different life history strategies Rosemary Hartman|Noam Ross University of California Davis;|University of California, Davis
http://dx.doi.org/10.1101/003756 2014-04-14 Ecology CC BY-NC Diversity of entomopathogens Fungi: Which groups conquered the insect body? Joao P.M. Araujo|David P Hughes Pennsylvania State University
http://dx.doi.org/10.1101/004127 2014-04-14 Biochemistry CC BY Average oxidation state of carbon in proteins Jeffrey M. Dick Curtin University
http://dx.doi.org/10.1101/004218 2014-04-14 Systems Biology CC BY-NC-ND Bridging the Genotype and the Phenotype: Towards An Epigenetic Landscape Approach to Evolutionary Systems Biology Jose Davila-Velderrain|Elena R Alvarez-Buylla Universidad Nacional Autonoma de Mexico (UNAM);|Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/003608 2014-04-14 Bioinformatics CC BY-NC-ND A Comparison of Peak Callers Used for DNase-seq Data Hashem Koohy|Thomas Down|Mikhail Spivakov|Tim Hubbard Babraham Institute;|Sanger Institute
http://dx.doi.org/10.1101/003707 2014-04-14 Evolutionary Biology CC BY-NC-ND An evolutionary resolution of manipulation conflict Mauricio Gonzalez-Forero University of Tennessee, Knoxville, and National Institute for Mathematical and Biological Synthesis
http://dx.doi.org/10.1101/004176 2014-04-14 Neuroscience CC BY-NC A novel paradigm for auditory discrimination training with social reinforcement in songbirds Kirill Tokarev|Ofer Tchernichovski Hunter College, CUNY
http://dx.doi.org/10.1101/004135 2014-04-11 Evolutionary Biology CC BY-NC-ND Direct Reciprocity Under Uncertainty Does Not Explain One-shot Cooperation, but Demonstrates the Benefits of a Norm Psychology Matthew Zefferman National Institute for Mathematical and Biological Synthesis, University of Tennessee
http://dx.doi.org/10.1101/004168 2014-04-11 Molecular Biology CC BY-NC-ND Neural lineage induction reveals multi-scale dynamics of 3D chromatin organization Aleksandra Pekowska|Bernd Klaus|Felix Alexander Klein|Simon Anders|Malgorzata Oles|Lars Michael Steinmetz|Paul Bertone|Wolfgang Huber European Molecular Biology Laboratory (EMBL);|European Molecular Biology Laboratory, European Bioinformatics Institute
http://dx.doi.org/10.1101/004101 2014-04-11 Genomics Whole Genome Bisulfite Sequencing of Cell Free DNA and its Cellular Contributors Uncovers Placenta Hypomethylated Domains Taylor Jensen|Sung K Kim|Zhanyang Zhu|Christine Chin|Claudia Gebhard|Tim Lu|Cosmin Deciu|Dirk van den Boom|Mathias Ehrich Sequenom Laboratories;|Sequenom, Inc
http://dx.doi.org/10.1101/003277 2014-04-11 Cell Biology CC BY-ND Filament formation by metabolic enzymes is a specific adaptation to an advanced state of cellular starvation Ivana Petrovska|Elisabeth Nuske|Matthias C Munder|Gayathrie Kulasegaran|Liliana Malinovska|Sonja Kroschwald|Doris Richter|Karim Fahmy|Kimberley Gibson|Jean-Marc Verbavatz|Simon Alberti MPI-CBG;|Helmholtz Institute Dresden-Rossendorf, Institute of Resource Ecology;|Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/001453 2014-04-11 Genetics CC BY-NC-ND Selection signatures in worldwide Sheep populations Maria-Ines Fariello|Bertrand Servin|Gwenola Tosser-Klopp|Rachelle Rupp|Carole Moreno|International Sheep Genomics Consortium n.a.|Magali San Cristobal|simon boitard INRA;|n.a.
http://dx.doi.org/10.1101/003947 2014-04-09 Ecology CC BY Building realistic assemblages with a Joint Species Distribution Model David J. Harris UC Davis
http://dx.doi.org/10.1101/004028 2014-04-09 Bioinformatics CC BY-NC-ND A signature of power law network dynamics Ashish Bhan|Animesh Ray Keck Graduate Institute
http://dx.doi.org/10.1101/001255 2014-04-09 Ecology CC BY-NC-ND Broad-scale spatial patterns of canopy cover and pond morphology affect the structure of a Neotropical amphibian metacommunity Diogo B. Provete|Thiago Goncalves-Souza|Michel Garey|Itamar A. Martins|Denise Rossa-Feres Universidade Federal de Goiás;|Universidade Estadual de Campinas;|Universidade Federal da Integraçāo Latino Americana;|University of Taubaté;|Universidade Estadual Paulista
http://dx.doi.org/10.1101/003962 2014-04-07 Bioinformatics CC BY KmerStream: Streaming algorithms for k-mer abundance estimation Pall Melsted|Bjarni V. Halldorsson University of Iceland;|deCODE Genetics/Amgen
http://dx.doi.org/10.1101/003954 2014-04-06 Bioinformatics CC BY-NC-ND SplitMEM: Graphical pan-genome analysis with suffix skips Shoshana Marcus|Hayan Lee|Michael Schatz Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/001552 2014-04-05 Genetics CC BY-NC-ND Ancient human genomes suggest three ancestral populations for present-day Europeans Iosif Lazaridis|Nick Patterson|Alissa Mittnik|Gabriel Renaud|Swapan Mallick|Karola Kirsanow|Peter H. Sudmant|Joshua G. Schraiber|Sergi Castellano|Mark Lipson|Bonnie Berger|Christos Economou|Ruth Bollongino|Qiaomei Fu|Kirsten Bos|Susanne Nordenfelt|Heng Li|Cesare de Filippo|Kay Prufer|Susanna Sawyer|Cosimo Posth|Wolfgang Haak|Fredrik Hallgren|Elin Fornander|Nadin Rohland|Dominique Delsate|Michael Francken|Jean-Michel Guinet|Joachim Wahl|George Ayodo|Hamza A. Babiker|Graciela Baillet|Elena Balanovska|Oleg Balanovsky|Ramiro Barrantes|Gabriel Bedoya|Haim Ben-Ami|Judit Bene|Fouad Berrada|Claudio M. Bravi|Francesca Brisighelli|George B.J. Busby|Francesco Cali|Mikhail Churnosov|David E.C. Cole|Daniel Corach|Larissa Damba|George van Driem|Stanislav Dryomov|Jean-Michel Dugoujon|Sardana A. Fedorova|Irene Gallego Romero|Marina Gubina|Michael Hammer|Brenna Henn|Tor Helvig|Ugur Hodoglugil|Aashish R. Jha|Sena Karachanak-Yankova|Rita Khusainova|Elza Khusnutdinova|Rick Kittles|Toomas Kivisild|William Klitz|Vaidutis Kucinskas|Alena Kushniarevich|Leila Laredj|Sergey Litvinov|Theologos Loukidis|Robert W. Mahley|Bela Melegh|Ene Metspalu|Julio Molina|Joanna Mountain|Klemetti Nakkalajarvi|Desislava Nesheva|Thomas Nyambo|Ludmila Osipova|Juri Parik|Fedor Platonov|Olga L. Posukh|Valentino Romano|Francisco Rothhammer|Igor Rudan|Ruslan Ruizbakiev|Hovhannes Sahakyan|Antti Sajantila|Antonio Salas|Elena B. Starikovskaya|Ayele Tarekegn|Draga Toncheva|Shahlo Turdikulova|Ingrida Uktveryte|Olga Utevska|Rene Vasquez|Mercedes Villena|Mikhail Voevoda|Cheryl Winkler|Levon Yepiskoposyan|Pierre Zalloua|Tatijana Zemunik|Alan Cooper|Cristian Capelli|Mark G. Thomas|Andres Ruiz-Linares|Sarah A. Tishkoff|Lalji Singh|Kumarasamy Thangaraj|Richard Villems|David Comas|Rem Sukernik|Mait Metspalu|Matthias Meyer|Evan E. Eichler|Joachim Burger|Montgomery Slatkin|Svante Paabo|Janet Kelso|David Reich|Johannes Krause Department of Genetics, Harvard Medical School;|Broad Institute of Harvard and MIT;|Institute for Archaeological Sciences, University of Tübingen;|Max Planck Institute for Evolutionary Anthropology, Leipzig;|Johannes Gutenberg University Mainz, Institute of Anthropology, Mainz;|Department of Genome Sciences, University of Washington, Seattle;|Department of Integrative Biology, University of California, Berkeley;|Department of Mathematics and Computer Science and Artificial Intelligence Laboratory, MIT;|Archaeological Research Laboratory, Stockholm University;|Johannes Gutenberg University Mainz, Institute of Anthropology;|Broad Institute of Harvard and MIT, Cambridge, MA;|Institute for Archaeological Sciences, University of T&ubingen;|Australian Centre for Ancient DNA, University of Adelaide;|The Cultural Heritage Foundation, Västerås;|Department of Genetics, Harvard Medical School, Boston, MA;|National Museum of Natural History, L-2160, Luxembourg;|Senckenberg Center for Human Evolution and Paleoenvironment, University of Tübingen;|Luxembourg Natural History Museum, L-2160, Luxembourg;|State Office for Cultural Heritage Management Baden-Württemberg, Osteology, Konstanz, Germany;|Center for Global Health and Child Development, Kisumu, Kenya;|Inst. of Evolution, Immunology and Infection Research, University of Edinburgh;|Instituto Multidisciplinario de Biología Celular, CCT-CONICET & CICPBA, La Plata, Argentina;|Research Centre for Medical Genetics, Moscow;|Escuela de Biología, Universidad de Costa Rica, San José, 2060, Costa Rica;|Institute of Biology, Research group GENMOL, Universidad de Antioquia, Medellín, Colombia;|Rambam Health Care Campus, Haifa;|Department of Medical Genetics, and Szentagothai Research Center, University of Pécs;|Al Akhawayn University in Ifrane (AUI), School of Science and Engineering, Ifrane;|Institute of Legal Medicine, Università Cattolica del Sacro Cuore, Rome;|Department of Zoology, University of Oxford;|Laboratorio di Genetica Molecolare, IRCCS Associazione Oasi Maria SS, Troina;|Belgorod State University;|Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Ontario, Canada;|School of Pharmacy and Biochemistry, Universidad de Buenos Aires, Argentina;|Institute of Internal Medicine, Siberian Branch of Russian Academy of Medical Sciences, Novosibirsk;|Institute of Linguistics, University of Bern;|Institute of Molecular and Cellular Biology, Russian Academy, Siberian Branch, Novosibirsk;|Anthropologie Moléculaire et Imagerie de Synthèse, CNRS UMR 5288, Université Paul Sabatier Toulouse;|Yakut Research Center of Complex Medical Problems and North-Eastern Federal University, Yakutsk;|Department of Human Genetics, University of Chicago;|Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, Novosibirsk;|ARL Division of Biotechnology, University of Arizona;|Department of Ecology and Evolution, Stony Brook University;|Department of Clinical Science, University of Bergen;|NextBio;|Department of Medical Genetics, National Human Genome Center, Medical University Sofia, Sofia;|Institute of Biochemistry and Genetics, Ufa Research Centre, Russian Academy of Sciences, Ufa, 45005;|College of Medicine, University of Illinois at Chicago;|Division of Biological Anthropology, University of Cambridge;|School of Public Health, University of California, Berkeley, CA, 94720, USA;|Department of Human and Medical Genetics, Vilnius University;|Estonian Biocentre, Evolutionary Biology group, Tartu;|Institut de Génétique et de Biologie Moléculaire et Cellulaire;|Inst. of Biochemistry and Genetics, Ufa Research Centre, Russian Academy of Sciences, Ufa;|Currently employed by AMGEN; 33 Kazantzaki Str, Ilioupolis 16342, Athens, Greece;|Gladstone Institutes, San Francisco;|Department of Evolutionary Biology, University of Tartu;|Centro de Investigaciones Biomédicas de Guatemala, Ciudad de Guatemala, Guatemala;|Research Department, 23andMe, Inc.;|Cultural Anthropology Program, University of Oulu, Oulu, 90014, Finland;|Department of Medical Genetics, National Human Genome Center, Medical University Sofia, Bulgaria;|Dept. of Biochemistry, Muhimbili University of Health and Allied Sciences, Dar es Salaam;|The Inst. of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Novosibirsk;|Research Institute of Health, North-Eastern Federal University, Yakutsk;|Inst. of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences, Novosibirsk;|Dipartimento di Fisica e Chimica, Università di Palermo;|Instituto de Alta Investigación, Universidad de Tarapacá, Arica, Chile;|Centre for Population Health Sciences, The University of Edinburgh Medical School;|Institute of Immunology, Academy of Science, Tashkent;|Department of Forensic Medicine, Hjelt Institute, University of Helsinki, Helsinki, 00014, Finland;|Grupo de Medicina Xen&oacumica, Facultade de Medicina, Universidade de Santiago de Compostela;|Inst. of Molecular and Cellular Biology, Russian Academy of Science, Siberian Branch, Novosibirsk;|Research Fellow, Henry Stewart Group, Russell House, London WC1A 2HN, UK;|Dept. of Medical Genetics, National Human Genome Center, Medical University Sofia;|Institute of Bioorganic Chemistry Academy of Sciences Republic of Uzbekistan, Tashkent;|Department of Genetics and Cytology, V.N. Karazin Kharkiv National University, Kharkiv;|Instituto Boliviano de Biología de la Altura, Universidad Autonoma Tomás Frías, Potosí, Bolivia;|Frederick Natoinal Lab for Cancer Research, NCI, NIH, Frederick, MD;|Laboratory of Ethnogenomics, Institute of Molecular Biology, National Academy of Sciences of Armenia;|Lebanese American University, School of Medicine, Beirut;|Department of Medical Biology, University of Split, School of Medicine;|Australian Centre for Ancient DNA, School of Earth and Environmental Sciences,University of Adelaide;|Research Department of Genetics, Evolution and Environment, University College London;|Department of Genetics, Evolution and Environment, University College London, WC1E 6BT, UK;|Department of Biology and Genetics. University of Pennsylvania;|CSIR-Centre for Cellular and Molecular Biology, Hyderabad;|Departament de Ciències Experimentals i de la Salut, Universitat Pompeu Fabra
http://dx.doi.org/10.1101/003897 2014-04-04 Evolutionary Biology CC BY-NC-ND Intermediate Migration Yields Optimal Adaptation in Structured, Asexual Populations Arthur Covert III|Claus O Wilke University of Texas at Austin;|The University of Texas at Austin
http://dx.doi.org/10.1101/003913 2014-04-04 Cell Biology MicroRNAs Regulate the Wnt/Ca2+ Signaling Pathway to Promote the Secretion of Insulin in Pancreatic Nestin-Positive Progenitor Cells Chunyu Bai|Xiangchen Li|Yuhua Gao|Taofeng Lu|Kunfu Wang|Qian Li|Hui Xiong|Jia Chen|Ping Zhang|Wenjie Wang|Tingting Sun|Zhiqiang Shan|Bo Sun|Pei Pei|Changqing Liu|Weijun Guan|Yuehui Ma Beijing animal sciences institution
http://dx.doi.org/10.1101/003772 2014-04-02 Evolutionary Biology CC BY-NC-ND Comparison of the theoretical and real-world evolutionary potential of a genetic circuit. Manuel Razo-Mejia|James Boedicker|Daniel Jones|Alexander de Luna|Justin Block Kinney|Rob Phillips California Institute of Technology;|University of Southern California;|Langebio Cinvestav;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/003731 2014-04-02 Bioinformatics CC BY-NC-ND HGTector: An automated method facilitating genome-wide discovery of putative horizontal gene transfers Qiyun Zhu|Michael Kosoy|Katharina Dittmar University at Buffalo, State University of New York;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/003749 2014-04-02 Evolutionary Biology CC BY-NC-ND Multilocus Species Trees Show the Recent Adaptive Radiation of the Mimetic Heliconius Butterflies Krzysztof M Kozak|Niklas Wahlberg|Andrew Neild|Kanchon K Dasmahapatra|James Mallet|Chris D Jiggins Department of Zoology, University of Cambridge;|University of Turku;|Private collector;|Department of Biology, University of York;|Department of OEB, Harvard University
http://dx.doi.org/10.1101/000943 2014-04-02 Neuroscience CC BY-NC Simultaneous optogenetic manipulation and calcium imaging in freely moving C. elegans Frederick B. Shipley|Christopher M. Clark|Mark J. Alkema|Andrew M. Leifer Princeton University;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/003764 2014-04-02 Genomics CC BY-NC New whole genome de novo assemblies of three divergent strains of rice (O. sativa) documents novel gene space of aus and indica Michael C Schatz|Lyza G Maron|Joshua C Stein|Alejandro Hernandez Wences|James Gurtowski|Eric Biggers|Hayan Lee|Melissa Kramer|Eric Antonio|Elena Ghiban|Mark H Wright|Jer-ming Chia|Doreen Ware|Susan R McCouch|William Richard McCombie Cold Spring Harbor Laboratory;|Cornell University;|Macalester College
http://dx.doi.org/10.1101/003673 2014-03-30 Evolutionary Biology Geometry shapes evolution of early multicellularity Eric Libby|Will Ratcliff|Mike Travisano|Ben Kerr Santa Fe Institute;|Georgia Institute of Technology;|University of Minnesota;|University of Washington
http://dx.doi.org/10.1101/000075 2014-03-30 Evolutionary Biology CC BY-NC A Scalable Formulation for Engineering Combination Therapies for Evolutionary Dynamics of Disease Vanessa Jonsson|Anders Rantzer|Richard M Murray Caltech;|Lund University
http://dx.doi.org/10.1101/003624 2014-03-30 Ecology CC BY-ND Numerous new mitogenomic sequences and multiple new environmental DNA markers for invasive bighead and silver carp (Hypophthalmichthys nobilis and H. molitrix) populations in North America Richard F. Lance|Heather L. Farrington|Christine E. Edwards|Xin Guan|Matthew R. Carr|Kelly Baerwaldt US Army ERDC Environmental Laboratory;|North Carolina Museum of Natural Science;|Missouri Botanical Garden;|Badger Technical Services;|U.S. Army Corps of Engineers
http://dx.doi.org/10.1101/001305 2014-03-28 Bioengineering CC BY Ordered, Random, Monotonic, and Non-Monotonic Digital Nanodot Gradients Grant Ongo|Sebastien G Ricoult|Timothy E Kennedy|David Juncker McGill University
http://dx.doi.org/10.1101/003640 2014-03-28 Bioinformatics CC BY The Scramble Conversion Tool James K Bonfield Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/003616 2014-03-27 Cell Biology The HVCN1 channel conducts protons into the phagocytic vacuole of neutrophils to produce a physiologically alkaline pH Adam P Levine|Michael R Duchen|Anthony W Segal Division of Medicine, University College London;|Department of Cell and Developmental Biology, University College London
http://dx.doi.org/10.1101/003574 2014-03-27 Evolutionary Biology 3D mapping of disease in ant societies reveals a strategy of a specialized parasite Raquel G Loreto|Simon L Elliot|Mayara LR Freitas|Thairine M Pereira|David P Hughes Pennsylvania State University & Federal University of Viçosa;|Federal University of Viçosa;|University federal of Viçosa;|Pennsylvania State University
http://dx.doi.org/10.1101/002659 2014-03-27 Synthetic Biology Synthesis and patterning of tunable multiscale materials with engineered cells Allen Y Chen|Urartu O.S. Seker|Michelle Y Lu|Robert J Citorik|Timothy Lu Massachusetts Institute of Technology
http://dx.doi.org/10.1101/003533 2014-03-26 Plant Biology Rice BiP3 regulates immunity mediated by the PRRs XA3 and XA21 but not immunity mediated by the NB-LRR protein, Pi5 Chang-Jin Park|Min-Young Song|Chi-Yeol Kim|Jong-Seong Jeon|Pamela C. Ronald Department of Bioresources Engineering, Sejong University;|Graduate School of Biotechnology & Crop Biotech Institute, Kyung Hee University;|Department of Plant Pathology and the Genome Center, University of California Davis
http://dx.doi.org/10.1101/003541 2014-03-26 Genetics CC BY-NC-ND An optimized CRISPR/Cas toolbox for efficient germline and somatic genome engineering in Drosophila Fillip Port|Hui-Min Chen|Tzumin Lee|Simon L Bullock MRC-LMB;|Janelia Farm Research Campus
http://dx.doi.org/10.1101/003558 2014-03-25 Scientific Communication CC BY How many digits in a mean are worth reporting? R.S. Clymo Queen Mary University of London
http://dx.doi.org/10.1101/003566 2014-03-25 Genomics Preparation of next-generation DNA sequencing libraries from ultra-low amounts of input DNA: Application to single-molecule, real-time (SMRT) sequencing on the Pacific Biosciences RS II. Castle Raley|David Munroe|Kristie Jones|Yu-Chih Tsai|Yan Guo|Bao Tran|Sujatha Gowda|Jennifer L. Troyer|Daniel R. Soppet|Claudia Stewart|Robert Stephens|Jack Chen|TF Skelly|Cheryl Heiner|Jonas Korlach|Dwight Nissley Sequencing Facility, Leidos Biomedical Research, Inc.;|Cancer Research Technology Program, Leidos Biomedical Research, Inc.;|Cancer Genomics Research Laboratory, Leidos Biomedical Research, Inc.;|Pacific Biosciences, Inc.;|National Human Genome Research Institute;|Laboratory of Molecular Technology, Leidos Biomedical Research, Inc.;|Advanced Biological Computing Center, Leidos Biomedical Research Inc.
http://dx.doi.org/10.1101/003525 2014-03-23 Systems Biology CC BY Towards a molecular systems model of coronary artery disease Gad Abraham|Oneil G Bhalala|Paul IW de Bakker|Samuli Ripatti|Michael Inouye Medical Systems Biology, Department of Pathology and Department of Microbiology & Immunology, The Un;|Department of Medical Genetics, University Medical Center Utrecht, Utrecht, The Netherlands;|Institute of Molecular Medicine (FIMM), University of Helsinki, Helsinki, Finland
http://dx.doi.org/10.1101/003517 2014-03-21 Evolutionary Biology Towards a new history and geography of human genes informed by ancient DNA Joseph Pickrell|David Reich New York Genome Center;|Harvard Medical School
http://dx.doi.org/10.1101/003483 2014-03-21 Molecular Biology CC BY-NC Identification of five patterns of nucleosome positioning that globally describe transcription factor function Kazumitsu Maehara|Yasuyuki Ohkawa Kyushu University
http://dx.doi.org/10.1101/003491 2014-03-21 Evolutionary Biology CC BY-NC-ND Response to a population bottleneck can be used to infer recessive selection Daniel J Balick|Ron Do|David Reich|Shamil R Sunyaev Brigham & Women's Hospital, Harvard Medical School;|Harvard Medical School
http://dx.doi.org/10.1101/003475 2014-03-20 Bioinformatics Divide and Conquer approach for Genome Classification based on subclass characterization Siddanagouda Somanagouda Patil|Narasimha Murty Musti|Ulavappa Basvanneppa Angadi University of Agricultural Sciences;|IISc, Bangalore;|Sr.Scientist Computer Science,CABin,ISRI, NewDelhi
http://dx.doi.org/10.1101/003442 2014-03-19 Evolutionary Biology CC BY-NC-ND The Role of Migration in the Evolution of Phenotypic Switching Oana Carja|Robert E Furrow|Marc W Feldman Stanford University
http://dx.doi.org/10.1101/003467 2014-03-19 Genomics Epigenetic Modifications are Associated with Inter-species Gene Expression Variation in Primates Xiang Zhou|Carolyn Cain|Marsha Myrthil|Noah Lewellen|Katelyn Michelini|Emily Davenport|Matthew Stephens|Jonathan Pritchard|Yoav Gilad University of Chicago
http://dx.doi.org/10.1101/003459 2014-03-19 Cell Biology Mpl expression on megakaryocytes and platelets is dispensable for thrombopoiesis but essential to prevent myeloproliferation Ashley P Ng|Maria Kauppi|Donald Metcalf|Craig D Hyland|Emma C Josefsson|Marion Lebois|Jian-Guo Zhang|Ladina Di Rago|Tracey Baldwin|Douglas J Hilton|Warren S Alexander The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/003335 2014-03-18 Synthetic Biology CC BY-NC-ND Rapidly characterizing the fast dynamics of RNA genetic circuitry with cell-free transcription-translation (TX-TL) systems Melissa K Takahashi|James Chappell|Clarmyra A Hayes|Zachary Z Sun|Vipul Singhal|Kevin J Spring|Shaima Al-Khabouri|Christopher P Fall|Vincent Noireaux|Richard M Murray|Julius B Lucks Cornell University;|California Institute of Technology;|The University of Texas Medical School at Houston;|Universite ́ de Montreal;|University of Illinois;|University of Minnesota
http://dx.doi.org/10.1101/001800 2014-03-18 Cell Biology CC BY-NC-ND The Toxoplasma Acto-MyoA Motor Complex Is Important but Not Essential for Gliding Motility and Host Cell Invasion Saskia Egarter|Nicole Andenmatten|Allison J Jackson|Jamie A Whitelaw|Gurmann Pall|Jennifer A Black|David JP Ferguson|Isabelle Tardieux|Alex Mogilner|Markus Meissner University of Glasgow;|Oxford University;|University of Paris Descartes;|University of California
http://dx.doi.org/10.1101/003376 2014-03-17 Bioinformatics Analysis of stop-gain and frameshift variants in human innate immunity genes Antonio Rausell|Pejman Mohammadi|Paul J McLaren|Ioannis Xenarios|Jacques Fellay|Amalio Telenti SIB Swiss Institute of Bioinformatics and University Hospital of Lausanne;|SIB Swiss Institute of Bioinformatics and ETH Zurich;|SIB Swiss Institute of Bioinformatics and École Polytechnique Fédérale de Lausanne (EPFL);|SIB Swiss Institute of Bioinformatics;|University Hospital of Lausanne and University of Lausanne
http://dx.doi.org/10.1101/003350 2014-03-17 Microbiology CC BY-NC-ND Horizontal Transfers and Gene Losses in the phospholipid pathway of Bartonella reveal clues about early ecological niches Qiyun Zhu|Michael Kosoy|Kevin J Olival|Katharina Dittmar University at Buffalo, State University of New York;|Centers for Disease Control and Prevention;|EcoHealth Alliance
http://dx.doi.org/10.1101/003368 2014-03-17 Synthetic Biology CC BY-NC-ND Hydrogen peroxide thermochemical oscillator as driver for primordial RNA replication Rowena Ball|John Brindley The Australian National University;|University of Leeds
http://dx.doi.org/10.1101/003327 2014-03-17 Systems Biology CC BY-NC-ND Measuring error rates in genomic perturbation screens: gold standards for human functional genomics Traver Hart|Kevin R Brown|Fabrice Sircoulomb|Robert Rottapel|Jason Moffat University of Toronto;|Princess Margaret Hospital, University Health Network
http://dx.doi.org/10.1101/002105 2014-03-14 Cancer Biology|Evolutionary Biology|Genomics CC BY-NC The disruption of trace element homeostasis due to aneuploidy as a unifying theme in the etiology of cancer Johannes Engelken|Matthias Altmeyer|Renty B Franklin 1.Institute of Evolutionary Biology (CSIC Universitat Pompeu Fabra) 08003 Barcelona, Spain. 2. 3.;|Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark;|Department of Oncology and Diagnostic Sciences and The Greenebaum Cancer Center, U o Maryland, USA
http://dx.doi.org/10.1101/003293 2014-03-13 Genomics Distinct structural transitions of chromatin topological domains coordinate hormone-induced gene regulation Francois Le Dily|Davide Bau|Andy Pohl|Guillermo P. Vicent|Daniel Soronellas|Giancarlo Castellano|Francois Serra|Roni H. G. Wright|Cecilia J. Ballare|Guillaume Filion|Marc A. Marti-Renom|Miguel Beato Centre de Regulació Genòmica (CRG), Centre Nacional dAnàlisi Genòmica (CNAG);|Centre Nacional dAnàlisi Genòmica (CNAG), Centre de Regulació Genòmica (CRG);|Centre de Regulació Genòmica (CRG);|Hospital Clínic, Universitat de Barcelona, Barcelona
http://dx.doi.org/10.1101/002717 2014-03-12 Zoology CC BY-NC Immune stimulation reduces sleep and memory ability in Drosophila melanogaster Eamonn Mallon|Akram Alghamdi|Robert Holdbrook|Ezio Rosato University of Leicester;|Taif University
http://dx.doi.org/10.1101/002642 2014-03-11 Bioinformatics CC BY-NC-ND A reassessment of consensus clustering for class discovery Yasin Senbabaoglu|George Michailidis|Jun Z Li Memorial Sloan Kettering Cancer Center;|University of Michigan Ann Arbor
http://dx.doi.org/10.1101/002238 2014-03-11 Genomics CC BY Fast Principal Component Analysis of Large-Scale Genome-Wide Data Gad Abraham|Michael Inouye University of Melbourne
http://dx.doi.org/10.1101/003244 2014-03-11 Bioengineering CC BY-NC-ND An Analysis of Cochlear Implant Distortion from a User's Perspective Barry David Jacobson Massachusetts Institute of Technology
http://dx.doi.org/10.1101/003285 2014-03-10 Bioinformatics CC BY Alignathon: A competitive assessment of whole genome alignment methods. Dent Earl|Ngan K Nguyen|Glenn Hickey|Robert S. Harris|Stephen Fitzgerald|Kathryn Beal|Igor Seledtsov|Vladimir Molodtsov|Brian Raney|Hiram Clawson|Jaebum Kim|Carsten Kemena|Jia-Ming Chang|Ionas Erb|Alexander Poliakov|Minmei Hou|Javier Herrero|Victor Solovyev|Aaron E. Darling|Jian Ma|Cedric Notredame|Michael Brudno|Inna Dubchak|David Haussler|Benedict Paten University of California, Santa Cruz;|The Pennsylvania State University, PA, USA;|EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, UK;|Softberry Inc., USA;|Department of Animal Biotechnology, Konkuk University, Seoul 143?701, Korea;|Centre For Genomic Regulation (CRG), Carrer del Doctor Aiguader 88, 08003 Barcelona, Spain;|Department of Energy Joint Genome Institute, 2800 Mitchell Drive, Walnut Creek, CA, 94598, USA;|Department of Computer Science, Northern Illinois University, USA;|EMBL?European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK;|ithree Institute, University of Technology Sydney, Sydney, Australia;|Department of Bioengineering and Institute for Genomic Biology, University of Illinois at Urbana?Cha;|Department of Computer Science and the Donnelly Centre, University of Toronto 10 King's College Rd,
http://dx.doi.org/10.1101/002725 2014-03-09 Bioinformatics CC BY-NC-ND Spectacle: Faster and more accurate chromatin state annotation using spectral learning Jimin Song|Kevin C Chen Rutgers University
http://dx.doi.org/10.1101/000885 2014-03-09 Synthetic Biology CC BY-ND Resource usage and gene circuit performance characterization in a cell-free ?breadboard? Dan Siegal-Gaskins|Zoltan A. Tuza|Jongmin Kim|Vincent Noireaux|Richard M. Murray California Institute of Technology;|Pazmany Peter Catholic University;|University of Minnesota
http://dx.doi.org/10.1101/001719 2014-03-07 Genomics CC BY-NC-ND Modeling the functional relationship network at the splice isoform level through heterogeneous data integration Hongdong Li|Rajasree Menon|Ridvan Eksi|Aysam Guerler|Yang Zhang|Gilbert S. Omenn|Yuanfang Guan University of Michigan, Ann Arbor
http://dx.doi.org/10.1101/003236 2014-03-05 Genomics Characterization of directed differentiation by high-throughput single-cell RNA-Seq Magali Soumillon|Davide Cacchiarelli|Stefan Semrau|Alexander van Oudenaarden|Tarjei S Mikkelsen Broad Institute;|MIT;|Hubrech Institute
http://dx.doi.org/10.1101/003202 2014-03-05 Cell Biology TCF7L2 is a master regulator of insulin production and processing Yuedan Zhou|Soo-Young Park|Jing Su|Kathleen Bailey|Emilia Ottosson-Laakso|Liliya Shcerbina|Nikolay Oskolkov|Enming Zhang|Thomas Thevenin|Jo?o Fadista|Hedvig Bennet|Petter Vikman|Nils Wierup|Malin Fex|Johan Rung|Claes Wollheim|Marcelo Nobrega|Erik Renstr?m|Leif Groop|Ola Hansson Lund University;|University of Chicago;|European Bioinformatics Institute;|Universit? de Gen?ve
http://dx.doi.org/10.1101/003210 2014-03-05 Bioinformatics CC BY Detecting translational regulation by change point analysis of ribosome profiling datasets Anze Zupanic|Catherine Meplan|Sushma N Grellscheid|John C Mathers|Tom BL Kirkwood|John E Hesketh|Daryl P Shanley Institute for Ageing and Health, Newcastle University;|Institute for Cell and Molecular Biosciences and Human Nutrition Research Centre, Newcastle Universi;|School of Biological and Biomedical Sciences, Durham University, UK
http://dx.doi.org/10.1101/003228 2014-03-05 Ecology Meteorological conditions influence short-term survival and dispersal in a reinforced long-lived bird population. Loic A Hardouin|Alexandre Robert|Marie Nevoux|Olivier Gimenez|Frederic Lacroix|Yves Hingrat Centre dEcologie et des Sciences de la COnservation;|Institut National de la Recherche Agronomique, UMR Ecologie et Santé des Ecosystèmes;|Centre dEcologie Fonctionnelle et Evolutive;|RENECO Wildlife Consultants LLC;|Emirates Center for Wildlife Propagation
http://dx.doi.org/10.1101/001842 2014-03-05 Ecology CC BY-NC-ND The emergence of the rescue effect from explicit within- and between-patch dynamics in a metapopulation Anders Eriksson|Federico Elias-Wolff|Bernhard Mehlig|Andrea Manica University of Cambridge;|University of Gothenburg
http://dx.doi.org/10.1101/003186 2014-03-04 Biophysics CC BY-NC-ND Does 'information control the living state'? Rodrick Wallace The New York State Psychiatric Institute
http://dx.doi.org/10.1101/003160 2014-03-04 Genetics CC BY-ND Conditions for the validity of SNP-based heritability estimation James J Lee|Carson C Chow University of Minnesota Twin Cities;|NIDDK, NIH
http://dx.doi.org/10.1101/003152 2014-03-02 Synthetic Biology CC BY-NC Complementation of a temperature sensitive Escherichia coli rpoD mutation using Lactobacillus sigma factors James Winkler|Katy Kao Texas A&M University
http://dx.doi.org/10.1101/003111 2014-02-28 Bioinformatics Genomic Repeat Element Analyzer for Mammals (GREAM) Darshan S Chandrashekar|Poulami Dey|Kshitish K Acharya Institute of Bioinformatics and Applied Biotechnology (IBAB)
http://dx.doi.org/10.1101/003137 2014-02-28 Ecology A novel inference of the fundamental biodiversity number for multiple immigration-limited communities Champak Beeravolu Reddy|Francois Munoz|Pierre Couteron Centre de Biologie pour la Gestion des Populations;|AMAP
http://dx.doi.org/10.1101/003129 2014-02-28 Plant Biology A Genetic Screen Identifies Two Novel Rice Cysteine-rich Receptor-like Kinases That Are Required for the Rice NH1-mediated Immune Response Mawsheng Chern|Rebecca Bart|Wei Bai|Deling Ruan|Wing Hoi Sze-To|Canlas Patrick|Rashmi Jain|Xuewei Chen|Pamela Ronald UC Davis;|Danforth Center;|Inner Mongolia Agricultural University, China;|Sichuan Agricultural University
http://dx.doi.org/10.1101/003103 2014-02-28 Plant Biology Effect of alternating red and blue light irradiation generated by light emitting diodes on the growth of leaf lettuce Akihiro Shimokawa|Yuki Tonooka|Misato Matsumoto|Hironori Ara|Hiroshi Suzuki|Naoki Yamauchi|Masayoshi Shigyo Faculty of Agriculture, Yamaguchi University;|Life Science Support Office, Yamaguchi University;|Green Innovation Project, Business Development Center, Showa Denko K. K.
http://dx.doi.org/10.1101/003145 2014-02-28 Microbiology High Bacterial Load Predicts Poor Outcomes in Patients with Idiopathic Pulmonary Fibrosis Philip Molyneaux|Michael Cox|Saffron Willis-Owen|Kirsty Russell|Patrick Mallia|Anne-Marie Russell|Sebastian Johnston|Athol Wells|William Cookson|Toby Maher|Miriam Moffatt Imperial College;|Royal Brompton Hospital
http://dx.doi.org/10.1101/003095 2014-02-27 Ecology On a solution of the biodiversity paradox and a competitive coexistence principle Lev V. Kalmykov|Vyacheslav L. Kalmykov Institute of Theoretical and Experimental Biophysics of the Russian Academy of Sciences;|Institute of Cell Biophysics of the Russian Academy of Sciences
http://dx.doi.org/10.1101/003061 2014-02-27 Genomics CC BY DNA methylation modulates transcription factor occupancy chiefly at sites of high intrinsic cell-type variability Matthew Maurano|Hao Wang|Sam John|Anthony Shafer|Theresa Canfield|Kristen Lee|John A Stamatoyannopoulos University of Washington
http://dx.doi.org/10.1101/003053 2014-02-26 Cancer Biology CC BY A tug-of-war between driver and passenger mutations in cancer and other adaptive processes Christopher Dennis McFarland|Leonid A Mirny|Kirill S Korolev Harvard University;|Massachusetts Institute of Technology;|Boston University
http://dx.doi.org/10.1101/000752 2014-02-25 Genomics CC BY Joint analysis of functional genomic data and genome-wide association studies of 18 human traits Joseph Pickrell New York Genome Center
http://dx.doi.org/10.1101/003004 2014-02-25 Evolutionary Biology CC BY-NC-ND Neanderthals had our de novo genes. John Stewart Taylor Department of Biology, University of Victoria, Victoria, BC, Canada
http://dx.doi.org/10.1101/003012 2014-02-25 Evolutionary Biology CC BY-NC-ND Genetic drift opposes mutualism during spatial population expansion Melanie JI Mueller|Beverly I Neugeboren|David R Nelson|Andrew W Murray Harvard University
http://dx.doi.org/10.1101/002998 2014-02-24 Genomics Extensive translation of small ORFs revealed by polysomal ribo-Seq Julie L Aspden|Ying Chen Eyre-Walker|Rose J. Phillips|Michele Brocard|Unum Amin|Juan Couso School of Life Sciences, University of Sussex, Brighton, BN1 9QG, UK;|University of Sussex
http://dx.doi.org/10.1101/002980 2014-02-24 Biophysics CC BY-NC Genetic drift suppresses bacterial conjugation in spatially structured populations Peter D. Freese|Kirill S. Korolev|Jose I Jimenez|Irene A. Chen MIT;|Boston University;|Univ. of California - Santa Barbara
http://dx.doi.org/10.1101/002972 2014-02-24 Bioinformatics CC BY-NC-ND Efficient synergistic single-cell genome assembly Narjes S. Movahedi|Zeinab Taghavi|Mallory Embree|Harish Nagarajan|Karsten Zengler|Hamidreza Chitsaz Wayne State University;|University of California, San Diego
http://dx.doi.org/10.1101/002956 2014-02-23 Bioinformatics CC BY Functional normalization of 450k methylation array data improves replication in large cancer studies Jean-Philippe Fortin|Aurelie Labbe|Mathieu Lemire|Brent W. Zanke|Thomas J. Hudson|Elana J. Fertig|Celia M.T. Greenwood|Kasper D. Hansen Johns Hopkins University;|McGill University;|Ontario Institute of Cancer Research;|Ottawa Hospital Research Institute;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/002931 2014-02-21 Genomics LD Score Regression Distinguishes Confounding from Polygenicity in Genome-Wide Association Studies Brendan Bulik-Sullivan|Po-Ru Loh|Hilary Finucane|Stephan Ripke|Jian Yang|Schizophrenia Working Group Psychiatric Genomics Consortium|Nick Patterson|Mark J Daly|Alkes L Price|Benjamin M Neale 1Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA;|Department of Epidemiology, Harvard School of Public Health, Boston, MA;|6Department of Mathematics, Massachusetts Institute of Technology, Cambridge, MA;|7Brain Institute, University of Queensland, Brisbane, Queensland, Australia;|NA;|2Analytical and Translational Genetics Unit, Department of Medicine, Massachusetts General Hospital;|4Department of Epidemiology, Harvard School of Public Health, Boston, MA;|Analytical and Translational Genetics Unit, Department of Medicine, Massachusetts General Hospital
http://dx.doi.org/10.1101/002923 2014-02-21 Neuroscience Spatial Information in Large-Scale Neural Recordings Thaddeus R Cybulski|Joshua I Glaser|Adam H Marblestone|Bradley M Zamft|Edward S Boyden|George M Church|Konrad P Kording Northwestern University;|Harvard University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/002907 2014-02-21 Systems Biology CC BY-NC-ND Population diversification in a yeast metabolic program promotes anticipation of environmental shifts Ophelia S Venturelli|Ignacio Zuleta|Richard M Murray|Hana El-Samad University of California Berkeley;|University of California San Francisco;|California Institute of Technology
http://dx.doi.org/10.1101/002881 2014-02-20 Bioinformatics CC BY-NC-ND A GWAS platform built on iPlant cyber-infrastructure Liya Wang|Doreen Ware|Carol Lushbough|Nirav Merchant|Lincoln Stein Cold Spring Harbor Labs;|Cold Spring Harbor Laboratory / USDA;|University of South Dakota;|University of Arizona;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/002873 2014-02-20 Evolutionary Biology CC BY-NC-ND Mapping the structure of drosophilid behavior Gordon J Berman|Daniel M Choi|William Bialek|Joshua W Shaevitz Princeton University
http://dx.doi.org/10.1101/002865 2014-02-20 Evolutionary Biology CC BY-NC-ND No evidence that natural selection has been less effective at removing deleterious mutations in Europeans than in West Africans Ron Do|Daniel Balick|Heng Li|Ivan Adzhubei`|Shamil Sunyaev|David Reich Department of Genetics, Harvard Medical School, Boston, MA 02115;|Division of Genetics, Brigham & Women's Hospital, Harvard Medical School, Boston, MA, USA 02115
http://dx.doi.org/10.1101/002584 2014-02-19 Evolutionary Biology CC BY-NC-ND Estimating the evolution of human life history traits in age-structured populations Ryan Baldini UC Davis
http://dx.doi.org/10.1101/002808 2014-02-18 Evolutionary Biology CC BY-NC-ND Migration and interaction in a contact zone: mtDNA variation among Bantu-speakers in southern Africa Chiara Barbieri|Mario Vicente|Sandra Oliveira|Koen Bostoen|Jorge Rocha|Mark Stoneking|Brigitte Pakendorf Department of Evolutionary Genetics, MPI for Evolutionary Anthropology, Leipzig, Germany, 04103;|Division of Biological Anthropology, University of Cambridge, CB2 3QG, UK;|Departamento de Biologia, Faculdade de Ciências da Universidade do Porto, Porto, 4169-007, Portugal;|Department of African Languages and Cultures, Ghent University, KongoKing Research Group, B-9000;|Laboratoire Dynamique du Langage, UMR5596, CNRS and Université Lyon Lumière 2, Lyon, France, 6900
http://dx.doi.org/10.1101/002741 2014-02-18 Cell Biology CC BY-NC Fluorescent sensors for activity and regulation of the nitrate transceptor CHL1/NRT1.1 and oligopeptide transporters Cheng Hsun Ho|Wolf B. Frommer Carnegie Institution for Science
http://dx.doi.org/10.1101/001701 2014-02-18 Cell Biology CC BY An unmet actin requirement explains the mitotic inhibition of clathrin-mediated endocytosis Satdip Kaur|Andrew B Fielding|Gisela Gassner|Nicholas J Carter|Stephen J Royle University of Warwick;|University of Liverpool
http://dx.doi.org/10.1101/002790 2014-02-18 Developmental Biology CC BY-NC-ND ESCRT-0 is not required for ectopic Notch activation and tumor suppression in Drosophila Emiliana Tognon|Nadine Wollscheid|Katia Cortese|Carlo Tacchetti|thomas vaccari IFOM, Istituto FIRC di Oncologia Molecolare;|Università di Genova
http://dx.doi.org/10.1101/000455 2014-02-18 Neuroscience CC BY-NC-ND A data repository and analysis framework for spontaneous neural activity recordings in developing retina Stephen Eglen|Michael Weeks|Mark Jessop|Jennifer Simonotto|Tom Jackson|Evelyne Sernagor University of Cambridge;|University of York;|Imperial College London;|Newcastle University
http://dx.doi.org/10.1101/002766 2014-02-17 Genomics CC BY A Novel Approach for Multi-Domain and Multi-Gene Family Identification Provides Insights into Evolutionary Dynamics of Disease Resistance Genes in Core Eudicot Plants Johannes A. Hofberger|Beifei Zhou|Haibao Tang|Jonathan DG Jones|M. Eric Schranz Wageningen University & Research Center;|CAS/MPG-Partern Institute for Computational Biology;|J. Craig Venter Institute;|The Sainbury Laboratory
http://dx.doi.org/10.1101/002691 2014-02-15 Neuroscience CC BY-NC-ND Neuroanatomical diversity of corpus callosum and brain volume in the Autism Brain Imaging Data Exchange (Abide) project Aline Lefebvre|Anita Beggiato|Thomas Bourgeron|Roberto Toro Centre Hospitalier Universitaire de Caen;|Assistance Publique-Hôpitaux de Paris, Hôpital Robert Debré;|Institut Pasteur
http://dx.doi.org/10.1101/002667 2014-02-13 Immunology The immunologic V-gene repertoire in mammals David N Olivieri|Bernardo von Haeften|Christian Sanchez-Espinel|Francisco Gambon-Deza Universidad de Vigo; School of Computer Science (Spain);|Universidad de Vigo; Faculty of Biology (Spain);|Nanoimmunotech SL (Spain);|Servicio Gallego de Salud (SERGAS), Unidad de Inmunología, Hospital do Meixoeiro, (Spain)
http://dx.doi.org/10.1101/002600 2014-02-12 Genetics CC BY-NC-ND Cell specific eQTL analysis without sorting cells Harm-Jan Westra|Danny Arends|Tonu Esko|Marjolein J. Peters|Claudia Schurmann|Katharina Schramm|Johannes Kettunen|Hanieh Yaghootkar|Benjamin Fairfax|Anand Kumar Andiappan|Yang Li|Jingyuan Fu|Juha Karjalainen|Mathieu Platteel|Marijn Visschedijk|Rinse Weersma|Silva Kasela|Lili Milani|Liina Tserel|Part Peterson|Eva Reinmaa|Albert Hofman|Andre G. Uitterlinden|Fernando Rivadeneira|Georg Homuth|Astrid Petersmann|Roberto Lorbeer|Holger Prokisch|Thomas Meitinger|Christian Herder|Michael Roden|Harald Grallert|Samuli Ripatti|Markus Perola|Adrew R. Wood|David Melzer|Luigi Ferrucci|Andrew B. Singleton|Dena G. Hernandez|Julian C. Knight|Rossella Melchiotti|Bernett Lee|Michael Poidinger|Francesca Zolezzi|Anis Larbi|De Yun Wang|Leonard H. van den Berg|Jan H. Veldink|Olaf Rotzschke|Seiko Makino|Timouthy Frayling|Veikko Salomaa|Konstantin Strauch|Uwe Volker|Joyce B.J. van Meurs|Andres Metspalu|Cisca Wijmenga|Ritsert C. Jansen|Lude Franke University of Groningen, University Medical Center Groningen;|University of Groningen;|Estonian Genome Center, University of Tartu;|Erasmus Medical Centre Rotterdam;|Interfaculty Institute of Genetics and Functional Genomics, University Medicine Greifswald;|Institute of Human Genetics, Helmholtz Zentrum München;|Institute of Health Sciences, Faculty of Medicine, University of Oulu;|University of Exeter Medical School;|Wellcome Trust Centre for Human Genetics;|Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (A*STAR);|Institute of Biomedicine and Translational Medicine, University of Tartu;|The Netherlands Genomics Initiative-sponsored Netherlands Consortium for Healthy Aging (NGI-NCHA);|Institute for Clinical Chemistry and Laboratory Medcine, University Medicine Greifswald;|Institute for Community Medicine, University Medicine Greifswald;|Institute for Clinical Diabetology, German Diabetes Center;|Helmholtz Zentrum München, German Research Center for Environmental Health;|Institute for Molecular Medicine Finland FIMM, University of Helsinki;|Genetics of Complex Traits, University of Exeter Medical School, University of Exeter;|Institute of Biomedical and Clinical Sciences, University of Exeter Medical School;|Clinical Research Branch, National Institute on Aging NIA-ASTRA Unit;|Laboratory of Neurogenetics, National Institute on Aging, National Institutes of Health;|National University of Singapore;|Rudolf Magnus Institute of Neuroscience, University Medical Centre Utrecht;|Department of Chronic Disease Prevention, National Institute for Health and Welfare;|Institute of Genetic Epidemiology, Helmholtz Zentrum München;|lude@ludesign.nl
http://dx.doi.org/10.1101/002618 2014-02-12 Immunology Genomic V-gene repertoire in reptiles David N Olivieri|Bernardo von Haeften|Christian Sanchez-Espinel|Jose Faro|Francisco Gambon-Deza Universidad de Vigo; School of Computer Science (Spain);|Universidad de Vigo; Faculty of Biology (Spain);|Nanoimmunotech SL (Spain);|Servicio Gallego de Salud (SERGAS), Unidad de Inmunología, Hospital do Meixoeiro, (Spain)
http://dx.doi.org/10.1101/002501 2014-02-12 Ecology Within the fortress: A specialized parasite of ants is not evicted Emilia S. Gracia|Charissa de Bekker|Jim Russell|Kezia Manlove|Ephraim Hanks|David P. Hughes Pennsylvania State University
http://dx.doi.org/10.1101/002576 2014-02-11 Bioinformatics Sashimi plots: Quantitative visualization of alternative isoform expression from RNA-seq data Yarden Katz|Eric T Wang|Jacob Stilterra|Schraga Schwartz|Bang Wong|Helga Thorvaldsdottir|James T Robinson|Jill P Mesirov|Edoardo M Airoldi|Christopher B Burge MIT;|Broad Institute of Harvard and MIT;|Harvard University
http://dx.doi.org/10.1101/002519 2014-02-11 Ecology CC BY-NC-ND Social, spatial and temporal segregation in an ant society Lauren E Quevillon|Ephraim M Hanks|Shweta Bansal|David P Hughes Penn State University;|Georgetown University
http://dx.doi.org/10.1101/002527 2014-02-09 Evolutionary Biology CC BY Investigating speciation in face of polyploidization: what can we learn from approximate Bayesian computation approach? Camille Roux|John Pannell University of Lausanne
http://dx.doi.org/10.1101/002337 2014-02-07 Microbiology CC BY-NC-ND Metabolic composition of anode community predicts electrical power in microbial fuel cells Andre Gruning|Nelli J Beecroft|Claudio Avignone-Rossa University of Surrey
http://dx.doi.org/10.1101/002493 2014-02-07 Evolutionary Biology CC BY-ND The roles of standing genetic variation and evolutionary history in determining the evolvability of anti-predator strategies Jordan Fish|Daniel R O'Donnell|Abhijna Parigi|Ian Dworkin|Aaron P Wagner Michigan State University
http://dx.doi.org/10.1101/002469 2014-02-07 Bioinformatics CC BY-NC-ND Automated ensemble assembly and validation of microbial genomes Sergey Koren|Todd J Treangen|Christopher M Hill|Mihai Pop|Adam M Phillippy National Biodefense Analysis and Countermeasures Center;|Center for Bioinformatics and Computational Biology
http://dx.doi.org/10.1101/000760 2014-02-07 Ecology Linking indices for biodiversity monitoring to extinction risk theory Michael A. McCarthy|Alana L. Moore|Jochen Krauss|John W Morgan|Christopher F. Clements The University of Melbourne;|University of Würzburg;|La Trobe University;|University of Sheffield
http://dx.doi.org/10.1101/002444 2014-02-06 Cell Biology Methods to study toxic transgenes in C. elegans: an analysis of protease-dead separase in the C. elegans embryo Diana M Mitchell|Lindsey R Uehlein|Joshua Bembenek UT Knoxville
http://dx.doi.org/10.1101/002436 2014-02-06 Evolutionary Biology CC BY-NC-ND Biochemical 'Cambrian' explosion-implosions: the generation and pruning of genetic codes Rodrick Wallace New York State Psychiatric Institute
http://dx.doi.org/10.1101/002279 2014-02-06 Genomics CC BY Diverse and widespread contamination evident in the unmapped depths of high throughput sequencing data Richard W Lusk University of Michigan
http://dx.doi.org/10.1101/002410 2014-02-06 Neuroscience CC BY-NC-ND Broadly tuned and respiration-independent inhibition in the olfactory bulb of awake mice Brittany N Cazakoff|Billy Y B Lau|Kerensa L Crump|Heike Demmer|Stephen David Shea Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/002360 2014-02-05 Bioinformatics CC BY-NC A phase diagram for gene selection and disease classification Hong-Dong Li|Qing-Song Xu|Yi-Zeng Liang Central South University
http://dx.doi.org/10.1101/002378 2014-02-05 Evolutionary Biology CC BY-NC-ND Evolutionary dynamics of shared niche construction Philip Gerlee|Alexander RA Anderson Moffitt Cancer Center
http://dx.doi.org/10.1101/002386 2014-02-04 Genetics CC BY-NC-ND Genetic variants associated with motion sickness point to roles for inner ear development, neurological processes, and glucose homeostasis Bethann S Hromatka|Joyce Y Tung|Amy K Kiefer|Chuong B Do|David A Hinds|Nicholas Eriksson 23andMe
http://dx.doi.org/10.1101/002352 2014-02-04 Bioinformatics CC BY-NC SNP-guided identification of monoallelic DNA-methylation events from enrichment-based sequencing data Sandra Steyaert|Wim Van Criekinge|Ayla De Paepe|Simon Denil|Klaas Mensaert|Katrien Vandepitte|Wim Vanden Berghe|Geert Trooskens|Tim De Meyer University of Ghent;|University of Leuven;|University of Antwerp
http://dx.doi.org/10.1101/002329 2014-02-03 Bioinformatics CC BY-NC-ND Improving Protein Docking with Constraint Programming and Coevolution Data Ludwig Krippahl|Fabio Madeira Centria-DI, Universidade Nova de Lisboa
http://dx.doi.org/10.1101/002311 2014-02-03 Neuroscience The organization and dynamics of corticostriatal pathways link the medial orbitofrontal cortex to future decisions Timothy Verstynen CMU
http://dx.doi.org/10.1101/002121 2014-02-02 Bioinformatics CC BY-ND FALDO: A semantic standard for describing the location of nucleotide and protein feature annotation. Jerven Bolleman|Christopher J Mungall|Francesco Strozzi|Joachim Baran|Michel Dumontier|Raoul J P Bonnal|Robert Buels|Robert Hoehndorf|Takatomo Fujisawa|Toshiaki Katayama|Peter J A Cock SIB Swiss Institute of Bioinformatics;|Genomics Division, Lawrence Berkeley National Laboratory;|CeRSA;|Ontario Institute for Cancer Research;|Stanford Center for Biomedical Informatics Research;|Integrative Biology Program, Istituto Nazionale Genetica Molecolare;|University of California;|Department of Computer Science, Aberystwyth;|Center for Information Biology, National Institute of Genetics, Research Organization of Information;|Database Center for Life Science, Research Organization of Information and Systems;|The James Hutton Institute
http://dx.doi.org/10.1101/002303 2014-01-31 Genetics CC BY-NC-ND Stress, heritability, tissue type and human methylome variation in mother-newborn dyads. David A. Hughes|Nicole C. Rodney|Connie J. Mulligan Institute of Evolutionary Biology (CSIC - Universitat Pompeu Fabra);|University of Florida
http://dx.doi.org/10.1101/002261 2014-01-30 Genomics Impact of RNA degradation on measurements of gene expression Irene Gallego Romero|Athma A. Pai|Jenny Tung|Yoav Gilad University of Chicago;|MIT;|Duke University
http://dx.doi.org/10.1101/002170 2014-01-28 Genomics CC BY-NC-ND Transcriptome pyrosequencing of abnormal phenotypes in Trypanosoma cruzi epimastigotes after ectopic expression of a small zinc finger protein Gaston Westergaard|Marc Laverriere|Santiago Revale|Marina Reinert|Javier De Gaudenzi|Adriana Jager|Martin P Vazquez University of Buenos Aires;|IIB-INTECH;|INDEAR
http://dx.doi.org/10.1101/002204 2014-01-28 Bioinformatics CC BY-NC-ND Genome-wide DNA methylome analysis reveals novel epigenetically dysregulated non-coding RNAs in human breast cancer Yongsheng Li|Yunpeng Zhang|Shengli Li|Jianping Lu|Juan Chen|Zheng Zhao|Jing Bai|Juan Xu|Xia Li Harbin Medical University
http://dx.doi.org/10.1101/002196 2014-01-28 Cell Biology CC BY-NC-ND Cytoplasmic nanojunctions between lysosomes and sarcoplasmic reticulum are required for specific calcium signaling Nicola Fameli|Oluseye A. Ogunbayo|Cornelis van Breemen|A. Mark Evans University of British Columbia;|University of Edinburgh
http://dx.doi.org/10.1101/002139 2014-01-27 Immunology VgeneRepertoire.org identifies and stores variable genes of immunoglobulins and T-cell receptors from the genomes of jawed vertebrates David N Olivieri|Francisco Gambon-Deza Universidad de Vigo, School of Computer Science;|SERGAS, Hospital do Meixoeiro, Department of Immunology
http://dx.doi.org/10.1101/002147 2014-01-27 Ecology CC BY-NC-ND The determinants of alpine butterfly richness and composition vary according to the ecological traits of species Vincent Sonnay|Loic Pellissier|Jean-Nicolas Pradervand|Luigi Maiorano|Anne Dubuis|Mary S. Wisz|Antoine Guisan University of Lausanne;|University of Fribourg;|Aarhus University
http://dx.doi.org/10.1101/002071 2014-01-26 Neuroscience A microRNA profile in Fmr1 knockout mice reveals microRNA expression alterations with possible roles in fragile X syndrome Ting Liu|Rui-Ping Wan|Ling-Jia Tang|Shu-Jing Liu|Hai-Jun Li|Qi-Hua Zhao|Wei-Ping Liao|Xiao-Fang Sun|Yong-Hong Yi|Yue-Sheng Long The Second Affiliated Hospital of Guangzhou Medical University;|The Third Affiliated Hospital of Guangzhou Medical University
http://dx.doi.org/10.1101/002097 2014-01-26 Bioinformatics CC BY A Powerful Approach for Identification of Differentially Transcribed mRNA Isoforms Yuande Tan Department of Molecular Physiology and Biophysics and Dan L. Duncan Cancer Center, Baylor College of
http://dx.doi.org/10.1101/001735 2014-01-25 Evolutionary Biology CC BY-NC-ND Ecological and Evolutionary Oscillations in Host-Parasite Population Dynamics, and The Red Queen Jomar Fajardo Rabajante University of the Philippines
http://dx.doi.org/10.1101/002048 2014-01-24 Biophysics Bayesian Energy Landscape Tilting: Towards Concordant Models of Molecular Ensembles Kyle Beauchamp|Vijay Pande|Rhiju Das Stanford University
http://dx.doi.org/10.1101/002063 2014-01-24 Evolutionary Biology CC BY-NC-ND Holsteins Favor Heifers, Not Bulls: Biased Milk Production Programmed during Pregnancy as a Function of Fetal Sex Katie Hinde|Abigail J Carpenter|John C Clay|Barry J Bradford Harvard University;|Kansas State University;|Dairy Records Management Systems
http://dx.doi.org/10.1101/001958 2014-01-24 Bioinformatics CC BY-NC-ND Joint variant and de novo mutation identification on pedigrees from high-throughput sequencing data John G Cleary|Ross Braithwaite|Kurt Gaastra|Brian S Hilbush|Stuart Inglis|Sean A Irvine|Alan Jackson|Richard Littin|Sahar Nohzadeh-Malakshah|Minita Shah|Mehul Rathod|David Ware|Len Trigg|Francisco M De La Vega Real Time Genomics, Ltd.;|Real Time Genomics, Inc.
http://dx.doi.org/10.1101/002014 2014-01-23 Bioinformatics Estimate of Within Population Incremental Selection Through Branch Imbalance in Lineage Trees Gilad Liberman|Jennifer Benichou|Lea Tsaban|yaakov maman|Jacob Glanville|yoram louzoun Bar Ilan University;|Yale;|Pfizer
http://dx.doi.org/10.1101/002022 2014-01-23 Biochemistry ATOMIC STRUCTURES OF GLUCOSE, FRUCTOSE AND SUCROSE AND EXPLANATION OF ANOMERIC CARBON Raji Heyrovska *(Retired) Academy of Sciences of the Czech Republic
http://dx.doi.org/10.1101/001990 2014-01-23 Bioinformatics CC BY An Improved Search Algorithm to Find G-Quadruplexes in Genome Sequences Anna Varizhuk|Dmitry Ischenko|Igor Smirnov|Olga Tatarinova|Vyacheslav Severov|Roman Novikov|Vladimir Tsvetkov|Vladimir Naumov|Dmitry Kaluzhny|Galina Pozmogova Institute for Physical-Chemical Medicine, Engelhardt Institute of Molecular Biology;|Institute for Physical-Chemical Medicine;|Engelhardt Institute of Molecular Biology, N. D. Zelinsky Institute of Organic Chemistry;|Institute for Physical-Chemical Medicine, Topchiev Institute of Petrochemical Synthesis;|Engelhardt Institute of Molecular Biology
http://dx.doi.org/10.1101/002006 2014-01-23 Genomics Genome-wide patterns of copy number variation in the diversified chicken genomes using next-generation sequencing Guoqiang Yi|Lujiang Qu|Jianfeng Liu|Yiyuan Yan|Guiyun Xu|Ning Yang China Agricultural University
http://dx.doi.org/10.1101/001602 2014-01-23 Cell Biology p97-dependent retrotranslocation and proteolytic processing govern formation of active Nrf1 upon proteasome inhibition Senthil K Radhakrishnan|Willem den Besten|Raymond J Deshaies California Institute of Technology
http://dx.doi.org/10.1101/001875 2014-01-22 Molecular Biology CC BY-NC How and where to look for tRNAs in Metazoan mitochondrial genomes, and what you might find when you get there David Morrison Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/001966 2014-01-22 Biochemistry Correcting a SHAPE-directed RNA structure by a mutate-map-rescue approach Siqi Tian|Pablo Cordero|Wipapat Kladwang|Rhiju Das Stanford University
http://dx.doi.org/10.1101/001974 2014-01-22 Evolutionary Biology SINGLE NUCLEOTIDE POLYMORPHISMS SHED LIGHT ON CORRELATIONS BETWEEN ENVIRONMENTAL VARIABLES AND ADAPTIVE GENETIC DIVERGENCE AMONG POPULATIONS IN ONCORHYNCHUS KETA Xilin Deng|Philippe Henry University of Northern British Columbia
http://dx.doi.org/10.1101/001982 2014-01-22 Developmental Biology CC BY An accelerated miRNA-based screen implicates Atf-3 in odorant receptor expression Shreelatha Bhat|Minjung Shin|Suhyoung Bahk|Young-Joon Kim|Walton D. Jones Korea Advanced Institute of Science and Technology (KAIST);|Gwangju Institute of Science and Technology (GIST)
http://dx.doi.org/10.1101/001933 2014-01-21 Evolutionary Biology CC BY-NC-ND Coalescence 2.0: a multiple branching of recent theoretical developments and their applications Aurelien Tellier|Christophe Lemaire Technische Universität München;|University of Angers
http://dx.doi.org/10.1101/001917 2014-01-21 Microbiology CC BY-NC Modelling and analysis of bacterial tracks suggest an active reorientation mechanism in Rhodobacter sphaeroides Gabriel Rosser|Ruth E. Baker|Judith P. Armitage|Alexander George Fletcher University of Oxford
http://dx.doi.org/10.1101/001925 2014-01-21 Ecology CC BY-NC Complex behavioral manipulation drives mismatch between host and parasite diversity Fabricio Baccaro|Joao Araujo|Harry Evans|Jorge Souza|Bill Magnusson|David Hughes Instituto Nacional de Pesquisas da Amazônia,;|Penn State;|CABI UK;|5Coordenação de Pesquisas em Biodiversidade, INPA, Manaus
http://dx.doi.org/10.1101/001941 2014-01-21 Ecology CC BY-NC-ND Particle size distribution and optimal capture of aqueous macrobial eDNA Cameron R. Turner|Matthew A. Barnes|Charles C.Y. Xu|Stuart E. Jones|Christopher L. Jerde|David M. Lodge University of Notre Dame
http://dx.doi.org/10.1101/000778 2014-01-18 Systems Biology CC BY-NC-ND Quantifying the turnover of transcriptional subclasses of HIV-1-infected cells Christian L Althaus|Beda Joos|Alan S Perelson|Huldrych F Gunthard University of Bern;|University Hospital Zürich;|Los Alamos National Laboratory
http://dx.doi.org/10.1101/001867 2014-01-17 Ecology CC BY-NC Estimating seed bank accumulation and dynamics in three obligate-seeder Proteaceae species Meaghan E. Jenkins|David Morrison|Tony D. Auld University of Technology Sydney;|Swedish University of Agricultural Sciences;|Department of Environment & Climate Change (NSW)
http://dx.doi.org/10.1101/001891 2014-01-17 Evolutionary Biology CC BY-NC-ND Population genomics of Saccharomyces cerevisiae human isolates: passengers, colonizers, invaders. Carlotta De Filippo|Monica Di Paola|Irene Stefanini|Lisa Rizzetto|Luisa Berna|Matteo Ramazzotti|Leonardo Dapporto|Damariz Rivero|Ivo G Gut|Marta Gut|Monica Bayes|Jean-Luc Legras|Roberto Viola|Cristina Massi-Benedetti|Antonella De Luca|Luigina Romani|Paolo Lionetti|Duccio Cavalieri Fondazione Edmund Mach (FEM);|University of Florence;|Oxford Brookes University;|Centro Nacional d?Anàlisi Genòmica;|Institut National de la Recherche Agronomique;|University of Perugia;|Univeristy of Florence;|Fondazione E. Mach (FEM)
http://dx.doi.org/10.1101/001883 2014-01-17 Immunology Tracking global changes induced in the CD4 T cell receptor repertoire by immunization with a complex antigen using short stretches of CDR3 protein sequence. Niclas Thomas|Katharine Best|Mattia Cinelli|Shlomit Reich-Zeliger|Hila Gal|Eric Shifrut|Asaf Madi|Nir Friedman|John Shawe-Taylor|Benny Chain UCL, London;|Weizmann Institute, israel;|Weizmann Institute, Israel;|UCL
http://dx.doi.org/10.1101/001909 2014-01-17 Genomics CC BY-NC The shrinking human protein coding complement: are there fewer than 20,000 genes? Iakes Ezkurdia|David Juan|Jose Manuel Rodriguez|Adam Frankish|Mark Deikhans|Jennifer L Harrow|Jesus Vazquez|Alfonso Valencia|Michael Tress 1.Unidad de PCentro Nacional de Investigaciones Cardiovasculares, CNIC;|Spanish National Cancer Research Centre (CNIO);|Wellcome Trust Sanger Institute;|Univ. California Santa Cruz;|Sanger Centre;|Centro Nacional de Investigaciones Cardiovasculares, CNIC;|Spanish National Cancer Research Centre- CNIO;|Spanish National Cancer Research Centre
http://dx.doi.org/10.1101/001297 2014-01-16 Biophysics CC BY-NC-ND Aerodynamic characteristics of a feathered dinosaur measured using physical models. Effects of form on static stability and control effectiveness. Dennis Evangelista|Griselda Cardona|Eric Guenther-Gleason|Tony Huynh|Austin Kwong|Dylan Marks|Neil Ray|Adrian Tisbe|Kyle Tse|Mimi Kohl UC Berkeley
http://dx.doi.org/10.1101/001818 2014-01-14 Ecology CC BY-NC-ND Emergence of structural and dynamical properties of ecological mutualistic networks Samir Suweis|Filippo Simini|Jayanth Banavar|Amos Maritan Universiyt of Padova;|Northeastern University;|University of Maryland;|University of Padova
http://dx.doi.org/10.1101/000422 2014-01-14 Bioinformatics CC BY On the optimal trimming of high-throughput mRNAseq data Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/001792 2014-01-13 Genetics CC BY-NC-ND Human paternal and maternal demographic histories: insights from high-resolution Y chromosome and mtDNA sequences Sebastian Lippold|Hongyang Xu|Albert Ko|Mingkun Li|Gabriel Renaud|Anne Butthof|Roland Schroeder|Mark Stoneking MPI-EVA
http://dx.doi.org/10.1101/001776 2014-01-13 Genomics CC BY-NC Chromothripsis-like patterns are recurring but heterogeneously distributed features in a survey of 22,347 cancer genome screens Haoyang Cai|Nitin Kumar|Homayoun C Bagheri|Christian von Mering|Mark Robinson|Michael Baudis University of Zurich
http://dx.doi.org/10.1101/001586 2014-01-13 Neuroscience CC BY-ND Embodied cognition, embodied regulation, and the Data Rate Theorem Rodrick Wallace New York State Psychiatric Institute
http://dx.doi.org/10.1101/001768 2014-01-13 Biophysics CC BY-NC-ND Quantification of nuclear transport in single cells Lucia Durrieu|Rikard Johansson|Alan Bush|David L.I. Janzen|Martin Gollvik|Gunnar Cedersund|Alejandro Colman-Lerner IFIByNE, DFBMC, FCEN, UBA, Buenos Aires, Argentine;|Department of Biomedical Engineering, Linköping University, Linköping, Sweden
http://dx.doi.org/10.1101/001727 2014-01-10 Bioinformatics CC BY-NC-ND SIANN: Strain Identification by Alignment to Near Neighbors Samuel Minot|Stephen D Turner|Krista L Ternus|Dana R Kadavy Signature Science, LLC;|University of Virginia
http://dx.doi.org/10.1101/001743 2014-01-10 Cell Biology CC BY OPPOSING MICROTUBULE MOTORS CONTROL MOTILITY, MORPHOLOGY, AND CARGO SEGREGATION DURING ER-TO-GOLGI TRANSPORT. Anna K Brown|Sylvie D Hunt|David J Stephens University of Bristol
http://dx.doi.org/10.1101/001693 2014-01-08 Biophysics A statistical mechanics model for the collective epigenetic histone modification dynamics Hang Zhang|XIAO-JUN TIAN|Abhishek Mukhopadhyay|Kenneth S Kim|Jianhua Xing Virginia Tech;|Virginia Polytechnic Institue and State University;|Lawrence Livermore National Laboratory and University of California, Livermore
http://dx.doi.org/10.1101/001172 2014-01-04 Evolutionary Biology CC BY-NC-ND Species Delimitation using Genome-Wide SNP Data Adam Leache|Matthew Fujita|Vladimir Minin|Remco Bouckaert University of Washington;|University of Texas at Arlington;|University of Auckland
http://dx.doi.org/10.1101/001669 2014-01-02 Bioinformatics CC BY Algorithms in Stringomics (I): Pattern-Matching against "Stringomes" Paolo Ferragina|Bud (Bhubaneswar) Mishra University of Pisa;|New York University
http://dx.doi.org/10.1101/001651 2014-01-02 Cancer Biology Power-law Null Model for Bystander Mutations in Cancer Loes Olde Loohuis|Andreas Witzel|Bud Mishra City University New York;|Google;|NYU
http://dx.doi.org/10.1101/001636 2013-12-31 Neuroscience Hippocampal Motifs Zahra Aghajan|Lavanya Acharya|Jesse Cushman|Cliff Vuong|Jason Moore|Mayank Mehta UCLA
http://dx.doi.org/10.1101/001529 2013-12-31 Evolutionary Biology CC BY-NC-ND Revisiting the effect of population size on cumulative cultural evolution Ryan Baldini UC Davis
http://dx.doi.org/10.1101/001610 2013-12-30 Ecology CC BY-NC-ND Black rhinoceros demography should be stage, not age, based. Peter R Law|Wayne L Linklater na;|Centre for Biodiversity and Restoration Ecology, School of Biological Sciences, Victoria University
http://dx.doi.org/10.1101/001537 2013-12-26 Ecology Assessing the Use of Antiviral Treatment to Control Influenza Sarah C Kramer|Shweta Bansal Georgetown University;|Georgetown University; National Institutes of Health
http://dx.doi.org/10.1101/000950 2013-12-25 Plant Biology CC BY-NC-ND An XA21-Associated Kinase (OsSERK2) regulates immunity mediated by the XA21 and XA3 immune receptors Xuewei Chen|Shimin Zuo|Benjamin Schwessinger|Mawsheng Chern|Patrick Canlas|Deling Ruan|Arsalan Daudi|Xiaogang Zhang|Jing Wang|Christopher Petzold|Joshua Heazlewood|Pamela C Ronald Rice Research Institute, Sichuan Agricultural University at Wenjiang, Chengdu, Sichuan 611130, China;|Key Laboratory of Crop Genetics and Physiology of Jiangsu Province, Key Laboratory of Plant Function;|UC Davis;|Department of Plant Pathology and the Genome Center, University of California, Davis, California 956;|Joint Bioenergy Institute, Emeryville, California 94710, USA
http://dx.doi.org/10.1101/001594 2013-12-24 Zoology CC BY-NC-ND Morphometrics of a wild Asian elephant exhibiting disproportionate dwarfism Shermin de Silva|Udaya S Weerathunga|Tennekoon Pushpakumara Colorado State University, EFECT, Trunks & Leaves (Inc.);|EFECT
http://dx.doi.org/10.1101/001511 2013-12-21 Genomics The causal meaning of genomic predictors and how it affects the construction and comparison of genome-enabled selection models Bruno D Valente|Gota Morota|Guilherme JM Rosa|Daniel Gianola|Kent Weigel University of Wisconsin - Madison
http://dx.doi.org/10.1101/001438 2013-12-21 Plant Biology CC BY-ND DCL1, a Protein that Produces Plant MicroRNA, Coordinates Meristem Activity Stephen E. Schauer|Teresa A. Golden|Delwin S. Merchant|Biranchi N. Patra|Jean D. Lang|Sumita Ray|Bulbul Chakravarti|Deb N. Chakravarti|Animesh Ray Department of Biology, University of Rochester, Rochester, NY 14627, USA;|Keck Graduate Institute, 535 Watson Drive, Claremont, CA 91711, USA;|Keck Graduate Institute
http://dx.doi.org/10.1101/001487 2013-12-20 Evolutionary Biology CC BY-NC-ND Hawkish but helpful: When cultural group selection favors within-group aggression Ben Hanowell Department of Anthropology, University of Washington
http://dx.doi.org/10.1101/001495 2013-12-20 Bioinformatics CC BY-ND A coarse-grained elastic network atom contact model and its use in the simulation of protein dynamics and the prediction of the effect of mutations Vincent Frappier|Rafael Najmanovich Université de Sherbrooke
http://dx.doi.org/10.1101/001479 2013-12-19 Genomics CC BY-NC-ND Massively differential bias between two widely used Illumina library preparation methods for small RNA sequencing Jeanette Baran-Gale|Michael R Erdos|Christina Sison|Alice Young|Emily E Fannin|Peter S Chines|Praveen Sethupathy University of North Carolina at Chapel Hill;|National Human Genome Research Institute;|NISC;|University of North Carolina at Chapel HIll
http://dx.doi.org/10.1101/000968 2013-12-19 Neuroscience CC BY-NC-ND Functional connectivity networks with and without global signal correction Satoru Hayasaka Wake Forest School of Medicine
http://dx.doi.org/10.1101/001461 2013-12-19 Biophysics CC BY-ND RNA Structure Refinement using the ERRASER-Phenix pipeline Fang-Chieh Chou|Nathaniel Echols|Thomas C. Terwilliger|Rhiju Das Stanford;|Lawrence Berkeley National Laboratory;|Los Alamos National Laboratory
http://dx.doi.org/10.1101/001446 2013-12-17 Evolutionary Biology CC BY-NC-ND Direct Reciprocity Under Uncertainty Does Not Explain One-Shot Cooperation, But It Can Explain Norm Psychology Matthew Zefferman National Institute for Mathematical and Biological Synthesis
http://dx.doi.org/10.1101/001388 2013-12-16 Genomics CC BY-NC-ND Bayesian inference of infectious disease transmission from whole genome sequence data Xavier Didelot|Jennifer Gardy|Caroline Colijn Imperial College London;|British Columbia Centre for Disease Control
http://dx.doi.org/10.1101/001289 2013-12-16 Evolutionary Biology An Adaptive Threshold in Mammalian Neocortical Evolution Eric Lewitus|Iva Kelava|Alex T Kalinka|Pavel Tomancak|Wieland B Huttner Max Planck Institute of Molecular Cell Biology and Genetics;|Institut für Populationsgenetik, Vetmeduni Vienna, Veterinärplatz 1, 1210 Wien, Austria
http://dx.doi.org/10.1101/001404 2013-12-14 Evolutionary Biology CC BY-NC-ND The importance of population growth and regulation in human life history evolution Ryan Baldini UC Davis
http://dx.doi.org/10.1101/001396 2013-12-13 Biophysics CC BY-NC-ND Parametric inference in the large data limit using maximally informative models Justin B. Kinney|Gurinder S. Atwal Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/000802 2013-12-13 Genomics Generation of high-resolution a priori Y-chromosome phylogenies using next-generation sequencing data Gregory R Magoon|Raymond H Banks|Christian Rottensteiner|Bonnie E Schrack|Vincent O Tilroe|Terry Robb|Andrew J Grierson Aerodyne Research, Inc.;|independent researcher;|University of Sheffield
http://dx.doi.org/10.1101/001362 2013-12-12 Microbiology CC BY-NC-ND Extensive Phenotypic Changes Associated with Large-scale Horizontal Gene Transfer Kevin Dougherty|Brian A Smith|Autum F Moore|Shannon Maitland|Chris Fanger|Rachel Murillo|David A Baltrus University of Arizona
http://dx.doi.org/10.1101/001354 2013-12-12 Genetics A Tale of Two Hypotheses: Genetics and the Ethnogenesis of Ashkenazi Jewry Aram Yardumian University of Pennsylvania
http://dx.doi.org/10.1101/001230 2013-12-12 Bioinformatics CC BY libRoadRunner: A High Performance SBML Compliant Simulator Herbert M Sauro|Totte T Karlsson|Maciej Swat|Michal Galdzicki|Andy Somogyi University of Washington;|Dune Scientific;|Indiana University
http://dx.doi.org/10.1101/001248 2013-12-11 Plant Biology CC BY-NC-ND A conserved oomycete CRN effector targets and modulates tomato TCP14-2 to enhance virulence Remco Stam|Graham Motion|Petra C. Boevink|Edgar Huitema University of Dundee;|James Hutton Institute
http://dx.doi.org/10.1101/000448 2013-12-10 Synthetic Biology CC BY-NC-ND Design and implementation of a synthetic biomolecular concentration tracker Victoria Hsiao|Emmanuel LC de los Santos|Weston R Whitaker|John E Dueber|Richard M Murray California Institute of Technology;|Stanford University;|University of California, Berkeley
http://dx.doi.org/10.1101/001198 2013-12-10 Neuroscience Genomic architecture of human neuroanatomical diversity Roberto Toro|Jean-Baptiste Poline|Guillaume Huguet|Eva Loth|Vincent Frouin|Tobias Banaschewski|Gareth J Barker|Arun Bokde|Christian Buchel|Fabiana Carvalho|Patricia Conrod|Mira Fauth-Buhler|Herta Flor|Jurgen Gallinat|Hugh Garavan|Penny Gowloan|Andreas Heinz|Bernd Ittermann|Claire Lawrence|Herve Lemaitre|Karl Mann|Frauke Nees|Toma Paus|Zdenka Pausova|Marcella Rietschel|Trevor Robbins|Michael Smolka|Andreas Strohle|Gunter Schumann|Thomas Bourgeron Institut Pasteur;|University of California at Berkeley;|King's College London;|Commissariat à l'Énergie Atomique et aux Énergies Alternatives;|Heidelberg University;|Kings College London;|Trinity College Dublin;|Universitaetsklinikum Hamburg Eppendorf;|Charité Universitätsmedizin Berlin;|University of Nottingham;|Physikalisch-Technische Bundesanstalt (PTB);|Université Paris Sud;|University of Toronto;|University of Cambridge;|Technische Universität Dresden
http://dx.doi.org/10.1101/001263 2013-12-10 Ecology CC BY-NC-ND Climate change triggers morphological and life-history evolution in response to predators Edmund Hart|Nicholas Gotelli National Ecological Observatory Network;|University of Vermont
http://dx.doi.org/10.1101/001156 2013-12-04 Neuroscience CC BY-NC Influence of walking speed on locomotor time production Fabrice MEGROT|Carole MEGROT French Red Cross;|French red Cross
http://dx.doi.org/10.1101/000984 2013-12-04 Bioinformatics A Bayesian Method to Incorporate Hundreds of Functional Characteristics with Association Evidence to Improve Variant Prioritization Sarah A Gagliano|Michael R Barnes|Michael E Weale|Jo Knight Centre for Addiction and Mental Health;|Queen Mary University of London;|King's College London
http://dx.doi.org/10.1101/001040 2013-12-03 Microbiology High Genetic Diversity and Adaptive Potential of Two Simian Hemorrhagic Fever Viruses in a Wild Primate Population Adam L. Bailey|Michael Lauck|Andrea Weiler|Samuel D. Sibley|Jorge M. Dinis|Zachary Bergman|Chase W. Nelson|Michael Correll|Michael Gleicher|David Hyeroba|Alex Tumukunde|Geoffrey Weny|Colin Chapman|Jens Kuhn|Austin Hughes|Thomas C. Friedrich|Tony L. Goldberg|David H. O'Connor University of Wisconsin - Madison;|University of South Carolina;|Makerere University;|McGill University;|Integrated Research Facility at Fort Detrick, National Institute of Allergy and Infectious Diseases,
http://dx.doi.org/10.1101/001123 2013-12-03 Neuroscience CC BY Analysis of the study of the cerebellar pinceau by Korn and Axelrad Antonin Blot|Boris Barbour Ecole Normale Supérieure, CNRS, INSERM;|Ecole Normale Supérieure
http://dx.doi.org/10.1101/001099 2013-12-03 Genetics CC BY OTX2 Dosage Sensitivity is Implicated in Hemifacial Microsomia Dina Zielinski|Barak Markus|Mona Sheikh|Melissa Gymrek|Clement Chu|Marta Zaks|Balaji Srinivasan|Jodi D. Hoffman|Dror Aizenbud|Yaniv Erlich Whitehead Institute for Biomedical Research;|Counsyl;|Rambam Health Care Campus;|Tufts Medical Center;|Whitehead Institute
http://dx.doi.org/10.1101/001081 2013-12-03 Bioinformatics CC BY PyRAD: assembly of de novo RADseq loci for phylogenetic analyses Deren A. R. Eaton University of Chicago
http://dx.doi.org/10.1101/001065 2013-12-03 Bioinformatics CC BY-ND A null model for Pearson coexpression networks Andrea Gobbi|Giuseppe Jurman Fondazione Bruno Kessler
http://dx.doi.org/10.1101/001073 2013-12-02 Genetics CC BY-NC-ND Variational Inference of Population Structure in Large SNP Datasets Anil Raj|Matthew Stephens|Jonathan K Pritchard Stanford University;|University of Chicago
http://dx.doi.org/10.1101/001032 2013-12-02 Ecology CC BY-NC-ND Mechanism of β-Aminobutyric Acid-Induced Resistance in Wheat to the Grain Aphid, Sitobion avenae He-He Cao|Meng Zhang|Hui Zhao|Yi Zhang|Xing-Xing Wang|Shan-Shan Guo|Zhan-Feng Zhang|Tong-Xian Liu Northwest A&F University
http://dx.doi.org/10.1101/001024 2013-12-02 Bioinformatics CC BY-NC-ND Exploring DNA structures in real-time polymerase kinetics using Pacific Biosciences sequencer data Sterling Sawaya|James Boocock|Mik Black|Neil Gemmell University of Otago
http://dx.doi.org/10.1101/000042 2013-12-01 Genomics CC BY Routes for breaching and protecting genetic privacy Yaniv Erlich|Arvind Narayanan Whitehead Institute;|Princeton University
http://dx.doi.org/10.1101/000349 2013-12-01 Zoology CC BY-NC Filling up the tree: considering the self-organization of avian roosting behavior Bradly J Alicea Michigan State University
http://dx.doi.org/10.1101/000927 2013-11-25 Systems Biology Investigating the relation between stochastic differentiation and homeostasis in intestinal crypts via multiscale modeling Alex Graudenzi|Giulio Caravagna|Giovanni De Matteis|Marco Antoniotti Dept. of Informatics, Systems and Communication;|Department of Mathematics and Information Sciences, Northumbria University, Newcastle
http://dx.doi.org/10.1101/000935 2013-11-25 Genomics CC BY The-LHON-Enigma: explaining the behaviour of Lebers Hereditary Optic Neuropathy by the use of a simple computer model IAN S Logan -
http://dx.doi.org/10.1101/000893 2013-11-25 Ecology The Effectiveness of Chinas National Forest Protection Program and National-level Nature Reserves, 2000 to 2010 Guopeng Ren|Stephen S. Young|Lin Wang|Wei Wang|Yongcheng Long|Ruidong Wu|Junsheng Li|Jianguo Zhu|Douglas W. Yu Kunming Institute of Zoology;|Salem State University;|Chinese Research Academy of Environmental Sciences;|The Nature Conservancy;|Yunnan University
http://dx.doi.org/10.1101/000661 2013-11-25 Evolutionary Biology CC BY-NC-ND Natural Allelic Variations of Xenobiotic Enzymes Pleiotropically Affect Sexual Dimorphism in Oryzias latipes Takafumi Katsumura|Shoji Oda|Shigeki Nakagome|Tsunehiko Hanihara|Hiroshi Kataoka|Hiroshi Mitani|Shoji Kawamura|Hiroki Oota Kitasato University School of Medicine;|University of Tokyo;|The Institute of Statistical Mathematics
http://dx.doi.org/10.1101/000851 2013-11-22 Bioinformatics CC BY-ND Comment on TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions by Kim et al. Alexander Dobin|Thomas R Gingeras Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/000844 2013-11-22 Genomics CC BY Genomics via Optical Mapping (I): 0-1 Laws for Mapping with Single Molecules Thomas Anantharaman|Bud (Bhubaneswar) Mishra BioNano Genomics;|Courant Inst., New York University
http://dx.doi.org/10.1101/000638 2013-11-22 Plant Biology Effects of metsulfuron-methyl on aquatic plant (Lemna gibba L.) and recovery from after prolonged exposure under rice cropping conditions Raja Rajeswari|Atmakuru Ramesh International institute of bio-technology and toxicology;|International Institute of bio-technology and toxicology
http://dx.doi.org/10.1101/000836 2013-11-22 Cell Biology CC BY Journey to the Center of the Mitochondria Guided by the Tail Anchor of Protein Tyrosine Phosphatase 1B Julia Fueller|Mikhail Egorov|Kirstin A. Walther|Ola Sabet|Jana Mallah|Markus Grabenbauer|Ali Kinkhabwala Max Planck Institute of Molecular Physiology;|Heidelberg University
http://dx.doi.org/10.1101/000745 2013-11-20 Plant Biology ROS accumulation in cotton ovule epidermal cells is necessary for fiber initiation mingxiong pang|Nickolas Sanford|Thea Wilkins Texas Tech University
http://dx.doi.org/10.1101/000786 2013-11-20 Biophysics CC BY-NC-ND Cycling Physicochemical Gradients as Evolutionary Drivers: From Complex Matter to Complex Living States Jan Spitzer MCP Inc
http://dx.doi.org/10.1101/000711 2013-11-19 Ecology CC BY Sap flow through petioles and petioles reveals leaf-level responses to light and vapor pressure deficit in the tropical tree Tabebuia rosea (Bignoniaceae) Adam Roddy|Klaus Winter|Todd Dawson University of California, Berkeley;|Smithsonian Tropical Research Institute
http://dx.doi.org/10.1101/000679 2013-11-18 Molecular Biology CC BY-NC-ND Differentiation-dependent telomeric long non-coding transcription in a model of skeletal myogenesis Scott Brouilette|Samir Ounzain|Vinit Sawhney|Kenta Yashiro|Yasunori Shintani|Kunihiko Takahashi|Steven Coppen|Takuya Narita|Kelli Torsney|Martin Carrier|Niall Campbell|Ken Suzuki William Harvey Research Institute;|University of Lausanne Medical School
http://dx.doi.org/10.1101/000562 2013-11-18 Systems Biology CC BY-NC-ND A structural classification of candidate oscillators and multistationary systems Franco Blanchini|Elisa Franco|Giulia Giordano University of Udine, Italy;|University of California at Riverside
http://dx.doi.org/10.1101/000588 2013-11-18 Evolutionary Biology CC BY-NC On the concept of biological function, junk DNA and the gospels of ENCODE and Graur et al. Claudiu I Bandea Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/000570 2013-11-18 Developmental Biology Lipoproteins carry endocannabinoids that inhibit the Hedgehog pathway Helena Khaliullina|Mesut Bilgin|Julio L. Sampaio|Andrej Shevchenko|Suzanne Eaton Max-Planck-Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/000604 2013-11-18 Immunology CC BY-NC Aβ, tau, α-synuclein, huntingtin, TDP-43, PrP and AA are members of the innate immune system: a unifying hypothesis on the etiology of AD, PD, HD, ALS, CJD and RSA as innate immunity disorders Claudiu I Bandea Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/000513 2013-11-16 Immunology Lack of evidence for the presence of an interferon in invertebrate Pei-Hui Wang The University of Hong Kong
http://dx.doi.org/10.1101/000547 2013-11-16 Biochemistry CC BY Varing chemical equilibrium gives kinetic parameters Edward Flach|Santiago Schnell Ronin Institute;|University of Michigan
http://dx.doi.org/10.1101/000497 2013-11-15 Bioinformatics CC BY-NC Unexpected links reflect the noise in networks Anatoly Yambartsev|Michael Perlin|Yevgeniy Kovchegov|Natalia Shulzhenko|Karina Mine|Andrey Morgun USP;|Oregon State University;|IGEN, AFIP
http://dx.doi.org/10.1101/000430 2013-11-15 Synthetic Biology CC BY-NC-ND Negative autoregulation matches production and demand in synthetic transcriptional networks Elisa Franco|Giulia Giordano|Per-Ola Forsberg|Richard M Murray University of California at Riverside;|University of Udine, Italy;|Kristianstad Central Hospital, Tollarp, Sweden;|Caltech
http://dx.doi.org/10.1101/000489 2013-11-15 Bioinformatics CC BY Gappy TotalReCaller for RNASeq Base-Calling and Mapping Bud (Bhubaneswar) Mishra New York University
http://dx.doi.org/10.1101/000406 2013-11-15 Evolutionary Biology CC BY-NC-ND Universality and predictability in molecular quantitative genetics Armita Nourmohammad|Torsten Held|Michael Lassig Princeton University;|University of Cologne
http://dx.doi.org/10.1101/000398 2013-11-14 Evolutionary Biology CC BY-NC-ND The Origin of Human-infecting Avian Influenza A H6N1 Virus Liangsheng Zhang|Zhenguo Zhang Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, C;|Department of Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
http://dx.doi.org/10.1101/000380 2013-11-14 Systems Biology CC BY A model of flux regulation in the cholesterol biosynthesis pathway: Immune mediated graduated flux reduction versus statin-like led stepped flux reduction Steven Watterson|Maria-Luisa Guerriero|Mathieu Blanc|Alexander Mazein|Laurence Loewe|Kevin Robertson|Holly Gibbs|Guanghou Shui|Markus Wenk|Jane Hillston|Peter Ghazal University of Ulster;|University College, Dublin;|Ecole Federale of Lausanne;|Okinawa Institute of Science and Technology;|University of Wisconsin-Madison;|University of Edinburgh;|Texas A&M University;|National University of Singapore
http://dx.doi.org/10.1101/000414 2013-11-14 Genetics CC BY The evolution of sex differences in disease genetics William P Gilks|Jessica K Abbott|Edward H Morrow University of Sussex;|Lund University
http://dx.doi.org/10.1101/000364 2013-11-14 Ecology CC BY Sampling principles for biodiversity study Xubin Pan Chinese Academy of Inspection and Quarantine
http://dx.doi.org/10.1101/000315 2013-11-13 Genomics CC BY-NC-ND On the Reproducibility of TCGA Ovarian Cancer MicroRNA Profiles Ying-Wooi Wan|Claire Mach|Genevera I. Allen|Matthew Anderson|Zhandong Liu Baylor College of Medicine;|University of Houston;|Rice University
http://dx.doi.org/10.1101/000208 2013-11-12 Evolutionary Biology CC BY-NC-ND Population genomics of parallel hybrid zones in the mimetic butterflies, H. melpomene and H. erato Nicola Nadeau|Mayte Ruiz|Patricio Salazar|Brian Counterman|Jose Alejandro Medina|Humberto Ortiz-Zuazaga|Anna Morrison|W. Owen McMillan|Chri Jiggins|Riccardo Papa University of Cambridge;|University of Puerto Rico Rio Piedras;|Universidad Tecnológica Indoamérica;|Mississippi State University;|Smithsonian Tropical Research Institute;|Cambridge
http://dx.doi.org/10.1101/000216 2013-11-12 Genomics CC BY A Complete Public Domain Family Genomics Dataset Manuel Corpas|Mike Cariaso|Alain Coletta|David Weiss|Andrew P Harrison|Federico Moran|Huanming Yang Independent;|SNPedia;|InSilicoDB;|University of Essex;|Universidad Complutense de Madrid;|BGI
http://dx.doi.org/10.1101/000224 2013-11-12 Molecular Biology CC BY Water and the biology of *prions* and plaques Graham K Steel|Phillippa M Wiggins|n/a n/a n/a;|University of Auckland
http://dx.doi.org/10.1101/000240 2013-11-12 Evolutionary Biology CC BY Genome-wide targets of selection: female response to experimental removal of sexual selection in Drosophila melanogaster Paolo Innocenti|Ilona Flis|Edward H Morrow Uppsala University;|University of Sussex
http://dx.doi.org/10.1101/000265 2013-11-12 Genomics CC BY-ND A genome wide dosage suppressor network reveals genetic robustness and a novel mechanism for Huntingtons disease Biranchi Patra|Yoshiko Kon|Gitanjali Yadav|Anthony Sevold|Jesse P Frumkin|Ravishankar R Vallabhajosyula|Arend Hintze|Bjrn stman|Jory Schossau|Ashish Bhan|Bruz Marzolf|Jenna K Tamashiro|Amardeep Kaur|Nitin S Baliga|Elizabeth J Grayhack|Christoph Adami|David J Galas|Alpan Raval|Eric M Phizicky|Animesh Ray Keck Graduate Institute;|University of Rochester School of Medicine;|3National Institute of Plant Genome Research (NIPGR), India;|Keck Graduate Institute & Michigan State University;|Institute for Systems Biology;|Institute for Systems Biology & Pacific Northwest Diabetes Research Institute;|Keck Graduate Institute & School of Mathematical Sciences at Claremont Graduate University
http://dx.doi.org/10.1101/000307 2013-11-12 Developmental Biology CC BY Drosophila embryogenesis scales uniformly across temperature and developmentally diverse species Steven Gregory Kuntz|Michael B Eisen University of California, Berkeley
http://dx.doi.org/10.1101/000158 2013-11-11 Bioinformatics CC BY-ND Functional Annotation Signatures of Disease Susceptibility Loci Improve SNP Association Analysis Edwin S Iversen|Gary Lipton|Merlise A. Clyde|Alvaro N. A. Monteiro Duke University;|H. Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/000067 2013-11-07 Genomics Genetics of single-cell protein abundance variation in large yeast populations Frank Albert|Sebastian Treusch|Arthur H Shockley|Joshua S Bloom|Leonid Kruglyak UCLA;|Princeton University
http://dx.doi.org/10.1101/000125 2013-11-07 Cancer Biology CC BY-NC A filter-flow perspective of hematogenous metastasis offers a non-genetic paradigm for personalized cancer therapy Jacob G Scott|Alexander G Fletcher|Philip K Maini|Alexander R A Anderson|Philip Gerlee H. Lee Moffitt Cancer Center and Research Institute and University of Oxford;|University of Oxford;|H. Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/000141 2013-11-07 Cancer Biology CC BY-NC Microenvironmental variables must influence intrinsic phenotypic parameters of cancer stem cells to affect tumourigenicity Jacob Scott|Anita Hjelmeland|Prakash Chinnaiyan|Alexander R A Anderson|David Basanta H. Lee Moffitt Cancer Center and Research Institute and University of Oxford;|University of Alabama at Birmingham;|H. Lee Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/000091 2013-11-07 Synthetic Biology CC BY-ND Designing Robustness to Temperature in a Feedforward Loop Circuit Shaunak Sen|Jongmin Kim|Richard M. Murray Indian Institute of Technology Delhi;|California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/000109 2013-11-07 Evolutionary Biology CC BY Speciation and introgression between Mimulus nasutus and Mimulus guttatus Yaniv Brandvain|Amanda M Kenney|Lex Fagel|Graham Coop|Andrea L Sweigart Department of Evolution and Ecology & Center for Population Biology, University of California -Davis;|Department of Genetics, University of Georgia, Athens, GA, USA;|Monsanto Company, Chesterfield, MO, USA;|University of California: Davis
http://dx.doi.org/10.1101/049957 2016-04-24 Epidemiology CC BY-ND The Epidemiology and Transmissibility of Zika Virus in Girardot and San Andres Island, Colombia Diana Patricia Rojas|Natalie E. Dean|Yang Yang|Eben Kenah|Juliana Quintero|Simon Tomasi|Erika L. Ramirez|Yendy Kelly|Carolina Castro|Gabriel Carrasquilla|M. Elizabeth Halloran|Ira M. Longini University of Florida, Gainesville, FL, USA;|Fundacion Santa Fe de Bogota, Bogota, Colombia;|Secretaria Municipal de Salud, Girardot, Colombia;|IPS Universitaria, San Andres, Colombia;|Secretaria Departamental de Salud, San Andres, Colombia;|Fred Hutchinson Cancer Research Center, Seattle, WA, USA
http://dx.doi.org/10.1101/049916 2016-04-24 Epidemiology CC BY-NC-ND Discovery of a persistent Zika virus lineage in Bahia, Brazil Samia Naccache|Julien Theze|Silvia I Sardi|Sneha Somasekar|Alexander L Greninger|Antonio C Bandeira|Gubio S Campos|Laura B Tauro|Nuno R Faria|Oliver G Pybus|Charles Y Chiu University of California, San Francisco;|University of Oxford;|Federal Univeresity of Bahia;|University of Washington;|Alianca Hospital, Salvador, Bahia, Brazil;|Federal University of Bahia;|Center of Research Gonzalo Moniz, Foundation Fiocruz;|Evandro Chagas Institute
http://dx.doi.org/10.1101/050021 2016-04-23 Bioengineering Scalable Production of Human Erythrocytes from Induced Pluripotent Stem Cells Ying Wang|Yongxing Gao|Chaoxie He|Zhaohui Ye|Sharon Gerecht|Linzhao Cheng Johns Hopkins University;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/050039 2016-04-23 Pathology PODOCYTURIA mRNAs: EARLIER AND SUPERIOR PREDICTORS OF CARDIOVASCULAR OUTCOMES Assaad A. Eid|Robert H. Habib|Ahmed Abdel Fattah|Nour Al Jalbout|Kamal F. Badr American University of Beirut;|Hamad General Hospital, Doha
http://dx.doi.org/10.1101/050013 2016-04-23 Molecular Biology Direct binding to RPA-coated ssDNA allows recruitment of the ATR activator TopBP1 to sites of DNA damage Julyana Acevedo|Shan Yan|Matt Michael University of Southern California;|University of North Carolina at Charlotte
http://dx.doi.org/10.1101/049882 2016-04-23 Developmental Biology CC BY-NC-ND Activated Ras expression in eye discs with altered hsrω lncRNA causes JNK-induced Dilp8 secretion and reduces post-pupal ecdysone leading to early pupal death in Drosophila Mukulika Ray|Subhash C. Lakhotia Banaras HIndu University;|Banaras Hindu University
http://dx.doi.org/10.1101/050005 2016-04-23 Microbiology CC BY-NC-ND New insights in host-associated microbial diversity with broad and accurate taxonomic resolution Matthew T. Agler|Alfredo Mari|Nina Dombrowski|Stephane Hacquard|Eric M. Kemen Max-Planck Institute for Plant Breeding Research
http://dx.doi.org/10.1101/049999 2016-04-23 Neuroscience CC BY-NC Olfactory perception of chemically diverse molecules Andreas Keller|Leslie B Vosshall The Rockefeller University
http://dx.doi.org/10.1101/049924 2016-04-23 Evolutionary Biology CC BY-NC-ND Radical changes persist longer in the absence of sex Joel Sharbrough|Meagan Luse|Jeffrey L Boore|John M Logsdon|Maurine Neiman University of Iowa;|University of California, Berkeley;|Uinversity of Iowa
http://dx.doi.org/10.1101/049965 2016-04-22 Neuroscience The hippocampus generalizes across memories that share item and context information Laura A Libby|J Daniel Ragland|Charan Ranganath UC Davis
http://dx.doi.org/10.1101/049981 2016-04-22 Microbiology CC BY Lactobacillus plantarum is a pathobiont for adult Drosophila. David Fast|Aashna Duggal|Edan Foley University of Alberta
http://dx.doi.org/10.1101/049056 2016-04-22 Genetics CC BY-ND Prevalence, phenotype and architecture of developmental disorders caused by de novo mutation Jeremy F McRae|Stephen Clayton|Tomas W Fitzgerald|Joanna Kaplanis|Elena Prigmore|Diana Rajan|Alejandro Sifrim|Stuart Aitken|Nadia Akawi|Mohsan Alvi|Kirsty Ambridge|Daniel M Barrett|Tanya Bayzetinova|Philip Jones|Wendy D Jones|Daniel King|Netravathi Krishnappa|Laura E Mason|Tarjinder Singh|Adrian R Tivey|Munaza Ahmed|Uruj Anjum|Hayley Archer|Ruth Armstrong|Jana Awada|Meena Balasubramanian|Siddharth Banka|Diana Baralle|Angela Barnicoat|Paul Batstone|David Baty|Chris Bennett|Jonathan Berg|Birgitta Bernhard|A Paul Bevan|Maria Bitner-Glindzicz|Edward Blair|Moira Blyth|David Bohanna|Louise Bourdon|David Bourn|Lisa Bradley|Angela Brady|Simon Brent|Carole Brewer|Kate Brunstrom|David J Bunyan|John Burn|Natalie Canham|Bruce Castle|Kate Chandler|Elena Chatzimichali|Deirdre Cilliers|Angus Clarke|Susan Clasper|Jill Clayton-Smith|Virginia Clowes|Andrea Coates|Trevor Cole|Irina Colgiu|Amanda Collins|Morag N Collinson|Fiona Connell|Nicola Cooper|Helen Cox|Lara Cresswell|Gareth Cross|Yanick Crow|Mariella D'Alessandro|Tabib Dabir|Rosemarie Davidson|Sally Davies|Dylan de Vries|John Dean|Charu Deshpande|Gemma Devlin|Abhijit Dixit|Angus Dobbie|Alan Donaldson|Dian Donnai|Deirdre Donnelly|Carina Donnelly|Angela Douglas|Sofia Douzgou|Alexis Duncan|Jacqueline Eason|Sian Ellard|Ian Ellis|Frances Elmslie|Karenza Evans|Sarah Everest|Tina Fendick|Richard Fisher|Frances Flinter|Nicola Foulds|Andrew Fry|Alan Fryer|Carol Gardiner|Lorraine Gaunt|Neeti Ghali|Richard Gibbons|Harinder Gill|Judith Goodship|David Goudie|Emma Gray|Andrew Green|Philip Greene|Lynn Greenhalgh|Susan Gribble|Rachel Harrison|Lucy Harrison|Victoria Harrison|Rose Hawkins|Liu He|Stephen Hellens|Alex Henderson|Sarah Hewitt|Lucy Hildyard|Emma Hobson|Simon Holden|Muriel Holder|Susan Holder|Georgina Hollingsworth|Tessa Homfray|Mervyn Humphreys|Jane Hurst|Ben Hutton|Stuart Ingram|Melita Irving|Lily Islam|Andrew Jackson|Joanna Jarvis|Lucy Jenkins|Diana Johnson|Elizabeth Jones|Dragana Josifova|Shelagh Joss|Beckie Kaemba|Sandra Kazembe|Rosemary Kelsell|Bronwyn Kerr|Helen Kingston|Usha Kini|Esther Kinning|Gail Kirby|Claire Kirk|Emma Kivuva|Alison Kraus|Dhavendra Kumar|V.K Ajith Kumar|Katherine Lachlan|Wayne Lam|Anne Lampe|Caroline Langman|Melissa Lees|Derek Lim|Cheryl Longman|Gordon Lowther|Sally A Lynch|Alex Magee|Eddy Maher|Alison Male|Sahar Mansour|Karen Marks|Katherine Martin|Una Maye|Emma McCann|Vivienne McConnell|Meriel McEntagart|Ruth McGowan|Kirsten McKay|Shane McKee|Dominic J McMullan|Susan McNerlan|Catherine McWilliam|Sarju Mehta|Kay Metcalfe|Anna Middleton|Zosia Miedzybrodzka|Emma Miles|Shehla Mohammed|Tara Montgomery|David Moore|Sian Morgan|Jenny Morton|Hood Mugalaasi|Victoria Murday|Helen Murphy|Swati Naik|Andrea Nemeth|Louise Nevitt|Ruth Newbury-Ecob|Andrew Norman|Rosie O'Shea|Caroline Ogilvie|Kai-Ren Ong|Soo-Mi Park|Michael J Parker|Chirag Patel|Joan Paterson|Stewart Payne|Daniel Perrett|Julie Phipps|Daniela T Pilz|Martin Pollard|Caroline Pottinger|Joanna Poulton|Norman Pratt|Katrina Prescott|Sue Price|Abigail Pridham|Annie Procter|Hellen Purnell|Oliver Quarrell|Nicola Ragge|Raheleh Rahbari|Josh Randall|Julia Rankin|Lucy Raymond|Debbie Rice|Leema Robert|Eileen Roberts|Jonathan Roberts|Paul Roberts|Gillian Roberts|Alison Ross|Elisabeth Rosser|Anand Saggar|Shalaka Samant|Julian Sampson|Richard Sandford|Ajoy Sarkar|Susann Schweiger|Richard Scott|Ingrid Scurr|Ann Selby|Anneke Seller|Cheryl Sequeira|Nora Shannon|Saba Sharif|Charles Shaw-Smith|Emma Shearing|Debbie Shears|Eamonn Sheridan|Ingrid Simonic|Roldan Singzon|Zara Skitt|Audrey Smith|Kath Smith|Sarah Smithson|Linda Sneddon|Miranda Splitt|Miranda Squires|Fiona Stewart|Helen Stewart|Volker Straub|Mohnish Suri|Vivienne Sutton|Ganesh Jawahar Swaminathan|Elizabeth Sweeney|Kate Tatton-Brown|Cat Taylor|Rohan Taylor|Mark Tein|I Karen Temple|Jenny Thomson|Marc Tischkowitz|Susan Tomkins|Audrey Torokwa|Becky Treacy|Claire Turner|Peter Turnpenny|Carolyn Tysoe|Anthony Vandersteen|Vinod Varghese|Pradeep Vasudevan|Parthiban Vijayarangakannan|Julie Vogt|Emma Wakeling|Sarah Wallwark|Jonathon Waters|Astrid Weber|Diana Wellesley|Margo Whiteford|Sara Widaa|Sarah Wilcox|Emily Wilkinson|Denise Williams|Nicola Williams|Louise Wilson|Geoff Woods|Christopher Wragg|Michael Wright|Laura Yates|Michael Yau|Chris Nellaker|Michael J Parker|Helen V Firth|Caroline F Wright|David R FitzPatrick|Jeffrey C Barrett|Matthew E Hurles Wellcome Trust Sanger Institute;|University of Edinburgh;|University of Oxford;|University Hospital Southampton;|St George's Healthcare NHS Trust;|University Hospital Of Wales;|Cambridge University Hospitals NHS Foundation Trust;|Sheffield Children's NHS Trust;|Central Manchester University Hospitals NHS Foundation Trust;|Great Ormond Street Hospital for Children NHS Foundation Trust;|NHS Grampian;|NHS Tayside;|Leeds Teaching Hospitals NHS Trust;|North West London Hospitals NHS Trust;|Oxford Radcliffe Hospitals NHS Trust;|Birmingham Women's NHS Foundation Trust;|Newcastle upon Tyne Hospitals NHS Foundation Trust;|Belfast Health and Social Care Trust;|Royal Devon and Exeter NHS Foundation Trust;|Guy's and St Thomas' NHS Foundation Trust;|University Hospitals of Leicester NHS Trust;|Nottingham University Hospitals NHS Trust;|NHS Greater Glasgow and Clyde;|University Hospitals Bristol NHS Foundation Trust;|Liverpool Women's NHS Foundation Trust;|Our Lady's Children's Hospital;|Glan Clwyd Hospital
http://dx.doi.org/10.1101/049908 2016-04-22 Cancer Biology CC BY Toxicity Management in CAR T cell therapy for B-ALL: Mathematical modelling as a new avenue for improvement. Shalla Hanson|David Robert Grimes|Jake P. Taylor-King|Benedikt Bauer|Pravnam I. Warman|Ziv Frankenstein|Artem Kaznatcheev|Michael J. Bonassar|Vincent L. Cannataro|Zeinab Y. Motawe|Ernesto A. B. F. Lima|Sungjune Kim|Marco L. Davila|Arturo Araujo Duke University, Université Pierre et Marie Curie, & INRIA;|University of Oxford;|University of Oxford & H. Lee Moffitt Cancer Center and Research Institute;|Max Planck Institute for Evolutionary Biology;|H. Lee Moffitt Cancer Center and Research Institute;|University of Florida;|University of South Florida College of Medicine;|The University of Texas at Austin
http://dx.doi.org/10.1101/049874 2016-04-22 Cancer Biology CC BY-NC-ND Using Ordinary Differential Equations to Explore Cancer-Immune Dynamics and Tumor Dormancy Kathleen Wilkie|Philip Hahnfeldt|Lynn Hlatky Center of Cancer Systems Biology
http://dx.doi.org/10.1101/049809 2016-04-22 Genomics CC BY The discovery potential of RNA processing profiles Amadis Pages|Ivan Dotu|Roderic Guigo|Eduardo Eyras Pompeu Fabra University;|IMIM - Hospital del Mar Medical Research Institute;|Centre for Genomic Regulation
http://dx.doi.org/10.1101/049825 2016-04-22 Biochemistry CC BY Htm1p-Pdi1p is a folding sensitive mannosidase that marks N-glycoproteins for ER-associated protein degradation Yi-Chang Liu|Danica Galonic Fujimori|Jonathan S. Weissman University of California, San Francisco
http://dx.doi.org/10.1101/044115 2016-04-22 Microbiology Wedding higher taxonomic ranks with metabolic signatures coded in prokaryotic genomes Gregorio Iraola|Hugo Naya Institut Pasteur Montevideo
http://dx.doi.org/10.1101/049072 2016-04-22 Cancer Biology CC BY-NC-ND Exploiting Homeostatic Repopulation to Increase DC Vaccine Efficacy in Multiple Myeloma Chandler Gatenbee|Nuria Folguera-Blasco|Charlie Daneils|Jill Gallaher|Russ Rockne|Casey Adams|Michael Nicholson|Eleni Maniati|John Kennedy|Kimberly Luddy|Frederick L. Locke|Mark Robertson-Tessi Department of Integrated Mathematical Oncology, Moffitt Cancer Center, Tampa, FL;|Centre de Recerca Matematica. Edifici C, Campus de Bellaterra, 08193 Bellaterra (Barcelona), Spain;|Department of Radiology, University of Cambridge, Addenbrooke Hospital, Cambridge, UK;|Department of Information Sciences, Division of Mathematical Oncology, City of Hope, Duarte, CA;|Department of Integrated Mathematical Oncology, Moffitt Canc;|School of Physics and Astronomy, University of Edinburgh, UK;|Barts Cancer Institute, Queen Mary University of London, London, UK;|Department of Cancer Imaging and Metabolism, Moffitt Cancer Center, Tampa, FL;|Department of Blood and Marrow Transplantation, Moffitt Cancer Center, Tampa, FL
http://dx.doi.org/10.1101/049643 2016-04-22 Evolutionary Biology CC BY-NC-ND Ground truthing tip-dating methods using fossil Canidae reveals major differences in performance Nicholas Joseph Matzke|April Wright The Australian National University;|Iowa State University
http://dx.doi.org/10.1101/049783 2016-04-22 Microbiology CC BY-ND The Pseudomonas aeruginosa PSL polysaccharide is a social but non-cheatable trait in biofilms Yasuhiko Irie|Aled Roberts|Kasper N Kragh|Vernita D Gordon|Jamie Hutchison|Rosalind J Allen|Gavin Melaugh|Thomas Bjarnsholt|Stuart A West|Stephen P Diggle Umea University;|Cardiff Metropolitan University;|University of Copenhagen;|University of Austin in Texas;|University of Edinburgh;|University of Oxford;|University of Nottingham
http://dx.doi.org/10.1101/049478 2016-04-22 Cancer Biology CC BY-NC-ND Inferring expressed genes by whole-genome sequencing of plasma DNA Peter Ulz|Gerhard G Thallinger|Martina Auer|Ricarda Graf|Karl Kashofer|Stephan W Jahn|Luca Abete|Gunda Pristauz|Edgar Petru|Jochen B Geigl|Ellen Heitzer|Michael R Speicher Institute of Human Genetics, Medical University of Graz, Graz, Austria;|Institute of Molecular Biotechnology, Graz University of Technology, Graz, Austria;|Institute of Pathology, Medical University of Graz, Graz, Austria;|Department of Obstetrics and Gynecology, Medical University of Graz, Graz, Austria
http://dx.doi.org/10.1101/049726 2016-04-22 Genetics CC BY-ND Epigenetic control of phenotypic plasticity in a filamentous fungus Neurospora crassa Ilkka Kronholm|Hanna Johannesson|Tarmo Ketola Dept. of Biological and Environmental Sciences, University of Jyväskylä;|Dept. of Organismal Biology, University of Uppsala;|Dept. of Biological and Environmental Sciences, University of Jyv??skyl??
http://dx.doi.org/10.1101/049767 2016-04-22 Evolutionary Biology CC BY-ND Different Evolutionary Paths to Complexity for Small and Large Populations of Digital Organisms Thomas LaBar|Christoph Adami Michigan State University
http://dx.doi.org/10.1101/049775 2016-04-22 Bioinformatics Fused regression for multi-source gene regulatory network inference Kari Y. Lam|Zachary M. Westrick|Christian Muller|Lionel Christiaen|Richard Bonneau NYU;|Simons Foundation;|NYU, Simons Foundation
http://dx.doi.org/10.1101/049700 2016-04-22 Neuroscience CC BY-NC-ND From what we perceive to what we remember: Characterizing representational dynamics of visual memorability Seyed-Mahdi Khaligh-Razavi|Wilma A. Bainbridge|Dimitrios Pantazis|Aude Oliva MIT
http://dx.doi.org/10.1101/049759 2016-04-22 Biochemistry The Higher Plant Plastid Complex I (NDH) is a Reversible Proton Pump that increases ATP production by Cyclic Electron Flow Around Photosystem I Deserah D Strand|Nicholas Fisher|David M. Kramer Michigan State University
http://dx.doi.org/10.1101/049791 2016-04-22 Neuroscience CC BY-NC Cytokine and Leukocyte Profiling Reveal Pro-Inflammatory and Autoimmune Features in Frontotemporal Dementia Patients Philipp A. Jaeger|Trisha M. Stan|Eva Czirr|Markus Britschgi|Daniela Berdnik|Ruo-Pan Huang|Bradley F. Boeve|Adam L. Boxer|NiCole Finch|Gabriela K. Fragiadakis|Neill R. Graff-Radford|Ruochun Huang|Hudson Johns|Anna Karydas|David S. Knopman|Michael Leipold|Holde T. Maecker|Zachary Miller|Ronald Petersen|Rosa Rademakers|Chung-Huan Sun|Steve Younkin|Bruce L. Miller|Tony Wyss-Coray Stanford University;|Ray Biotech, Inc.;|Mayo Clinic Rochester;|UCSF;|May Clinic Jacksonville;|Mayo Clinic Jacksonville;|RayBiotech, Inc.
http://dx.doi.org/10.1101/049734 2016-04-22 Genomics Fast, scalable and accurate differential expression analysis for single cells Debarka Sengupta|Nirmala Arul Rayan|Michelle Lim|Bing Lim|Shyam Prabhakar Genome Institute of Singapore
http://dx.doi.org/10.1101/049742 2016-04-22 Neuroscience CC BY-NC-ND HDAC inhibition protects degenerating cone photoreceptors in vivo Dragana Trifunovic|Blanca Arango-Gonzalez|Antonella Comitato|Melanie Barth|Ayse Sahaboglu|Eva del Amo|Manoj Kulkarni|Stefanie Hauck|Marius Ueffing|Arto Urtti|Yvan Arsenijevic|Marius Ueffing|Francois Paquet-Durand University of Tuebingen;|University of Modena and Reggio Emilia;|University of Eastern Finland;|Helmholtz Center Munich;|University of Helsinki;|Hopital Ophtalmique Jules Gonin
http://dx.doi.org/10.1101/049650 2016-04-21 Systems Biology Transplantation of Endothelial Progenitor Cells Solely Leads to Development of Functional Neo-vessels in vivo. Rokhsareh Rohban|Nathalie Etchart|Thomas Pieber Medical University of Graz
http://dx.doi.org/10.1101/049668 2016-04-21 Systems Biology Vasculogenesis Potential of Mesenchymal and Endothelial Stem Cells Isolated from Various Human Tissues. Rokhsareh Rohban|Nathalie Etchart|Thomas Pieber Medical University of Graz
http://dx.doi.org/10.1101/049528 2016-04-21 Systems Biology CC BY-NC-ND Transcriptional bursting explains the noise-versus-mean relationship in mRNA and protein levels Roy D. Dar|Sydney M. Schaffer|Siddarth S. Dey|Jonathan E. Foley|Abhyudai Singh|Brandon S. Razooky|Adam P. Arkin|David V. Schafer|Michael L. Simpson|Arjun Raj|Leor S. Weinberger University of Illinois at Urbana-Champaign;|Department of Bioengineering, University of Pennsylvania;|Hubrecht Institute-KNAW (Royal Netherlands Acad of Arts and Sciences) and Univ Medical Ctr Utrecht;|Gild, Inc., San Francisco, California;|University of Delaware;|Rockefeller University;|University of California, Berkeley;|Oak Ridge National Laboratory;|University of Pennsylvania;|Gladstone Institute (Virology and Immunology)
http://dx.doi.org/10.1101/049486 2016-04-21 Bioinformatics CC BY-NC Inferring intrinsic and extrinsic noise from a dual fluorescent reporter Erik van Nimwegen Biozentrum, University of Basel
http://dx.doi.org/10.1101/049635 2016-04-21 Genetics CC BY-NC-ND Mortality Selection in a Genetic Sample and Implications for Association Studies Benjamin W Domingue|Daniel W Belsky|Amal Harrati|Dalton Conley|David Weir|Jason Boardman Stanford University;|Duke Univesrity;|Princeton University;|University of Michigan;|University of Colorado Boulder
http://dx.doi.org/10.1101/049502 2016-04-20 Biophysics CC BY Noise Control In Gene Regulatory Networks With Negative Feedback Michael Hinczewski|Dave Thirumalai Case Western Reserve University;|University of Texas at Austin
http://dx.doi.org/10.1101/049577 2016-04-20 Evolutionary Biology Evolution of mating types driven by purifying selection against mitochondrial mutations Arunas L Radzvilavicius University College London
http://dx.doi.org/10.1101/049551 2016-04-20 Bioengineering CC BY-NC-ND Robust cell tracking in epithelial tissues through identification of maximum common subgraphs Jochen Kursawe|Remi Bardenet|Jeremiah J Zartman|Ruth E Baker|Alexander George Fletcher University of Oxford;|Université de Lille;|University of Notre Dame;|University of Sheffield
http://dx.doi.org/10.1101/044651 2016-04-20 Genetics CC BY-ND Adapterama IV: Sequence Capture of Dual-digest RADseq Libraries with Identifiable Duplicates (RADcap) Sandra Hoffberg|Troy J Kieran|Julian M Catchen|Alison Devault|Brant C Faircloth|Rodney Mauricio|Travis C Glenn Unversity of Georgia;|University of Georgia;|University of Illinios;|MycroArray;|Louisiana State University
http://dx.doi.org/10.1101/049452 2016-04-20 Scientific Communication CC BY-NC-ND The Prevalence of Inappropriate Image Duplication in Biomedical Research Publications Elisabeth M Bik|Arturo Casadevall|Ferric C Fang Stanford University;|Johns Hopkins School of Medicine;|University of Washington School of Medicine
http://dx.doi.org/10.1101/049593 2016-04-20 Evolutionary Biology CC BY-NC-ND Sanctions, partner recognition, and variation in mutualistic symbiosis Jeremy B Yoder|Peter Tiffin University of British Columbia;|University of Minnesota
http://dx.doi.org/10.1101/049437 2016-04-20 Cancer Biology Curvature Analysis of Estrogen Receptor Positive Breast Cancer Under PI3K Inhibition Romeil Sandhu|Eneda Toska|Maurizio Scaltriti|Jose Baselga|Joseph Deasy|Jung Hun Oh|Sarah Tannenbaum|Allen Tannenbaum Stony Brook Univesity;|Memorial Sloan Kettering Cancer Center;|Columbia University;|Stony Brook University
http://dx.doi.org/10.1101/049411 2016-04-20 Evolutionary Biology CC BY Estimating seven coefficients of pairwise relatedness using population genomic data Matthew Ackerman|Parul Johri|Ken Spitze|Thomas Doak|Kimberly Young|Michael Lynch|Sen Xu Indiana University: Bloomington, United States;|University of Windsor, United States
http://dx.doi.org/10.1101/049585 2016-04-20 Bioinformatics CC BY-NC-ND From Visual Exploration to Storytelling and Back Again Samuel Gratzl|Alexander Lex|Nils Gehlenborg|Nicola Cosgrove|Marc Streit Johannes Kepler University Linz;|University of Utah;|Harvard Medical School
http://dx.doi.org/10.1101/049619 2016-04-20 Genomics CC BY-NC FGMP: assessing fungal genome completeness and gene content Ousmane Hamadoun Cisse|Jason Eric Stajich National Institutes of Health;|University Of California, Riverside
http://dx.doi.org/10.1101/049395 2016-04-20 Microbiology First detection of Zika virus in neotropical primates in Brazil: a possible new reservoir. Silvana Favoretto|Danielle Araujo|Danielle Oliveira|Nayle Duarte|Flavio Mesquita|Paolo Zanotto|Edison Durigon Pasteur Institute of Sao Paulo, Brazil;|University of Sao Paulo, Brazil;|State Health Department - Ceara State, Brazil
http://dx.doi.org/10.1101/049403 2016-04-20 Bioengineering CC BY ExM-STORM: Expansion Single Molecule Nanoscopy Hu Cang|Zhisong Tong|Paolo Beuzer|Qing Ye|Josh Axelrod|Zhenmin Hong The Salk Institute for Biological Studies
http://dx.doi.org/10.1101/049429 2016-04-20 Neuroscience CC BY-ND Power and sample size calculations for fMRI studies based on the prevalence of active peaks. Joke Durnez|Jasper Degryse|Beatrijs Moerkerke|Ruth Seurinck|Vanessa Sochat|Russell Poldrack|Thomas Nichols Stanford University;|Ghent University;|University of Warwick
http://dx.doi.org/10.1101/049536 2016-04-20 Bioinformatics CC BY CNView: a visualization and annotation tool for copy number variation from whole-genome sequencing Ryan L Collins|Matthew R Stone|Harrison Brand|Joseph T Glessner|Michael E Talkowski Massachussetts General Hospital;|Massachusetts General Hospital
http://dx.doi.org/10.1101/049494 2016-04-20 Cell Biology CC BY-NC-ND CD44 Controls Endothelial Proliferation and Functions as Endogenous Inhibitor of Angiogenesis Anne Pink|Marianna Skolnaja|Taavi Paell|Andres Valkna Competence Centre for Cancer Research and Tallinn University of Technology
http://dx.doi.org/10.1101/049510 2016-04-20 Bioinformatics Temporal microbiome road-maps guided by perturbations Beatriz Garcia-Jimenez|Mark Wilkinson Center for Plant Biotechnology and Genomics (CBGP) UPM-INIA
http://dx.doi.org/10.1101/047894 2016-04-20 Genomics CC BY-NC-ND Promoter architecture and sex-specific gene expression in the microcrustacean Daphnia pulex revealed by large-scale profiling of 5'-mRNA ends R. Taylor Raborn|Ken Spitze|Volker P Brendel|Michael Lynch Indiana University at Bloomington
http://dx.doi.org/10.1101/049460 2016-04-20 Neuroscience CC BY-NC Local versus global effects of isoflurane anesthesia on visual processing in the fly brain Dror Cohen|Oressia H Zalucki|Bruno van Swinderen|Naotsugu Tsuchiya Monash University;|University of Queensland
http://dx.doi.org/10.1101/049387 2016-04-20 Ecology Remotely-sensed tornado signatures indicate an ecological threshold for eagle nest destruction Jeremy D Ross|Cheryl L Cavert|Lena C Larsson University of Oklahoma;|Bald Eagle Survey Team (BEST);|Sutton Avian Research Center
http://dx.doi.org/10.1101/049379 2016-04-19 Neuroscience Periodic actin structures in neuronal axons are required to maintain microtubules Yue Qu|Ines Hahn|Stephen Webb|Andreas Prokop The University of Manchester;|Rutherford Appleton Laboratory
http://dx.doi.org/10.1101/049338 2016-04-19 Bioinformatics CC BY Ten simple rules for managing high-throughput nucleotide sequencing data Rutger Aldo Vos Naturalis Biodiversity Center
http://dx.doi.org/10.1101/049353 2016-04-19 Evolutionary Biology CC BY-NC-ND Allele Surfing Promotes Microbial Adaptation from Standing Variation Matti Gralka|Fabian Stiewe|Fred Farrell|Wolfram Moebius|Bartlomiej Waclaw|Oskar Hallatschek Departments of Physics and Integrative Biology, University of California, Berkeley, CA 94720;|Max Planck Institute for Dynamics and Self-Organization, 37077 Göttingen, Germany;|SUPA, School of Physics and Astronomy, The University of Edinburgh, United Kingdom;|University of California, Berkeley
http://dx.doi.org/10.1101/049304 2016-04-19 Neuroscience CC BY-NC Nonsinusoidal oscillations underlie pathological phase-amplitude coupling in the motor cortex in Parkinson's disease Scott R Cole|Erik J Peterson|Roemer van der Meij|Coralie de Hemptinne|Philip A Starr|Bradley Voytek University of California, San Diego;|University of California, San Francisco
http://dx.doi.org/10.1101/049296 2016-04-19 Neuroscience CC BY Ocular Motoneuron Pools Develop Along a Dorsoventral Axis in Zebrafish, Danio rerio Marie R. Greaney|Ann E. Privorotskiy|Kristen P. D'Elia|David Schoppik NYU Langone Medical Center
http://dx.doi.org/10.1101/049312 2016-04-19 Cell Biology CC BY-NC-ND LEM2 and CHMP7 function in ESCRT-dependent nuclear envelope closure in yeast and human cells Mingyu Gu|Opal S Chen|Dollie Lajoie|Mark S Ladinsky|Michael J Redd|Linda Nikolova|Pamela J Bjorkman|Katharine S Ullman|Wesley I Sundquist|Adam Frost University of Utah;|Cal-Tech;|University of California, San Francisco
http://dx.doi.org/10.1101/049288 2016-04-19 Bioinformatics CC BY Impact of knowledge accumulation on pathway enrichment analysis Lina Wadi|Mona Meyer|Joel Weiser|Lincoln D Stein|Juri Reimand Ontario Institute for Cancer Research;|University of Toronto
http://dx.doi.org/10.1101/049346 2016-04-19 Developmental Biology Guided self-organization recapitulates tissue architecture in a bioengineered brain organoid model Madeline A Lancaster|Nina S Corsini|Thomas R Burkard|Juergen A Knoblich MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge, UK;|IMBA - Institute of Molecular Biotechnology of the Austrian Academy of Science Vienna 1030, Austria;|Institute of Molecular Biotechnology
http://dx.doi.org/10.1101/049320 2016-04-19 Genetics Cosmid based mutagenesis causes genetic instability in Streptomyces coelicolor, as shown by targeting of the lipoprotein signal peptidase gene John Tyson Munnoch|David A Widdick|Govind Chandra|Iain C Sutcliffe|Tracy Palmer|Matthew I Hutchings University of East Anglia;|John Innes Centre;|Northumbria University;|University of Dundee
http://dx.doi.org/10.1101/048504 2016-04-19 Genetics CC BY-NC-ND Using Y chromosomal haplogroups in genetic association studies and suggested implications A. Mesut Erzurumluoglu|Denis Baird|Tom G Richardson|Nicholas J Timpson|Santiago Rodriguez University of Bristol
http://dx.doi.org/10.1101/049247 2016-04-18 Systems Biology CC BY Metabolic signatures of birth weight in 18288 adolescents and adults Peter Wurtz|Qin Wang|Marjo Niironen|Tuulia Tynkkynen|Mika Tiainen|Fotios Drenos|Antti J Kangas|Pasi Soininen|Michael Skilton|Kauko Heikkila|Anneli Pouta|Mika Kahonen|Terho Lehtimaki|Richard J Rose|Eero Kajantie|Markus Perola|Jaakko Kaprio|Johan Eriksson|Olli Raitakari|Debbie A Lawlor|George Davey Smith|Marjo-Riitta Jarvelin|Mika Ala-Korpela|Kirsi Auro University of Oulu;|Finnish National Institute of Health and Welfare;|University of Eastern Finland;|University of Bristol;|University of Sydney;|University of Helsinki;|University of Tampere;|Indiana University;|University of Turku;|Imperial College London
http://dx.doi.org/10.1101/049239 2016-04-18 Genomics Robust generation of transgenic mice by hypotonic shock mediated transgene delivery in testicular germ cells Abul Usmani|Nirmalya Ganguli|Subodh Jain|Nilanjana Ganguli|Rajesh Kumar Sarkar|Mayank Choubey|Hironmoy Sarkar|Subeer Majumdar National Institute of Immunology;|Dr. H. S. Gour University
http://dx.doi.org/10.1101/049205 2016-04-18 Bioinformatics CC BY-NC-ND Omics Discovery Index - Discovering and Linking Public Omics Datasets Yasset Perez-Riverol|Mingze Bai|Felipe Leprevost|Silvano Squizzato|Young Mi Park|Ove Kenneth Haug|Adam J. Carroll|Dylan Spalding|Justin Paschall|Mingxun Wang|Noemi del-Toro|Tobias Ternent|Peng Zhang|Nicola Buso|Nuno Bandeira|Eric Deutsch|David S. Campbell|Ronald C. Beavis|Reza Salek|Alexey Nesvizhskii|Susanna-Assunta Sansone|Christoph Steinbeck|Rodrigo Lopez|Juan Antonio Vizcaino|Peipei Ping|Henning Hermjakob European Bioinformatics Institute (EMBL-EBI);|School of Bio-information, Chongqing University of Posts and Telecommunications, Chongqing, China;|Department of Pathology, University of Michigan, Ann Arbor, Michigan, 48109, USA;|Commonwealth Scientific and Industrial Research Organisation, Canberra, 0200, Australia;|Department of Computer Science and Engineering, University of California, San Diego, La Jolla, USA;|Institute for Systems Biology, Seattle, Washington, USA.;|Biochemistry & Medical Genetics, University of Manitoba, Winnipeg, R3T 2N2, Canada.;|Department of Pathology, University of Michigan, Ann Arbor, Michigan, 48109, USA.;|Oxford e-Research Centre, University of Oxford, 7 Keble Road, OX1 3QG, UK.;|Department of Physiology and Department of Medicine, Division of Cardiology, UCLA, California, USA
http://dx.doi.org/10.1101/049254 2016-04-18 Bioinformatics CC BY Heat*seq: an interactive web tool for high-throughput sequencing experiment comparison with public data Guillaume Devailly|Anna Mantsoki|Anagha Joshi The Roslin Institute, University of Edinburgh
http://dx.doi.org/10.1101/049221 2016-04-18 Cell Biology CC BY Membrane binding by CHMP7 coordinates ESCRT-III dependent nuclear envelope reformation Jeremy Carlton|Anna Perdrix|Yolanda Olmos King's College London
http://dx.doi.org/10.1101/049197 2016-04-18 Genomics Genomic evidence for adaptive evolution of the invasive Asian tiger mosquito towards temperate environment Clement Goubert|Helene Henri|Guillaume Minard|Claire Valiente Moro|Patrick Mavingui|Cristina Vieira|Matthieu Boulesteix UMR CNRS 5558 Laboratoire de Biometrie et de Biologie Evolutive;|UMR CNRS 5557 Ecologie Microbienne, Villeurbanne, France; INRA, UMR 1418
http://dx.doi.org/10.1101/049130 2016-04-18 Molecular Biology High-resolution interrogation of functional elements in the noncoding genome Neville E Sanjana|Jason Wright|Kaijie Zheng|Ophir Shalem|Pierre Fontanillas|Julia Joung|Christine Cheng|Aviv Regev|Feng Zhang NY Genome Center & NYU;|Broad Institute;|Broad Institute / Massachusetts Institute of Technology;|Broad Institute and MIT
http://dx.doi.org/10.1101/049064 2016-04-18 Biophysics CC BY Discrete step sizes of molecular motors lead to bimodal non-Gaussian velocity distributions under force Huong Vu|Shaon Chakrabarti|Michael Hinczewski|Dave Thirumalai University of Maryland;|Case Western Reserve University
http://dx.doi.org/10.1101/049163 2016-04-18 Genomics CC BY-NC-ND Mega-analysis of 31,396 individuals from 6 countries uncovers strong gene-environment interaction for human fertility Felix C Tropf|Renske M Verweij|Peter J van der Most|Gert Stulp|Andrew Bakshi|Daniel A Briley|Matthew Robinson|Anastasia Numan|Tonu Esko|Andres Metspalu|Sarah E. Medland|Nicholas G. Martin|Harold Snieder|S Hong Lee|Melinda C Mills University of Oxford;|University of Groningen;|London School of Hygiene and Tropical Medicine;|University of Queensland;|University of Illinois at Urbana-Champaign;|Karolinska Institutet;|Broad Institute of the Massachusetts Institute of Technology and Harvard University;|University of Tartu;|QIMR Berghofer Medical Research Institute;|University of New England
http://dx.doi.org/10.1101/049148 2016-04-18 Cell Biology Chm7 and Heh1 form a nuclear envelope subdomain for nuclear pore complex quality control Brant M Webster|David J Thaller|Jens Jaeger|Sarah E Ochmann|C. Patrick Lusk Yale School of Medicine
http://dx.doi.org/10.1101/049171 2016-04-18 Evolutionary Biology Did viruses evolve as a distinct supergroup from common ancestors of cells? Ajith Harish|Aare Abroi|Julian Gough|Charles Kurland Uppsala University;|Estonian Biocentre;|University of Bristol;|Lund University
http://dx.doi.org/10.1101/050922 2016-04-28 Evolutionary Biology Ecology, molecules and colour: Multivariate species delimitation and conservation of Harlequin poison frogs Andres Posso-Terranova|Jose Andres Abad University of Saskatchewan
http://dx.doi.org/10.1101/050807 2016-04-28 Genomics CC BY-NC-ND Global Genome Nucleotide Excision Repair is Organised into Domains Promoting Efficient DNA Repair in Chromatin Shirong Yu|Katie Ellen Evans|Patrick van Eijk|Mark Bennett|Richard M Webster|Matthew Leadbitter|Yumin Teng|Raymond Waters|Stephen Philip P Jackson|Simon Huw Reed Cardiff University, School of Medicine;|University of Cambridge, Wellcome Trust/Cancer Research UK Gurdon Institute
http://dx.doi.org/10.1101/050914 2016-04-28 Evolutionary Biology CC BY-NC-ND How life history can sway the fixation probability of mutants Xiang-Yi Li|Shun Kurokawa|Stefano Giaimo|Arne Traulsen Max Planck Institute for Evolutionary Biology;|Division of Natural Resource Economics, Graduate School of Agriculture, Kyoto University, Japan;|MPI Evolutionary Biology
http://dx.doi.org/10.1101/050773 2016-04-28 Evolutionary Biology CC BY-NC-ND Urbanization drives parallel adaptive clines in plant populations Ken A. Thompson|Marie Renaudin|Marc T.J. Johnson University of Toronto;|Agrosup Dijon;|University of Toronto Mississauga
http://dx.doi.org/10.1101/050724 2016-04-28 Bioinformatics CC BY-NC-ND A novel approach using increased taxon sampling reveals thousands of hidden orthologs in flatworms Jose M Martin-Duran|Joseph F Ryan|Bruno Cossermelli Cossermelli Vellutini|Kevin Pang|Andreas Hejnol Sars International Centre. University of Bergen;|Whitney Laboratory for Marine Bioscience;|University of Bergen
http://dx.doi.org/10.1101/050799 2016-04-28 Animal Behavior and Cognition Naïve chicks prefer hollow objects Elisabetta Versace|Jana Schill|Andrea Maria Nencini|Giorgio Vallortigara University of Trento;|Center for Mind/Brain Sciences, University of Trento (Italy)
http://dx.doi.org/10.1101/050823 2016-04-28 Bioinformatics CC BY A qualitative model of the rod photoreceptor in natural context Timothee T Dubuc|Etienne B Roesch University of Reading
http://dx.doi.org/10.1101/050732 2016-04-28 Systems Biology Inferring interaction partners from protein sequences Anne-Florence Bitbol|Robert S Dwyer|Lucy J Colwell|Ned S Wingreen Universite Pierre et Marie Curie;|Princeton University;|University of Cambridge
http://dx.doi.org/10.1101/050245 2016-04-28 Neuroscience CC BY-NC-ND Origin and modulation of the narrowband gamma oscillation in the mouse visual system Aman B Saleem|Anthony D Lien|Michael Krumin|Bilal Haider|Miroslav Roman Roson|Asli Ayaz|Kimberley Reinhold|Laura Busse|Matteo Carandini|Kenneth D Harris University College London;|University of San Diego, USA;|University College London, London, UK;|University of Tubingen, Germany;|University of Zurich, Switzerland
http://dx.doi.org/10.1101/050849 2016-04-28 Molecular Biology CC BY-ND Shh and ZRS enhancer co-localisation is specific to the zone of polarizing activity William Iain Williamson|Laura A Lettice|Robert Hill|Wendy A Bickmore University of Edinburgh
http://dx.doi.org/10.1101/050757 2016-04-28 Bioinformatics CC BY-NC Accurate classification of protein subcellular localization from high throughput microscopy images using deep learning Tanel Parnamaa|Leopold Parts University of Tartu;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/049940 2016-04-28 Genomics CC BY Whole genome sequencing identifies independent outbreaks of Shigellosis in 2010 and 2011 in La Pampa Province, Argentina Isabel Chinen|Marcelo Galas|Ezequiel Tuduri|Maria Rosa Vinas|Carolina Carbonari|Anabella Della Gaspera|Daniela Napoli|David M Aanensen|Silvia Argimon|Nicholas R Thomson|Darren Hughes|Stephen Baker|Caterina Guzman;Verri|Matthew TG Holden|Alejandra M Abdala|Lucia P Alvarez|Beatriz Alvez|Rosana Barros|Shirley Budall|Constanza Campano|Luciana S Chamosa|Paul Cheddie|Daniel Cisterna|Denise De Belder|Milena Dropa|David Durand|Alan Elena|Gustavo Fontecha|Claudia Huber|Ana Paula Lemos|Luciano Melli|Roxana Elizabeth Paul|Lesly Suarez|Julian Torres Flores|Josefina Campos Instituto Nacional de Enfermedades Infecciosas, ANLIS, Buenos Aires, Argentina;|Imperial College London, London, United Kingdom;|Centre for Genomic Pathogen Surveillance, Hinxton, Cambridge, United Kingdom;|The Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom;|The Wellcome Genome Campus Advanced Courses, Hinxton, Cambridge, United Kingdom;|The Hospital for Tropical Diseases, Wellcome Trust Major Overseas Programme, Oxford University Cl;|Universidad Nacional, 3000 Heredia, Costa Rica;|The University of St. Andrews, St. Andrews, Scotland;|National Institute for Agricultural Technology (INTA)CONICET, Argentina;|Universidad Central de Venezuela, Caracas, Venezuela;|Fluminense Federal University, Niterio, Brazil;|University of the West Indies, Mona Campus, Kingston, Jamaica;|Institute of Public Health of Chile, Santiago, Chile;|Universidad de Buenos Aires, Buenos Aires, Argentina;|University of Guyana, Georgetown, Guyana;|University of Sao Paulo, Sao Paulo, Brazil;|Universidad Peruana Cayetano Heredia, Lima, Peru;|Microbiology Research Institute, Universidad Nacional Autonoma de Honduras, Tegucigalpa, Honduras;|Laboratorio Central de Salud Publica, Asuncion, Paraguay;|Instituto Adolfo Lutz;|Universidad Nacional de San Martin, Buenos Aires, Argentina;|Malbran Institute;|Cayetano Heredia University, Lima, Peru
http://dx.doi.org/10.1101/050047 2016-04-28 Bioinformatics CC BY-NC Understanding properties of the master effector of phage shock operon in Mycobacterium tuberculosis via bioinformatics approach Zarrin Basharat|Azra Yasmin Fatima Jinnah Women University
http://dx.doi.org/10.1101/050179 2016-04-28 Evolutionary Biology CC BY No ′small genome attraction′ artifact: A response to Harish et al. ′Did viruses evolve as a distinct supergroup from common ancestors of cells?′ Arshan Nasir|Kyung Mo Kim|Gustavo Caetano-Anolles Department of Biosciences, COMSATS Institute of Information Technology;|Biological Resource Center, Korea Research Institute of Bioscience and Biotechnology;|Department of Crop Science, University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/050682 2016-04-28 Genomics CC BY-NC-ND Genome-wide analyses of empathy and systemizing: heritability and correlates with sex, education, and psychiatric risk Varun Warrier|Roberto Toro|Bhismadev Chakrabarti|Nadia Litterman|David Hinds|Thomas Bourgeron|Simon Baron-Cohen University of Cambridge;|Institut Pasteur;|University of Reading;|23andMe, Inc.
http://dx.doi.org/10.1101/050815 2016-04-28 Bioengineering CC BY-NC-ND Recombineering in C. elegans: genome editing using in vivo assembly of linear DNAs Alexandre Paix|Helen Schmidt|Geraldine Seydoux Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/050872 2016-04-28 Animal Behavior and Cognition Proportion of cocaine-coding neurons in the orbitofrontal cortex determines individual drug preferences Karine Guillem|Serge H Ahmed Universite de Bordeaux
http://dx.doi.org/10.1101/050658 2016-04-28 Microbiology CC BY-ND Localizing metabolic synthesis in microbial cultures with kinetic mass spectrometry imaging (kMSI) Katherine Louie|Benjamin Bowen|Rebecca Lau|Trent Northen Lawrence Berkeley National Laboratory / Joint Genome Institute;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/050625 2016-04-28 Genetics CC BY-NC-ND Origins and evolution of trans-splicing of bursicon in mosquitos Scott W Roy San Francisco State University
http://dx.doi.org/10.1101/049817 2016-04-28 Systems Biology CC BY Cell Painting, a high-content image-based assay for morphological profiling using multiplexed fluorescent dyes Mark-Anthony Bray|Shantanu Singh|Han Han|Chadwick T Davis|Blake Borgeson|Cathy Hartland|Maria Kost-Alimova|Sigrun M Gustafsdottir|Christopher C Gibson|Anne E Carpenter Imaging Platform, Broad Institute of Harvard and MIT, Cambridge USA;|Broad Institute of Harvard and MIT;|Recursion Pharmaceuticals
http://dx.doi.org/10.1101/050641 2016-04-27 Neuroscience Subiculum neurons map the current axis of travel Jacob M Olson|Kanyanat Tongprasearth|Douglas M Nitz University of California, San Diego
http://dx.doi.org/10.1101/050567 2016-04-27 Systems Biology CC BY Predicting Drug Synergy and Antagonism from Genetic Interaction Neighborhoods Jonathan H Young|Edward M Marcotte University of Texas at Austin
http://dx.doi.org/10.1101/050633 2016-04-27 Neuroscience Carbon nanotube electrodes for retinal implants: a study of structural and functional integration over time Cyril G Eleftheriou|Jonas B Zimmermann|Henrik D Kjeldsen|Moshe David-Pur|Yael Hanein|Evelyne Sernagor Newcasle University, Faculty of Medical Sciences, Institute of Neuroscience;|Tel-Aviv University, Dept of Electrical Engineering;|Newcastle University, Faculty of Medical Sciences
http://dx.doi.org/10.1101/050534 2016-04-27 Evolutionary Biology CC BY-NC Evolution of brain ontogenetic growth under ecological challenges Mauricio Gonzalez-Forero|Timm Faulwasser|Laurent Lehmann University of Lausanne;|Ecole Polytechnique Federale de Lausanne
http://dx.doi.org/10.1101/050526 2016-04-27 Neuroscience CC BY-NC Induction of Kanizsa contours requires awareness Theodora Banica|D. Sam Schwarzkopf UCL
http://dx.doi.org/10.1101/050559 2016-04-27 Bioinformatics CC BY MALT: Fast alignment and analysis of metagenomic DNA sequence data applied to the Tyrolean Iceman Alexander Herbig|Frank Maixner|Kirsten I. Bos|Albert Zink|Johannes Krause|Daniel H. Huson Max Planck Institute for the Science of Human History;|Institute for Mummies and the Iceman, European Academy of Bozen/Bolzano (EURAC), Bolzano, Italy;|Max Planck Institute for the Science of Human History, Jena, Germany;|Center for Bioinformatics, University of Tuebingen, Tuebingen, Germany
http://dx.doi.org/10.1101/050518 2016-04-27 Evolutionary Biology CC BY-NC-ND Nuclear and Plastid DNA Sequence-based Molecular Phylogeography of Salvadora oleoides (Salvadoraceae) in Punjab, India Felix Bast|Navreet Kaur Central University of Punjab
http://dx.doi.org/10.1101/050484 2016-04-27 Biophysics CC BY-NC Membrane tension is a key determinant of bud morphology in clathrin-mediated endocytosis Julian E. Hassinger|George Oster|David G. Drubin|Padmini Rangamani University of California, Berkeley;|University of California, San Diego
http://dx.doi.org/10.1101/050492 2016-04-27 Neuroscience CC BY-NC-ND Paradoxical signaling regulates structural plasticity in dendritic spines Padmini Rangamani|Michael G. Levy|Shahid M. Khan|George Oster UCSD;|University of California, Berkeley;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/050583 2016-04-27 Physiology CC BY-NC-ND Stay tuned: active amplification tunes tree cricket ears to track temperature-dependent song frequency Natasha Mhatre|Gerald Pollack|Andrew Mason University of Toronto at Scarborough
http://dx.doi.org/10.1101/050575 2016-04-27 Scientific Communication CC BY Is most published research really false? Jeffrey T Leek|Leah R Jager Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/050617 2016-04-27 Cell Biology CC BY-NC-ND Amyloid β-peptides interfere with mitochondrial preprotein import competence by a co-aggregation process Giovanna Cenini|Cornelia Rub|Michael Bruderek|Wolfgang Voos University of Bonn
http://dx.doi.org/10.1101/050476 2016-04-26 Cell Biology CC BY-NC-ND Ayurvedic Amalaki Rasayana promotes improved stress tolerance and thus has anti-aging effects in Drosophila melanogaster Vibha Dwivedi|Subhash C. Lakhotia Banaras Hindu University
http://dx.doi.org/10.1101/050450 2016-04-26 Neuroscience CC BY-NC Alpha Phase Dynamics Predict Age-Related Visual Working Memory Decline Tam Tran|Nicole C Hoffner|Sara C LaHue|Lisa Tseng|Bradley Voytek UCSD;|UC Berkeley
http://dx.doi.org/10.1101/050385 2016-04-26 Animal Behavior and Cognition CC BY-NC-ND Human infants' understanding of social imitation: Inferences of affiliation from third party observations Lindsey J Powell|Elizabeth S Spelke MIT;|Harvard University
http://dx.doi.org/10.1101/050369 2016-04-26 Plant Biology Different speciation types meet in a Mediterranean genus: the biogeographic history of Cymbalaria (Plantaginaceae) Pau Carnicero|Llorens Saez|Nuria Garcia-Jacas|Merce Galbany-Casals Universitat Autonoma de Barcelona;|Institut Botanic de Barcelona - CSIC
http://dx.doi.org/10.1101/050443 2016-04-26 Bioinformatics Charting Improvements in US Registry HLA Typing Ambiguity Using a Typing Resolution Score Vanja Paunic|Loren Gragert|Joel Schneider|Carlheinz Mueller|Martin Maiers National Marrow Donor Program;|Zentrales Knochenmarkspender Register fur Deutschland
http://dx.doi.org/10.1101/050468 2016-04-26 Biophysics CC BY A data acquisition and analysis pipeline for scanning angle interference microscopy Catherine B Carbone|Ronald D Vale|Nico Stuurman University of California, San Francisco;|University of California San Francisco
http://dx.doi.org/10.1101/050435 2016-04-26 Epidemiology Reconstructing contact network parameters from viral phylogenies Rosemary M McCloskey|Richard H Liang|Art FY Poon BC Centre for Excellence in HIV/AIDS;|BC Centre for Excellence in HIV/AIDS and Department of Medicine, University of British Columbia
http://dx.doi.org/10.1101/050211 2016-04-26 Bioinformatics Assessing the accuracy of Approximate Bayesian Computation approaches to infer epidemiological parameters from phylogenies Emma Saulnier|Samuel Alizon|Olivier Gascuel Universite de Montpellier;|CNRS;|CNRS et Insitut Pasteur
http://dx.doi.org/10.1101/050393 2016-04-26 Neuroscience Pan-retinal characterization of Light Responses from Ganglion Cells in the Developing Mouse Retina Gerrit Hilgen|Sahar Pirmoradian|Daniela Pamplona|Pierre Kornprobst|Bruno Cessac|Matthias H Hennig|Evelyne Sernagor Institute of Neuroscience, Newcastle University, Newcastle, UK;|Institute for Adaptive and Neural Computation, School of Informatics, University of Edinburgh, UK;|Inria, Neuromathcomp Team, 06902 Sophia Antipolis, France
http://dx.doi.org/10.1101/050419 2016-04-26 Genomics NGS-based assay for frequent newborn inherited diseases: from development to implementation Tamara Simakova|Anton Bragin|Maria Zaytseva|Carla Clemente|Magdalena Lewicka|Jose Machado|Jose Costa|Margaret Hughes|Christiane Hertz-Fowler|Nika Petrova|Alexander Polyakov|Rena Zinchenko|Elena Kondratyeva|Alexander Pavlov Parseq Lab Company, Saint Petersburg, Russia;|Stab Vida Company, Caparica, Portugal;|Institute of Molecular Pathology and Immunology (Ipatimup), University of Porto, Porto, Portugal;|Centre for Genomic Research University of Liverpool, Liverpool, United Kingdom;|Federal State Budgetary Institution Research Centre for Medical Genetics, Moscow, Russia
http://dx.doi.org/10.1101/050401 2016-04-26 Animal Behavior and Cognition Persistent vulnerability to relapse despite complete extinction of cocaine craving Paul Girardeau|Sylvia Navailles|Audrey Durand|Caroline Vouillac-Mendoza|Karine Guillem|Serge H Ahmed IMN /CNRS / Universite de Bordeaux;|IMN / CNRS / Universite de Bordeaux
http://dx.doi.org/10.1101/050377 2016-04-26 Genomics Recurrently deregulated lncRNAs associated with HCC tumorigenesis and metastasis revealed by genomic, epigenomic and transcriptomic profiling in paired primary tumor and PVTT samples Yang Yang|Lei Chen|Jin Gu|Hanshuo Zhang|Jiapei Yuan|Qiuyu Lian|Guishuai Lv|Siqi Wang|Yang Wu|Yu-Cheng T. Yang|Dongfang Wang|Yang Liu|Jing Tang|Guijuan Luo|Yang Li|Long Hu|Xinbao Sun|Dong Wang|Mingzhou Guo|Qiaoran Xi|Jianzhong Xi|Hongyang Wang|Michael Q. Zhang|Zhi John Lu Tsinghua University;|Eastern Hepatobiliary Surgery Institute;|Peking University;|Wuhan General Hospital of Guangzhou Command;|Chinese PLA General Hospital
http://dx.doi.org/10.1101/050427 2016-04-26 Plant Biology CC BY-NC-ND Arabidopsis cobra protein binds to glucan chains with higher affinity than to cellulose Nadav Sorek|Chris Somerville UC Berkeley
http://dx.doi.org/10.1101/050302 2016-04-26 Cell Biology CC BY-NC-ND Nano Random Forests to mine protein complexes and their relationships in quantitative proteomics data Luis F Montano-Gutierrez|Shinya Ohta|Georg Kustatscher|William C. Earnshaw|Juri Rappsilber University of Edinburgh;|Kochi University
http://dx.doi.org/10.1101/050310 2016-04-26 Immunology CC BY-NC-ND C19ORF66 is an Interferon-Stimulated Gene (ISG) which Inhibits Human Immunodeficiency Virus-1 Weidong Xiong|Deisy Contreras|Joseph Ignatius Irudayam|Ayub Ali|Otto O Yang|Vaithilingaraja Arumugaswami Cedars-Sinai Medical Center;|University of California at Los Angeles;|University of California at Los Angeles, Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/050328 2016-04-26 Microbiology CC BY-NC-ND Genetic and chemical differentiation of Campylobacter coli and Campylobacter jejuni lipooligosaccharide pathways Alejandra Culebro|Joana Revez|Ben Pascoe|Yasmin Friedmann|Matthew D Hitchings|Jacek Stupak|Samuel K Sheppard|Jianjun Li|Mirko Rossi University of Helsinki;|Swansea University;|National Research Council
http://dx.doi.org/10.1101/050229 2016-04-26 Microbiology CC BY-ND The fitness burden imposed by synthesizing quorum sensing signals Avika Ruparell|Jean Frederic Dubern|Cartherine A Ortori|Freya Harrison|Nigel M Halliday|Abigail Emtage|Mahmoud Ashawesh|Charles A Laughton|Steve Diggle|Paul Williams|David A Barrett|Kim Rachael Hardie University of Nottingham
http://dx.doi.org/10.1101/050286 2016-04-26 Biochemistry CC BY-NC-ND Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta Ray Yu-Ruei Wang|Yifan Song|Benjamin Barad|Yifan Cheng|James Fraser|Frank DiMaio University of California, San Francisco;|University of Washington
http://dx.doi.org/10.1101/050187 2016-04-26 Cancer Biology CC BY-NC-ND Pan-cancer analysis of the metabolic reaction network Francesco Gatto|Jens Nielsen Chalmers University of Technology
http://dx.doi.org/10.1101/049718 2016-04-26 Neuroscience CC BY-NC-ND Two frequency bands contain the most stimulus-related information in visual cortex Christopher M Lewis|Conrado A Bosman|Nicolas M Brunet|Bruss Lima|Mark J. Roberts|Thilo Womelsdorf|Peter de Weerd|Sergio Neuenschwander|Wolf Singer|Pascal Fries Ernst Struengmann Institute (ESI) for Neuroscience;|University of Amsterdam;|Donders Institute for Brain, Cognition and Behaviour;|Max Planck Institute for Brain Research;|Maastricht University;|Brain Institute, Federal Univesity of Rio Grande do Norte
http://dx.doi.org/10.1101/050252 2016-04-26 Evolutionary Biology Convergent evolution of sperm gigantism and the developmental origins of sperm size variability in Caenorhabditis nematodes Anne Vielle|Nicolas Callemeyn-Torre|Clotilde Gimond|Nausicaa Poullet|Jeremy C Gray|Asher D Cutter|Christian Braendle CNRS;|University of Toronto
http://dx.doi.org/10.1101/050278 2016-04-26 Microbiology CC BY-NC-ND Comparative analysis of protein evolution and RNA structural changes in the genome of pre-epidemic and epidemic Zika virus Arunachalam Ramaiah|Lei Dai|Deisy Contreras|Sanjeev Sinha|Ren Sun|Vaithilingaraja Arumugaswami Indian Institute of Science;|University of California at Los Angeles;|Cedars-Sinai Medical Center;|All India Institute of Medical Sciences;|University of California at Los Angeles; Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/050112 2016-04-25 Immunology CC BY-NC-ND Dengue Virus Antibodies Enhance Zika Virus Infection Lauren M Paul|Eric R Carlin|Meagan M Jenkins|Amanda L Tan|Carolyn M Barcellona|Cindo O Nicholson|Lydie Trautmann|Scott F Michael|Sharon Isern Florida Gulf Coast University;|Walter Reed Army Institute of Research
http://dx.doi.org/10.1101/050138 2016-04-25 Bioinformatics CC BY-ND Integrated Biomedical System Darrell O. Ricke|James Harper|Anna Shcherbina|Nelson Chiu MIT Lincoln Laboratory
http://dx.doi.org/10.1101/050237 2016-04-25 Microbiology CC BY Longitudinal assessment of sputum microbiome by sequencing of the 16S rRNA gene in non-CF bronchiectasis patients Michael J Cox|Elena M Turek|Catherine Hennessy|Ghazala K Mirza|Phillip L James|Meg Coleman|Andrew Jones|Robert Wilson|Diana Bilton|William O C M Cookson|Miriam F Moffatt|Michael Loebinger Imperial College London;|Royal Brompton Hospital
http://dx.doi.org/10.1101/050146 2016-04-25 Systems Biology CC BY-NC Chromatin structure shapes the search process of transcription factors Neslihan Avcu|Nacho Molina University of Edinburgh
http://dx.doi.org/10.1101/050203 2016-04-25 Genomics CC BY-NC-ND The rate and effect of de novo mutations in natural populations of Arabidopsis thaliana Moises Exposito-Alonso|Claude Becker|Verena J. Schuenemann|Ella Reitter|Claudia Setzer|Radka Slovak|Benjamin Brachi|Joerg Hagmann|Dominik G. Grimm|Chen Jiahui|Wolfgang Busch|Joy Bergelson|Rob W. Ness|Johannes Krause|Hernan A. Burbano|Detlef Weigel Dept. of Molecular Biology, Max Planck Institute for Developmental Biology, 72076 Tuebingen, Germany;|Institute of Archaeological Sciences, University of Tuebingen, 72070 Tuebingen, Germany;|Gergor Mendel Institute, Austrian Academy of Sciences, 1030 Vienna, Austria;|Department of Ecology and Evolution, University of Chicago, Chicago, Illinois 60637, USA;|Department of Biology, University of Toronto Mississauga, Mississauga, Ontario L5L IC6, Canada;|Max Planck Institute for the Science of Human History, 07743 Jena, Germany
http://dx.doi.org/10.1101/049627 2016-04-25 Genetics CC BY Predictability of Genetic Interactions from Functional Gene Modules Jonathan H Young|Edward M Marcotte University of Texas at Austin
http://dx.doi.org/10.1101/049932 2016-04-25 Bioinformatics CC BY-NC Annotation Regression for Genome-Wide Association Studies with an Application to Psychiatric Genomic Consortium Data Sunyoung Shin|Sunduz Keles University of Wisconsin Madison;|University of Wisconsin, Madison
http://dx.doi.org/10.1101/050096 2016-04-25 Genomics CC BY-NC-ND Population Genetic Analysis of the DARC Locus (Duffy) Reveals Adaptation from Standing Variation Associated with Malaria Resistance in Humans Kimberly F. McManus|Angela Taravella|Brenna Henn|Carlos D. Bustamante|Martin Sikora|Omar E. Cornejo Stanford University;|Stony Brook University;|Centre for Geogenetics, Natural History Museum Denmark;|Washington State University
http://dx.doi.org/10.1101/050989 2016-04-29 Molecular Biology RsrR: a novel redox sensitive Rrf2 family transcription factor in Streptomyces venezuelae John Tyson Munnoch|Ma Teresa Pellicer Martinez|Dimitri Svistunenko|Jason C Crack|Nick E Le Brun|Matthew I Hutchings University of East Anglia;|University of Essex
http://dx.doi.org/10.1101/051110 2016-04-29 Genomics CC BY-NC-ND Uncovering the genomic basis of local adaptation by coherent synthesis of associations with phenotypes and home environments Jesse Lasky|Matthew Reimherr Penn State, United States
http://dx.doi.org/10.1101/051102 2016-04-29 Neuroscience CC BY-NC-ND Reduced spatial integration in the ventral visual cortex underlies face recognition deficits in developmental prosopagnosia Nathaniel Witthoft|Sonia Poltoratski|Mai Nguyen|Golijeh Golarai|Alina Liberman|Karen F LaRocque|Mary E Smith|Kalanit Grill-Spector Stanford University;|Vanderbilt University;|Princeton University;|University of California, Berkeley;|University of California, San Diego
http://dx.doi.org/10.1101/050674 2016-04-29 Developmental Biology CC BY-ND Zika Fetal Neuropathogenesis: Etiology of a Viral Syndrome Robert W Malone|Zachary Klase|Svetlana Khakhina|Michael V Callahan|Jill Glasspool-Malone|Adriano De Bernardi Schneider Atheric Pharmaceutical;|University of the Sciences;|Department of Medicine, Division of Infectious Diseases, Massachusetts General Hospital;|University of North Carolina
http://dx.doi.org/10.1101/051086 2016-04-29 Animal Behavior and Cognition Serotonin-dependent kinetics of bursts of feeding underlie a graded response to food availability Kyung Suk Lee|Shachar Iwanir|Ronen Kopito|Monika Scholz|David Biron|Erel Levine Department of Physics and Center for Systems Biology, Harvard University, Cambridge, MA 02138;|Department of Physics and the James Franck Institute, The University of Chicago, Chicago, IL 60637
http://dx.doi.org/10.1101/051078 2016-04-29 Genetics CC BY-NC-ND Demographic and immune-based selection shifts before and after European contact inferred from 50 ancient and modern exomes from the Northwest Coast of North America John Lindo|Emilia Huerta-Sanchez|Shigeki Nakagome|Morten Rasmussen|Barbara Petzelt|Joycellyn Mitchell|Jerome S Cybulski|Eske Willerslev|Michael DeGiorgio|Ripan S Malhi University of Chicago;|University of California at Merced;|Stanford University;|Metlakatla Treaty Office;|Canadian Museum of History;|Centre for GeoGenetics, Natural History Museum of Denmark;|Pennsylvania State University;|University of Illinois at Champaign-Urbana
http://dx.doi.org/10.1101/051045 2016-04-29 Physiology CC BY-ND How strongly does appetite counter weight loss? Quantification of the homeostatic control of human energy intake David Polidori|Arjun Sanghvi|Randy Seeley|Kevin D Hall Janssen Research & Development, LLC.;|NIDDK/NIH;|University of Michigan;|National Institutes of Health
http://dx.doi.org/10.1101/050997 2016-04-29 Microbiology CC BY-ND Soil Protists in Three Neotropical Rainforests are Hyperdiverse and Dominated by Parasites Frederic Mahe|Colomban de Vargas|David Bass|Lucas Czech|Alexandros Stamatakis|Enrique Lara|Jordan Mayor|John Bunge|Sarah Sernaker|Tobias Siemensmeyer|Isabelle Trautmann|Sarah Romac|Cedric Berney|Alexey Kozlov|Edward Mitchell|Christophe Seppey|David Singer|Elianne Egge|Rainer Wirth|Gabriel Trueba|Micah Dunthorn University of Kaiserslautern;|Station Biologique de Roscoff;|The Natural History Museum London;|Heidelberg Institute for Theoretical Studies;|HITS gGmbH;|Universite de Neuchatel;|Swedish University of Agricultural Sciences;|Cornell University;|University of Oslo;|Universidad San Francisco de Quito
http://dx.doi.org/10.1101/051029 2016-04-29 Neuroscience CC BY-NC-ND Artefactual origin of biphasic cortical spike-LFP correlation Michael Okun University College London
http://dx.doi.org/10.1101/051037 2016-04-29 Microbiology Origin of modern syphilis and emergence of a contemporary pandemic cluster Natasha Arora|Verena J. J Schuenemann|Gunter Jager|Alexander Peltzer|Alexander Seitz|Alexander Herbig|Michal Strouhal|Linda Grillova|Leonor Sanchez-Buso|Denise Kuhnert|Kirsten I. I Bos|Leyla Rivero Rivero Davis|Lenka Mikalova|Sylvia Bruisten|Peter Komericki|Patrick French|Paul R. R Grant|Maria A Pando|Lucia Gallo Vaulet|Marcelo Rodriguez-Fermepin|Antonio Martinez|Arturo Centurion-Lara|Lorenzo Giacani|Steven J. J Norris|David Smajs|Philipp P. P Bosshard|Fernando Gonzalez-Candelas|Kay Nieselt|Johannes Krause|Homayoun C. C Bagheri IEU/ZIFM, University of Zurich;|Institute for Archaeological Sciences, University of Tubingen, Tubingen, Germany.;|Center for Bioinformatics, University of Tubingen, Tubingen, Germany.;|Department of Biology, Faculty of Medicine, Masaryk University, Brno, Czech Republic.;|Department of Biology, Faculty of Medicine, Masaryk University, Brno, Czech Republic;|Unidad Mixta Infeccióon y Salud Pública FISABIO/Universidad de Valencia;|Institute of Integrative Biology, Department of Environmental Systems Science, ETH Zurich;|Institute for Archaeological Sciences, University of Tubingen, Germany.;|IEU, University of Zurich;|Public Health Laboratory, GGD Amsterdam, Department of Infectious Diseases, Amsterdam, Netherlands;|Department of Dermatology, Medical University of Graz, Graz, Austria.;|The Mortimer Market Centre CNWL, Camden Provider Services, UK;|Department of Clinical Microbiology and Virology, University College London Hospitals NHS Fdn;|Instituto de Investigaciones Biomedicas en Retrovirus y SIDA, Universidad de Buenos Aires;|Universidad de Buenos Aires, Microbiologia Clinica;|Servicio de Dermatologia. Hospital General Universitario de Valencia.;|University of Washington, Department of Medicine, Division of Allergy and Infectious Diseases;|Department of Pathology and Laboratory Medicine, UTHealth McGovern Medical School, Houston, TX USA.;|Department of Dermatology, University Hospital of Zurich, Zurich, Switzerland.
http://dx.doi.org/10.1101/050880 2016-04-29 Genomics LINES between species: Evolutionary dynamics of LINE-1 retrotransposons across the eukaryotic tree of life Atma M Ivancevic|R Daniel Kortschak|Terry Bertozzi|David L Adelson The University of Adelaide;|South Australian Museum
http://dx.doi.org/10.1101/050948 2016-04-29 Molecular Biology Neighborhood regulation by lncRNA promoters, transcription, and splicing Jesse M Engreitz|Jenna E Haines|Glen Munson|Jenny Chen|Elizabeth M Perez|Michael Kane|Patrick E McDonel|Mitchell Guttman|Eric S Lander Broad Institute of Harvard and MIT;|California Institute of Technology
http://dx.doi.org/10.1101/050708 2016-04-29 Bioinformatics CC BY-NC-ND Graph analysis of structural brain networks in Alzheimer's disease Majnu John|Toshikazu Ikuta|Janina D Ferbinteanu Feinstein Institute for Medical Research, North Shore-LIJ;|University of Mississipi;|SUNY Downstate Medical Center
http://dx.doi.org/10.1101/050955 2016-04-29 Genetics Efficiency of genome-wide association study in open-pollinated populations Jose Marcelo Soriano Viana|Gabriel Borges Mundim|Fabyano Fonseca Silva|Antonio Augusto F Garcia Federal University of Viçosa;|University of São Paulo
http://dx.doi.org/10.1101/050831 2016-04-29 Evolutionary Biology CC BY-ND Evolutionary mysteries in meiosis. Thomas Lenormand|Jan Engelstadter|Susan E Johnston|Erik Wijnker|Christoph R Haag Centre d'Ecologie Fonctionnelle et Evolutive (CEFE), CNRS, Montpellier;|School of Biological Sciences, The University of Queensland;|University of Edinburgh;|Laboratory of Genetics, Wageningen University
http://dx.doi.org/10.1101/050740 2016-04-29 Microbiology CC BY-NC-ND Complex molecular mixtures under cycling gradients as basis for lifes origins Bert Poolman|Jan Spitzer University of Groningen;|Mallard Creek Polymers
http://dx.doi.org/10.1101/050062 2016-04-29 Ecology Effects of elevated CO2 on predator avoidance behaviour by reef fishes is not altered by experimental test water Philip Munday|Megan Welch|Bridie Allan|Sue-Ann Watson|Shannon McMahon|Mark I McCormick James Cook University
http://dx.doi.org/10.1101/051169 2016-05-01 Genetics QTL mapping reveals complex genetic architecture of quantitative virulence in the wheat pathogen Zymoseptoria tritici. Ethan L. Stewart|Daniel Croll|Mark H. Lendenmann|Andrea Sanchez-Vallet|Fanny E. Hartmann|Javier Palma-Guerrero|Xin Ma|Bruce McDonald Plant Pathology Group, ETH Zürich, Universitatstrasse 2, 8092, Zürich, Switzerland;|ETH Zurich
http://dx.doi.org/10.1101/051235 2016-05-01 Ecology Higher fungal diversity in dead wood is correlated with lower CO2 emissions in a natural forest Yahan Yang|Douglas A. Schaefer|Weijie Liu|Viorel D. Popescu|Chenxue Yang|Xiaoyang Wang|Chunying Wu|Douglas W. Yu Kunming Institute of Zoology;|Xishuangbanna Tropical Botanical Garden
http://dx.doi.org/10.1101/051177 2016-04-30 Cancer Biology Genomics of primary chemoresistance and remission induction failure in pediatric and adult acute myeloid leukemia Fiona C Brown|Paolo Cifani|Esther Drill|Jie He|Eric Still|Shan Zhong|Sohail Balasubramanian|Dean Pavlick|Bahar Yilmazel|Kristina M Knapp|Todd A Alonzo|Soheil Meshinchi|Richard M Stone|Steven M Kornblau|Guido Marcucci|Alan S Gamis|John C Byrd|Mithat Gonen|Ross L Levine|Alex Kentsis MSKCC;|Foundation Medicine;|Children's Oncology Group;|DFCI;|MDACC;|City of Hope Comprehensive Cancer Center;|Ohio State University
http://dx.doi.org/10.1101/051185 2016-04-30 Microbiology CC BY-ND Large-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions Colin W. Brown|Viswanadham Sridhara|Daniel R. Boutz|Maria D. Person|Edward M. Marcotte|Jeffrey E. Barrick|Claus Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/050054 2016-04-30 Developmental Biology CC BY-NC A plastic vegetative growth threshold governs reproductive capacity in Aspergillus nidulans Luke M Noble|Linda M Holland|Alisha J McLachlan|Alex Andrianopoulos NYU Center for Genomics and Systems Biology;|School of Biomolecular and Biomedical Science, Conway Institute, University College Dublin, Belfield;|Genetics, Genomics & Development, School of BioSciences, University of Melbourne, Victoria 3010, Aus
http://dx.doi.org/10.1101/051151 2016-04-30 Evolutionary Biology Wheat blast disease caused by Pyricularia graminis-tritici sp. nov. V.L. Castroagudin|S.I. Moreira|D.A.S. Pereira|S.S. Moreira|P.C. Brunner|J.L.N. Maciel|P.W. Crous|Bruce McDonald|E. Alves|P.C. Ceresini Department of Phytopathology, Rural Engineering, and Soil Science (DEFERS), University of Sao Paulo;|Department of Phytopathology, Federal University of Lavras, Lavras, Minas Gerais, Brazil.;|Plant Pathology Group, Institute of Integrative Biology, ETH Zürich, Zürich, Switzerland;|Brazilian Agriculture Research Corporation-Wheat (EMBRAPA-Trigo), Passo Fundo, Rio Grande do Sul, Br;|CBS-KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands.;|ETH Zurich
http://dx.doi.org/10.1101/051136 2016-04-30 Biochemistry CC BY-ND On the validity and errors of the pseudo-first-order kinetics in ligand-receptor binding Wylie Stroberg|Santiago Schnell University of Michigan Medical School
http://dx.doi.org/10.1101/051052 2016-04-29 Molecular Biology CC BY-NC-ND Genomic positional conservation identifies topological anchor point (tap)RNAs linked to developmental loci Paulo P Amaral|Tommaso Leonardi|Namshik Han|Emmanuelle Vire|Dennis K Gascoigne|Raul Arias-Carrasco|Magdalena Buscher|Anda Zhang|Stefano Pluchino|Vinicius Maracaja-Coutinho|Helder I Nakaya|Martin Hemberg|Ramin Shiekhattar|Anton J Enright|Tony Kouzarides The Gurdon Institute, University of Cambridge;|EMBL-European Bioinformatics Institute;|Centro de Genomica y Bioinformatica, Facultad de Ciencias, Universidad Mayor;|University of Miami Miller School of Medicine, Sylvester Comprehensive Cancer Center;|Wellcome Trust-Medical Research Council Stem Cell Institute, University of Cambridge;|School of Pharmaceutical Sciences, University of Sao Paulo;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/050930 2016-04-29 Genetics CC BY-ND Homeostatic responses regulate selfish mitochondrial genome dynamics in C. elegans Bryan L Gitschlag|Cait S Kirby|David C Samuels|Rama D Gangula|Simon A Mallal|Maulik R Patel Vanderbilt University
http://dx.doi.org/10.1101/051409 2016-05-02 Bioinformatics CC BY A Graph Extension of the Positional Burrows-Wheeler Transform and its Applications Adam M Novak|Erik Garrison|Benedict Paten UC Santa Cruz Genomics Institute;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/051458 2016-05-02 Bioinformatics Multi-ethnic polygenic risk scores improve risk prediction in diverse populations. Carla Marquez-Luna|Alkes L. Price Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/051425 2016-05-02 Biochemistry Sub-atomic resolution X-ray diffraction of the SH3 domain from the post-synaptic density protein Shank3 Srinivas Kumar Ponna|Matti Myllykoski|Tobias M Boeckers|Petri Kursula University of Oulu;|University of Ulm;|University of Bergen
http://dx.doi.org/10.1101/051391 2016-05-02 Microbiology CC BY-NC-ND P2Y2 purinergic receptor is induced following human cytomegalovirus infection and its activity is required for efficient viral replication Saisai Chen|Thomas Shenk|Maciej T Nogalski Princeton University
http://dx.doi.org/10.1101/051342 2016-05-02 Genomics Optimizing multiplex CRISPR/Cas9-based genome editing for wheat Wei Wang|Alina Akhunova|Shiaoman Chao|Eduard Akhunov Kansas State University;|USDA-ARS Cereal Crops Research Unit
http://dx.doi.org/10.1101/051292 2016-05-02 Genomics CC BY Probing the mechanisms of intron creation in a fast-evolving mite Scott W Roy San Francisco State University
http://dx.doi.org/10.1101/051375 2016-05-02 Genetics CC BY-ND SPATIALLY EXPLICIT MODELS TO INVESTIGATE GEOGRAPHIC PATTERNS IN THE DISTRIBUTION OF FORENSIC STRs Francesco Messina|Andrea Finocchio|Nejat Akar|Aphrodite Loutradis|Emmanuel I. Michalodimitrakis|Radim Brdicka|Carla Jodice|Andrea Novelletto Department of Biology, University “Tor Vergata”;|Pediatrics Department, TOBB-Economy and Technology University Hospital, Ankara, Turkey;|National Center for Thalassemias, Athens, Greece;|Department of Forensic Sciences, University of Crete School of Medicine, Heraklion, Crete, Greece;|Institute of Hematology and Blood Transfusion, Praha, Czech Republic
http://dx.doi.org/10.1101/051367 2016-05-02 Zoology CC BY Description of a new genus of primitive ants from Canadian amber, with the study of relationships between crown ants and stem ants (Hymenoptera: Formicidae) Leonid Borysenko Canadian National Collection of Insects, Arachnids and Nematodes
http://dx.doi.org/10.1101/051318 2016-05-02 Neuroscience CC BY Generating an Executable Model of the Drosophila Central Complex Lev E Givon|Aurel A Lazar Columbia University
http://dx.doi.org/10.1101/051300 2016-05-02 Neuroscience CC BY Systematic exploration of unsupervised methods for mapping behavior Jeremy G Todd|Jamey S Kain|Benjamin de Bivort Harvard University
http://dx.doi.org/10.1101/051268 2016-05-02 Microbiology Chloroquine inhibits Zika Virus infection in different cellular models Rodrigo Delvecchio|Luiza M Higa|Paula Pezzuto|Ana Luiza Valadao|Patricia P Garcez|Fabio L Monteiro|Erick C Loiola|Stevens Rehen|Loraine Campanati|Renato Santana de Aguiar|Amilcar Tanuri Genetics Department, Institute of Biology, Federal University of Rio de Janeiro, RJ, Brazil;|Institute of Biomedical Sciences, Federal University of Rio de Janeiro, Rio de Janeiro, Brazil;|D'Or Institute for Research and Education (IDOR), Rio de Janeiro, Brazil.;|Institute of Biomedical Sciences, Federal University of Rio de Janeiro, Rio de Janeiro, Brazil.
http://dx.doi.org/10.1101/051359 2016-05-02 Genetics CC BY-NC-ND Transcriptome Analysis Reveals Skin Lipid Metabolism Related to Wool Diameter in Sheep Shao yin FU|Yun Xia QI|Xiao long HE|Lai DA|Biao WANG|Rigele TE|Jiang hong WU|Ding YANG|Yong bin LIU|Weng guang ZHANG Inner Mongolia Academy of Agricultural & Animal Husbandry Sciences, China;|Inner Mongolia Prataculture Research Center, Chinese Academy of Science, China;|College of Animal Science, Inner Mongolia Agricultural University, China
http://dx.doi.org/10.1101/051193 2016-05-02 Neuroscience CC BY-NC-ND CRISPR-Cas9 targeted deletion of the C9orf72 repeat expansion mutation corrects cellular phenotypes in patient-derived iPS cells Mochtar Pribadi|Zhongan Yang|Tanya S Kim|Elliot W Swartz|Alden Y Huang|Jason A Chen|Deepika Dokuru|Jaeyun Baek|Fuying Gao|Andrea T Fua|Kevin Wojta|Qing Wang|Ed Lezcano|Stephanie Ng|Farid F Chehab|Anna Karydas|Jamie Fong|Harry V Vinters|Bruce L Miller|Giovanni Coppola University of California Los Angeles;|University of California San Francisco
http://dx.doi.org/10.1101/051243 2016-05-02 Animal Behavior and Cognition CC BY-NC-ND A scalable method for automatically measuring pharyngeal pumping in C. elegans Monika Scholz|Dylan J Lynch|Kyung Suk Lee|Erel Levine|David Biron Department of Physics and the James Franck Institute, The University of Chicago, Chicago, IL 60637;|Department of Chemical Engineering, University of Illinois at Chicago, Chicago, Illinois 60607;|Department of Physics and Center for Systems Biology, Harvard University, Cambridge, MA 02138
http://dx.doi.org/10.1101/051276 2016-05-02 Genetics CC BY The genetic basis of natural variation in C. elegans telomere length Daniel E Cook|Stefan Zdraljevic|Robyn E Tanny|Beomseok Seo|David Riccardi|Luke M Noble|Matthew V Rockman|Mark Alkema|Christian Braendle|Jan Kammenga|John Wang|Leonid Kruglyak|Marie-Anne Felix|Junho Lee|Erik Andersen Northwestern University, United States;|Seoul National University, United States;|New York University, United States;|University of Massachusetts, Korea, Republic of;|Univ. Nice Sophia Antipolis, United States;|Wageningen University, United States;|Academia Sinica, United States;|UCLA, United States;|ENS, France
http://dx.doi.org/10.1101/051201 2016-05-02 Bioinformatics CC BY-NC Eliminating redundancy among protein sequences using submodular optimization Maxwell W Libbrecht|Jeffrey A Bilmes|William Stafford Noble University of Washington
http://dx.doi.org/10.1101/051060 2016-05-02 Epidemiology Risk estimates for microcephaly related to Zika virus infection - from French Polynesia to Bahia, Brazil Michael A Johansson|Luis Mier-y-Teran-Romero|Jennita Reefhuis|Suzanne M Gilboa|Susan L Hills Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/051847 2016-05-04 Bioinformatics CC BY Biophysically motivated regulatory network inference: progress and prospects Richard Bonneau|Tarmo Aijo Simons Foundation
http://dx.doi.org/10.1101/051466 2016-05-04 Evolutionary Biology CC BY-NC-ND Adaptively introgressed Neandertal haplotype at the OAS locus functionally impacts innate immune responses in humans. Aaron J Sams|Anne Dumaine|Johann Nedelec|Vania Yotova|Caroline Alfieri|Jerome E Tanner|Philipp W Messer|Luis B Barreiro Cornell University;|University of Montreal
http://dx.doi.org/10.1101/050856 2016-05-04 Neuroscience CC BY-NC-ND Imaging decision-related neural cascades in the human brain Jordan Muraskin|Truman Brown|Jennifer Walz|Bryan Conroy|Robin I Goldman|Paul Sajda Columbia University;|Medical University of South Carolina;|Florey Institute of Neuroscience and Mental Health;|Philips Research;|Center for Healthy Minds, University of Wisconsin-Madison
http://dx.doi.org/10.1101/051631 2016-05-04 Genetics CC BY-NC-ND Clustering RNA-seq expression data using grade of membership models Kushal K Dey|Chiaowen Joyce Hsiao|Matthew Stephens University of Chicago
http://dx.doi.org/10.1101/051565 2016-05-03 Genomics CC BY-ND Capturing Evolutionary Signatures in Transcriptomes with myTAI Hajk-Georg Drost|Alexander Gabel|Tomislav Domazet-Loso|Marcel Quint|Ivo Grosse University of Cambridge;|Institute of Computer Science, Martin Luther University Halle-Wittenberg;|Laboratory of Evolutionary Genetics, Division of Molecular Biology, Ruder Boškovic Institute;|Martin Luther University Halle-Wittenberg, Institute of Agricultural and Nutritional Sciences
http://dx.doi.org/10.1101/051557 2016-05-03 Molecular Biology Evolutionary dynamics of abundant stop codon readthrough in Anopheles and Drosophila Irwin Jungreis|Clara S Chan|Robert M Waterhouse|Gabriel Fields|Michael F Lin|Manolis Kellis MIT;|Department of Genetic Medicine and Development, University of Geneva Medical School;|DNAnexus
http://dx.doi.org/10.1101/051581 2016-05-03 Ecology Inferring phage-bacteria infection networks from time series data Luis Jover|Justin Romberg|Joshua S Weitz Georgia Institute of Technology
http://dx.doi.org/10.1101/051607 2016-05-03 Animal Behavior and Cognition CC BY-ND Performance in a GO/NOGO perceptual task reflects a balance between impulsive and instrumental components of behaviour Aleksandra Berditchevskaia|Romain Caze|Simon R Schultz Imperial College London
http://dx.doi.org/10.1101/051656 2016-05-03 Bioinformatics CC BY-NC-ND Pan- and core- network analysis of co-expression genes in a model plant Fei He|Sergei Maslov Brookhaven National Lab;|University of Illinois at Urbana Champaign
http://dx.doi.org/10.1101/051599 2016-05-03 Biochemistry Acidic pH is a Metabolic Switch for 2‐Hydroxyglutarate Generation Sergiy M Nadtochiy|James Miller|Xenia Schafer|Dragony Fu|Keith W Nehrke|Joshua Munger|Paul S Brookes University of Rochester Medical Center;|University of Rochester
http://dx.doi.org/10.1101/051219 2016-05-03 Developmental Biology Dual functions of Intraflagellar Transport Protein IFT20 in spermiogenesis: formation of sperm flagella and removal of cytoplasm by autophagy Zhengang Zhang|Wei Li|Yong Zhang|Ling Zhang|Maria Teves|Hong Liu|Junpin Liu|Jerome Strauss|Gregory Pazour|James Foster|Rex Hess|Zhibing Zhang Department of Gastroenterology, Tongji Hospital, Tongji Medical College;|Virginia Commonwealth University;|Department of Dermatology, Tongji Hospital, Tongji Medical College;|School of Public Health, Wuhan University of Science and Technology;|Wuhan Hospital for the Prevention and Treatment of Occupational Diseases;|University of Massachusetts Medical School;|Randolph-Macon College;|University of Illinois
http://dx.doi.org/10.1101/051532 2016-05-03 Ecology CC BY-NC-ND Elevated nonlinearity as indicator of transition to overexploitation in fish stocks Vasilis Dakos|Sarah Glaser|Chih-hao Hsieh|George Sugihara ETH Zurich CH;|University of Denver, USA;|National Taiwan University TAIWAN;|UCSD USA
http://dx.doi.org/10.1101/051516 2016-05-03 Bioinformatics CC BY-ND trio-sga: facilitating de novo assembly of highly heterozygous genomes with parent-child trios Milan Malinsky|Jared T Simpson|Richard Durbin Gurdon Institute and Department of Genetics, University of Cambridge;|Ontario Institute for Cancer Research, Toronto;|Wellcome Trust Sanger Institute, Cambridge, UK.
http://dx.doi.org/10.1101/051524 2016-05-03 Genetics Pathway and network-based strategies to translate genetic discoveries into effective therapies Casey S Greene|Benjamin F Voight University of Pennsylvania
http://dx.doi.org/10.1101/051094 2016-05-03 Bioinformatics LD Hub: a centralized database and web interface to perform LD score regression that maximizes the potential of summary level GWAS data for SNP heritability and genetic correlation analysis JIE ZHENG|Mesut Erzurumluoglu|Benjamin Elsworth|Laurence Howe|Philip Haycock|Gibran Hemani|Katherine Tansey|Charles Laurin|Beate St. Pourcain|Nicole Warrington|Hilary Finucane|Alkes Price|Brendan Bulik-Sullivan|Verneri Anttila|Lavinia Paternoster|Tom Gaunt|David Evans|Benjamin Neale University of Bristol;|University of Leicester;|University of Queensland;|Harvard T.H. Chan School of Public Health;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/051508 2016-05-03 Systems Biology CC BY-NC System-wide quantitative proteomics of the metabolic syndrome in mice: genotypic and dietary effects Camille Terfve|Eduard Sabido|Yibo Wu|Emanuel Goncalves|Meena Choi|Stefania Vaga|Olga Vitek|Julio Saez-Rodriguez|Ruedi Aebersold European Molecular Biology Laboratory - European Bioinformatics Institute;|Department of Biology, Institute of Molecular Systems Biology, ETH Zurich;|Department of Statistics, University of Purdue;|Northeastern University;|Joint Research Center for Computational Biomedicine
http://dx.doi.org/10.1101/051417 2016-05-03 Cancer Biology Mutational signatures associated with tobacco smoking in human cancer Ludmil B Alexandrov|Young Seok Ju|Kerstin Haase|Peter Van Loo|Inigo Martincorena|Serena Nik-Zainal|Yasushi Totoki|Akihiro Fujimoto|Hidewaki Nakagawa|Tatsuhiro Shibata|Peter J Campbell|Paolo Vineis|David H Phillips|Michael R Stratton Theoretical Biology and Biophysics (T-6), Los Alamos National Laboratory, Los Alamos, NM 87545, USA;|GSMSE, Korea Advanced Institute of Science and Technology (KAIST), Daejeon 34141, Republic of Korea;|The Francis Crick Institute, Lincoln's Inn Fields Laboratory, 44 Lincolns Inn Fields, London WC2A 3;|The Francis Crick Institute, Lincolns Inn Fields Laboratory, 44 Lincoln's Inn Fields, London WC2A 3;|Cancer Genome Project, Wellcome Trust Sanger Institute, Hinxton CB10 1SA, Cambridgeshire, UK;|Division of Cancer Genomics, National Cancer Center Research Institute, Chuo-ku, Tokyo, Japan.;|Laboratory for Genome Sequencing Analysis, RIKEN Center for Integrative Medical Sciences, Tokyo;|Laboratory for Genome Sequencing, RIKEN Center for Integrative Medical Sciences, Tokyo, Japan;|Division of Cancer Genomics, National Cancer Center Research Institute, Chuo-ku, Tokyo, Japan;|Department of Epidemiology and Biostatistics, MRC-PHE Centre for Environment and Health;|Kings College London, MRC-PHE, London SE1 9NH, UK
http://dx.doi.org/10.1101/051888 2016-05-05 Genomics CC BY-NC-ND Novel metrics to measure coverage in whole exome sequencing datasets reveal local and global non-uniformity Qingyu Wang|Shashikant Cooduvalli|Naomi S Altman|Santhosh Girirajan Pennsylvania State University
http://dx.doi.org/10.1101/051706 2016-05-05 Genomics Meta-analysis reveals pathway signature of Septic Shock Samanwoy Mukhopadhyay|Abhaydeep Pandey|Pravat Thatoi|Bidyut K Das|Balachandran Ravindran|Samsiddhi Bhattacharjee|Saroj Kant Mohapatra National Institute of Biomedical Genomics;|SCB Medical College, Cuttack, Odisha;|Institute of Life Sciences
http://dx.doi.org/10.1101/051482 2016-05-05 Ecology Maximum intrinsic rate of population increase in sharks, rays, and chimaeras: the importance of survival to maturity Sebastian A. Pardo|Holly K. Kindsvater|John D. Reynolds|Nicholas K. Dulvy Simon Fraser University;|Rutgers University
http://dx.doi.org/10.1101/051946 2016-05-05 Systems Biology Shear-induced nitric oxide production by endothelial cells Krishna Sriram|Justin G. Laughlin|Padmini Rangamani|Daniel M. Tartakovsky UCSD
http://dx.doi.org/10.1101/051953 2016-05-05 Genomics CC BY-NC-ND A novel homology-based algorithm for the identification of physically linked clusters of paralogous genes Juan F Ortiz|Antonis Rokas Vanderbilt University
http://dx.doi.org/10.1101/051862 2016-05-05 Evolutionary Biology Separating spandrels from phenotypic targets of selection in adaptive molecular evolution Stevan A Springer|Michael Manhart|Alexandre V Morozov University of California, San Diego;|Harvard University;|Rutgers University
http://dx.doi.org/10.1101/051904 2016-05-05 Evolutionary Biology CC BY-NC-ND From epigenetic landscape to phenotypic fitness landscape: evolutionary effect of pathogens on host traits Jomar F. Rabajante|Mark Jayson V. Cortez|Jerrold M. Tubay|Ariel L. Babierra Institute of Mathematical Sciences and Physics, University of the Philippines Los Banos
http://dx.doi.org/10.1101/051854 2016-05-05 Evolutionary Biology Estimating effective population size from temporal allele frequency changes in experimental evolution Agnes Jonas|Thomas Taus|Carolin Kosiol|Christian Schlotterer|Andreas Futschik Institut für Populationsgenetik Vetmeduni Vienna;|Johannes Kepler Universität Linz
http://dx.doi.org/10.1101/051714 2016-05-05 Neuroscience A signature of neural coding at human perceptual limits Paul Bays University of Cambridge
http://dx.doi.org/10.1101/037929 2016-05-05 Evolutionary Biology Genetic evidence for natural selection in humans in the contemporary United States Jonathan Beauchamp Harvard University
http://dx.doi.org/10.1101/051813 2016-05-05 Bioinformatics CC BY-NC Bracken: Estimating species abundance in metagenomics data Jennifer Lu|Florian P Breitwieser|Peter Thielen|Steven L Salzberg Johns Hopkins University;|McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/051623 2016-05-05 Evolutionary Biology CC BY-NC Consensus Phylogenetic trees of Fifteen Prokaryotic Aminoacyl-tRNA Synthetase Polypeptides based on Euclidean Geometry of All-Pairs Distances and Concatenation Rhishikesh R Bargaje|Milner Kumar|Sohan P Modak Open Vision
http://dx.doi.org/10.1101/051805 2016-05-05 Ecology CC BY Lysis, Lysogeny, and Virus-Microbe Ratios Joshua Weitz|Stephen J Beckett|Jennifer R Brum|B. B. Cael|Jonathan Dushoff Georgia Tech;|Georgia Institute of Technology;|The Ohio State University;|Massachusetts Institute of Technology;|McMaster University
http://dx.doi.org/10.1101/051698 2016-05-05 Systems Biology Methods for High-Throughput Drug Combination Screening and Synergy Scoring Liye He|Evgeny Kulesskiy|Jani Saarela|Laura Turunen|Krister Wennerberg|Tero Aittokallio|Jing Tang Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Finland
http://dx.doi.org/10.1101/051839 2016-05-05 Physiology CC BY Membrane state diagrams make electrophysiological models simple Robert Law|Stephanie R Jones Brown University
http://dx.doi.org/10.1101/051771 2016-05-04 Neuroscience Age differences in brain white matter microstructure in UK Biobank (N = 3,513) Simon R Cox|Stuart J Ritchie|Elliot M Tucker-Drob|David C Liewald|Saskia P Hagenaars|Gail Davies|Joanna M Wardlaw|Catharine R Gale|Mark E Bastin|Ian J Deary The University of Edinburgh;|University of Texas at Austin
http://dx.doi.org/10.1101/051722 2016-05-04 Developmental Biology CC BY Interactions between Nodal and Wnt signalling Drive Robust Symmetry Breaking and Axial Organisation in Gastruloids (Embryonic Organoids) David Andrew Turner|Cherise R Glodowski|Alonso-Crisostomo Luz|Peter Baillie-Johnson|Penny C Hayward|Jerome Collignon|Carsten Gustavsen|Palle Serup|Christian Schroter|Alfonso Martinez Arias University of Cambridge;|Institut Jacques Monod;|DanStem, University of Copenhagen;|Max Plank Institute of Molecular Physiology
http://dx.doi.org/10.1101/051821 2016-05-04 Cell Biology Chytrid fungi construct actin-rich pseudopods, implicating actin regulators WASP and SCAR in an ancient mode of cell motility Lillian K. Fritz-Laylin|Samuel J. Lord|R. Dyche Mullins UCSF
http://dx.doi.org/10.1101/051672 2016-05-04 Cell Biology CC BY-NC-ND Reconstitution of three-phase microtubule polymerisation dynamics Takashi Moriwaki|Gohta Goshima Nagoya University
http://dx.doi.org/10.1101/051730 2016-05-04 Neuroscience CC BY-NC Calcium imaging reveals coordinated simple spike pauses in populations of Cerebellar Purkinje cells Jorge Enrique Ramirez|Brandon M Stell CNRS
http://dx.doi.org/10.1101/051227 2016-05-06 Neuroscience Dendritic spine taxonomy and shape transition analysis Tomasz Kusmierczyk|Micha ukasik|Marta Magnowska|Matylda Roszkowska|Grzegorz Bokota|Dariusz Plewczynski Department of Computer and Information Science, Norwegian University of Science and Technology;|Department of Computer Science, University of Sheffield;|Nencki Institute of Experimental Biology, Polish Academy of Sciences;|Centre of New Technologies, University of Warsaw, Warsaw, Poland
http://dx.doi.org/10.1101/052035 2016-05-06 Synthetic Biology CC BY Synthetic lipid-containing scaffolds enhance production by co-localizing enzymes Cameron A. Myhrvold|Jessica K. Polka|Pamela A. Silver Harvard Medical School
http://dx.doi.org/10.1101/051979 2016-05-06 Neuroscience A nonsurgical rat model of an occult chronic neuritis uses tissue repair to create neural pain responses and histology as seen in humans: analgesics and local erythropoietin in the NeuroDigm GEL™ model Mary R. Hannaman|Douglas A. Fitts|Rose M. Doss|David E. Weinstein|Joseph L. Bryant NeuruoDigm Corp;|University of Washington;|University of Colorado;|RiverTown Therapeutics, Inc;|University of Maryland School of Medicine
http://dx.doi.org/10.1101/051870 2016-05-06 Neuroscience Complementary learning systems within the hippocampus: A neural network modeling approach to reconciling episodic memory with statistical learning Anna C Schapiro|Nicholas B Turk-Browne|Matthew M Botvinick|Kenneth A Norman Beth Israel Deaconess Medical Center / Harvard Medical School;|Princeton University;|Google DeepMind
http://dx.doi.org/10.1101/052001 2016-05-06 Bioinformatics GeMSTONE: Orchestrated Prioritization of Human Germline Mutations in the Cloud Siwei Chen|Juan Felipe Beltran|Xiaomu Wei|Steven Lipkin|Clara Esteban-Jurado|Sebastia Franch-Exposito|Sergi Castellvi-Bel|Haiyuan Yu Cornell University;|Weill Cornell College of Medicine;|University of Barcelona
http://dx.doi.org/10.1101/052019 2016-05-06 Neuroscience CC BY-NC-ND GEFs and Rac GTPases control directional specificity of neurite extension along the anterior-posterior axis Martin Chalfie|Chaogu Zheng|Margarete Diaz-Cuadros Columbia University
http://dx.doi.org/10.1101/051995 2016-05-06 Bioinformatics CC BY-NC-ND Inference of maternal allele inheritance via hierarchical Bayesian model in noninvasive prenatal diagnosis Chunxuan Shao German Cancer Research Center
http://dx.doi.org/10.1101/051938 2016-05-06 Genomics CC BY-ND AtRTD2: A Reference Transcript Dataset for accurate quantification of alternative splicing and expression changes in Arabidopsis thaliana RNA-seq data Runxuan Zhang|Cristiane P G Calixto|Yamile Marquez|Peter Venhuizen|Nikoleta A Tzioutziou|Wenbin Guo|Mark Spensley|Nicolas Frei dit Frey|Heribert Hirt|Allan B James|Hugh G Nimmo|Andrea Barta|Maria Kalyna|John W S Brown The James Hutton Institute;|University of Dundee;|Centre for Genomic Regulation;|Medical University of Vienna;|University of Toronto;|University of Toulouse;|University of Science and Technology;|University of Glasgow;|University of Natural Resources and Life Sciences - BOKU
http://dx.doi.org/10.1101/051789 2016-05-06 Neuroscience CC BY-NC-ND Data-Driven Phenotypic Categorization for Neurobiological Analyses: Beyond DSM-5 Labels Nicholas Van Dam|David O'Connor|Enitan T Marcelle|Erica J Ho|Richard Cameron Craddock|Russell H Tobe|Vilma Gabbay|James J Hudziak|Francisco Xavier Castellanos|Bennett L Leventhal|Michael P Milham Icahn School of Medicine at Mount Sinai;|Child Mind Institute;|University of California, Berkeley;|Nathan Kline Institute;|University of Vermont;|New York University School of Medicine;|University of California, San Francisco
http://dx.doi.org/10.1101/051912 2016-05-06 Neuroscience CC BY-NC-ND High-yield methods for accurate two-alternative visual psychophysics in head-fixed mice Christopher P Burgess|Nicholas Steinmetz|Armin Lak|Zatka-Haas Peter|Adam Ranson|Miles Wells|Sylvia Schroeder|Elina A K Jacobs|Charu Bai Reddy|Sofia Soares|Jennnifer F Linden|Joseph J Paton|Kenneth D Harris|Matteo Carandini University College London;|Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/052142 2016-05-07 Genomics Drosophila poised enhancers are generated during tissue patterning with the help of repression Nina Koenecke|Jeff Johnston|Qiye He|Julia Zeitlinger Stowers Institute for Medical Research;|Department of Basic Medicine; School of Medical Sciences; Zhejiang University; Hangzhou, Zhejiang Pr
http://dx.doi.org/10.1101/052134 2016-05-07 Genomics CC BY Transcriptomic analysis of diplomonad parasites reveals a trans-spliced intron in a helicase gene in Giardia Scott William Roy San Francisco State University
http://dx.doi.org/10.1101/052027 2016-05-07 Bioinformatics Localized structural frustration for evaluating the impact of sequence variants Sushant Kumar|Declan Clarke|Mark Gerstein Yale University
http://dx.doi.org/10.1101/049833 2016-05-07 Evolutionary Biology Evolutionary dynamics of chloroplast genomes in low light: a case study of the endolithic green alga Ostreobium quekettii Vanessa R. Marcelino|Ma Chiela M. Cremen|Christopher J. Jackson|Anthony W.D. Larkum|Heroen Verbruggen University of Melbourne;|University of Technology Sydney
http://dx.doi.org/10.1101/052050 2016-05-07 Evolutionary Biology CC BY-NC Adaptation in isolated populations: when does it happen and when can we tell? Jessica Crisci|Matthew D Dean|Peter L. Ralph University of Southern California
http://dx.doi.org/10.1101/052084 2016-05-07 Genetics CC BY-NC-ND Detection of human adaptation during the past 2,000 years Yair Field|Evan A Boyle|Natalie Telis|Ziyue Gao|Kyle J Gaulton|David Golan|Loic Yengo|Ghislain Rocheleau|Philippe Froguel|Mark I McCarthy|Jonathan K Pritchard Stanford University; Howard Hughes Medical Institute;|Stanford University;|Stanford University; Wellcome Trust Center for Human Genetics;|Univ. Lille, CNRS;|Univ. Lille, CNRS; Imperial College;|Wellcome Trust Center for Human Genetics
http://dx.doi.org/10.1101/052068 2016-05-07 Bioinformatics Gene- and pathway-based association tests for multiple traits with GWAS summary statistics Il-Youp Kwak|Wei Pan University of Minnesota
http://dx.doi.org/10.1101/052118 2016-05-07 Bioinformatics CC BY-NC Denoising genome-wide histone ChIP-seq with convolutional neural networks Pang Wei Koh|Emma Pierson|Anshul Kundaje Stanford University
http://dx.doi.org/10.1101/052126 2016-05-07 Biophysics CC BY-ND Use of multiple picosecond high-mass molecular dynamics simulations to predict crystallographic B-factors of folded globular proteins Yuan-Ping Pang Mayo Clinic
http://dx.doi.org/10.1101/052175 2016-05-08 Microbiology CC BY-NC-ND A Critical, Nonlinear Threshold Dictates Bacterial Invasion and Initial Kinetics During Influenza Amber M. Smith|Amanda P. Smith St. Jude Children's Research Hospital
http://dx.doi.org/10.1101/052076 2016-05-08 Tumor evolution of glioma intrinsic gene expression subtype associates with immunological changes in the microenvironment Qianghu Wang|Xin Hu|Florian Muller|Hoon Kim|Massimo Squatrito|Tom Millelsen|Lisa Scarpace|Floris Barthel|Yu-Hsi Lin|Nikunj Satani|Emmanuel Martinez-Ledesma|Edward Chang|Adriana Olar|Baoli Hu|Ana C. deCarvalho|Eskil Eskilsson|Siyuan Zheng|Amy B. Heimberger|Erik P. Sulman|Do-Hyun Nam|Roel G.W. Verhaak MD Anderson Cancer Center;|Centro Nacional de Investigaciones Oncoógicas;|Henry Ford Hospital;|Samsung Medical Center
http://dx.doi.org/10.1101/052159 2016-05-08 Systems Biology CC BY Cell-cycle coupled expression minimizes random fluctuations in gene product levels Mohammad Soltani|Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/052100 2016-05-08 Biophysics Matching models across abstraction levels with Gaussian Processes Giulio Caravagna|Luca Bortolussi|Guido Sanguinetti University of Edinburgh;|University of Trieste, Italy & CNR, Italy & University of Saarbruken, Germany
http://dx.doi.org/10.1101/052274 2016-05-09 Bioinformatics CC BY-NC-ND Entropy and codon bias in HIV-1 Aakash Pandey Kathmandu University
http://dx.doi.org/10.1101/052191 2016-05-09 Developmental Biology CC BY-NC-ND From cytoskeletal dynamics to organ asymmetry: a non-linear, regulative pathway underlies left-right patterning Gary S McDowell|Suvithan Rajadurai|Michael Levin Biology Department, and Allen Discovery Center at Tufts University, Medford, MA
http://dx.doi.org/10.1101/052266 2016-05-09 Ecology CC BY-NC-ND EM and component-wise boosting for Hidden Markov Models: a machine-learning approach to capture-recapture Robert William Rankin Murdoch University
http://dx.doi.org/10.1101/052209 2016-05-09 Genomics CC BY Gene Expression Elucidates Functional Impact of Polygenic Risk for Schizophrenia Menachem Fromer|Panos Roussos|Solveig K Sieberts|Jessica S Johnson|David H Kavanagh|Thanneer M Perumal|Douglas M Ruderfer|Edwin C Oh|Aaron Topol|Hardik R Shah|Lambertus L Klei|Robin Kramer|Dalila Pinto|Zeynep H Gumus|A. Ercument Cicek|Kristen Dang|Andrew Browne|Cong Lu|Li Xie|Ben Readhead|Eli A Stahl|Mahsa Parvisi|Tymor Hamamsy|John F Fullard|Ying-Chih Wang|Milind C Mahajan|Jonathan M.J. Derry|Joel Dudley|Scott E Hemby|Benjamin A Logsdon|Konrad Talbot|Towfique Raj|David A Bennett|Phil L De Jager|Jun Zhu|Bin Zhang|Patrick F Sullivan|Andrew Chess|Shaun M Purcell|Leslie A Shinobu|Lara M Mangravite|Hiroyoshi Toyoshiba|Raquel E Gur|Chang-Gyu Hahn|David A Lewis|Vahram Haroutonian|Mette A Peters|Barbara K Lipska|Joseph D Buxbaum|Eric E Schadt|Keisuke Hira|Kathryn Roeder|Kristen J Brennand|Nicholas Katsanis|Enrico Dominici|Bernie Devlin|Pamela Sklar Division of Psychiatric Genomics, Department of Psychiatry, Icahn School of Medicine at Mount Sinai;|5Systems Biology, Sage Bionetworks;|Systems Biology, Sage Bionetworks;|Dept of Neurology, Duke University;|Institute Dept of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai;|Psychiatry, University of Pittsburgh School of Medicine;|Human Brain Collection Core, National Institutes of Health, NIMH;|Dept of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai;|Lane Center for Computational Biology, School of Computer Science, Carnegie Mellon University;|Statistics, Carnegie Mellon University;|Computational Biology, School of Computer Science, Carnegie Mellon University;|Center for Human Disease Modeling, Duke University;|Dept of Basic Pharmaceutical Sciences, Fred Wilson School of Pharmacy, High Point University;|Department of Neurosurgery, Cedars-Sinai Medical Center;|Rush University Medical Center;|The Broad Institute of MIT and Harvard;|University of North Carolina at Chapel Hill;|Icahn School of Medicine at Mount Sinai;|Takeda Pharmaceutical Company Limited;|Sage Bionetworks;|University of Pennsylvania;|University of Pittsburgh School of Medicine;|JJ Peters VA Medical Center;|Carnegie Mellon University;|Duke University;|University of Trento
http://dx.doi.org/10.1101/050906 2016-05-09 Bioinformatics HapIso : An Accurate Method for the Haplotype-Specific Isoforms Reconstruction from Long Single-Molecule Reads Serghei Mangul|Harry Taegyun Yang|Farhad Hormozdiari|Elizabeth Tseng|Alex Zelikovsky|Eleazar Eskin Department of Computer Science, University of California, Los Angeles;|Pacific Biosciences;|Department of Computer Science, Georgia State University
http://dx.doi.org/10.1101/052241 2016-05-09 Developmental Biology CC BY-ND Odd-paired controls frequency doubling in Drosophila segmentation by altering the pair-rule gene regulatory network Erik Clark|Michael Akam Department of Zoology, University of Cambridge
http://dx.doi.org/10.1101/052225 2016-05-09 Bioinformatics CC BY-NC-ND Visualization and analysis of single-cell RNA-seq data by kernel-based similarity learning Bo Wang|Junjie Zhu|Emma Pierson|Serafim Batzoglou Stanford University
http://dx.doi.org/10.1101/051755 2016-05-09 Bioinformatics CC BY UMI-tools: Modelling sequencing errors in Unique Molecular Identifiers to improve quantification accuracy Tom Sean Smith|Andreas Heger|Ian Sudbery University of Oxford;|The University of Sheffield
http://dx.doi.org/10.1101/052217 2016-05-09 Developmental Biology CC BY-NC-ND Anchor negatively regulates BMP signaling to control Drosophila wing development Xiaochun Wang|Ziguang Liu|Lihua Jin Northeast Forestry University;|Heilongjiang Academy of Agricultural Sciences
http://dx.doi.org/10.1101/052316 2016-05-09 Genetics CC BY-NC-ND Whole-genome sequencing of an advanced case of small-cell gallbladder neuroendocrine carcinoma Maolan Li|Fatao liu|Yijian Zhang|Xiangsong Wu|Wenguang Wu|Xu-an Wang|Shuai Zhao|Shibo Liu|Haibin Liang|Fei Zhang|Yuan Gao|Shanshan Xiang|Huaifeng Li|Wei Lu|Hao Weng|Jiasheng Mu|Yijun Shu|Runfa Bao|Lin Jiang|Yunping Hu|Wei Gong|Yun Zhang|Tieliang Ma|Kai Zhang|Yun Liu|Yingbin Liu Xinhua Hospital Affiliated to Shanghai Jiao Tong University School of Medicine;|Institute of Biliary Tract Disease, Shanghai Jiao Tong University School of Medicine;|The Affiliated Yixing Hospital of Jiangsu University;|Institutes of Biomedical Sciences, Fudan University
http://dx.doi.org/10.1101/048652 2016-05-09 Genomics Analytical considerations for comparative transcriptomics of wild organisms. Trevor J. Krabbenhoft|Thomas F. Turner Wayne State University;|University of New Mexico
http://dx.doi.org/10.1101/052597 2016-05-10 Bioinformatics CC BY-ND iVirus: facilitating new insights in viral ecology with software and community datasets imbedded in a cyberinfrastructure Benjamin Bolduc|Ken Youens-Clark|Simon Roux|Bonnie L Hurwitz|Matthew B Sullivan The Ohio State University;|University of Arizona
http://dx.doi.org/10.1101/052548 2016-05-10 Genetics Effect of population structure and migration when investigating genetic continuity using ancient DNA Nuno M Silva|Susanne Kreutzer|Christina Papageorgopoulou|Mathias Currat Department of Genetics & Evolution-Anthropology Unit, University of Geneva, 1211 Geneva, Switzerland;|Palaeogenetics Group, Institute of Anthropology, Johannes Gutenberg University, 55099 Mainz, Germany;|Lab of Anthropology, Dept of History & Ethnology, Democritus University of Thrace, Komotini, Greece
http://dx.doi.org/10.1101/052498 2016-05-10 Genomics|Systems Biology Systems-level chromosomal parameters represent the suprachromosomal basis for a non-random chromosomal arrangement in human interphase nuclei Sarosh N. Fatakia|Ishita S. Mehta|Basuthkar J. Rao Tata Institute of Fundamental Research;|University of Mumbai -DAE Centre for Excellence
http://dx.doi.org/10.1101/052043 2016-05-10 Scientific Communication and Education Personal Pharmacogenetic Testing Enhances Pharmacy Student Knowledge and Attitude Towards Precision Medicine Dalga Surofchy|Sam Oh|Joshua Galanter|Pin Xiang|Megan Li|Su Guo|Tejal Desai|Bernard Joseph Guglielmo|Kathy Giacomini|Janel Long-Boyle|Alan HB Wu|Esteban G Burchard School of Pharmacy, University of California, San Francisco;|Department of Medicine, University of California, San Francisco;|Department of Bioengineering & Therapeutic Sciences, University of California, San Francisco;|Department of Clinical Pharmacy, University of California, San Francisco;|Department of Laboratory Medicine, University of California, San Francisco
http://dx.doi.org/10.1101/052555 2016-05-10 Biophysics Measuring Mechanodynamics using an Unsupported Epithelial Monolayer Grown at an Air-Water Interface Corinne Gullekson|Matthew Walker|James L. Harden|Andrew Pelling University of Ottawa;|University ofOttawa
http://dx.doi.org/10.1101/052589 2016-05-10 Neuroscience CC BY-NC-ND The effect of local inter-inhibitory connectivity on the dynamics of an activity-dependent neuronal network growth model Rosanna Barnard|Istvan Zoltan Kiss|Luc Berthouze University of Sussex, UK
http://dx.doi.org/10.1101/052605 2016-05-10 Bioinformatics CC BY-ND myCircos: Facilitating the Creation and Use of Circos Plots Online Caroline Labelle|Genevieve Boucher|Sebastien Lemieux Université de Montréal
http://dx.doi.org/10.1101/052571 2016-05-10 Genomics Chromatin variation associated with liver metabolism is mediated by transposable elements Juan Du|Amy Leung|Candi Trac|Brian W. Parks|Aldons J. Lusis|Rama Natarajan|Dustin E. Schones Beckman Research Institute of City of Hope;|University of Wisconsin-Madison, Madison;|University of California, Los Angeles
http://dx.doi.org/10.1101/052431 2016-05-10 Neuroscience A cellular and regulatory map of the GABAergic nervous system of C. elegans Marie Gendrel|Emily G Atlas|Oliver Hobert Columbia University
http://dx.doi.org/10.1101/052282 2016-05-10 Neuroscience CC BY-NC-ND Local field potentials primarily reflect inhibitory neuron activity in human and monkey cortex Bartosz Telenczuk|Nima Dehghani|Michel Le Van Quyen|Sydney S Cash|Eric Halgren|Nicholas G Hatsopoulos|Alain Destexhe UNIC, CNRS;|Wyss Institute for Biologically-Inspired Engineering, Harvard University;|L'Institut du Cerveau et de la Moelle Epiniere, UMRS 1127, CNRS UMR 7225, Hopital de la Pitie-Salpet;|Department of Neurology, Massachusetts General Hospital and Harvard Medical School;|Multimodal Imaging Laboratory, Departments of Neurosciences and Radiology, University of California;|Dept Organismal Biology and Anatomy, Committee on Computational Neuroscience, University of Chicago;|Unite de Neurosciences, Information & Complexite, Centre National de la Recherche Scientifique
http://dx.doi.org/10.1101/052472 2016-05-10 Evolutionary Biology CC BY-NC-ND DIVERGENT IMMUNE PRIMING RESPONSES ACROSS FLOUR BEETLE LIFE STAGES AND POPULATIONS Imroze Khan|Arun Prakash|Deepa Agashe National Centre for Biological Sciences;|National Centre for Biological Sceinces
http://dx.doi.org/10.1101/052324 2016-05-10 Animal Behavior and Cognition Automatic classification of behavior in zebrafish larvae Adrien Jouary|German Sumbre Ecole Normale Superieure, PSL Research University, CNRS, Inserm, Institut de Biologie de l'ENS
http://dx.doi.org/10.1101/052399 2016-05-10 Microbiology CC BY Bacteria regulate choanoflagellate development with lipid activators, inhibitors, and synergists Arielle Woznica|Alexandra M. Cantley|Christine Beemelmanns|Elizaveta Freinkman|Jon Clardy|Nicole King University of California, Berkeley;|Harvard Medical School;|Leibniz Institute for Natural Product Research and Infection Biology e.V.;|Whitehead Institute for Biomedical Research;|HHMI/University of California, Berkeley
http://dx.doi.org/10.1101/052340 2016-05-10 Microbiology A Zika virus-associated microcephaly case with background exposure to STORCH agents Mauro M Hanaoka|Alexandre Fligelman Kanas|Carla Torres Braconi|Erica Araujo Mendes|Robert Andreata Santos|Luis Carlos de Souza Ferreira|Marielton dos Passos Cunha|Patricia Beltrao-Braga|Joao Leonardo Mendonca Dias|Carolina Manganeli Polonio|David Anibal Garrido Andrade|Carla Longo de Freitas|Cristiano Rossato|Wesley Nogueira Brandao|Jean Pierre Schatzmann Peron|Antonio Gomes Amorim Filho|Joelma Queiroz Andrade|Rossana Pulcineli Vieira Francisco|Fernando Kok|Lisa Suzuki|Claudia da Costa Leite|Leandro Tavares Lucato|Amadou Alpha Sall|Paolo Marinho de Andrade Zanotto Department of Radiology, Institute of Radiology;|Department of Microbiology, Institute of BIomedical Sciences;|Surgery Department, Faculdade de Medicina Veterinaria;|Department of Immunology - Institute of BIomedical Sciences;|Department of Immunology -Institute of BIomedical Sciences;|Department of Immunology-Institute of BIomedical Sciences;|Department of Gynecology and Obstetrics, Central Institute, Hospital das Clinicas;|Division of Child Neurology, Department of Neurology, Hospital das Clinicas;|Pediatric Radiology Division, Department of Radiology;|Neuroradiology Division, Department of Radiology;|Institute Pasteur in Dakar
http://dx.doi.org/10.1101/052332 2016-05-10 Evolutionary Biology Male density and rapid evolution of genital morphology in the seed beetle Callosobruchus maculatus Deanna Soper|Willow Macy University of Iowa;|Beloit College
http://dx.doi.org/10.1101/052357 2016-05-10 Ecology Impacts of white-tailed deer on regional patterns of forest tree recruitment Donald Macgregor Waller|Donald M. Waller Univ. of Wisconsin - Madison
http://dx.doi.org/10.1101/052290 2016-05-10 Evolutionary Biology On the evolutionary origins of equity Stephane Debove|Nicolas Baumard|Jean-Baptiste Andre Ecole normale superieure
http://dx.doi.org/10.1101/052308 2016-05-10 Genetics CC BY-NC-ND Reference-based phasing using the Haplotype Reference Consortium panel Po-Ru Loh|Petr Danecek|Pier Francesco Palamara|Christian Fuchsberger|Yakir A Reshef|Hilary K Finucane|Sebastian Schoenherr|Lukas Forer|Shane McCarthy|Goncalo R Abecasis|Richard Durbin|Alkes L Price Harvard T.H. Chan School of Public Health;|Wellcome Trust Sanger Institute;|European Academy of Bozen/Bolzano (EURAC);|Harvard University;|Massachusetts Institute of Technology;|Medical University of Innsbruck;|University of Michigan
http://dx.doi.org/10.1101/052381 2016-05-10 Genetics CC BY-ND The Decay of Disease Association with Declining Linkage Disequilibrium: A Fine Mapping Theorem Mehdi Maadooliat|Naveen K Bansal|Jiblal Upadhya|Manzur R Farazi|Zhan Ye|Xiang Li|Steven J Schrodi Marquette University;|Marshfield Clinic Research Foundation
http://dx.doi.org/10.1101/052670 2016-05-11 Genetics CC BY-NC-ND Meta-analysis of 2,104 trios provides support for 10 novel candidate genes for intellectual disability Stefan H. Lelieveld|Margot R.F. Reijnders|Rolph Pfundt|Helger G. Yntema|Erik-Jan Kamsteeg|Petra de Vries|Bert B.A. de Vries|Marjolein H. Willemsen|Tjitske Kleefstra|Katharina Lohner|Maaike Vreeburg|Servi Stevens|Ineke van der Burgt|Ernie M.H.F. Bongers|Alexander P.A. Stegmann|Patrick Rump|Tuula Rinne|Marcel R. Nelen|Joris A. Veltman|Lisenka E.L.M. Vissers|Han G. Brunner|Christian Gilissen Department of Human Genetics, Radboud University Medical Center;|Department of Genetics, University Medical Center Groningen;|Department of Clinical Genetics, Maastricht University Medical Centre
http://dx.doi.org/10.1101/052183 2016-05-11 Epidemiology How human behavior drives the propagation of an emerging infection: the case of the 2014 Chikungunya outbreak in Martinique Benjamin Roche|Beatrice Gaillard|Lucas Leger|Renelise Moutenda|Thomas Sochaki|Bernard Cazelles|Martine Ledrans|Alain Blateau|Didier Fontenille|Manuel Etienne|Frederic Simard|Marcel Salante|Andre Yebakima IRD;|Conseil General de la Martinique;|Ecole Normale Superieure;|UPMC;|CIRE Antilles Guyane;|Pasteur Institute of Cambodia;|Ecole Polytechnique Federale de Lausanne
http://dx.doi.org/10.1101/052878 2016-05-11 Genomics CC BY-ND Systematic Reconstruction of Autism Biology with Multi-Level Whole Exome Analysis Weijun Luo|Chaolin Zhang|Cory Brouwer UNC Charlotte;|Columbia University
http://dx.doi.org/10.1101/052829 2016-05-11 Genetics CC BY-NC-ND Genetic overlap between schizophrenia and developmental psychopathology: a longitudinal approach applied to common childhood disorders between age 7 and 15 years Michel G Nivard|Suzanne H Gage|Jouke-Jan Hottenga|Catherina E.M. van Beijsterveldt|Abdel Abdellaoui|Bart M.L. Baselmans|Lannie Ligthart|Beate St Pourcain|Dorret I Boomsma|Marcus M Munafo|Christel M Middeldorp Biological Psychology, VU University, Amsterdam, The Netherlands;|University of Bristol, UK;|MRC Integrative Epidemiology Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands;|Biological Psychology, VU University, Amsterdam, The Netherlands & Department of Child and Adoles
http://dx.doi.org/10.1101/052746 2016-05-11 Developmental Biology Splice Variants of the SWR1-type Nucleosome Remodeling Factor Domino Have Distinct Functions during Drosophila melanogaster Oogenesis Kenneth Boerner|Peter B. B Becker Biomedical Center and Center for Integrated Protein Science Munich, Ludwig-Maximilians-University
http://dx.doi.org/10.1101/052803 2016-05-11 Bioinformatics CC BY-NC-ND A novel independence test for somatic alterations in cancer shows that biology drives mutual exclusivity but chance explains co-occurrence Sander Canisius|John Martens|Lodewyk Wessels The Netherlands Cancer Institute;|Erasmus University Medical Center
http://dx.doi.org/10.1101/052712 2016-05-11 Developmental Biology Whole organism lineage tracing by combinatorial and cumulative genome editing Aaron McKenna|Gregory Findlay|James A Gagnon|Marshall Horwitz|Alexander Franz F Schier|Jay Shendure University of Washington;|Harvard University
http://dx.doi.org/10.1101/052894 2016-05-11 Evolutionary Biology Efficient Maximum-Likelihood Inference For The Isolation-With-Initial-Migration Model With Potentially Asymmetric Gene Flow Rui J. Costa|Hilde Wilkinson-Herbots Department of Statistical Science, University College London, United Kingdom
http://dx.doi.org/10.1101/052811 2016-05-11 Developmental Biology CC BY-NC-ND The Drosophila genes disconnected and disco-related together specify development of adult legs James Mahaffey|Juan Rosario North Carolina State University;|Integra laboratories
http://dx.doi.org/10.1101/052738 2016-05-11 Cell Biology CC BY-NC-ND Nicotine affects protein complex rearrangement in Caenorhabditis elegans cells Robert Sobkowiak|Andrzej Zielezinski|Wojciech M Karlowski|Andrzej Lesicki Adam Mickiewicz University
http://dx.doi.org/10.1101/052845 2016-05-11 Genomics CC BY-NC Suitability of different mapping algorithms for genome-wide polymorphism scans with Pool-Seq data Robert Kofler|Anna Maria Langmueller|Pierre Nouhaud|Kathrin Anna Otte|Christian Schloetterer VetMedUni Wien
http://dx.doi.org/10.1101/052514 2016-05-11 Biophysics CC BY The relative values of the turnover number and the dissociation rate constant determine the definition of the Michaelis-constant Gassan Nazzal Independent author
http://dx.doi.org/10.1101/052720 2016-05-11 Neuroscience Spatial mnemonic encoding: Theta power decreases co-occur with medial temporal lobe BOLD increases during the usage of the Method of Loci Marie-Chrisin Fellner|Gregor Volberg|Maria Wimber|Markus Goldhacker|Mark W Greenlee|Simon Hanslmayr Ruhr University Bochum;|University of Regensburg;|University of Birmingham
http://dx.doi.org/10.1101/052662 2016-05-11 Bioinformatics CC BY-ND Maftools: Efficient analysis, visualization and summarization of MAF files from large-scale cohort based cancer studies. Anand Mayakonda|H Phillip Koeffler Cancer Science Institute of Singapore, National University of Singapore, Singapore.
http://dx.doi.org/10.1101/052688 2016-05-11 Bioinformatics CC BY Robust high throughput prokaryote de novo assembly and improvement pipeline for Illumina data Andrew J. Page|Nishadi De Silva|Martin Hunt|Michael A. Quail|Julian Parkhill|Simon R. Harris|Thomas D. Otto|Jacqueline A. Keane Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/052415 2016-05-11 Neuroscience CC BY-NC-ND Rescuing perishable neuroanatomical information from a threatened biodiversity hotspot: Remote field methods for brain tissue preservation validated by cytoarchitectonic analysis, immunohistochemistry, and X-ray microcomputed tomography Daniel F. Hughes|Ellen M. Walker|Paul M. Gignac|Anais Martinez|Kenichiro Negishi|Carl S. Lieb|Eli Greenbaum|Arshad M. Khan University of Texas at El Paso;|Oklahoma State University Center for Health Sciences
http://dx.doi.org/10.1101/052480 2016-05-11 Microbiology CC BY-NC-ND Self-driven jamming in growing microbial populations Morgan Delarue|Jorn Hartung|Carl Schreck|Pawel Gniewek|Lucy Hu|Stephan Herminghaus|Oskar Hallatschek Departments of Physics and Integrative Biology, University of California, Berkeley, California 94720;|Max Planck Institute for Dynamics and Self-Organization Göttingen, Germany;|Department of Bioengineering, University of California, Berkeley, USA.
http://dx.doi.org/10.1101/052621 2016-05-11 Biophysics CC BY-NC-ND Blind tests of RNA nearest neighbor energy prediction Fang-Chieh Chou|Wipapat Kladwang|Kalli Kappel|Rhiju Das Stanford;|Stanford University
http://dx.doi.org/10.1101/052910 2016-05-12 Bioinformatics CC BY-NC-ND MetaGxData: Breast and Ovarian Clinically Annotated Transcriptomics Datasets Deena M.A. Gendoo|Natchar Ratanasirigulchai|Gregory M. Chen|Levi Waldron|Benjamin Haibe-Kains Princess Margaret Cancer Centre & University of Toronto;|Princess Margaret Cancer Center, University Health Network;|City University of New York School of Medicine, New-York City, New-York, USA;|University Health Network
http://dx.doi.org/10.1101/052977 2016-05-12 Genetics Synaptonemal complex components are required for meiotic checkpoint function in C. elegans Tisha Bohr|Guinevere Ashley|Evan Eggleston|Kyra Firestone|Needhi Bhalla UCSC
http://dx.doi.org/10.1101/052993 2016-05-12 Evolutionary Biology CC BY-NC-ND Soft selective sweeps in evolutionary rescue Ben Wilson|Pleuni Pennings|Dmitri Petrov Stanford University;|San Francisco State University
http://dx.doi.org/10.1101/052985 2016-05-12 Microbiology CC BY-NC-ND Host Gut Motility and Bacterial Competition Drive Instability in a Model Intestinal Microbiota Travis J. Wiles|Matthew L. Jemielita|Ryan P. Baker|Brandon H. Schlomann|Savannah L. Logan|Julia Ganz|Ellie Melancon|Judith S. Eisen|Karen Guillemin|Raghuveer Parthasarathy The University of Oregon
http://dx.doi.org/10.1101/053033 2016-05-12 Bioinformatics CC BY-ND Deep Machine Learning provides state-of-the-art performance in image-based plant phenotyping Michael P Pound|Alexandra J Burgess|Michael H Wilson|Jonathan A Atkinson|Marcus Griffiths|Aaron S Jackson|Adrian Bulat|Georgios Tzimiropoulos|Darren M Wells|Erik H Murchie|Tony P Pridmore|Andrew P French University of Nottingham;|University of Leeds
http://dx.doi.org/10.1101/053132 2016-05-12 Cancer Biology CC BY-NC-ND Quantification of telomere features in tumor tissue sections by an automated 3D imaging-based workflow Manuel Gunkel|Inn Chung|Stefan Worz|Katharina I Deeg|Ronald Simon|Guido Sauter|David T Jones|Andrey Korshunov|Karl Rohr|Holger Erfle|Karsten Rippe Bioquant Center;|German Cancer Research Center (DKFZ);|UKE Hamburg
http://dx.doi.org/10.1101/052761 2016-05-12 Evolutionary Biology CC BY-NC-ND Going down the rabbit hole: a review on how to link genome-wide data with ecology and evolution in natural populations Yann Bourgeois Basel University
http://dx.doi.org/10.1101/052696 2016-05-12 Genomics Elusive Plasmodium Species Complete the Human Malaria Genome Set Gavin G. Rutledge|Ulrike Boehme|Mandy Sanders|Adam J. Reid|Oumou Maiga-Ascofare|Abdoulaye A. Djimde|Tobias O. Apinjoh|Lucas Amenga-Etego|Magnus Manske|John W. Barnwell|Francois Renaud|Benjamin Ollomo|Franck Prugnolle|Nicholas M. Anstey|Sarah Auburn|Ric N. Price|James S. McCarthy|Dominic P. Kwiatkowski|Chris I. Newbold|Matthew Berriman|Thomas D. Otto Wellcome Trust Sanger Institute;|Malaria Research and Training Center, University of Science, Techniques, and Technologies of Bamako;|University of Buea;|Navrongo Health Research Centre;|Centers for Disease Control and Prevention;|Laboratoire MIVEGEC (UM1-CNRS-IRD);|Centre International de Recherches medicales de Franceville;|Global and Tropical Health Division, Menzies School of Health Research and Charles Darwin University;|Clinical Tropical Medicine Laboratory, QIMR Berghofer Medical Research Institute, University of Quee;|Weatherall Institute of Molecular Medicine, University of Oxford
http://dx.doi.org/10.1101/052886 2016-05-12 Genetics CC BY-ND Refining the role of de novo protein truncating variants in neurodevelopmental disorders using population reference samples Jack Kosmicki|Kaitlin Samocha|Daniel Howrigan|Stephan Sanders|Kamil Slowikowski|Monkol Lek|Konrad Karczewski|David Cutler|Bernie Devlin|Kathryn Roeder|Joseph Buxbaum|Benjamin Neale|Daniel MacArthur|Dennis Wall|Elise Robinson|Mark Daly Harvard University;|Broad Institute of Harvard and MIT;|University of California, San Francisco;|Emory University School of Medicine;|University of Pittsburgh;|Carnegie Mellon;|Icahn School of Medicine at Mount Sinai;|Stanford University
http://dx.doi.org/10.1101/053116 2016-05-12 Evolutionary Biology CC BY-NC Seed size drives species diversification across angiosperms Javier Igea|Eleanor F Miller|Alexander ST Papadopulos|Andrew J Tanentzap Dept of Plant Sciences, University of Cambridge;|Royal Botanic Gardens, Kew
http://dx.doi.org/10.1101/052928 2016-05-12 Animal Behavior and Cognition CC BY-NC Predictability and hierarchy in Drosophila behavior Gordon J Berman|William Bialek|Joshua W Shaevitz Emory University;|Princeton University
http://dx.doi.org/10.1101/052563 2016-05-12 Scientific Communication and Education CC BY-NC-ND search.bioPreprint: a discovery tool for cutting edge, preprint biomedical research articles Carrie L Iwema|John LaDue|Angela Zack|Ansuman Chattopadhyay Health Sciences Library System, University of Pittsburgh, 200 Scaife Hall, Pittsburgh, PA
http://dx.doi.org/10.1101/053165 2016-05-12 Genetics CC BY Shared effect modeling reveals that a fraction of autoimmune disease associations are consistent with eQTLs in three immune cell types Sung Chun|Alexandra Casparino|Nikolaos Patsopoulos|Damien Croteau-Chonka|Benjamin Raby|Philip De Jager|Shamil Sunyaev|Chris Cotsapas Brigham and Women's Hospital;|Yale School of Medicine;|Brigham & Women's Hospital, Harvard Medical School
http://dx.doi.org/10.1101/053066 2016-05-12 Microbiology CC BY Antibiotic Stress Selects against Cooperation in a Pathogenic Bacterium Marie Vasse|Robert Noble|Andrei R Akhmetzhanov|Clara Torres-Barcelo|James Gurney|Simon Benateau|Claire Gougat-Barbera|Oliver Kaltz|Michael E Hochberg University of Montpellier;|Academia Sinica
http://dx.doi.org/10.1101/053074 2016-05-12 Bioinformatics CC BY-NC-ND 3D perception of maximum density zone on Ramachandran plots for Zika virus protein structures Mayukh Mukhopadhyay|Parama Bhaumik Tata Consultancy Services;|Jadavpur University
http://dx.doi.org/10.1101/053025 2016-05-12 Ecology CC BY-NC-ND Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analysis Francois Enault|Arnaud Briet|Lea Bouteille|Simon Roux|Matthew B Sullivan|Marie-Agnes Petit Clermont University;|INRA;|The Ohio State University
http://dx.doi.org/10.1101/053090 2016-05-12 Ecology CC BY-NC-ND Ecogenomics and biogeochemical impacts of uncultivated globally abundant ocean viruses Simon Roux|Jennifer R Brum|Bas E. Dutilh|Shinichi Sunagawa|Melissa B Duhaime|Alexander Loy|Bonnie T Poulos|Natalie Solonenko|Elena Lara|Julie Poulain|Stephane PESANT|Stefanie Kandels-Lewis|Celine Dimier|Marc Picheral|Sarah Searson|Corinne Cruaud|Adriana Alberti|Carlos M. M Duarte|Josep M M Gasol|Dolors Vaque|Peer Bork|Silvia G Acinas|Patrick Wincker|Matthew B Sullivan Department of Microbiology, The Ohio State University;|Radboud University Medical Centre, Utrecht University, Federal University of Rio de Janeiro;|European Molecular Biology Laboratory;|University of Michigan;|University of Vienna, Austrian Polar Research Institute;|University of Arizona;|Institut de Ciències del Mar (CSIC), Institute of Marine Sciences (CNR-ISMAR);|CEA - Institut de Génomique, Genoscope;|PANGAEA, MARUM, University of Bremen;|Sorbonne Universités, UPMC, Université Paris 06, CNRS, Station Biologique de Roscoff;|Sorbonne Universites, UPMC Universite Paris 06, CNRS, Laboratoire d oceanographie de Villefranche;|Sorbonne Universités, UPMC Université Paris 06, CNRS, University of Hawaii;|CSIC-UiB, King Abdullah University of Science and Technology (KAUST);|Institut de Ciències del Mar (CSIC);|European Molecular Biology Laboratory, Max-Delbrück-Centre for Molecular Medicine;|CEA - Institut de Génomique, Genoscope, CNRS, Université d Evry, UMR 8030
http://dx.doi.org/10.1101/053009 2016-05-12 Systems Biology CC BY-ND Conceptual Confusion: the case of Epigenetics Angela Oliveira Pisco|Aymeric Fouquier d'Herouel|Sui Huang King's College London;|University of Luxembourg;|Institute for Systems Biology
http://dx.doi.org/10.1101/053108 2016-05-12 Evolutionary Biology CC BY-NC-ND Resource limitation reveals a twofold benefit of eusociality Emanuel Fronhofer|Juergen Liebig|Oliver Mitesser|Hans Joachim Poethke Eawag: Swiss Federal Institute of Aquatic Science and Technology;|Arizona State University, School of Life Sciences and Center for Social Dynamics and Complexity;|Field Station Fabrikschleichach, University of Wuerzburg
http://dx.doi.org/10.1101/052936 2016-05-12 Genetics CC BY-NC-ND Proteasome dysfunction triggers activation of SKN-1A/Nrf1 by the aspartic protease DDI-1. Nicolas J Lehrbach|Gary Ruvkun Massachusetts General Hospital
http://dx.doi.org/10.1101/053140 2016-05-12 Evolutionary Biology CC BY The cryptic origins of evolutionary novelty: 1,000-fold-faster trophic diversification rates without increased ecological opportunity or hybrid swarm Christopher Herbert Martin University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/053348 2016-05-13 Bioinformatics CC BY-NC-ND KimLabIDV: Application for Interactive RNA-Seq Data Analysis and Visualization Qin Zhu|Stephen A Fisher|Hannah Dueck|Sarah Middleton|Mugdha Khaladkar|Young-Ji Na|Junhyong Kim University of Pennsylvania
http://dx.doi.org/10.1101/053355 2016-05-13 Genomics CC BY Quantifying the degree of sharing of genetic and non-genetic causes of gene expression variability across four tissues. Alfonso Buil|Ana Vinuela|Andrew Brown|Matthew Davies|Ismael Padioleau|Deborah Bielser|Luciana Romano|Daniel Glass|Paola Di Meglio|Kerrin Small|Timothy Spector|Emmanouil T Dermitzakis University of Geneva;|Kings College London;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/053264 2016-05-13 Genetics CC BY-NC-ND The multiple testing burden in sequencing-based disease studies of global populations Sara Leslie Pulit|Sera A. Jytte de With|Paul I Wen de Bakker University Medical Center Utrecht
http://dx.doi.org/10.1101/053231 2016-05-13 Systems Biology Exact Bayesian lineage tree-based inference identifies Nanog negative autoregulation in mouse embryonic stem cells Justin Shane Feigelman|Stefan Ganscha|Simon Hastreiter|Michael Schwarzfischer|Adam Filipczyk|Timm Schroeder|Fabian J Theis|Carsten Marr|Manfred Claassen ETH Zürich;|Helmholtz Zentrum München;|Oslo University Hospital
http://dx.doi.org/10.1101/052902 2016-05-13 Evolutionary Biology CC BY-NC-ND The last common ancestor of bilaterian animals possessed at least 7 opsins M Desmond Ramirez|Autum N Pairett|M Sabrina Pankey|Jeanne M Serb|Daniel I Speiser|Andrew J Swafford|Todd H. Oakley University of California, Santa Barbara;|Iowa State University;|University of New Hampshire;|University of South Carolina
http://dx.doi.org/10.1101/053082 2016-05-13 Ecology Parasites and invasions: changes in gastrointestinal helminth assemblages in invasive and native rodents in Senegal. Christophe Diagne|Alexis Ribas|Nathalie Charbonnel|Ambroise Dalecky|Caroline Tatard|Philippe Gauthier|Voitto Haukisalmi|Odile Fossati-Gaschignard|Khalilou Ba|Mamadou Kane|Youssoupha Niang|Mamoudou Diallo|Aliou Sow|Sylvain Piry|Mbacke Sembene|Carine Brouat IRD, CBGP-BIOPASS;|Laboratory of Parasitology, Faculty of Pharmacy, University of Barcelona;|INRA-CBGP;|IRD-LPED;|INA-CBGP;|IRD-CBGP;|Finnish Museum of Natural History Luomus, University of Helsinki, Finland
http://dx.doi.org/10.1101/052944 2016-05-13 Epidemiology CC BY-NC-ND Potential impact of novel diagnostics and treatments on the burden of antibiotic resistant in Escherichia coli Pierre Nouvellet|Julie Robotham|Nichola R Naylor|Neil Woodford|Neil M Ferguson Imperial College London;|Public Health England
http://dx.doi.org/10.1101/053181 2016-05-13 Cell Biology Cell-to-cell spread of microsporidia causes C. elegans organs to form syncytia Keir M Balla|Robert J Luallen|Malina A Bakowski|Emily R Troemel University of California San Diego;|Calibr
http://dx.doi.org/10.1101/053124 2016-05-13 Developmental Biology Multiscale quantification of tissue behavior during amniote embryo axis elongation Bertrand Benazeraf|Mathias Beaupeux|Martin Tchernookov|Allison Wallingford|Tasha Salisbury|Amelia Shirtz|Andrew Shirtz|Dave Huss|Olivier Pourquie|Paul Francois|Rusty Lansford CNRS (France)/ CHLA (USA);|Mc Gill Montreal, Canada;|CHLA (USA);|Northern Michigan University (USA);|CHLA/USC (USA);|IGBMC (France)/Harvard medical school(USA);|Mc Gill Montreal Canada;|CHLA/Keck school of medecine USC (USA)
http://dx.doi.org/10.1101/053199 2016-05-13 Evolutionary Biology CC BY-NC-ND 3-Keto-Steroid transactivation of mineralocorticoid receptors from Amur sturgeon (Acipenser schrenckii) and tropical gar (Atractosteus tropicus) Akira Sugimoto|Kaori Oka|Rui Sato|Shinji Adachi|Michael E. Baker|Yoshinao Katsu Hokkaido University, Sapporo, Japan;|Hokkaido University, Hakodate, Japan;|University of California, San Diego
http://dx.doi.org/10.1101/053041 2016-05-13 Genomics CC BY-NC-ND Dumpster diving in RNA-sequencing to find the source of every last read Serghei Mangul|Harry Taegyun Yang|Nicolas Strauli|Franziska Gruhl|Timothy Daley|Stephanie Christenson|Agata Wesolowska Andersen|Roberto Spreafico|Cydney Rios|Celeste Eng|Andrew D. Smith|Ryan D. Hernandez|Roel A. Ophoff|Jose Rodriguez Santana|Prescott G. Woodruff|Esteban Burchard|Max A. Seibold|Sagiv Shifman|Eleazar Eskin|Noah Zaitlen Department of Computer Science, University of California Los Angeles, Los Angeles, USA;|Biomedical Sciences Graduate Program, University of California, San Francisco, CA, USA;|Center for Integrative Genomics, University of Lausanne, Lausanne, Switzerland;|Department of Molecular and Computational Biology, University of Southern California, CA, USA;|Division of Pulmonary, Critical Care, Sleep and Allergy, Department of Medicine, and Cardiovascular;|Center for Genes, Environment, and Health, National Jewish Health, Denver, CO, USA;|Institute for Quantitative and Computational Biosciences, University of California Los Angeles;|Department of Medicine, University of California, San Francisco, CA, USA;|UCSF;|Center for Neurobehavioral Genetics, Semel Institute for Neuroscience and Human Behavior, UCLA;|Pediatric Pulmonology, San Juan, Puerto Rico;|Department of Genetics, The Institute of Life Sciences, The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/053223 2016-05-13 Genomics CC BY-NC-ND Genome sequencing of a single tardigrade Hypsibius dujardini individual Kazuharu Arakawa|Yuki Yoshida|Masaru Tomita Institute for Advanced Biosciences, Keio University
http://dx.doi.org/10.1101/053173 2016-05-13 Biochemistry Blind testing cross-linking/mass spectrometry under the auspices of the 11th critical assessment of methods of protein structure prediction (CASP11) Adam Belsom|Michael Schneider|Lutz Fischer|Oliver Brock|Juri Rappsilber University of Edinburgh;|Technische Universitaet Berlin
http://dx.doi.org/10.1101/053306 2016-05-14 Bioinformatics CC BY-NC-ND VERSE: a versatile and efficient RNA-Seq read counting tool Qin Zhu|Stephen A Fisher|Jamie Shallcross|Junhyong Kim University of Pennsylvania
http://dx.doi.org/10.1101/053371 2016-05-14 Evolutionary Biology CC BY-NC-ND Range overlap drives chromosome inversion fixation in passerine birds Daniel M Hooper University of Chicago
http://dx.doi.org/10.1101/053462 2016-05-14 Bioinformatics CC BY-NC Higher classification sensitivity of short metagenomic reads with CLARK-S Rachid Ounit|Stefano Lonardi University of California, Riverside;|University of California
http://dx.doi.org/10.1101/053397 2016-05-14 Ecology CC BY RefSoil: A reference database of soil microbial genomes Jinlyung Choi|Fan Yang|Ramunas Stepanauskas|Erick Cardenas|Aaron Garoutte|Ryan Williams|Jared Flater|James M Tiedje|Kirsten S. Hofmockel|Brian Gelder|Adina Howe Iowa State University;|Bigelow Laboratory for Ocean Sciences;|University of British Columbia;|Michigan State University;|Iowa State University, Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/053447 2016-05-14 Genetics CC BY-NC-ND Redundancy, feedback, and robustness in the Arabidopsis thaliana BZR/BEH gene family Jennifer Lachowiec|G. Alex Mason|Karla Schultz|Christine Queitsch University of Michigan, United States;|University of Washington, United States;|Colorado State University, United States
http://dx.doi.org/10.1101/053421 2016-05-14 Epidemiology CC BY-ND Fractional Dosing of Yellow Fever Vaccine to Extend Supply: A Modeling Study Joseph T. Wu|Corey M. Peak|Gabriel M. Leung|Marc Lipsitch University of Hong Kong;|Harvard T.H. Chan School of Public Health;|Harvard Chan School of Public Health
http://dx.doi.org/10.1101/053256 2016-05-14 Genomics Improved assembly of noisy long reads by k-mer validation A. Bernardo Carvalho|Eduardo G Dupim|Gabriel Nassar Universidade Federal do Ro de Janeiro
http://dx.doi.org/10.1101/053488 2016-05-15 Neuroscience CC BY-NC Figure-ground organization in visual cortex for natural scenes Jonathan R. Williford|Rudiger von der Heydt Netherlands Institute for Neuroscience;|Johns Hopkins University
http://dx.doi.org/10.1101/053520 2016-05-15 Systems Biology CC BY Advances in the integration of transcriptional regulatory information into genome-scale metabolic models R.P. Vivek-Ananth|Areejit Samal Institute of Mathematical Sciences
http://dx.doi.org/10.1101/053504 2016-05-15 Plant Biology CC BY-ND The proteasome acts as a hub for local and systemic plant immunity in Arabidopsis thaliana and constitutes a virulence target of Pseudomonas syringae type-III effector proteins Suayib Ustun|Arsheed Sheikh|Selena Gimenez-Ibanez|Alexandra Jones|Vardis Ntoukakis|Frederik Bornke Leibniz Insitute of Vegetable and Ornamental Crops;|School of Life Sciences, University of Warwick;|Plant Molecular Genetics Department, Centro Nacional de Biotecnologia-CSIC (CNB-CSIC)
http://dx.doi.org/10.1101/053470 2016-05-15 Biophysics CC BY-NC-ND Utilizing Social Media and Video Games to Control #DIY Microscopes Maxime Leblanc-Latour|Craig Bryan|Andrew Pelling University of Ottawa
http://dx.doi.org/10.1101/053512 2016-05-15 Microbiology CC BY Stable host gene expression in the gut of adult Drosophila melanogaster with different bacterial mono-associations Carolyn Elya|Vivian Zhang|Will Ludington|Michael B Eisen University of California Berkeley
http://dx.doi.org/10.1101/053702 2016-05-16 Bioinformatics CC BY AlmostSignificant: Simplifying quality control of high-throughput sequencing data. Joseph Ward|Christian Cole|Melanie Febrer|Geoffrey Barton University of Dundee
http://dx.doi.org/10.1101/053777 2016-05-16 Microbiology Dynamic substrate preferences and predicted metabolic properties of a simple microbial consortium Onur Erbilgin|Benjamin P Bowen|Suzanne M Kosina|Stefan Jenkins|Rebecca K Lau|Trent R Northen Lawrence Berkeley National Laboratory;|Lawrence Berkeley National Laboratory, Joint Genome Institute
http://dx.doi.org/10.1101/052969 2016-05-16 Biophysics Stochastic simulation tools and continuum models for describing two-dimensional collective cell spreading with universal growth functions Wang Jin|Catherine Penington|Scott McCue|Matthew Simpson Queensland University of Technology
http://dx.doi.org/10.1101/053694 2016-05-16 Bioinformatics CC BY gmos: Rapid detection of genome mosaicism over short evolutionary distances Mirjana Domazet-Loso|Tomislav Domazet-Loso University of Zagreb Faculty of Electrical Engineering and Computing;|Ruđer Bosković Institute
http://dx.doi.org/10.1101/053603 2016-05-16 Biophysics Markov models of the apo-MDM2 lid region reveal diffuse yet two-state binding dynamics and receptor poses for computational docking Sudipto Mukherjee|George A Pantelopulos|Vincent A Voelz Temple University
http://dx.doi.org/10.1101/053546 2016-05-16 Evolutionary Biology CC BY-NC-ND Characterization by Next Generation Sequencing Reveals the Molecular Mechanisms Driving the Faster Evolutionary rate of Cassava brown streak virus Compared with Ugandan cassava brown streak virus Titus Alicai|Joseph Ndunguru|Peter Sseruwagi|Fred Tairo|Geoffrey Okao-Okuja|Resty Nanvubya|Lilliane Kiiza|Laura Kubatko|Monica A Kehoe|Laura M Boykin National Crops Resources Research Institute;|Mikocheni Agricultural Research Institute;|The Ohio State University;|DAFWA;|The University of Western Australia
http://dx.doi.org/10.1101/053686 2016-05-16 Bioinformatics CC BY Accuracy, speed and error tolerance of short DNA sequence aligners Mark Ziemann Baker IDI Heart and Diabetes Insitute
http://dx.doi.org/10.1101/053751 2016-05-16 Cell Biology An improved reversibly dimerizing mutant of the FK506-binding protein FKBP Juan J. Barrero|Effrosyni Papanikou|Jason C. Casler|Kasey J. Day|Benjamin S. Glick University of Chicago
http://dx.doi.org/10.1101/053637 2016-05-16 Neuroscience CC BY-NC-ND Dopamine neurons change the type of excitability in response to stimuli Ekaterina Morozova|Denis Zakharov|Boris Gutkin|Christopher Lapish|Alexey Kuznetsov Indiana University;|Institute of Applied Physics;|Ecole Normale Superieure PSL University;|Indiana University - Purdue University
http://dx.doi.org/10.1101/053595 2016-05-16 Neuroscience Bottom-up and top-down computations in high-level visual cortex Kendrick Kay|Jason Yeatman University of Minnesota;|University of Washington
http://dx.doi.org/10.1101/053652 2016-05-16 Systems Biology CC BY MAMMOTh: a new database for curated MAthematical Models of bioMOlecular sysTems Fedor Kazantsev|Ilya Akberdin|Sergey Lashin|Natalia Ree|Vladimir Timonov|Alexander Ratushny|Tamara Khlebodarova|Vitaly Likhoshvai IC&G SB RAS;|Novosibirsk State University;|Center for Infectious Disease Research (formerly Seattle Biomedical Research Institute)
http://dx.doi.org/10.1101/053728 2016-05-16 Microbiology Increasing tolerance of hospital Enterococcus faecium to hand-rub alcohols Timothy Stinear|Sacha J. Pidot|Margaret M. C. Lam|Susan A. Ballard|M. Lindsay Grayson|Andrew A. Mahony|Elizabeth A. Grabsch|Geoffrey W. Coombs|J. Owen Robinson|Benjamin P. Howden|Paul D. R. Johnson University of Melbourne;|Austin Health;|Murdoch University
http://dx.doi.org/10.1101/053629 2016-05-16 Bioinformatics CC BY-NC-ND Synthesizer: Expediting synthesis studies from context-free data with natural language processing Lisa Gandy|Jordan Gumm|Benjamin Fertig|Michael J Kennish|Sameer Chavan|Ann Thessen|Luigi Marchionni|Xiaoxan Xia|Shambhavi Shankrit|Elana J Fertig Central Michigan University;|University of Maryland College Park;|Rutgers University;|University of Colorado Denver;|Ronan Institute for Independent Scholarship;|Johns Hopkins University
http://dx.doi.org/10.1101/053785 2016-05-16 Neuroscience Cerebellar learning using perturbations Guy Bouvier|Claudia Clopath|Celian Bimbard|Jean-Pierre Nadal|Nicolas Brunel|Vincent Hakim|Boris Barbour Ecole Normale Supérieure, CNRS, INSERM, PSL;|Imperial College London;|Ecole Normale Supérieure, CNRS, PSL;|Ecole Normale Supérieure, CNRS, EHESS, PSL;|Chicago University
http://dx.doi.org/10.1101/053793 2016-05-16 Evolutionary Biology CC BY-NC-ND Excess of deleterious mutations around HLA genes reveals evolutionary cost of balancing selection Tobias L Lenz|Victor Spirin|Daniel M Jordan|Shamil R Sunyaev Max Planck Institute for Evolutionary Biology;|Brigham & Women's Hospital, Harvard Medical School
http://dx.doi.org/10.1101/053413 2016-05-16 Neuroscience CC BY-NC-ND Nociceptor-enriched genes required for normal thermal nociception. Ken Honjo|Stephanie E. Mauthner|Yu Wang|J. H. Pate Skene|W. Daniel Tracey University of Tsukuba;|Indiana University;|Duke University Medical Center
http://dx.doi.org/10.1101/053496 2016-05-16 Bioinformatics CC BY-NC-ND MODA: MOdule Differential Analysis for weighted gene co-expression network Dong Li|James Brown|Luisa Orsini|Zhisong Pan|Guyu Hu|Shan He School of Computer Science, University of Birmingham, UK;|Department of Statistics, University of California Berkeley, USA;|School of Biosciences, The University of Birmingham, UK;|PLA University of Science and Technology, China
http://dx.doi.org/10.1101/053405 2016-05-16 Evolutionary Biology Excess of mutational jackpot events in growing populations due to gene surfing Diana Fusco|Matti Gralka|Alex Anderson|Jona Kayser|Oskar Hallatschek UC Berkeley;|University of California, Berkeley
http://dx.doi.org/10.1101/053538 2016-05-16 Microbiology CC BY Acute induction of anomalous blood clotting by molecular amplification of highly substoichiometric levels of bacterial lipopolysaccharide (LPS) Etheresia Pretorius|Janette Bester|Sthembile Mbotwa|Christopher Robinson|Douglas B Kell University of Pretoria;|University of Pretoris;|The University of Manchester
http://dx.doi.org/10.1101/053900 2016-05-17 Neuroscience C. elegans PVD Neurons: A Platform for Functionally Validating andCharacterizing Neuropsychiatric Risk Genes Cristina Aguirre-Chen|Nuri Kim|Olivia Mendivil Ramos|Melissa Kramer|W. Richard McCombie|Christopher M. Hammell Cold Spring Harbor Laboratory;|Stony Brook University, Medical Scientist Training Program
http://dx.doi.org/10.1101/053876 2016-05-17 Bioinformatics Protein complex prediction for large protein protein interaction networks with the Core&Peel Method Marco Pellegrini|Miriam Baglioni|Filippo Geraci Consiglio Nazionale delle Ricerche
http://dx.doi.org/10.1101/051326 2016-05-17 Epidemiology CC BY-NC Serological evidence for localized and persistent antibody response in Zika virus-positive neonates with microcephaly (Brazil, 2015)- a secondary analysis Andrew A. Lover University of California, San Francisco
http://dx.doi.org/10.1101/053769 2016-05-17 Epidemiology CC BY-NC-ND Reanalysis of the Anthrax Epidemic in Rhodesia, 1978-84 James Wilson|Walter Brediger|Tom Albright|Julie Smith Gagen University of Nevada-Reno
http://dx.doi.org/10.1101/053678 2016-05-17 Molecular Biology A hyperactive transcriptional state marks genome reactivation at the mitosis-G1 transition Chris C.-S. Hsiung|Caroline Bartman|Peng Huang|Paul Ginart|Aaron J. Stonestrom|Cheryl A. Keller|Carolyne Face|Kristen S. Jahn|Perry Evans|Laavanya Sankaranarayanan|Belinda Giardine|Ross C. Hardison|Arjun Raj|Gerd A. Blobel The Children's Hospital of Philadelphia;|University of Pennsylvania;|Pennsylvania State University;|Pennsylvanian State University
http://dx.doi.org/10.1101/053918 2016-05-17 Microbiology CC BY-ND Environmental modification via a quorum sensing molecule influences the social landscape of siderophore production Roman Popat|Freya Harrison|Luke McNally|Paul Williams|Stephen P Diggle University of Nottingham;|University of Edinburgh
http://dx.doi.org/10.1101/053967 2016-05-17 Immunology CC BY-NC-ND 50-valent inactivated rhinovirus vaccine is broadly immunogenic in rhesus macaques Sujin Lee|Minh Trang Nguyen|Michael Currier|Joe Jenkins|Elizabeth Strobert|Adriana Kajon|Ranjna Madan-Lala|Yury Bochkov|James Gern|Krishnendu Roy|Xiaoyan Lu|Dean Erdman|Paul Spearman|Martin Moore Emory University;|Lovelace Respiratory Research Institute;|Georgia Institute of Technology;|University of Madison-Wisconsin;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/053868 2016-05-17 Bioinformatics CC BY-NC-ND EGAD: Ultra-fast functional analysis of gene networks Sara Ballouz|Melanie Weber|Paul Pavlidis|Jesse Gillis CSHL;|University of Leipzig;|UBC
http://dx.doi.org/10.1101/053843 2016-05-17 Evolutionary Biology CC BY-NC-ND Comparing the Statistical Fate of Paralogous and Orthologous Sequences Florian Massip|Michael Sheinman|Sophie Schbath|Peter Arndt Laboratoire de Biometrie et de Biologie Evolutive;|Department of Biology, Faculty of Science, Utrecht University;|INRA, UR1404 Mathematique Informatique Appliquees du Genome a l'Environnement;|Max Planck Institute for Molecular Genetic
http://dx.doi.org/10.1101/053959 2016-05-17 Neuroscience CC BY-NC-ND Euclidean distance as a measure of ventral and dorsal white matter connectivity Philipp Kellmeyer Department of Neurosurgery, Epilepsy Center, Medical Center - University of Freiburg, Germany
http://dx.doi.org/10.1101/053819 2016-05-17 Evolutionary Biology CC BY-NC-ND Eusociality and other improbable evolutionary outcomes can be accelerated by trait hitchhiking in boom-bust feedback loops William H. Calvin University of Washington
http://dx.doi.org/10.1101/053611 2016-05-17 Evolutionary Biology CC BY-NC-ND Model selection in statistical historical biogeography of Neotropical insects-the Exophthalmus genus complex (Curculionidae: Entiminae) Guanyang Zhang|Usmaan Basharat|Nicholas Matzke|Nico Franz Arizona State University;|The University of Arizona College of Medicine;|National University of Australia
http://dx.doi.org/10.1101/054171 2016-05-18 Neuroscience CC BY-NC-ND Experience-dependent increases in sharp-wave ripples near visual targets Timothy K Leonard|Kari L Hoffman York University
http://dx.doi.org/10.1101/053827 2016-05-18 Neuroscience CC BY-NC-ND A brush fire feedback loop for the ramp-like rise in hominin brain size that began 2.4 million years ago William H. Calvin University of Washington
http://dx.doi.org/10.1101/053298 2016-05-18 Neuroscience CC BY-NC-ND Goggatomy: a Method for Opening Small Cuticular Compartments in Arthropods for Physiological Experiments Alan R Kay|Davide Raccuglia|Jon Scholte|Elena Loukianova|Christopher A Barwacz|Steven A Armstrong|C Allan Guymon|Michael N Nitabach|Daniel F Eberl University of Iowa;|Yale Univ;|Univ. of Iowa;|Yale Univ.
http://dx.doi.org/10.1101/053892 2016-05-18 Neuroscience CC BY-NC-ND Spatiotemporal structure of intracranial electric fields induced by transcranial electric stimulation in human and nonhuman primates Alexander Opitz|Arnaud Falchier|Chao-Gan Yan|Erin Yeagle|Gary Linn|Pierre Megevand|Axel Thielscher|Michael Milham|Ashesh Mehta|Charles Schroeder Nathan Kline Institute;|Department of Neurosurgery, Hofstra North Shore LIJ School of Medicine;|Danish Research Center for Magnetic Resonance
http://dx.doi.org/10.1101/054122 2016-05-18 Evolutionary Biology CC BY-NC-ND Landscape connectivity of a noxious invasive weed: human-aided or natural dispersal? Diego F Alvarado-Serrano|Megan Van Etten|Shu-Mei Chang|Regina Baucom University of Michigan;|University of Georgia
http://dx.doi.org/10.1101/054163 2016-05-18 Neuroscience Transformation of Independent Oscillatory Inputs into Temporally Precise Rate Codes David Tingley|Andrew Alexander|Laleh Quinn|Andrea Chiba|Douglas Nitz New York University;|University of California, San Diego
http://dx.doi.org/10.1101/054155 2016-05-18 Genomics CC BY-NC-ND Single molecule long read sequencing resolves the detailed structure of complex satellite DNA loci in Drosophila melanogaster Daniel Emerson Khost|Danna Eickbush|Amanda M Larracuente University of Rochester
http://dx.doi.org/10.1101/054023 2016-05-18 Genomics CC BY A variant by any name: quantifying annotation discordance across tools and clinical databases Jennifer Yen|Sarah Garcia|Aldrin Montana|Jason Harris|Steven Chervitz|John West|Richard Chen|Deanna M Church Personalis Inc
http://dx.doi.org/10.1101/054148 2016-05-18 Scientific Communication Illuminating Uveitis: Metagenomic Deep Sequencing Identifies Common and Rare Pathogens Thuy Doan|Michael R Wilson|Emily D Crawford|Eric D Chow|Lillian M Khan|Kristeene A Knopp|Dongxiang Xia|Jill K Hacker|Jay M Stewart|John A Gonzales|Nisha R Acharya|Joseph L DeRisi Proctor Foundation, University of California, San Francisco;|University of California, San Francisco;|California Department of Public Health
http://dx.doi.org/10.1101/054072 2016-05-18 Microbiology CC BY-NC-ND Evidence for reassortment of highly divergent novel rotaviruses from bats in Cameroon, without evidence for human interspecies transmissions Claude K Yinda|Mark Zeller|Nadiaá Conceicao-Neto|Piet Maes|Ward Deboutte|Leen Beller|Elisabeth Heylen|Stephen M Ghogomu|Marc Van Ranst|Jelle Matthijnssens KU Leuven - University of Leuven, Department of Microbiology and Immunology, Laboratory of Viral Me;|KU Leuven - University of Leuven, Department of Microbiology and Immunology, Laboratory for Clinica;|University of Buea, Department of Biochemistry and Molecular Biology, Molecular and cell biology la
http://dx.doi.org/10.1101/053942 2016-05-18 Microbiology CC BY-ND Genome reduction in an abundant and ubiquitous soil bacterial lineage Tess Brewer|Kim Handley|Paul Carini|Jack Gibert|Noah Fierer University of Colorado Boulder;|The University of Auckland;|The University of Chicago
http://dx.doi.org/10.1101/054080 2016-05-18 Neuroscience CC BY-NC-ND PackIO and EphysViewer: software tools for acquisition and analysis of neuroscience data Brendon O Watson|Rafael Yuste|Adam M Packer Weill-Cornell Medical College;|Columbia University;|UCL
http://dx.doi.org/10.1101/053975 2016-05-18 Bioinformatics CC BY A comprehensive and scalable database search system for metaproteomics Sandip Chatterjee|Gregory Stupp|Sung Kyu (Robin) Park|Jean-Christophe Ducom|John R Yates|Andrew I Su|Dennis W. Wolan The Scripps Research Institute;|Scripps Research Institute
http://dx.doi.org/10.1101/054106 2016-05-18 Biochemistry CC BY Glu-370 in the Large Subunit Influences the Substrate Binding, Allosteric, and Heat Stability Properties of Potato ADP-glucose Pyrophosphorylase Ayse B Seferoglu|Seref Gul|Ugur M Dikbas|Kaan Koper|Ibrahim Baris|Mahmut Caliskan|Gul Cevahir|Ibrahim Kavakli Koc University;|Istanbul University
http://dx.doi.org/10.1101/054015 2016-05-18 Genomics Genomic Prediction of Hybrid Combinations in the Early Stages of a Maize Hybrid Breeding Pipeline Dnyaneshwar Kadam|Sarah Potts|Martin O Bohn|Alexander E. Lipka|Aaron Lorenz University of Nebraska, United States;|University of Illinois, United States;|University of Illinois at Urbana-Champaign, United States;|University of Minnesota, United States
http://dx.doi.org/10.1101/054031 2016-05-18 Genomics Initiation of mtDNA transcription is followed by pausing, and diverge across human cell types and during evolution Amit Blumberg|Edward J. Rice|Anshul Kundaje|Charles G. Danko|Dan Mishmar Ben-Gurion University of the Negev;|Baker Institute for Animal Health, Cornell University;|Stanford University
http://dx.doi.org/10.1101/054049 2016-05-18 Bioinformatics CC BY-NC-ND Retrieving the topology of chromatin domains from deep sequencing data with correlation functions Jana Molitor|Jan-Philipp Mallm|Karsten Rippe|Fabian Erdel German Cancer Research Center (DKFZ);|Deutsches Krebsforschungszentrum;|Columbia University
http://dx.doi.org/10.1101/054007 2016-05-18 Evolutionary Biology Time-dependent fitness effects can drive bet-hedging populations extinct Eric Libby|William C Ratcliff Santa Fe Institute;|Georgia Tech
http://dx.doi.org/10.1101/054056 2016-05-18 Biophysics CC BY-NC Large scale chromosome folding is stable against local changes in chromatin structure Ana Maria Florescu|Pierre Therizols|Angelo Rosa SISSA;|INSERM UMR 944
http://dx.doi.org/10.1101/053983 2016-05-18 Microbiology CC BY-NC-ND Establishment and stability of the latent HIV-1 DNA reservoir Johanna Brodin|Fabio Zanini|Lina Thebo|Christa Lanz|Goran Bratt|Richard Neher|Jan Albert Karolinska Institute;|Stanford University;|Max Planck Institute for Developmental Biology;|Stockholm South General Hospital
http://dx.doi.org/10.1101/054288 2016-05-19 Neuroscience Top-down modulation of stimulus drive via beta-gamma cross-frequency interaction. Craig Geoffrey Richter|William Hedley Thompson|Conrado A Bosman|Pascal Fries Ernst Struengmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|Karolinska Institute;|University of Amsterdam
http://dx.doi.org/10.1101/054379 2016-05-19 Animal Behavior and Cognition CC BY Deriving shape-based features for C. elegans locomotion using dimensionality reduction methods Bertalan Gyenes|Andre Brown Imperial College, London (GB)
http://dx.doi.org/10.1101/054361 2016-05-19 Genetics CC BY-NC Integrative genetic and epigenetic analysis uncovers regulatory mechanisms of autoimmune disease Parisa Shooshtari|Hailiang Huang|Chris Cotsapas Yale School of Medicine;|Massachusetts General Hospital
http://dx.doi.org/10.1101/054387 2016-05-19 Genomics CC BY-NC-ND Systematic comparison of monoclonal versus polyclonal antibodies for mapping histone modifications by ChIP-seq Michele Busby|Catherine Xue|Yossi Farjoun|Elizabeth Gienger|Ido Yofe|Adrianne Gladden|Chad Nusbaum|Alon Goren The Broad Institute;|Weizmann Institute of Science;|The Broad institute
http://dx.doi.org/10.1101/054239 2016-05-19 Cancer Biology CC BY-NC MDM2 Case Study: Computational Protocol Utilizing Protein Flexibility Improves Ligand Binding Mode Predictions Anthony T Ascone|Ridwan Sakidja Missouri State University
http://dx.doi.org/10.1101/054221 2016-05-19 Bioinformatics LMethyR-SVM: Predict human enhancers using low methylated regions based on weighted support vector machines Yang Dai|Jingting Xu|Hong Hu University of Illinois at Chicago
http://dx.doi.org/10.1101/054247 2016-05-19 Neuroscience CC BY-NC-ND Reading out olfactory receptors: feedforward circuits detect odors in mixtures without demixing Alexander Mathis|Dan Rokni|Vikrant Kapoor|Matthias Bethge|Venkatesh Murthy Harvard University / University of Tuebingen;|Harvard University;|University of Tuebingen
http://dx.doi.org/10.1101/054205 2016-05-19 Bioinformatics CC BY-NC-ND WEVOTE: Weighted Voting Taxonomic Identification Method of Microbial Sequences Ahmed Metwally|Yang Dai|Patricia Finn|David Perkins Bioinformatics program, Department of Bioengineering, University of Illinois at Chicago;|Department of Medicine, University of Illinois at Chicago
http://dx.doi.org/10.1101/054346 2016-05-19 Cancer Biology CC BY-NC-ND Clonal assessment of functional mutations in cancer based on a genotype-aware method for clonal reconstruction Paul Deveau|Leo Colmet Daage|Derek Oldridge|Virginie Bernard|Angela Bellini|Mathieu Chicard|Nathalie Clement|Eve Lapouble|Valerie Combaret|Anne Boland|Vincent Meyer|Jean-Francois Deleuze|Isabelle Janoueix-Lerosey|Emmanuel Barillot|Olivier Delattre|John Maris|Gudrun Schleiermacher|Valentina Boeva INSERM U900, U830;|INSERM U830;|Children's Hospital of Philadelphia;|Institut Curie;|Centre Léon-Bérard;|Centre National de Génotypage, Institut de Génomique, CEA;|INSERM U900;|INSERM U1016
http://dx.doi.org/10.1101/054197 2016-05-19 Molecular Biology CC BY APOBEC3A/B-induced mutagenesis is responsible for 20% of heritable mutations in the TpCpW context Vladimir B. Seplyarskiy|Maria A. Andrianova|Georgii A. Bazykin IITP;|IITP, MSU
http://dx.doi.org/10.1101/054338 2016-05-19 Genetics Parent-of-origin effect rough endosperm mutants in maize Fang Bai|Mary Daliberti|Alyssa Bagadion|Niaoyun Xi|Yubing Li|John Baier|Chi-Wah Tseung|Matthew M. S. Evans|A. Mark Settles University of Florida, United States;|Chinese Academy of Agricultural Sciences, United States;|Carnegie Institution for Science, United States
http://dx.doi.org/10.1101/054353 2016-05-20 Systems Biology CC BY-NC Kinematic analysis of cell lineage reveals coherent and robust mechanical deformation patterns in zebrafish gastrulation David Pastor-Escuredo|Benoit Lombadot|Thierry Savy|Adeline Boyreau|Jose Maria Goicolea|Andres Santos|Paul Bourgine|Juan Carlos del Alamo|Nadine Peyrieras|Maria Jesus Ledesma Carbayo UPM;|Ecole Polytechnique;|CNRS;|UC San Diego
http://dx.doi.org/10.1101/054437 2016-05-20 Neuroscience CC BY-NC-ND Brain structure in pediatric Tourette syndrome Alton C. Williams|Deanna J. Greene|Jonathan M. Koller|Bradley L. Schlaggar|Kevin J. Black Medical University of South Carolina;|Washington University in St. Louis;|Washington University School of Medicine
http://dx.doi.org/10.1101/054478 2016-05-20 Microbiology Millions of Boreal Shield Lakes can be used to Probe the Evolution of Archaean Ocean Life Sherry Schiff|Jackson Tsuji|Lingling Wu|Jason Venkiteswaran|Lewis Molot|Richard Elgood|Michael Paterson|Josh Neufeld University of Waterloo;|Wilfrid Laurier University;|York University;|IISD-Experimental Lakes Area
http://dx.doi.org/10.1101/054460 2016-05-20 Genetics CC BY-NC-ND Selective vulnerability of the brain to mutational classes explain why the same types of genes underlie different neuropsychiatric diseases Shahar Shohat|Eyal Ben-David|Sagiv Shifman The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/053991 2016-05-20 Scientific Communication CC BY-NC Diagnostic assessments of student thinking about stochastic processes. Michael W. Klymkowsky|Katja Koehler|Melanie Cooper University of Colorado Boulder;|Eidgenossische Technische Hochschule (ETH);|Michigan State University
http://dx.doi.org/10.1101/054486 2016-05-20 Genomics CC BY-NC-ND Disruption of human astn2 function by ZIKV ns4b gene as a molecular basis for Zika viral microcephaly Bhaskar Ganguly|Enakshi Ganguly Animal Biotechnology Center;|MediCiti Institute of Medical Sciences
http://dx.doi.org/10.1101/054452 2016-05-20 Biophysics Long shelf-life streptavidin support-films suitable for electron microscopy of biological macromolecules Bong-Gyoon Han|Zoe Watson|Hannah Kang|Arto Pulk|Kenneth Downing|Jamie Cate|Robert Glaeser Lawrence Berkeley National Laboratory;|University of California, Berkeley;|UC Berkeley
http://dx.doi.org/10.1101/054494 2016-05-20 Genetics A better design for stratified medicine based on genomic prediction Sang Hong Lee|W.M. Shalanee P. Weerasinghe|Naomi Wray|Michael Goddard|Julius Van der Werf University of New England;|The University of Queensland;|University of Melbourne
http://dx.doi.org/10.1101/054403 2016-05-20 Epidemiology CC BY-NC-ND Population effect of influenza vaccination under co-circulation of non-vaccine variants and the case for a multi-strain A/H3N2 vaccine component Colin J Worby|Jacco Wallinga|Marc Lipsitch|Edward Goldstein Harvard TH Chan School of Public Health;|National Institute of Public Health and the Environment (RIVM)
http://dx.doi.org/10.1101/054312 2016-05-20 Neuroscience CC BY-NC High-throughput mapping of single neuron projections by sequencing of barcoded RNA Justus M Kebschull|Pedro Garcia da Silva|Ashlan P Reid|Ian D Peikon|Dinu F Albeanu|Anthony M Zador Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/053058 2016-05-20 Synthetic Biology Continuous Genetic Recording with Self-Targeting CRISPR-Cas in Human Cells Samuel Perli|Cheryl Cui|Timothy K Lu MIT;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/054411 2016-05-20 Bioinformatics DeepCyTOF: Automated Cell Classification of Mass Cytometry Data by Deep Learning and Domain Adaptation Huamin Li|Uri Shaham|Yi Yao|Ruth Montgomery|Yuval Kluger Yale University
http://dx.doi.org/10.1101/054262 2016-05-20 Neuroscience CC BY Best Practices in Data Analysis and Sharing in Neuroimaging using MRI Thomas E. Nichols|Samir Das|Simon B. Eickhoff|Alan C. Evans|Tristan Glatard|Michael Hanke|Nikolaus Kriegeskorte|Michae P. Milham|Russell A. Poldrack|Jean-Baptiste Poline|Erika Proal|Bertrand Thirion|David C. Van Essen|Tonya White|B. T. Thomas Yeo University of Warwick;|McGill University;|Heinrich-Heine University Dusseldorf;|Otto-von-Guericke-University Magdeburg;|MRC Cognition and Brain Sciences Unit;|Child Mind Institute;|Stanford University;|University of California, Berkeley;|Instituto Nacional de Psiquiatria Ramon de la Fuente Muniz & Neuroingenia;|Inria, Paris-Saclay University;|Washington University in St. Louis;|Erasmus University Medical Center;|National University of Singapore
http://dx.doi.org/10.1101/054064 2016-05-21 Biophysics CC BY-NC-ND Combining complex networks and data mining: why and how Massimiliano Zanin|David Papo|Pedro A. Sousa|Ernestina Menasalvas|Andrea Nicchi|Elaine Kubik|Stefano Boccaletti INNAXIS Foundation & Research Institute;|Universidad Politecnica de Madrid;|Universidade Nova de Lisboa;|Universita degli Studi Guglielmo Marconi;|Columbia University;|CNR- Institute of Complex Systems
http://dx.doi.org/10.1101/052795 2016-05-21 Genomics CC BY-NC Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion Estel Aparicio-Prat|Carme Arnan|Taisia Polidori|Toni Hermoso|Emilio Palumbo|Julia Ponomarenko|Roderic Guigo|Rory Johnson CRG
http://dx.doi.org/10.1101/054759 2016-05-21 Neuroscience CC BY-NC-ND Parvalbumin interneuron dysfunction in a thalamus - prefrontal cortex circuit in Disc1 deficiency mice Kristen Delevich|Hanna Jaaro-Peled|Mario Penzo|Akira Sawa|Bo Li Cold Spring Harbor Laboratory;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/054734 2016-05-21 Pathology CC BY Substoichiometric molecular control and amplification of the initiation and nature of amyloid fibril formation: lessons from and for blood clotting. BioRXiv preprint. Douglas B Kell|Etheresia Pretorius The University of Manchester;|University of Pretoria
http://dx.doi.org/10.1101/054742 2016-05-21 Molecular Biology CC BY-NC-ND C2c2 is a single-component programmable RNA-guided RNA-targeting CRISPR effector Omar O Abudayyeh|Jonathan S Gootenberg|Silvana Konermann|Julia Joung|Ian M Slaymaker|David BT Cox|Sergey Shmakov|Kira S Makarova|Ekaterina Semenova|Leonid Minakhin|Konstantin Severinov|Aviv Regev|Eric S Lander|Eugene V Koonin|Feng Zhang Broad Institute of MIT and Harvard;|National Institutes of Health;|Rutgers University;|Skolkovo Institute of Science and Technology;|Broad Institute of MIT and Harvard; McGovern Institute for Brain Research at MIT
http://dx.doi.org/10.1101/054684 2016-05-21 Genetics CC BY-NC-ND Improved methods for multi-trait fine mapping of pleiotropic risk loci Gleb Kichaev|Megan Roytman|Ruth Johnson|Eleazar Eskin|Sara Lindstroem|Peter Kraft|Bogdan Pasaniuc University of California, Los Angeles;|University of Washington;|Harvard School of Public Health
http://dx.doi.org/10.1101/046979 2016-05-21 Microbiology Isolation and characterization of electrochemically active subsurface Delftia and Azonexus species Yamini Jangir|Sarah French|Lily M. Momper|Duane P. Moser|Jan P. Amend|Mohamed Y. El-Naggar University of Southern California;|Desert Research Institute
http://dx.doi.org/10.1101/054544 2016-05-21 Evolutionary Biology CC BY-NC A full characterization of evolutionary tree topologies Caroline Colijn|Giacomo Plazzotta Imperial College London
http://dx.doi.org/10.1101/054528 2016-05-21 Evolutionary Biology CC BY-NC-ND Coalescent inferences in conservation genetics: should the exception become the rule? Valeria Montano EPFL
http://dx.doi.org/10.1101/054569 2016-05-21 Evolutionary Biology Steep difference between ecotypes and intermediate phenotype depression for shell trait integration in a marine snail hybrid zone. Carlos Garcia Santiago de Compostela University
http://dx.doi.org/10.1101/054551 2016-05-21 Molecular Biology Cryptic diversity and population structure at small scales: The freshwater snail Ancylus (Planorbidae, Pulmonata) in the Montseny mountain range Jan Niklas Macher|Martina Weiss|Arne Beermann|Florian Leese University Duisburg-Essen
http://dx.doi.org/10.1101/052704 2016-05-21 Cell Biology Robust Gap Repair in the Contractile Ring Ensures Timely Completion of Cytokinesis Ana Marta Silva|Daniel Sampaio Osorio|Antonio Jose Pereira|Helder Maiato|Ines Mendes Mendes Pinto|Boris Rubinstein|Reto Gassmann|Ivo Andreas A Telley|Ana Xavier de Carvalho i3S Instituto de Investigacao e Inovacao em Saude, Universidade do Porto, Portugal;|International Iberian Nanotechnology Laboratory INL, Braga, Portugal;|Stowers Institute for Medical Research, Kansas City, MO, USA;|Instituto Gulbenkian Ciencia IGC, Oeiras, Portugal
http://dx.doi.org/10.1101/054700 2016-05-21 Genomics The evolution of alternative splicing in Drosophila Lauren Gibilisco|Qi Zhou|Shivani Mahajan|Doris Bachtrog University of California, Berkeley
http://dx.doi.org/10.1101/054635 2016-05-21 Bioinformatics CC BY-NC The Use of Informativity in the Development of Robust Metaviromics-based Examinations Siobhan C Watkins|Thomas Hatzopoulos|Catherine Putonti Loyola University Chicago
http://dx.doi.org/10.1101/054593 2016-05-21 Plant Biology CC BY-NC-ND Circadian rhythms have significant effects on leaf-to-canopy gas exchange under field conditions Victor Resco de Dios|Arthur Gessler|Juan Pedro Ferrio|Josu G. Alday|Michael Bahn|Jorge del Castillo|Sebastien Devidal|Sonia Garcia-Munoz|Zachary Kayler|Damien Landais|Paula Martin-Gomez|Alexandru Milcu|Clement Piel|Karin Pirhofer-Walzl|Olivier Ravel|Serajis Salekin|David T Tissue|Mark G Tjoelker|Jordi Voltas|Jacques Roy Universitat de Lleida;|WSL;|University of Innsbruck;|CNRS;|IMIDRA;|ZALF;|Western Sydney University
http://dx.doi.org/10.1101/054601 2016-05-21 Systems Biology CC BY Tellurium: A Python Based Modeling and Reproducibility Platform for Systems Biology Herbert M Sauro|Kiri Choi|Jesse Kyle Medley|Carroline Cannistra|Matthias Konig|Lucian Smith|Kaylene Stocking University of Washington;|Humboldt University of Berlin
http://dx.doi.org/10.1101/054676 2016-05-21 Bioinformatics CC BY Sort-Seq Tools: sequence-function relationship modeling for massively parallel assays William T. Ireland|Justin B. Kinney California Institute of Technology;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/054585 2016-05-21 Evolutionary Biology CC BY-NC-ND Identifying outlier loci in admixed and in continuous populations using ancestral population differentiation statistics Helena Martins|Kevin Caye|Keurcien Luu|Michael GB Blum|Olivier Francois Univ. Grenoble-Alpes;|Univ Grenoble-Alpes
http://dx.doi.org/10.1101/053579 2016-05-22 Evolutionary Biology CC BY-NC-ND The evolution of coercive policing in genetically mixed groups: the case of plasmid copy number control Kyriakos Kentzoglanakis|Sam Brown|Richard Goldstein University College London;|School of Biology - Georgia Institute of Technology
http://dx.doi.org/10.1101/054783 2016-05-22 Bioinformatics CC BY-ND Scaffolding and Completing Genome Assemblies in Real-time with Nanopore Sequencing Minh Duc Cao|Son Hoang Nguyen|Devika Ganesamoorthy|Alysha Elliott|Matthew Cooper|Lachlan J M Coin The University of Queensland;|University of Queensland
http://dx.doi.org/10.1101/054809 2016-05-22 Developmental Biology Apontic regulates cell proliferation and development by activating the expression of hedgehog and cyclin E Xian-Feng Wang|Qian Cheng|Chong-Lei Fu|Zi-Zhang Zhou|Susumu Hirose|Qing-Xin Liu Shandong Agricultural University;|National Institute of Genetics
http://dx.doi.org/10.1101/054825 2016-05-22 Molecular Biology CC BY-NC-ND Evolution of local mutation rate and its determinants Nadezhda V Terekhanova|Vladimir Seplyarskiy|Ruslan A. Soldatov|Georgii A Bazykin Institute for Information Transmission Problems RAS;|IITP RAN;|M. V. Lomonosov Moscow State University;|IITP RAS
http://dx.doi.org/10.1101/054775 2016-05-22 Immunology CC BY Predicting Peptide-MHC Binding Affinities With Imputed Training Data Alex Rubinsteyn|Timothy O'Donnell|Nandita Damaraju|Jeffrey Hammerbacher Icahn School of Medicine at Mount Sinai;|Georgia Institute of Technology
http://dx.doi.org/10.1101/054791 2016-05-21 Genetics CC BY-NC Nonessential nucleoporins Nup2, Nup60 and Nup84 are required for normal meiosis in budding yeast Daniel B Chu|Sean M Burgess University of California, Davis, United States
http://dx.doi.org/10.1101/054577 2016-05-23 Biophysics Experiment-friendly kinetic analysis of single molecule data in and out of equilibrium Sonja Schmid|Markus Gotz|Thorsten Hugel University of Freiburg
http://dx.doi.org/10.1101/054858 2016-05-23 Cell Biology NCS1 regulates Ca2+-Dependent Focal Exocytosis of Golgi-derived Vesicles to Help Phagocytic uptake in Macrophages Nimi Vashi|Syed Bilal Ahmad Andrabi|Swapnil S Ghanwat|Mrutyunjay Suar|Dhiraj Kumar ICGEB;|School of Biotechnology, KIIT University;|International Centre for Genetic Engineering and Biotechnology
http://dx.doi.org/10.1101/054643 2016-05-23 Bioinformatics CC BY Beta regression improves the detection of differential DNA methylation for epigenetic epidemiology Timothy J Triche|Peter W. Laird|Kimberly D. Siegmund USC;|Van Andel Research Institute
http://dx.doi.org/10.1101/053934 2016-05-24 Scientific Communication and Education CC BY Building a Web of Linked Data Resources to Advance Neuroscience Research B Nolan Nichols|Satrajit S Ghosh|Tibor Auer|Thomas J Grabowskith|Camille Maumet|David Keator|Kilian Pohl|Jean-Baptiste Poline SRI International;|MIT;|Cambridge;|University of Washington;|University of Warwick;|University of California, Irvine;|University of California, Berkeley
http://dx.doi.org/10.1101/055293 2016-05-24 Immunology CC BY-NC-ND EXPERIMENTAL GRANULOMATOUS PULMONARY NOCARDIOSIS in BALB/c MICE Roque M. Mifuji Lira|Alberto Yairh Limon Flores|Mario Cesar Salinas Carmona|Alejandro Ortiz Stern Universidad Autónoma de Nuevo León
http://dx.doi.org/10.1101/055327 2016-05-24 Synthetic Biology CC BY-NC-ND Achieving large dynamic range control of gene expression with a compact RNA transcription-translation regulator Alexandra M Westbrook|Julius B Lucks Cornell University
http://dx.doi.org/10.1101/055244 2016-05-24 Genetics Genetic Influences on Hormonal Markers of Chronic HPA Function in Human Hair Elliot M Tucker-Drob|Andrew Grotzinger|Daniel A Briley|Laura E Engelhardt|Frank D Mann|Megan Patterson|Clemens Kirschbaum|Emma K Adam|Jessica A Church|Jennifer Tackett|K Paige Harden University of Texas at Austin;|University of Illinois at Urbana-Champaign;|Technische Universitat Dresden;|Northwestern University
http://dx.doi.org/10.1101/055251 2016-05-24 Evolutionary Biology CC BY-NC Eco-evolutionary dynamics of social dilemmas Chaitanya S Gokhale|Christoph Hauert Max Planck Institute for Evolutionary Biology;|University of British Columbia
http://dx.doi.org/10.1101/055285 2016-05-24 Cell Biology CC BY-NC-ND A scalable strategy for high-throughput GFP tagging of endogenous human proteins Manuel Leonetti|Sayaka Sekine|Daichi Kamiyama|Jonathan S Weissman|Bo Huang University of California, San Francisco;|UCSF
http://dx.doi.org/10.1101/055061 2016-05-24 Genomics REGULATORY ARCHITECTURE OF GENE EXPRESSION VARIATION IN THE THREESPINE STICKLEBACK, GASTEROSTEUS ACULEATUS. Victoria L Pritchard|Heidi M. Viitaniemi|R.J. Scott McCairns|Juha Merila|Mikko Nikinmaa|Craig R Primmer|Erica H Leder University of Turku;|University of Helsinki
http://dx.doi.org/10.1101/055046 2016-05-24 Ecology CC BY-NC-ND Not just methods: User expertise explains the variability of outcomes of genome-wide studies Kathleen E Lotterhos|Olivier Francois|Michael G.B. Blum Northeastern University;|Universite Grenoble Alpes, CNRS
http://dx.doi.org/10.1101/054973 2016-05-24 Neuroscience CC BY-NC-ND Dissection of Major Depressive Disorder using polygenic risk scores for Schizophrenia in two independent cohort. Heather C Whalley|Mark J Adams|Lynsey Hall|Toni-Kim Clarke|Ana Maria Fernandez-Pujals|Jude Gibson|Ella Wigmore|Jonathan Hafferty|Saskia P Hagenaars|Gail Davies|Archie Campbell|Caroline Hayward|Stephen M Lawrie|David Porteous|Ian Deary|Andrew M McIntosh University of Edinburgh;|University if Edinburgh
http://dx.doi.org/10.1101/055194 2016-05-24 Neuroscience CC BY-NC Activity flow over resting-state networks shapes cognitive task activations Michael W Cole|Takuya Ito|Danielle S Bassett|Douglas H Schultz Rutgers University-Newark;|University of Pennsylvania
http://dx.doi.org/10.1101/055210 2016-05-24 Cell Biology Talin-KANK1 interaction controls the recruitment of cortical microtubule stabilizing complexes to focal adhesions. Benjamin P. Bouchet|Rosemarie E. Gough|Dieudonnee van de Willige|York-Christoph Ammon|Harm Post|Guillaume Jacquemet|A.F. Maarten Altelaar|Albert J.R. Heck|Benjamin T. Goult|Anna Akhmanova Utrecht University;|University of Kent;|University of Turku
http://dx.doi.org/10.1101/055202 2016-05-24 Biophysics Stochastic models of gene transcription with upstream drives: exact solution and sample path characterization Justine Dattani|Mauricio Barahona Imperial College London
http://dx.doi.org/10.1101/055129 2016-05-24 Developmental Biology A Key Cytoskeletal Regulator of Ubiquitination Amplifies TGFβ Signaling during Mouse Developmental Vascular Patterning Ronak Shetty|Divyesh Joshi|Mamta Jain|Madavan Vasudevan|Jasper Chrysolite Paul|Ganesh Bhat|Poulomi Banerjee|Takaya Abe|Hiroshi Kiyonari|K Vijayraghavan|Maneesha S Inamdar Jawaharlal Nehru Centre for Advanced Scientific Research;|Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore, India;|Bionivid, Kasturi Nagar, Bangalore, India;|RIKEN Center for Life Science Technologies, Kobe, Japan;|NCBS
http://dx.doi.org/10.1101/055145 2016-05-24 Genomics Genetic surfing in human populations: from genes to genomes Stephan Peischl|Isabelle Dupanloup|Lars Bosshard|Laurent Excoffier University of Berne
http://dx.doi.org/10.1101/055178 2016-05-24 Bioinformatics CC BY APRICOT: an integrated computational pipeline for the sequence-based identification and characterization of RNA-binding proteins Malvika Sharan|Konrad Ulrich Foerstner|Ana Eulalio|Joerg Vogel University of Wuerzburg, Institute for Molecular Infection Biology;|University of Wuerzburg, Core Unit Systems Medicine
http://dx.doi.org/10.1101/055004 2016-05-24 Neuroscience CC BY-NC-ND Decoding the contents of working memory tracks strategy and performance in prospective remembering Jarrod A Lewis-Peacock|Jonathan D Cohen|Kenneth A Norman University of Texas at Austin;|Princeton University
http://dx.doi.org/10.1101/054932 2016-05-24 Microbiology CC BY-NC-ND Monomorphic genotypes within a generalist lineage of Campylobacter jejuni show signs of global dispersion Ann-Katrin Llarena|Ji Zhang|Minna Vehkala|Niko Valimaki|Marjaana Hakkinen|Marja-Liisa Hanninen|Mati Roasto|Mihkel Maesaar|Eduardo Taboada|Dillon Barker|Giuliano Garfolo|Cesare Camma|Elisabetta Di Giannatale|Jukka Corander|Mirko Rossi Faculty of Veterinary Medicine, University of Helsinki;|Department of Mathematics and Statistics, University of Helsinki;|Genome-Scale Biology Research Program, University of Helsinki;|Food and Feed Microbio Research Unit, Research and Laboratory Dept, Finnish Food Safety Authority;|Institute of Veterinary Medicine and Animal Sciences, Estonian University;|Veterinary and Food Laboratory, Fr. R. Kreutzwaldi 30, 51006 Tartu, Estonia;|National Microbiology Laboratory at Lethbridge, Public Health Agency of Canada;|National Reference Laboratory for Campylobacter, Istituto Zooprofilattico Sperimentale dell'Abruzzo;|Dept of Biostatistics, Institute of Basic Medical Sciences, Faculty of Medicine, University of Oslo
http://dx.doi.org/10.1101/055186 2016-05-24 Systems Biology Detecting differential growth of microbial populations with Gaussian process regression Peter D Tonner|Cynthia L Darnell|Barbara E Engelhardt|Amy Schmid Duke University;|Princeton University
http://dx.doi.org/10.1101/042838 2016-05-24 Systems Biology Personalized characterization of diseases using sample-specific networks Xiaoping Liu|Yuetong Wang|Hongbin Ji|Kazuyuki Aihara|Luonan Chen Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;|Institute of Biochemistry and Cell Biology;|Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences,;|the University of Tokyo;|Shanghai Institutes for Biological Sciences
http://dx.doi.org/10.1101/055079 2016-05-24 Developmental Biology The C. elegans NF2/Merlin Molecule NFM-1 Non-Autonomously Regulates Neuroblast Migration and Interacts Genetically with the Guidance Cue SLT-1/Slit Matthew P Josephson|Rana Aliani|Erik Lundquist The University of Kansas, United States
http://dx.doi.org/10.1101/054981 2016-05-24 Systems Biology Highly expressed proteins prefer less informative amino acids Guangzhong Wang SIBS
http://dx.doi.org/10.1101/054924 2016-05-24 Plant Biology CC BY The evolution of CHROMOMETHYLTRANSFERASES and gene body DNA methylation in plants Adam J. Bewick|Chad E. Niederhuth|Nicolas A. Rohr|Patrick T. Griffin|Jim Leebens-Mack|Robert J. Schmitz University of Georgia
http://dx.doi.org/10.1101/054940 2016-05-24 Ecology CC BY-NC-ND Exploring the Relationship between Abundance and Temperature with a Chemostat Model Cristian A. Solari|Vanina J. Galzenati|Brian J. McGill IBBEA-CONICET, Universidad de Buenos Aires;|School of Biology and Ecology, University of Maine
http://dx.doi.org/10.1101/049213 2016-05-24 Genomics CC BY-NC-ND Comparison of bacterial genome assembly software for MinION data Kim Judge|Martin Hunt|Sandra Reuter|Alan Tracey|Michael A Quail|Julian Parkhill|Sharon J Peacock University of Cambridge;|Wellcome Trust Sanger Institute;|Wellcome Trust Sanger Insitute;|London School of Hygiene and Tropical Medicine
http://dx.doi.org/10.1101/055053 2016-05-24 Bioengineering CC BY-NC-ND An open-hardware platform for optogenetics and photobiology Karl Gerhardt|Evan Olson|Sebastian Castillo-Hair|Lucas Hartsough|Brian Landry|Felix Ekness|Rayka Yokoo|Eric Gomez|Prabha Ramakrishnan|Junghae Suh|David Savage|Jeffrey Tabor Rice University;|University of California, Berkeley
http://dx.doi.org/10.1101/055020 2016-05-24 Bioinformatics CC BY-NC Reference-free comparison of microbial communities via de Bruijn graphs Serghei Mangul|David Koslicki UCLA;|Oregon State University
http://dx.doi.org/10.1101/054908 2016-05-24 Genomics CC BY-NC-ND Nucleolus association of chromosomal domains is largely maintained in cellular senescence despite massive nuclear reorganisation Stefan Dillinger|Tobias Straub|Attila Nemeth Biochemistry Center Regensburg, University of Regensburg, Regensburg, Germany;|Biomedical Center, Bioinformatics, Ludwig-Maximilians-University, Munich, Germany
http://dx.doi.org/10.1101/055038 2016-05-24 Genomics CC BY-NC-ND Prospects of genomic prediction in the USDA Soybean Germplasm Collection: Historical data creates robust models for enhancing selection of accessions. Diego Jarquin|James Specht|Aaron Lorenz University of Nebraska-Lincoln;|University of Minnesota
http://dx.doi.org/10.1101/055012 2016-05-24 Microbiology CC BY-NC-ND Metagenomic covariation along densely sampled environmental gradients in the Red Sea Luke R Thompson|Gareth J Williams|Mohamed F Haroon|Ahmed Shibl|Peter Larsen|Joshua Shorenstein|Rob Knight|Ulrich Stingl University of California San Diego, USA;|Bangor University, UK;|King Abdullah University of Science and Technology, KSA;|Argonne National Laboratory, USA
http://dx.doi.org/10.1101/051490 2016-05-24 Genomics CC BY-ND A precision metric for clinical genome sequencing Rachel L Goldfeder|Euan A Ashley Stanford University
http://dx.doi.org/10.1101/054965 2016-05-24 Bioinformatics CC BY Centrifuge: rapid and sensitive classification of metagenomic sequences Daehwan Kim|Li Song|Florian P Breitwieser|Steven Salzberg Johns Hopkins University School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/054999 2016-05-24 Microbiology CC BY-NC-ND Potential pitfalls of FISH microscopy as assessment method for anaerobic digesters Christian Abendroth|Sarah Hahnke|Michael Klocke|Olaf Luschnig Robert Boyle Institut e.V.;|Leibniz Institute for Agricultural Engineering Potsdam-Bornim (ATB);|Bio H2 Umwelt GmbH
http://dx.doi.org/10.1101/054890 2016-05-24 Genetics CC BY-NC-ND Tissue-Driven Hypothesis of Transcriptome Evolution: An Update Howard T. Hallmark|Jeffrey A. Haltom|Xun Gu Iowa State University
http://dx.doi.org/10.1101/054866 2016-05-24 Ecology CC BY-NC-ND Diploid male production correlates with genetic diversity in the parasitoid wasp Venturia canescens: a genetic approach with new microsatellite markers Marie Collet|Chloe Vayssade|Alexandra Auguste|Laurence Mouton|Emmanuel Desouhant|Thibaut Malausa|Xavier Fauvergue Universite de Lyon, Universite Claude Bernard, CNRS, Laboratoire de Biometrie et Biologie Evolutive;|INRA, Universite Nice Sophia Antipolis, CNRS, UMR 1355-7254
http://dx.doi.org/10.1101/054957 2016-05-24 Evolutionary Biology Population structure and coalescence in pedigrees: comparisons to the structured coalescent and a framework for inference Peter R Wilton|Pierre Baduel|Matthieu M Landon|John Wakeley Harvard University
http://dx.doi.org/10.1101/054536 2016-05-24 Bioinformatics CC BY-NC Improved Annotation with de novo Transcriptome Assembly in Four Social Amoeba Species Reema Singh|Hajara M Lawal|Christina Schilde|Gernot Gloeckner|Geoff J Barton|Pauline Schaap|Christian Cole University of Dundee;|University of Cologne
http://dx.doi.org/10.1101/055483 2016-05-25 Microbiology CC BY-ND Inferring time-derivatives, including cell growth rates, using Gaussian processes Peter Swain|Keiran Stevenson|Allen Leary|Luis F Montano-Gutierrez|Ivan BN Clark|Jackie Vogel|Teuta Pilizota University of Edinburgh;|McGill University
http://dx.doi.org/10.1101/055475 2016-05-25 Scientific Communication and Education CC BY-NC-ND Zika in Rio de Janeiro: Assessment of basic reproductive number and its comparison with dengue Leonardo Bastos|Daniel A. M. Villela|Luiz Max Carvalho|Oswaldo G Cruz|Marcelo F. C. Gomes|Betina Durovni|Maria Cristina Lemos|Valeria Saraceni|Flavio C Coelho|Claudia T Codeco PROCC/Fiocruz;|Secretaria Municipal de Saude do Rio de Janeiro;|EMAP/FGV
http://dx.doi.org/10.1101/055467 2016-05-25 Bioinformatics Accounting for tumor heterogeneity using a sample-specific error model improves sensitivity and specificity in mutation calling for sequencing data Yu Fan|Liu Xi|Daniel S. T. Hughes|Jianjun Zhang|Jianhua Zhang|P. Andrew Futreal|David A. Wheeler|Wenyi Wang Department of Bioinformatics and Computational Biology, MD Anderson Cancer Center;|Human Genome Sequencing Center, Baylor College of Medicine;|Department of Genomic Medicine, MD Anderson Cancer Center
http://dx.doi.org/10.1101/055434 2016-05-25 Evolutionary Biology CC BY Adaptation of mammalian myosin II sequences to body mass Mark N Wass|Sarah T Jeanfavre|Michael Coghlan|Martin S Ridout|Anthony J Baines|Michael A Geeves University of Kent;|Broad Institue;|University College London
http://dx.doi.org/10.1101/055418 2016-05-25 Biochemistry Quantitative cross-linking/mass spectrometry reveals subtle protein conformational changes Zhuo Angel Chen|Lutz Fischer|Salman Tahir|Jimi-Carlo Bukowski-Wills|Paul N. Barlow|Juri Rappsilber University of Edinburgh
http://dx.doi.org/10.1101/055376 2016-05-25 Cancer Biology CC BY The landscape of gene fusions in hepatocellular carcinoma Chengpei Zhu|Yanling Lv|Liangcai Wu|Jinxia Guan|Xue Bai|Jianzhen Lin|Tingting Liu|Xinting Sang|Chenghai Xue|Haitao Zhao Department of Liver Surgery, Peking Union Medical College Hospital, Chinese Academy of Medical Scien;|My Health Gene Technology Co., Ltd.,Service Centre of Tianjin Chentang Science and Technology Commer
http://dx.doi.org/10.1101/055368 2016-05-25 Evolutionary Biology CC BY-ND Late mitochondrial origin is pure artefact William F Martin|Mayo Roettger|Chuan Ku|Sriram G. Garg|Shijulal Nelson-Sathi|Giddy Landan Institute of Molecular Evolution, Heinrich-Heine University, 40225 Duesseldorf, Germany;|Institute of Microbiology, Christian-Albrechts-University of Kiel, Germany
http://dx.doi.org/10.1101/055160 2016-05-25 Genomics Common genetic variation drives molecular heterogeneity in human iPSCs Helena Kilpinen|Angela Goncalves|Andreas Leha|Vackar Afzal|Sofie Ashford|Sendu Bala|Dalila Bensaddek|Francesco Paolo Casale|Oliver Culley|Petr Danacek|Adam Faulconbridge|Peter Harrison|Davis McCarthy|Shane A McCarthy|Ruta Meleckyte|Yasin Memari|Nathalie Moens|Filipa Soares|Ian Streeter|Chukwuma A Agu|Alex Alderton|Rachel Nelson|Sarah Harper|Minal Patel|Laura Clarke|Reena Halai|Christopher M Kirton|Anja Kolb-Kokocinski|Philip Beales|Ewan Birney|Davide Danovi|Angus I Lamond|Willem H Ouwehand|Ludovic Vallier|Fiona M Watt|Richard Durbin|Oliver Stegle|Daniel J Gaffney European Molecular Biology Laboratory;|Wellcome Trust Sanger Institute;|University of Dundee;|University of Cambridge;|King's College London;|University College London
http://dx.doi.org/10.1101/055087 2016-05-25 Bioinformatics CC BY-NC-ND A cross-package Bioconductor workflow for analysing methylation array data Jovana Maksimovic|Belinda Phipson|Alicia Oshlack Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/055384 2016-05-25 Evolutionary Biology Specialization of a polyphenism switch gene following serial duplications in Pristionchus nematodes Erik J Ragsdale|Nicholas A Ivers Indiana University
http://dx.doi.org/10.1101/055335 2016-05-25 Animal Behavior and Cognition CC BY Transitive inference in humans and rhesus macaques after massed training of the last two list items Greg Jensen|Yelda Alkan|Fabian Munoz|Vincent P Ferrera|Herbert S Terrace Columbia University
http://dx.doi.org/10.1101/055699 2016-05-26 Cancer Biology CC BY Report of Partial findings from the National Toxicology Program Carcinogenesis Studies of Cell Phone Radiofrequency Radiation in Hsd: Sprague Dawley® SD rats (Whole Body Exposure) Michael Wyde|Mark Cesta|Chad Blystone|Susan Elmore|Paul Foster|Michelle Hooth|Grace Kissling|David Malarkey|Robert Sills|Matthew Stout|Nigel Walker|Kristine Witt|Mary Wolfe|John Bucher National Institute of Environmental Health Sciences
http://dx.doi.org/10.1101/055459 2016-05-26 Epidemiology CC BY-NC-ND Sexual transmission causes a marked increase in the incidence of Zika in women in Rio de Janeiro, Brazil. Flavio Codeco Coelho|Betina Durovni|Valeria Saraceni|Cristina Lemos|Claudia Torres Codeco|Sabrina Camargo|Luiz Max Carvalho|Leonardo Bastos|Denise Arduini|Daniel Villela|Margaret Armstrong Getulio Vargas Foundation;|Secretaria Municipal de Saude do Rio de Janeiro;|Fundaçao Oswaldo Cruz;|MINES Paristech
http://dx.doi.org/10.1101/055566 2016-05-26 Neuroscience Virtual cortical resection reveals push-pull network control mechanism preceding seizure evolution Ankit N Khambhati|Kathryn A Davis|Timothy H Lucas|Brian Litt|Danielle S Bassett University of Pennsylvania
http://dx.doi.org/10.1101/055624 2016-05-26 Neuroscience Could a neuroscientist understand a microprocessor? Eric Jonas|Konrad Kording UC Berkeley;|Northwestern
http://dx.doi.org/10.1101/055525 2016-05-26 Bioinformatics CC BY Knowledge.Bio: A Web application for exploring, building and sharing webs of biomedical relationships mined from PubMed Richard Bruskiewich|Kenneth Huellas-Bruskiewicz|Farzin Ahmed|Rajaram Kaliyaperumal|Mark Thompson|Erik Schultes|Kristina M Hettne|Andrew I Su|Benjamin M Good STAR Informatics/Delphinai Corporation;|Leiden University Medical Center;|Scripps Research Institute;|The Scripps Research Institute
http://dx.doi.org/10.1101/055541 2016-05-26 Bioinformatics CC BY A reference dataset of 5.4 million human variants validated by genetic inheritance from sequencing a three-generation 17-member pedigree Michael A Eberle|Epameinondas Fritzilas|Peter Krusche|Morten Kallberg|Benjamin L Moore|Mitchell A Bekritsky|Zamin Iqbal|Han-Yu Chuang|Sean J Humphray|Aaron L Halpert|Semyon Kruglyak|Elliott H Margulies|Gil McVean|David R Bentley Illumina;|Wellcome Trust Centre for Human Genetics
http://dx.doi.org/10.1101/055558 2016-05-26 Ecology CC BY-NC-ND Bringing Elton and Grinnell together: a quantitative framework to represent the biogeography of ecological interaction networks Dominique Gravel|Benjamin Baiser|Jennifer A Dune|Jens-Peter Kopelke|Neo D Martinez|Tommi Nyman|Timothee Poisot|Daniel B Stouffer|Jason M Tylianakis|Spencer A Wood|Tomas Roslin Universite de Sherbrooke;|University of Florida;|Santa Fe Institute;|Senckenberg Research Institute and Natural History Museum;|University of Arizona;|University of Eastern Finland;|Universite de Montreal;|University of Canterbury;|Imperial College London;|University of Washington;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/055517 2016-05-26 Evolutionary Biology CC BY Modelling the decay of hotspot motifs in broadly neutralizing antibody lineages Kenneth Hoehn|Gerton Lunter|Oliver Pybus University of Oxford
http://dx.doi.org/10.1101/055533 2016-05-26 Systems Biology The Social Networks of Neural Progenitor Cells Arun S Mahadevan|Jacob T Robinson|Amina Ann Qutub Rice University
http://dx.doi.org/10.1101/055913 2016-05-27 Bioinformatics CC BY Tribe: The collaborative platform for reproducible web-based analysis of gene sets Rene A Zelaya|Aaron K Wong|Alex T Frase|Marylyn D Ritchie|Casey S Greene University of Pennsylvania;|Simons Foundation;|Geisinger Health System
http://dx.doi.org/10.1101/055921 2016-05-27 Genomics CC BY-NC Transcription factors GAF and HSF act at distinct regulatory steps to modulate stress-induced gene activation Fabiana M Duarte|Nicholas J Fuda|Dig B Mahat|Leighton J Core|Michael Guertin|John T Lis Cornell University,;|University of California Berkeley;|Cornell University;|University of Connecticut;|University of Virginia
http://dx.doi.org/10.1101/055889 2016-05-27 Evolutionary Biology CC BY The coevolutionary romance of social learning and parasitic behavior Richard McElreath MPI for Evolutionary Anthropology
http://dx.doi.org/10.1101/055897 2016-05-27 Bioinformatics Improved insights into protein thermal stability: from the molecular to the structurome scale Fabrizio Pucci|Marianne Rooman Université Libre de Bruxelles, Belgium
http://dx.doi.org/10.1101/055905 2016-05-27 Animal Behavior and Cognition CC BY-NC-ND Composite Brownian Walks Best Describe Livestock Mobility Patterns across Species Takuto Sakamoto|Lloyd Sanders|Nobu Inazumi Institute of Developing Economies;|ETH Zürich;|Kyoto University
http://dx.doi.org/10.1101/055814 2016-05-27 Microbiology CC BY-NC-ND Rapid emergence of HCMV drug resistance in immunocompromised paediatric patients detected using target enrichment and deep sequencing Charlotte Houldcroft|Josephine M Bryant|Daniel P Depledge|Ben K Margetts|Jacob Simmonds|Stephanos Nicolaou|Helena Tutill|Rachel Williams|Austen Worth|Stephen D Marks|Paul Veys|Elizabeth Whittaker|Judith Breuer UCL Institute of Child Health;|UCL;|Great Ormond Street Hospital NHS Foundation Trust;|Imperial College London
http://dx.doi.org/10.1101/049841 2016-05-27 Bioinformatics IPC - Isoelectric Point Calculator Lukasz P Kozlowski Max Planck Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/055780 2016-05-27 Evolutionary Biology CC BY-NC-ND Convergent evolution of genes controlling mitonuclear balance in annual fishes Arne Sahm|Martin Bens|Matthias Platzer|Alessandro Cellerino Leibniz Institute on Ageing - Fritz Lipmann Institute;|Leibniz Institute for Age Research - Fritz Lipmann Institute (FLI);|Scuola Normale Superiore
http://dx.doi.org/10.1101/055863 2016-05-27 Synthetic Biology Rapidly evolving homing CRISPR barcodes Reza Kalhor|Prashant Mali|George M Church Department of Genetics, Harvard Medical School, Boston, MA 02115;|Department of Bioengineering, University of California San Diego, La Jolla, CA 92093
http://dx.doi.org/10.1101/055806 2016-05-27 Bioinformatics PIPI: PTM-Invariant Peptide Identification Using Coding Method Fengchao Yu|Ning Li|Weichuan Yu The Hong Kong University of Science and Technology
http://dx.doi.org/10.1101/055772 2016-05-27 Genomics Controlling bias and inflation in epigenome- and transcriptome-wide association studies using the empirical null distribution Maarten M. van Iterson|Erik W. van Zwet|P. Eline Slagboom|Bastiaan T. Heijmans Leiden University Medical Center
http://dx.doi.org/10.1101/055731 2016-05-27 Genomics CC BY-NC-ND Principles for RNA metabolism and alternative transcription initiation within closely spaced promoters Yun Chen|Athma A Pai|Jan Herudek|Michal Lubas|Nicola Meola|Aino I Jarvelin|Robin Andersson|Vicent Pelechano|Lars M Steinmetz|Torben Heick Jensen|Albin Sandelin University of Copenhagen;|Massachusetts Institute of Technology;|Aarhus University;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/055855 2016-05-27 Genetics Population structure of UK Biobank and ancient Eurasians reveals adaptation at genes influencing blood pressure Kevin Galinsky|Po-Ru Loh|Swapan Mallick|Nick J Patterson|Alkes L Price Harvard T.H. Chan School of Public Health;|Harvard Medical School;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/055715 2016-05-27 Bioinformatics CC BY-NC-ND Accurate prediction of single-cell DNA methylation states using deep learning Christof Angermueller|Heather Lee|Wolf Reik|Oliver Stegle European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, Cambridge, UK;|Babraham Institute, Wellcome Trust Genome Campus, Cambridge, UK
http://dx.doi.org/10.1101/055590 2016-05-27 Bioinformatics Signatures of personality on dense 3D facial images Sile Hu|Jieyi Xiong|Pengcheng Fu|Lu Qiao|Jingze Tan|Li Jin|Kun Tang CAS-MPG Partner Institute for Computational Biology;|The First People's Hospital of Chenzhou;|Fudan University;|CAS MPG Partner Institute of Computational Biology
http://dx.doi.org/10.1101/055681 2016-05-27 Scientific Communication Biogeographic Ancestry and Socioeconomic Outcomes in the Americas: a Meta-analysis Emil O. W. Kirkegaard|Mingrui Wang|John Fuerst University of Aarhus;|Beijing University of Agriculture;|Not Affiliated to any Institute
http://dx.doi.org/10.1101/055822 2016-05-27 Neuroscience CC BY α4-containing GABAA receptors on dopamine D2 receptor-expressing neurons mediate instrumental responding for conditioned reinforcers, and its potentiation by cocaine Tom Macpherson|Claire I Dixon|Patricia H Janak|Delia Belelli|Jeremy J Lambert|David N Stephens|Sarah King Kyoto University;|University of Sussex;|Johns Hopkins School of Medicine;|University of Dundee
http://dx.doi.org/10.1101/055657 2016-05-27 Neuroscience CC BY-NC Analysis of behavioral variables across domains and strains in zebrafish: Role of brain monoamines Monica G Lima|Anderson M Herculano|Caio Maximino Universidade do Estado do Para, Campus VIII - Maraba;|Universidade Federal do Para, Instituto de Ciencias Biologicas;|Universidade Federal do Sul e Sudeste do Para
http://dx.doi.org/10.1101/055632 2016-05-27 Bioinformatics CC BY-NC Aequatus: An open-source homology browser Anil S. Thanki|Sarah Ayling|Javier Herrero|Robert P. Davey The Genome Analysis Centre;|UCL Cancer Institute
http://dx.doi.org/10.1101/055707 2016-05-27 Developmental Biology CC BY Genomic dimensions of Su(H)-targeted regulatory belts in Drosophila Elizabeth Stroebele|Timothy Fuqua|Madelyn Warren|Danielle Herrig|Christian Noblett|Xin Yuan|Albert Erives University of Iowa, United States;|University of Virginia, United States
http://dx.doi.org/10.1101/055798 2016-05-27 Plant Biology Adapting genotyping-by-sequencing for rice F2 populations. Tomoyuki Furuta|Motoyuki Ashikari|Kshirod K Jena|Kazuyuki Doi|Stefan Reuscher Nagoya University, Japan;|International Rice Research Institute, Japan
http://dx.doi.org/10.1101/055954 2016-05-28 Biochemistry Specificity Principles in RNA-Guided Targeting Namita Bisaria|Inga Jarmoskaite|Daniel Herschlag Whitehead Institute;|Stanford University
http://dx.doi.org/10.1101/056085 2016-05-30 Evolutionary Biology CC BY-NC-ND Accounting for Uncertainty in Gene Tree Estimation: Summary-Coalescent Species Tree Inference in a Challenging Radiation of Australian Lizards Mozes P.K. Blom|Jason G. Bragg|Sally Potter|Craig Moritz Australian National University
http://dx.doi.org/10.1101/056093 2016-05-30 Neuroscience CC BY Detailed dendritic excitatory/inhibitory balance through heterosynaptic spike-timing-dependent plasticity Naoki Hiratani|Tomoki Fukai RIKEN Brain Science Institute
http://dx.doi.org/10.1101/056002 2016-05-30 Evolutionary Biology CC BY-NC Information use shapes range expansion dynamics into environmental gradients Emanuel A. Fronhofer|Nicolai Nitsche|Florian Altermatt Eawag: Swiss Federal Institute of Aquatic Science and Technology
http://dx.doi.org/10.1101/056044 2016-05-30 Systems Biology CC BY JuPOETs: A Constrained Multiobjective Optimization Approach to Estimate Biochemical Model Ensembles in the Julia Programming Language David Bassen|Michael Vilkhovoy|Mason Minot|Jonathan T Butcher|Jeffrey D Varner Cornell University
http://dx.doi.org/10.1101/056150 2016-05-30 Ecology CC BY Modeling Joint Abundance of Multiple Species Using Dirichlet Process Random Effects Devin Johnson|Elizabeth Sinclair NOAA;|National Marine Fisheries Service
http://dx.doi.org/10.1101/055319 2016-05-30 Ecology CC BY Measurement uncertainty matters: ecological management using POMDPs Milad Memarzadeh|Carl Boettiger UC Berkeley
http://dx.doi.org/10.1101/055574 2016-05-30 Bioinformatics CC BY-NC GutCyc: a Multi-Study Collection of Human Gut Microbiome Metabolic Models Aria S. Hahn|Tomer Altman|Kishori M. Konwar|Niels W. Hanson|Dongjae Kim|David A. Relman|David L. Dill|Steven J. Hallam University of British Columbia;|Whole Biome;|Koonkie Inc.;|Stanford University
http://dx.doi.org/10.1101/055988 2016-05-30 Cancer Biology CC BY-NC-ND Enhancing synergy of CAR T cell therapy and oncolytic virus therapy for pancreatic cancer. Rachel Walker|Pedro E Navas|Samuel H Friedman|Simona Galliani|Aleksandra Karolak|Fiona MacFarlane|Robert Noble|Jan Poleszczuk|Shonagh Russell|Katarzyna A Rejniak|Amir Shahmoradi|Frederik Ziebell|Jason Brayer|Daniel Abate-Daga|Heiko Enderling H. Lee Moffitt Cancer Center & Research Institute;|University of Southern California;|Stuttgart Research Center Systems Biology;|University of St. Andrews;|Institut des Sciences de l'Evolution;|Institute for Computational Engineering and Sciences, University of Texas at Austin;|Institute of Applied Mathematics and the German Cancer Research Center
http://dx.doi.org/10.1101/056010 2016-05-30 Neuroscience Motor control by precisely timed spike patterns Kyle H. Srivastava|Caroline M. Holmes|Michiel Vellema|Andrea Pack|Coen P. H. Elemans|Ilya Nemenman|Samuel J. Sober Georgia Institute of Technology and Emory University;|Emory University;|University of Southern Denmark
http://dx.doi.org/10.1101/056135 2016-05-30 Ecology CC BY-NC pcadapt: an R package to perform genome scans for selection based on principal component analysis Keurcien Luu|Eric Bazin|Michael G.B. Blum Universite Grenoble Alpes, CNRS
http://dx.doi.org/10.1101/056069 2016-05-30 Neuroscience CC BY-NC-ND fMRI evidence of equivalent neural suppression by repetition and prior knowledge Jordan Poppenk|Anthony R McIntosh|Morris Moscovitch Queen's University;|University of Toronto
http://dx.doi.org/10.1101/056101 2016-05-30 Genomics CC BY Pan-cancer immunogenomic analyses reveals genotype-immunophenotype relationships and predictors of response to checkpoint blockade Pornpimol Charoentong|Francesca Finotello|Mihaela Angelova|Clemens Mayer|Mirjana Efremova|Dietmar Rieder|Hubert Hackl|Zlatko Trajanoski Medical University of Innsbruck;|Medical University of Innsbruck
http://dx.doi.org/10.1101/056119 2016-05-30 Animal Behavior and Cognition CC BY-NC-ND Ancient DNA reveals differences in behaviour and sociality between brown bears and extinct cave bears. Gloria G Fortes|Aurora Grandal DAnglade|Ben Kolbe|Daniel Fernandes|Ioanna Meleg|Ana Garcia Vazquez|Ana Pinto Llona|Silviu Constantin|Trino J de Torres|Jose E Ortiz|Christine Frischauf|Gernot Rabeder|Michael Hofreiter|Axel Barlow University of Ferrara;|Universidade da Coruna;|University of Potsdam;|University College Dublin;|Emil Racovita Institute of Speleology, Department of Karst inventory and cave protection;|Consejo Superior de Investigaciones Cientificas;|Universidad Politecnica de Madrid;|University of Vienna
http://dx.doi.org/10.1101/055970 2016-05-30 Biochemistry Quantitative cross-linking/mass spectrometry using isotope-labeled cross-linkers and MaxQuant Zhuo Angel Chen|Lutz Fischer|Juergen Cox|Juri Rappsilber University of Edinburgh;|Computational Systems Biochemistry, Max-Planck Institute of Biochemistry
http://dx.doi.org/10.1101/056143 2016-05-30 Biophysics Rapid Dynamics of Cell-Shape Recovery in Response to Local Deformations Kristina Haase|Tyler N Shendruk|Andrew E Pelling University of Ottawa;|University of Oxford
http://dx.doi.org/10.1101/055947 2016-05-30 Neuroscience CC BY A large field of view two-photon mesoscope with subcellular resolution for in vivo imaging Nicholas James Sofroniew|Daniel Flickinger|Jonathan King|Karel Svoboda Janelia Research Campus;|Vidrio Technologies
http://dx.doi.org/10.1101/056317 2016-05-31 Evolutionary Biology CC BY-NC-ND When local means local: Polygenic signatures of local adaptation within whitebark pine (Pinus albicaulis Engelm.) across the Lake Tahoe Basin, USA Brandon M. Lind|Christopher J Friedline|Jill L. Wegrzyn|Patricia E. Maloney|Detlev R. Vogler|David B. Neale|Andrew J. Eckert Virginia Commonwealth University;|University of Connecticut;|University of California at Davis;|USDA Forest Service Pacific Southwest Research Station
http://dx.doi.org/10.1101/056366 2016-05-31 Plant Biology A Re-examination of the Role of AUXIN RESPONSE FACTOR 8 in Developmental Abnormalities Caused by the P1/HC-Pro Viral Suppressor of RNA Silencing Sizolwenkosi Mlotshwa|Gail J. Pruss|John L. Macarthur|Jason W. Reed|Vicki Vance University of South Carolina;|University of North Carolina
http://dx.doi.org/10.1101/056408 2016-05-31 Plant Biology CC BY Transplanting as a means to enhance crop security of fodder beet Edith N Khaembah|Warrick R Nelson The New Zealand Institute for Plant and Food Research Limited
http://dx.doi.org/10.1101/056382 2016-05-31 Genetics CC BY-NC-ND Centromeres of the yeast Komagataella phaffii (Pichia pastoris) have a simple inverted-repeat structure Aisling Y Coughlan|Sara J Hanson|Kevin P Byrne|Kenneth H Wolfe University College Dublin
http://dx.doi.org/10.1101/056275 2016-05-31 Molecular Biology Prediction of allosteric sites and mediating interactions through bond-to-bond propensities Benjamin R. C. Amor|Michael T. Schaub|Sophia N. Yaliraki|Mauricio Barahona Imperial College London
http://dx.doi.org/10.1101/056242 2016-05-31 Plant Biology CC BY The potato NLR immune receptor R3a does not contain non-canonical integrated domains Artemis Giannakopoulou|Angela Chaparro-Garcia|Sophien Kamoun The Sainsbury Laboratory
http://dx.doi.org/10.1101/056325 2016-05-31 Evolutionary Biology CC BY-NC-ND Sequence Entropy and the Absolute Rate of Amino Acid Substitutions Richard A Goldstein|David D Pollock University College London;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/056218 2016-05-31 Ecology CC BY-NC-ND Particularity of “Universal resilience patterns in complex networks” Jean-Francois Arnoldi|Bart Haegeman|Tomas Revilla|Michel Loreau CNRS;|Biology Centre of the Academy of Sciences
http://dx.doi.org/10.1101/056309 2016-05-31 Ecology Significant competitive dominance in mid-latitude European plant communities Jose A Capitan|Sara Cuenda|Alejandro Ordonez|David Alonso Technical University of Madrid;|Universidad Autonoma de Madrid;|Aarhus University;|Spanish Council for Scientific Research
http://dx.doi.org/10.1101/055269 2016-05-31 Bioinformatics CC BY-NC RAFTS3: Rapid Alignment-Free Tool for Sequence Similarity Search Ricardo A Vialle|Fabio O Pedrosa|Vinicius A Weiss|Dieval Guizelini|Juliana H Tibaes|Jeroniza N Marchaukoski|Emanuel M de Souza|Roberto T Raittz Programa de Pos-Graduacao em Bioinformatica, Universidade Federal do Parana, Curitiba, PR, Brasil
http://dx.doi.org/10.1101/056192 2016-05-31 Neuroscience CC BY-NC-ND Dopaminergic neurons modulate locomotion in Caenorhabditis elegans Mohamed Abdelhack Okinawa Institute of Science and Technology, Graduate University
http://dx.doi.org/10.1101/055848 2016-05-31 Animal Behavior and Cognition CC BY-ND Kin Recognition in a Clonal Fish, Poecilia formosa Amber Makowicz|Ralf Tiedemann|Rachel N Steele|Ingo Schlupp University of Konstanz;|University of Potsdam;|University of Oklahoma
http://dx.doi.org/10.1101/056200 2016-05-31 Bioinformatics CC BY The Lair: A resource for exploratory analysis of published RNA-Seq data Harold Pimentel|Pascal Sturmfels|Nicolas Bray|Pall Melsted|Lior Pachter UC Berkeley;|University of Michigan;|University of Iceland
http://dx.doi.org/10.1101/056283 2016-05-31 Genetics CC BY Large-scale trans-eQTLs affect hundreds of transcripts and mediate patterns of transcriptional co-regulation Boel Brynedal|JinMyung Choi|Towfique Raj|Robert Bjornson|Barbara Stranger|Benjamin Neale|Benjamin Voight|Chris Cotsapas Karolinska Institutet;|Yale University School of Medicine;|Brigham and Women's Hospital;|Yale University;|University of Chicago;|Massachusetts General Hospital;|University of Pennsylvania
http://dx.doi.org/10.1101/056267 2016-05-31 Neuroscience CC BY-NC-ND Distinct combinations of variant ionotropic glutamate receptors mediate thermosensation and hygrosensation in Drosophila Zachary A Knecht|Ana F Silbering|Lina Ni|Mason Klein|Gonzalo Budelli|Rati Bell|Liliane Abuin|Anggie J Ferrer|Aravinthan D.T. Samuel|Richard Benton|Paul Allen Garrity Brandeis University;|University of Lausanne;|University of Miami;|Harvard University
http://dx.doi.org/10.1101/056291 2016-05-31 Evolutionary Biology CC BY-NC-ND Why are there so many independent origins of artemisinin resistance in malaria parasites? Tim Anderson|Shalini Nair|Marina White|Ian Cheeseman|Standwell Nkhoma|Fatma Bilgic|Rose McGready|Elizabeth Ashley|Aung Pyae Phyo|Nicholas White|Francois Nosten Texas Biomedical Research Institute;|Shoklo Malaria Research Unit/University of Oxford;|Mahidol University;|Shoklo Malaria Research Unit;|Mahidol University/University of Oxford;|Shoklo Malaria Research Unit/Mahidol University/University of Oxford
http://dx.doi.org/10.1101/056168 2016-05-31 Genetics CC BY The Effects of Migration and Assortative Mating on Admixture Linkage Disequilibrium Noah Zaitlen|Scott Huntsman|Donglei Hu|Melissa Spear|Celeste Eng|Sam S Oh|Marquitta J White|Angel Mak|Adam Davis|Kelly Meade|Emerita Brigino-Buenaventura|Michael A LeNoir|Kirsten Bibbins-Domingo|Esteban G Burchard|Eran Halperin UCSF, United States;|Children???s Hospital and Research Center Oakland, United States;|Kaiser Permanente, United States;|Bay Area Pediatrics, United States;|Tel Aviv University, United States
http://dx.doi.org/10.1101/056036 2016-06-01 Bioinformatics CC BY-NC Digital dissection of arsenate reductase enzyme from an arsenic hyperccumulating fern Pteris vittata Zarrin Basharat|Deeba Noreen Baig|Azra Yasmin Fatima Jinnah Women University, Rawalpindi 46000, Pakistan;|Forman Christain College (A Chartered University), Lahore 54600, Pakistan
http://dx.doi.org/10.1101/056440 2016-06-01 Neuroscience CC BY-NC-ND Age-Related Delay in Visual and Auditory Evoked Responses is Mediated by White- and Gray-matter Differences Darren Price|Lorraine Tyler|Rafael Neto Henriques|Karen Campbell|Nitin Williams|Matthias Treder|Jason Taylor|Richard Henson MRC Cognition and Brain Unit;|Cambridge Centre for Ageing and Neuroscience, University of Cambridge and MRC Cognition and Brain;|Medical Research Council, Cognition and Brain Sciences Unit, Cambridge, UK;|Department of Psychology, Harvard University, USA;|Neuroscience Centre, University of Helsinki, Finland
http://dx.doi.org/10.1101/056531 2016-06-01 Bioinformatics CC BY-NC-ND The Wnt segment polarity pathway and p24 protein TMED2 interact via a lectin- and decoy-type mechanism Klaus Fiedler HEdS
http://dx.doi.org/10.1101/056457 2016-06-01 Biochemistry Structure of complement C3(H2O) revealed by quantitative cross-linking/mass spectrometry and modeling Zhuo Angel Chen|Riccardo Pellarin|Lutz Fischer|Andrej Sali|Michael Nilges|Paul N Barlow|Juri Rappsilber University of Edinburgh;|Unite de Bioinformatique Structurale;|University of California
http://dx.doi.org/10.1101/056424 2016-06-01 Neuroscience Anticorrelation between default and dorsal attention networks varies across default subsystems and cognitive states Matthew L Dixon|Jessica R Andrews-Hanna|R. Nathan Spreng|Zachary C Irving|Kalina Christoff University of British Columbia;|University of Colorado Boulder;|Cornell University;|UC Berkeley
http://dx.doi.org/10.1101/056572 2016-06-01 Bioinformatics CC BY Breaking bud: probing the scalability limits of phylogenetic network inference methods Hussein A Hejase|Kevin J Liu Michigan State University
http://dx.doi.org/10.1101/056473 2016-06-01 Bioinformatics CC BY Reproducible Computational Workflows with Continuous Analysis Brett K Beaulieu-Jones|Casey S Greene University of Pennsylvania
http://dx.doi.org/10.1101/056564 2016-06-01 Systems Biology CC BY-NC-ND iSUMO - integrative prediction of functionally relevant SUMOylated proteins Xiaotong Yao|Rebecca Bish|Christine Vogel Weill Cornell Medicine;|New York University
http://dx.doi.org/10.1101/056499 2016-06-01 Systems Biology CC BY-NC-ND Massively parallel whole-organism lineage tracing using CRISPR/Cas9 induced genetic scars Jan Philipp Junker|Bastiaan Spanjaard|Josi Peterson-Maduro|Anna Alemany|Bo Hu|Maria Florescu|Alexander van Oudenaarden Berlin Institute for Medical Systems Biology, MDC Berlin;|Hubrecht Institute
http://dx.doi.org/10.1101/056549 2016-06-01 Genetics Rapid, one-step generation of biallelic conditional gene knockouts Bon-Kyoung Koo|Amanda Andersson-Rolf|Roxana C. Mustata|Alessandra Merenda|Sajith Perera|Tiago Grego|Jihoon Kim|Katie Andrews|Juergen Fink|William C. Skarnes WT-MRC Cambridge Stem Cell Institute;|University of Cambridge;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/056432 2016-06-01 Bioinformatics CC BY-NC-ND Genotyping of Inversions and Tandem Duplications Jana Ebler|Alexander Schoenhuth|Tobias Marschall Center for Bioinformatics, Saarbruecken;|Centrum Wiskunde & Informatica, Amsterdam;|Center for Bioinformatics, Saarbruecken, Max Planck Institute for Informatics, Saarbruecken
http://dx.doi.org/10.1101/056465 2016-06-01 Cell Biology CC BY-NC-ND Budding yeast chromatin is dispersed in a crowded nucleoplasm in vivo Chen Chen|Jian Shi|Hong Hwa Lim|Sachiko Tamura|Kazuhiro Maeshima|Uttam Surana|Lu Gan National University of Singapore;|Institute of Molecular and Cell Biology, Agency for Science Technology and Research;|National Institute of Genetics and Sokendai
http://dx.doi.org/10.1101/056481 2016-06-01 Molecular Biology Transcriptional activity of TRF2 is telomere length dependent Ananda Kishore Mukherjee|Shalu Sharma|Parashar Dhapola|Dhurjhoti Saha|Tabish Hussain|Sumitabho Deb Roy|Gunjan Purohit|Anirban Kar|Ankita Singh|Suman Sengupta|Vivek Srivastava|Manish Kumar|Sagar Sengupta|Shantanu Chowdhury CSIR-Institute of Genomics and Integrative Biology;|National Institute of Immunology
http://dx.doi.org/10.1101/056333 2016-06-01 Neuroscience Dnmts mediate neural processing after odor learning in the honeybee Stephanie D Biergans|Charles Claudianos|Judith Reinhard|C. Giovanni Galizia The University of Queensland;|Monash University;|University of Konstanz
http://dx.doi.org/10.1101/056341 2016-06-01 Cancer Biology CC BY Game theoretic methods in population dynamics David Liao University of California, San Francisco
http://dx.doi.org/10.1101/056523 2016-06-01 Cancer Biology CC BY Parallel, independent reversions to an embryonic expression phenotype in multiple types of cancer. Corey M. Hudson|Gavin C. Conant Sandia National Laboratory;|University of Missouri
http://dx.doi.org/10.1101/056507 2016-06-01 Pharmacology CC BY-NC FGIN-1-27, an agonist at translocator protein 18 kDa (TSPO), has anti-anxiety and anti-panic effects in non-mammalian models Caio Maximino Universidade do Sul e Sudeste do Pará
http://dx.doi.org/10.1101/056358 2016-05-31 Systems Biology CC BY A Novel Algorithm for the Maximal Fit Problem in Boolean Networks Guy Karlebach The Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/056127 2016-06-02 Genomics CC BY-ND Developmental Transcriptional Model describing regulated genes, QTLs and pathways during the primary and secondary cell walls of Pima fibers Magdy Alabady|Bulak Arpat University of Georgia;|Department of Plant Molecular Biology, University of Lausanne Biophore - Switzerland
http://dx.doi.org/10.1101/056770 2016-06-02 Cancer Biology Epigenetic activation of the prostaglandin receptor EP4 promotes resistance to endocrine therapy for breast cancer Jeff F Hiken|James I McDonald|Keith F Decker|Cesar Sanchez|Jeremy Hoog|Nathan D VanderKraats|Kyle L Jung|Margaret Akinhanmi|Matthew J Ellis|John R Edwards Department of Medicine, Center for Pharmacogenomics, Washington University School of Medicine, St. L;|Pontificia Universidad Catolica de Chile, Santiago, Chile;|Division of Oncology, Department of Medicine, Washington University School of Medicine, St. Louis, M;|Lester and Sue Smith Breast Center, Baylor College of Medicine, Houston, Texas, USA;|Washington University in Saint Louis
http://dx.doi.org/10.1101/056762 2016-06-02 Cancer Biology CC BY-NC-ND Niche-Driven Stem Cell Plasticity and its Role in Cancer Progression Noemi Picco|Robert Gatenby|Alexander Anderson H. Lee Moffitt Cancer Center
http://dx.doi.org/10.1101/056820 2016-06-02 Genomics High-throughput Screening and CRISPR-Cas9 Modeling of Causal Lipid-associated Expression Quantitative Trait Locus Variants Avanthi Raghavan|Xiao Wang|Peter Rogov|Li Wang|Xiaolan Zhang|Tarjei S Mikkelsen|Kiran Musunuru Harvard Medical School;|University of Pennsylvania;|Broad Institute
http://dx.doi.org/10.1101/056796 2016-06-02 Immunology Differential modulation of the cellular and humoral immune responses in Drosophila is mediated by the endosomal ARF1-Asrij axis Rohan J Khadilkar|Chetan D.R|Arghyashree RoyChowdhury|Srivathsa S Magadi|Vani Kulkarni|Maneesha S Inamdar MBGU, Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore, India;|Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/055871 2016-06-02 Epidemiology CC BY-NC-ND Contact, travel, and transmission: The impact of winter holidays on influenza dynamics in the United States Anne Ewing|Elizabeth C Lee|Shweta Bansal Georgetown University
http://dx.doi.org/10.1101/056630 2016-06-02 Neuroscience CC BY-ND The human thalamus is an integrative hub for functional brain networks Kai Hwang|Maxwell A. Bertolero|William Liu|Mark D'Esposito University of California Berkeley
http://dx.doi.org/10.1101/056713 2016-06-02 Cell Biology CC BY-NC-ND PRDM9 forms a multiprotein complex tethering recombination hotspots to the chromosomal axis Emil D Parvanov|Hui Tian|Timothy Billings|Ruth L Saxl|Rakesh Aithal|Lumir Krejci|Petko M Petkov The Jackson Laboratory;|Masaryk University
http://dx.doi.org/10.1101/056671 2016-06-02 Neuroscience CC BY-NC-ND Functional connectivity in neuromuscular system underlying bimanual muscle synergies Ingmar E. J. de Vries|Andreas Daffertshofer|Dick F. Stegeman|Tjeerd W. Boonstra VU University Amsterdam;|Radboud University Nijmegen;|University of New South Wales
http://dx.doi.org/10.1101/056705 2016-06-02 Bioinformatics CC BY Fast and Robust Segmentation of Copy Number Profiles Using Multi-Scale Edge Detection Ivo W Kwee|Andrea Rinaldi|Cassio Polpo de Campos|Francesco Bertoni Institute of Oncology Research;|Dalle Molle Institute for Artificial Intelligence
http://dx.doi.org/10.1101/056614 2016-06-02 Bioinformatics CC BY Cryptic functional variation in the human gut microbiome Patrick H Bradley|Katherine S Pollard Gladstone Institutes and UCSF
http://dx.doi.org/10.1101/039842 2016-06-02 Neuroscience CC BY-NC-ND Overlap of movement planning and movement execution reduces reaction time by up to 100ms. Jean-Jacques Orban de Xivry|Valery Legrain|Philippe Lefevre KU Leuven;|Universite catholique de Louvain
http://dx.doi.org/10.1101/056663 2016-06-02 Evolutionary Biology Assessing sex-specific selection against deleterious alleles: males don't pay for sex. Zofia M Prokop|Monika A Prus|Tomasz S Gaczorek|Karolina Markot|Joanna K Palka|Magdalena Mendrok Institute of Environmental Sciences, Jagiellonian University
http://dx.doi.org/10.1101/056655 2016-06-02 Genetics CC BY-NC-ND Maternal Genetic Ancestry and Legacy of 10th Century AD Hungarians Aranka Csosz|Anna Szecsenyi-Nagy|Veronika Csakyova|Peter Lango|Viktoria Bodis|Kitti Kohler|Gyongyver Tomory|Melinda Nagy|Balazs Gusztav Mende Institute of Archaeology, Research Centre for the Humanities, Hungarian Academy of Sciences;|Constantine the Philosopher University;|J. Selye University in Komarno
http://dx.doi.org/10.1101/055137 2016-06-02 Developmental Biology Antagonistic roles of Polycomb repression and Notch signaling in the maintenance of somatic cell fate in C. elegans. Ringo Pueschel|Francesca Coraggio|Alisha Marti|Peter Meister Institute of Cell Biology, University of Bern;|Institute of Cell Biology University of Bern
http://dx.doi.org/10.1101/056580 2016-06-02 Evolutionary Biology CC BY Repeated range expansion and niche shift in a volcanic hotspot archipelago: radiation of Hawaiian Euphorbia (Euphorbiaceae) Ya Yang|Clifford Morden|Margaret Sporck-Koehler|Lawren Sack|Paul Berry University of Michigan;|University of Hawaii;|Division of Forestry & Wildlife, Hawaii;|UCLA
http://dx.doi.org/10.1101/056598 2016-06-02 Bioinformatics Statistical inference of protein structural alignments using information and compression James H Collier|Lloyd Allison|Arthur M Lesk|Peter J Stuckey|Maria Garcia de la Banda|Arun S Konagurthu Monash University;|Pennsylvania State University;|University of Melbourne
http://dx.doi.org/10.1101/057091 2016-06-03 Developmental Biology A Facilitated Diffusion Mechanism Establishes the Drosophila Dorsal Gradient Sophia N Carrell|MIchael D O'Connell|Amy E Allen|Stephanie M Smith|Gregory Reeves NCSU;|UNC
http://dx.doi.org/10.1101/057042 2016-06-03 Microbiology The PAS domain-containing protein HeuR regulates heme uptake in Campylobacter jejuni Jeremiah Johnson|Jennifer Gaddy|Victor DiRita University of Tennessee;|Vanderbilt University;|Michigan State University
http://dx.doi.org/10.1101/057026 2016-06-03 Evolutionary Biology CC BY-NC-ND Within-patient HIV mutation frequencies reveal fitness costs of CpG dinucleotides, drastic amino acid changes and G→A mutations Marion Hartl|Kristof Theys|Alison Feder|Maoz Gelbart|Adi Stern|Pleuni S Pennings San Francisco State University;|University of Leuven;|University of Stanford;|University of Tel Aviv
http://dx.doi.org/10.1101/057018 2016-06-03 Animal Behavior and Cognition CC BY-NC-ND Female-female aggression in a sexual/unisexual species complex over resources Amber Makowicz|Tana Moore|Ingo Schlupp University of Konstanz;|University of Oklahoma
http://dx.doi.org/10.1101/056556 2016-06-03 Evolutionary Biology CC BY-NC-ND Cryptic diversity and multiple origins of the widespread mayfly species group Baetis rhodani (Ephemeroptera: Baetidae) on northwestern Mediterranean islands Roberta Bisconti|Daniele Canestrelli|Roberta Tenchini|Carlo Belfiore|Andrea Buffagni|Giuseppe Nascetti Tuscia University;|CNR IRSA
http://dx.doi.org/10.1101/056887 2016-06-03 Bioinformatics CC BY-NC-ND Phased Diploid Genome Assembly with Single Molecule Real-Time Sequencing Chen-Shan Chin|Paul Peluso|Fritz J. Sedlazeck|Maria Nattestad|Gregory T. Concepcion|Alicia Clum|Christopher Dunn|Ronan O'Malley|Rosa Figueroa-Balderas|Abraham Morales-Cruz|Grant R. Cramer|Massimo Delledonne|Chongyuan Luo|Joseph R. Ecker|Dario Cantu|David R. Rank|Michael C. Schatz Pacific Biosciences;|Departments of Computer Science and Biology, Johns Hopkins University;|Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory, Cold Spring Harbor;|DOE Joint Genome Institute;|Genomic Analysis Laboratory, The Salk Institute for Biological Studies;|Department of Viticulture and Enology, University of California Davis;|Department of Biochemistry and Molecular Biology, University of Nevada, Reno;|Dipartimento di Biotecnologie, Universita' degli Studi di Verona, 37134 Verona, Italy;|Department of Viticulture and Enology, University of California Davis, CA;|Departments of Computer Science and Biology, Johns Hopkins University, Baltimore
http://dx.doi.org/10.1101/056986 2016-06-03 Ecology CC BY-NC Acoustic-based model estimation of snapping shrimp populations and the effects of a sponge die-off Jack Butler|Mark Butler|Holly Gaff Old Dominion University
http://dx.doi.org/10.1101/053280 2016-06-03 Cancer Biology CC BY-NC-ND Cancer cells with alternative lengthening of telomeres do not display a general hypersensitivity to ATR inhibition Deeg Katharina|Inn Chung|Caroline Bauer|Karsten Rippe German Cancer Research Center (DKFZ) and Bioquant Center
http://dx.doi.org/10.1101/056929 2016-06-03 Ecology CC BY-NC-ND High habitat-specificity in fungal communities of an oligo-mesotrophic, temperate lake Christian Wurzbacher|Norman Warthmann|Elizabeth Bourne|Katrin Attermeyer|Martin Allgaier|Jeff R Powell|Harald Detering|Susan Mbedi|Hans-Peter Grossart|Michael T Monaghan University of Gothenburg, Department of Biological and Environmental Sciences, Gothenburg, Sweden;|Australian National University, College of Medicine, Biology and Environment, Canberra, Australia;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries, Department of Ecosystem Research;|Uppsala University, Uppsala, Department of Ecology and Genetics, Limnology, Sweden;|Berlin Center for Genomics in Biodiversity Research, Berlin, Germany;|Hawkesbury Institute for the Environment, Western Sydney University, Penrith, NSW, Australia;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries, Department of Experimental Limnology
http://dx.doi.org/10.1101/056952 2016-06-03 Bioinformatics CC BY-NC-ND Active modules for multilayer weighted gene co-expression networks: a continuous optimization approach Dong Li|Shan He|Zhisong Pan|Guyu Hu School of Computer Science, University of Birmingham, UK;|PLA University of Science and Technology, China
http://dx.doi.org/10.1101/056879 2016-06-03 Pathology CC BY-NC-ND Stratifying risk of prostate cancer recurrence following external beam radiation therapy: Comparing prostate MRI with prostate biopsy pathology. William Millard|Jason Slater|Samuel Randolph|Thomas Kelly|David Bush Loma Linda University Medical Center
http://dx.doi.org/10.1101/056895 2016-06-03 Physiology First evidence of a menstruating rodent: the spiny mouse (Acomys cahirinus) Nadia Bellofiore|Stacey J Ellery|Jared Mamrot|David W Walker|Peter Temple-Smith|Hayley Dickinson Hudson Institute of Medical Research;|Monash University
http://dx.doi.org/10.1101/056945 2016-06-03 Biophysics CC BY-NC-ND Controlling noise in the timing of intracellular events: A first-passage time approach Khem Raj Ghusinga|John J Dennehy|Abhyudai Singh University of Delaware;|City University of New York
http://dx.doi.org/10.1101/056853 2016-06-03 Genetics The evolutionary basis of premature migration in Pacific salmon highlights the utility of genomics for informing conservation Daniel J Prince|Sean M O'Rourke|Tasha Q Thompson|Omar A Ali|Martha Arciniega|Hannah S Lyman|Ismail K Saglam|Anthony J Clemento|Thomas J Hotaling|Andrew P Kinziger|Adrian P Spidle|John Carlos Garza|Devon E Pearse|Michael R Miller Department of Animal Science, University of California, Davis, CA, USA;|Southwest Fisheries Science Center, National Marine Fisheries Service, Santa Cruz, CA, USA;|Salmon River Restoration Council, Sawyers Bar, CA, USA;|Department of Fisheries Biology, Humboldt State University, Arcata, CA, USA;|Northwest Indian Fisheries Commission, Olympia, WA, USA
http://dx.doi.org/10.1101/056804 2016-06-03 Ecology CC BY Spatial capture-recapture with partial identity: an application to camera traps Ben Augustine|J. Andrew Royle|Marcella Kelly|Christopher Satter|Robert Alonso|Erin Boydston|Kevin Crooks Virginia Tech;|U.S. Geological Survey;|Colorado State University
http://dx.doi.org/10.1101/056812 2016-06-03 Neuroscience CC BY The Human Octopus: controlling supernumerary hands with the help of virtual reality Sander Kulu|Madis Vasser|Jaan Aru|Raul Vicente Zafra Institute of Computer Science, University of Tartu;|University of Tartu;|Institute for Computer Science, University of Tartu
http://dx.doi.org/10.1101/056788 2016-06-03 Evolutionary Biology CC BY Identification of microsporidia host-exposed proteins reveals a repertoire of large paralogous gene families and rapidly evolving proteins Aaron W Reinke|Keir M Balla|Eric J Bennett|Emily R Troemel University of California San Diego
http://dx.doi.org/10.1101/056861 2016-06-03 Neuroscience CC BY-NC-ND Predicting future learning from baseline network architecture Marcelo Mattar|Nicholas F Wymbs|Andrew S Bock|Geoffrey K Aguirre|Scott T Grafton|Danielle S Bassett University of Pennsylvania;|Johns Hopkins Medical Institution;|University of California, Santa Barbara
http://dx.doi.org/10.1101/057117 2016-06-04 Ecology CC BY-NC-ND Vertical organization of freshwater sediment microbial communities: implications for microbial activities and burial processes Christian Wurzbacher|Andrea Fuchs|Katrin Attermeyer|Katharina Frindte|Hans-Peter Grossart|Michael Hupfer|Peter Casper|Michael T Monaghan University of Gothenburg, Sweden;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries, Germany;|Uppsala University, Sweden;|Bonn University, Germany
http://dx.doi.org/10.1101/057109 2016-06-04 Plant Biology CC BY-NC-ND High selfing capability and low pollinator visitation in the epiphyte Pitcairnia heterophylla (Bromeliaceae) at a Costa Rican cloud forest Luis Diego Rios|Alfredo Cascante-Marin Universidad de Costa Rica
http://dx.doi.org/10.1101/057208 2016-06-05 Animal Behavior and Cognition CC BY On the optimal response vigor and choice under variable motivational drives Amir Dezfouli CSIRO
http://dx.doi.org/10.1101/057224 2016-06-05 Evolutionary Biology CC BY-NC Deleterious variants in Asian rice and the potential cost of domestication Qingpo Liu|Yongfeng Zhou|Peter L. Morrell|Brandon S. Gaut Zhejiang A&F University;|UC Irvine;|University of Minnesota
http://dx.doi.org/10.1101/057232 2016-06-05 Neuroscience CC BY-ND Extending Levelt's Propositions to perceptual multistability involving interocular grouping Alain Jacot-Guillarmod|Yunjiao Wang|Claudia Pedroza|Haluk Ogmen|Zachary Kilpatrick|Kresimir Josic Lausanne University;|Texas Southern University;|University of Texas;|University of Houston;|University of Colorado, Boulder
http://dx.doi.org/10.1101/057190 2016-06-05 Genetics Playing Musical Chairs in Big Data to Reveal Variables Associations Hugues Aschard|Bjarni Vilhjalmsson|Chirag Patel|David Skurnik|Jimmy Yu|Brian Wolpin|Peter Kraft|Noah Zaitlen Department of Epidemiology, Harvard TH Chan School of Public Health, Boston, MA, USA;|Bioinformatics Research Centre, Aarhus University, Aarhus, Denmark;|Department of Biomedical Informatics, Harvard Medical School, Boston, MA 02215, USA;|Department of Medicine, Brigham and Women's Hospital, Harvard Medical School, Boston, MA, USA;|Department of Epidemiology and Biostatistics, Institute of Human Genetics, San Francisco, CA, USA;|Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA, USA;|Department of Medicine, University of California, San Francisco, CA, USA
http://dx.doi.org/10.1101/057166 2016-06-05 Cell Biology CC BY-NC KIF1A/UNC-104 transports ATG-9 to regulate neurodevelopment and autophagy at synapses Andrea K.H. Stavoe|Sarah E. Hill|Daniel A. Colon-Ramos Yale University
http://dx.doi.org/10.1101/056838 2016-06-05 Ecology CC BY-NC-ND Managing Marine Ecosystems as Complex Adaptive Systems: Emergent Patterns, Critical Transitions, and Public Goods George I Hagstrom|Simon A Levin Princeton University
http://dx.doi.org/10.1101/057174 2016-06-05 Plant Biology CC BY-NC-ND Fungal Induced Protein Hyperacetylation Identified by Acetylome Profiling Justin W Walley|Zhouxin Shen|Maxwell R McReynolds|Steven P Briggs Iowa State University;|UC San Diego
http://dx.doi.org/10.1101/057059 2016-06-06 Evolutionary Biology CC BY A systematic review of post-marital residence patterns in prehistoric hunter-gatherers Devon D. Brewer Interdisciplinary Scientific Research
http://dx.doi.org/10.1101/056994 2016-06-06 Bioinformatics CC BY Lepbase: the Lepidopteran genome database Richard J Challis|Sujai Kumar|Kanchon Kumar K Dasmahapatra|Chris D Jiggins|Mark Blaxter University of Edinburgh;|University of York;|University of Cambridge
http://dx.doi.org/10.1101/057760 2016-06-08 Genomics|Microbiology CC BY-NC-ND NGMASTER: in silico Multi-Antigen Sequence Typing for Neisseria gonorrhoeae Jason C Kwong|Anders Goncalves da Silva|Kristin Dyet|Deborah A Williamson|Timothy P Stinear|Benjamin P Howden|Torsten Seemann Peter Doherty Institute for Infection & Immunity;|Institute of Environmental Science and Research
http://dx.doi.org/10.1101/057927 2016-06-08 Microbiology CC BY-NC-ND Synergistic elimination of bacteria by phage and the immune system Chung Yin (Joey) Leung|Joshua S. Weitz Georgia Institute of Technology
http://dx.doi.org/10.1101/057901 2016-06-08 Systems Biology CC BY-NC-ND Predicting Targeted Cancer Therapeutics Aaron Wise|Murat Can Cobanoglu Illumina Inc.;|University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/057778 2016-06-08 Bioinformatics CC BY Topslam: Waddington Landscape Recovery for Single Cell Experiments Max Zwiessele|Neil D Lawrence University of Sheffield
http://dx.doi.org/10.1101/057893 2016-06-08 Neuroscience Initiation of Retina Regeneration By a Conserved Mechanism of Adult Neurogenesis Mahesh B Rao|Dominic Didiano|James G Patton Vanderbilt University
http://dx.doi.org/10.1101/057083 2016-06-08 Neuroscience Can pornography be addictive? An fMRI study of men seeking treatment for problematic pornography use. Mateusz Gola|Malgorzata Wordecha|Guillaume Sescousse|Michal Lew-Starowicz|Bartosz Kossowski|Marek Wypych|Scott Makeig|Marc Potenza|Artur Marchewka University of California San Diego / Institute of Psychology, INC, SCCN, Polish Academy of Sciences;|Nencki Institute of Experimental Biology of Polish Academy of Sciences;|Radboud University, Donders Institute for Brain, Cognition and Behavior, Nijmegen, Netherlands;|III Department of Psychiatry, Institute of Psychiatry and Neurology;|Swartz Center for Computational Neuroscience, Institute for Neural Computations, UCSD;|Yale School of Medicine and Connecticut Mental Health Center
http://dx.doi.org/10.1101/057786 2016-06-08 Biophysics Effect of X-ray irradiation on ancient DNA in sub-fossil bones - Guidelines for safe x-ray imaging. Alexander Immel|Adeline Le Cabec|Marion Bonazzi|Alexander Herbig|Heiko Temming|Verena J. Schuenemann|Kirsten I. Bos|Frauke Langbein|Katerina Harvati|Anne Bridault|Gilbert Pion|Marie-Anne Julien|Oleksandra Krotova|Nicholas J. Conard|Susanne C. Muenzel|Dorothee G. Drucker|Bence Viola|Jean-Jacques Hublin|Paul Tafforeau|Johannes Krause Max Planck Institute for the Science of Human History, Jena, Germany;|Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany;|Institute of Clinical Molecular Biology, Kiel University, Germany;|Institute for Archaeological Sciences, Archaeo- and Palaeogenetics, University of Tuebingen, Germany;|Senckenberg Center for Human Evolution and Palaeoecology, Palaeoanthropology, Tuebingen, Germany;|CNRS UMR 7041 ArScAn, Equipe Archeologies environnementales, Nanterre, France;|Association departementale pour la recherche archeologique en Savoie, Saint-Alban-Leysse, France;|Centre for the Archaeology of Human Origins Archaeology Department, University of Southampton, GB;|Department of Stone Age, Institute of Archaeology, National Ukrainian Academy of Science, Ukraine;|Senckenberg Center for Human Evolution and Palaeoenvironment, University of Tuebingen, Germany;|Institute for Archaeological Sciences, Archaeozoology, University of Tuebingen, Germany;|Department of Geosciences, Palaeobiology, University of Tuebingen, Germany;|Department of Anthropology, University of Toronto, Canada;|European Synchrotron Radiation Facility, Grenoble, France
http://dx.doi.org/10.1101/057935 2016-06-08 Bioengineering CC BY Intraoperative biomechanics of pedicle screw loosening in the lumbar spine Hope B Pearson|Christopher J Dobbs|Eric Grantham|James L Chappuis|Joel D Boerckel University of Notre Dame;|Spine Center Atlanta
http://dx.doi.org/10.1101/057794 2016-06-08 Genomics CC BY-ND DNA sequence properties that predict susceptibility to epiallelic switching Marco Catoni|Jayne Griffiths|Claude Becker|Nicolae Radu Zabet|Carlos Bayon|Melanie Dapp|Michal Lieberman-Lazarovich|Detlef Weigel|Jerzy Paszkowski The Sainsbury Laboratory, University of Cambridge, Cambridge, United Kingdom;|Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tubingen, Germany;|Department of Plant Biology, University of Geneva, Geneva, Switzerland
http://dx.doi.org/10.1101/057844 2016-06-08 Molecular Biology Diversity of Sericostomatidae (Trichoptera) caddisflies in the Montseny mountain range Jan Niklas Macher|Martina Weiss|Arne Beermann|Florian Leese University Duisburg-Essen
http://dx.doi.org/10.1101/057885 2016-06-08 Cancer Biology CC BY Identification of Novel and Differentially Expressed MicroRNAs in Goat Enzootic Nasal Adenocarcinoma Bin Wang|Ni Ye|Sanjie Cao|Xintian Wen|Yong Huang|Qigui Yan Sichuan Agricultural University
http://dx.doi.org/10.1101/057745 2016-06-08 Plant Biology CC BY-ND Geo-climatic gradient shapes functional trait variations in Salix eriocephala Michx. Arun S.K. Shunmugam|Raju Y. Soolanayakanahally|Robert D. Guy Agriculture and Agri-Food Canada;|Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan;|Department of Forest and Conservation Sciences, Faculty of Forestry, University of British Columbia,
http://dx.doi.org/10.1101/057448 2016-06-08 Synthetic Biology CC BY Modular non-repeating codes for DNA storage Ian Holmes University of California at Berkeley
http://dx.doi.org/10.1101/057679 2016-06-07 Neuroscience CC BY-NC-ND Magnetic Resonance Imaging Tracking of Distal Inflammatory Changes following Mild Traumatic Brain Injury (mTBI) in rats. Seth Brian Gillham|Johnny D Figueroa|Brenda Bartnik LLUMC;|LLU
http://dx.doi.org/10.1101/056846 2016-06-07 Bioinformatics CC BY Efficient cardinality estimation for k-mers in large DNA sequencing data sets Luiz Carlos Irber Junior|C. Titus Brown University of California Davis
http://dx.doi.org/10.1101/055442 2016-06-07 Microbiology The Quick and the Dead: Microbial Demography at the Yeast Thermal Limit Colin Scott Maxwell|Paul Mitaari Magwene Duke University;|x
http://dx.doi.org/10.1101/057729 2016-06-07 Neuroscience CC BY-NC Biologically plausible learning in recurrent neural networks for flexible decision tasks Thomas Miconi The Neurosciences Institute
http://dx.doi.org/10.1101/057406 2016-06-07 Neuroscience CC BY-NC-ND Two distinct scene processing networks connecting vision and memory Christopher Baldassano|Andre Esteva|Diane M Beck|Li Fei-Fei Stanford University;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/057711 2016-06-07 Evolutionary Biology CC BY-NC RADpainter and fineRADstructure: population inference from RADseq data Milan Malinsky|Emiliano Trucchi|Daniel Lawson|Daniel Falush Gurdon Institute, University of Cambridge;|Division of Systematics and Evolutionary Botany, University of Vienna, Vienna, Austria;|School of Social and Community Medicine, University of Bristol, Bristol, BS8 2BN, UK.;|Institute of Life Science, Swansea University, Swansea, SA2 8PP, UK
http://dx.doi.org/10.1101/057653 2016-06-07 Genomics CC BY Snapshots of a shrinking partner: Genome reduction in Serratia symbiotica Alejandro Manzano-Marin|Amparo Latorre Institut Cavanilles de Biodiversitat I Biologia Evolutiva. Universitat de València
http://dx.doi.org/10.1101/057687 2016-06-07 Neuroscience CC BY-ND Global and local connectivity differences converge with gene expression in a neurodevelopmental disorder of known genetic origin Joe Bathelt|Jessica Barnes|F Lucy Raymond|Kate Baker|Duncan E Astle MRC Cognition & Brain Sciences Unit;|Department of Medical Genetics, Cambridge Institute for Medical Research, University of Cambridge;|Department of Medical Genetics, Cambridge Institute for Medical Research, University of Cambridge
http://dx.doi.org/10.1101/057638 2016-06-07 Genomics Integrative modeling of tumor DNA methylation identifies a role for metabolism Mahya Mehrmohamadi|Lucas Mentch|Andrew G Clark|Jason W Locasale Cornell University;|Duke University
http://dx.doi.org/10.1101/057497 2016-06-07 Cancer Biology Personally tailored cancer management based on knowledge banks of genomic and clinical data Moritz Gerstung|Elli Papaemmanuil|Inigo Martincorena|Lars Bullinger|Verena I Gaidzik|Peter Paschka|Michael Heuser|Felicitas Thol|Niccolo Bolli|Peter Ganly|Arnold Ganser|Ultan McDermott|Konstanze Dohner|Richard F Schlenk|Hartmut Dohner|Peter J Campbell European Bioinformatics Institute EMBL-EBI;|Memorial Sloan Kettering Cancer Centre;|Wellcome Trust Sanger Institute;|Ulm University;|Hannover Medical School;|University of Milano;|University of Otago
http://dx.doi.org/10.1101/057588 2016-06-07 Neuroscience CC BY Enhanced pre-frontal functional-structural networks to support behavioural deficits after traumatic brain injury Ibai Diez|David Drijkoningen|Sebastiano Stragmalia|Paolo Bonifazi|Daniele Marinazzo|Jolien Gooijers|Stephan P. Swinnen|Jesus M. Cortes BioCruces Health Research Institute;|KU Leuven;|Universita degli Studi di Bar;|University of Ghent
http://dx.doi.org/10.1101/057620 2016-06-07 Neuroscience CC BY-NC-ND Functional brain segmentation using inter-subject correlation in fMRI Jukka-Pekka Kauppi|Juha Pajula|Jari A Niemi|Riitta Hari|Jussi Tohka University of Jyväskylä;|Tampere University of Technology;|Aalto University;|Universidad Carlos III de Madrid
http://dx.doi.org/10.1101/057489 2016-06-07 Bioinformatics Phylogenetic and structural analyses reveal the determinants of DNA binding specificities of nucleoid-associated proteins HU and IHF Debayan Dey|Valakunja Nagaraja|Suryanarayanarao Ramakumar Indian Institute of Science;|Indian Institute of science
http://dx.doi.org/10.1101/057570 2016-06-07 Microbiology CC BY-NC-ND Total RNA Sequencing reveals microbial communities in human blood and disease specific effects Serghei Mangul|Loes M Olde Loohuis|Anil Ori|Guillaume Jospin|David Koslicki|Harry Taegyun Yang|Timothy Wu|Marco P Boks|Catherine Lomen-Hoerth|Martina Wiedau-Pazos|Rita Cantor|Willem M de Vos|Rene S Kahn|Eleazar Eskin|Roel A. Ophoff UCLA;|Davis Genome Center, University of California, Davis, USA;|Mathematics Department, Oregon State University, Corvallis, USA;|Department of Psychiatry, Brain Center Rudolf Magnus, University Medical Center Utrecht, Utrecht, T;|Department of Neurology, University of California San Francisco, San Francisco, USA;|Laboratory of Microbiology, Wageningen University, Ede, The Netherlands
http://dx.doi.org/10.1101/057604 2016-06-07 Bioinformatics CC BY-NC-ND Estimating the functional impact of INDELs in transcription factor binding sites: a genome-wide landscape Esben Eickhardt|Thomas D Als|Jakob Grove|Anders Boerglum|Francesco Lescai Department of Biomedicine, Aarhus University, Denmark
http://dx.doi.org/10.1101/057547 2016-06-07 Ecology CC BY-NC-ND Late flowering and low synchrony with males enhance female reproductive success in the dioecious palm Chamaedorea pinnatifrons Luis Diego Rios|Gilbert Barrantes|Alfredo Cascante-Marin Universidad de Costa Rica
http://dx.doi.org/10.1101/057513 2016-06-07 Evolutionary Biology CC BY-NC-ND Uplift and erosion of genomic islands with standing genetic variation Tyler D Hether University of Oregon
http://dx.doi.org/10.1101/056648 2016-06-07 Epidemiology Real-time Zika risk assessment in the United States Lauren A Castro|Spencer J Fox|Xi Chen|Kai Liu|Steve E Bellan|Nedialko B Dimitrov|Alison P Galvani|Lauren A Meyers The University of Texas at Austin;|Yale University
http://dx.doi.org/10.1101/057216 2016-06-07 Neuroscience Decoding of generic mental representations from functional MRI data using word embeddings Francisco Pereira|Bin Lou|Brianna Pritchett|Nancy Kanwisher|Matthew Botvinick|Evelina Fedorenko Medical Imaging Technologies, Siemens Healthcare;|Department of Brain and Cognitive Sciences, MIT;|Google DeepMind;|Psychiatry Department, MGH
http://dx.doi.org/10.1101/053744 2016-06-07 Cell Biology CC BY-NC-ND Harnessing Molecular Motors for Nanoscale Pulldown in Live Cells Jonathan E Bird|Melanie Barzik|Meghan Drummond|Daniel C Sutton|Spencer M Goodman|Eva L Morozko|Stacey M Cole|Jennifer Skidmore|Diana Syam|Elizabeth A Wilson|Tracy Fitzgerald|Atteeq U Rehman|Donna M Martin|Erich T Boger|Inna A Belyantseva|Thomas B Friedman NIDCD/NIH;|University of Michigan
http://dx.doi.org/10.1101/056937 2016-06-07 Genomics CC BY Identification of polymorphic and off-target probe binding sites on the Illumina Infinium MethylationEPIC BeadChip Daniel L McCartney|Rosie M Walker|Stewart W Morris|Andrew M McIntosh|David J Porteous|Kathryn L Evans University of Edinburgh
http://dx.doi.org/10.1101/057323 2016-06-07 Neuroscience CC BY-ND Simulated forward and backward self motion, based on realistic parameters, causes strong motion induced blindness Victoria Anne Thomas|Matthew Davidson|Parisa Zakavi|Naotsugu Tsuchiya|Jeroen van Boxtel Monash University
http://dx.doi.org/10.1101/057356 2016-06-07 Microbiology CC BY A dormant microbial component in the development of pre-eclampsia Douglas B Kell|Louise Clare Kenny The University of Manchester;|University College Cork
http://dx.doi.org/10.1101/057455 2016-06-07 Bioinformatics CC BY-ND A Common Class of Transcripts with 5'-Intron Depletion, Distinct Early Coding Sequence Features, and N1-Methyladenosine Modification Can Cenik|Hon Nian Chua|Guramrit Singh|Abdalla Akef|Michael P Snyder|Alexander F Palazzo|Melissa J Moore|Frederick P Roth Stanford University;|University of Toronto and Lunenfeld-Tanenbaum Research Institute;|Univ. Massachusetts Medical School;|University of Toronto;|University of Toronto and Mt Sinai Hospital
http://dx.doi.org/10.1101/057265 2016-06-07 Cancer Biology Impact of Image Gently Campaign at a Medium-Sized Teaching Hospital Eric Liu|Yen-Ying Wu Loma Linda University Medical Center;|Loma Linda University Children's Hospital
http://dx.doi.org/10.1101/050195 2016-06-07 Genetics CC BY Ultra-rare disruptive and damaging mutations influence educational attainment in the general population Andrea Ganna|Giulio Genovese|Daniel P Howrigan|Andrea Byrnes|Mitja Kurki|Seyedeh M Zekavat|Christopher W Whelan|Robert E Handsaker|Mart Kals|Alex Bloemendal|Jonathan M Bloom|Jacqueline I Goldstein|Timothy Poterba|Cotton Seed|Michel G Nivard|Pradeep Natarajan|Reedik Magi|Diane Gage|Elise B Robinson|Andres Metspalu|Veikko Salomaa|Jaana Suvisaari|Shaun M Purcell|Pamela Sklar|Sekar Kathiresan|Mark J Daly|Steven A McCarroll|Patrick F Sullivan|Aarno Palotie|Tonu Esko|Christina Hultman|Benjamin M Neale Analytic and Translational Genetics Unit, Massachusetts General Hospital;|Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard;|Program in Medical and Population Genetics, Broad Institute of MIT and Harvard;|Estonian Genome Center, University of Tartu;|Institute of Mathematics and Statistics, University of Tartu;|Department of Health, THL-National Institute for Health and Welfare;|Division of Psychiatric Genomics, Department of Psychiatry, Icahn School of Medicine at Mount Sinai;|Department of Medical Epidemiology and Biostatistics, Karolinska Institutet;|Institute for Molecular Medicine Finland, FIMM
http://dx.doi.org/10.1101/057414 2016-06-07 Bioinformatics CC BY-NC tHapMix: simulating tumour samples through haplotype mixtures Sergii Ivakhno|Camilla Colombo|Stephen Tanner|Philip Tedder|Stefano Berri|Anthony J. Cox Illumina Cambridge Ltd.;|Illumina Inc.
http://dx.doi.org/10.1101/057315 2016-06-07 Ecology Dark diversity illuminates the dim side of conservation and restoration Jesper Erenskjold Moeslund|Ane Kirstine Brunbjerg|Kevin Kuhlmann Clausen|Lars Dalby|Camilla Fljgaard|Anders Juel|Jonathan Lenoir Aarhus University;|Aarhus University, Dept. of Bioscience;|The Danish Nature Agency;|Université de Picardie Jules Verne
http://dx.doi.org/10.1101/057364 2016-06-07 Neuroscience CC BY-NC Brain heating induced by near infrared lasers during multi-photon microscopy Kaspar Podgorski|Gayathri Ranganathan HHMI
http://dx.doi.org/10.1101/057257 2016-06-07 Biophysics Stabilizing membrane domains antagonizes n-alcohol anesthesia Ben Machta|Ellyn Gray|Mariam Nouri|Nicola L.C. McCarthy|Erin M Grey|Ann L. Miller|Nicholas J. Brooks|Sarah Veatch Princeton;|University of Michigan;|Imperial College London;|University of MIchagan
http://dx.doi.org/10.1101/057273 2016-06-07 Plant Biology CC BY-NC-ND Effect of cryopreservation and post-cryopreservation somatic embryogenesis on the epigenetic fidelity of cocoa (Theobroma cacao L.) Raphael Adu-Gyamfi|Andy Wetten|Carlos Marcelino Rodriguez Lopez University for Development Studies;|Reading University;|University of Adelaide
http://dx.doi.org/10.1101/057372 2016-06-07 Evolutionary Biology Functional anatomy inspires recognition of Ediacaran Dickinsonia and similar fossils as Mollusca (Coleoidea) and precursors of Cambrian Nectocaridids and extant cuttlefish and squid Bernard L Cohen University of Glasgow
http://dx.doi.org/10.1101/057281 2016-06-07 Synthetic Biology CC BY-NC-ND Evolutionary dynamics of CRISPR gene drives Charleston Noble|Jason Olejarz|Kevin Esvelt|George Church|Martin Nowak Harvard University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/057331 2016-06-07 Microbiology CC BY Looking for a Signal in the Noise: Revisiting Obesity and the Microbiome Marc Sze|Patrick D Schloss University of Michigan
http://dx.doi.org/10.1101/057307 2016-06-07 Synthetic Biology CC BY-ND Daisy-chain gene drives for the alteration of local populations Charleston Noble|John Min|Jason Olejarz|Joanna Buchthal|Alejandro Chavez|Andrea L Smidler|Erika A DeBenedictis|George M Church|Martin A Nowak|Kevin M Esvelt Harvard Medical School;|Massachusetts Institute of Technology;|Harvard University;|Harvard School of Public Health
http://dx.doi.org/10.1101/057463 2016-06-07 Bioinformatics cgCorrect: A method to correct for confounding cell-cell variation due to cell growth in single-cell transcriptomics Thomas Blasi|Florian Buettner|Michael K Strasser|Carsten Marr|Fabian J Theis Helmholtz Zentrum Muenchen
http://dx.doi.org/10.1101/058099 2016-06-09 Epidemiology Dynamics Affecting the Risk of Silent Circulation When Oral Polio Vaccination Is Stopped James S Koopman|Christopher J Henry|Joonha Park|Joseph Eisenberg|Marisa Eisenberg|Edward L Ionides University of Michigan
http://dx.doi.org/10.1101/057182 2016-06-09 Evolutionary Biology Tandem duplication events in the expansion of the small heat shock protein gene family in Solanum lycopersicum (cv. Heinz 1706) Flavia J Krsticevic|Debora P Arce|Joaquin Ezpeleta|Elizabeth Tapia CIFASIS - CONICET;|Universidad Technológica Nacional
http://dx.doi.org/10.1101/058081 2016-06-09 Developmental Biology CC BY-ND Drosophila sensory cilia lacking MKS-proteins exhibit striking defects during development but only subtle defects in adults Metta B. Pratt|Joshua S. Titlow|Ilan Davis|Amy R. Barker|Helen R. Dawe|Jordan W. Raff|Helio Roque University of Oxford;|University of Exeter
http://dx.doi.org/10.1101/055962 2016-06-09 Genomics CC BY-NC-ND The impact of structural variation on human gene expression Colby Chiang|Alexandra J Scott|Joe R Davis|Emily K Tsang|Xin Li|Yungil Kim|Farhan N Damani|Liron Ganel|Stephen B Montgomery|Alexis Battle|Donald F Conrad|Ira M Hall Washington University;|Stanford University;|Johns Hopkins University
http://dx.doi.org/10.1101/057299 2016-06-09 Cell Biology CC BY-NC-ND Perturbing HIV-1 genomic RNA subcellular localization inhibits virus particle production Jordan T Becker|Nathan M Sherer University of Wisconsin - Madison
http://dx.doi.org/10.1101/057919 2016-06-09 Biophysics|Neuroscience CC BY-NC-ND Actomyosin Dynamics Determine the Extension and Retraction of Filopodia on Neuronal Dendrites Olena O Marchenko|Sulagna Das|Ji Yu|Igor L Novak|Vladimir I Rodionov|Nadia Efimova|Tatiana Svitkina|Charles W Wolgemuth|Leslie M Loew Uconn Health Center;|Albert Einsten College of Medicine;|University of Pennsylvania;|University of Arizona
http://dx.doi.org/10.1101/058024 2016-06-09 Evolutionary Biology Human germline mutation and the erratic molecular clock Priya Moorjani|Ziyue Gao|Molly Przeworski Columbia University;|Stanford University
http://dx.doi.org/10.1101/056051 2016-06-09 Ecology Behavioural effects of temperature on ectothermic animals: unifying thermal physiology and behavioural plasticity Paul K. Abram|Guy Boivin|Joffrey Moiroux|Jacques Brodeur Institut de Recherche en Biologie Vegetale, Universite de Montreal;|Agriculture and Agri-Food Canada, Saint-Jean-sur-Richelieu Research and Development Centre
http://dx.doi.org/10.1101/058032 2016-06-09 Neuroscience CC BY Theta-burst transcranial magnetic stimulation to the prefrontal or parietal cortex does not impair metacognitive visual awareness Daniel Bor|David J Schwartzman|Adam B Barrett|Anil K Seth University of Sussex
http://dx.doi.org/10.1101/057976 2016-06-09 Bioinformatics CC BY CellProfiler Analyst: interactive data exploration, analysis, and classification of large biological image sets David Dao|Adam N Fraser|Jane Hung|Vebjorn Ljosa|Shantanu Singh|Anne E. Carpenter Broad Institute of MIT and Harvard;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/057968 2016-06-09 Cell Biology CC BY-NC-ND Centrosome centering and decentering by microtubule network rearrangement Gaelle Letort|Francois Nedelec|Laurent Blanchoin|Manuel Thery CEA;|EMBL
http://dx.doi.org/10.1101/058123 2016-06-09 Cancer Biology Comparison of 3.0 T PAC versus 1.5 T ERC MRI in Detecting Local Prostate Carcinoma. Xin Ye|Udochukwu Oyoyo|Albert Lu|Jed Dixon|Heather Rojas|Samuel Randolph|Thomas Kelly Loma Linda University Medical Center
http://dx.doi.org/10.1101/057802 2016-06-09 Molecular Biology CC BY-NC-ND Genome-wide specificity profiles of CRISPR-Cas Cpf1 nucleases in human cells Benjamin P Kleinstiver|Shengdar Q Tsai|Michelle S Prew|Nhu T Nguyen|Moira M Welch|Jose M Lopez|Zachary R McCaw|Martin J Aryee|J. Keith Joung Massachusetts General Hospital;|Harvard School of Public Health
http://dx.doi.org/10.1101/058107 2016-06-09 Evolutionary Biology CC BY Haplotype block dynamics in hybrid populations Thijs Janzen|Arne W. Nolte|Arne Traulsen Max Planck Institute for Evolutionary Biology, Germany
http://dx.doi.org/10.1101/057984 2016-06-09 Genetics CC BY-NC Genetic Mapping by Bulk Segregant Analysis in Drosophila: Experimental Design and Simulation-Based Inference John E Pool University of Wisconsin-Madison, United States
http://dx.doi.org/10.1101/057828 2016-06-09 Genomics CC BY-NC-ND Genome-wide characterization of genetic and functional dysregulation in autism spectrum disorder Arjun Krishnan|Ran Zhang|Victoria Yao|Chandra L Theesfeld|Aaron K Wong|Alicja Tadych|Natalia Volfovsky|Alan Packer|Alex Lash|Olga G Troyanskaya Princeton University;|Princeton University; Simons Foundation;|Simons Foundation
http://dx.doi.org/10.1101/058016 2016-06-09 Neuroscience Binding of synGAP to PDZ Domains of PSD-95 is Regulated by Phosphorylation and Shapes the Composition of the Postsynaptic Density Ward G Walkup|Tara L Mastro|Leslie T Schenker|Jost Vielmetter|Rebecca Hu|Ariella Iancu|Meera Reghunathan|Barry D Bannon|Mary B Kennedy California Institute of Technology
http://dx.doi.org/10.1101/057950 2016-06-09 Synthetic Biology CC BY-NC-ND Characterizing the Non-Normal Distribution of Flow Cytometry Measurements from Transiently Expressed Constructs in Mammalian Cells Peter F McLean|Christina D Smolke|Marc Salit National Institute of Standards and Technology;|Stanford University
http://dx.doi.org/10.1101/058008 2016-06-09 Genetics CC BY-NC Oligogenic Adaptation, Soft Sweeps, and Parallel Melanic Evolution in Drosophila melanogaster Heloise Bastide|Jeremy D Lange|Justin B Lack|Amir Yassin|John E Pool University of Wisconsin-Madison
http://dx.doi.org/10.1101/058305 2016-06-10 Systems Biology Thanatotranscriptome: genes actively expressed after organismal death Alexander E Pozhitkov|Rafik Neme|Tomislav Domazet-Loso|Brian Leroux|Shivani Soni|Diethard Tautz|Peter Anthony Noble University of Washington;|Max Planck Institute for Evolutionary Biology;|Ruđer Boskovic Institute;|Alabama State University;|Max-Planck-Institue for Evolutionary Biology
http://dx.doi.org/10.1101/058149 2016-06-10 Evolutionary Biology CC BY-NC-ND Gene-tree reconciliation with MUL-trees to resolve polyploidy events Gregg W.C. Thomas|S. Hussain Ather|Matthew W. Hahn Indiana Univeristy;|Indiana University
http://dx.doi.org/10.1101/058255 2016-06-10 Genomics CC BY-NC-ND Genome-wide association study implicates immune activation of multiple integrin genes in inflammatory bowel disease Katrina M de Lange|Loukas Moutsianas|James C Lee|Christopher A Lamb|Yang Luo|Nicholas A Kennedy|Luke Jostins|Daniel L Rice|Javier Gutierrez-Achury|Sun-Gou Ji|Graham Heap|Elaine R Nimmo|Cathryn Edwards|Paul Henderson|Craig Mowat|Jeremy Sanderson|Jack Satsangi|Alison Simmons|David C Wilson|Mark Tremelling|Ailsa Hart|Christopher G Mathew|William G Newman|Miles Parkes|Charles W Lees|Holm Uhlig|Chris Hawkey|Natalie J Prescott|Tariq Ahmad|John Mansfield|Carl A Anderson|Jeffrey Barrett The Wellcomne Trust Sanger Institute;|The Wellcome Trust Sanger Institute;|Inflammatory Bowel Disease Research Group, Addenbrookes Hospital, Cambridge, UK;|Institute of Cellular Medicine, Newcastle University, Newcastle upon Tyne;|Program in Medical and Population Genetics, Broad Institute of Harvard and MIT;|Precision Medicine Exeter, University of Exeter, Exeter, UK;|The Wellcome Trust Centre for Human Genetics;|Gastrointestinal Unit, Wester General Hospital University of Edinburgh, Edinburgh, UK;|Department of Gastroenterology, Torbay Hospital, Torbay, Devon, UK;|Department of Child Life and Health, University of Edinburgh, Edinburgh, UK;|Department of Medicine, Ninewells Hospital and Medical School, Dundee, UK;|Guys & St Thomas NHS Foundation Trust, St Thomas Hospital, Department of Gastroenterology;|Translational Gastroenterology Unit, John Radcliffe Hospital, University of Oxford;|Paediatric Gastroenterology and Nutrition, Royal Hospital for Sick Children, Edinburgh, UK;|Gastroenterology & General Medicine, Norfolk and Norwich University Hospital, Norwich, UK;|Department of Medicine, St Marks Hospital, Harrow, Middlesex, UK;|Department of Medical and Molecular Genetics, Faculty of Life Science and Medicine, Kings College;|Genetic Medicine, Manchester Academic Health Science Centre, Manchester, UK;|Translational Gastroenterology Unit and the Department of Paediatrics, University of Oxford;|Nottingham Digestive Diseases Centre, Queens Medical Centre, Nottingham, UK;|Department of Medical and Molecular Genetics, Faculty of Life Science and Medicine, Kings College L;|Institute of Human Genetics, Newcastle University, Newcastle upon Tyne, UK;|Sanger Institute
http://dx.doi.org/10.1101/058263 2016-06-10 Epidemiology Exposing the diversity of multiple infection patterns Mircea T Sofonea|Samuel Alizon|Yannis Michalakis Laboratoire MIVEGEC (UMR CNRS 5290, IRD 224, UM)
http://dx.doi.org/10.1101/058289 2016-06-10 Microbiology CC BY-NC Characterizing and predicting cyanobacterial blooms in an 8-year amplicon sequencing time-course Nicolas Tromas|Nathalie Fortin|Larbi Bedrani|Yves Terrat|Pedro Cardoso|David Bird|Charles W Greer|B. Jesse Shapiro Département de sciences biologiques, Université de Montréal;|National Research Council of Canada;|Finnish Museum of Natural History, University of Helsinki;|Université du Québec à Montréal, Département des sciences biologiques;|Univ. of Montreal
http://dx.doi.org/10.1101/058230 2016-06-10 Genomics CC BY-NC-ND Controlling the rate of GWAS false discoveries Damian Brzyski|Christine B. Peterson|Piotr Sobczyk|Emmanuel J. Candes|Malgorzata Bogdan|Chiara Sabatti Indiana University;|Stanford University;|Wroclaw University of Technology;|University of Wroclaw
http://dx.doi.org/10.1101/058156 2016-06-10 Developmental Biology Hipk is required for JAK/STAT activity and promotes hemocyte-derived tumorigenesis Jessica A. Blaquiere|Nathan B. Wray|Esther M. Verheyen Simon Fraser University
http://dx.doi.org/10.1101/058222 2016-06-10 Genomics CC BY-NC-ND MutPrior:An Ensemble Method for Ranking Genes in Cancer Shailesh Patil|Sreya Dey|Randeep Singh SAP Labs India Pvt. Ltd;|SAP labs India Pvt. ltd
http://dx.doi.org/10.1101/058164 2016-06-10 Bioinformatics CC BY Differential analysis of RNA-Seq incorporating quantification uncertainty Harold J Pimentel|Nicolas Bray|Suzette Puente|Pall Melsted|Lior Pachter UC Berkeley;|University of Iceland
http://dx.doi.org/10.1101/058214 2016-06-10 Genomics CC BY-ND Polygenic scores using summary statistics via penalized regression Timothy Mak|Robert Milan Porsch|Shing Wan Choi|Xueya Zhou|Pak Chung Sham University of Hong Kong
http://dx.doi.org/10.1101/058339 2016-06-10 Genomics Regulation of global transcription in E. coli by Rsd and 6S RNA Avantika Lal|Sandeep Krishna|Aswin Sai Narain Seshasayee National Centre for Biological Sciences;|Simons Centre for the Study of Living Machines, National Centre for Biological Sciences
http://dx.doi.org/10.1101/057851 2016-06-10 Immunology CC BY To what extent are the terminal stages of sepsis, septic shock, SIRS, and multiple organ dysfunction syndrome actually driven by a prion/amyloid form of fibrin? bioRxiv preprint. Douglas Bruce Kell|Etheresia Pretorius The University of Manchester;|The University of Pretoria
http://dx.doi.org/10.1101/058404 2016-06-11 Bioinformatics CC BY Post-selection Inference Following Aggregate Level Hypothesis Testing in Large Scale Genomic Data Ruth Heller|Nilanjan Chatterjee|Abba Krieger|Jianxin Shi Tel-Aviv Universtiy;|Johns Hopkins University;|University of Pennsylvania;|National Cancer Institute
http://dx.doi.org/10.1101/058412 2016-06-11 Genomics CC BY-NC-ND Structural changes following the reversal of a Y chromosome to an autosome in Drosophila pseudoobscura Ching-Ho Chang|Amanda M Larracuente University of Rochester
http://dx.doi.org/10.1101/058347 2016-06-11 Genetics CC BY-NC-ND Exploring the genetic architecture of inflammatory bowel disease by whole genome sequencing identifies association at ADCY7 Yang Luo|Katrina M de Lange|Luke Jostins|Loukas Moutsianas|Joshua Randall|Nicholas A Kennedy|Christopher A Lamb|Shane McCarthy|Tariq Ahmad|Cathryn Edwards|Eva Goncalves Serra|Ailsa Hart|Chris Hawkey|John C Mansfield|Craig Mowat|William G Newman|Sam Nichols|Martin Pollard|Jack Satsangi|Alison Simmons|Mark Tremelling|Holm Uhlig|David W Wilson|James C Lee|Natalie J Prescott|Charlie W Lees|Christopher G Mathew|Miles Parkes|Jeffrey C Barrett|Carl A Anderson Wellcome Trust Sanger Institute;|Wellcome Trust Centre for Human Genetics;|University of Exeter;|Newcastle University;|Torbay Hospital;|St Mark's Hospital;|Queens Medical Centre;|Ninewells Hospital and Medical School;|Manchester Academic Health Science Centre;|Wester General Hospital University of Edinburgh;|John Radcliffe Hospital;|Norfolk and Norwich University Hospital;|University of Oxford;|Royal Hospital for Sick Children;|Addenbrooke's Hospital;|King's College London, Guy's Hospital
http://dx.doi.org/10.1101/058271 2016-06-11 Neuroscience CC BY-NC-ND Estimating the efficacy of transcranial magnetic stimulation in small animals Lari M Koponen|Jaakko O Nieminen|Risto J Ilmoniemi Aalto University
http://dx.doi.org/10.1101/058388 2016-06-11 Genetics CC BY An ancient fecundability-associated polymorphism switches a repressor into an enhancer of endometrial TAP2 expression Katelyn M. Mika|Vincent J. Lynch The University of Chicago
http://dx.doi.org/10.1101/056515 2016-06-12 Neuroscience CC BY-NC Task demands affect spatial reference frame weighting during tactile localization in sighted and congenitally blind adults Jonathan T. W. Schubert|Stephanie Badde|Brigitte Roeder|Tobias Heed University of Hamburg;|Department of Psychology, New York University, New York, USA
http://dx.doi.org/10.1101/058495 2016-06-12 Neuroscience Video-rate volumetric functional imaging of the brain at synaptic resolution Rongwen Lu|Wenzhi Sun|Yajie Liang|Aaron Kerlin|Jens Bierfeld|Johannes Seelig|Daniel E. Wilson|Benjamin Scholl|Boaz Mohar|Masashi Tanimoto|Minoru Koyama|David Fitzpatrick|Michael B. Orger|Na Ji Howard Hughes Medical Institute;|Champalimaud Centre for the Unknown;|Max Planck Florida Institute for Neuroscience
http://dx.doi.org/10.1101/058511 2016-06-12 Scientific Communication and Education CC BY-NC-ND Learning from critical care management of sheep receiving extra-corporeal membrane oxygenation for smoke-induced acute lung injury as a tool for processing large clinical datasets Saul Chemonges The University of Queensland & Queensland University of Technology
http://dx.doi.org/10.1101/058420 2016-06-12 Evolutionary Biology CC BY-NC-ND Comment on Smaers et al. (2016): A nonviable phylogenetic comparative method hampered by circularity, inaccuracy, and bias Randi H Griffin|Gabriel S Yapuncich Duke Univesity;|Duke University
http://dx.doi.org/10.1101/058537 2016-06-12 Neuroscience CC BY-NC-ND Familiarity Facilitates Feature-based Face Processing Matteo Visconti di Oleggio Castello|Kelsey G. Wheeler|Maria Ida Gobbini Dartmouth College;|Dartmouth College, University of Bologna
http://dx.doi.org/10.1101/058453 2016-06-12 Evolutionary Biology CC BY-ND Drift barriers for the proofreading of genes expressed at different levels Kun Xiong|Jay P McEntee|David Porfirio|Joanna Masel University of Arizona, United States
http://dx.doi.org/10.1101/058370 2016-06-12 Genomics Accurate Predictions of Postmortem Interval Using Linear Regression Analyses of Gene Meter Expression Data M Colby Hunter|Alexander Pozhitkov|Peter Anthony Noble Alabama State University;|University of Washington
http://dx.doi.org/10.1101/058503 2016-06-12 Genetics The heritability of pathogen traits - definitions and estimators Venelin Mitov|Tanja Stadler ETH Zurich, SIB
http://dx.doi.org/10.1101/058487 2016-06-12 Genomics Vibrio natriegens, a new genomic powerhouse Henry H Lee|Nili Ostrov|Brandon G Wong|Michaela A Gold|Ahmad Khalil|George M Church Harvard Medical School;|Boston University;|Tufts University
http://dx.doi.org/10.1101/058446 2016-06-12 Evolutionary Biology Deciphering the wisent demographic and adaptive histories from individual whole-genome sequences Mathieu Gautier|Katayoun Moazami-Goudarzi|Leveziel Hubert|Hugues Parinello|Cecile Grohs|Stephanie Rialle|Rafal Kowalczyk|Laurence Flori INRA;|IGF;|Polish Academy of Science
http://dx.doi.org/10.1101/058438 2016-06-11 Evolutionary Biology CC BY Evolution of resistance against CRISPR/Cas9 gene drive Robert L Unckless|Andrew G Clark|Philipp W Messer Cornell University
http://dx.doi.org/10.1101/058396 2016-06-11 Neuroscience CC BY-NC-ND Vision and locomotion shape the interactions between neuron types in mouse visual cortex Mario Dipoppa|Adam Ranson|Michael Krumin|Marius Pachitariu|Matteo Carandini|Kenneth D Harris University College London
http://dx.doi.org/10.1101/058776 2016-06-13 Neuroscience Intrinsic functional architecture of the macaque dorsal and ventral lateral frontal cortex Alexandros Goulas|Peter Stiers|R. Matthew Hutchison|Stefan Everling|Michael Petrides|Daniel S Margulies Max Planck Research Group for Neuroanatomy and Connectivity, Max Planck Institute for Human Cognitiv;|Department of Neuropsychology and Psychopharmacology, Maastricht University;|Center for Brain Sciences, Harvard University, Cambridge, MA, USA;|Robarts Research Institute, University of Western Ontario, London, Ontario, Canada;|Cognitive Neuroscience Unit, Montreal Neurological Institute, McGill University
http://dx.doi.org/10.1101/058719 2016-06-13 Animal Behavior and Cognition CC BY Operant Behavior in Model Systems Bjoern Brembs Universitaet Regensburg
http://dx.doi.org/10.1101/058768 2016-06-13 Bioinformatics CC BY-NC-ND Leveraging Functional Annotations in Genetic Risk Prediction for Human Complex Diseases Yiming Hu|Qiongshi Lu|Ryan Powles|Xinwei Yao|Can Yang|Fang Fang|Xinran Xu|Hongyu Zhao Yale University;|Hong Kong Baptist University
http://dx.doi.org/10.1101/058479 2016-06-13 Evolutionary Biology CC BY-NC Lazarus effects: the frequency and genetic causes of Escherichia coli population recovery under lethal heat stress Shaun M Hug|Brandon Gaut UC Irvine, United States;|University of California, Irvine, United States
http://dx.doi.org/10.1101/058750 2016-06-13 Microbiology CC BY-NC Linking comparative genomics and environmental distribution patterns of microbial populations through metagenomics Tom O Delmont|A. Murat Eren University of Chicago
http://dx.doi.org/10.1101/058727 2016-06-13 Neuroscience CC BY-NC-ND Local and thalamic origins of ongoing and sensory evoked cortical correlations Katayun Cohen-Kashi Malina|Boaz Mohar|Akiva N Rappaport|Ilan Lampl The Weizmann Institute of Science
http://dx.doi.org/10.1101/058743 2016-06-13 Systems Biology The CD4+ T cell regulatory network mediates inflammatory responses during acute hyperinsulinemia: a simulation study Mariana Esther Martinez-Sanchez|Marcia Hiriart|Elena Alvarez-Buylla Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/058628 2016-06-13 Ecology CC BY-NC-ND Universal metabarcoding of pico- to mesoplankton reveals seasonal dynamics and a bacterial bloom Christian Wurzbacher|Katrin Attermeyer|Marie Therese Kettner|Clara Flintrop|Norman Warthmann|Sabine Hilt|Hans-Peter Grossart|Michael T Monaghan University of Gothenburg, Sweden;|Uppsala University, Sweden;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries, Germany;|Berlin Center for Genomics in Biodiversity Research;|The Australian National University, Australia
http://dx.doi.org/10.1101/058685 2016-06-13 Neuroscience CC BY-ND ICGenealogy: Mapping the function of neuronal ion channels in model and experiment William F Podlaski|Alex Seeholzer|Lukas N Groschner|Gero Miesenbock|Rajnish Ranjan|Tim P Vogels University of Oxford;|EPFL
http://dx.doi.org/10.1101/058669 2016-06-13 Evolutionary Biology CC BY-NC-ND Brachiopods possess a split Hox cluster with signs of spatial, but not temporal collinearity Sabrina M. Schiemann|Jose M. M. Martin-Duran|Aina Borve|Bruno C. Vellutini|Yale J. Passamaneck|Andreas Hejnol Sars International Centre. University of Bergen;|Kewalo Marine Laboratory, Pacific Biosciences Research Center, University of Hawaii
http://dx.doi.org/10.1101/058701 2016-06-13 Cell Biology Gene expression changes after heat shock of procyclic-form Trypanosoma brucei suggest that stress has a role in differentiation to mammalian-infective forms. Christine Clayton|Igor Minia|Clementine Merce|Monica Terrao ZMBH
http://dx.doi.org/10.1101/058610 2016-06-13 Microbiology CC BY Atypical Salmonella enterica serovars in murine and human infection models: Is it time to reassess our approach to the study of salmonellosis? Daniel Hurley|Maria Hoffmann|Tim Muruvanda|Marc W Allard|Eric W Brown|Marta Martins|Seamus Fanning University College Dublin;|U.S. Food and Drug Administration
http://dx.doi.org/10.1101/058693 2016-06-13 Neuroscience CC BY-NC-ND Task-specific shaping of feature-based attention in area MT Bastian Schledde|Fingal Orlando Galashan|Magdalena Przybyla|Andreas Kurt Kreiter|Detlef Wegener Brain Research Institute, Center for Cognitive Science, University of Bremen
http://dx.doi.org/10.1101/058594 2016-06-13 Cancer Biology Maintaining proton homeostasis is an essential role of glucose metabolism in cell survival Yanfen Cui|Yuanyuan Wang|Pan Xing|Li Qiu|Miao Liu|Xin Wang|Guoguang Ying|Binghui Li Tianjin Medical University Cancer Institute and Hospital
http://dx.doi.org/10.1101/058578 2016-06-13 Pathology CC BY Sacral agenesis: A whole exome sequencing and copy number study Robert Milan Porsch|Elisa Merello|Patrizia De Marco|Guo Cheng|Laura Rodriguez|Paul Tam|Stacey Cherny|Pak Sham|Valeria Carpa|Maria-Merce Garcia-Barcelo|Desmond Campbell The University of Hong Kong;|Istituto Giannina Gaslini;|AbaCid-Genética. Grupo HM Hospitales
http://dx.doi.org/10.1101/058552 2016-06-13 Systems Biology CC BY Modeling and Analysis of Hormone and Mitogenic Signal Integration in Prostate Cancer Katharine Rogers|Joseph Wayman|Ryan Tasseff|Caitlin Gee|Matthew DeLisa|Jeffrey Varner Cornell University
http://dx.doi.org/10.1101/058545 2016-06-13 Neuroscience Towards an integration of deep learning and neuroscience Adam Henry Marblestone|Greg Wayne|Konrad P Kording MIT;|Google Deepmind;|Northwestern University
http://dx.doi.org/10.1101/058917 2016-06-14 Neuroscience CC BY-NC-ND A robust role for motor cortex Goncalo Lopes|Joana Nogueira|Joseph J. Paton|Adam R. Kampff Champalimaud Centre for the Unknown;|Sainsbury Wellcome Centre
http://dx.doi.org/10.1101/058933 2016-06-14 Biophysics CC BY-NC-ND A Polymer Model with Epigenetic Recolouring Reveals a Pathway for the de novo Establishment and 3D Organisation of Chromatin Domains Davide Michieletto|Enzo Orlandini|Davide Marenduzzo University of Edinburgh;|Universiy of Padova
http://dx.doi.org/10.1101/058982 2016-06-14 Neuroscience Mechanical flexibility reduces the foreign body response to long- term implanted microelectrodes in rabbit cortex Harbaljit S Sohal|Gavin J Clowry|Andrew Jackson|Anthony O'Neill|Stuart N Baker Feinstein Institute for Medical Research;|Institute of Neuroscience, Newcastle University;|School of Electrincal and Electronic Engineering, Newcastle University
http://dx.doi.org/10.1101/059014 2016-06-14 Pathology CC BY-NC-ND GPR4 Deficiency Alleviates Intestinal Inflammation in a Mouse Model of Inflammatory Bowel Disease Edward J Sanderlin|Nancy R Leffler|Kvin Lertpiriyapong|Qi Cai|Heng Hong|Vasudevan Bakthavatchalu|James G Fox|Joani Zary Oswald|Calvin R Justus|Elizabeth A Krewson|Dorcas O'Rourke|Li V Yang East Carolina University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/058875 2016-06-14 Genomics CC BY-NC-ND Unbiased whole-genome deep sequencing of human and porcine stool samples reveals circulation of multiple groups of rotaviruses and a putative zoonotic infection My V.T. Phan|Pham Hong Anh|Nguyen Van Cuong|Bas B. Oude Munnink|Lia van der Hoek|Phuc Tran My|Tue Ngo Tri|Juliet E. Bryant|Stephen Baker|Guy Thwaites|Mark Woolhouse|Paul Kellam|Maia A Rabaa|Matthew L Cotten Wellcome Trust Sanger Institute;|Oxford University Clinical Research Unit, Ho Chi Minh City, Vietnam;|Laboratory of Experimental Virology, Academic Medical Center, University of Amsterdam;|Centre for Immunity, Infection & Evolution, University of Edinburgh, Edinburgh, United Kingdom;|Wellcome Trust Sanger Institue
http://dx.doi.org/10.1101/058958 2016-06-14 Neuroscience CC BY Long-term, layer-specific modification of spontaneous activity in the mouse somatosensory cortex following sensory stimulation Elena Phoka|Aleksandra Berditchevskaia|Mauricio Barahona|Simon Schultz Imperial College London
http://dx.doi.org/10.1101/059006 2016-06-14 Evolutionary Biology CC BY-NC-ND Gene tree discordance generates patterns of diminishing convergence over time Fabio K Mendes|Yoonsoo Hahn|Matthew W Hahn Indiana University;|Chung-Ang University
http://dx.doi.org/10.1101/058974 2016-06-14 Synthetic Biology CC BY-NC-ND Precise Cas9 targeting enables genomic mutation prevention Alejandro Chavez|Benjamin W Pruitt|Marcelle Tuttle|Rebecca S Shapiro|Ryan J Cecchi|Jordan Winston|Brian M Turczyk|Michael Tung|James J Collins|George M Church Wyss Institute at Harvard University
http://dx.doi.org/10.1101/058867 2016-06-14 Bioinformatics CC BY-NC-ND FPD: A comprehensive phosphorylation database in fungi Youhuang Bai|Bin Chen|Yincong Zhou|Silin Ren|Qin Xu|Ming Chen|Shihua Wang Fujian Agriculture and Forestry University;|Zhejiang University
http://dx.doi.org/10.1101/058826 2016-06-14 Bioinformatics CC BY-NC-ND A cell type-specific expression signature predicts haploinsufficient autism-susceptibility genes Chaolin Zhang|Yufeng Shen Columbia University
http://dx.doi.org/10.1101/056911 2016-06-14 Cell Biology Networks that link cytoskeletal regulators and diaphragm proteins underpin filtration function in Drosophila nephrocytes. Simi Muraleedharan|Helen Skaer|Maneesha S Inamdar Jawaharlal Nehru Centre for Advanced Scientific Research;|University of Cambridge
http://dx.doi.org/10.1101/058842 2016-06-14 Microbiology CC BY-NC-ND Refutation: Structure and mechanism of the essential two-component signal-transduction system WalKR in Staphylococcus aureus. Ian R. Monk|Torsten Seemann|Benjamin P. Howden|Timothy P. Stinear University of Melbourne
http://dx.doi.org/10.1101/058834 2016-06-14 Evolutionary Biology CC BY A logic approach to modeling nomenclatural change Nico Franz|Chao Zhang|Joohyung Lee Arizona State University
http://dx.doi.org/10.1101/058529 2016-06-13 Bioinformatics CC BY SourceData - a semantic platform for curating and searching figures Robin Liechti|Lou Gotz|Nancy George|Sara El-Gebali|Isaac Crespo|Ioannis Xenarios|Thomas Lemberger Swiss Institute of Bioinformatics;|EMBO
http://dx.doi.org/10.1101/058784 2016-06-13 Genomics CC BY-NC-ND Genetic and transcriptional analysis of human host response to healthy gut microbiome Allison L Richards|Michael B Burns|Adnan Alazizi|Luis B Barreiro|Roger Pique-Regi|Ran Blekhman|Francesca Luca Wayne State University;|University of Minnesota;|University of Montreal
http://dx.doi.org/10.1101/058362 2016-06-15 Ecology Aggregation tendencies of a female Vaejovis carolinianus population of France Mountain, Tennessee Bob Baggett|Hannah E Ritter|Margaret E Melendez Biological Sciences;|Tennessee Technological University;|Middle Tennessee State University
http://dx.doi.org/10.1101/058354 2016-06-15 Ecology Retreat Site Selection in Vaejovis carolinianus Populations of Tennessees Upper Cumberland Region Bob A Baggett Tennessee Technological University
http://dx.doi.org/10.1101/059261 2016-06-15 Genomics Genome resources for climate-resilient cowpea, an essential crop for food security Maria Munoz-Amatriain|Hamid Mirebrahim|Pei Xu|Steve I Wanamaker|MingCheng Luo|Hind Alhakami|Matthew Alpert|Ibrahim Atokple|Benoit Joseph Batieno|Ousmane Boukar|Serdar Bozdag|Ndiaga Cisse|Issa Drabo|Jeffrey D Ehlers|Andrew Farmer|Christian Fatokun|Yong Q Gu|Yi-Ning Guo|Bao-Lam Huynh|Scott A Jackson|Francis Kusi|Cynthia T Lawley|Mitchell R Lucas|Yaqin Ma|Michael P Timko|Jiajie Wu|Frank You|Philip A Roberts|Stefano Lonardi|Timothy J Close University of California Riverside;|Zhejiang Academy of Agricultural Sciences;|University of California Davis;|Savanna Agricultural Research Institute;|Institut de l'Environnement et de Recherches Agricoles;|International Institute of Tropical Agriculture;|Marquette University;|Institut Senegalais de Recherches Agricoles;|The Bill & Melinda Gates Foundation;|National Center for Genome Resources;|USDA-ARS Western Regional Research Center;|University of Georgia;|Illumina, Inc.;|University of Virginia;|Agriculture and Agri-Food Canada
http://dx.doi.org/10.1101/059220 2016-06-15 Biophysics Probing cytoplasmic viscosity in the confined geometry of tip-growing plant cells via FRAP James L Kingsley|Jeffrey P Bibeau|Zhilu Chen|Xinming Huang|Luis Vidali|Erkan Tuzel Worcester Polytechnic Institute
http://dx.doi.org/10.1101/059279 2016-06-15 Evolutionary Biology CC BY-NC-ND The Evolutionary Trade-off between Stem Cell Niche Size, Aging, and Tumorigenesis Vincent L. Cannataro|Scott A. McKinley|Colette M. St. Mary Yale University;|Tulane University;|University of Florida
http://dx.doi.org/10.1101/059204 2016-06-15 Bioinformatics CC BY Navigating the phenotype frontier: The Monarch Initiative Julie McMurry|Sebastian Kohler|James Balhoff|Charles Borromeo|Matthew Brush|Seth Carbon|Tom Conlin|Nathan Dunn|Mark Engelstad|Erin Foster|Jean-Philippe Gourdine|Julius Jacobsen|Daniel Keith|Bryan Laraway|Suzanna Lewis|Jeremy Nguyen Xuan|Kent Shefchek|Nicole Vasilevsky|Zhou Yuan|Nicole Washington|Harry Hochheiser|Christopher Mungall|Tudor Groza|Damian Smedley|Peter Robinson|Melissa Haendel Dept of Medical Informatics, Epidemiology, Library, Oregon Health & Science University, Portland USA;|Institute for Medical Genetics and Human Genetics, Charite-Universitatsmedizin, Berlin, Germany;|RTI International, Research Triangle Park, NC, USA;|Department of Biomedical Informatics, University of Pittsburgh, Pittsburgh, PA;|Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA;|Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA, UK;|Kinghorn Centre for Clinical Genomics, Garvan Institute of Medical Research, Darlinghurst, Australia;|William Harvey Research Institute, Barts & London School of Medicine, Queen Mary University, UK
http://dx.doi.org/10.1101/059170 2016-06-15 Bioinformatics CC BY A natural encoding of genetic variation in a Burrows-Wheeler Transform to enable mapping and genome inference Sorina Maciuca|Carlos del Ojo Elias|Gil McVean|Zamin Iqbal University of Oxford
http://dx.doi.org/10.1101/049114 2016-06-15 Genomics Adapterama I: Universal stubs and primers for thousands of dual-indexed Illumina libraries (iTru & iNext) Travis C. Glenn|Roger Nilsen|Troy J. Kieran|John W. Finger|Todd W. Pierson|Kerin E. Bentley|Sandra Hoffberg|Swarnali Louha|Francisco J. Garcia-De-Leon|Miguel Angel del Rio Portilla|Kurt Reed|Jennifer L. Anderson|Jennifer K. Meece|Sammy Aggery|Romdhane Rekaya|Magdy Alabady|Myriam Belanger|Kevin Winker|Brant C. Faircloth Dept. of Environmental Health Science, University of Georgia;|Georgia Genomics Facility, University of Georgia;|Dept. Environmental Health Science, University of Georgia;|Dept. of Ecology and Evolutionary Biology, University of Tennessee;|Dept. of Genetics, University of Georgia;|Institute of Bioinformatics, University of Georgia;|Centro de Investigaciones Biologicas del Noroeste, Instituto Politecnico Nacional;|Departamento de Acuicultura, Carretera Ensenada-Tijuana;|Dept. of Pathology and Laboratory Medicine, University of Wisconsin;|Integrated Research and Development Laboratory, Marshfield Clinic Research Foundation;|Dept. of Poultry Science, University of Georgia;|Dept. of Animal Science, University of Georgia;|University of Alaska Museum;|Department of Biological Sciences and Museum of Natural Science, Louisiana State University
http://dx.doi.org/10.1101/059238 2016-06-15 Bioengineering CC BY 3D-Printed Autonomous Capillaric Circuits Ayokunle O Olanrewaju|Alessandra Robillard|Milad Dagher|David Juncker McGill University
http://dx.doi.org/10.1101/058990 2016-06-15 Scientific Communication and Education CC BY-NC-ND A formula to estimate a researcher's impact by prioritizing highly cited publications Aleksey V Belikov|Vitaly V Belikov Independent researcher;|Russian Academy of Sciences, Water Problems Institute, Gubkin st. 3, 119333 Moscow, Russia
http://dx.doi.org/10.1101/058925 2016-06-15 Animal Behavior and Cognition CC BY-NC Ecological Representations Sabrina Golonka|Andrew D Wilson Leeds Beckett University
http://dx.doi.org/10.1101/059071 2016-06-15 Evolutionary Biology CC BY-NC Programmed cell death can increase the efficacy of microbial bet-hedging Eric Libby|William W. Driscoll|William C. Ratcliff Santa Fe Institute;|University of Minnesota;|Georgia Institute of Technology
http://dx.doi.org/10.1101/059162 2016-06-15 Developmental Biology CC BY RNase reverses segment sequence in the anterior of a beetle egg (Callosobruchus maculatus, Coleoptera) Jitse Michiel van der Meer Redeemer University College
http://dx.doi.org/10.1101/059139 2016-06-15 Genomics CC BY-NC-ND Population Structure Analysis of Globally Diverse Bull Genomes Neo Christopher Chung|Joanna Szyda|Magdalena Fraszczak Wroclaw University of Environmental and Life Sciences
http://dx.doi.org/10.1101/059121 2016-06-15 Bioinformatics CC BY mmgenome: a toolbox for reproducible genome extraction from metagenomes Soeren M Karst|Rasmus H Kirkegaard|Mads Albertsen Aalborg University
http://dx.doi.org/10.1101/059105 2016-06-15 Evolutionary Biology CC BY Bayesian inference of ancestral recombination graphs for bacterial populations Timothy G Vaughan|David Welch|Alexei J Drummond|Patrick J Biggs|Tessy George|Nigel P French University of Auckland;|Massey University
http://dx.doi.org/10.1101/059089 2016-06-15 Evolutionary Biology Uniparental inheritance promotes adaptive evolution in cytoplasmic genomes Joshua R Christie|Madeleine Beekman The University of Sydney
http://dx.doi.org/10.1101/058883 2016-06-15 Cell Biology Zika Virus in the Human Placenta and Developing Brain: Cell Tropism and Drug Inhibition Hanna Retallack|Elizabeth Di Lullo|Carolina Arias|Kristeene A. Knopp|Carmen Sandoval-Espinosa|Matthew T. Laurie|Yan Zhou|Matthew Gormley|Walter R. Mancia Leon|Robert Krencik|Erik M. Ullian|Julien Spatazza|Alex A. Pollen|Katherine Ona|Tomasz J. Nowakowski|Joseph L. DeRisi|Susan J. Fisher|Arnold R. Kriegstein University of California, San Francisco
http://dx.doi.org/10.1101/059147 2016-06-15 Biophysics CC BY-NC-ND Dynamic Nucleosome Movement Provides Structural Information of Topological Chromatin Domains in Living Human Cells Soya Shinkai|Tadasu Nozaki|Kazuhiro Maeshima|Yuichi Togashi Hiroshima University;|National Institute of Genetics, Japan
http://dx.doi.org/10.1101/059113 2016-06-15 Microbiology Modelling the effects of bacterial cell state and spatial location on tuberculosis treatment: Insights from a hybrid multiscale cellular automaton model Ruth Bowness|Mark A. J. Chaplain|Gibin G. Powathill|Stephen H. Gillespie University of St Andrews;|Swansea University
http://dx.doi.org/10.1101/058800 2016-06-15 Bioinformatics ANFIS-based Fuzzy Systems for Searching DNA-Protein Binding Sites Dianhui Wang|Monther Alhamdoosh|Witold Pedrycz La Trobe University;|The University of Melbourne;|University of Alberta
http://dx.doi.org/10.1101/058966 2016-06-15 Evolutionary Biology CC BY-NC-ND A genomic view of the peopling of the Americas Pontus Skoglund|David Reich Harvard University
http://dx.doi.org/10.1101/059055 2016-06-15 Bioinformatics CC BY-ND Visualizing tumor evolution with the fishplot package for R Christopher A Miller|Joshua McMichael|Ha X Dang|Christopher A Maher|Li Ding|Timothy J Ley|Elaine R Mardis|Richard K Wilson Washington University in St Louis
http://dx.doi.org/10.1101/058859 2016-06-15 Epidemiology CC BY-NC-ND Quantitative, model-based estimates of variability in the serial interval of Plasmodium falciparum malaria John H. Huber|Geoffrey L. Johnston|Bryan Greenhouse|David L. Smith|T. Alex Perkins University of Notre Dame;|Apple Inc.;|University of California, San Francisco;|University of Washington
http://dx.doi.org/10.1101/059329 2016-06-16 Bioinformatics CC BY-NC RiVIERA-beta: Joint Bayesian inference of risk variants and tissue-specific epigenomic enrichments across multiple complex human diseases Yue Li|Manolis Kellis Massachusetts Institute of Technology
http://dx.doi.org/10.1101/059311 2016-06-16 Genetics CC BY-NC-ND The genetic structure of the world's first farmers Iosif Lazaridis|Dani Nadel|Gary Rollefson|Deborah C. Merrett|Nadin Rohland|Swapan Mallick|Daniel Fernandes|Mario Novak|Beatriz Gamarra|Kendra Sirak|Sarah Connell|Kristin Stewardson|Eadaoin Harney|Qiaomei Fu|Gloria Gonzalez-Fortes|Songul Alpaslan Roodenberg|Gyorgy Lengyel|Fanny Bocquentin|Boris Gasparian|Janet M. Monge|Michael Gregg|Vered Eshed|Ahuva-Sivan Mizrahi|Christopher Meiklejohn|Fokke Gerritsen|Luminita Bejenaru|Matthias Blueher|Archie Campbell|Gianpero Cavalleri|David Comas|Philippe Froguel|Edmund Gilbert|Shona M. Kerr|Peter Kovacs|Johannes Krause|Darren McGettigan|Michael Merrigan|D. Andrew Merriwether|Seamus O'Reilly|Martin B. Richards|Ornella Semino|Michel Shamoon-Pour|Gheorghe Stefanescu|Michael Stumvoll|Anke Tonjes|Antonio Torroni|James F. Wilson|Loic Yengo|Nelli A. Hovhannisyan|Nick Patterson|Ron Pinhasi|David Reich Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA;|The Zinman Institute of Archaeology, University of Haifa, Haifa 3498838, Israel;|Dept. of Anthropology, Whitman College, Walla Walla, WA 99362, USA;|Dept. of Archaeology, Simon Fraser University, Burnaby, British Columbia V5A 1S6, Canada;|School of Archaeology and Earth Institute, Belfield, University College Dublin, Dublin 4, Ireland;|Key Laboratory of Vertebrate Evolution and Human Origins of Chinese Academy of Sciences;|Dept. of Biology and Evolution, University of Ferrara, Ferrara I-44121, Italy;|Independent Researcher, Santpoort-Noord, The Netherlands;|Department of Prehistory and Archaeology, University of Miskolc;|French National Centre for Scientific Research, UMR 7041, 92023 Nanterre Cedex, France;|Institute of Archaeology and Ethnology,National Academy of Sciences of the Republic of Armenia;|University of Pennsylvania Museum of Archaeology and Anthropology, Philadelphia, PA 19104, USA;|Israel Antiquities Authority, Jerusalem 91710, Israel;|Dept. of Anthropology, University of Winnipeg, Winnipeg, Manitoba R3B 2E9, Canada;|Netherlands Institute in Turkey, Istiklal Caddesi, Nur-i Ziya Sokak 5, Beyoğlu;|Alexandru Ioan Cuza University of Iasi, Romania 700505, Romania;|Dept. of Internal Medicine and Dermatology, Clinic of Endocrinology and Nephrology, 04103 Leipzig;|Generation Scotland, Centre for Genomic and Experimental Medicine, University of Edinburgh, Scotland;|RCSI Molecular & Cellular Therapeutics, Royal College of Surgeons in Ireland, Dublin 2, Ireland;|Inst. de Biologia Evolutiva (CSIC-UPF), Dept. de Ciencies Experimentals i de la Salut, Spain;|Univ. Lille, CNRS, Institut Pasteur de Lille, UMR 8199 - EGID, F-59000 Lille, France;|Leipzig University Medical Center, IFB AdiposityDiseases, 04103 Leipzig, Germany;|Max Planck Institute for the Science of Human History, 07745 Jena, Germany;|Independent researcher, County Wicklow, Ireland;|Genealogical Society of Ireland, Dun Laoghaire, County Dublin, Ireland;|Department of Anthropology, Binghamton University, New York 13902, USA;|Dept. of Biological Sciences, School of Applied Sciences, University of Huddersfield, UK;|Dipartimento di Biologia e Biotecnologie;|Institutul de Cercetari Biologice, Iaşi 700505, Romania;|Usher Institute for Population Health Sciences and Informatics, University of Edinburgh, Edinburgh;|Dept. of Ecology and Nature Protection, Yerevan State University, 0025 Yerevan, Republic of Armenia;|Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02142, USA
http://dx.doi.org/10.1101/057992 2016-06-16 Bioinformatics CC BY-NC In situ replication rates for uncultivated bacteria in microbial communities Christopher T Brown|Matthew R Olm|Brian C Thomas|Jillian F Banfield UC Berkeley
http://dx.doi.org/10.1101/059394 2016-06-16 Genomics Characterizing the epigenetic signatures of the human regulatory elements: A pilot study Sawyer L Clement|Hani Z Girgis University of Tulsa
http://dx.doi.org/10.1101/059295 2016-06-16 Bioinformatics CC BY microRNA-mRNA interaction identification in Wilms tumor using principalcomponent analysis based unsupervised feature extraction Y-h. Taguchi Chuo University
http://dx.doi.org/10.1101/059188 2016-06-16 Scientific Communication and Education CC BY Scanning the Horizon: Future challenges for neuroimaging research Russell Poldrack|Chris I Baker|Joke Durnez|Krzysztof Gorgolewski|Paul M Matthews|Marcus Munafo|Thomas Nichols|Jean-Baptiste Poline|Edward Vul|Tal Yarkoni Stanford University;|National Institute of Mental Health;|Hammersmith Hospital;|University of Bristol;|Warwick University;|University of California, Berkeley;|University of California, San Diego;|University of Texas at Austin
http://dx.doi.org/10.1101/059287 2016-06-16 Systems Biology CC BY-NC Distinct Cellular States Determine Calcium Signaling Response Jason Yao|Roy Wollman University of California, Los Angeles
http://dx.doi.org/10.1101/059352 2016-06-16 Genetics CC BY-NC-ND Do Regional Brain Volumes and Major Depressive Disorder Share Genetic Architecture: a study in Generation Scotland (n=19,762), UK Biobank (n=24,048) and the English Longitudinal Study of Ageing (n=5,766) Eleanor M Wigmore|Toni-Kim Clarke|Mark J Adams|Ana M Fernandez-Pujals|Jude Gibson|Gail Davies|Lynsey S Hall|Yanni Zeng|Philippa A Thomson|Caroline Hayward|Blair H Smith|Lynne J Hocking|Sandosh Padmanabhan|Ian J Deary|David J Porteous|Kristin K Nicodemus|Andrew M McIntosh University of Edinburgh;|University of Dundee;|University of Aberdeen;|University of Glasgow
http://dx.doi.org/10.1101/059154 2016-06-16 Evolutionary Biology CC BY Monogamy promotes worker sterility in insect societies Nicholas G Davies|Andy Gardner University of Oxford;|University of St. Andrews
http://dx.doi.org/10.1101/059386 2016-06-16 Systems Biology CC BY Reduced order modeling and analysis of the human complement system Adithya Sagar|Wei Dai|Mason Minot|Jeffrey D Varner Cornell University
http://dx.doi.org/10.1101/059345 2016-06-16 Bioinformatics CC BY-NC-ND RiVIERA-MT: A Bayesian model to infer risk variants in related traits using summary statistics and functional genomic annotations Yue Li|Manolis Kellis Massachusetts Institute of Technology
http://dx.doi.org/10.1101/059592 2016-06-17 Immunology CC BY-ND Heterologous protection against Asian Zika virus challenge in rhesus macaques Matthew T Aliota|Dawn M Dudley|Christina M Newman|Emma L Mohr|Dane D Gellerup|Meghan E Breitbach|Connor R Buechler|Mustafa N Rasheed|Mariel S Mohns|Andrea M Weiler|Gabrielle L Barry|Kim L Weisgrau|Josh A Eudailey|Eva G Rakasz|Logan J Vosler|Jennifer Post|Saverio Capuano|Thaddeus G Golos|M Anthony Moody|Sallie R Permar|Jorge E Osorio|Thomas C Friedrich|Shelby L O'Connor|David H O'Connor University of Wisconsin-Madison;|Duke University
http://dx.doi.org/10.1101/059469 2016-06-17 Systems Biology CC BY-NC-ND Prioritizing 2nd and 3rd order interactions via support vector ranking using sensitivity indices on static Wnt measurements - Part A shriprakash sinha
http://dx.doi.org/10.1101/059428 2016-06-17 Neuroscience CC BY-NC-ND Auditory Nerve Stochasticity Impedes Category Learning: the Role of Cochlear Nucleus and Inferior Colliculus in Stabilising Auditory Nerve Firing Irina Higgins|Simon Stringer|Jan Schnupp University of Oxford
http://dx.doi.org/10.1101/059501 2016-06-17 Genomics CC BY Modulation of global transcriptional regulatory networks as a strategy for increasing kanamycin resistance of EF-G mutants Aalap Mogre|Aswin Sai Narain Seshasayee National Centre for Biological Sciences, Tata Institute of Fundamental Research;|Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/059550 2016-06-17 Bioinformatics CC BY-NC-ND MMinte: An application for predicting metabolic interactions among the microbial species in a community Helena Mendes-Soares|Michael Mundy|Luis Mendes Soares|Nicholas Chia Mayo Clinic;|Harvard Medical School
http://dx.doi.org/10.1101/059451 2016-06-17 Cell Biology CC BY-NC The ciliary targeting of membrane proteins by a ternary complex comprising transportin1, Rab8 and the ciliary targeting signal Viswanadh Madugula|Lei Lu Nanyang Technological Univ
http://dx.doi.org/10.1101/059477 2016-06-17 Genomics CC BY-NC-ND DNA methylation plays a role on in vitro culture induced loss of virulence in Botrytis cinerea Jimmy Breen|Luis Mur|Anushen Sivakumaran|Aderemi Akinyemi|Mike Wilkinson|Carlos Rodriguez Lopez University of Adelaide;|Aberystwyth University
http://dx.doi.org/10.1101/059519 2016-06-17 Genomics Genetic variability in both the adaptive and innate immune systems contribute to Alzheimer's and Parkinson's disease risk Sarah A Gagliano|Jennie G Pouget|John Hardy|Michael R Barnes|Jo Knight|Mina Ryten|Michael E Weale King's College London;|Centre for Addiction and Mental Health;|University College London;|Queen Mary University of London;|Lancaster University
http://dx.doi.org/10.1101/059485 2016-06-17 Genetics CC BY-NC-ND Accounting for genetic interactions is necessary for accurate prediction of extreme phenotypic values of quantitative traits in yeast Simon K G Forsberg|Joshua S Bloom|Meru Sadhu|Leonid Kruglyak|Orjan Carlborg Uppsala University;|UCLA
http://dx.doi.org/10.1101/059535 2016-06-17 Immunology CC BY-NC-ND Complement receptor 2 and IL-8 production identifies in adults and neonates naive T cells recently arising from the thymus Marcin Lukasz Pekalski|Arcadio Rubio Garcia|Ricardo C Ferreira|Daniel B Rainbow|Deborah J Smyth|Meghavi Mashar|Jane Brady|Natalia Savinykh|Xaquin Castro Dopico|Sumiyya Mahmood|Simon Duley|Helen E Stevens|Neil M Walker|Antony J Cutler|Frank Waldron-Lynch|David B Dunger|Claire Shannon-Lowe|Alasdair J Coles|Joanne L Jones|Chris Wallace|John A Todd|Linda S Wicker University of Cambridge;|The University of Birmingham
http://dx.doi.org/10.1101/059493 2016-06-17 Neuroscience CC BY Fractured tonotopy of functional neural clusters in mouse auditory cortex Isabel Delgado Ruz|Simon Schultz Imperial College London
http://dx.doi.org/10.1101/059436 2016-06-17 Genomics CC BY A direct multi-generational estimate of the human mutation rate from autozygous segments seen in thousands of parentally related individuals Vagheesh M Narasimhan|Raheleh Rahbari|Aylwyn Scally|Arthur Wuster|Dan Mason|Yali Xue|John Wright|Richard C Trembath|Eamonn R Maher|David A van Heel|Adam Auton|Matthew E Hurles|Chris Tyler-Smith|Richard Durbin Wellcome Trust Sanger Institute;|Department of Genetics, University of Cambridge;|Bradford Institute for Health Research, Bradford Teaching Hospitals NHS Foundation Trust;|Faculty of Life Sciences and Medicine, King's College London;|Department of Medical Genetics, University of Cambridge;|Blizard Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of L;|Department of Genetics, Albert Einstein College of Medicine
http://dx.doi.org/10.1101/059766 2016-06-18 Genetics CC BY-ND Potential energy landscapes reveal the information-theoretic nature of the epigenome Garrett Jenkinson|Elisabet Pujadas|John Goutsias|Andrew P Feinberg The Johns Hopkins University
http://dx.doi.org/10.1101/043232 2016-06-18 Bioinformatics CC BY-NC-ND RSQ: a statistical method for quantification of isoform-specific structurome using transcriptome-wide structural profiling data Yunfei Wang|Zhenyu Xuan|Xiaopeng Zhu|Ming Sun|Yong Chen|Michael Q Zhang|Min Chen|Yiwen Chen|Shikui Tu Department of Biological Sciences, Center for Systems Biology, The University of Texas at Dallas;|University of Massachusetts Medical School;|The University of Texas MD Anderson Cancer Center;|The University of Texas at Dallas, Richardson;|The University of Texas at Dallas
http://dx.doi.org/10.1101/059675 2016-06-18 Synthetic Biology CC BY-NC-ND The role of single occupancy effects on integrase dynamics in a cell-free system Georgios Artavanis|Victoria Hsiao|Clarmyra A Hayes|Richard M Murray California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/059790 2016-06-18 Evolutionary Biology CC BY-NC-ND Shedding light on the grey zone of speciation along a continuum of genomic divergence Camille Roux|Christelle Fraisse|Jonathan Romiguier|Yoann Anciaux|Nicolas Galtier|Nicolas Bierne Universite de Montpellier;|IST
http://dx.doi.org/10.1101/059758 2016-06-18 Neuroscience CC BY-NC-ND Firing patterns of serotonin neurons underlying cognitive flexibility Sara Pinto dos Santos Matias|Eran Lottem|Guillaume Pierre Dugue|Zachary Frank Mainen Champalimaud Centre for the Unknown;|Institut de Biologie de la Ecole Normale Superieure
http://dx.doi.org/10.1101/059725 2016-06-18 Evolutionary Biology CC BY-ND ADAR-Independent A-to-I RNA Editing is Generally Adaptive for Sexual Reproduction in Fungi Qinhu Wang|Cong Jiang|Huiquan Liu|Jin-Rong Xu College of Plant Protection, Northwest A&F University;|Department of Botany and Plant Pathology, Purdue University
http://dx.doi.org/10.1101/059741 2016-06-18 Biophysics CC BY The role of evolutionary selection in the dynamics of protein structure evolution Amy I. Gilson|Ahmee Marshall-Christensen|Jeong-Mo Choi|Eugene I. Shakhnovich Harvard University
http://dx.doi.org/10.1101/059667 2016-06-18 Genomics CC BY-NC-ND Enhanced gene expression plasticity as a mechanism of adaptation to a variable environment in a reef-building coral Carly Kenkel|Mikhail V Matz Australian Institute of Marine Science;|University of Texas at Austin
http://dx.doi.org/10.1101/059618 2016-06-18 Neuroscience CC BY Decoding brain activity using a large-scale probabilistic functional-anatomical atlas of human cognition Timothy N Rubin|Oluwasanmi Koyejo|Krzysztof J Gorgolewski|Michael N Jones|Russell A Poldrack|Tal Yarkoni Indiana University Bloomington;|University of Illinois at Urbana-Champaign;|Stanford University;|University of Texas at Austin
http://dx.doi.org/10.1101/059659 2016-06-18 Genomics CC BY 'Gap hunting' to identify multimodal distributions of DNA methylation Shan V. Andrews|Christine Ladd-Acosta|Andrew P. Feinberg|Kasper D. Hansen|M. Daniele Fallin Johns Hopkins Bloomberg School of Public Health;|Johns Hopkins University School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/059642 2016-06-18 Bioinformatics CC BY-NC Analysis of recent and ancestral recombination reveals high-resolution population structure in Streptococcus pneumoniae Rafal Mostowy|Nicholas J. Croucher|Cheryl P. Andam|Jukka Corander|William P. Hanage|Pekka Marttinen Imperial College London;|Harvard T.H. Chan School of Public Health;|University of Helsinki;|Aalto University
http://dx.doi.org/10.1101/059683 2016-06-18 Neuroscience CC BY Temporal Modulations Reveal Distinct Rhythmic Properties of Speech and Music Nai Ding|Aniruddh Patel|Lin Chen|Henry Butler|Cheng Luo|David Poeppel Zhejiang University;|Tufts University;|New York University
http://dx.doi.org/10.1101/059444 2016-06-18 Ecology Higher stress and immunity responses are associated with higher mortality in reef-building coral exposed to a bacterial challenge Rachel M Wright|Carly D. Kenkel|Carly E. Dunn|Erin N. Shilling|Line K. Bay|Mikhail V. Matz University of Texas at Austin;|Australian Institute of Marine Science
http://dx.doi.org/10.1101/059568 2016-06-18 Genetics CC BY-NC-ND The genetics of an early Neolithic pastoralist from the Zagros, Iran Marcos Gallego Llorente|Sarah Connell|Eppie R Jones|Deborah Merrett|Jeonsu Jeon|Anders Eriksson|Veronika Siska|Cristina Gamba|Chris Meiklejohn|Robert Beyer|Sungwon Jeon|Yung Sung Cho|Michael Hofreiter|Jong Bhak|Andrea Manica|Ron Pinhasi University of Cambridge;|University College Dublin;|Simon Fraser University;|Ulsan National Institute of Science and Technology (UNIST);|University of Winnipeg;|University of Potsdam
http://dx.doi.org/10.1101/059600 2016-06-18 Bioinformatics Comparing alternative pipelines for cross-platform microarray gene expression data integration with RNA-seq data in breast cancer Alina Frolova|Vladyslav Bondarenko|Maria Obolenska Institute of Molecular Biology and Genetics of NASU;|Taras Shevchenko National University of Kyiv
http://dx.doi.org/10.1101/059691 2016-06-18 Ecology CC BY-NC-ND Meta population modelling of narwhals in East Canada and West Greenland Lars Witting Greenland Institute of Natural Resources
http://dx.doi.org/10.1101/059527 2016-06-18 Genomics Complex admixture preceded and followed the extinction of wisent in the wild Karolina Wecek|Stefanie Hartmann|Johanna L. A. Paijmans|Ulrike Taron|Georgios Xenikoudakis|James A. Cahill|Peter D. Heintzman|Beth Shapiro|Gennady Baryshnikov|Aleksei N. Bunevich|Jennifer J. Crees|Roland Dobosz|Ninna Manaserian|Henryk Okarma|Malgorzata Tokarska|Samuel T. Turvey|Jan M. Wojcik|Waldemar Zyla|Jacek M. Szymura|Michael Hofreiter|Axel Barlow Department of Comparative Anatomy, Institute of Zoology, Jagiellonian University, Krakow, Poland;|Institute for Biochemistry and Biology, University of Potsdam, Potsdam, Germany;|Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA, 95064, USA;|University of California Santa Cruz Genomics Institute, University of California, Santa Cruz, CA;|Laboratory of Theriology, Zoological Institute of the Russian Academy of Sciences, Russia;|State National Park, Belovezhskaya Pushcha, Kamieniuki, Belarus;|Institute of Zoology, Zoological Society of London, Regent's Park, London NW1 4RY, UK;|Upper Silesian Museum, Bytom, Poland;|Institute of Zoology, Armenian National Academy of Sciences, Yerevan, Armenia;|Institute of Nature Conservation, Polish Academy of Sciences, Krakow, Poland;|Mammal Research Institute, Polish Academy of Sciences, Białowieza, Poland
http://dx.doi.org/10.1101/059626 2016-06-18 Molecular Biology CC BY-NC-ND Protocol: Genome-scale CRISPR-Cas9 Knockout and Transcriptional Activation Screening Julia Joung|Silvana Konermann|Jonathan S Gootenberg|Omar O Abudayyeh|Randall J Platt|Mark D Brigham|Neville E Sanjana|Feng Zhang Broad Institute; McGovern Institute at MIT
http://dx.doi.org/10.1101/059873 2016-06-19 Genomics CC BY Interplay of cis and trans mechanisms driving transcription factor binding, chromatin, and gene expression evolution Emily S Wong|Bianca M Schmitt|Anastasiya Kazachenka|David Thybert|Aisling Redmond|Frances Connor|Tim F Rayner|Christine Feig|Anne C Ferguson-Smith|John C Marioni|Paul Flicek|Duncan T Odom European Molecular Biology Laboratory, European Bioinformatics Institute;|University of Cambridge, Cancer Research UK - Cambridge Institute;|University of Cambridge, Department of Genetics
http://dx.doi.org/10.1101/059881 2016-06-19 Bioinformatics CC BY-NC-ND BlastPhyMe: A toolkit for rapid generation and analysis of protein-coding sequence datasets Ryan K Schott|Daniel Gow|Belinda SW Chang University of Toronto
http://dx.doi.org/10.1101/059832 2016-06-19 Plant Biology CC BY Emergence of wheat blast in Bangladesh was caused by a South American lineage of Magnaporthe oryzae Tofazzal Islam|Daniel Croll|Pierre Gladieux|Darren Soanes|Antoine Persoons|Pallab Bhattacharjee|Shaid Hossain|Dipali Gupta|Md. Mahbubur Rahman|M Golam Mahboob|Nicola Cook|Moin Salam|Vanessa Bueno Sancho|Joao Nunes Maciel|Antonio Nani|Vanina Castroagudin|Juliana Teodora de Assis Reges|Paulo Ceresini|Sebastien Ravel|Ronny Kellner|Elisabeth Fournier|Didier Tharreau|marc-henri Lebrun|Bruce McDonald|Tim Stitt|Daniel Swan|Nicholas Talbot|Diane Saunders|Joe Win|Sophien Kamoun Dept. of Biotechnology, Bangabandhu Sheikh Mujibur Rahman Ag Univ, Gazipur, Bangladesh;|Plant Pathology, Institute of Integrative Biology, ETH Zurich, 8092 Zurich, Switzerland;|INRA, UMR 385 BGPI, Montpellier, France;|College of Life and Environmental Sciences, University of Exeter, Exeter, EX4 4QD, United Kingdom;|The Genome Analysis Centre, Norwich Research Park, NR4 7UH, United Kingdom;|Bangladesh Agricultural Research Institute, Joydebpur 1701, Gazipur, Bangladesh;|Department of Agriculture and Food Western Australia (DAFWA), South Perth, WA 6151, Australia;|EMBRAPA Wheat/Trigo, Passo Fundo, Rio Grande do Sul, Brazil;|University of Sao Paulo State - UNESP, Ilha Solteira Campus, Sao Paulo, Brazil;|CIRAD, UMR 385 BGPI, Montpellier, France;|The Sainsbury Laboratory, Norwich Research Park, NR4 7UH, United Kingdom;|INRA, UMR 1290 Biologie et Gestion des Risques en agriculture BIOGER, Thiverval-Grignon, France;|The Sainsbury Laboratory
http://dx.doi.org/10.1101/059816 2016-06-19 Evolutionary Biology CC BY-NC-ND Happens in the best of subfamilies: Replacement and internalisation of co-obligate Serratia endosymbionts in Lachninae aphids Alejandro Manzano-Marin|Gitta Szabo|Jean-Christophe Simon|Matthias Horn|Amparo Latorre Institut Cavanilles de Biodiversitat i Biologia Evolutiva, Universitat de València;|Department of Microbiology and Ecosystem Science, University of Vienna;|UMR1349 Institut de Génétique, Environnement et Protection des Plantes (IGEPP), INRA
http://dx.doi.org/10.1101/059840 2016-06-19 Neuroscience Unsupervised Learning of Temporal Features for Word Categorization in a Spiking Neural Network Model of the Auditory Brain Irina Higgins|Simon Stringer|Jan Schnupp University of Oxford
http://dx.doi.org/10.1101/059808 2016-06-19 Epidemiology CC BY-NC-ND Zika epidemic fueled by climate variations on multiple timescales Angel G Munoz|Madeleine C Thomson|Lisa Goddard|Sylvain Aldighieri AOS/GFDL - Princeton University;|International Research Institute for Climate and Society - Columbia University;|Pan American Health Organization - World Health Organization
http://dx.doi.org/10.1101/059709 2016-06-19 Microbiology CC BY-NC-ND Novel Partitivirus Infection of Bat White-nose Syndrome(WNS) Fungal Pathogen Pseudogymnoascus destructansLinks Eurasian and North American Isolates Ping Ren|Sunanda S. Rajkumar|Haixin Sui|Paul S. Masters|Natalia Martinkova|Alena Kubatova|Jiri Pikula|Sudha Chaturvedi|Vishnu Chaturvedi Wadsworth Center, New York State Department of Health, Albany, New York;|Institute of Vertebrate Biology, Academy of Science of the Czech Republic, Konesin, Czech Republic;|Department of Botany, Faculty of Science, Charles University in Prague, Praha, Czech Republic;|University of Veterinary and Pharmaceutical Sciences Brno, Brno, Czech Republic;|Wadsworth Center, NYS Dept. of Health
http://dx.doi.org/10.1101/059824 2016-06-19 Genomics The Precision Medicine Knowledge Base: an online application for collaborative editing, maintenance and sharing of structured clinical-grade cancer mutations interpretations Linda Huang|Helen Fernandes|Hamid Zia|Peyman Tavassoli|Hanna Rennert|David Pisapia|Marcin Imielinski|Andrea Sboner|Mark A Rubin|Michael Kluk|Olivier Elemento Weill Cornell Medicine
http://dx.doi.org/10.1101/059782 2016-06-19 Biochemistry CC BY-NC-ND High-throughput biochemical profiling reveals Cas9 off-target binding and unbinding heterogeneity Evan August Boyle|Johan Oscar Lennart Andreasson|Lauren Mallory Chircus|Samuel Henry Sternberg|Michelle Jennifer Wu|Chantal Katrin Guegler|Jennifer Anne Doudna|William James Greenleaf Stanford University;|University of California, Berkeley
http://dx.doi.org/10.1101/059733 2016-06-19 Neuroscience CC BY A phenome-wide examination of neural and cognitive function Russell Poldrack|Eliza Congdon|William Triplett|Krzysztof Gorgolewski|Katherine Karlsgodt|Jeanette Mumford|Fred Sabb|Nelson Freimer|Edythe London|Tyrone Cannon|Robert Bilder Stanford University;|UCLA;|University of Wisconsin - Madison;|University of Oregon;|Yale University
http://dx.doi.org/10.1101/059774 2016-06-19 Bioinformatics CC BY-ND Voodoo Machine Learning for Clinical Predictions Sohrab Saeb|Luca Lonini|Arun Jayaraman|David C Mohr|Konrad P Kording Northwestern University;|Rehabilitation Institute of Chicago / Northwestern University
http://dx.doi.org/10.1101/059717 2016-06-19 Biophysics CC BY Accelerated cryo-EM structure determination with parallelisation using GPUs in RELION-2 Dari Kimanius|Bjorn O Forsberg|Sjors Scheres|Erik Lindahl Stockholm University;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/060012 2016-06-20 Bioinformatics CC BY An algorithm for fast preranked gene set enrichment analysis using cumulative statistic calculation Alexey Sergushichev ITMO University
http://dx.doi.org/10.1101/059923 2016-06-20 Ecology A temperature-dependent shift in dietary preference alters the viable temperature range of Drosophila Marko Brankatschk|Theresia Gutmann|Michal Grzybek|Beate Brankatschk|Uenal Coskun|Suzanne Eaton Max Planck Institute of Molecular Cell Biology and Genetics;|German Center for Diabetes Research;|Paul Langerhans Institute Dresden of the Helmholtz Centre Munich at the University Clinic Carl Gusta
http://dx.doi.org/10.1101/059956 2016-06-20 Systems Biology Emergence of microbial diversity due to cross-feeding interactions in a spatial model of gut microbial metabolism Milan J.A. van Hoek|Roeland M.H. Merks Centrum Wiskunde & Informatica
http://dx.doi.org/10.1101/059949 2016-06-20 Microbiology CC BY-NC-ND Genomic dissection of an Icelandic epidemic of equine respiratory disease Sigriur Bjornsdottir|Simon R Harris|Vilhjalmur Svansson|Eggert Gunnarsson|Olof Sigurardottir|Kristina Gammeljord|Karen F Steward|J Richard Newton|Carl Robinson|Amelia R. L. Charbonneau|Julian Parkhill|Matthew T. G. Holden|Andrew S. Waller MAST Icelandic Food and Veterinary Authority;|Wellcome Trust Sanger Institute;|University of Iceland;|University of Copenhagen;|Animal Health Trust;|University of St Andrews
http://dx.doi.org/10.1101/054502 2016-06-20 Immunology CC BY-NC-ND T-cell activation and HLA-regulated response to smoking in the deep airways of patients with multiple sclerosis Johan Ockinger|Michael Hagemann-Jensen|Susanna Kullberg|Benita Engvall|Anders Eklund|Johan Grunewald|Fredrik Piehl|Tomas Olsson|Jan Wahlstrom Karolinska Institutet, Stockholm, Sweden;|Karolinska Institutet
http://dx.doi.org/10.1101/059907 2016-06-20 Ecology The importance of litter quality for the role of arbuscular mycorrhizal fungi in plant litter decomposition Eva Leifheit|Matthias C Rillig Freie Universitaet Berlin, Institut fuer Biologie;|Freie Universitaet Berlin, Insitut fuer Biologie, Plant Ecology
http://dx.doi.org/10.1101/060061 2016-06-21 Evolutionary Biology CC BY-NC-ND Cryptic genetic differentiation of the sex-determining chromosome in the mosquito Aedes aegypti Albin Fontaine|Igor Filipovic|Thanyalak Fansiri|Ary Anthony Hoffmann|Gordana Rasic|Louis Lambrechts Insect-Virus Interactions Group, Department of Genomes and Genetics, Institut Pasteur, Paris, France;|Pest and Environmental Adaptation Research Group, School of BioSciences, The University of Melbourne;|Department of Entomology, Armed Forces Research Institute of Medical Sciences, Bangkok, Thailand
http://dx.doi.org/10.1101/060129 2016-06-21 Bioinformatics CC BY-NC-ND Meta-aligner: Long-read alignment based on genome statistics Damoun Nashta-ali|Ali Aliyari|Mohammad Amin Edrisi|Ahmad Ahmadian Moghadam|Seyed Abolfazl Motahari|Babak Hossein Khalaj Sharif University of Technology
http://dx.doi.org/10.1101/060111 2016-06-21 Bioinformatics Tradict enables high fidelity reconstruction of the eukaryotic transcriptome from 100 marker genes Surojit Biswas|Konstantin Kerner|Paulo Jose Pereira Lima Teixeira|Jeffery L Dangl|Vladimir Jojic|Philip A. Wigge Harvard University;|University of Cologne;|University of North Carolina at Chapel Hill;|Sainsbury Laboratory Cambridge University
http://dx.doi.org/10.1101/059980 2016-06-21 Plant Biology Epigenetic divergence is sufficient to trigger heterosis in Arabidopsis thaliana Kathrin Lauss|Rene Wardenaar|Marieke H.A. van Hulten|Victor Guryev|Joost J.B Keurentjes|Maike Stam|Frank Johannes University of Amsterdam;|University of Groningen;|University Medical Centre Groningen and University of Groningen;|University of Wageningen;|Technical University Munich
http://dx.doi.org/10.1101/060079 2016-06-21 Neuroscience Perceptual integration without conscious access Johannes Jacobus Fahrenfort|Jonathan van Leeuwen|Chris N.L. Olivers|Hinze Hogendoorn Vrije Universiteit Amsterdam;|Utrecht University
http://dx.doi.org/10.1101/059972 2016-06-21 Neuroscience The formation of extinction memory requires the accumulation of N6-methyl-2-deoxyadenosine in DNA Xiang Li|Quan Li|Christophe Magnan|Michael Emami|Luis Wearick da Silva|Thiago Viola|Paul Marshall|Rodrigo Grassi-Oliveira|Sarah Nainar|Cathrine Broberg Vagbo|Magnar Bjoras|Pierre Baldi|Robert Spitale|Timothy William Bredy University of California Irvine;|University of California Los Angeles;|Pontifical Catholic University of Rio Grande do Sul;|Norwegian University of Science and Technology
http://dx.doi.org/10.1101/060038 2016-06-21 Ecology CC BY-NC-ND Factors affecting intra-island genetic connectivity and diversity of an abundant and widespread island endemic, the San Clemente Island night lizard. Stephen E Rice|Rulon W Clark San Diego State University
http://dx.doi.org/10.1101/060004 2016-06-21 Molecular Biology CC BY-NC-ND PASP - a whole-transcriptome poly(A) tail length determination assay for the Illumina platform Botond Sipos|Adrian M Stutz|Greg Slodkowicz|Tim Massingham|Jan Korbel|Nick Goldman European Molecular Biology Laboratory-European Bioinformatics Institute;|European Molecular Biology Laboratory-Genome Biology Unit;|EMBL-European Bioinformatics Institute
http://dx.doi.org/10.1101/060046 2016-06-21 Neuroscience Architecture of fully occupied GluA2 AMPA receptor - TARP complex elucidated by single particle cryo-electron microscopy Yan Zhao|Shanshuang Chen|Craig Yoshioka|Isabelle Baconguis|Eric Gouaux Vollum Institute, Oregon Health & Science University;|Department of Biomedical Engineering, Oregon Health and Science University;|Vollum Institute, Howard Hughes Medical Institute, Oregon Health & Science University
http://dx.doi.org/10.1101/060020 2016-06-21 Systems Biology CC BY Mechanistic Modeling and Analysis of the Mammalian Unfolded Protein Response Anirikh Chakrabarti|Lina Aboulmouna|Jeffrey D Varner Cornell University;|Purdue University
http://dx.doi.org/10.1101/059915 2016-06-22 Ecology DECONTEXTUALIZING BIG DATA FOR A BETTER PERCEPTION OF MACROECOLOGY Christian Mulder|Giorgio Mancinelli National Institute for Public Health and the Environment;|University of Salento
http://dx.doi.org/10.1101/059022 2016-06-22 Molecular Biology CC BY-ND Numerical and Spatial Patterning of Yeast Meiotic DNA Breaks by Tel1 Neeman Mohibullah|Scott Keeney Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/060053 2016-06-22 Evolutionary Biology|Microbiology Temperature-Induced Transcriptional Responses of a Deep-Biosphere Bacterium Illuminate its Adaptation to Growth from 20°C to 79°C Stephen M. J. Pollo|Abigail A. Adebusuy|Timothy J. Straub|Julia M. Foght|Olga Zhaxybayeva|Camilla L. Nesbo University of Alberta;|Dartmouth College
http://dx.doi.org/10.1101/060285 2016-06-22 Genetics CC BY-NC-ND Finding functional disease-associated non-coding variation using next-generation sequencing Paolo Devanna|Xiaowei Sylvia Chen|Joses Ho|Dario Gajewski|Alessandro Gialluisi|Clyde Francks|Simon E Fisher|Dianne F Newbury|Sonja C Vernes Max Planck Institute for Psycholinguistics;|Max Planck Institute for Psycholinguistics and Max-Planck-Institut fur Psychiatrie;|Max Planck Institute for Psycholinguistics and Radboud University, Donders Institute;|Oxford University, Wellcome Trust Centre for Human Genetics
http://dx.doi.org/10.1101/060277 2016-06-22 Bioinformatics CC BY-NC-ND aRNApipe: A balanced, efficient and distributed pipeline for processing RNA-seq data in high performance computing environments Arnald Alonso|Brittany N. Lasseigne|Kelly Williams|Josh Nielsen|Ryne C. Ramaker|Andrew A Hardigan|Bobbi Johnston|Brian S. Roberts|Sara J. Cooper|Sara Marsal|Richard M. Myers HudsonAlpha Institute for Biotechnology, Vall d'Hebron Hospital Research Institute;|HudsonAlpha Institute for Biotechnology;|HudsonAlpha Institute for Biotechnology, The University of Alabama at Birmingham;|Vall d'Hebron Hospital Research Institute
http://dx.doi.org/10.1101/060269 2016-06-22 Biophysics CC BY-NC-ND A wireless centrifuge force microscope (CFM) enables multiplexed single-molecule experiments in a commercial centrifuge Tony Hoang|Dhruv S. Patel|Ken Halvorsen University at Albany
http://dx.doi.org/10.1101/060194 2016-06-22 Neuroscience CC BY Suboptimality in perception Dobromir Rahnev|Rachel Denison Georgia Institute of Technology;|New York University
http://dx.doi.org/10.1101/060160 2016-06-22 Evolutionary Biology CC BY-NC-ND Evolutionary genomics of peach and almond domestication Dianne Velasco|Mallikarjuna Aradhya|Jeff Ross-Ibarra University of California, Davis;|USDA ARS National Clonal Germplasm Repository (Davis);|UCDavis
http://dx.doi.org/10.1101/060178 2016-06-22 Neuroscience CC BY-NC-ND Natural DEET substitutes that are strong olfactory repellents of mosquitoes and flies Sean Michael Boyle|Tom Guda|Christine Krause Pham|Sana Khalid Tharadra|Anupama Dahanukar|Anandasankar Ray University of California Riverside
http://dx.doi.org/10.1101/060228 2016-06-22 Systems Biology CC BY-NC-ND Prioritizing 2nd and 3rd order interactions via support vector ranking using sensitivity indices on time series Wnt measurements - Part B shriprakash sinha
http://dx.doi.org/10.1101/060186 2016-06-22 Genomics CC BY-NC Using reference-free compressed data structures to analyse sequencing reads from thousands of human genomes Dirk-Dominic Dolle|Zhicheng Liu|Matthew L Cotten|Jared T Simpson|Zamin Iqbal|Richard Durbin|Shane McCarthy|Thomas Keane Wellcome Trust Sanger Institute;|Ontario Institute for Cancer Research;|University of Oxford;|Sanger Institute
http://dx.doi.org/10.1101/060152 2016-06-22 Neuroscience DNA methylation adjusts the specificity of memories depending on the learning context and promotes relearning Stephanie D Biergans|Charles Claudianos|Judith Reinhard|C. Giovanni Galizia The University of Queensland;|University of Konstanz
http://dx.doi.org/10.1101/060137 2016-06-22 Evolutionary Biology CC BY-NC-ND High virulence does not necessarily impede viral adaptation to a new host: A case study using a plant RNA virus Anouk Willemsen|Mark Peter Zwart|Santiago F. Elena Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV);|Institute of Theoretical Physics, University of Cologne
http://dx.doi.org/10.1101/052530 2016-06-22 Developmental Biology CC BY-NC-ND Dynamic changes in Sox2 spatio-temporal expression direct the second cell fate decision through Fgf4/Fgfr2 signaling in preimplantation mouse embryos Tapan Kumar Mistri|Wibowo Arindrarto|Wei Ping Ng|Choayang Wang|Hiong Lim Leng|Lili Sun|Ian Chambers|Thorsten Wohland|Paul Robson University of Edinburgh;|Leiden University Medical Center;|National University of Singapore;|Genome Institute of Singapore;|MRC Center for Regenerative Medicine;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/059899 2016-06-22 Cell Biology CC BY-NC-ND Disordered clusters of Bak dimers rupture mitochondria during apoptosis Rachel T Uren|Martin O'Hely|Sweta Iyer|Ray Bartolo|Jason M Brouwer|Amber E Alsop|Grant Dewson|Ruth M Kluck The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/060145 2016-06-22 Neuroscience CC BY Age-related differences in self-reported sleep quality predict healthy ageing across multiple domains: a multi-modal cohort of 2406 adults Andrew Gadie|Meredith Shafto|Yue Leng|Rogier A. Kievit MRC-CBSU;|University of Cambridge;|UCSF
http://dx.doi.org/10.1101/060434 2016-06-23 Cell Biology CC BY-NC-ND The ATP synthase subunit β (ATP5B) is an entry factor for the hepatitis E virus Zulfazal Ahmed|Prasida Holla|Imran Ahmad|Shahid Jameel International Centre for Genetic Engineering and Biotechnology
http://dx.doi.org/10.1101/060442 2016-06-23 Bioinformatics CC BY Ouija: Incorporating prior knowledge in single-cell trajectory learning using Bayesian nonlinear factor analysis Kieran Campbell|Christopher Yau University of Oxford
http://dx.doi.org/10.1101/060368 2016-06-23 Genomics CC BY-NC-ND Translational contributions to tissue-specificity in rhythmic and constitutive gene expression. Violeta Castelo-Szekely|A. Bulak Arpat|Peggy Janich|David Gatfield University of Lausanne
http://dx.doi.org/10.1101/058602 2016-06-23 Biophysics The mitotic kinesin-14 KlpA contains a context-dependent directionality switch Andrew R Popchock|Kuo-Fu Tseng|Pan Wang|P. Andrew Karplus|Xin Xiang|Weihong Qiu Oregon State University;|Henan University;|The Uniformed Services University of the Health Sciences
http://dx.doi.org/10.1101/057398 2016-06-23 Systems Biology CC BY Systematic analysis of transcriptional and post-transcriptional regulation of metabolism in yeast Emanuel Goncalves|Zrinka Raguz|Mattia Zampieri|Omar Wagih|David Ochoa|Uwe Sauer|Pedro Beltrao|Julio Saez-Rodriguez European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI);|Department of Biology, Institute of Molecular Systems Biology, ETH Zurich;|RWTH Aachen University
http://dx.doi.org/10.1101/060426 2016-06-23 Bioinformatics Evaluating the Evaluation of Cancer Driver Genes Collin Tokheim|Nickolas Papadopoulis|Kenneth W Kinzler|Bert Vogelstein|Rachel Karchin Johns Hopkins University;|Johns Hopkins Medical Institutions
http://dx.doi.org/10.1101/060392 2016-06-23 Microbiology CC BY-NC-ND Optimization of an anti Staphylococcus antibiotic produced by tropical soil dwelling Streptomyces parvulus Sonashia Velho-Pereira|Nandkumar M Kamat Goa University
http://dx.doi.org/10.1101/060319 2016-06-23 Genomics CC BY-NC-ND Whole Exome Sequencing in Neurogenetic Diagnostic Odysseys: An Argentinian Experience Marta Cordoba|Sergio Rodriguez-Quiroga|Patricia Vega|Hernan Amartino|Cecilia Vazquez-Dusefante|Nancy Medina|Dolores Gonzalez-Moron|Marcelo Andres Kauffman Consultorio y Laboratorio de Neurogenetica. Hospital JM Ramos Mejia. IBCN UBA-CONICET;|Servicio de Neurologia Infantil. Hospital Universitario Austral, Buenos Aires, Argentina
http://dx.doi.org/10.1101/060418 2016-06-23 Genetics CC BY-NC A discrete event simulation to evaluate the cost effectiveness of germline BRCA1 and BRCA2 testing in UK women with ovarian cancer Anthony Eccleston|Anthony Bentley|Matthew Dyer|Ann Strydom|Wim Vereecken|Angela George|Nazneen Rahman DRG Abacus, Bicester, Oxfordshire, UK;|AstraZeneca UK Ltd;|Division of Genetics and Epidemiology, Institute of Cancer Research, London, UK;|Division of Genetics and Epidemiology, Institute of Cancer Research, London, UK; Cancer Genetics Uni
http://dx.doi.org/10.1101/060236 2016-06-23 Neuroscience CC BY Dissociation of reinforcement and Hebbian learning induces covert acquisition of value in the basal ganglia Meropi Topalidou|Daisuke Kase|Thomas Boraud|Nicolas P. Rougier INRIA, IMN CNRS UMR 5293, University of Bordeaux, Labri CNRS UMR 5800, Bordeaux, France;|INRIA, IMN CNRS UMR 5293, University of Bordeaux, Bordeaux, France
http://dx.doi.org/10.1101/060384 2016-06-23 Bioinformatics CC BY-NC-ND Breaking Lander-Waterman's Coverage Bound Damoun Nashta-ali|Seyed Abolfazl Motahari|Babak Hossein Khalaj Sharif University of Technology
http://dx.doi.org/10.1101/060400 2016-06-23 Ecology CC BY-NC-ND Optimal inventorying and monitoring of taxon, phylogenetic and functional diversity Pedro Cardoso|Jose C Carvalho|Luis C Crespo|Miquel A Arnedo University of Helsinki;|University of Minho;|University of Barcelona
http://dx.doi.org/10.1101/060350 2016-06-23 Cell Biology CC BY-NC-ND Genome-wide screen of cell-cycle regulators in normal and tumor cells identifies a differential response to nucleosome depletion Maria Sokolova|Mikko Turunen|Oliver Mortusewicz|Teemu Kivioja|Patrick Herr|Anna Vaharautio|Mikael Bjorklund|Minna Taipale|Thomas Helleday|Jussi Taipale Genome-Scale Biology Program, P.O. Box 63, FI-00014 University of Helsinki, Finland;|Science for Life laboratory, Division of Translational Medicine and Chemical Biology, Department of;|Science for Life laboratory, Department of Biosciences and Nutrition, Karolinska Institutet, SE-141
http://dx.doi.org/10.1101/060301 2016-06-23 Genetics Next-generation sequencing identifies novel gene variants and pathways involved in specific language impairment Xiaowei Sylvia Chen|Rose H Reader|Alexander Hoischen|Joris A Veltman|Nuala H Simpson|Clyde Francks|Dianne F Newbury|Simon E Fisher Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands;|Wellcome Trust Centre for Human Genetics, University of Oxford;|Department of Human Genetics, Radboud University Medical Center, Nijmegen, The Netherlands;|Radboud University Medical Center, Nijmegen; University of Maastricht; Donders Institute;|Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands; Donders Institute;|Wellcome Trust Centre for Human Genetics, Oxford; Faculty of Health and Life Sciences, Oxford
http://dx.doi.org/10.1101/060624 2016-06-24 Evolutionary Biology CC BY-NC-ND Coevolutionary Dynamics of Costly Bonding Ritual and Altruism Karl Frost University of California, Davis
http://dx.doi.org/10.1101/060632 2016-06-24 Evolutionary Biology CC BY-NC-ND Gene-Culture Coevolution of Prosocial Rituals Karl Frost University of California, Davis
http://dx.doi.org/10.1101/060616 2016-06-24 Animal Behavior and Cognition CC BY-NC-ND Calming Meditation Increases Altruism, Decreases Parochialism Karl Frost University of California, Davis
http://dx.doi.org/10.1101/060467 2016-06-24 Neuroscience CC BY Neurobiology as information physics Sterling Street University of Georgia
http://dx.doi.org/10.1101/060640 2016-06-24 Animal Behavior and Cognition CC BY-NC-ND The Cultural Evolution of Hard-to-fake Rituals Karl Frost University of California, Davis
http://dx.doi.org/10.1101/060673 2016-06-24 Bioinformatics CC BY-NC-ND Bottom-up ecology of the human microbiome: from metagenomes to metabolomes Daniel R. Garza|Marcel C. Van Verk|Martijn A. Huynen|Bas E. Dutilh Radboudumc;|Utrecht University
http://dx.doi.org/10.1101/060293 2016-06-24 Immunology CC BY-NC-ND Hierarchical effects of pro-inflammatory cytokines on the post-influenza susceptibility to pneumococcal coinfection Stefanie Duvigneau|Niharika Sharma-Chawla|Alessandro Boianelli|Sabine Stegemann-Koniszewski|Van Kinh Nguyen|Dunja Bruder|Esteban A. Hernandez-Vargas Otto-von-Guericke University Magdeburg;|Helmholtz Centre for Infection Research
http://dx.doi.org/10.1101/060582 2016-06-24 Neuroscience CC BY-ND Gamma-rhythmic Gain Modulation Jianguang Ni|Thomas Wunderle|Christopher M. Lewis|Robert Desimone|Ilka Diester|Pascal Fries Ernst Strungmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|Department of Brain and Cognitive Sciences, McGovern Institute for Brain Research, MIT
http://dx.doi.org/10.1101/060657 2016-06-24 Bioinformatics CC BY-NC-ND 16SpeB: Towards defining bacterial species boundaries by intra-species gene sequence identity Adam Chun-Nin Wong|Angela E Douglas|Patrick Ng Boston Childrens Hospital, Harvard Medical School;|Cornell University
http://dx.doi.org/10.1101/060681 2016-06-24 Bioengineering Differential stimulation of the retina with glutamate toward a neurotransmitter-based retinal prosthesis Corey Rountree|Samsoon Inayat|John Troy|Laxman Saggere University of Illinois at Chicago;|University of Lethbridge;|Northwestern University
http://dx.doi.org/10.1101/060665 2016-06-24 Microbiology CC BY Comparative analysis highlights variable genome content of wheat rusts and divergence of the mating loci. Christina A Cuomo|Guus Bakkeren|Hala Badr Khalil|Vinay Panwar|David Joly|Rob Linning|Sharadha Sakthikumar|Xiao Song|Xian Adiconis|Lin Fan|Jonathan M Goldberg|Joshua Z Levin|Sarah Young|Qiandong Zeng|Yehoshua Anikster|Myron Bruce|Meinan Wang|Chuntao Yin|Brent McCallum|Les J Szabo|Scot Hulbert|Xiaming Chen|John P. Fellers Broad Institute of MIT and Harvard, United States;|Agriculture & Agri-Food Canada, Canada;|Universit?? de Moncton, Canada;|The Institute for Cereal Crops Improvement, Canada;|USDA-ARS, Canada;|Washington State University, Canada
http://dx.doi.org/10.1101/060509 2016-06-24 Bioinformatics CC BY Qudaich: A smart sequence aligner Sajia Akhter|Robert A Edwards Computational Science Research Center, San Diego State University, San Diego, CA, USA;|Department of Computer Science, San Diego State University, San Diego, CA, USA
http://dx.doi.org/10.1101/060517 2016-06-24 Evolutionary Biology CC BY-NC-ND Predicting the stability of homologous gene duplications in a plant RNA virus Anouk Willemsen|Mark Peter Zwart|Pablo Higueras|Josep Sardanyes|Santiago F. Elena Instituto de Biología Molecular y Celular de Plantas (CSIC-UPV);|Institute of Theoretical Physics, University of Cologne;|Independent student researcher;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/060590 2016-06-24 Neuroscience CC BY-NC-ND Asymmetry of the temporal code for space by hippocampal place cells Bryan C. Souza|Adriano B. L. Tort Brain Institute, Federal University of Rio Grande do Norte
http://dx.doi.org/10.1101/060608 2016-06-24 Systems Biology CC BY-NC-ND The combination of the functionalities of feedback circuits is determinant for the number and size of attractors of molecular networks Eugenio Azpeitia|Stalin Munoz|Daniel Gonzalez-Tokman|Mariana Esther Martinez-Sanchez|Nathan Weinstein|Aurelien Naldi|Elena ER Alvarez-Buylla|David A Rosenblueth|Luis Mendoza INRIA;|UNAM, Mexico;|INECOL, Xalapa, Mexico;|CINVESTAV, Mexico;|Universite de Montpellier, France
http://dx.doi.org/10.1101/060483 2016-06-24 Evolutionary Biology CC BY-NC The fitness effects of spontaneous mutations nearly unseen by selection in a bacterium with multiple chromosomes Marcus M Dillon|Vaughn S Cooper University of New Hampshire;|University of Pittsburgh
http://dx.doi.org/10.1101/060699 2016-06-25 Bioinformatics CC BY-ND Disorder Atlas: a web service for the proteome-based interpretation of intrinsic disorder predictions Michael Vincent|Santiago Schnell University of Michigan Medical School
http://dx.doi.org/10.1101/060723 2016-06-25 Neuroscience CC BY-NC-ND Disrupting dorsolateral prefrontal cortex by rTMS reduces the P300 based marker of deception Inga Karton|Anni-Bessie Kitt|Renate Rutiku|Talis Bachmann University of Tartu
http://dx.doi.org/10.1101/059865 2016-06-25 Epidemiology CC BY-NC-ND Inference of transmission network structure from HIV phylogenetic trees Federica Giardina|Ethan Obie Romero-Severson|Jan Albert|Tom Britton|Thomas Kenneth Leitner Stockholm University;|Los Alamos National Laboratory;|Karolinska University Hospital
http://dx.doi.org/10.1101/060764 2016-06-26 Neuroscience CC BY-ND Williams Syndrome-Specific Neuroarchitectural Profile and Its Associations with Cognitive Features Chun Chieh Fan|Timothy T. Brown|Hauke Bartsch|Joshua M. Kuperman|Donald J. Hagler|Andrew Schork|Eric Halgren|Anders Dale UCSD, cognitive science;|UCSD, mmil, neuroscience;|UCSD, mmil;|UCSD mmil;|UCSD mmil, radiology;|UCSD, neuroscience;|UCSD mmil, neuroscience
http://dx.doi.org/10.1101/060731 2016-06-26 Biophysics A NOVEL METHOD FOR MEASURING TEXTURE USING A FOOD PROCESSOR Jiro Kanamori Fuji Oil Holdings Inc.
http://dx.doi.org/10.1101/060756 2016-06-26 Genomics CC BY-NC-ND No evidence for phylostratigraphic bias impacting inferences on patterns of gene emergence and evolution Tomislav Domazet-Loso|Anne-Ruxanda Carvunis|M. Mar Alba|Matin S Sestak|Robert Bakaric|Rafik Neme|Diethard Tautz Laboratory of Evolutionary Genetics, Division of Molecular Biology, Ruder Boskovic Institute;|University of California, San Diego, La Jolla, CA 92093-0687, USA;|Evolutionary Genomics Group, Research Programme on Biomedical Informatics, Hospital del Mar Research;|Max-Planck Institute for Evolutionary Biology, August-Thienemann-Strasse 2, 24306 Ploen, Germany;|Max-Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/060772 2016-06-26 Microbiology CC BY-ND Norovirus-mediated modification of the translational landscape via virus and host-induced cleavage of translation initiation factors. Edward Emmott|Frederic Sorgeloos|Sarah L. Caddy|Surender Vashist|Stanislav Sosnovtsev|Richard Lloyd|Kate Heesom|Ian Goodfellow University of Cambridge;|NIAID, NIH;|Baylor College of Medicine;|University of Bristol
http://dx.doi.org/10.1101/055939 2016-06-26 Biophysics CC BY-NC Physical basis of large microtubule aster growth Keisuke Ishihara|Kirill S Korolev|Timothy J Mitchison Harvard Medical School;|Boston University
http://dx.doi.org/10.1101/060970 2016-06-27 Cancer Biology CC BY-NC-ND Fitting the Erlang distribution to cancer incidence by age may predict key carcinogenic events Aleksey V. Belikov Independent researcher
http://dx.doi.org/10.1101/060988 2016-06-27 Ecology The validity of pairwise models in predicting community dynamics Babak Momeni|Wenying Shou Boston College;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/060962 2016-06-27 Genomics CC BY-NC-ND Elucidating Combinatorial Chromatin States by Co-ImmunoPrecipitation (comb-ChIP) Ronen Sadeh|Roee Launer-Wachs|Hava Wandel|Ayelet Rahat|Nir Friedman Hebrew University;|The Hebrew Univ.
http://dx.doi.org/10.1101/061218 2016-06-28 Genomics CC BY Enhancer sharing promotes neighborhoods of transcriptional regulation across eukaryotes Porfirio Quintero-Cadena|Paul Sternberg California Institute of Technology, United States
http://dx.doi.org/10.1101/060954 2016-06-28 Molecular Biology CC BY-NC-ND A genetically encoded inhibitor of 53BP1 to stimulate homology-based gene editing Marella Canny|Leo Wan|Amelie Fradet-Turcotte|Alexandre Orthwein|Nathalie Moatti|Yu-Chi Juang|Wei Zhang|Sylvie M Noordermeer|Marcus D Wilson|Andrew Vorobyov|Meagan Munro|Andreas Ernst|Michal Zimmermann|Timothy F Ng|Sachdev S Sidhu|Frank Sicheri|Daniel Durocher Mount Sinai Hospital;|University of Toronto;|Sinai Health Systems
http://dx.doi.org/10.1101/061127 2016-06-28 Cell Biology CC BY-NC-ND The regulatable MAL32 promoter in S. cerevisiae: characteristics and tools Matthias Meurer|Veronika Chevyreva|Bram Cerulus|Michael Knop Zentrum fuer Molekulare Biologie der Universitaet Heidelberg (ZMBH), University of Heidelberg;|KU Leuven Department Microbiele en Moleculaire Systemen, CMPG Laboratory of Genetics and Genomics
http://dx.doi.org/10.1101/061135 2016-06-28 Neuroscience CC BY CLARITY-compatible lipophilic dyes for electrode marking and neuronal tracing Kristian H. R. Jensen|Rune W. Berg University of Copenhagen
http://dx.doi.org/10.1101/061077 2016-06-28 Cell Biology A novel approach to derive human midbrain-specific organoids from neuroepithelial stem cells Anna Sophia Monzel|Lisa Maria Smits|Kathrin Hemmer|Siham Hachi|Edinson Lucumi Moreno|Thea van Wuellen|Ronan MT Fleming|Silvia Bolognin|Jebs Christian Schwamborn Luxembourg Centre for Systems Biomedicine
http://dx.doi.org/10.1101/061192 2016-06-28 Genetics CC BY Psip1/p52 regulates distal Hoxa genes through activation of lncRNA Hottip Madapura M Pradeepa|Gillian AG Taylor|Graeme R Grimes|Andrew Wood|Wendy Bickmore University of Essex;|MRC Human Genetics Unit, MRC Institute of Genetics and Molecular Medicine at University of Edinburgh
http://dx.doi.org/10.1101/061101 2016-06-28 Animal Behavior and Cognition CC BY-NC-ND How the FLP do nematodes jump? Robert Morris|Leonie Wilson|Neil D Warnock|Daniel Carrizo|Deborah Cox|Matthew Sturrock|Kilian McGrath|Aaron G Maule|Johnathan Dalzell Queen's University Belfast
http://dx.doi.org/10.1101/060855 2016-06-28 Cell Biology Kinetochore Microtubules indirectly link Chromosomes and Centrosomes in C. elegans Mitosis Stefanie Redemann|Johannes Baumgart|Norbert Lindow|Sebastian Fuerthauer|Ehssan Nazockdast|Andrea Kratz|Steffen Prohaska|Jan Brugues|Michael Shelley|Thomas Mueller-Reichert TU Dresden;|Max Planck Institute for the Physics of complex systems Dresden;|Zuse Institute Berlin;|The Courant Institute of Mathematical Sciences, New York;|Max Planck Institute of Molecular Cell Biology and Genetics, Dresden;|TU Dresden, MTZ
http://dx.doi.org/10.1101/061010 2016-06-28 Animal Behavior and Cognition Consensus or deadlock? Consequences of simple behavioral rules for coordination in group decisions Helen McCreery|Nikolaus Correll|Michael Breed|Samuel Flaxman University of Colorado, Boulder
http://dx.doi.org/10.1101/060715 2016-06-28 Plant Biology Plant Chimeras: the good, the bad, and the Bizzaria Margaret H Frank|Daniel H Chitwood Donald Danforth Plant Research Center;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/061002 2016-06-28 Physiology CC BY-NC-ND Assessment of carbon dioxide, carbon dioxide/ oxygen, isoflurane and pentobarbital killing methods in rats. Jessie Chisholm|Daniel Pang Atlantic Veterinary College;|University of Calgary
http://dx.doi.org/10.1101/060921 2016-06-28 Genomics CC BY An improved genome assembly uncovers a prolific tandem repeat structure in Atlantic cod Ole K Trresen|Bastiaan Star|Sissel Jentoft|William Brynildsen Reinar|Harald Grove|Jason R Miller|Brian P Walenz|James Knight|Jenny M Ekholm|Paul Peluso|Rolf B Edvardsen|Ave Tooming-Klunderud|Morten Skage|Sigbjrn Lien|Kjetill S. Jakobsen|Alexander J Nederbragt University of Oslo;|Norwegian University of Life Sciences;|J. Craig Venter Institute;|National Institutes of Health;|Yale University;|Pacific Biosciences;|Institute of Marine Research
http://dx.doi.org/10.1101/060558 2016-06-28 Cell Biology Nanog fluctuations in ES cells highlight the problem of measurement in cell biology Rosanna C G Smith|Patrick S Stumpf|Sonya J Ridden|Aaron Sim|Sarah Filippi|Heather Harrington|Ben D MacArthur University of Southampton;|Imperial College London;|University of Oxford
http://dx.doi.org/10.1101/060863 2016-06-28 Bioinformatics Comparative distribution of antisense-RNA regulated toxin-antitoxin systems Dorien S Coray|Nicole Wheeler|Jack A Heinemann|Paul P Gardner University of Canterbury
http://dx.doi.org/10.1101/059964 2016-06-28 Systems Biology CC BY-NC Systematic proteomic profiling of the human Polycomb interactome Simon Hauri|Federico Comoglio|Makiko Seimiya|Moritz Gerstung|Timo Glatter|Klaus Hansen|Ruedi Aebersold|Renato Paro|Matthias Gstaiger|Christian Beisel Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland;|Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland;|Biotech Research and Innovation Centre (BRIC) and Centre for Epigenetics, University of Copenhagen
http://dx.doi.org/10.1101/060806 2016-06-28 Bioinformatics CC BY Varapp: A reactive web-application for variants filtering Julien Delafontaine|Alexandre Masselot|Robin Liechti|Dmitry Kuznetsov|Ioannis Xenarios|Sylvain Pradervand University Hospital, Lausanne (CHUV);|Vital-IT group, SIB Swiss Institute of Bioinformatics
http://dx.doi.org/10.1101/060947 2016-06-28 Neuroscience CC BY-NC-ND Two-Dimensional Hermite Filters Simplify the Description of High-Order Statistics of Natural Images Qin Hu|Jonathan Victor Microsoft Research;|Weill Cornell Medical College
http://dx.doi.org/10.1101/060822 2016-06-28 Genomics CC BY-ND FastGT: from raw sequence reads to 30 million genotypes in less than an hour Fanny-Dhelia Pajuste|Lauris Kaplinski|Mart Mols|Tarmo Puurand|Maarja Lepamets|Maido Remm University of Tartu
http://dx.doi.org/10.1101/060780 2016-06-28 Bioinformatics CC BY-NC-ND fCCAC: functional canonical correlation analysis to evaluate covariance between nucleic acid sequencing datasets Pedro Madrigal Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/060798 2016-06-28 Pharmacology CC BY-NC-ND Virtual screening of inhibitors for the Zika virus proteins Sergey Feranchuk|Uliana Potapova|Sergei Belikov LIN SB RAS
http://dx.doi.org/10.1101/060830 2016-06-28 Neuroscience CC BY-NC-ND Heterogeneity of cognitive decline in dementia: taking into account variable time-zero severity Steven John Kiddle|Alice Parodi|Caroline Johnston|Chris Wallace|Richard Dobson King's College London;|Politecnico di Milano;|University of Cambridge
http://dx.doi.org/10.1101/061515 2016-06-30 Bioinformatics Detection of statistically significant network changes in complex biological networks Raghvendra Mall|Luigi Cerulo|Halima Bensmail|Antonio Iavarone|Michele Ceccarelli QCRI, HBKU;|University of Sannio, Italy;|Columbia University;|Qatar Computing Research Institute
http://dx.doi.org/10.1101/061606 2016-06-30 Genomics CC BY-NC-ND A systematic comparison reveals substantial differences in chromosomal versus episomal encoding of enhancer activity Fumitaka Inoue|Martin Kircher|Beth Martin|Gregory M Cooper|Daniela M Witten|Michael T McManus|Nadav Ahituv|Jay Shendure University of California San Francisco;|University of Washington;|HudsonAlpha Institute for Biotechnology
http://dx.doi.org/10.1101/061234 2016-06-30 Neuroscience CC BY-NC Decoding the Infant Mind: Multichannel Pattern Analysis (MCPA) using fNIRS Lauren L. Emberson|Benjamin D. Zinszer|Rajeev D. S. Raizada|Richard N. Aslin Princeton University;|University of Rochester
http://dx.doi.org/10.1101/061564 2016-06-30 Genetics CC BY The variable ELF3 polyglutamine tract mediates complex epistatic interactions in Arabidopsis thaliana. Maximilian Oliver Press|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/061556 2016-06-30 Genomics Democratizing DNA Fingerprinting Sophie Zaaijer|Assaf Gordon|Robert Piccone|Daniel Speyer|Yaniv Erlich New York Genome Center
http://dx.doi.org/10.1101/061549 2016-06-30 Ecology Genetic Allee effects and their interaction with ecological Allee effects Meike Wittmann|Hanna Stuis|Dirk Metzler University of Vienna;|Leiden University;|University of Munich (LMU)
http://dx.doi.org/10.1101/061465 2016-06-30 Cancer Biology IL-1α induces cathepsin K in oral cancer cells − the invasion is unaffected Carolina Cavalcante Bitu|Ahmed Al-Samadi|Tuukka Alanaara|Hennaliina Karhumaa|Pirjo Viitasaari|Ivarne L.S. Tersariol|Fabio Dupart Nascimento|Tuula Salo University of Oulu;|University of Helsinki;|Universidade Federal de São Paulo (UNIFESP);|Biomaterials Research Group and Biotechnology Division, UNIAN - SP;|University of Oulu/University of Helsinki
http://dx.doi.org/10.1101/061473 2016-06-30 Animal Behavior and Cognition CC BY-ND Individual differences in learning behaviours in humans: Asocial exploration tendency does not predict reliance on social learning Wataru Toyokawa|Yoshimatsu Saito|Tatsuya Kameda University of St Andrews;|The University of Tokyo
http://dx.doi.org/10.1101/061481 2016-06-30 Neuroscience CC BY-NC-ND Kilosort: realtime spike-sorting for extracellular electrophysiology with hundreds of channels Marius Pachitariu|Nicholas Steinmetz|Shabnam Kadir|Matteo Carandini|Kenneth D Harris University College London;|matteo@cortexlab.net
http://dx.doi.org/10.1101/061440 2016-06-30 Genetics CC BY-NC Extreme distribution of deleterious variation in a historically small and isolated population-insights from the Greenlandic Inuit Casper-Emil T Pedersen|Kirk E Lohmueller|Niels Grarup|Peter Bjerregaard|Torben Hansen|Hans R Siegismund|Ida Moltke|Anders Albrechtsen Department of Biology, Section for Computational and RNA Biology, University of Copenhagen;|Department of Ecology and Evolutionary Biology, University of California, Los Angeles;|The Novo Nordisk Foundation Center for Basic Metabolic Research, University of Copenhagen;|National Institute of Public Health, University of Southern Denmark
http://dx.doi.org/10.1101/061507 2016-06-30 Neuroscience CC BY-NC-ND Suite2p: beyond 10,000 neurons with standard two-photon microscopy Marius Pachitariu|Carsen Stringer|Sylvia Schroder|Mario Dipoppa|L. Federico Rossi|Matteo Carandini|Kenneth D Harris University College London
http://dx.doi.org/10.1101/061374 2016-06-29 Bioinformatics CC BY-NC iCAVE: an open source tool for immersive 3D visualization of complex biomolecular interaction networks Vaja Liluashvili|Selim Kalayci|Eugene Flouder|Manda Wilson|Aaron Gabow|Zeynep H. Gumus Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai;|Computational Biology Center, Memorial-Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/061408 2016-06-29 Plant Biology Modeling and experimental determination of infection bottleneck and within-host dynamics of a soil-borne bacterial plant pathogen. Gaofei Jiang|Remi Peyraud|Philippe Remigi|Alice Guidot|Wei Ding|Stephane Genin|Nemo Peeters Southwest University, Chongqing;|INRA;|Massey University, NZ;|Southwest University Chongqing;|CNRS
http://dx.doi.org/10.1101/061416 2016-06-29 Genomics CC BY-NC-ND Post-mortem molecular profiling of three psychiatric disorders reveals widespread dysregulation of cell-type associated transcripts and refined disease-related transcription changes Kevin Bowling|Ryne C. Ramaker|Brittany N. Lasseigne|Megan Hagenauer|Andrew Hardigan|Nick Davis|Jason Gertz|Preston Cartagena|David Walsh|Marquis Vawter|Alan Schatzberg|Jack Barchas|Stan Watson|Blynn Bunney|Huda Akil|William Bunney|Jun Li|Sara Cooper|Richard M. Myers HudsonAlpha Institute for Biotechnology, Vall d'Hebron Hospital Research Institute;|HudsonAlpha Institute for Biotechnology, The University of Alabama at Birmingham;|HudsonAlpha Institute for Biotechnology;|University of Michigan;|University of California, Irvine;|Stanford University School of Medicine;|Weill Cornell Medical College
http://dx.doi.org/10.1101/061366 2016-06-29 Genetics CC BY-ND NR1H3 p.Arg415Gln is not associated to multiple sclerosis risk Chris Cotsapas Yale School of Medicine
http://dx.doi.org/10.1101/061390 2016-06-29 Biophysics CC BY-NC Direct coevolutionary couplings reflect biophysical residue interactions in proteins Alice Coucke|Guido Uguzzoni|Francesco Oteri|Simona Cocco|Remi Monasson|Martin Weigt Ecole Normale Superieure;|Universite Pierre et Marie Curie
http://dx.doi.org/10.1101/060335 2016-06-29 Neuroscience CC BY-NC-ND Homozygous loss of autism-risk gene CNTNAP2 results in reduced local and long-range prefrontal functional connectivity Adam Liska|Ryszard Gomolka|Mara Sabbioni|Alberto Galbusera|Stefano Panzeri|Maria Luisa Scattoni|Alessandro Gozzi Istituto Italiano di Tecnologia / University of Trento;|Functional Neuroimaging Laboratory, Istituto Italiano di Tecnologia;|Istituto Superiore di Sanita', Neurotoxicology and Neuroendocrinology Section, Rome;|Neural Computation Laboratory, Istituto Italiano di Tecnologia
http://dx.doi.org/10.1101/061267 2016-06-29 Neuroscience Causal Relationships Underlying Episodic Memory Network Dynamics in Older Adults Simon W Davis|Bruce Luber|David LK Murphy|Sarah H Lisanby|Roberto Cabeza Duke University;|NIH
http://dx.doi.org/10.1101/061309 2016-06-29 Neuroscience The rhythms of predictive coding: pre-stimulus phase modulates the influence of shape perception on luminance judgments Biao Han|Rufin VanRullen Centrede Recherche Cerveau et Cognition
http://dx.doi.org/10.1101/061341 2016-06-29 Systems Biology Pattern formation and variable species densities are induced by domain growth. Robert Ross|Christian Yates|Ruth Baker University of Oxford;|University of Bath
http://dx.doi.org/10.1101/061333 2016-06-29 Genetics CC BY-NC-ND Imputation-based fine-mapping suggests that most QTL in an outbred chicken Advanced Intercross Line are due to multiple, linked loci Monika Brandt|Muhammad Ahsan|Christa F Honaker|Paul B Siegel|Orjan Carlborg Uppsala University, Department of Medical Biochemistry and Microbiology;|Swedish University of Agricultural Sciences, Department of Clinical Sciences;|Virginia Polytechnic Institute and State University, Department of Animal and Poultry Sciences
http://dx.doi.org/10.1101/061283 2016-06-29 Neuroscience CC BY-NC-ND How to evaluate phase differences between trial groups in ongoing electrophysiological signals Rufin VanRullen CNRS - CerCo
http://dx.doi.org/10.1101/061317 2016-06-29 Microbiology CC BY-NC-ND When is a bacterial "virulence factor" really virulent? Elisa T Granato|Freya Harrison|Rolf Kummerli|Adin Ross-Gillespie University of Zurich;|University of Nottingham;|Swiss Institute of Bioinformatics
http://dx.doi.org/10.1101/061291 2016-06-29 Neuroscience Aberrant prefrontal beta oscillations predict episodic memory encoding deficits in schizophrenia Federica Meconi|Sarah Anderl-Straub|Heidelore Raum|Michael Landgrebe|Berthold Langguth|Karl-Heinz Baeuml|Simon Hanslmayr University of Padua;|University of Ulm;|University of Regensburg;|University of Birmingham
http://dx.doi.org/10.1101/061325 2016-06-29 Bioengineering Active delivery to the brain by chemotaxis Adrian Joseph|Claudia Contini|Denis Cecchin|Sophie Nyberg|Lorena Ruiz-Perez|Jens Gaitzsch|Gavin Fullstone|Juzaili Azizi|Jane Preston|Giorgio Volpe|Giuseppe Battaglia University College London;|King's College London
http://dx.doi.org/10.1101/061358 2016-06-29 Genetics CC BY-NC-ND Convergent evidence for the molecular basis of musical traits Jaana Oikkonen|Paivi Onkamo|Irma Jarvela|Chakravarthi Kanduri University of Helsinki
http://dx.doi.org/10.1101/061259 2016-06-29 Neuroscience CC BY-NC-ND Preparatory encoding of the fine scale of human spatial attention Bradley Voytek|Jason Samaha|Camarin E Rolle|Zachery Greenberg|Navdeep Gill|Shai Porat|Tahim Kader|Sabahat Rahman|Rick Malzyner|Adam Gazzaley University of California, San Diego;|University of Wisconsin-Madison;|UC San Francisco
http://dx.doi.org/10.1101/061119 2016-06-29 Neuroscience Evaluating the diagnostic utility of applying a machine learning algorithm to diffusion tensor MRI measures in individuals with major depressive disorder David M Schnyer|Peter G Clasen|Christopher Gonzalez|Christopher G Beevers University of Texas;|Department of Psychiatry and Behavioral Sciences, University of Washington School of Medicine;|University of California, San Diego;|University of Texas, Austin
http://dx.doi.org/10.1101/061044 2016-06-29 Microbiology Characterization of Methicillin-resistant Staphylococcus aureus Isolates from Fitness Centers in Memphis Metropolitan Area, USA Nabanita Mukherjee|Irshad M. Sulaiman|Pratik Banerjee University of Memphis;|U. S. Food and Drug Administration
http://dx.doi.org/10.1101/061036 2016-06-29 Animal Behavior and Cognition Collective strategy for obstacle navigation during cooperative transport by ants Helen McCreery|Zachary Dix|Michael Breed|Radhika Nagpal University of Colorado, Boulder;|Harvard University
http://dx.doi.org/10.1101/061226 2016-06-29 Evolutionary Biology CC BY The mutation rate in human evolution and demographic inference Aylwyn Scally University of Cambridge
http://dx.doi.org/10.1101/061143 2016-06-29 Ecology CC BY-NC-ND Compensatory responses by managers, commercial and recreational harvesters to variation in stock abundance of Lake Erie walleye (Sander vitreus vitreus) Katrine Turgeon|Kevin B. Reid|John M. Fryxell|Thomas D. Nudds McGill University;|University of Guelph
http://dx.doi.org/10.1101/060996 2016-06-29 Genomics Elucidating the genetic basis of an oligogenic birth defect using whole genome sequence data in a non-model organism, Bubalus bubalis Lynsey K. Whitacre|Jesse L. Hoff|Robert D. Schnabel|Sara Albarella|Francesca Ciotola|Vincenzo Peretti|Francesco Strozzi|Chiara Ferrandi|Luigi Rammuno|Tad S. Sonstegard|John L. Williams|Jerry F. Taylor|Jared E Decker University of Missouri;|University of Naples Federico II;|Parco Tecnologico Padano;|Recombinetics;|University of Adelaide
http://dx.doi.org/10.1101/061085 2016-06-29 Bioinformatics CC BY-NC-ND Characterization of kinase gene expression and splicing profile in prostate cancer with RNA-Seq data Huijuan Feng|Tingting Li|Xuegong Zhang MOE Key Laboratory of Bioinformatics, Tsinghua University, Beijing;|Department of Biomedical Informatics, Peking University Health Science Center, Beijing;|MOE Key Laboratory of Bioinformatics, School of Life Sciences, Tsinghua University, Beijing
http://dx.doi.org/10.1101/061051 2016-06-29 Bioinformatics CC BY-ND Locating the ligand binding sites for the G-protein coupled estrogen receptor (GPER) using combined information from docking and sequence conservation Ashley R. Vidad|Stephen Macaspac|Ho Leung Ng University of Hawaii at Manoa;|University of Hawaii
http://dx.doi.org/10.1101/061200 2016-06-29 Scientific Communication A signal detection theoretic argument against claims of unmeritocratic faculty hiring Michael Thomas Miuccio|Ka-yuet Liu|Hakwan Lau|Megan A. K. Peters University of California, Los Angeles;|University of California Los Angeles
http://dx.doi.org/10.1101/061184 2016-06-29 Biophysics CC BY FF12MC: A revised AMBER forcefield and new protein simulation protocol Yuan-Ping Pang Mayo Clinic
http://dx.doi.org/10.1101/061069 2016-06-29 Bioinformatics CC BY-ND Simulations reveal increased fluctuations in estrogen receptor-alpha conformation upon antagonist binding Ho Leung Ng University of Hawaii
http://dx.doi.org/10.1101/061788 2016-07-01 Microbiology CC BY-NC-ND Dysregulation of Long Non-coding RNA (lncRNA) Genes and Predicted lncRNA-protein Interactions during Zika Virus Infection Arunachalam Ramaiah|Deisy Contreras|Vineela Gangalapudi|Masumi Sameer Padhye|Jie Tang|Vaithilingaraja Arumugaswami Indian Institute of Science;|Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/061770 2016-07-01 Genomics Forward genetic screen of human transposase genomic rearrangements Anton Henssen|Eileen Jiang|Jiali Zhuang|Luca Pinello|Nicholas Socci|Richard Koche|Mithat Gonen|Camila Villasante|Scott Armstrong|Daniel Bauer|Zhiping Weng|Alex Kentsis Memorial Sloan Kettering Cancer Center;|University of Massachusetts Medical School;|Harvard Medical School
http://dx.doi.org/10.1101/061739 2016-07-01 Genomics CC BY-NC-ND Simultaneous measurement of chromatin accessibility, DNA methylation, and nucleosome phasing in single cells Sebastian Pott University of Chicago
http://dx.doi.org/10.1101/061754 2016-07-01 Animal Behavior and Cognition CC BY Adaptation of the Arizona Cognitive Task Battery for use with the Ts65Dn Mouse Model of Down Syndrome Michael Ryan Hunsaker|Genevieve K Smith|Raymond P Kesner University of Utah Department of Psychology;|University of Utah
http://dx.doi.org/10.1101/061655 2016-07-01 Bioinformatics CC BY-NC Cross-species genome-wide identification of evolutionary conserved microProteins Daniel Straub|Stephan Wenkel University of Copenhagen
http://dx.doi.org/10.1101/061663 2016-07-01 Genomics CC BY-ND Deep Sequencing of 10,000 Human Genomes Amalio Telenti|Levi T Pierce|William H Biggs|Julia di Iulio|Emily H.M. Wong|Martin M Fabani|Ewen F Kirkness|Ahmed Moustafa|Naisha Shah|Chao Xie|Suzanne C Brewerton|Nadeem Bulsara|Chad Garner|Gary Metzker|Efren Sandoval|Brad A Perkins|Franz J Och|Yaron Turpaz|J. Craig Venter J Craig Venter Institute;|Human Longevity Inc.;|J. Craig Venter Institute
http://dx.doi.org/10.1101/061630 2016-07-01 Animal Behavior and Cognition Adversity magnifies the importance of social information in decision-making Alfonso Perez-Escudero|Gonzalo G de Polavieja Massachusetts Institute of Technology;|Champalimaud Center for the Unknown
http://dx.doi.org/10.1101/061689 2016-07-01 Ecology Shifts in outcrossing rates and changes to floral traits are associated with the evolution of herbicide resistance in the common morning glory Adam Kuester|Eva Fall|Shu-Mei Chang|Regina Baucom University of Michigan;|University of Georgia
http://dx.doi.org/10.1101/061697 2016-07-01 Bioinformatics CC BY Tempus et Locus: a tool for extracting precisely dated viral sequences from GenBank, and its application to the phylogenetics of primate erythroparvovirus 1 (B19V) Derek Gatherer|Alice R Carter Lancaster University;|London School of Hygiene & Tropical Medicine
http://dx.doi.org/10.1101/061622 2016-07-01 Epidemiology Differences in perceived severity of Zika virus infection and dengue fever and its influence on mosquito control practices in Malaysia, a dengue-endemic country Li Ping Wong|Haridah Alias|Nasrin Aghamohammadi|I-Ching Sam|Sazaly AbuBakar University of Malaya
http://dx.doi.org/10.1101/061846 2016-07-02 Ecology CC BY-NC-ND Ecosystem Composition Controls the Early Fate of Rare Earth Elements during Incipient Soil Genesis Dragos G Zaharescu|Carmen I Burghelea|Katerina Dontsova|Jennifer K Presler|Raina M Maier|Travis Huxman|Kenneth J Domanik|Edward A Hunt|Mary K Amistadi|Emily E Gaddis|Maria A Palacios- Menendez|Maria. O Vaquera-Ibarra|Jonathan Chorover The University of Arizona;|University of California, Irvine;|Williams College;|The University of Caribe;|University of the Americas Puebla
http://dx.doi.org/10.1101/061762 2016-07-02 Neuroscience CC BY-NC-ND Hearing scenes: A neuromagnetic signature of perceived auditory spatial extent Santani Teng|Verena Sommer|Dimitrios Pantazis|Aude Oliva Massachusetts Institute of Technology;|Max Planck Institute for Human Development
http://dx.doi.org/10.1101/061747 2016-07-02 Bioengineering Live Cell Partial Wave Spectroscopic microscopy: Label-free Imaging of the Native, Living Cellular Nanoarchitecture Luay M Almassalha|Greta Bauer|John Chandler|Scott Gladstein|Lusik Cherkezyan|Yolanda Stypula-Cyrus|Sam Weinberg|Di Zhang|Peder Thusgaard Ruhoff|Hemant Roy|Hariharan Subramanian|Navdeep Chandel|Igal Szleifer|Vadim Backman Northwestern University;|University of Southern Denmark;|Boston Medical Center, Boston University;|Northwestern University Feinberg School of Medicine
http://dx.doi.org/10.1101/061432 2016-07-02 Genomics CC BY-NC-ND Loss of flight in the Galapagos cormorant mirrors human skeletal ciliopathies Alejandro Burga|Weiguang Wang|Paul C Wolf|Andrew M Ramey|Claudio Verdugo|Karen Lyons|Patricia G Parker|Leonid Kruglyak Departments of Human Genetics and Biological Chemistry, UCLA, Los Angeles, USA;|Departments of Molecular, Cell and Developmental Biology and Orthopaedic Surgery, UCLA;|United States Department of Agriculture/Wildlife Services;|U.S. Geological Survey Alaska Science Center, Alaska, USA;|Instituto de Patologia Animal, Facultad de Ciencias Veterinarias, Universidad Austral de Chile, Va;|Department of Biology and Whitney Harris World Ecology Center, University of Missouri-St. Louis, USA
http://dx.doi.org/10.1101/061952 2016-07-03 Genomics CC BY Tissue Resolved, Gene Structure Refined Equine Transcriptome Tamer Mansour|Erica Y Scott|Carrie J Finno|Rebecca R Bellone|Michael Mienaltowski|M Cecilia Penedo|Pablo J Ross|Stephanie Valberg|James D Murray|C. Titus Brown UC Davis
http://dx.doi.org/10.1101/061994 2016-07-04 Bioinformatics CC BY-NC-ND HydDB: A web tool for hydrogenase classification and analysis Dan Sondergaard|Christian N.S. Pedersen|Chris Greening Aarhus University;|Monash University
http://dx.doi.org/10.1101/061937 2016-07-04 Ecology Ecological homogenisation in North American urban yards: vegetation diversity, composition, and structure William D Pearse|Jeannine Cavender-Bares|Sarah E Hobbie|Meghan Avolio|Neil Bettez|Rinku Roy Chowdhury|Peter M Groffman|Morgan Grove|Sharon J Hall|James B Heffernan|Jennifer Learned|Christopher Neill|Kristen C Nelson|Diane E Pataki|Benjamin L Ruddell|Meredith E Steele|Tara L E Trammell McGill University;|University of Minnesota;|National Socio-Economic Sysnthesis Center;|Cary Institute of Ecosystem Studies;|Indiana University;|City University of New York;|Forest Service;|Arizona State University;|Nicholas School of the Environment;|The Ecosystems Center;|University of Utah;|Northern Arizona University;|Virginia Polytechnic Institute and State University;|University of Delaware
http://dx.doi.org/10.1101/061978 2016-07-04 Bioinformatics CC BY Modelling the transcription factor DNA-binding affinity using genome-wide ChIP-based data Monther Alhamdoosh|Dianhui Wang La Trobe University
http://dx.doi.org/10.1101/061911 2016-07-04 Genetics Effects of the ordering of natural selection and population regulation mechanisms on Wright-Fisher models Zhangyi He|Mark Beaumont|Feng Yu University of Bristol, United Kingdom
http://dx.doi.org/10.1101/061861 2016-07-04 Microbiology CC BY-NC-ND General calibration of microbial growth in microplate readers Keiran Stevenson|Alexander F McVey|Ivan B N Clark|Peter S Swain|Teuta Pilizota University of Edinburgh
http://dx.doi.org/10.1101/061820 2016-07-04 Neuroscience Novel agonist of GDNF family ligand receptor RET for the treatment of experimental neuropathy Maxim M. Bespalov|Yulia A. Sidorova|Ilida Suleymanova|James Thompson|Oleg Kambur|Viljami Jokinen|Tuomas Lilius|Gunnar Karelson|Laura Puusepp|Pekka Rauhala|Eija Kalso|Mati Karelson|Mart Saarma University of Helsinki;|Karolinska Institutet;|MolCode Ltd.;|University of Tartu
http://dx.doi.org/10.1101/061960 2016-07-04 Biophysics CC BY-NC-ND Anisotropic Correction of Beam-induced Motion for Improved Single-particle Electron Cryo-microscopy Shawn Zheng|Eugene Palovcak|Jean-Paul Armache|Yifan Cheng|David Agard University of California at San Francisco
http://dx.doi.org/10.1101/061986 2016-07-04 Cell Biology CC BY Hot-wiring clathrin-mediated endocytosis in human cells Laura A Wood|Nicholas I Clarke|Sourav Sarkar|Stephen J Royle Warwick Medical School
http://dx.doi.org/10.1101/062109 2016-07-05 Scientific Communication and Education CC BY A simple proposal for the publication of journal citation distributions Vincent Lariviere|Veronique Kiermer|Catriona J MacCallum|Marcia McNutt|Mark Patterson|Bernd Pulverer|Sowmya Swaminathan|Stuart Taylor|Stephen Curry Universite de Montreal;|Public Library of Science;|Science Journals, AAAS;|eLife;|The EMBO Journal;|Nature Research, Springer Nature;|The Royal Society;|Imperial College London
http://dx.doi.org/10.1101/062257 2016-07-05 Neuroscience CC BY Lognormal firing rate distribution reveals prominent fluctuation-driven regime in spinal motor networks Peter C. Petersen|Rune W. Berg University of Copenhagen
http://dx.doi.org/10.1101/062216 2016-07-05 Evolutionary Biology CC BY-NC-ND Inference of distribution of fitness effects and proportion of adaptive substitutions from polymorphism data Paula Tataru|Maeva Mollion|Sylvain Glemin|Thomas Bataillon Aarhus University;|Uppsala University
http://dx.doi.org/10.1101/062190 2016-07-05 Neuroscience CC BY-NC-ND Periodic Non-Sinusoidal Activity Can Produce Cross-Frequency Coupling in Cortical Signals in the Absence of Functional Interaction Between Neural Sources Edden M. Gerber|Boaz Sadeh|Andrew Ward|Robert T. Knight|Leon Y. Deouell Hebrew University of Jerusalem;|University of California, Berkeley
http://dx.doi.org/10.1101/062091 2016-07-05 Bioinformatics CC BY-NC-ND cy3sabiork: A Cytoscape app for visualizing kinetic data from SABIO-RK Matthias Konig Humboldt University Berlin
http://dx.doi.org/10.1101/062166 2016-07-05 Animal Behavior and Cognition CC BY-NC-ND The velocity-curvature power law in Drosophila larval locomotion Myrka Zago|Francesco Lacquaniti|Alex Gomez-Marin IRCCS Santa Lucia Foundation;|University of Rome Tor Vergata;|Instituto de Neurociencias
http://dx.doi.org/10.1101/062117 2016-07-05 Bioinformatics HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution Govinda M Kamath|Ilan Shomorony|Fei Xia|Thomas A Courtade|David N Tse Stanford University;|UC Berkeley;|Tsinghua University
http://dx.doi.org/10.1101/062182 2016-07-05 Neuroscience Sub-millisecond optogenetic control of neuronal firing with two-photon holographic photoactivation of Chronos Emiliano Ronzitti|Rossella Conti|Eirini Papagiakoumou|Dimitrii Tanese|Valeria Zampini|Emmanuelle Chaigneau|Amanda J Foust|Nathan Klapoetke|Ed S Boyden|Valentina Emiliani Neurophotonics Laboratory, CNRS UMR8250 - Universite Paris Descartes;|Neurophotonics Laboratory, CNRS UMR8250 - Universite Paris Descartes - INSERM;|Janelia Research Campus, Howard Hughes Medical Institute;|MIT Media Lab and McGovern Institute
http://dx.doi.org/10.1101/062158 2016-07-05 Genomics CC BY-NC-ND MINOTAUR: A platform for the analysis and visualization of multivariate results from genome scans with R Shiny Robert Verity|Caitlin Collins|Daren C. Card|Sara M Schaal|Liuyang Wang|Kathleen Lotterhos Imperial College London;|University of Texas at Arlington;|Northeastern University;|Duke University
http://dx.doi.org/10.1101/062208 2016-07-05 Genomics CC BY-NC iDamIDseq and iDEAR: An improved method and a computational pipeline to profile chromatin-binding proteins of developing organisms Jose Arturo Gutierrez-Triana|Juan Mateo|David Ibberson|Joachim Wittbrodt University of Heidelberg
http://dx.doi.org/10.1101/062125 2016-07-05 Genomics SVAPLSseq: A Method to correct for hidden sources of variability in differential gene expression studies based on RNAseq data SUTIRTHA CHAKRABORTY NATIONAL INSTITUTE OF BIOMEDICAL GENOMICS
http://dx.doi.org/10.1101/062224 2016-07-05 Genomics Lymphocyte genes and an enhancer sequestered at the nuclear periphery undergo constrained release and associate upon T-cell activation Michael I Robson|Jose I de las Heras|Alastair R W Kerr|Eric C Schirmer Wellcome Trust Center for Cell Biology
http://dx.doi.org/10.1101/062232 2016-07-05 Genetics CC BY-ND Host genetic variation in mucosal immunity pathways influences the upper airway microbiome Catherine Igartua|Emily R Davenport|Yoav Gilad|Dan L Nicolae|Jayant Pinto|Carole Ober Univeristy of Chicago;|Cornell University;|University of Chicago
http://dx.doi.org/10.1101/061929 2016-07-05 Epidemiology CC BY Ending AIDS: Progress and prospects for the control of HIV and TB in South Africa Brian Gerard Williams|Somya Gupta|Matthew Wollmers|Reuben Granich WRHI and SACEMA;|International Association of Providers of AIDS Care (IAPAC)
http://dx.doi.org/10.1101/061598 2016-07-05 Epidemiology CC BY-NC-ND Potent Protection against H5N1 and H7N9 Influenza via Childhood Hemagglutinin Imprinting Katelyn M Gostic|Monique R Ambrose|Michael Worobey|James O Lloyd-Smith University of California, Los Angeles;|The University of Arizona
http://dx.doi.org/10.1101/062083 2016-07-05 Evolutionary Biology CC BY-NC-ND Immunoecology of species with alternative mating tactics and strategies George A Lozano|Albert F. H. Ros Estonian Centre of Evolutionary Ecology;|Fischereiforschungsstelle, Langenargen, Germany
http://dx.doi.org/10.1101/061879 2016-07-05 Immunology CC BY-NC-ND A mechanism of T cell dependent selection of antigen engaged Germinal Center B cells Vinod Krishna|Kurtis E Bachman Janssen Research and Development
http://dx.doi.org/10.1101/061945 2016-07-05 Bioinformatics Cis/transgene optimization: systematic discovery of some key gene expression elements integrating bioinformatics and computational biology Saeid Kadkhodaei|Farahnaz S. Golestan Hashemi|Morvarid Akhavan Rezaei|Sahar Abbasiliasi|Tan Joo Shun|Hamid R. Rajabi Memari|Mahdi Moradpour|Arbakariya B. Ariff Universiti Putra Malaysia;|Universiti Sains Malaysia;|SynHiTech
http://dx.doi.org/10.1101/062042 2016-07-04 Neuroscience Uncoupling of dysgranular retrosplenial 'head direction' cells from the global head direction network Pierre-Yves Jacob|Giulio Casali|Laure Spieser|Hector Page|Dorothy Overington|Kate Jeffery University College London;|City University of London
http://dx.doi.org/10.1101/062075 2016-07-04 Genetics CC BY-NC-ND Using imputed genotype data in the joint score tests for genetic association and gene-environment interactions in case-control studies Minsun Song|Bill Wheeler|Neil Caporaso|Maria Teressa Landi|Nilanjan Chatterjee Department of Mathematics and Statistiscs, University of Nevada Reno, Reno, Nevada;|Information Management System, Rockville, Maryland;|National Cancer Institute;|Johns Hopkins University
http://dx.doi.org/10.1101/062455 2016-07-06 Evolutionary Biology CC BY Sociality and DNA methylation are not evolutionary dependent Adam J Bewick|Kevin J Vogel|Allen J Moore|Robert J Schmitz University of Georgia
http://dx.doi.org/10.1101/062430 2016-07-06 Biophysics CC BY-NC An internal disulfide locks a misfolded aggregation-prone intermediate in cataract-linked mutants of human γD-crystallin Eugene Serebryany|Jaie C. Woodard|Bharat V. Adkar|Mohammed Shabab|Jonathan A. King|Eugene I. Shakhnovich MIT;|Harvard
http://dx.doi.org/10.1101/061671 2016-07-06 Microbiology CC BY-NC The clinically approved antiviral drug sofosbuvir impairs Brazilian zika virus replication Caroline Q. Sacramento|Gabrielle R. de Melo|Natasha Rocha|Lucas Villas Boas Hoelz|Milene Mesquita|Caroline S. de Freitas|Natalia Fintelman-Rodrigues|Andressa Marttorelli|Andre C. Ferreira|Giselle Barbosa-Lima|Monica M. Bastos|Eduardo de Mello Volotao|Diogo A. Tschoeke|Luciana Leomil|Fernando A. Bozza|Patricia T. Bozza|Nubia Boechat|Fabiano L. Thompson|Ana M. B. de Filippis|Karin Bruning|Thiago Souza Fiocruz;|UFRJ;|BMK consortium;|Oswaldo Cruz Foundation
http://dx.doi.org/10.1101/062315 2016-07-06 Neuroscience Primate ventromedial prefrontal cortex neurons continuously encode the willingness to engage in reward directed behavior. Aurore San Galli|Chiara Varazzani|Raphaelle Abitbol|Mathias Pessiglione|Sebastien Bouret INSERM;|ICM;|CNRS
http://dx.doi.org/10.1101/062356 2016-07-06 Evolutionary Biology CC BY-NC-ND Should tissue structure suppress or amplify selection to minimize cancer risk? Laura Hindersin|Benjamin Werner|David Dingli|Arne Traulsen Max Planck Institute for Evolutionary Biology, August-Thienemann-Str. 2, 24306 Ploen, German;|The Centre for Evolution and Cancer, The Institute of Cancer Research, 123 Old Brompton Road, London;|Division of Hematology and Department of Molecular Medicine, Mayo Clinic, 200 First Street SW, Roche;|MPI Evolutionary Biology
http://dx.doi.org/10.1101/062299 2016-07-06 Animal Behavior and Cognition CC BY-NC-ND Electrophysiology reveals the neural dynamics of naturalistic auditory language processing: event-related potentials reflect continuous model updates Phillip M Alday|Ina Bornkessel-Schlesewsky|Matthias Schlesewsky University of South Australia
http://dx.doi.org/10.1101/062372 2016-07-06 Neuroscience Extrinsic repair of injured dendrites as a paradigm for regeneration by fusion Meital Oren-Suissa|Tamar Gattegno|Veronika Kravtsov|Benjamin Podbilewicz Technion- Israel Institute of Technology
http://dx.doi.org/10.1101/062380 2016-07-06 Neuroscience CC BY Humans do not evidence choice biases in simple discrimination tasks Daniel Linares|Joan Lopez-Moliner University of Barcelona
http://dx.doi.org/10.1101/062422 2016-07-06 Systems Biology CC BY-NC-ND Single Cell Pluripotency Regulatory Networks Patrick S Stumpf|Rob Ewing|Ben D MacArthur University of Southampton
http://dx.doi.org/10.1101/062323 2016-07-06 Evolutionary Biology With a little help from my friends: Cooperation can accelerate crossing of adaptive valleys Uri Obolski|Ohad Lewin-Epstein|Eran Even-Tov|Yoav Ram|Lilach Hadany Tel-Aviv University;|Tel Aviv University
http://dx.doi.org/10.1101/062307 2016-07-06 Bioinformatics CC BY-NC An Empirical Analysis of Topic Modeling for Mining Cancer Clinical Notes Katherine Redfield Chang|Xinghua Lou|Theofanis Karaletsos|Chris Crosbie|Stuart Gardos|David Artz|Gunnar Ratsch Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/062414 2016-07-06 Evolutionary Biology CC BY-NC-ND The evolution of no-cost resistance at sub-MIC concentrations of streptomycin in Streptomyces coelicolor Sanne Westhoff|Tim van Leeuwe|Omar Qachach|Zheren Zhang|Gilles van Wezel|Daniel Rozen Leiden University
http://dx.doi.org/10.1101/062349 2016-07-06 Evolutionary Biology Chaotic provinces in the kingdom of the Red Queen Hanna Schenk|Arne Traulsen|Chaitanya S Gokhale Max Planck Institute for Evolutionary Biology;|MPI Evolutionary Biology
http://dx.doi.org/10.1101/062240 2016-07-06 Ecology CC BY-NC Distribution of the endangered giant kangaroo rat, Dipodomys ingens, on the Naval Petroleum Reserves, California Thomas P. O'Farrell|Nancy E. Mathews|Patrick M. McCue|Mary S. Kelly Watash, L.L.C.;|University of Wisconsin;|Colorado State University;|Retired
http://dx.doi.org/10.1101/062331 2016-07-06 Biochemistry CC BY-NC-ND Ubiquitin-mediated proteolysis in Xenopus extract Gary S McDowell|Anna Philpott Future of Research;|University of Cambridge
http://dx.doi.org/10.1101/062265 2016-07-06 Ecology CC BY-NC-ND Are foundation species effects different than those of dominant species? A case study of ant assemblages in northeastern North American forests Sydne Record|Tempest D McCabe|Ben Baiser|Aaron M Ellison Bryn Mawr College;|University of Florida;|Harvard University
http://dx.doi.org/10.1101/062745 2016-07-07 Neuroscience Possible existence of optical communication channels in the brain Sourabh Kumar|Kristine Boone|Jack Tuszynski|Paul E Barclay|Christoph Simon University of Calgary;|University of Alberta
http://dx.doi.org/10.1101/062695 2016-07-07 Bioinformatics CC BY Integrative networks illuminate biological factors underlying gene-disease associations Arjun Krishnan|Jaclyn N Taroni|Casey S Greene Princeton University;|University of Pennsylvania;|0000-0002-7980-4110
http://dx.doi.org/10.1101/062612 2016-07-07 Plant Biology CC BY-NC-ND Modifications to a LATE MERISTEM IDENTITY-1 gene are responsible for the major leaf shapes of Upland cotton (Gossypium hirsutum L.) Ryan J Andres|Viktoriya Coneva|Margaret Frank|John R Tuttle|Sang-Won Han|Luis F Samayoa|Baljinder Kaur|Linglong Zhu|Hui Fang|Daryl T Bowman|Marcela Rojas-Pierce|Candace H Haigler|Don C Jones|James B Holland|Daniel H Chitwood|Vasu Kuraparthy North Carolina State University;|Danforth Plant Sciences Center;|North Carolina State University & USDA-ARS;|Cotton Incorporated
http://dx.doi.org/10.1101/062752 2016-07-07 Neuroscience BK Channel Function Bidirectionally Influences Behavioral Deficits Following Withdrawal from Chronic Ethanol in Caenorhabditis elegans Luisa Scott|Scott Davis|Rachel Yen|Greg Ordemann|Deepthi Bannai|Jonathan Pierce-Shimomura University of Texas at Austin, United States
http://dx.doi.org/10.1101/062760 2016-07-07 Evolutionary Biology CC BY-NC-ND Evolution of mutation rates in rapidly adapting asexual populations Benjamin H. Good|Michael M. Desai Harvard University, United States
http://dx.doi.org/10.1101/062679 2016-07-07 Neuroscience Cell fusion proteins can rejuvenate adult dendritic trees Veronika Kravtsov|Meital Oren-Suissa|Benjamin Podbilewicz Technion- Israel Institute of Technology
http://dx.doi.org/10.1101/062737 2016-07-07 Bioinformatics CC BY-NC-ND Assocplots: a python package for static and interactive visualization of multiple-group GWAS results Ekaterina A Khramtsova|Barbara E. Stranger University of Chicago
http://dx.doi.org/10.1101/062497 2016-07-07 Bioinformatics CC BY-NC Rapid and efficient analysis of 20,000 RNA-seq samples with Toil John Vivian|Arjun Rao|Frank Austin Nothaft|Christopher Ketchum|Joel Armstrong|Adam Novak|Jacob Pfeil|Jake Narkizian|Alden D. Deran|Audrey Musselman-Brown|Hannes Schmidt|Peter Amstutz|Brian Craft|Mary Goldman|Kate Rosenbloom|Melissa Cline|Brian O'Connor|Megan Hanna|Chet Birger|W. James Kent|David A. Patterson|Anthony D. Joseph|Jingchun Zhu|Sasha Zaranek|Gad Getz|David Haussler|Benedict Paten University of California Santa Cruz Genomics Institute;|AMP Lab, University of California Berkeley;|Curoverse;|Broad Institute of Harvard and Massachusetts Institute of Technology
http://dx.doi.org/10.1101/062711 2016-07-07 Neuroscience A conceptual view at microtubule plus end dynamics in neuronal axons Andre Voelzmann|Ines Hahn|Simon Pearce|Natalia P Sanchez-Soriano|Andreas Prokop University of Manchester;|University of Liverpool
http://dx.doi.org/10.1101/062703 2016-07-07 Animal Behavior and Cognition Awake Canine fMRI Predicts Dogs' Preference for Praise Versus Food Peter Cook|Ashley Prichard|Mark Spivak|Gregory S Berns Emory University;|Comprehensive Pet Therapy
http://dx.doi.org/10.1101/062562 2016-07-07 Evolutionary Biology CC BY-NC-ND Steady at the wheel: conservative sex and the benefits of bacterial transformation Ole-Herman Ambur|Jan Engelstadter|Pal Johnsen|Eric Miller|Daniel Rozen Akershus University College of Applied Sciences;|The University of Queensland;|The Artic University of Norway;|University of Manchester;|Leiden University
http://dx.doi.org/10.1101/062661 2016-07-07 Neuroscience CC BY-NC Towards an emotional stress test: a reliable, non-subjective cognitive measure of anxious responding. Jessica Aylward|Oliver Robinson Institute of Cognitive Neuroscience, UCL
http://dx.doi.org/10.1101/062620 2016-07-07 Genomics CC BY-NC-ND Detection of structural mosaicism from targeted and whole-genome sequencing data Daniel A King|Alejandro Sifrim|Tomas W. Fitzgerald|Raheleh Rahbari|Emma Hobson|Tessa Homfray|Sahar Mansour|Sarju G. Mehta|Mohammed Shehla|Susan E. Tomkins|Pradeep C. Vasudevan|Matthew E. Hurles Wellcome Trust Sanger Institute, Hinxton, Cambridge, United Kingdom;|Department of Clinical Genetics, Chapel Allerton Hospital, Leeds, United Kingdom;|Southwest Thames Regional Genetics Centre, St George's Healthcare NHS Trust, London, United Kingdom;|East Anglian Regional Genetics Service, Addenbrookes Hospital, Cambridge, United Kingdom;|Guy's Hospital, London, United Kingdom;|Department of Clinical Genetics, St Michael's Hospital, Bristol, United Kingdom;|Leicester Royal Infirmary, Leicester, United Kingdom
http://dx.doi.org/10.1101/062521 2016-07-07 Neuroscience Autism genes are selectively targeted by environmental pollutants including pesticides, heavy metals, bisphenol A, phthalates and many others in food, cosmetics or household products. Chris J Carter|Robert Blizard PolygenicPathways;|University College London
http://dx.doi.org/10.1101/062539 2016-07-07 Developmental Biology CC BY Information Isometry Technique Reveals Organizational Features in Developmental Cell Lineages Bradly John Alicea|Thomas E. Portegys|Richard Gordon Orthogonal Research, OpenWorm Foundation;|Dialectek LLC, OpenWorm Foundation;|Gulf Specimen Marine Lab, Wayne State University
http://dx.doi.org/10.1101/062554 2016-07-07 Genomics CC BY-NC-ND Joint Genotype- and Ancestry-based Genome-wide Association Studies in Admixed Populations Piotr Szulc|Malgorzata Bogdan|Florian Frommlet|Hua Tang Wroclaw University of Technology;|University of Wroclaw;|Medical University of Vienna;|Stanford University
http://dx.doi.org/10.1101/062513 2016-07-07 Genomics CC BY Cell-type specific open chromatin profiling in human postmortem brain infers functional roles for non-coding schizophrenia loci John F Fullard|Claudia Giambartolomei|Mads E Hauberg|Ke Hu|Christopher Bare|Joel T Dudley|Manuel Mattheisen|Joseph K Pickrell|Vahram Haroutunian|Panos Roussos Icahn School of Medicine at Mount Sinai;|Aarhus University;|New York Genome Center
http://dx.doi.org/10.1101/062547 2016-07-07 Microbiology CC BY-ND Characterization of the effects of n-butanol on the cell envelope of E. coli Eugene Fletcher|Teuta Pilizota|Philip R. Davies|Alexander McVey|Chris E. French Technical University of Denamrk;|University of Edinburgh
http://dx.doi.org/10.1101/061572 2016-07-07 Cancer Biology Comments on: "A comprehensive repertoire of tRNA-derived fragments in prostate cancer" Rogan Magee|Phillipe Loher|Aristeidis Telonis|Yohei Kirino|Isidore Rigoutsos Computational Medicine Center, Sidney Kimmel Medical College
http://dx.doi.org/10.1101/062463 2016-07-07 Biophysics CC BY-ND Lateral pressure profile in bent lipid membranes and mechanosensitive channel gating Anna Drozdova|Sergei Mukhin NUST "MISIS"
http://dx.doi.org/10.1101/059410 2016-07-07 Microbiology CC BY-NC-ND Metabolic Reconstruction and Modeling Microbial Electrosynthesis Christopher Marshall|Daniel Ross|Kim Handley|Pamela Weisenhorn|Janaka Edirisinghe|Christopher Henry|Jack Gilbert|Harold May|R Sean Norman Argonne National Laboratory;|University of South Carolina;|University of Auckland;|University of Chicago;|Medical University of South Carolina
http://dx.doi.org/10.1101/062844 2016-07-08 Genetics Do Dams Also Stop Frogs? Assessing Population Connectivity of Coastal Tailed Frogs (Ascaphus truei) in the North Cascades National Park Service Complex Jared A. Grummer|Adam D. Leache University of Washington
http://dx.doi.org/10.1101/062885 2016-07-08 Neuroscience CC BY Schizophrenia hiPSC neurons display expression changes that are enriched for disease risk variants and a blunted activity-dependent response Panos Roussos|Boris Guennewig|Dominik Kaczorowski|Guy Barry|Kristen J Brennand Icahn School of Medicine at Mount Sinai;|Garvan Institute of Medical Research;|QIMR Berghofer Medical Research Institute
http://dx.doi.org/10.1101/062851 2016-07-08 Neuroscience Three-dimensional definition of two prominent deep brain stimulation targets based on a multimodal high-definition MNI template Siobhan Ewert|Andreas Horn Charité University Medicine (Berlin, Germany);|Harvard Medical School, BIDMC, Neurology Department, Berenson Allen Center (Boston, MA, USA)
http://dx.doi.org/10.1101/062901 2016-07-08 Systems Biology CC BY Modeling the dynamics of mouse iron body distribution: hepcidin is necessary but not sufficient Jignesh H. Parmar|Grey Davis|Hope Shevchuk|Pedro Mendes University of Connecticut School of Medicine
http://dx.doi.org/10.1101/062935 2016-07-08 Genomics CC BY-NC-ND Coding translational rates: the hidden genetic code Luis Diambra UNLP
http://dx.doi.org/10.1101/062919 2016-07-08 Genomics CC BY Batch effects and the effective design of single-cell gene expression studies Po-Yuan Tung|John D Blischak|Chiaowen Hsiao|David A Knowles|Jonathan E Burnett|Jonathan K Pritchard|Yoav Gilad University of Chicago;|Stanford University
http://dx.doi.org/10.1101/062943 2016-07-08 Bioinformatics CC BY-NC-ND VarMatch: robust matching of small variant datasets using flexible scoring schemes Chen Sun|Paul Medvedev The Pennsylvania State University
http://dx.doi.org/10.1101/062877 2016-07-08 Immunology CC BY-NC Signal Transduction Through a DNA-Based T Cell Receptor Marcus J Taylor|Kabir Husain|Zev J Gartner|Satyajit Mayor|Ron D Vale National Centre for Biological Sciences;|University of California San Francisco
http://dx.doi.org/10.1101/062869 2016-07-08 Ecology CC BY Coral life history differences determine the refugium potential of a remote Caribbean reef Sarah Davies|Marie E Strader|Johnathan T Kool|Carly D Kenkel|Mikhail V Matz University of Texas at Austin;|Geoscience Australia
http://dx.doi.org/10.1101/062836 2016-07-08 Cell Biology Foxc1 Controls Cell Fate Decisions During Transforming Growth Factor β Induced Epithelial to Mesenchymal Transition Through the Regulation of Fibroblast Growth Factor Receptor 1 Expression. Alexander Hopkins|Mackenzie L Coatham|Fred B Berry University of Alberta
http://dx.doi.org/10.1101/062786 2016-07-08 Neuroscience CC BY Rett syndrome - biological pathways leading from MECP2 to disorder phenotypes Friederike Ehrhart|Susan LM Coort|Elisa Cirillo|Eric Smeets|Chris T Evelo|Leopold M Curfs Department of Bioinformatics - BiGCat, Maastricht University;|Governor Kremers Centre - Rett Expertise Centre, Maastricht University Medical Center
http://dx.doi.org/10.1101/062802 2016-07-08 Pharmacology Possible Protective effect of Unani formulation against Isoproterenol induced toxicity in SVEC cells Abdul M Kareem Indira Gandhi National Open University
http://dx.doi.org/10.1101/062794 2016-07-08 Evolutionary Biology CC BY-NC-ND Inbreeding parents should invest more resources in fewer offspring Alexander Bradley Duthie|Aline M Lee|Jane M Reid University of Aberdeen
http://dx.doi.org/10.1101/062471 2016-07-08 Genetics CC BY-NC-ND Rare copy number variants in NRXN1 and CNTN6 increase risk for Tourette syndrome Alden Y Huang|Dongmei Yu|Lea K Davis|Jae-Hoon Sul|Fotis Tsetsos|Vasily Ramensky|Ivette Zelaya|Eliana Marisa Ramos|Lisa Osiecki|Jason A Chen|Lauren M McGrath|Cornelia Illmann|Paul Sandor|Cathy L Barr|Marco Grados|Harvey S Singer|Markus M Noethen|Johannes Hebebrand|Robert A King|Yves Dion|Guy Rouleau|Cathy L Budman|Christel Depienne|Yulia Worbe|Andreas Hartmann|Kirsten R Muller-Vahl|Manfred Stuhrmann|Harald Aschauer|Mara Stamenkovic|Monika Schloegelhofer|Anastasios Konstantinidis|Gholson L Lyon|William M McMahon|Csaba Barta|Zsanett Tarnok|Peter Nagy|James R Batterson|Renata Rizzo|Danielle C Cath|Tomasz Wolanczyk|Cheston Berlin|Irene A Malaty|Michael S Okun|Douglas W Woods|Elliott Rees|Carlos N Pato|Michele T Pato|James A Knowles|Danielle Posthuma|David L Pauls|Nancy J Cox|Benjamin M Neale|Nelson B Freimer|Peristera Paschou|Carol A Mathews|Jeremiah M Scharf|Giovanni Coppola University of California Los Angeles, Los Angeles, California, USA;|Massachusetts General Hospital, Boston, MA, USA;|Division of Genetic Medicine, Vanderbilt University Medical Center, Nashville, Tennessee, USA;|Department of Molecular Biology and Genetics, Democritus University of Thrace, Greece;|Department of Psychology, University of Denver, Denver, Colorado, USA;|Department of Psychiatry, University of Toronto, Toronto, Ontario, Canada;|Department of Psychiatry, University of Toronto, Toronto, Canada;|Johns Hopkins University School of Medicine, Baltimore, Maryland, USA;|Department of Genomics, Life & Brain Center, University of Bonn, Bonn, Germany;|University of Duisburg-Essen, Germany;|Yale Child Study Center, Yale University School of Medicine, New Haven, Connecticut, USA;|University of Montreal, Montreal, Canada;|Department of Neurology and Neurosurgery, McGill University, Montreal, Quebec, Canada;|Hofstra Northwell School of Medicine, Hempstead, New York, USA;|IGBMC, CNRS UMR 7104/INSERM U964/Universite de Strasbourg, 67400 Illkirch, France;|Brain and Spine Institute, UPMC/INSERM UMR_S1127, Paris, France;|Clinic of Psychiatry, Social Psychiatry and Psychotherapy, Hannover Medical School, Germany;|Institute of Human Genetics, Medical School, Hannover, Germany;|Medical University Vienna, Department of Psychiatry and Psychotherapy, Vienna, Austria;|Biopsychosocial Corporation, Vienna, Austria;|Cold Spring Harbor Laboratory, Cold Spring Harbor, New York;|Department of Psychiatry, University of Utah, Utah, USA;|Semmelweis University, Budapest, Hungary;|Vadaskert Child and Adolescent Psychiatric Hospital, Budapest, Hungary;|Children's Mercy Kansas City, Kansas City, Kansas, USA;|Dipartimento di Medicina Clinica e Sperimentale, Universita' di Catania, Catania, Italy;|Utrecht University, Utrecht, the Netherlands;|Department of Child Psychiatry, Medical University of Warsaw, Poland;|Penn State University College of Medicine, Hershey, Pennsylvania, USA;|University of Florida, Gainesville, Florida, USA;|Marquette University, Milwaukee, Wisconsin, USA;|Cardiff University, Cardiff, Wales, United Kingdom;|SUNY Downstate Medical Center, Brooklyn, New York, USA;|University of Southern California, Los Angeles, California, USA;|Department of Complex Trait Genetics, VU University Amsterdam, Amsterdam, the Netherlands;|Department of Psychiatry, Genetics Institute, University of Florida, Gainesville, Florida, USA;|University of California Los Angeles
http://dx.doi.org/10.1101/062133 2016-07-08 Ecology CC BY-NC-ND Estimates of local biodiversity change over time stand up to scrutiny Mark Vellend|Maria Dornelas|Lander Baeten|Robin Beausejour|Carissa Brown|Pieter De Frenne|Sarah Elmendorf|Nicholas Gotelli|Faye Moyes|Isla Myers-Smith|Anne Magurran|Brian McGill|Hideyasu Shimadzu|Caya Sievers Universite de Sherbrooke;|University of St. Andrews;|Ghent University;|Memorial University of Newfoundland;|National Ecological Observatory Network;|University of Vermont;|University of Edinburgh;|University of Maine;|Loughborough University
http://dx.doi.org/10.1101/062570 2016-07-08 Evolutionary Biology CC BY-NC-ND Manipulating virulence factor availability can have complex consequences for infections Michael Weigert|Adin Ross-Gillespie|Anne Leinweber|Gabriella Pessi|Sam P. Brown|Rolf Kummerli University of Zuerich;|University of Edinburgh
http://dx.doi.org/10.1101/062778 2016-07-08 Cancer Biology An RNA editing/binding-independent gene regulatory mechanism of ADARs and its clinical implication in cancer Lihua Qi|Yangyang Song|Tim Hon Man Chan|Henry Yang|Chi Ho Lin|Daryl Jin Tai Tay|HuiQi Hong|Jaymie Siqi Lin|Vanessa Hui En Ng|Julien Jean Pierre Maury|Daniel G Tenen|Leilei (Polly) Chen Cancer Science Institute of Singapore, National University of Singapore, Singapore;|Centre for Genomic Sciences, The University of Hong Kong;|Institute of Molecular and Cell Biology, A*STAR, Singapore;|Cancer Science Institute o Singapore
http://dx.doi.org/10.1101/062034 2016-07-08 Epidemiology CC BY-NC Animals in the Zika virus life cycle: what to expect from megadiverse Latin American countries. Marina Galvao Bueno|Nadia Martinez|Livia Abdala|Claudia Nunes Duarte dos Santos|Marcia Chame Fundação Oswaldo Cruz - Fiocruz
http://dx.doi.org/10.1101/063040 2016-07-09 Cancer Biology Regulation of the JMJD3 (KDM6B) histone demethylase in glioblastoma stem cells by STAT3 Maureen M Sherey-Lynes|Sejuti Sengupta|Shreya Kulkarni|Brent Cochran Tufts University;|Tufts University School of Medicine
http://dx.doi.org/10.1101/063008 2016-07-09 Genomics CC BY RNA-seq mixology: designing realistic control experiments to compare protocols and analysis methods Aliaksei Z Holik|Charity W Law|Ruijie Liu|Zeya Wang|Wenyi Wang|Jaeil Ahn|Marie-Liesse Asselin-Labat|Gordon K Smyth|Matthew E Ritchie The Walter and Eliza Hall Institute of Medical Research;|Rice University;|The University of Texas MD Anderson Cancer Center;|Georgetown University
http://dx.doi.org/10.1101/062968 2016-07-09 Genomics CC BY A nonsense mutation in the COL7A1 gene causes epidermolysis bullosa in Vorderwald cattle Hubert Pausch|Simon Ammermueller|Christine Wurmser|Henning Hamann|Jens Tetens|Cord Droegemueller|Ruedi Fries Technische Universitaet Muenchen;|Technische Universitet Muenchen;|Federal Bureau for Geo Information and Rural Development of Baden-Wuerttemberg;|Christian-Albrechts-University Kiel;|University Bern
http://dx.doi.org/10.1101/063032 2016-07-09 Evolutionary Biology Past climate changes, population dynamics and the origin of Bison in Europe Diyendo Massilani|Silvia Guimaraes|Jean-Philip Brugal|E. Andrew Bennett|Malgorzata Tokarska|Rose-Marie Arbogast|Gennady Baryshnikov|Gennady Boeskorov|Jean-Christophe Castel|Sergey Davydov|Stephane Madelaine|Olivier Putelat|Natalia Spasskaya|Hans-Peter Uerpmann|Thierry Grange|Eva-Maria Geigl Institut Jacques Monod, CNRS-University Paris Diderot;|Aix-Marseille University, UMR 7269 LAMPEA;|Mammal Research Institute Polish Academy of Sciences, Genetics and Evolution Department;|CNRS/UMR 7044/MISHA;|Zoological Institute, Russian Academy of Sciences;|Diamond and Precious Metal Geology Institute, Siberian Branch of the Russian Academy of Sciences;|Natural history museum Geneva, Department of Archeozoology;|North-East Science Station, Pacific Institute of Geography, Far East Branch, Russian Acad of Science;|National Museum of Prehistory;|Pole d Archeologie Interdepartemental;|Zoological Museum of the Lomonosow Moscow State University;|Institute for Ancient and Early History and Archeology and Archeology of the Middle Ages;|Institut Jacques Monod - CNRS, University Paris Diderot;|Institut Jacques Monod-CNRS, University Paris Diderot
http://dx.doi.org/10.1101/063099 2016-07-10 Genetics CC BY-NC-ND The Time and Place of European Admixture in the Ashkenazi Jewish History James Xue|Todd Lencz|Ariel Darvasi|Itsik Pe'er|Shai Carmi Harvard University;|North Shore-Long Island Jewish Health System;|The Hebrew University of Jerusalem;|Columbia University
http://dx.doi.org/10.1101/063107 2016-07-10 Genomics CC BY-ND Prober: A general toolkit for analyzing sequencing-based 'toeprinting' assays Bo Li|Akshay Tambe|Sharon Aviraon|Lior Pachter University of California at Berkeley;|University of California at Davis;|U.C. Berkeley
http://dx.doi.org/10.1101/062976 2016-07-10 Evolutionary Biology Competition between continuously evolving lineages in asexual populations Noah Ribeck|Joseph S. Mulka|Luis Zaman|Brian D. Connelly|Richard E. Lenski Michigan State University, United States;|University of Washington, United States
http://dx.doi.org/10.1101/063024 2016-07-10 Molecular Biology CC BY-NC-ND Quantum Transition in Zinc Atoms of Flavavirus Polymerase Triggers the Conformation of the Polymerase Motif F Uliana Potapova|Sergey Feranchuk|Sergei Belikov LIN SB RAS
http://dx.doi.org/10.1101/062992 2016-07-10 Neuroscience CC BY-NC-ND Functional connectivity patterns underlying the experience of auditory verbal hallucinations in patients with schizophrenia Pravesh Parekh|John P. John|Sangeetha Menon|Harsha N. Halahalli|Bindu M. Kutty National Institute of Mental Health and Neuro Sciences;|National Institute of Mental Health and Neuro sciences;|National Institute of Advanced Studies
http://dx.doi.org/10.1101/063057 2016-07-10 Genomics CC BY-NC-ND RNA sequencing-based cell proliferation analysis across 19 cancers identifies a subset of proliferation-informative cancers with a common survival signature Ryne C. Ramaker|Brittany N. Lasseigne|Andrew Hardigan|Laura Palacio|David Gunther|Marie Kirby|Richard M. Myers|Sara J. Cooper HudsonAlpha Institute for Biotechnology, University of Alabama at Birmingham;|HudsonAlpha Institute for Biotechnology
http://dx.doi.org/10.1101/062950 2016-07-10 Genetics CC BY-NC-ND Detecting Genome-wide Variants of Eurasian Facial Shape Differentiation: DNA based Face Prediction Tested in Forensic Scenario Lu Qiao|Yajun Yang|Pengcheng Fu|Sile Hu|Hang Zhou|Jingze Tan|Yan Lu|Haiyi Lou|Dongsheng Lu|Sijie Wu|Jing Guo|Shouneng Peng|Li Jin|Yaqun Guan|Sijia Wang|Shuhua Xu|Kun Tang Chinese Academy of Sciences (CAS) Laboratory of Computational Biology;|Fudan University;|the First People's Hospital of Chenzhou;|CAS-MPG Partner Institute for Computational Biology;|Xinjiang Medical University
http://dx.doi.org/10.1101/062489 2016-07-10 Genetics Allelic spectrum of the RNA guided CRISPR/Cas9 DNA repair events at PAM associated trinucleotide repeat (NGG)n in Caenorhabditis elegans Wadim J Kapulkin Aquatic Veterinary Consultancy
http://dx.doi.org/10.1101/062588 2016-07-10 Genomics Whole genome analysis of the methylome and hydroxymethylome in normal and malignant lung and liver Xin Li|Yun Liu|Tal Salz|Kasper D Hansen|Andrew P Feinberg Johns Hopkins University
http://dx.doi.org/10.1101/063115 2016-07-10 Microbiology Origins of pandemic clones from environmental gene pools B. Jesse Shapiro|Ines Levade|Gabriela Kovacikova|Ronald K. Taylor|Salvador Almagro-Moreno University of Montreal;|Geisel School of Medicine at Dartmouth
http://dx.doi.org/10.1101/063081 2016-07-10 Biophysics CC BY Measuring experimental cyclohexane-water distribution coefficients for the SAMPL5 challenge Arien S Rustenburg|Justin Dancer|Baiwei Lin|Jianwen A. Feng|Daniel F. Ortwine|David L. Mobley|John D. Chodera Memorial Sloan Kettering Cancer Center;|Theravance Biopharma;|Genentech;|Denali Therapeutics;|University of California, Irvine;|Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/063131 2016-07-10 Bioinformatics Boosting alignment accuracy through adaptive local realignment Dan DeBlasio|John Kececioglu University of Arizona
http://dx.doi.org/10.1101/063271 2016-07-11 Microbiology Benzoate and Salicylate Tolerant Strains Lose Antibiotic Resistance during Laboratory Evolution of Escherichia coli K-12 Kaitlin Creamer|Frederick Ditmars|Preston J Basting|Santiago Acero|Karina S Kunka|Issam Hamdallah|Sean P Bush|Zachary Scott|Amanda He|Stephanie Penix|Alexandra Gonzales|Elizabeth K Eder|Dominic Camperchioli|Adama Berndt|Michelle W Clark|Kerry Rouhier|Joan L Slonczewski Kenyon College
http://dx.doi.org/10.1101/063255 2016-07-11 Microbiology CC BY-NC-ND Molecular and biological characterization of an isolate of Tomato mottle mosaic virus (ToMMV) infecting tomato and other experimental hosts in a greenhouse in Valencia, Spain Silvia Ambros|Fernando Martinez|Pilar Ivars|Carmen Hernandez|Francisca de la Iglesia|Santiago F. Elena IBMCP-CSIC
http://dx.doi.org/10.1101/057836 2016-07-11 Plant Biology Geo-climatic gradient shapes functional trait variations in Salix eriocephala Michx. Arun S.K. Shunmugam|Raju Y. Soolanayakanahally|Robert D. Guy Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, Saskatchewan;|Department of Forest and Conservation Sciences, Faculty of Forestry, University of British Columbia
http://dx.doi.org/10.1101/063172 2016-07-11 Genetics Complete mitochondrial genomes of Thai and Lao populations indicate an ancient origin of Austroasiatic groups and demic diffusion in the spread of Tai-Kadai languages Wibhu Kutanan|Jatupol Kampuansai|Metawee Srikummool|Daoroong Kangwanpong|Silvia Ghirotto|Andrea Brunelli|Mark Stoneking Khon Kaen University, Max Planck Institute for Evolutionary Anthropology;|Chiang Mai University;|Naruesuan University;|University of Ferrara;|Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/063222 2016-07-11 Microbiology An ex vivo lung model to study bronchioles infected with Pseudomonas aeruginosa biofilms Freya Harrison|Stephen P Diggle University of Nottingham
http://dx.doi.org/10.1101/063206 2016-07-11 Bioinformatics Coordinates and Intervals in Graph-based Reference Genomes Knut Dagestad Rand|Ivar Grytten|Alexander Nederbragt|Geir Olve Storvik|Ingrid Kristine Glad|Geir Kjetil Sandve University of Oslo
http://dx.doi.org/10.1101/063230 2016-07-11 Ecology Shared predation: positive effects of predator distraction Mickael Teixeira Alves|Frederic Grognard|Vincent Calcagno|Ludovic Mailleret Universite Cote d'Azur, INRA, CNRS, Inria;|Universite Cote d'Azur, Inria;|Universite Cote d'Azur, INRA, CNRS
http://dx.doi.org/10.1101/062646 2016-07-11 Ecology Climate change vulnerability for species: assessing the assessments Christopher Wheatley|Colin M Beale|Richard B Bradbury|James W Pearce-Higgins|Rob Critchlow|Chris D Thomas University of York;|RSPB;|BTO
http://dx.doi.org/10.1101/063164 2016-07-11 Bioinformatics CC BY Deconvolution model for cytometric microbial subgroups along a freshwater hydrologic continuum Stefano Amalfitano|Stefano Fazi|Anna M Romani|Andrea Butturini Water Research Institute, National Research Council of Italy (IRSA-CNR), Rome, Italy;|Institute of Aquatic Ecology, University of Girona, Spain;|Department of Ecology, University of Barcelona, Spain
http://dx.doi.org/10.1101/063537 2016-07-12 Genomics CC BY-NC A Thousand Fly Genomes: An Expanded Drosophila Genome Nexus Justin B Lack|Jeremy D Lange|Alison B Tang|Russell B Corbett-Detig|John E Pool University of Wisconsin-Madison;|University of California, Berkeley
http://dx.doi.org/10.1101/063560 2016-07-12 Evolutionary Biology CC BY-NC-ND Phylogenetic scale in ecology and evolution Catherine H. Graham|Antonin Machac|David Storch Stony Brook University;|CMEC, University of Copenhagen;|Charles University, Prague
http://dx.doi.org/10.1101/063545 2016-07-12 Evolutionary Biology CC BY-NC Parallel Evolution of Cold Tolerance Within Drosophila melanogaster John E Pool|Dylan T Braun|Justin B Lack University of Wisconsin-Madison
http://dx.doi.org/10.1101/063552 2016-07-12 Bioinformatics CC BY A cloud-based workflow to quantify transcript-expression levels in public cancer compendia PJ Tatlow|Stephen R Piccolo Brigham Young University
http://dx.doi.org/10.1101/063438 2016-07-12 Epidemiology CC BY-NC Association of environmental markers with childhood type 1 diabetes mellitus revealed by a long questionnaire on early life exposures and lifestyle in a case-control study Felix BALAZARD|Sophie Le Fur|Sophie Valtat|Alain-Jacques Valleron|Pierre Bougneres Inserm U1169;|INSERM U1169
http://dx.doi.org/10.1101/063370 2016-07-12 Microbiology CC BY-NC Microbial Mat Functional and Compositional Sensitivity to Environmental Disturbance Eva Christine Preisner|Erin Biers Fichot|Robert Sean Norman University of South Carolina
http://dx.doi.org/10.1101/063321 2016-07-12 Cancer Biology CC BY-NC-ND Metabolomic-based biomarker discovery for non-invasive lung cancer screening: A case study Keiron O'Shea|Simon JS Cameron|Keir E Luis|Chuan Lu|Luis AJ Mur Aberystwyth University;|Imperial College London;|Prince Phillip Hospital, Llanelli
http://dx.doi.org/10.1101/063446 2016-07-12 Bioinformatics CC BY-ND Fast genotyping of known SNPs through approximate k-mer matching Ariya R Shajii|Deniz Yorukoglu|Y. William Yu|Bonnie Berger Massachusetts Institute of Technology;|MIT
http://dx.doi.org/10.1101/063404 2016-07-12 Neuroscience CC BY-NC Visual guidance of bimanual coordination relies on movement direction Janina Brandes|Farhad Rezvani|Tobias Heed Faculty of Psychology and Human Movement Science, University of Hamburg, Hamburg, Germany
http://dx.doi.org/10.1101/063396 2016-07-12 Evolutionary Biology CC BY-NC-ND A conditional likelihood is required to estimate the selection coefficient in ancient DNA Angelo Valleriani Max Planck Institute of Colloids and Interfaces
http://dx.doi.org/10.1101/063479 2016-07-12 Ecology CC BY-NC-ND Using qualitative models to define sustainable management for the commons in data poor conditions. Francesca Mancini|George M. Coghill|David Lusseau University of Aberdeen
http://dx.doi.org/10.1101/063453 2016-07-12 Evolutionary Biology CC BY-NC discoal: flexible coalescent simulations with selection Andrew D. Kern|Daniel Schrider Rutgers, The State University of New Jersey
http://dx.doi.org/10.1101/063248 2016-07-12 Evolutionary Biology CC BY-NC-ND Differential paralog divergence modulates evolutionary outcomes in yeast Monica Rose Sanchez|Aaron W. Miller|Ivan Liachko|Anna B. Sunshine|Bryony Lynch|Mei Huang|Christopher G. DeSevo|Dave A. Pai|Cheryl M. Tucker|Margaret L. Hoang|Maitreya J. Dunham University of Washington;|Princeton University;|Carnegie Institution
http://dx.doi.org/10.1101/063388 2016-07-12 Genetics CC BY-NC-ND Whole genome view of the consequences of a population bottleneck using 2926 genome sequences from Finland and United Kingdom Himanshu Chheda|Priit Palta|Matti Pirinen|Shane McCarthy|Klaudia Walter|Seppo Koskinen|Veikko Salomaa|Mark Daly|Richard Durbin|Aarno Palotie|Tero Aittokallio|Samuli Ripatti Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland;|Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, United Kingdom;|National Institute of Health and Welfare, Department of Health, Helsinki, Finland;|Analytic and Translational Genetics Unit, Department of Medicine, Massachusetts General Hospital
http://dx.doi.org/10.1101/063362 2016-07-12 Evolutionary Biology CC BY-NC The combinatorics of discrete time-trees: theory and open problems Alex Gavryushkin|Chris Whidden|Frederick Matsen ETH Zurich;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/063289 2016-07-12 Biochemistry CC BY-NC-ND Antiparallel protocadherin homodimers use distinct affinity- and specificity mediating regions in cadherin repeats 1-4 John M. Nicoludis|Bennett E. Vogt|Anna G. Green|Charlotta P.I. Scharfe|Debora S. Marks|Rachelle Gaudet Harvard University;|Harvard Medical School;|University of Tübingen
http://dx.doi.org/10.1101/063305 2016-07-12 Immunology A compound interest approach to HIV cure Daniel Reeves|Elizabeth Duke|Martin Prlic|Florian Hladik|Joshua Schiffer Fred Hutch
http://dx.doi.org/10.1101/063578 2016-07-13 Genetics CC BY Variation in mutation rates among human populations Iain Mathieson|David E. Reich Harvard Medical School
http://dx.doi.org/10.1101/063594 2016-07-13 Plant Biology CC BY-NC-ND Modelling tree growth taking into account carbon source and sink limitations Amaury Hayat|Andrew J Hacket-Pain|Hans Pretzsch|Tim Tito Rademacher|Andrew D Friend University of Cambridge;|Fitzwilliam College;|Technische Universität München
http://dx.doi.org/10.1101/063313 2016-07-13 Animal Behavior and Cognition CC BY Strategic adjustment of parental care: life-history trade-offs and the role of glucocorticoids Caglar Akcay|Adam Z. Lendvai|Mark Stanback|Mark Hausmann|Ignacio T. Moore|Fran Bonier Virginia Tech;|University of Debrecen;|Davidson College;|Bucknell University;|Queen's University
http://dx.doi.org/10.1101/063743 2016-07-13 Evolutionary Biology Ancient coexistence of norepinephrine, tyramine, and octopamine signaling in bilaterians Philipp Bauknecht|Gaspar Jekely Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/063750 2016-07-13 Bioinformatics Inference of epistatic effects and the development of drug resistance in HIV-1 protease William F Flynn|Allan Haldane|Bruce E Torbett|Ronald M Levy Rutgers University;|Temple University;|The Scripps Research Institute, La Jolla
http://dx.doi.org/10.1101/063768 2016-07-13 Bioinformatics CC BY-NC-ND ADPriboDB: The Database of ADP-ribosylated Proteins Christina Vivelo|Ricky Wat|Charul Agrawal|Hui Yi Tee|Anthony Leung Johns Hopkins University;|Indian Institute of Technology
http://dx.doi.org/10.1101/063636 2016-07-13 Genetics CC BY-NC-ND Molecular genetic aetiology of general cognitive function is enriched in evolutionarily conserved regions Gail Davies|Sarah E Harris|Saskia P Hagenaars|David Liewald|Lars Penke|Catherine R Gale|Ian Deary University of Edinburgh;|Georg August University Gottingen
http://dx.doi.org/10.1101/063727 2016-07-13 Genomics A massively parallel strategy for STR marker development, capture, and genotyping Logan Kistler|Stephen M Johnson|Mitchell T Irwin|Edward E Louis|Aakrosh Ratan|George H Perry School of Life Sciences, University of Warwick;|Departments of Anthropology and Biology, Pennsylvania State University;|Department of Anthropology, Northern Illinois University;|Center for Conservation and Research, Omaha's Henry Doorly Zoo and Aquarium;|Department of Public Health Sciences and Center for Public Health Genomics, University of Virginia
http://dx.doi.org/10.1101/063651 2016-07-13 Genetics CC BY Sex differences in disease genetics William Gilks University of Sussex
http://dx.doi.org/10.1101/063602 2016-07-13 Immunology Persistent activation of interlinked Th2-airway epithelial gene networks in sputum-derived cells from aeroallergen-sensitized symptomatic atopic asthmatics Anya C Jones|Niamh M Troy|Elisha White|Elysia M Hollams|Alexander M Gout|Kak-Ming Ling|Anthony Kicic|Peter D Sly|Patrick G Holt|Graham L Hall|Anthony Bosco Telethon Kids Institute, The University of Western Australia, Perth, Australia;|Child Health Research Centre, The University of Queensland, Brisbane, Australia
http://dx.doi.org/10.1101/063701 2016-07-13 Zoology Changeover from signalling to energy-provisioning lipids during transition from colostrum to mature milk in the giant panda (Ailuropoda melanoleuca) Tong Zhang|David G. Watson|Rong Zhang|Rong Hou|Kati Loeffler|Malcolm W. Kennedy University of Strathclyde;|Chengdu Research Base of Giant Panda Breeding;|University of Glasgow
http://dx.doi.org/10.1101/063669 2016-07-13 Cell Biology R-spondin1 regulates muscle progenitor cell fusion through control of antagonist Wnt signaling pathways Floriane Lacour|Elsa Vezin|Florian Bentzinger|Marie-Claude Sincennes|Michael A Rudnicki|Robert D Mitchell|Ketan Patel|Marie-Christine Chaboissier|Anne-Amandine Chassot|Fabien Le Grand Universite Pierre et Marie Curie;|Nestle Institute of Health Sciences;|Ottawa Hospital Research Institute;|University of Reading;|Universite de Nice-Sophia Antipolis
http://dx.doi.org/10.1101/063677 2016-07-13 Developmental Biology A correlation between Long noncoding RNA and unpaired DNA silencing in Drosophila Utpal Bhadra|Manika Pal Bhadra|Indira Bag|Sreerangam NCVL Pusphavalli|Avadhesha Surolia Centre for Cellular & Molecular Biology;|Indian Institute of Chemical Technology;|Indian Institute of Science
http://dx.doi.org/10.1101/063719 2016-07-13 Neuroscience CC BY-NC-ND Beyond spike-timing-dependent plasticity: a computational study of plasticity gradients across basal dendrites. Jacopo Bono|Claudia Clopath Imperial College London
http://dx.doi.org/10.1101/063495 2016-07-13 Biochemistry CC BY Structural characterization of encapsulated ferritin provides insight into iron storage in bacterial nanocompartments Didi He|Sam Hughes|Sally Vanden-Hehir|Atanas Georgiev|Kirsten Altenbach|Emma Tarrant|C Logan Mackay|Kevin J Waldron|David J Clarke|Jon Marles-Wright The University of Edinburgh;|Newcastle University
http://dx.doi.org/10.1101/063859 2016-07-14 Evolutionary Biology CC BY Colonization and diversification of aquatic insects on three Macaronesian archipelagos using 59 nuclear loci derived from a draft genome Sereina Rutschmann|Harald Detering|Sabrina Simon|David H Funk|Jean-Luc Gattolliat|Samantha J Hughes|Pedro M Raposeiro|Rob DeSalle|Michel Sartori|Michael T Monaghan University of Vigo;|Wageningen University;|Stroud Water Research Center;|Musee cantonal de zoologie;|Universidade de Tras-os-Montes e Alto Douro;|University of Azores;|American Museum of Natural History;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB)
http://dx.doi.org/10.1101/063891 2016-07-14 Ecology CC BY Distance Sampling in R David Lawrence Miller|Eric Rexstad|Len Thomas|Laura Marshall|Jeffrey Laake University of St Andrews;|Marine Mammal Laboratory
http://dx.doi.org/10.1101/063867 2016-07-14 Neuroscience CC BY-NC-ND The Missing Link: Predicting Connectomes from Noisy and Partially Observed Tract Tracing Data Max Hinne|Annet Meijers|Rembrandt Bakker|Paul H.E. Tiesinga|Morten Mrup|Marcel A.J. van Gerven Radboud University;|Institute of Neuroscience and Medicine (INM-6) and Institute for Advanced Simulation (IAS-6);|Denmark Technical University
http://dx.doi.org/10.1101/063875 2016-07-14 Bioinformatics CC BY-ND Multi-rate Poisson Tree Processes for single-locus species delimitation under Maximum Likelihood and Markov Chain Monte Carlo. Paschalia Kapli|Sarah Lutteropp|Jiajie Zhang|Kassian Kobert|Pavlos Pavlidis|Alexandros Stamatakis|Tomas Flouri Heidelberg Institute for Theoretical Studies;|Institute of Molecular Biology and Biotechnology, Heraklion, Crete;|HITS gGmbH
http://dx.doi.org/10.1101/063818 2016-07-14 Microbiology CC BY Recent Outbreaks of Shigellosis in California Caused by Two Distinct Populations of Shigella sonnei With Increased Virulence or Fluoroquinolone Resistance Varvara K. Kozyreva|Guillaume Jospin|Alex Greninger|James P. Watt|Jonathan A. Eisen|Vishnu Chaturvedi California Department of Public Health;|University of California, Davis;|University of Washington;|Univ. of California Davis
http://dx.doi.org/10.1101/063883 2016-07-14 Genomics CC BY-NC Age-dependent changes in mean and variance of gene expression across tissues in a twin cohort Ana Vinuela|Andrew Anand Brown|Alfonso Buil|Pei-Chien Tsai|Matthew N Davies|Jordana Tzenova Bell|Emmanouil Dermitzakis|Timothy Spector|Kerrin Small University of Geneva;|King's College London;|Geneva Medical School
http://dx.doi.org/10.1101/063776 2016-07-14 Biophysics CC BY-NC Biophysical assay for tethered signaling reactions reveals tether-controlled activity for the phosphatase SHP-1 Jesse Goyette|Citlali Solis Salas|Nicola Coker Gordon|Marcus Bridge|Samuel I Isaacson|Jun Allard|Omer Dushek University of Oxford;|Boston University;|University of California, Irvine
http://dx.doi.org/10.1101/063792 2016-07-14 Genomics CC BY-NC-ND The queenslandensis and the type form of the dengue fever mosquito (Aedes aegypti L.) are genomically indistinguishable Gordana Rasic|Igor Filipovic|Ashley G Callahan|Darren Stanford|Abigail Chan|Sai Gek Lam-Phua|Cheong Huat Tan|Ary Anthony Hoffmann Bio21 Institute, School of BioSciences, The University of Melbourne;|Institute of Vector Borne Disease, Monash University, Australia;|Environmental Health Institute, National Environment Agency, Singapore
http://dx.doi.org/10.1101/063784 2016-07-14 Developmental Biology Precision of readout at the hunchback gene Jonathan Desponds|Huy Tran|Teresa Ferraro|Tanguy Lucas|Carmina Perez Romero|Aurelien Guillou|Cecile Fradin|Mathieu Coppey|Nathalie Dostatni|Aleksandra M Walczak Ecole normale superieure;|Institut Curie
http://dx.doi.org/10.1101/063800 2016-07-14 Synthetic Biology CC BY Measurements of translation initiation from all 64 codons in E. coli Ariel Hecht|Jeff Glasgow|Paul R. Jaschke|Lukmaan Bawazer|Matthew S. Munson|Jennifer Cochran|Drew Endy|Marc Salit NIST/JIMB;|NIST-JIMB;|Macquarie University;|Stanford University
http://dx.doi.org/10.1101/063487 2016-07-14 Evolutionary Biology Killing by Type VI secretion drives clonal phase separation and the evolution of cooperation Luke McNally|Eryn Bernardy|Jacob Thomas|Arben Kalziqi|Jennifer T Pentz|Sam Brown|Brian Hammer|Peter Yunker|William Ratcliff University of Edinburgh;|Georgia Institute of Technology
http://dx.doi.org/10.1101/064196 2016-07-16 Molecular Biology Functional genetic characterization by CRISPR-Cas9 of two enhancers of FOXP2 in a child with speech and language impairment Raul Torres-Ruiz|Antonio Benitez-Burraco|Marta Martinez-Lage|Sandra Rodriguez-Perales|Paloma Garcia-Bellido CNIO;|University of Huelva;|University of Oxford
http://dx.doi.org/10.1101/064287 2016-07-16 Neuroscience CC BY-NC-ND Revealing neuro-computational mechanisms of reinforcement learning and decision-making with the hBayesDM package Woo-Young Ahn|Nathaniel Haines|Lei Zhang The Ohio State University;|Institute for Systems Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg, Germany
http://dx.doi.org/10.1101/064246 2016-07-15 Biophysics Transport efficiency of membrane-anchored kinesin-1 motors depends on motor density and diffusivity Stefan Diez|Rahul Grover|Janine Fischer|Friedrich Schwarz|Wilhelm J Walter|Petra Schwille Technische Universitaet Dresden;|Universitaet Hamburg;|MPI Martinsried
http://dx.doi.org/10.1101/064238 2016-07-15 Evolutionary Biology CC BY-NC-ND A hidden Markov model approach for simultaneously estimating local ancestry and admixture time using next generation sequence data in samples of arbitrary ploidy Russell Corbett-Detig|Rasmus Nielsen UC Santa Cruz;|UC Berkeley
http://dx.doi.org/10.1101/064022 2016-07-15 Microbiology CC BY-NC-ND Comparative phylogenetic analysis of bacterial associates in Pyrrhocoroidea and evidence for ancient and persistent environmental symbiont reacquisition in Largidae (Hemiptera: Heteroptera). Eric Robert Lucien Gordon|Quinn S McFrederick|Christiane Weirauch University of California - Riverside
http://dx.doi.org/10.1101/064220 2016-07-15 Evolutionary Biology CC BY Nonadaptive Radiation: Pervasive diet specialization by drift in scale insects? Nate B Hardy|Daniel A Peterson|Benjamin B Normark Auburn University;|University of Massachusetts
http://dx.doi.org/10.1101/064188 2016-07-15 Biophysics Antibody-Based Affinity Cryo-Electron Microscopy at 2.6 Å Resolution Guimei Yu|Kunpeng Li|Pengwei Huang|Xi Jiang|Wen Jiang Purdue University;|Divisions of Infectious Diseases, Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA
http://dx.doi.org/10.1101/064139 2016-07-15 Bioinformatics CC BY-ND An Empirical Biomarker-based Calculator for Autosomal Recessive Polycystic Kidney Disease The Nieto-Narayan Formula Jake A Nieto|Itzhak D. Goldberg|Prakash Narayan Angion Biomedica Corp.
http://dx.doi.org/10.1101/064113 2016-07-15 Bioinformatics CC BY-NC Influence of rotational nucleosome positioning on transcription start site selection in animals promoters Rene Dreos|Giovanna Ambrosini|Philipp Bucher EPFL
http://dx.doi.org/10.1101/063461 2016-07-15 Ecology CC BY-NC-ND The Forest, the Trees, and the Phylo-diversity Jungle Florent Mazel|Caroline Tucker|Marc Cadotte|Silvia Carvalho|Jonathan Davies|Suzanne Fritz|Rich Grenyer|Matthew Helmus|Arne Mooers|Sandrine Pavoine|Oliver Purschke|Dan Rosauer|Marten Winter Grenoble Alpes University;|2 Centre Ecologie Fonctionnelle et Evolutive;|University of Toronto-Scarborough;|Universidade do Porto;|McGill University;|Senckenberg Biodiversity & Climate Research Centre;|School of Geography and the Environment, University of Oxford;|Vrije Universiteit;|Simon Fraser University;|Museum National Histoire Naturelle de Paris;|German Centre of Integrative Biodiversity Research, Halle-Jena-Leipzig;|18Research School of Biology, Australian National University
http://dx.doi.org/10.1101/064170 2016-07-15 Systems Biology CC BY Accelerating computational Bayesian inference for stochastic biochemical reaction network models using multilevel Monte Carlo sampling David J Warne|Ruth E Baker|Matthew J Simpson Queensland Univeristy of Technology;|University of Oxford
http://dx.doi.org/10.1101/062174 2016-07-15 Plant Biology CC BY 3D sorghum reconstructions from depth images enable identification of quantitative trait loci regulating shoot architecture Ryan F. McCormick|Sandra K. Truong|John E. Mullet Texas A&M University
http://dx.doi.org/10.1101/064212 2016-07-15 Neuroscience CC BY-NC-ND Is the Statistic Value All We Should Care about in Neuroimaging? Gang Chen|Paul A Taylor|Robert W Cox National Institutes of Health
http://dx.doi.org/10.1101/064030 2016-07-15 Evolutionary Biology CC BY Single cell transcriptomics, mega-phylogeny and the genetic basis of morphological innovations in Rhizaria Anders K Krabberoed|Russell J. S. Orr|Jon Braate|Tom Kristensen|Kjell R. Bjoerklund|Kamran Shalchian-Tabrizi Centre for Epigenetics, Development and Evolution (CEDE), University of Oslo, Norway;|Centre for Integrative Microbial Evolution, University of Oslo, Norway
http://dx.doi.org/10.1101/064121 2016-07-15 Systems Biology Metabolic complementation in bacterial communities: necessary conditions and optimality Matteo Mori|Miguel Ponce-de-Leon|Juli Pereto|Francisco Montero Montero Department of Physics, University of California at San Diego, La Jolla, CA, USA;|Departamento de Bioquimica y Biologia Molecular I, Facultad de Ciencias Quimicas, UCM, Madrid, Spain;|Institute for Integrative Systems Biology (I2SysBio), Universitat de Valencia-CSIC, Valencia, Spain
http://dx.doi.org/10.1101/063941 2016-07-15 Bioinformatics MIGS: Methylation Interpolated Gene Signatures Determine Associations Between Differential Methylation and Gene Expression Christopher E Schlosberg|Nathan D VanderKraats|John R Edwards Washington University in St. Louis;|Washington University in Saint Louis
http://dx.doi.org/10.1101/062596 2016-07-15 Biochemistry CC BY-NC-ND Zika virus may not be alone: proteomics associates a bovine-like viral diarrhea virus to microcephaly Fabio CS Nogueira|Erika Velasquez|Adriana SO Melo|Gilberto B Domont Institute of Chemistry, Federal University of Rio de Janeiro;|Instituto Paraibano de Pesquisa Professor de Pesquisa Joaquim Amorim Neto (IPESQ)
http://dx.doi.org/10.1101/064089 2016-07-15 Biophysics CC BY-NC-ND The Influence of Canalization on the Robustness of Boolean Networks Claus Kadelka|Jack Kuipers|Reinhard Laubenbacher University of Zurich;|D-BSSE, ETH Zurich;|Center for Quantitative Medicine, University of Connecticut Health Center
http://dx.doi.org/10.1101/064006 2016-07-15 Bioinformatics CC BY-NC-ND Falco: A quick and flexible single-cell RNA-seq processing framework on the cloud Andrian Yang|Michael Troup|Joshua W.K. Ho Victor Chang Cardiac Research Institute
http://dx.doi.org/10.1101/063735 2016-07-15 Ecology Temperature determines Zika, dengue and chikungunya transmission potential in the Americas Erin Mordecai|Jeremy Cohen|Michelle V Evans|Prithvi Gudapati|Leah R Johnson|Kerri Miazgowicz|Courtney C Murdock|Jason R Rohr|Sadie J Ryan|Van Savage|Marta Shocket|Anna Stewart Ibarra|Matthew B Thomas|Daniel P Weikel Stanford University;|University of South Florida;|University of Georgia;|University of Florida;|UCLA;|Indiana University;|SUNY Upstate Medical University;|Penn State University;|University of Michigan
http://dx.doi.org/10.1101/064105 2016-07-15 Neuroscience CC BY-NC-ND Neural signatures of value comparison in human cingulate cortex during decisions requiring an effort-reward trade-off Miriam C Klein-Flugge|Steven W Kennerley|Karl Friston|Sven Bestmann Oxford University;|University College London
http://dx.doi.org/10.1101/063909 2016-07-15 Biochemistry The metabolic profile of lag and exponential phases of Saccharomyces cerevisiae growth changes continuously Rafael N. Bento|Miguel A. Rendas|Valdir A.R. Semedo|Carlos E.S. Bernardes|Manuel E.M. Piedade|Fernando Antunes Centro de Quimica e Bioquimica, Departamento de Quimica e Bioquimica, FCUL
http://dx.doi.org/10.1101/064329 2016-07-17 Bioinformatics Assessment of single cell RNA-seq normalization methods Bo Ding|Lina Zheng|Wei Wang University of California, San Diego
http://dx.doi.org/10.1101/064345 2016-07-17 Neuroscience CC BY-NC-ND Specific effect of dopamine partial agonist on counterfactual learning: evidence from Gilles de la Tourette syndrome Alexandre Salvador|Yulia Worbe|Cecile Delorme|Giorgio Coricelli|Raphael Gaillard|Trevor W Robbins|Andreas Hartmann|Stefano Palminteri Laboratoire de Neurosciences Cognitives, Ecole Normale Superieure, Paris, FR;|Institut du Cerveau et de la Moelle epiniere, Hopital de la Pitie-Salpetriere, Paris, FR;|Departement of Economics, University of Southern California, USA;|Centre de Psychiatrie et Neuroscience, Hopital Sainte Anne, Paris, FR;|Behavioural and Clinical Neuroscience Inistitute, Cambridge, UK
http://dx.doi.org/10.1101/063529 2016-07-17 Biophysics The mitotic spindle in the one-cell C. elegans embryo is positioned with high precision and stability Jacques Pecreaux|Stephanie Redemann|Zahraa Alayan|Benjamin Mercat|Sylvain Pastezeur|Carlos Garzon Coral|Anthony A Hyman|Jonathon Howard IGDR UMR 6290 CNRS / Univ. Rennes 1;|Medizinisch Theoretisches Zentrum (MTZ), Technical University of Dresden;|MPI-CBG, Desden;|Department of Molecular Biophysics & Biochemistry, Yale University
http://dx.doi.org/10.1101/064303 2016-07-17 Neuroscience Comparison of semi-automated hippocampal subfield segmentation methods in a pediatric sample Margaret L Schlichting|Michael L Mack|Katharine F Guarino|Alison R Preston The University of Texas at Austin
http://dx.doi.org/10.1101/063990 2016-07-17 Genomics CC BY Stable C. elegans chromatin domains separate broadly expressed and developmentally regulated genes Kenneth J Evans|Ni Huang|Przemyslaw Stempor|Michael A Chesney|Thomas A Down|Julie Ahringer University of Cambridge
http://dx.doi.org/10.1101/064279 2016-07-17 Pathology CC BY-NC-ND H&E-stained Whole Slide Deep Learning Predicts SPOP Mutation State in Prostate Cancer Andrew J Schaumberg|Mark A Rubin|Thomas J Fuchs Weill Cornell Graduate School of Medical Sciences;|Weill Cornell Medical College;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/064295 2016-07-17 Neuroscience CC BY-NC-ND Bayesian model reveals latent atrophy factors with dissociable cognitive trajectories in Alzheimer's disease Xiuming Zhang|Elizabeth Mormino|Nanbo Sun|Reisa Sperling|Mert Sabuncu|B.T. Thomas Yeo National University of Singapore;|Harvard Medical School
http://dx.doi.org/10.1101/064519 2016-07-18 Genetics CC BY-NC-ND Local chromosome context is a major determinant of crossover pathway biochemistry during budding yeast meiosis Darpan Medhi|Alastair S.H. Goldman|Michael Lichten National Cancer Institute;|The University of Sheffield
http://dx.doi.org/10.1101/064543 2016-07-18 Ecology CC BY-ND Resource ratios determine nutrient limitation of primary productivity in the ocean George Isaac Hagstrom|Simon A Levin|Adam Martiny Princeton University;|University of California at Irvine
http://dx.doi.org/10.1101/064527 2016-07-18 Biochemistry CC BY-ND The Origin of Coupled Chloride and Proton Transport in a Cl-/H+ Antiporter Sangyun Lee|Heather B. Mayes|Jessica M. J. Swanson|Gregory A Voth University of Chicago
http://dx.doi.org/10.1101/064493 2016-07-18 Evolutionary Biology CC BY-NC-ND Theoretical and Empirical Support for Bilateral Decrementation Idan Solon University of Central Florida
http://dx.doi.org/10.1101/064485 2016-07-18 Neuroscience Neuronal control of the fingertips is socially configured in touchscreen smartphone users Arko Ghosh|Myriam Balerna Institute of Neuroinformatics, University of Zurich and ETH
http://dx.doi.org/10.1101/064428 2016-07-18 Genomics The haplotype-resolved genome sequence of hexaploid Ipomoea batatas reveals its evolutionary history Jun Yang|M-Hossein Moeinzadeh|Heiner Kuhl|Johannes Helmuth|Peng Xiao|Guiling Liu|Jianli Zheng|Zhe Sun|Weijuan Fan|Gaifang Deng|Hongxia Wang|Fenhong Hu|Alisdair R Fernie|Bernd Timmermann|Peng Zhang|Martin Vingron Shanghai Chenshan Plant Science Research Center;|Max Planck Institute for Molecular Genetics, Department of Computational Molecular Biology;|Max Planck Institute for Molecular Genetics, Sequencing Core Facility;|Max Planck Institute for Molecular Genetics, Otto-Warburg-Laboratory:Computational Epigenomics Group;|Tai'an Academy of Agricultural Sciences;|Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;|Department of Molecular Physiology, Max Planck Institute of Molecular Plant Physiology;|Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences
http://dx.doi.org/10.1101/064444 2016-07-18 Genetics CC BY-NC-ND Y chromosome and mitochondrial DNA haplogroups across behavioural traits in children from the general population Laurence J Howe|Mesut Erzurumluoglu|George Davey-Smith|Santiago Rodriguez|Evie Stergiakouli University of Bristol;|University of Leicester
http://dx.doi.org/10.1101/064469 2016-07-18 Bioinformatics CC BY Calculating biological module enrichment or depletion and visualizing data on large-scale molecular maps with ACSNMineR and RNaviCell R packages Paul Devau|Emmanuel Barillot|Valentina Boeva|Andrei Zinovyev|Eric Bonnet Institut Curie;|Centre National de Genotypage
http://dx.doi.org/10.1101/064477 2016-07-18 Systems Biology The Strehler-Mildvan correlation is nothing but a fitting artifact Andrei E. Tarkhov|Leonid I. Menshikov|Peter O. Fedichev Gero LLC
http://dx.doi.org/10.1101/064410 2016-07-18 Microbiology CC BY-NC-ND MICROWAVE MUTAGENESIS OF BREVIBACILLUS PARABREVIS FOR ENHANCED CELLULASE PRODUCTION, AND INVESTIGATION ON THERMOSTABILITY OF THIS CELLULASE Pinakin Khambhala|Purva Paliwal|Vijay Kothari Nirma University;|NIrma University
http://dx.doi.org/10.1101/064436 2016-07-18 Bioinformatics FEELnc: A tool for Long non-coding RNAs annotation and its application to the dog transcriptome Valentin Wucher|Fabrice Legeai|Benoit Hedan|Guillaume Rizk|Laetitia Lagoutte|Tosso Leeb|Vidhya Jagannathan|Edouard Cadieu|Audrey David|Hannes Lohi|Susanna Cirera|Merete Fredholm|Nadine Botherel|Peter Leegwater|Celine Le Beguec|Hille Fieten|Cecilia Johansson|Jeremy Johnsson|Jessica Alifoldi|Catherine Andre|Kerstin Lindblad-Toh|Christophe Hitte|Thomas Derrien CNRS - University of Rennes1;|INRA;|INRIA;|Vetsuisse Faculty - University of Bern;|Department of Veterinary Biosciences and Research Programs Unit, University of Helskinki;|Department of Veterinary Clinical and Animal Sciences, University of Copenhagen;|Department of Clinical Sciences of Companion Animals, Faculty of Veterinary Medicine, Utrecht Univ;|Science for Life Laboratory, Department of Medical Biochemistry and Microbiology, Uppsala University;|Broad Institute of MIT and Harvard;|Broad Institute of MIT and Harvard, Uppsala University
http://dx.doi.org/10.1101/064204 2016-07-18 Neuroscience CC BY-NC-ND Effects of tDCS on motor learning and memory formation: a consensus and critical position paper Ethan R Buch|Emiliano Santarnecchi|Andrea Antal|Jan Born|Pablo A Celnik|Joseph Classen|Christian Gerloff|Mark Hallett|Friedhelm C Hummel|Michael A Nitsche|Alvaro Pascual-Leone|Walter J Paulus|Janine Reis|Edwin M Robertson|John C Rothwell|Marco Sandrini|Heidi M Schambra|Eric M Wassermann|Ulf Ziemann|Leonardo G Cohen National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD;|Harvard Medical School, Boston, MA;|Georg-August University, Gottingen, Germany;|University of Tuebingen, Tuebingen, Germany;|Johns Hopkins Medical Institution, Baltimore, MD;|University of Leipzig, Leipzig, Germany;|University Medical Center Hamburg-Eppendorf Martinistr, Hamburg, Germany;|Leibniz Research Center for Working Environment and Human Factors (IfADo), Dortmund, Germany;|Albert Ludwigs University, Freiburg, Germany;|University of Glasgow, Glasgow, UK;|14.UCL Institute of Neurology, Queen Square, London, UK;|University of Roehampton, London, UK;|Columbia University, New York, NY;|Eberhard Karls University, Tuebingen, Germany
http://dx.doi.org/10.1101/064394 2016-07-18 Microbiology CC BY Impact of Sample Type and DNA Isolation Procedure on Genomic Inference of Microbiome Composition Berith E Knudsen|Lasse Bergmark|Patrick Munk|Oksana Lukjancenko|Anders Prieme|Frank M Aarestrup|Sunje Johanna Pamp Technical University of Denmark;|University of Copenhagen
http://dx.doi.org/10.1101/064337 2016-07-18 Neuroscience A Multi-Scale Computational Model of the effects of TMS on Motor Cortex Hyeon Seo|Natalie Schaworonkow|Sung Chan Jun|Jochen Triesch Gwangju Institute of Science and Technology;|Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/064147 2016-07-18 Neuroscience CC BY-NC-ND Functional Cliques in Developmentally Correlated Neural Networks Stefano Luccioli|Ari Barzilai|Eshel Ben-Jacob|Paolo Bonifazi|Alessandro Torcini CNR, Italy;|Tel Aviv University;|BioCruces Health Research Institute, Barakaldo, Spain;|Aix Marseille Université
http://dx.doi.org/10.1101/064352 2016-07-18 Genomics CC BY-NC-ND Single-molecule sequencing and conformational capture enable de novo mammalian reference genomes Derek M Bickhart|Benjamin D Rosen|Sergey Koren|Brian L Sayre|Alex R Hastie|Saki Chan|Joyce Lee|Ernest T Lam|Ivan Liachko|Shawn T Sullivan|Joshua N Burton|Heather J Huson|Christy M Kelley|Jana L Hutchison|Yang Zhou|Jiajie Sun|Alessandra Crisa|F. Abel Ponce de Leon|John C Schwartz|John A Hammond|Geoffrey C Waldbieser|Steven G Schroeder|George E Liu|Maitreya J Dunham|Jay Shendure|Tad S Sonstegard|Adam M Phillippy|Curtis P Van Tassell|Timothy P.L. Smith USDA ARS AGIL;|National Human Genome Research Institute;|Department of Biology, Virginia State University;|BioNano Genomics;|Department of Genome Sciences, University of Washington School of Medicine;|Phase Genomics;|Department of Animal Science, Cornell University;|USDA ARS MARC;|Department of Animal Science, Northwest A&F University;|South China Agricultural University;|CRA Agricultural Research Council, Research Centre for Meat Production and Genetic Improvement;|Department of Animal Science, University of Minnesota;|Livestock Viral Disease Programme, The Pirbright Institute;|USDA ARS WARU;|Recombinetics
http://dx.doi.org/10.1101/064311 2016-07-18 Evolutionary Biology CC BY-ND Transition from environmental to partial genetic sex determination in Daphnia through the evolution of a female-determining incipient W-chromosome Celine M. O. Reisser|Dominique Fasel|Evelyn Hurlimann|Marinela Dukic|Cathy Haag-Liautard|Virginie Thuillier|Yann Galimov|Christoph R Haag IFREMER, Centre du Pacifique;|Universite de Fribourg;|Universitat Basel;|Koltsov Institute of Developmental Biology;|CEFE CNRS UMR 5175
http://dx.doi.org/10.1101/064360 2016-07-18 Biochemistry Architecture of a lipid transport system for the bacterial outer membrane Damian C Ekiert|Gira Bhabha|Garrett Greenan|Sergey Ovchinnikov|Jeffery S Cox|Ronald D Vale The University of California, San Francisco;|University of Washington;|The University of California, Berkeley
http://dx.doi.org/10.1101/062026 2016-07-18 Genomics CC BY Editing of the urease gene by CRISPR-Cas in the diatom Thalassiosira pseudonana Amanda Hopes|Vladimir Nekrasov|Sophien Kamoun|Thomas Mock University of East Anglia;|The Sainsbury Laboratory
http://dx.doi.org/10.1101/064832 2016-07-19 Cell Biology CC BY-NC-ND An aging-independent replicative lifespan in a symmetrically dividing eukaryote Eric C. Spivey|Stephen K. Jones|James R. Rybarski|Fatema A. Saifuddin|Ilya J. Finkelstein University of Texas at Austin
http://dx.doi.org/10.1101/064840 2016-07-19 Genomics CC BY-ND SMRT Genome Assembly Corrects Reference Errors, Resolving the Genetic Basis of Virulence in Mycobacterium tuberculosis Afif Elghraoui|Samuel J Modlin|Faramarz Valafar San Diego State University
http://dx.doi.org/10.1101/064535 2016-07-19 Genomics CC BY-NC-ND A scored human protein-protein interaction network to catalyze genomic interpretation Taibo Li|Rasmus Wernersson|Rasmus Borup Hansen|Heiko Horn|Johnathan M Mercer|Greg Slodkowicz|Christopher Workman|Olga Regina|Kristoffer Rapacki|Hans-Henrik Staerfeldt|Soren Brunak|Thomas S Jensen|Kasper Lage MIT, Broad Institute, Mass General Hospital;|Intomics, Technical University of Denmark;|Intomics;|Massachusetts General Hospital, Broad Institute;|Broad Institute, Mass General Hospital;|Technical University of Denmark, EMBL;|Technical University of Denmark;|University of Copenhagen;|Harvard, Broad Institute, Mass General Hospital
http://dx.doi.org/10.1101/064626 2016-07-19 Bioinformatics CC BY-NC-ND Whose sample is it anyway? Widespread misannotation of samples in transcriptomics studies Lilah Toker|Min Feng|Paul Pavlidis University of British Columbia
http://dx.doi.org/10.1101/064618 2016-07-19 Evolutionary Biology CC BY Towards robust evolutionary inference with integral projection models Maria Joao Janeiro|Marco Festa-Bianchet|Fanie Pelletier|David W Coltman|Michael B Morrissey University of St Andrews/Universidade de Aveiro;|Universite de Sherbrooke;|University of Alberta;|University of St Andrews
http://dx.doi.org/10.1101/063610 2016-07-19 Genomics CC BY-NC-ND A clonally reproducing generalist aphid pest colonises diverse host plants by rapid transcriptional plasticity of duplicated gene clusters Thomas C Mathers|Yazhou Chen|Gemy Kaithakottil|Fabrice Legeai|Sam T Mugford|Patrice Baa-Puyoulet|Anthony Bretaudeau|Bernardo Clavijo|Stefano Colella|Olivier Collin|Tamas Dalmay|Thomas Derrien|Honglin Feng|Toni Gabaldon|Anna Jordan|Irene Julca|Graeme J Kettles|Krissana Kowitwanich|Dominique Lavenier|Paolo Lenzi|Sara Lopez-Gomollon|Damian Loska|Daniel Mapleson|Florian Maumus|Simon Moxon|Daniel R G Price|Akiko Sugio|Manuella van Munster|Marilyne Uzest|Darren Waite|Georg Jander|Denis Tagu|Alex C C Wilson|Cock van Oosterhout|David Swarbreck|Saskia A Hogenhout Earlham Institute;|John Innes Centre;|Institute of Genetics Environment and Plant Protection;|INSA-Lyon;|IRISA/INRIA;|University of East Anglia;|Institut de Génétique et Developpement de Rennes;|University of Miami;|Centre for Genomic Regulation;|Unité de Recherche Génomique-Info;|UMR BGPI;|Boyce Thompson Institute for Plant Research;|Jaohn Innes Centre
http://dx.doi.org/10.1101/064675 2016-07-19 Bioinformatics CC BY-NC-ND Resolution and reconciliation of non-binary gene trees with transfers, duplications and losses Edwin Jacox|Mathias Weller|Eric Tannier|Celine Scornavacca ISE-M, Université Montpellier;|LIRMM, Université Montpellier;|INRIA Rhône-Alpes, LBBE, Université Lyon 1;|ISE-M, niversity Montpellier, CNRS
http://dx.doi.org/10.1101/064667 2016-07-19 Genomics CC BY-NC-ND Genome Urbanization: Gene localization, spacing and direction of transcription in S. cerevisiae are constrained by DNA topological tension. Maria Tsochatzidou|Maria Malliarou|Joaquim Roca|Christoforos Nikolaou Computational Genomics Group, Department of Biology, University of Crete, Heraklion, Greece;|Molecular Biology Institute of Barcelona (IBMB), Spanish National Research Council (CSIC), Barcelona
http://dx.doi.org/10.1101/064741 2016-07-19 Neuroscience CC BY-NC-ND A causal role for right frontopolar cortex in directed, but not random, exploration. Wojciech K. Zajkowski|Robert C. Wilson|Malgorzata Kossut University of Social Psychology and Humanities;|Arizona University;|Nencki Institute
http://dx.doi.org/10.1101/064790 2016-07-19 Plant Biology Beyond APs and VPs: evidences of chaos and self-organized criticality in electrical signals in plants. Gustavo Maia Souza|Gustavo Francisco Rosalim Saraiva|Arlan Silva Ferreira Federal University of Pelotas;|Universidade do Oeste Paulista
http://dx.doi.org/10.1101/064733 2016-07-19 Bioinformatics CC BY KAT: A K-mer Analysis Toolkit to quality control NGS datasets and genome assemblies Daniel Mapleson|Gonzalo Garcia Accinelli|George Kettleborough|Jonathan Wright|Bernardo Clavijo Earlham Institute
http://dx.doi.org/10.1101/064808 2016-07-19 Genetics CC BY-NC Ethological principles predict the neuropeptides co-opted to influence parenting. Christopher B Cunningham|Majors J Badgett|Richard B Meagher|Ron Orlando|Allen J Moore University of Georgia
http://dx.doi.org/10.1101/064758 2016-07-19 Genomics Genetic loci associated with coronary artery disease harbor evidence of selection and antagonistic pleiotropy Sean G Byars|Qinqin Huang|Lesley-Ann Gray|Samuli Ripatti|Gad Abraham|Stephen C Stearns|Michael Inouye Centre for Systems Genomics, School of BioSciences, The University of Melbourne;|National Institute for Health and Welfare, Helsinki, Finland;|Department of Ecology and Evolutionary Biology, Yale University
http://dx.doi.org/10.1101/064683 2016-07-19 Genomics CC BY-NC-ND Maternal immune activation dysregulation of the fetal brain transcriptome and relevance to the pathophysiology of autism spectrum disorder Michael V Lombardo|Hyang Mi Moon|Jennifer Su|Theo D Palmer|Eric Courchesne|Tiziano Pramparo University of Cyprus;|Stanford University;|University of California, San Diego
http://dx.doi.org/10.1101/064766 2016-07-19 Cell Biology CC BY-NC-ND Identification of a novel putative interaction partner of the nucleoporin ALADIN Ramona Juhlen|Dana Landgraf|Angela Huebner|Katrin Koehler Technische Universität Dresden
http://dx.doi.org/10.1101/064592 2016-07-19 Neuroscience Divisive suppression explains high-precision firing and contrast adaptation in retinal ganglion cells Yuwei Cui|Yanbin V. Wang|Silvia J. H. Park|Jonathan B. Demb|Daniel A. Butts University of Maryland;|Yale University
http://dx.doi.org/10.1101/064717 2016-07-19 Neuroscience CC BY-NC-ND The population tracking model: A simple, scalable statistical model for neural population data Cian O'Donnell|J Tiago Goncalves|Nick Whiteley|Carlos Portera-Cailliau|Terrence J Sejnowski University of Bristol;|Salk Institute for Biological Studies;|University of California, Los Angeles
http://dx.doi.org/10.1101/064451 2016-07-19 Bioinformatics CC BY CLIMB (the Cloud Infrastructure for Microbial Bioinformatics): an online resource for the medical microbiology community Thomas Richard Connor|Nicholas James Loman|Simon Thompson|Andy Smith|Joel Southgate|Radoslaw Poplawski|Matthew J Bull|Emily Richardson|Matthew Ismail|Simon Elwood-Thompson|Christine Kitchen|Martyn Guest|Marius Bakke|Sam K Sheppard|Mark J Pallen Cardiff University;|University of Birmingham;|University of Warwick;|Swansea University;|University of Bath
http://dx.doi.org/10.1101/064691 2016-07-19 Genomics CC BY-NC-ND Relaxed selection during a recent human expansion Stephan Peischl|Isabelle Dupanloup|Adrien Foucal|Michele Jomphe|Vanessa Bruat|Jean-Cristophe Grenier|Alexandre Gouy|Elias Gbeha|Lars Bosshard|Elodie Hip-Ki|Mawusse Agbessi|Alan Hodgkinson|Helene Vezina|Philip Awadalla|Laurent Excoffier University of Berne;|University of Quebec at Chicoutimi;|University of Montreal;|King's College London;|University of Bern
http://dx.doi.org/10.1101/064949 2016-07-20 Epidemiology CC BY-NC-ND Structure in the variability of the basic reproductive number (R0) for Zika epidemics in the Pacific islands Clara Champagne|David G Salthouse|Richard Paul|Van-Mai Cao-Lormeau|Benjamin Roche|Bernard Cazelles IBENS, CREST;|IBENS;|Institut Pasteur, CNRS;|Institut Louis Malardé|UPMC/IRD;|IBENS, UPMC/IRD
http://dx.doi.org/10.1101/064873 2016-07-20 Evolutionary Biology CC BY-NC-ND On phylogenetic branch lengths distribution and the late acquistion of mitochondria. Alexandros A. Pittis|Toni Gabaldon CRG
http://dx.doi.org/10.1101/064774 2016-07-20 Ecology A cascade of destabilizations: combining Wolbachia and Allee effects to eradicate insect pests Julie C Blackwood|Roger Vargas|Xavier Fauvergue Department of Mathematics and Statistics, Williams College, Williamstown, MA 01267, USA;|Department of Mathematics and Statistics, Williams College, Williamstown, USA;|ISA, UMR INRA CNRS Universite Nice Sophia Antipolis, France
http://dx.doi.org/10.1101/064881 2016-07-20 Evolutionary Biology CC BY-NC-ND The evolutionary origin of bilaterian smooth and striated myocytes Thibaut Brunet|Antje H. L. Fischer|Patrick R. H. Steinmetz|Antonella Lauri|Paola Bertucci|Detlev Arendt European Molecular Biology Laboratory
http://dx.doi.org/10.1101/064857 2016-07-20 Immunology Protection against maternal infection-associated fetal growth restriction - proof-of-concept with a microbial-derived immunomodulator OM85: safety and efficacy data Naomi Scott|Jeff Lauzon-Joset|Anya Jones|Kyle Mincham|Niamh Troy|Jonatan Leffler|Michael Serralha|Susan Prescott|Sarah Robertson|Christian Pasquali|Anthony Bosco|Patrick Holt|Deborah Strickland Telethon Kids Institute, The University of Western Australia, Perth, Australia;|Robinson Research Institute, The University of;|OM Pharma, SA Geneva
http://dx.doi.org/10.1101/060814 2016-07-20 Genetics CC BY-NC-ND Candidate gene scan for Single Nucleotide Polymorphisms involved in the determination of normal variability in human craniofacial morphology Mark Barash|Philipp E. Bayer|Angela van Daal University of Technology Sydney;|The University of Queensland;|Bond University
http://dx.doi.org/10.1101/064915 2016-07-20 Evolutionary Biology CC BY-NC-ND Functional and non-functional classes of peptides produced by long non-coding RNAs. Jorge Ruiz-Orera|Pol Verdaguer-Grau|Jose Luis Villanueva-Canas|Xavier Messeguer|M Mar Alba Evolutionary Genomics Group, Research Programme on Biomedical Informatics, Hospital del Mar Research;|Llenguatges i Sistemes Inform??tics, Universitat Polit??cnica de Catalunya, Barcelona, Spain
http://dx.doi.org/10.1101/064899 2016-07-20 Bioinformatics CC BY-NC-ND Comparison of aggregation methods for multiphenotype exomic variant prioritization Alejandro Sifrim|Dusan Popovic|Joris R. Vermeesch|Jan Aerts|Bart De Moor|Yves Moreau KU Leuven
http://dx.doi.org/10.1101/064956 2016-07-20 Neuroscience CC BY-NC-ND Altered hippocampal interneuron activity precedes ictal onset Mitra L Miri|Martin Vinck|Rima Pant|Jessica A Cardin Yale University
http://dx.doi.org/10.1101/064824 2016-07-20 Plant Biology CRISPR-Cas9 mediated mutagenesis of a DMR6 ortholog in tomato confers broad-spectrum disease resistance Daniela Paula de Toledo Thomazella|Quinton Brail|Douglas Dahlbeck|Brian J Staskawicz Department of Plant and Microbial Biology, University of California, Berkeley, Berkeley CA 94720
http://dx.doi.org/10.1101/065169 2016-07-21 Neuroscience Nkx2.1 regulates the proliferation and cell fate of telencephalic astrocytes during embryonic development Shilpi Minocha|Delphine Valloton|Yvan Arsenijevic|Jean-Rene Cardinaux|Raffaella Dreier Guidi|Jean-Pierre Hornung|Cecile Lebrand University of Lausanne;|Lausanne University Hospital
http://dx.doi.org/10.1101/065177 2016-07-21 Systems Biology CC BY Introducing py_emra: the Python module for Ensemble Modeling Robustness Analysis Matthew Theisen UCLA
http://dx.doi.org/10.1101/065128 2016-07-21 Microbiology CC BY-NC-ND Understanding How Microbiomes Influence the Systems they Inhabit: Insight from Ecosystem Ecology Ed Hall|Emily Bernhardt|Raven Bier|Mark Bradford|Claudia Boot|Jim Cotner|Paul del Giorgio|Sarah Evans|Emily Graham|Stuart Jones|Jay Lennon|Ken Locey|Diana Nemergut|Brooke Osborne|Jenny Rocca|Josh Schimel|Mark Waldrop|Matt Wallenstein Colorado State University;|Duke University;|Uppsala University;|Yale University;|University of Minnesota;|Université du Québec á Montréal;|Michigan State University;|8 Pacific Northwest National Laboratory;|Notre Dame University;|Indiana University;|Brown University;|University of California, Santa Barbara;|USGS
http://dx.doi.org/10.1101/065151 2016-07-21 Ecology CC BY-NC-ND Dispersal: a central trait in life history Dries Bonte|Maxime Dahirel Ghent University
http://dx.doi.org/10.1101/065011 2016-07-21 Genetics CC BY-ND Generalization of the Ewens sampling formula to arbitrary fitness landscapes Pavel Khromov|Constantin D Malliaris|Alexandre V Morozov Rutgers University, United States
http://dx.doi.org/10.1101/065144 2016-07-21 Genomics CC BY-NC-ND Population and individual effects of non-coding variants inform genetic risk factors Mauro Pala|Zachary Zappala|Mara Marongiu|Xin Li|Joe R Davis|Roberto Cusano|Francesca Crobu|Kimberly R Kukurba|Frederic Reiner|Riccardo Berutti|Maria G Piras|Antonella Mulas|Magdalena Zoledziewska|Michele Marongiu|Fabio Busonero|Andrea Maschio|Maristella Steri|Carlo Sidore|Serena Sanna|Edoardo Fiorillo|Alexis Battle|John Novembre|Chris Jones|Andrea Angius|Goncalo R Abecasis|David Schlessinger|Francesco Cucca|Stephen B Montgomery Istituto di Ricerca Genetica e Biomedica (IRGB), CNR, Italy;|Stanford University School of Medicine, USA;|CRS4, Advanced Genomic Computing Technology, Italy;|Center for Computational Biology, John Hopkins University;|Department of Human Genetics, University of Chicago;|Center for Statistical Genetics, University of Michigan, Ann Arbor, MI;|Laboratory of Genetics, NIA, Baltimore, Maryland;|Departments of Pathology and Genetics, Stanford University School of Medicine, USA
http://dx.doi.org/10.1101/065003 2016-07-21 Evolutionary Biology CC BY-NC Exact calculation of the joint allele frequency spectrum for generalized isolation with migration models Andrew Kern|Jody Hey Rutgers Univeristy, United States;|Temple University, United States
http://dx.doi.org/10.1101/065136 2016-07-21 Molecular Biology Gene regulation mechanism in drought-responsive grapevine leaves as revealed by transcriptomic analysis Haider Muhammad Salman|Cheng Zhang|Tariq Pervaiz|Ting Zheng|Chao bo Zhang|Chen Lide|Lingfie Shangguan|Jinggui Fang Nanjing Agricultural University, China
http://dx.doi.org/10.1101/065110 2016-07-21 Bioinformatics Short Tandem Repeat stutter model inferred from direct measurement of in vitro stutter noise Ofir Raz|Tamir Biezuner|Adam Spiro|Shiran Amir|Lilach Milo|Alon Titelman|Amos Onn|Uriel Feige|Ehud Shapiro Weizmann Institute of Science
http://dx.doi.org/10.1101/065094 2016-07-21 Bioinformatics CC BY-NC-ND Modelling dropouts allows for unbiased identification of marker genes in scRNASeq experiments Tallulah S. Andrews|Martin Hemberg Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/065060 2016-07-21 Evolutionary Biology Flexibility of co-evolutionary patterns in ectoparasite populations: genetic structure and diversity in Apodemus mice and their lice. Jana Martinu|Vaclav Hypsa|Jan Stefka University of South Bohemia in Ceske Budejovice;|Biology Centre, CAS
http://dx.doi.org/10.1101/065078 2016-07-21 Microbiology CC BY-NC-ND S2 from Equine infectious anemia virus is an infectivity factor which counteracts the retroviral inhibitors SERINC5 and SERINC3 Ajit Chande|Emilia Cuccurullo|Annachiara Rosa|Serena Ziglio|Susan Carpenter|Massimo Pizzato University of Trento;|Iowa State University
http://dx.doi.org/10.1101/065102 2016-07-21 Biophysics CC BY-NC-ND Structure of Topologically Associating Domains and gene regulation embedded in the 5C data revealed by a polymer model and stochastic simulations Ofir Shukron|David Holcman Ecole Normale Superieure
http://dx.doi.org/10.1101/065086 2016-07-21 Evolutionary Biology CC BY Tissue-specificity of gene expression diverges slowly between orthologs, and rapidly between paralogs Nadezda Kryuchkova-Mostacci|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/065037 2016-07-21 Genetics CC BY Joint Fine Mapping of GWAS and eQTL Detects Target Gene and Relevant Tissue Farhad Hormozdiari|Ayellet V. Segre|Martijn van de Bunt|Xiao Li|Jong Wha J Joo|Michael Bilow|Jae Hoon Sul|Sriram Sankararaman|Bogdan Pasaniuc|Eleazar Eskin UCLA;|The Broad Institute of Massachusetts Institute of Technology and Harvard University;|University of Oxford
http://dx.doi.org/10.1101/065425 2016-07-22 Evolutionary Biology CC BY-ND Genome size variation and species diversity in salamander families Bianca Sclavi|John Herrick LBPA, CNRS UMR 8113, ENS Cachan;|Department of Physics, Simon Fraser University, Burnaby, BC, Canada
http://dx.doi.org/10.1101/065359 2016-07-22 Evolutionary Biology CC BY-ND The quantity of Neanderthal DNA in modern humans: a reanalysis relaxing the assumption of constant mutation rate. William Amos Cambridge University
http://dx.doi.org/10.1101/065417 2016-07-22 Ecology CC BY-NC-ND Morphological structure of ant assemblages in tropical and temperate forests Rogerio R. Silva|Israel Del Toro|Carlos R. F. Brandao|Aaron M. Ellison Museu Paraense Emílio Goeldi;|Center for Macroecology Evolution and Climate, University of Copenhagen;|Museu de Zoologia da Universidade de São Paulo;|Harvard Forest, Harvard University
http://dx.doi.org/10.1101/065201 2016-07-22 Genomics CC BY-NC-ND High Phylogenetic Utility of an Ultraconserved Element Probe Set Designed for Arachnida James Starrett|Shahan Derkarabetian|Marshal Hedin|Robert W Bryson|John E McCormack|Brant C Faircloth San Diego State University;|Department of Biology and Burke Museum of Natural History and Culture;|Moore Laboratory of Zoology, Occidental College;|Louisiana State University
http://dx.doi.org/10.1101/065318 2016-07-22 Biophysics CC BY-NC-ND On numerical study of Parkinson tremor Annalakshmi Harikrishna|Dennis Effah Osei|Magdalena Weronika Kaminska|Sarangam Majumdar Universita degli Studi dell Aquila
http://dx.doi.org/10.1101/064980 2016-07-22 Plant Biology CC BY-NC-ND Quantitative, image-based phenotyping methods provide insight into spatial and temporal dimensions of plant disease Andrew M. Mutka|Sarah J. Fentress|Joel W. Sher|Jeffrey C. Berry|Chelsea Pretz|Dmitri A. Nusinow|Rebecca Bart Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/065326 2016-07-22 Ecology CC BY-NC-ND Privatization of a breeding resource by the burying beetle /Nicrophorus vespilloides/ is associated with shifts in bacterial communities Ana Duarte|Martin Welch|Josef Wagner|Rebecca M Kilner University of Cambridge;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/065284 2016-07-22 Neuroscience CC BY-NC-ND The dynamics of resting fluctuations in the brain: metastability and its dynamical cortical core Gustavo Deco|Morten L Kringelbach|Viktor Jirsa|Petra Ritter Universitat Pompeu Fabra;|University of Oxford;|Institut de Neurosciences des Systemes UMR INSERM 1106;|Charite University
http://dx.doi.org/10.1101/065227 2016-07-22 Biochemistry CC BY-NC-ND A Rationally Designed Aminoacyl-tRNA Synthetase for Genetically Encoded Fluorescent Amino Acids Ximena Steinberg|Jason Galpin|Gibran Nasir|Jose Sepulveda-Ugarte|Romina Sepulveda|Fernando Gonzalez-Nilo|Leon D Islas|Christopher A Ahern|Sebastian E Brauchi Physiology, Universidad Austral de Chile;|Molecular Physiology and Biophysics, University of Iowa;|Center for Bioinformatics and Integrative Biology, Universidad Andres Bello;|Physiology, Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/065334 2016-07-22 Epidemiology CC BY Genomic infectious disease epidemiology in partially sampled and ongoing outbreaks Xavier Didelot|Christophe Fraser|Jennifer Gardy|Caroline Colijn Imperial College London;|British Columbia Centre for Disease Control
http://dx.doi.org/10.1101/065243 2016-07-22 Systems Biology CC BY Probabilistic adaptation in changing microbial environments Yarden Katz|Michael Springer Harvard Medical School
http://dx.doi.org/10.1101/065532 2016-07-23 Bioinformatics CC BY-NC-ND TelomereHunter: telomere content estimation and characterization from whole genome sequencing data Lars Feuerbach|Lina Sieverling|Katharina Deeg|Philip Ginsbach|Barbara Hutter|Ivo Buchhalter|Paul A Northcott|Peter Lichter|Stefan M Pfister|David TW Jones|Karsten Rippe|Benedikt Brors German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/065441 2016-07-23 Neuroscience CC BY-NC-ND Patterns of individual variation in visual pathway structure and function in the sighted and blind Geoffrey Karl Aguirre|Ritobrato Datta|Noah Benson|Sashank Prasad|Samuel G Jacobson|Artur V Cideciyan|Holly Bridge|Kate Watkins|Omar H Butt|Alexsandra S Dain|Lauren Brandes|Efstathios Gennatas Department of Neurology, Perelman School of Medicine, University of Pennsylvania;|Department of Ophthalmology, Perelman School of Medicine, University of Pennsylvania;|FMRIB Centre, Clinical Neurosciences, University of Oxford;|Department of Experimental Psychology, University of Oxford
http://dx.doi.org/10.1101/065474 2016-07-23 Systems Biology An introduction to linear stability analysis for deciphering spatial patterns in signaling networks Jasmine Nirody|Padmini Rangamani UC Berkeley;|UCSD
http://dx.doi.org/10.1101/065458 2016-07-23 Evolutionary Biology CC BY-NC-ND Global population divergence and admixture of the brown rat (Rattus norvegicus) Emily Puckett|Jane Park|Matthew Combs|Michael J Blum|Juliet E Bryant|Adalgisa Caccone|Federico Costa|Eva E Deinum|Alexander Esther|Chelsea G Himsworth|Peter D Keightley|Albert Ko|Ake Lundkvist|Lorraine M McElhinney|Serge Morand|Judith Robins|James Russell|Tanja M Strand|Olga Suarez|Lisa Yon|Jason Munshi-South Fordham University;|Tulane University;|Oxford University;|Yale University;|Universidade Federal da Bahia;|University of Edinburgh;|Julius Kuhn Institute;|British Columbia Ministry of Agriculture;|Uppsala University;|Animal and Plant Health Agency;|Centre d'Infectiologie Christophe Merieux du Laos;|University of Auckland;|Ciudad Universitaria;|University of Nottingham
http://dx.doi.org/10.1101/065581 2016-07-23 Neuroscience Prefrontal neurons expand their representation of space by increase in dimensionality and decrease in noise correlation Mohammad-Reza Dehaqani|Abdol-Hossein Vahabie|Mohammadbagher Parsa|Behrad Noudoost|Alireza Soltani Institute for Research in Fundamental Sciences, Tehran, Iran;|Montana State University;|Dartmouth College
http://dx.doi.org/10.1101/065540 2016-07-23 Genetics Cost-effectiveness of pharmacogenetic-guided treatment: are we there yet? Moira Verbelen|Michael E Weale|Cathryn M Lewis King's College London
http://dx.doi.org/10.1101/065482 2016-07-23 Genomics Construction of thousands of single cell genome sequencing libraries using combinatorial indexing Sarah A Vitak|Kristof A Torkenczy|Jimi L Rosenkrantz|Andrew J Fields|Lena Christiansen|Melissa H Wong|Lucia Carbone|Frank J Steemers|Andrew Adey Oregon Health & Science University;|Illumina Inc.
http://dx.doi.org/10.1101/065235 2016-07-23 Neuroscience A Neuroendocrine Modulation to Sustain C. elegans Forward Locomotion Maria A. Lim|Jyothsna Chitturi|Valeriya Laskova|Jun Meng|Daniel Findeis|Anne Wiekenberg|Ben Mulcahy|Linjiao Luo|Yan Li|Yangning Lu|Wesley Hung|Yixin Qu|Chi-Yip Ho|Douglas Holmyard|Ni Ji|Rebecca WcWhirter|Aravinthan D. T. Samuel|David Miller|Ralf Schnabel|John Calarco|Mei Zhen Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, Canada;|Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital,;|Technische Universitat Braunschweig Carolo Wilhelmina, Institut fur Genetik, Braunschweig, Germany;|Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, ON, Canada;|Key Laboratory of Modern Acoustics, Ministry of Education, Department of Physics, Nanjing University;|Center for Brain Science and Department of Physics, Harvard University, Cambridge, MA, USA;|Department of Cell and Developmental Biology, Vanderbilt University, Nashville, TN, USA;|FAS Center for Systems Biology, Harvard University, Cambridge, MA, USA;|Samuel Luenfeld Research Institute; University of Toronto
http://dx.doi.org/10.1101/065490 2016-07-23 Bioinformatics CC BY Preprocessing, normalization and integration of the Illumina HumanMethylationEPIC array Jean-Philippe Fortin|Timothy Triche|Kasper Hansen Johns Hopkins Bloomberg School of Public Health;|USC
http://dx.doi.org/10.1101/065052 2016-07-23 Genomics Massively multiplex single-cell Hi-C Vijay Ramani|Xinxian Deng|Kevin L Gunderson|Frank J Steemers|Christine M Disteche|William S Noble|Zhijun Duan|Jay Shendure University of Washington;|Advanced Research Group, Illumina Inc.
http://dx.doi.org/10.1101/065516 2016-07-23 CC BY-NC-ND Numerical aspect of Predator-Pray Model Monika Justyna Nir|Sarangam Majumdar Universita degli Studi dell Aquila
http://dx.doi.org/10.1101/065508 2016-07-24 Biochemistry Beyond the myosin mesa: a potential unifying hypothesis on the underlying molecular basis of hyper-contractility caused by a majority of hypertrophic cardiomyopathy mutations Suman Nag|Darshan V Trivedi|Saswata S Sarkar|Shirley Sutton|Kathleen M Ruppel|James A Spudich Stanford University;|Stanford University School of Medicine
http://dx.doi.org/10.1101/065623 2016-07-24 Neuroscience CC BY-NC-ND PHARMACOLOGY OF W-18 AND W-15 Xi-Ping Huang|Tao Che|Thomas Mangano|Valerie Le Rouzic|Ying-Xian Pan|Susruta Majumdar|Michael Cameron|Michael Bauman|Gavril Pasternak|Bryan L Roth UNC Chapel Hill Medical School;|Memorial Sloan Kettering Cancer Center;|Memorial Sloan Kettering;|The Scripps Research Institute;|NIDA
http://dx.doi.org/10.1101/065607 2016-07-24 Bioinformatics CC BY-NC-ND Transformation and model choice for RNA-seq co-expression analysis Andrea Rau|Cathy Maugis-Rabusseau INRA;|IMT / INSA Toulouse
http://dx.doi.org/10.1101/061382 2016-07-24 Epidemiology CC BY-NC-ND Defining the risk of Zika and chikungunya virus transmission in human population centers of the eastern United States Carrie Manore|Richard Ostfeld|Folashade Agusto|Holly Gaff|Shannon LaDeau Tulane University;|Cary Institute of Ecosystem Studies;|University of Kansas;|Old Dominion University
http://dx.doi.org/10.1101/065789 2016-07-25 Genomics CC BY-NC-ND The genome of the crustacean Parhyale hawaiensis: a model for animal development, regeneration, immunity and lignocellulose digestion Damian Kao|Alvina G Lai|Evangelia Stamataki|Silvana Rosic|Nikolaos Konstantinides|Erin Jarvis|Alessia Di Donfrancesco|Natalia Pouchkina-Stantcheva|Marie Semon|Marco Grillo|Heather Bruce|Suyash Kumar|Igor Siwanowicz|Andy Le|Andrew Lemire|Cassandra Extavour|William Browne|Carsten Wolff|Michalis Averof|Nipam H Patel|Peter Sarkies|Anastasios Pavlopoulos|Aziz Aboobaker University of Oxford;|HHMI, Janelia;|Imperial College;|Institute de Genomique Fonctionelle de Lyon;|UC Berkeley;|Harvard University;|Cox Science Center, Unversity of Miami;|Humboldt University
http://dx.doi.org/10.1101/065821 2016-07-25 Genetics CC BY-NC-ND Mosaic Mutations in Blood DNA Sequence Are Associated with Solid Tumor Cancers Mykyta Artomov|Manuel A. Rivas|Giulio Genovese|Mark J. Daly Broad Institute
http://dx.doi.org/10.1101/065664 2016-07-25 Biophysics CC BY Ephemeral protein binding to DNA shapes stable nuclear bodies and chromatin domains Chris A Brackley|Benno Liebchen|Davide Michieletto|Francois Mouvet|Peter R Cook|Davide Marenduzzo School of Physics and Astronomy, University of Edinburgh;|University of Edinburgh;|Sir William Dunn School of Pathology, University of Oxford
http://dx.doi.org/10.1101/065797 2016-07-25 Genomics Rewired RNAi-Mediated Genome Surveillance in House Dust Mites Md Mosharrof Hossain Mondal|Natalya Ortolano|Kelly Scott|Caleb Taylor|Pavel Klimov|Alex Flynt The University of Southern Mississippi;|University of Michigan, Ann Arbor, MI, USA, Tyumen State University, Tyumen, Russia
http://dx.doi.org/10.1101/065755 2016-07-25 Evolutionary Biology CC BY-NC-ND Evolution of passwords for cost-free, honest signalling between symbionts and hosts Marco Archetti|J. Benjamin Miller|Douglas W. Yu University of East Anglia
http://dx.doi.org/10.1101/065706 2016-07-25 Immunology A qualitative model for the integration of conflicting exogenous and endogenous signals by dendritic cells Quentin Marcou|Irit Carmi-Levy|Coline Trichot|Vassili Soumelis|Thierry Mora|Aleksandra Walczak Ecole normale superieure;|Institut Curie
http://dx.doi.org/10.1101/065714 2016-07-25 Neuroscience EEG functional network topology is associated with disability in patients with amyotrophic lateral sclerosis Matteo Fraschini|Matteo Demuru|Arjan Hillebrand|Lorenza Cuccu|Silvia Porcu|Francesca Di Stefano|Monica Puligheddu|Gianluca Floris|Giuseppe Borghero|Francesco Marrosu University of Cagliari;|Department of Clinical Neurophysiology and MEG Center, VU University Medical Centre, Amsterdam;|Biomedical Engineering Course, University of Cagliari, Piazza D'armi, Cagliari, 09123, Italy;|Department of Neurology, AOU Cagliari, University of Cagliari, Cagliari
http://dx.doi.org/10.1101/065672 2016-07-25 Bioinformatics CC BY Perturbation-response genes reveal signaling footprints in cancer gene expression Michael Schubert|Bertram Klinger|Martina Klunemann|Mathew J Garnett|Nils Bluthgen|Julio Saez-Rodriguez EMBL-European Bioinformatics Institute;|Charité Universitätsmedizin Berlin;|Wellcome Trust Sanger Institute;|RWTH Aachen University
http://dx.doi.org/10.1101/065391 2016-07-25 Neuroscience CC BY-NC-ND Distal axotomy enhances retrograde presynaptic excitability onto injured pyramidal neurons via trans-synaptic signaling Tharkika Nagendran|Rebecca Bigler|Rylan Larsen|Benjamin Philpot|Anne Marion Taylor The University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/065383 2016-07-25 Bioinformatics CC BY-ND Designing fecal microbiota transplant trials that account for differences in donor stool efficacy Scott W. Olesen|Thomas Gurry|Eric J. Alm Massachusetts Institute of Technology
http://dx.doi.org/10.1101/065631 2016-07-25 Biophysics Mechanisms of self-assembly and fibrillization of the prion-like domains Yimei Lu|Liangzhong Lim|Yanming Tan|Lu Wang|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/065722 2016-07-25 Neuroscience CC BY-NC Connectivity map of bipolar cells and photoreceptors in the mouse retina Christian Behrens|Timm Schubert|Silke Haverkamp|Thomas Euler|Philipp Berens Institute for Ophthalmic Research & CIN, University of Tuebingen;|Institute of Cellular and Molecular Anatomy, University of Frankfurt;|Institute of Ophthalmic Research & CIN, University of Tuebingen
http://dx.doi.org/10.1101/066076 2016-07-26 Ecology CC BY-NC-ND Meta-analysis reveals taxon- and life stage-dependent effects of ocean acidification on marine calcifier feeding performance Jeff C Clements University of New Brunswick
http://dx.doi.org/10.1101/065912 2016-07-26 Genomics Massively parallel digital transcriptional profiling of single cells Grace X.Y. Zheng|Jessica M Terry|Phillip Belgrader|Paul Ryvkin|Zachary W. Bent|Ryan Wilson|Solongo B. Ziraldo|Tobias D. Wheeler|Geoff P. McDermott|Junjie Zhu|Mark T. Gregory|Joe Shuga|Luz Montesclaros|Donald A Masquelier|Stefanie Y. Nishimura|Michael Schnall-Levin|Paul W Wyatt|Christopher M. Hindson|Rajiv Bharadwaj|Alexander Wong|Kevin D. Ness|Lan W. Beppu|Joachim Deeg|Christopher McFarland|Keith R. Loeb|William J. Valente|Nolan G. Ericson|Emily A. Stevens|Jerald P. Radich|Tarjei S. Mikkelsen|Benjamin J. Hindson|Jason H Bielas 10x Genomics;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/066027 2016-07-26 Genetics CC BY-NC-ND The druggable genome and support for target identification and validation in drug development Chris Finan|Anna Gaulton|Felix Kruger|Tom Lumbers|Tina Shah|Jorgen Engmann|Luana Galver|Ryan Kelly|Anneli Karlsson|Rita Santos|John Overington|Aroon Hingorani|Juan Pablo Casas University College London;|European Molecular Biology Laboratory;|Illumina Inc.;|Stratified Medical;|Farr Institute
http://dx.doi.org/10.1101/065938 2016-07-26 Systems Biology Robust ergodicity and tracking in antithetic integral control of stochastic biochemical reaction networks Corentin Briat|Mustafa Khammash ETH Zurich
http://dx.doi.org/10.1101/065250 2016-07-26 Biochemistry Design: An assay based on single-polypeptide-chain heterodimeric A2AR/D2R and non-oligomerized fusions for in vivo analysis of their allosteric receptor-receptor interactions Toshio KAMIYA|Takashi Masuko|Dasiel Oscar Borroto-Escuela|Haruo Okado|Hiroyasu Nakata Division of Gene Regulation, Institute for Advanced Medical Research, Keio University Sch. Med.;|Cell Biology Laboratory, School of Pharmaceutical Sciences, Kinki University;|Department of Neuroscience, Karolinska Institutet;|Neuronal Development Project, Tokyo Metropolitan Institute of Medical Science;|Department of Molecular Cell Signaling, Tokyo Metropolitan Institute for Neuroscience
http://dx.doi.org/10.1101/066100 2016-07-26 Bioinformatics CC BY-NC Hybrid assembly of the large and highly repetitive genome of Aegilops tauschii, a progenitor of bread wheat, with the mega-reads algorithm Aleksey V Zimin|Daniela Puiu|Ming-Cheng Luo|Tingting Zhu|Sergey Koren|James A. Yorke|Jan Dvorak|Steven Salzberg University of Maryland;|Johns Hopkins University;|University of California, Davis;|National Human Genome Research Institute, NIH
http://dx.doi.org/10.1101/066043 2016-07-26 Bioinformatics False Negatives Are a Significant Feature of Next Generation Sequencing Callsets Dean Bobo|Mikhail Lipatov|Juan L. Rodriguez-Flores|Adam Auton|Brenna M Henn Stony Brook University;|Department of Ecology and Evolution, Stony Brook University, Stony Brook, NY 11794, USA;|Department of Genetic Medicine, Weill Cornell Medical College. New York, NY, 10021, USA;|Department of Genetics, Albert Einstein College of Medicine, Bronx, NY, 10461, USA
http://dx.doi.org/10.1101/066050 2016-07-26 Microbiology Microbial Communities are Well Adapted to Disturbances in Energy Input Nuria Fernandez-Gonzalez|Julie A. Huber|Joseph J. Vallino Marine Biological Laboratory
http://dx.doi.org/10.1101/066084 2016-07-26 Evolutionary Biology Within-host Evolution of Segments Ratio for the Tripartite Genome of Alfalfa Mosaic Virus Beilei Wu|Mark P Zwart|Jesus A Sanchez-Navarro|Santiago F Elena CSIC
http://dx.doi.org/10.1101/065805 2016-07-26 Cancer Biology CC BY-NC-ND Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features. Andres Lanzos|Joana Carlevaro-Fita|Loris Mularoni|Ferran Reverter|Emilio Palumbo|Roderic Guigo|Rory Johnson Centre for Genomic Regulation;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/065961 2016-07-26 Neuroscience CC BY-NC-ND The role of brain oscillations in predicting the sensory consequences of your actions Liyu Cao|Gregor Thut|Joachim Gross University of Glasgow
http://dx.doi.org/10.1101/066019 2016-07-26 Bioinformatics CC BY-NC Phosphoproteomics-based Profiling of Kinase Activities in Cancer Cells Jakob Wirbel|Pedro Rodriguez Cutillas|Julio Saez-Rodriguez Joint Research Centre for Computational Biomedicine (JRC-COMBINE), RWTH Aachen University;|Barts Cancer Institute, Queen Mary University of London
http://dx.doi.org/10.1101/065847 2016-07-26 Genetics CC BY-NC-ND Genetic heterogeneity in depressive symptoms following the death of a spouse: Polygenic score analysis of the US Health and Retirement Study Ben W Domingue|Hexuan Liu|Daniel W. Belsky Stanford University;|University of North Carolina;|Duke University
http://dx.doi.org/10.1101/066092 2016-07-26 Genetics Genomic divergence, introduction history and latitudinal adaptation of grass carp Le Wang|Yubang Shen|Jianjun Fu|Xiaoyan Xu|Gen Hua Yue|Jiale Li Shanghjai Ocean University, China;|Shanghai Ocean University, China;|Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, China;|Temasek Life Sciences Laboratory, China
http://dx.doi.org/10.1101/066118 2016-07-26 Molecular Biology The fail-safe mechanism of post-transcriptional silencing of unspliced HAC1 mRNA Rachael Di Santo|Soufiane Aboulhouda|David E Weinberg University of California, San Francisco
http://dx.doi.org/10.1101/065839 2016-07-26 Biophysics CC BY-NC-ND Chaotic propagation of spatial cytoskeletal instability modulates integrity of podocyte foot processes Cibele V Falkenberg|Evren U Azeloglu|Mark Stothers|Thomas J Deerinck|Yibang Chen|John C He|Mark H. Ellisman|James C. Hone|Ravi Iyengar|Leslie M. Loew U. Connecticut School of Medicine;|Icahn School of Medicine at Mount Sinai;|Columbia University;|UCSD
http://dx.doi.org/10.1101/065862 2016-07-26 Neuroscience CC BY-NC-ND AFNI and Clustering: False Positive Rates Redux Robert W Cox|Richard C Reynolds|Paul A Taylor NIMH, NIH
http://dx.doi.org/10.1101/065748 2016-07-26 Immunology A generalized quantitative antibody homeostasis model: antigen saturation, natural antibodies and a quantitative antibody network Jozsef Prechl Diagnosticum
http://dx.doi.org/10.1101/065771 2016-07-26 Genomics Ostreococcus tauri is cobalamin-independent Mark Pasek SaltWater Algae
http://dx.doi.org/10.1101/065680 2016-07-26 Cancer Biology CC BY-NC-ND The Influence of Lymphoid Reconstitution Kinetics on Clinical Outcomes in Allogeneic Stem Cell Transplantation David J Kobulnicky|Roy T Sabo|Shashank Sharma|Ali S Shubar Ali|Kristen Kobulnicky|Catherine Roberts|Alison Scalora|William Clark|Harold Chung|John M McCarty|Amir A Toor Bone Marrow Transplant Program, Virginia Commonwealth University, Richmond, VA, USA;|B Bone Marrow Transplant Program, Virginia Commonwealth University, Richmond, VA, USA
http://dx.doi.org/10.1101/065649 2016-07-26 Biophysics Biophysical properties of human β-cardiac myosin with converter mutations that cause hypertrophic cardiomyopathy Masataka Kawana|Saswata S Sarkar|Shirley Sutton|Kathleen M Ruppel|James Spudich Stanford University School of Medicine
http://dx.doi.org/10.1101/065854 2016-07-26 Neuroscience CC BY-NC Feedforward and feedback frequency-dependent interactions in a large-scale laminar network of the primate cortex Jorge F Mejias|John D Murray|Henry Kennedy|Xiao-Jing Wang New York University;|Yale School of Medicine;|Universite de Lyon;|NYU-Shanghai
http://dx.doi.org/10.1101/065730 2016-07-26 Immunology A generalized quantitative antibody homeostasis model: regulation of B‐cell development by BCR saturation and novel insights into bone marrow function Jozsef Prechl Diagnosticum
http://dx.doi.org/10.1101/065920 2016-07-26 Microbiology A Novel Family of Genomics Islands Across Multiple Species of Streptococcus Jing Wang|Changjun Wang|Weizhong Feng|Youjun Feng|Liming Zhi|Wenjuan Li|Yi Yao|Shibo Jiang|Jiaqi Tang Translational Medicine Center, PLA hospital No. 454, China;|Department of Epidemiology, Medicinal Research Institute, Nanjing Military Command, China;|PLA hospital No. 454, China;|Department of Medical Microbiology & Parasitology, Zhejiang University School of Medicine, China;|Lindsley F. Kimball Research Institute, New York Blood Center, China;|Institute of Laboratory Medicine, Jinling Hospital, Nanjing University School of Medicine, China
http://dx.doi.org/10.1101/065292 2016-07-26 Bioinformatics CC BY-NC-ND Cell type composition is the primary - but far from the only - power shaping temporal transcriptome of human brains Qianhui Yu|Zhisong He CAS-MPG Partner Institute for Computational Biology, SIBS, CAS
http://dx.doi.org/10.1101/066381 2016-07-27 Genetics CC BY Codon usage is a stochastic process across genetic codes of the kingdoms of life Bohdan B. Khomtchouk|Claes Wahlestedt|Wolfgang Nonner University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/066373 2016-07-27 Systems Biology CC BY-NC-ND Transient protein-protein interactions perturb E.coli metabolome and cause gene dosage toxicity Sanchari Bhattacharyya|Shimon Bershtein|Jin Yan|Tijda Argun|Amy Gilson|Sunia Trauger|Eugene Shakhnovich Harvard University;|Ben Guirion University of the Negev
http://dx.doi.org/10.1101/066340 2016-07-27 Genetics CC BY Genome-wide methylation data mirror ancestry information Elior Rahmani|Liat Shenhav|Regev Schweiger|Paul Yousefi|Karen Huen|Brenda Eskenazi|Celeste Eng|Scott Huntsman|Donglei Hu|Joshua Galanter|Sam Oh|Melanie Waldenberger|Konstantin Strauch|Harald Grallert|Thomas Meitinger|Christian Gieger|Nina Holland|Esteban Burchard|Noah Zaitlen|Eran Halperin Tel Aviv University;|University of California Berkeley;|University of California San Francisco;|Helmholtz Center Munich Research Center for Environmental Health;|Helmholtz Center Munich
http://dx.doi.org/10.1101/066423 2016-07-27 Animal Behavior and Cognition CC BY Drosophila Mutants that Are Motile but Respond Poorly to All Stimuli Tested Lar L Vang|Julius Adler University of Wisconsin-Madison
http://dx.doi.org/10.1101/066183 2016-07-27 Bioinformatics CC BY-NC-ND ADRes: a computational pipeline for detecting molecular markers of Anti-malarial Drug Resistance, from Sanger sequencing data Setor Amuzu|Anita Ghansah Noguchi Memorial Institute for Medical Research
http://dx.doi.org/10.1101/066175 2016-07-27 Genetics CC BY-ND Genetic Regulation of Phenotypic Plasticity and Canalisation in Yeast Growth Anupama Yadav|Kaustubh Dhole|Himanshu Sinha Tata Institution of Fundamental Research;|Tata Institute of Fundamental Research, Mumbai; Indian Institute of Technology Madras, Chennai
http://dx.doi.org/10.1101/066209 2016-07-27 Genomics CC BY Origin and phylogenetic status of the local Ashanti Dwarf pig (ADP) of Ghana based 1 on evidence from mtDNA analysis, MC1R, and Y-chromosome haplotypes Richard Osei-Amponsah|Benjamin M Skinner|Dennis Adjei|Julien Bauer|Greger Larson|Nabeel Affara|Carole A Sargent University of Ghana, Legon;|University of Cambridge;|University of Oxford
http://dx.doi.org/10.1101/066357 2016-07-27 Microbiology CC BY-NC Sequence based prediction of novel domains in the cellulosome of Ruminiclostridium thermocellum Zarrin Basharat|Azra Yasmin Fatima Jinnah Women University, Rawalpindi 46000, Pakistan;|Fatima Jinnah Women University, Rawalpindi 46000, Pakistan.
http://dx.doi.org/10.1101/066316 2016-07-27 Genetics CC BY Case Report: Aggressive Tibial Pseudarthrosis as Primary Symptom in Infant with Neurofibromatosis Mary Alice Reid|Madeline Zupan|Nicole Sevison|Barbara Calhoun|Kasturi Haldar Beacon Health System, Bristol Street Pediatrics;|University of Notre Dame, Boler-Parseghian Center for Rare and Neglected Diseases;|Memorial Hospital South Bend
http://dx.doi.org/10.1101/066324 2016-07-27 Bioinformatics CC BY-NC Structure, interaction and post-translational modification study of arsenic reduction system in Bifidobacterium longum Zarrin Basharat|Azra Yasmin Fatima Jinnah Women University, Rawalpindi 46000, Pakistan
http://dx.doi.org/10.1101/065565 2016-07-27 Bioinformatics CC BY RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections Jaime Castro-Mondragon|Sebastien Jaeger|Denis Thieffry|Morgane Thomas-Chollier|Jacques van Helden Aix Marseille Univ, Inserm, TAGC, Technological Advances for Genomics and Clinics, Marseille, France;|Aix Marseille Univ, CNRS, INSERM, CIML, Marseille, France;|Computational Systems Biology, Institut de Biologie de l'Ecole Normale Superieure (IBENS)
http://dx.doi.org/10.1101/066225 2016-07-27 Immunology CC BY-ND DEPOT MEDROXYPROGESTERONE ACETATE USE IS ASSOCIATED WITH INCREASED MEDIAN PERIPHERAL BLOOD CD 3 AND CD 4 T LYMPHOCYTE COUNTS AMONG ANTIRETROVIRAL THERAPY NAIVE HIV POSITIVE WOMEN Edwin Walong|Anne Barasa|Christopher Gontier University of Nairobi
http://dx.doi.org/10.1101/066035 2016-07-27 Ecology CC BY Metabolite exchange within the microbiome produces compounds that influence Drosophila behavior Caleb N Fischer|Eric P Trautman|Jason M Crawford|Eric V Stabb|Nichole A Broderick|Jo Handelsman Yale University;|University of Georgia;|University of Connecticut
http://dx.doi.org/10.1101/039859 2016-07-27 Genetics CC BY-ND Background-dependent effects of selection on subclonal heterogeneity Ignacio Vazquez-Garcia|Francisco Salinas|Jing Li|Andrej Fischer|Benjamin Barre|Johan Hallin|Anders Bergstrom|Elisa Alonso-Perez|Jonas Warringer|Ville Mustonen|Gianni Liti Wellcome Trust Sanger Institute and University of Cambridge, Cambridge, United Kingdom;|Institute for Research on Cancer and Ageing of Nice, CNRS UMR 7284, INSERM U1081, Nice, France;|Wellcome Trust Sanger Institute, Cambridge, United Kingdom;|Department of Chemistry and Molecular Biology, University of Gothenburg, Gothenburg, Sweden
http://dx.doi.org/10.1101/066241 2016-07-27 Bioinformatics Evaluating approaches to find exon chains corresponding to long reads Anna Kuosmanen|Veli Makinen University of Helsinki
http://dx.doi.org/10.1101/066142 2016-07-27 Neuroscience CC BY-NC-ND Axonal transcriptome of human stem cell derived neurons Rebecca L Bigler|Joyce W Kamande|Raluca Dumitru|Mark Niedringhaus|Anne Marion Taylor The University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/066233 2016-07-27 Cell Biology CC BY-NC-ND Effect of sampling media and culture conditions on dendritic cell generation: ion depleted plasma negatively influences the survival of monocyte-derived dendritic cells Zuzana Parackova|Jana Kayserova|Anna Sediva Department of Immunology, Charles University, 2nd Faculty of Medicine, University Hospital Motol, Pr
http://dx.doi.org/10.1101/066282 2016-07-27 Neuroscience CC BY-NC fMRI Dependent Components Analysis Reveals Dynamic Relations Between Functional Large Scale Cortical Networks Uri Hertz|Daniel Zoran|Yair Weiss|Amir Amedi University College London;|Deep Mind;|Hebrew University of Jerusalem
http://dx.doi.org/10.1101/066159 2016-07-27 Neuroscience CC BY A common perceptual inference for cross-modally induced illusions of body schema Zane Zheng|Kevin Munhall|Ingrid Johnsrude Lasell College;|Queen's University;|Western University
http://dx.doi.org/10.1101/066134 2016-07-27 Biochemistry CC BY In vivo mapping of tissue- and subcellular-specific proteomes in Caenorhabditis elegans Aaron W Reinke|Raymond Mak|Emily R Troemel|Eric J Bennett UCSD
http://dx.doi.org/10.1101/066217 2016-07-27 Neuroscience CC BY Mind over matter: A perceptual decision bias toward filled-in stimuli in the blind spot Benedikt V Ehinger|Katja Hausser|Jose Ossandon|Peter Konig Osnabrück University;|University Osnabrück;|University of Osnabrück
http://dx.doi.org/10.1101/066571 2016-07-28 Immunology Cytomegalovirus Antigenic Mimicry of Human Alloreactive Peptides: A Potential Trigger for Graft versus Host Disease Charles Hall|Vishal Koparde|Max Jameson-Lee|Abdelrhman Elnasseh|Allison Scalora|Jared Kobulnicky|Myrna Serrano|Catherine Roberts|Gregory Buck|Michael Neale|Daniel Nixon|Amir Toor Virginia Commonwealth University
http://dx.doi.org/10.1101/066563 2016-07-28 Microbiology CC BY Capture of Vibrio cholerae by charged polymers inhibits pathogeniciy by inducing a sessile lifestyle Nicolas Perez-Soto|Lauren Moule|Daniel N Crisan|Ignacio Insua|Leanne M Taylor-Smith|Kerstin Voelz|Francisco Fernandez-Trillo|Anne Krachler University of Birmingham
http://dx.doi.org/10.1101/066613 2016-07-28 Bioinformatics CC BY-NC de novo assembly and population genomic survey of natural yeast isolates with the Oxford Nanopore MinION sequencer Benjamin Istace|Anne Friedrich|Leo d'Agata|Sebastien Faye|Emilie Payen|Odette Beluche|Claudia Caradec|Sabrina Davidas|Corinne Cruaud|Gianni Liti|Arnaud Lemainque|Stefan Engelen|Patrick Wincker|Joseph Schacherer|Jean-Marc Aury CEA/Genoscope;|CNRS/University of Strasbourg;|IRCAN
http://dx.doi.org/10.1101/066498 2016-07-28 Genomics CC BY-NC-ND Self-Organizing Global Gene Expression Regulated Through Criticality: The Mechanism of Cell Fate Change Masa Tsuchiya|Alessandro Giuliani|Midori Hashimoto|Jekaterina Erenpreisa|Kenichi Yoshikawa Keio University;|Istituto Superiore di Sanita;|The University of Tokyo;|Latvian Biomedical Research & Study Centre;|Doshisha University
http://dx.doi.org/10.1101/066621 2016-07-28 Biophysics Sensitivity in binding free energies due to protein reorganization Nathan M Lim|Lingle Wang|Robert Abel|David Mobley University of California, Irvine;|Schrodinger
http://dx.doi.org/10.1101/066068 2016-07-28 Genetics CC BY-NC-ND Estimate of disease heritability using 4.7 million familial relationships inferred from electronic health records Fernanda Polubriaginof|Kayla Quinnies|Rami Vanguri|Alexandre Yahi|Mary Simmerling|Iuliana Ionita-Laza|Hojjat Salmasian|Suzanne Bakken|George Hripcsak|David Goldstein|Krzysztof Kiryluk|David K Vawdrey|Nicholas P Tatonetti Columbia University;|Cornell University;|NewYork-Presbyterian Hospital
http://dx.doi.org/10.1101/066555 2016-07-28 Genetics CC BY-NC-ND Genome-wide chemical mutagenesis screens allow unbiased saturation of the cancer genome and identification of drug resistance mutations. Jonathan Brammeld|Mia Petljak|Carla Daniela Robles-Espinoza|Stacey Price|Syd Barthorpe|Patrick Tarpey|Constantine Alifrangis|Graham Bignell|Mathew Garnett|Jamie Young|Lucy Stebbings|Kathryn Beal|Michael R Stratton|Clara Montagut|Alba Dalmases|Beatriz Bellosillo|Joana Vidal|Julio Saez-Rodriguez|Luz Garcia Alonso|Francesco Iorio|Ultan McDermott Wellcome Trust Sanger Institute;|FIMIM and Medical Oncology Department, Hospital del Mar, Barcelona;|ADalmases@parcdesalutmar.cat;|Hospital del Mar, Barcelona, Spain;|WTH Aachen University Hospital, Aachen, Germany;|EBI, Hinxton, UK
http://dx.doi.org/10.1101/066332 2016-07-28 Evolutionary Biology CC BY-NC-ND On the independent loci assumption in phylogenomic studies W. Bryan Jennings Museu Nacional, Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/066472 2016-07-28 Genomics CC BY-NC-ND Waves of chromatin modifications in mouse dendritic cells in response to LPS stimulation Alexis Vandenbon|Yutaro Kumagai|Mengjie Lin|Yutaka Suzuki|Kenta Nakai IFReC, Osaka University;|Graduate School of Frontier Sciences, The University of Tokyo;|The Institute of Medical Science, The University of Tokyo
http://dx.doi.org/10.1101/066415 2016-07-28 Genetics CC BY Ingested double-stranded RNA and their mobile RNA derivatives have different requirements for gene silencing in C. elegans. Pravrutha Raman|Soriayah Zaghab|Edward Traver|Antony Jose University of Maryland, United States
http://dx.doi.org/10.1101/066431 2016-07-28 Genetics CC BY-NC A tutorial on how (not) to over-interpret STRUCTURE/ADMIXTURE bar plots Daniel Falush|Lucy van Dorp|Daniel Lawson University of Bath;|University College London;|University of Bristol
http://dx.doi.org/10.1101/066456 2016-07-28 Epidemiology Projected spread of Zika virus in the Americas Qian Zhang|Kaiyuan Sun|Matteo Chinazzi|Ana Pastore-Piontti|Natalie E Dean|Diana P Rojas|Stefano Merler|Dina Mistry|Piero Poletti|Luca Rossi|Margaret Bray|M. Elizabeth Halloran|Ira M Longini|Alessandro Vespignani Northeastern University;|University of Florida;|Bruno Kessler Foundation;|Bocconi University;|Institute for Scientific Interchange Foundation;|University of Washington
http://dx.doi.org/10.1101/066597 2016-07-28 Bioengineering Genome Editing With Targeted Deaminases Luhan Yang|Adrian Briggs|Wei Leong Chew|Prashant Mali|Marc Guell|John Aach|Daniel Goodman|David Cox|Yinan Kan|Emal Lesha|Venkataramanan Soundararajan|Feng Zhang|George Church Harvard
http://dx.doi.org/10.1101/066522 2016-07-28 Cell Biology CC BY-NC-ND Toxoplasma gondii establishes an extensive filamentous network consisting of stable F-actin during replication Javier Periz|Jamie Whitelaw|Clare Harding|Leandro Lemgruber|Simon Gras|Madita Reimer|Robert Insall|Markus Meissner University of Glasgow
http://dx.doi.org/10.1101/066480 2016-07-28 Neuroscience CC BY-NC-ND Evidence accumulation and change rate inference in dynamic environments Adrian E Radillo|Alan Veliz-Cuba|Kresimir Josic|Zachary Kilpatrick University of Houston;|University of Dayton;|University of Colorado
http://dx.doi.org/10.1101/066464 2016-07-28 Molecular Biology A Dynamic Mode of Mitotic Bookmarking by Transcription Factors Sheila S Teves|Luye An|Anders S Hansen|Liangqi Xie|Xavier Darzacq|Robert Tjian University of California Berkeley
http://dx.doi.org/10.1101/066878 2016-07-29 Immunology Temporal Stability and Molecular Persistence of the Bone Marrow Plasma Cell Antibody Repertoire Gabriel Wu|Nai-Kong Cheung|George Georgiou|Edward Marcotte|Gregory Ippolito University of Texas at Austin;|Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/066407 2016-07-29 Evolutionary Biology CC BY-NC-ND Negative selection in humans and fruit flies involves synergistic epistasis Mashaal Sohail|Olga A Vakhrusheva|Jae Hoon Sul|Sara Pulit|Laurent Francioli|Leonard H van den Berg|Jan H Veldink|Paul de Bakker|Georgii A Bazykin|Alexey S Kondrashov|Shamil Sunyaev Systems Biology PhD Program Harvard Medical School Boston MA USA;|Institute for Information Transmission Problems of the Russian Academy of Sciences;|Department of Psychiatry and Biobehavioral Sciences UCLA Los Angeles CA USA;|Department of Neurology and Neurosurgery University Medical Center Utrecht Utrecht the Netherlands;|Department of Medical Genetics Center for Molecular Medicine University Medical Center Utrecht;|Department of Ecology and Evolutionary Biology University of Michigan Ann Arbor MI USA;|Division of Genetics Department of Medicine Brigham and Women's Hospital Harvard Medical School
http://dx.doi.org/10.1101/066696 2016-07-29 Zoology Quantifying climate change impacts emphasises the importance of managing regional threats in an endangered species Thomas Mattern|Stefan Meyer|Ursula Ellenberg|David M Houston|John T Darby|Melanie J Young|Yolanda van Heezik|Philip J Seddon University of Otago;|La Trobe University;|New Zealand Department of Conservation;|Otago Museum, Dunedin, NZ
http://dx.doi.org/10.1101/066704 2016-07-29 Microbiology CC BY-NC-ND Cohort Specific Effects of Cereal-bar Supplementation in Overweight Patients With or Without Type 2 Diabetes Mellitus Chris Lauber|Chieh Jason Chou|Anirikh Chakrabarti|Jay Siddharth|Anne Chalut-Carpentier|Zoltan Pataky|Alain Golay|Scott Parkinson Nestle Institute of Health Sciences SA;|University Hospitals of Geneva and University of Geneva
http://dx.doi.org/10.1101/066738 2016-07-29 Genetics CC BY-NC-ND Genetic diagnosis of Mendelian disorders via RNA sequencing Laura S Kremer|Daniel M Bader|Christian Mertes|Robert Kopajtich|Garwin Pichler|Arcangela Iuso|Tobias B Haack|Elisabeth Graf|Thomas Schwarzmayr|Caterina Terrile|Eliska Konafikova|Birgit Repp|Gabi Kastenmuller|Jerzy Adamski|Peter Lichtner|Christoph Leonhardt|Benoit Funalot|Alice Donati|Valeria Tiranti|Anne Lombes|Claude Jardel|Dieter Glaser|Robert W Taylor|Daniele Ghezzi|Johannes A Mayr|Agnes Rotig|Peter Freisinger|Felix Distelmaier|Tim M Strom|Thomas Meitinger|Julien Gagneur|Holger Prokisch Institute of Human Genetics, Helmholtz Center Munich, 85764 Neuherberg, Germany;|Department of Informatics, Technical University of Munich, 85748 Garching, Germany;|Department of Proteomics and Signal Transduction, MPI of Biochemistry, 82152 Martinsried, Germany;|Institute of Bioinformatics and Systems Biology, Helmholtz Center Munich, 85764 Neuherberg,Germany;|Institute of Experimental Genetics, Genome Analysis Center, Helmholtz Center Munich, Neuherberg;|Neuropaediatrie, Neonatologie, 78050 Villingen-Schwenningen, Germany;|INSERM U1163, Universite Paris Descartes-Sorbonne Paris Cite, Institut Imagine, 75015 Paris, France;|Metabolic Unit, A. Meyer Children's Hospital, Florence, Italy;|Unit of Molecular Neurogenetics, Neurological Institute Carlo Besta, Milan, Italy;|INSERM UMR 1016, Institut Cochin, Paris, France;|Genetikum, Genetic Counseling and Diagnostics, 89231 Neu-Ulm, Germany;|Wellcome Trust Centre for Mitochondrial Research, Institute of Neuroscience, Newcastle University,UK;|Department of Pediatrics, Paracelsus Medical University, A-5020 Salzburg, Austria;|Department of Pediatrics, Klinikum Reutlingen, 72764 Reutlingen, Germany;|Department of General Pediatrics, Neonatology and Pediatric Cardiology, Duesseldorf, Germany
http://dx.doi.org/10.1101/066803 2016-07-29 CC BY A statistical definition for reproducibility and replicability Prasad Patil|Roger D. Peng|Jeffrey Leek Johns Hopkins Biostatistics;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/066761 2016-07-29 Developmental Biology CC BY Independent modes of ganglion cell translocation ensure correct lamination of the zebrafish retina Jaroslav Icha|Christiane Grunert|Mauricio Rocha-Martins|Caren Norden Max Planck Institute of Molecular Cell Biology and Genetics;|MPI of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/066647 2016-07-29 Neuroscience CC BY-NC The effect of crack cocaine addiction on the microstructure and morphology of the human striatum and thalamus using novel shape analysis and fast diffusion kurtosis imaging. Eduardo A. Garza-Villarreal|M Mallar Chakravarty|Brian Hansen|Simon F Eskildsen|Gabriel A. Devenyi|Diana Castillo-Padilla|Thania Balducci-Garcia|Ernesto Reyes-Zamorano|Sune N Jespersen|Pamela Perez-Palacios|Raihaan Patel|Jorge J Gonzalez-Olvera CONACYT Instituto Nacional de Psiquiatria;|Douglas Mental Health University Institute;|University of Aarhus;|Instituto Nacional de Psiquiatria;|Universidad Anahuac Mexico Sur;|Instituto Nacional de Psiquitria
http://dx.doi.org/10.1101/066787 2016-07-29 Neuroscience Inconsistencies in C. elegans behavioural annotation Balazs Szigeti|Thomas Stone|Barbara Webb Neuroinformatics Doctoral Training Centre, University of Edinburgh;|University of Edinburgh
http://dx.doi.org/10.1101/066779 2016-07-29 Cell Biology CC BY-NC-ND Bright photoactivatable fluorophores for single-molecule imaging Luke D Lavis|Jonathan B Grimm|Brian P English|Heejun Choi|Anand K Muthusamy|Brian P Mehl|Peng Dong|Timothy A Brown|Jennifer Lippincott-Schwartz|Zhe Liu|Timothee Lionnet Janelia Research Campus, HHMI
http://dx.doi.org/10.1101/066688 2016-07-29 Epidemiology Cross-scale dynamics and the evolutionary emergence of infectious diseases Sebastian J. Schreiber|Ruian Ke|Claude Loverdo|Miran Park|Priyanna Ahsan|James O. Lloyd-Smith University of California, Davis;|North Carolina State University;|Laboratoire Jean Perrin, UPMC, CNRS;|University of California, Los Angeles
http://dx.doi.org/10.1101/066662 2016-07-29 Ecology CC BY-NC-ND Examining the occupancy-density relationship for a low density carnivore Daniel W. Linden|Angela K. Fuller|J. Andrew Royle|Matthew P. Hare Cornell University;|USGS; Cornell University;|USGS; Patuxent Wildlife Research Center
http://dx.doi.org/10.1101/066670 2016-07-29 Neuroscience CC BY-ND Optimizing for generalization in the decoding of internally generated activity in the hippocampus Matthijs van der Meer|Alyssa A Carey|Youki Tanaka Dartmouth College
http://dx.doi.org/10.1101/066589 2016-07-29 Neuroscience CC BY-ND Receptive field formation by interacting excitatory and inhibitory synaptic plasticity Claudia Clopath|Tim P Vogels|Robert C Froemke|Henning Sprekeler Imperial College London;|University of Oxford;|New York University School of Medicine;|Technical University Berlin
http://dx.doi.org/10.1101/066639 2016-07-29 Neuroscience CC BY-NC-ND Posterior parietal cortex guides visual decisions in rats Angela M. Licata|Matthew T. Kaufman|David Raposo|Michael B. Ryan|John P. Sheppard|Anne K. Churchland Cold Spring Harbor Laboratory;|Champalimaud Neuroscience Programme, Lisboa;|University of California, San Francisco;|Northwestern University
http://dx.doi.org/10.1101/067025 2016-07-31 Evolutionary Biology Host-selected mutations converging on a global regulator drive an adaptive leap by bacteria to symbiosis M Sabrina Pankey|Randi L Foxall|Ian M Ster|Lauren A Perry|Brian M Schuster|Rachel A Donner|Matthew R Coyle|Vaughn S Cooper|Cheryl A Whistler University of New Hampshire;|University of Pittsburgh
http://dx.doi.org/10.1101/067017 2016-07-31 Neuroscience CC BY The Preprocessed Connectomes Project Repository of Manually Corrected Skull-stripped T1-weighted Anatomical MRI Data. Benjamin Puccio|James P Pooley|John S Pellman|Elyse C Taverna|Richard Cameron Craddock Nathan S. Kline Institute for Psychiatric Research;|Child Mind Institute
http://dx.doi.org/10.1101/066902 2016-07-31 Epidemiology CC BY Hypothesis Tests for Neyman's Bias in Case-Control Studies David Swanson|Rebecca Betensky|Chris Anderson GNS Healthcare;|Harvard School of Public Health;|Massachusetts General Hospital
http://dx.doi.org/10.1101/066993 2016-07-31 Neuroscience CC BY-NC A rodent model of social rejection Haozhe Shan|Inbal Ben-Ami Bartal|Peggy Mason University of Chicago;|UC - Berkeley
http://dx.doi.org/10.1101/066910 2016-07-31 Bioinformatics CC BY-NC Deep Learning-based Pipeline to Recognize Alzheimer′s Disease using fMRI Data Saman Sarraf|Ghassem Tofighi Department of Electrical and Computer Engineering, McMaster University, Hamilton, ON, L8S4L8, Canada;|Electrical and Computer Engineering Department, Ryerson University, Toronto, ON M5B2K3 Canada
http://dx.doi.org/10.1101/060327 2016-07-31 Bioinformatics CC BY-ND Characteristic arrangement of nucleosomes is predictive of chromatin interactions at kilobase resolution Hui Zhang|Feifei Li|Yan Jia|Bingxiang Xu|Yiqun Zhang|Xiaoli Li|Zhihua Zhang Beijing Institute of Genomics, Chinese Academy of Sciences
http://dx.doi.org/10.1101/066795 2016-07-31 Bioinformatics CC BY-ND MethFlowVM: a virtual machine for the integral analysis of bisulfite sequencing data Ricardo Lebron|Guillermo Barturen|Cristina Gomez-Martin|Jose L Oliver|Michael Hackenberg University of Granada;|Genyo
http://dx.doi.org/10.1101/066860 2016-07-31 Developmental Biology Inhibition of cell proliferation does not slow down echinoderm neural regeneration Vladimir Mashanov|Olga Zueva|Jose Garcia-Arraras University of North Florida;|University of Puerto Rico
http://dx.doi.org/10.1101/066985 2016-07-31 Genetics CC BY-NC-ND Detecting Epistasis in Genome-wide Association Studies with the Marginal EPIstasis Test Lorin Crawford|Sayan Mukherjee|Xiang Zhou Duke University;|University of Michigan
http://dx.doi.org/10.1101/066977 2016-07-31 Evolutionary Biology The domesticated brain: genetics of brain mass and brain structure in an avian species Rie Henriksen|Martin Johnsson|Leif Andersson|Per Jensen|Dominic Wright Linkoping University;|Uppsala University
http://dx.doi.org/10.1101/066928 2016-07-31 Bioinformatics CC BY Perception Enhancement using Visual Attributes in Sequence Motif Visualization Wei Ying Kok|Yin Bee Oon|Nung Kion Lee Department of Cognitive Science, Universiti Malaysia Sarawak
http://dx.doi.org/10.1101/066969 2016-07-31 Neuroscience CC BY-NC Training and spontaneous reinforcement of neuronal assemblies by spike timing Gabriel Koch Ocker|Brent Doiron Allen Institute for Brain Science;|University of Pittsburgh
http://dx.doi.org/10.1101/066126 2016-07-31 Bioinformatics CC BY Personalized prediction of circadian time from gene expression in human blood Jacob Hughey Vanderbilt University School of Medicine
http://dx.doi.org/10.1101/067074 2016-08-01 Microbiology CC BY Small molecules with antibiofilm, antivirulence and antibiotic synergy activities against Pseudomonas aeruginosa. Erik van Tilburg Bernardes|Laetitia Charron-Mazenod|David Reading|Shauna L Reckseidler-Zenteno|Shawn Lewenza University of Calgary;|Athabasca University
http://dx.doi.org/10.1101/067124 2016-08-01 Evolutionary Biology CC BY Population cycles and species diversity in dynamic Kill-the-Winner model of microbial ecosystems sergei maslov|kim snepppen University of Illinois at Urbana-Champaign;|Niels Bohr Institute, Copenhagen University
http://dx.doi.org/10.1101/067173 2016-08-01 Microbiology CC BY-NC-ND Stochastic Assembly Produces Heterogeneous Communities in the C. elegans Intestine Nicole Vega|Jeff Gore Massachusetts Institute of Technology
http://dx.doi.org/10.1101/067199 2016-08-01 Molecular Biology CC BY-NC-ND A global view of meiotic double-strand break end resection Eleni P. Mimitou|Shintaro Yamada|Scott Keeney Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/066944 2016-08-01 Systems Biology CC BY Literature mining supports a next-generation modeling approach to predict cellular byproduct secretion Zachary Andrew King|Edward J O'Brien|Adam M Feist|Bernhard O Palsson UC San Diego
http://dx.doi.org/10.1101/067165 2016-08-01 Genomics CC BY-NC-ND Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling Edward Stallknecht Rice|Satomi Kohno|John St. John|Son Pham|Jonathan Howard|Liana Lareau|Brendan O'Connell|Glenn Hickey|Joel Armstrong|Alden Deran|Ian Fiddes|Roy N. Platt|Cathy Gresham|Fiona McCarthy|Colin Kern|David Haan|Tan Phan|Carl Schmidt|Jeremy Sanford|David A. Ray|Benedict Paten|Louis J Guillette|Richard E Green Biomolecular Engineering, UC Santa Cruz;|Hollings Marine Lab., Medical University of South Carolina;|Driver Group, LLC;|Salk Institute, Laboratory of Genetics;|Dept. of Biochemistry, Stanford Univ.;|California Inst. for Quantitative Biosciences;|Dept. of Biomolecular Engineering, UC Santa Cruz;|Biological Sciences, Texas Tech Univ.;|Inst. for Genomics, Biocomputing, and Biotech., MS State Univ.;|School of Animal and Comp. Biomed. Sci., Univ. of Arizona;|Dept. of Animal Science, UC Davis;|HCM University of Science, Vietnam;|Dept. of Animal and Food Sciences, Univ. of Delaware;|Dept. of Molecular, Cell, and Devel. Biology, UC Santa Cruz;|Dept. of Biological Sciences, Texas Tech Univ.;|Center for Biomolecular Sci. and Eng., UC Santa Cruz;|Hollings Marine Lab., Medical Univ. of South Carolina
http://dx.doi.org/10.1101/067207 2016-08-01 Evolutionary Biology CC BY Evolutionary thrift: mycobacteria repurpose plasmid diversity during adaptation of type VII secretion systems Tatum D Mortimer|Alexandra M. Weber|Caitlin S. Pepperell University of Wisconsin-Madison
http://dx.doi.org/10.1101/067090 2016-08-01 Bioinformatics PathScore: a web tool for identifying altered pathways in cancer data Stephen G Gaffney|Jeffrey P. Townsend Yale University
http://dx.doi.org/10.1101/066829 2016-08-01 Genetics CC BY-NC Genome-wide biases in the rate and molecular spectrum of spontaneous mutations in Vibrio cholerae and Vibrio fischeri Marcus M Dillon|Way Sung|Robert Sebra|Michael Lynch|Vaughn Cooper University of New Hampshire;|University of North Carolina, Charlotte;|Icahn School of Medicine at Mt. Sinai;|Indiana University;|University of Pittsburgh
http://dx.doi.org/10.1101/066845 2016-08-01 Evolutionary Biology CC BY-NC Accelerated selection of a viral RNA polymerase variant during gene copy number amplification promotes rapid evolution of vaccinia virus Kelsey R. Cone|Zev N. Kronenberg|Mark Yandell|Nels C. Elde University of Utah
http://dx.doi.org/10.1101/067496 2016-08-02 Biophysics Intrinsic K-Ras dynamics: A novel molecular dynamics data analysis method shows causality between residue pairs Sezen Vatansever|Zeynep Gumus|Burak Erman koc university;|Icahn Institute for Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/067462 2016-08-02 Plant Biology CC BY-NC-ND NUCLEAR FACTOR Y, subunit C (NF-YC) transcription factors are positive regulators of photomorphogenesis in Arabidopsis thaliana Zachary A Myers|Roderick W Kumimoto|Chamindika L Siriwardana|Krystal K Gayler|Jan R Risinger|Daniela Pezzetta|Ben F Holt University of Oklahoma;|University of California, Davis;|Invitae Corporation, San Francisco;|Freie Universitat, Berlin
http://dx.doi.org/10.1101/067470 2016-08-02 Microbiology CC BY Experimental estimation of the effects of all amino-acid mutations to HIV Env Hugh K Haddox|Adam S Dingens|Jesse Bloom University of Washington / Fred Hutchinson Cancer Research Center;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/067488 2016-08-02 Cancer Biology CC BY-NC-ND Cancer treatment scheduling and dynamic heterogeneity in social dilemmas of tumour acidity and vasculature Artem Kaznatcheev|Robert Vander Velde|Jacob G Scott|David Basanta H. Lee Moffitt Cancer Center and Research Institute;|University of South Florida;|H. Lee Moffitt Cancer Center and Research Institute and University of Oxford;|H. Lee Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/067397 2016-08-02 Biophysics Coupled Nosé-Hoover equations of motions without time scaling Ikuo Fukuda|Kei Moritsugu Osaka University;|Yokohama City University
http://dx.doi.org/10.1101/067348 2016-08-02 Systems Biology CC BY-NC The intertwined metabolism of Medicago truncatula and its nitrogen fixing symbiont Sinorhizobium meliloti elucidated by genome-scale metabolic models. Thomas Pfau|Nils Christian|Shyam K. Masakapalli|Lee J. Sweetlove|Mark G. Poolman|Oliver Ebenhoeh University of Luxembourg;|University of Aberdeen;|Indian Institute of Technology Mandi;|University of Oxford;|Oxford Brookes University;|Heinrich Heine University Duesseldorf
http://dx.doi.org/10.1101/067389 2016-08-02 Neuroscience CC BY-NC Dendrites of DG granule cells contribute to pattern separation by controlling sparsity Spyridon Chavlis|Panagiotis C Petrantonakis|Panayiota Poirazi Foundation for Research and Technology Hellas (FORTH);|Foundation for Research and Technology-Hellas (FORTH)
http://dx.doi.org/10.1101/067363 2016-08-02 Evolutionary Biology Beyond Brownian motion and the Ornstein-Uhlenbeck process: Stochastic diffusion models for the evolution of quantitative characters. Simon Phillip Blomberg University of Queensland
http://dx.doi.org/10.1101/067447 2016-08-02 Bioinformatics CC BY High-Quality Assembly of an Individual of Yoruban Descent Karyn Meltz Steinberg|Tina Graves-Lindsay|Valerie A Schneider|Mark J.P. Chaisson|Chad Tomlinson|John L Huddleston|Patrick Minx|Milinn Kremitzki|Derek Albrecht|Vincent Magrini|Sean McGrath|Archana Raja|Carl Baker|Lana Harshman|LaDeana W Hillier|Francoise Thibaud-Nissen|Nathan Bouk|Amy Ly|Chris Amemiya|Joyce Tang|Evan E Eichler|Robert S Fulton|Wesley C Warren|Deanna M Church|Richard K Wilson Washington University;|NIH;|University of Washington;|Benaroya Research Institute;|10x Genomics
http://dx.doi.org/10.1101/067306 2016-08-02 Ecology Fungi exposed to chronic nitrogen enrichment are less able to decay leaf litter Linda van Diepen|Serita Frey|Elizabeth Landis|Eric Morrison|Anne Pringle University of Wyoming;|University of New Hampshire;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/067322 2016-08-02 Evolutionary Biology CC BY-NC-ND The role of vertical symbiont transmission in altering cooperation and fitness of coral-Symbiodinium symbioses Carly D Kenkel|Line K Bay The Australian Institute of Marine Science
http://dx.doi.org/10.1101/067371 2016-08-02 Bioinformatics CC BY-NC A Scalable Data Access Layer to Manage Structured Heterogeneous Biomedical Data Giovanni Delussu|Luca Lianas|Francesca Frexia|Gianluigi Zanetti crs4
http://dx.doi.org/10.1101/067355 2016-08-02 Genomics CC BY-NC-ND Transcriptome-wide association study of schizophrenia and chromatin activity yields mechanistic disease insights Alexander Gusev|Nick Mancuso|Hilary K Finucane|Yakir Reshef|Lingyun Song|Alexias Safi|Edwin Oh|Steven McCaroll|Benjamin Neale|Roel Ophoff|Michael C O'Donovan|Nicholas Katsanis|Gregory E Crawford|Patrick F Sullivan|Bogdan Pasaniuc|Alkes L Price Harvard TH Chan School of Public Health;|University of California, Los Angeles;|Harvard University;|Duke University;|Harvard Medical School;|Broad Institute of MIT and Harvard;|Cardiff University;|University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/067066 2016-08-02 Biophysics CC BY-NC-ND Mutations in the catalytic domain of human β-cardiac myosin that cause early onset hypertrophic cardiomyopathy significantly increase the fundamental parameters that determine ensemble force and velocity Arjun S Adhikari|Kristina B Kooiker|Chao Liu|Saswata S Sarkar|Daniel Bernstein|James A Spudich|Kathleen M Ruppel Stanford University School of Medicine
http://dx.doi.org/10.1101/067132 2016-08-02 Bioinformatics CC BY One tagger, many uses - Illustrating the power of ontologies in dictionary-based named entity recognition Lars Juhl Jensen University of Copenhagen
http://dx.doi.org/10.1101/067256 2016-08-02 Bioinformatics CC BY Spherical: an iterative workflow for assembling metagenomic datasets Thomas Hitch|Chris Creevey Institute of Biological, Environmental and Rural Sciences (IBERS), Aberystwyth University, Aberystwy
http://dx.doi.org/10.1101/067231 2016-08-02 Genetics CC BY RECRUITMENT OF GROUPER BROODSTOCK ON THE BASIS OF SINGLE LOCUS DNA MARKERS Kennth Francis Rodrigues|Syarul Nataqain Baharum|Ahmad Zaidi Tani Universiti Malaysia Sabah;|Institute of Systems Biology, Universiti Kebangsaan Malaysia
http://dx.doi.org/10.1101/067108 2016-08-02 Bioinformatics Modeling translation elongation dynamics by deep learning reveals new insights into the landscape of ribosome stalling Sai Zhang|Hailin Hu|Jingtian Zhou|Xuan He|Jianyang Zeng Institute for Interdisciplinary Information Sciences, Tsinghua University;|School of Pharmaceutical Sciences, Tsinghua University
http://dx.doi.org/10.1101/067272 2016-08-02 Bioinformatics CC BY Improved long read correction for de novo assembly using an FM-index James M Holt|Jeremy R Wang|Corbin D Jones|Leonard McMillan University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/067215 2016-08-02 Bioinformatics CC BY Advances in the recovery of haplotypes from the metagenome Samuel M Nicholls|Wayne Aubrey|Kurt de Grave|Leander Schietgat|Chris J Creevey|Amanda Clare Aberystwyth University;|Flanders Make;|KU Leuven
http://dx.doi.org/10.1101/067116 2016-08-01 Neuroscience CC BY Bayesian Inference of Two-Dimensional Contrast Sensitivity Functions Xiaoxiao Wang|Huan Wang|Jinfeng Huang|Tzvetomir Tzvetanov|Yifeng Zhou CAS Key Laboratory of Brain Function and Diseases and School of Life Sciences
http://dx.doi.org/10.1101/067223 2016-08-01 Cell Biology Polo kinase phosphorylation determines C. elegans centrosome size and density by biasing SPD-5 toward an assembly-competent conformation Oliver Wueseke|David Zwicker|Anne Schwager|Yao Liang Wong|Karen Oegema|Frank Julicher|Anthony A Hyman|Jeffrey Woodruff Institute of Molecular Biotechnology;|School of Engineering and Applied Sciences, Harvard University;|Max Planck Institute of Molecular Cell Biology and Genetics;|Dept. of Cellular and Molecular Medicine, Ludwig Institute for Cancer Research, University of Cal;|Max Planck Institute for the Physics of Complex Systems
http://dx.doi.org/10.1101/067249 2016-08-01 Developmental Biology Different combinations of ErbB receptor dimers generate opposing signals that regulate cell proliferation in cardiac valve development Ryo Iwamoto|Naoki Mine|Hiroto Mizushima|Eisuke Mekada Osaka University;|CanBas Co., Ltd.;|Department of Cell Biology, Research Institute for Microbial Diseases, Osaka University
http://dx.doi.org/10.1101/067264 2016-08-01 Neuroscience CC BY-NC-ND Aging increases lateral but not local inhibition of orientation processing in primary visual cortex Zhengchun Wang|Shan Yu|Yu Fu|Yifeng Zhou|Tzvetomir Tzvetanov University of Science and Technology of China;|Institute of Automation;|Kunming University of Science and Technology
http://dx.doi.org/10.1101/067454 2016-08-03 Genetics Mutations in EBF3 disturb transcriptional profiles and underlie a novel syndrome of intellectual disability, ataxia and facial dysmorphism Frederike Leonie Harms|Katta Mohan Girisha|Andrew Alexander Hardigan|Fanny Kortum|Anju Shukla|Malik Alawi|Ashwin Dalal|Lauren Brady|Mark Tarnopolsky|Lynne M. Bird|Sophia Ceulemans|Martina Bebin|Kevin M. Bowling|Susan M. Hiatt|Edward J. Lose|Michelle Primiano|Wendy K. Chung|Jane Juusola|Zeynep C. Akdemir|Matthew Bainbridge|Wu-Lin Charng|Margaret Drummond-Borg|Mohammad K. Eldomery|Ayman W. El-Hattab|Mohammed A.M. Saleh|Stephane Bezieau|Benjamin Cogne|Bertrand Isidor|Sebastien Kury|James R. Lupski|Richard M. Myers|Gregory M. Cooper|Kerstin Kutsche Institute of Human Genetics, University Medical Center Hamburg-Eppendorf, Hamburg, Germany;|Department of Medical Genetics, Kasturba Medical College, Manipal University, Maniple, India;|HudsonAlpha Institute for Biotechnology, Huntsville, AL USA;|University Medical Center Hamburg-Eppendorf, Bioinformatics Service Facility, Hamburg, Germany;|Diagnostics Division, Centre for DNA Fingerprinting and Diagnostics, Hyderabad, Telangana, India;|Department of Pediatrics, McMaster University Medical Center, Hamilton, Ontario, L8N 3Z5, Canada;|Department of Pediatrics, University of California, San Diego, CA 92123, USA;|Department of Neurology, University of Alabama at Birmingham, Birmingham, AL USA;|Department of Genetics, University of Alabama at Birmingham, Birmingham, AL USA;|Department of Pediatrics and Medicine, Columbia University, New York NY 10032, USA;|GeneDx, Gaithersburg, MD 20877, USA;|Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA;|Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA;|Cook Childrens Genetic Clinic, Fort Worth, Texas, USA;|Department of Pediatrics, Tawam Hospital, Al-Ain, United Arab Emirates;|Section of Medical Genetics, Children's Hospital, King Fahad Medical City, Riyadh, Saudi Arabia;|CHU Nantes, Service de Genetique Medicale, Nantes CEDEX 1, France;|Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX
http://dx.doi.org/10.1101/067629 2016-08-03 Evolutionary Biology rehh 2.0: a reimplementation of the R package rehh to detect positive selection from haplotype structure. Mathieu Gautier|Alexander Klassmann|Renaud Vitalis INRA;|University of Koln
http://dx.doi.org/10.1101/067587 2016-08-03 Bioinformatics CC BY-NC-ND Conservation of co-evolving protein interfaces bridges prokaryote-eukaryote homologies in the twilight zone Juan Rodriguez-Rivas|Simone Marsili|David Juan|Alfonso Valencia Spanish National Cancer Research Centre
http://dx.doi.org/10.1101/067652 2016-08-03 Microbiology CC BY-NC-ND Rapid resistome mapping using nanopore sequencing Eric van der Helm|Lejla Imamovic|Mostafa M. Hashim Ellabaan|Anna Koza|Morten Otto Alexander O. A. Sommer Novo Nordisk Foundation Center for Biosustainability at the Technical University of Denmark
http://dx.doi.org/10.1101/067561 2016-08-03 Genomics GSuite HyperBrowser: integrative analysis of dataset collections across the genome and epigenome Boris Simovski|Daniel Vodak|Sveinung Gundersen|Diana Domanska|Abdulrahman Azab|Lars Holden|Marit Holden|Ivar Grytten|Knut Dagestad Rand|Finn Drablos|Morten Johansen|Antonio Mora|Christin Lund-Andersen|Bastian Fromm|Ragnhild Eskeland|Odd Stokke Gabrielsen|Sigve Nakken|Mads Bengtsen|Alexander Johan Nederbragt|Hildur Sif Thorarensen|Johannes Andreas Akse|Ingrid Glad|Eivind Hovig|Geir Kjetil Sandve University of Oslo;|Norwegian Computing Center;|NTNU - Norwegian University of Science and Technology;|Oslo University Hospital
http://dx.doi.org/10.1101/067611 2016-08-03 Bioinformatics CC BY-NC-ND DIABLO - an integrative, multi-omics, multivariate method for multi-group classification Amrit Singh|Benoit Gautier|Casey P. Shannon|Michael Vacher|Florian Rohart|Scott J Tebutt|Kim-Anh Le Cao University of British Columbia;|The University of Queensland Diamantina Institute;|PROOF Centre;|The University of Western Australia
http://dx.doi.org/10.1101/067603 2016-08-03 Animal Behavior and Cognition CC BY-NC-ND Habits without Values Kevin Miller|Amitai Shenhav|Elliot Ludvig Princeton University;|Brown University;|University of Warwick
http://dx.doi.org/10.1101/067660 2016-08-03 Evolutionary Biology Pollutants and insecticides drive local adaptation in African malaria mosquitoes Colince Kamdem|Caroline Fouet|Stephanie Gamez|Bradley J White University of California Riverside
http://dx.doi.org/10.1101/067579 2016-08-03 Neuroscience CC BY-NC Local expectation violations result in global activity gain in primary visual cortex Peter Kok|Lieke L.F. van Lieshout|Floris P. de Lange Princeton University;|Radboud University
http://dx.doi.org/10.1101/066399 2016-08-03 Plant Biology NUCLEAR FACTOR Y, subunit A (NF-YA) proteins positively regulate flowering and act through FLOWERING LOCUS T Chamindika Siriwardana|Nerina Gnesutta|Roderick Kumimoto|Daniel Jones|Zachary Myers|Roberto Mantovani|Ben F Holt University of Oklahoma;|Universita degli Studi di Milano;|University of California - Davis
http://dx.doi.org/10.1101/067520 2016-08-03 Plant Biology CC BY-NC-ND Morphometric analysis of Passiflora leaves II: divergent heteroblastic trajectories underlie the disparate leaf shapes among Passiflora species Daniel H Chitwood|Wagner C Otoni Donald Danforth Plant Science Center;|Universidade Federal de Vicosa
http://dx.doi.org/10.1101/067512 2016-08-03 Plant Biology CC BY-NC-ND Morphometric analysis of Passiflora leaves I: the relationship between landmarks of the vasculature and elliptical Fourier descriptors of the blade Daniel H Chitwood|Wagner C Otoni Donald Danforth Plant Science Center;|Universidade Federal de Vicosa
http://dx.doi.org/10.1101/067504 2016-08-03 Genomics CC BY-NC-ND Sequence elimination in hybrid offspring of wheat-Agropyron cristatum (L.) Gaertn introgression line Pubing3504 × common wheat cultivar Jing4839 Wu Xiaoyang|Chen Dan|Lu Yuqing|Zhang Jinpeng|Liu Weihua|Yang Xinming|Li Xiuquan|Du Juan|Li Lihui Chinese Academy of Agricultural Sciences, China
http://dx.doi.org/10.1101/067942 2016-08-04 Evolutionary Biology Recombination-driven genome evolution and stability of bacterial species Purushottam D Dixit|Tin Y Pang|Sergei Maslov Columbia University;|Heinrich-Heine-Universität;|University of Illinois Urbana-Champaign
http://dx.doi.org/10.1101/067926 2016-08-04 Ecology CC BY Community structure follows simple assembly rules in microbial microcosms Jonathan Friedman|Logan M Higgins|Jeff Gore Massachusetts Institute of Technology
http://dx.doi.org/10.1101/067934 2016-08-04 Genetics CC BY-ND Comprehensive population-based genome sequencing provides insight into hematopoietic regulatory mechanisms Michael Guo|Satish K Nandakumar|Jacob C Ulirsch|Seyedeh Maryam Zekavat|Jason D Buenrostro|Pradeep Natarajan|Rany Salem|Roberto Chiarle|Mario Mitt|Mart Kals|Kalle Parn|Krista Fischer|Lili Milani|Reedik Magi|Priit Palta|Stacey B Gabriel|Andres Metspalu|Eric S Lander|Sekar Kathiresan|Joel N Hirschhorn|Tonu Esko|Vijay G Sankaran Broad Institute of MIT and Harvard;|Boston Children's Hospital and Harvard Medical School;|Estonian Genome Center of the University of Tartu
http://dx.doi.org/10.1101/067967 2016-08-04 Epidemiology CC BY Insights into mortality patterns and causes of death through a process point of view James Anderson|Ting Li|David J Sharrow University of Washington;|Remnin University
http://dx.doi.org/10.1101/067843 2016-08-04 Neuroscience Fast and accurate spike sorting in vitro and in vivo for up to thousands of electrodes Pierre Yger|Giulia L. B. Spampinato|Elric Esposito|Baptiste Lefebvre|Stephane Deny|Christophe Gardella|Marcel Stimberg|Florian Jetter|Guenther Zeck|Serge Picaud|Jens Duebel|Olivier Marre Institut de la Vision;|NMI, Neurophysics Group, Reutligen
http://dx.doi.org/10.1101/067884 2016-08-04 Genomics CC BY-ND Single Cell Transcriptome Conservation in Cryopreserved Cells and Tissues Amy Guillaumet-Adkins|Gustavo Rodriguez-Esteban|Elisabetta Mereu|Alberto Villanueva|August Vidal|Marta Gut|Ivo Gut|Holger Heyn CNAG-CRG;|IDIBELL
http://dx.doi.org/10.1101/067819 2016-08-04 Evolutionary Biology CC BY-NC-ND Beyond the Hypercube: Evolutionary Accessibility of Fitness Landscapes with Realistic Mutational Networks Marcin Zagorski|Zdzislaw Burda|Bartlomiej Waclaw Institute of Science and Technology (IST) Austria;|Faculty of Physics and Applied Computer Science, AGH University of Science and Technology, Poland;|The University of Edinburgh
http://dx.doi.org/10.1101/067769 2016-08-04 Evolutionary Biology CC BY-NC-ND Genetic Diversity, Population Structure and Species Delimitation of Trialeurodes vaporariorum (Greenhouse whitefly) James M Wainaina|Paul De Barro|Laura Kubatko|Monica A Kehoe|Jagger Harvey|David Karanja|Laura Boykin The University of Western Australia;|CSIRO;|The Ohio State University;|Departments of Agriculture and Food Western Australia;|Biosciences eastern and central Africa (BecA/ILRI Hub) International Livestock Research Institute;|Kenya Agriculture and Livestock Research Organization;|The University of Western Australia, Australian Research Council Centre of Excellence in PEB
http://dx.doi.org/10.1101/067785 2016-08-04 Developmental Biology CC BY Accelerated cell divisions drive the outgrowth of the regenerating spinal cord in axolotls Fabian Rost|Aida Rodrigo Albors|Vladimir Mazurov|Lutz Brusch|Andreas Deutsch|Elly M Tanaka|Osvaldo Chara Center for Information Services and High Performance Computing, Technical University of Dresden;|Deutsche Forschungsgemeinschaft, Center for Regenerative Therapies Dresden
http://dx.doi.org/10.1101/067421 2016-08-04 Biophysics CC BY-NC-ND Modeling Hsp70/Hsp40 interaction by multi-scale molecular simulations and co-evolutionary sequence analysis Duccio Malinverni|Alfredo Jost Lopez|Paolo De Los Rios|Gerhard Hummer|Alessandro Barducci École Polytechnique Fédérale de Lausanne;|Max Planck Institute of Biophysics, Max-von-Laue-Str. 3, D-60438 Frankfurt am Main, Germany;|École Polytechnique Fédérale de Lausanne, Switzerland;|Université de Montpellier, CNRS, Centre de Biochimie Structurale, Montpellier, France
http://dx.doi.org/10.1101/067538 2016-08-04 Evolutionary Biology Evolution trajectories of snake genes and genomes revealed by comparative analyses of five-pacer viper Wei Yin|Zongji Wang|Qiye Li|Jinmin Lian|Yang Zhou|Bingzheng Lu|Lijun Jin|Pengxin Qiu|Pei Zhang|Wenbo Zhu|Bo Wen|Yijun Huang|Zhilong Lin|Bitao Qiu|Xingwen Su|Huanming Yang|Guojie Zhang|Guangmei Yan|Qi Zhou Sun Yat-sen University;|Zhejiang University;|China National Genebank, BGI-Shenzhen;|BGI-Shenzhen
http://dx.doi.org/10.1101/067876 2016-08-04 Cell Biology An RNA-binding tropomyosin recruits kinesin-1 dynamically to oskar mRNPs Imre Gaspar|Vasily Sysoev|Artem Komissarov|Anne Ephrussi European Molecular Biology Laboratory
http://dx.doi.org/10.1101/067868 2016-08-04 Cell Biology CC BY Adverse effects of culture media on human pluripotent stem cells Megha Prakash Bangalore|Syama Adhikarla|Odity Mukherjee|Mitradas.M Panicker National Centre for Biological Sciences;|Institute for Stem Cell Biology and Regenerative Medicine
http://dx.doi.org/10.1101/067900 2016-08-04 Systems Biology CC BY An Atlas of Human Kinase Regulation David Ochoa|Mindaugas Jonikas|Robert T Lawrence|Bachir El Debs|Joel Selkrig|Athanasios Typas|Judit Villen|Silvia Santos|Pedro Beltrao European Molecular Biology Laboratory, European Bioinformatics Institute;|MRC Clinical Sciences Centre, Imperial College London;|Department of Genome Sciences, University of Washington;|European Molecular Biology Laboratory (EMBL), Genome Biology Unit;|EMBL-EBI
http://dx.doi.org/10.1101/067918 2016-08-04 Microbiology Direct correlation between motile behavior and protein abundance in single cells Yann S Dufour|Sebastien Gillet|Nicholas W Frankel|Douglas B Weibel|Thierry Emonet Yale University (current: Michigan State University);|Yale University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/067793 2016-08-04 Ecology CC BY-NC-ND The genealogical decomposition of a matrix population model with applications to the aggregation of stages Francois Bienvenu|Erol Akcay|Stephane Legendre|David McCandlish Collège de France;|University of Pennsylvania;|Ecole Normale Supérieure
http://dx.doi.org/10.1101/067694 2016-08-04 Genetics CC BY-NC-ND Late Onset Alzheimer's disease risk variants in cognitive decline: The PATH Through Life Study Shea J Andrews|Debjani Das|Kaarin J Anstey|Simon Easteal John Curtin School of Medical Research, Australian National University;|Centre for Research on Ageing, Health and Wellbeing, Australian National University
http://dx.doi.org/10.1101/067801 2016-08-04 Bioinformatics BayesFM: a software program to fine-map multiple causative variants in GWAS identified risk loci. Ming Fang|Michel Georges Life Science College, Heilongjiang Bayi Argriculture University;|Unit of Animal Genomics, GIGA-R & Faculty of Veterinary Medicine, ULG
http://dx.doi.org/10.1101/067827 2016-08-04 Cell Biology GTSE1 tunes microtubule dynamics for chromosome alignment and segregation through MCAK inhibition Shweta Bendre|Arnaud Rondelet|Conrad Hall|Nadine Woestehoff|Yu-Chih Lin|Gary Brouhard|Alexander Bird Max Planck Institute of Molecular Physiology;|McGill University
http://dx.doi.org/10.1101/067751 2016-08-04 Biophysics CC BY-NC-ND Ultraslow water-mediated transmembrane interactions regulate the activation of A2A adenosine receptor Yoonji Lee|Songmi Kim|Sun Choi|Changbong Hyeon Ewha Womans University;|Korea Institute for Advanced Study
http://dx.doi.org/10.1101/067744 2016-08-04 Cell Biology CC BY-NC-ND Experimental Reconstitution of Chronic ER Stress in the Liver Reveals Feedback Suppression of Bip mRNA Expression Javier A. Gomez|D. Thomas Rutkowski University of Iowa;|University of Iowa Carver College of Medicine
http://dx.doi.org/10.1101/067892 2016-08-04 Neuroscience Low activity microstates during sleep Hiroyuki Miyawaki|Yazan Billeh|Kamran Diba University of Wisconsin - Milwaukee;|California Institute of Technology;|University of Wisconsin-Milwaukee
http://dx.doi.org/10.1101/067835 2016-08-04 Genetics Signatures of human European Paleolithic expansion shown by resequencing of non-recombining X-chromosome segments Pierpaolo Maisano Delser|Rita Neumann|Stephane Ballereau|Pille Hallast|Chiara Batini|Daniel Zadik|Mark Jobling University of Cambridge;|University of Leicester;|Cancer Research UK Cambridge Institute;|University of Tartu
http://dx.doi.org/10.1101/068049 2016-08-05 Bioinformatics CC BY-NC-ND PBrowse: A web-based platform for real-time collaborative exploration of genomic data Peter S Szot|Andrian Yang|Xin Wang|Chirag Parsania|Uwe Rohm|Koon Ho Wong|Joshua W. K. Ho Victor Chang Cardiac Research Institute;|University of Macau;|University of Sydney
http://dx.doi.org/10.1101/068114 2016-08-05 Genomics AN ISOCHORE FRAMEWORK UNDERLIES CHROMATIN ARCHITECTURE Kamel Jabbari|Giorgio Bernardi Max Planck Institute for Biology of Ageing;|Roma Tre University
http://dx.doi.org/10.1101/068189 2016-08-05 Genomics CC BY-NC-ND Ancient European dog genomes reveal continuity since the early Neolithic Laura Botigue|Shiya Song|Amelie Scheu|Shyamalika Gopalan|Amanda Pendleton|Matthew Oetjens|Angela Taravella|Timo Seregely|Andrea Zeeb-Lanz|Rose-Marie Arbogast|Dean Bobo|Kevin Daly|Martina Unterlander|Joachim Burger|Jeffrey Kidd|Krishna Veeramah Stony Brook;|University of Michigan;|Johannes Gutenberg-University Mainz;|University of Bamberg;|Department for Monumental Heritage Speyer;|CNRS UMR 7044-UDS;|Trinity College Dublin;|Johannes Gutenberg-University Mai;|Stony Brook University
http://dx.doi.org/10.1101/068098 2016-08-05 Bioinformatics Structural and Functional Analyses of PolyProline-II helices in Globular Proteins Prasun Kumar|Manju Bansal Indian Institute of Science
http://dx.doi.org/10.1101/068171 2016-08-05 Ecology Sympatry with the devil? Niche-based approach explains the mechanisms allowing 1 coexistence of native and non-native salmonids Camille Musseau|Simone Vincenzi|Dusan Jesensek|Stephanie Bouletreau|Frederic Santoul|Alain Jean Crivelli Freie Universität Berlin;|University of California, Santa Cruz;|Tolmin Angling Association;|Université de Toulouse;|Tour du Valat
http://dx.doi.org/10.1101/068015 2016-08-05 Biochemistry CC BY-ND On the estimation errors of KM and V from time-course experiments using the Michaelis-Menten equation Wylie Stroberg|Santiago Schnell University of Michigan Medical School
http://dx.doi.org/10.1101/068072 2016-08-05 Developmental Biology CC BY-ND A damped oscillator imposes temporal order on posterior gap gene expression in Drosophila Berta Verd|Erik Clark|Anton Crombach|Johannes Jaeger KLI Klosterneuburg;|University of Cambridge;|CIRB;|KI Klosterneuburg
http://dx.doi.org/10.1101/068064 2016-08-05 Systems Biology CC BY-ND Dynamic Maternal Gradients Control Timing and Shift-Rates for Gap Gene Expression Berta Verd|Anton Crombach|Johannes Jaeger KLI Klosterneuburg;|CIRB
http://dx.doi.org/10.1101/068106 2016-08-05 Genomics Population genomics of C. melanopterus using target gene capture data: demographic inferences and conservation perspectives Pierpaolo Maisano Delser|Shannon Corrigan|Matthew Hale|Chenhong Li|Michel Veuille|Serge Planes|Gavin Naylor|Stefano Mona University of Cambridge;|College of Charleston;|Medical University of South Carolina;|Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai;|EPHE;|CRIOBE-USR
http://dx.doi.org/10.1101/068056 2016-08-05 Genetics CC BY-NC-ND An autonomous meiosis-specific region of yeast Nup2 (hNup50) promotes normal meiotic chromosome dynamics in Saccharomyces cerevisiae. Daniel B. Chu|Sean M Burgess University of California, Davis
http://dx.doi.org/10.1101/068148 2016-08-05 Systems Biology Long-time analytic approximation of large stochastic oscillators: simulation, analysis and inference Giorgos Minas|David A Rand University of Warwick
http://dx.doi.org/10.1101/067850 2016-08-05 Genomics CC BY Overcoming the dichotomy: new insights into the genomic diversity of open and isolated European populations Paolo Anagnostou|Valentina Dominici|Cinzia Battaggia|Luca Pagani|Miguel Vilar|Spencer Wells|Davide Pettener|Stefania Sarno|Alessio Boattini|Paolo Francalacci|Vincenza Colonna|Giuseppe Vona|Carla Calo|Giovanni Destro Bisol|Sergio Tofanelli University of Rome;|University of Cambridge;|University of Pennsylvania;|National Geographic Society;|Univerisity of Bologna;|University of Sassari;|National Research Council (CNR);|University of Cagliari;|University of Pisa
http://dx.doi.org/10.1101/068007 2016-08-05 Genetics CC BY Identification of Brain Expression Quantitative Trait Loci Associated with Schizophrenia and Affective Disorders in Normal Brain Tissue Oneil G Bhalala|Artika P Nath|Michael Inouye|Christopher R Sibley The University of Melbourne;|Imperial College London
http://dx.doi.org/10.1101/068130 2016-08-05 Synthetic Biology Synthetic Photosynthetic Consortia Define Interactions Leading to Robustness and Photoproduction Stephanie G. Hays|Leo L.W. Yan|Pamela A. Silver|Daniel C. Ducat Harvard;|Michigan State University
http://dx.doi.org/10.1101/068122 2016-08-05 Bioinformatics CC BY-NC Fast and accurate de novo genome assembly from long uncorrected reads Robert Vaser|Ivan Sovic|Niranjan Nagarajan|Mile Sikic University of Zagreb, Faculty of Electrical Engineering and Computing;|Rudjer Boskovic Institute;|Genome Institute of Singapore
http://dx.doi.org/10.1101/068031 2016-08-05 Molecular Biology CC BY Removing bias against short sequences enables northern blotting to better complement RNA-seq for the study of small RNAs Yun S Choi|Lanelle O Edwards|Aubrey DiBello|Antony Merlin Jose University of Maryland;|University of Maryland College Park
http://dx.doi.org/10.1101/067678 2016-08-05 Bioinformatics CC BY Interactive online brain shape visualization Anisha Keshavan|Arno Klein|Benjamin Cipollini UCSF;|Sage Bionetworks;|UCSD
http://dx.doi.org/10.1101/067991 2016-08-05 Evolutionary Biology CC BY-NC-ND Evolution of simple multicellularity increases environmental complexity Maria Rebolleda-Gomez|William C. Ratcliff|Fankhauser Jonathon|Michael Travisano University of Minnesota;|Georgia Tech
http://dx.doi.org/10.1101/067702 2016-08-05 Bioinformatics CC BY Optimized implementations of voxel-wise degree centrality and local functional connectivity density mapping in AFNI Richard Craddock|Daniel Clark Nathan S. Kline Institute for Psychiatric Research;|Child Mind Institute
http://dx.doi.org/10.1101/068247 2016-08-06 Evolutionary Biology Extensive genetic diversity among populations of the malaria mosquito Anopheles moucheti revealed by population genomics Caroline Fouet|Colince Kamdem|Stephanie Gamez|Bradley J White University o California Riverside;|University of California Riverside
http://dx.doi.org/10.1101/068221 2016-08-06 Neuroscience Large-scale multivariate activation states of the human brain Richard H Chen|Takuya Ito|Kaustubh R Kulkarni|Michael W Cole Rutgers University
http://dx.doi.org/10.1101/068163 2016-08-06 Biophysics A FLIC motility assay reveals myosin-6 coordination limited by actin filament buckling Agata K Krenc|Jagoda J Rokicka|Ronald S Rock University of Chicago
http://dx.doi.org/10.1101/068254 2016-08-06 Neuroscience Cytoarchitectonic similarity is a wiring principle of the human connectome Alexandros Goulas|Rene Werner|Sarah F Beul|Dennis Saering|Martijn van den Heuvel|Lazaros C Triarhou|Claus C Hilgetag Department of Computational Neuroscience, University Medical Center Hamburg-Eppendorf;|rain Center Rudolf Magnus, Department of Psychiatry, University Medical Center Utrecht;|Laboratory of Theoretical and Applied Neuroscience, University of Macedonia
http://dx.doi.org/10.1101/068205 2016-08-06 Evolutionary Biology Chromosomal inversions facilitate chromosome-scale evolution in Anopheles funestus Caroline Fouet|Colince Kamdem|Bradley J White University of California Riverside
http://dx.doi.org/10.1101/068262 2016-08-06 Biochemistry How the AFF1/4 scaffold recruits the elongation factor ELL2 to promote HIV-1 proviral transcription Shiqian Qi|Zichong Li|Ursula Schulze-Gahmen|Goran Stjepanovic|Qiang Zhou|James Hurley State Key Laboratory of Biotherapy, West China Hospital, Sichuan University;|UC Berkeley
http://dx.doi.org/10.1101/068239 2016-08-06 Evolutionary Biology Genomic signatures of introgression at late stages of speciation in a malaria mosquito Colince Kamdem|Caroline Fouet|Stephanie Gamez|Bradley J White University of California Riverside;|UCR
http://dx.doi.org/10.1101/068213 2016-08-06 Evolutionary Biology Rapid expansion of immune-related gene families in the house fly, Musca domestica Timothy B. Sackton|Brian Lazzaro|Andrew Clark Harvard University;|Cornell University
http://dx.doi.org/10.1101/068338 2016-08-07 Bioinformatics CC BY ABySS 2.0: Resource-Efficient Assembly of Large Genomes using a Bloom Filter Shaun D Jackman|Benjamin P Vandervalk|Hamid Mohamadi|Justin Chu|Sarah Yeo|S Austin Hammond|Golnaz Jahesh|Hamza Khan|Lauren Coombe|Rene L Warren|Inanc Birol BC Cancer Agency Genome Sciences Centre
http://dx.doi.org/10.1101/068312 2016-08-07 Microbiology CC BY-NC-ND Genome Integration and Reactivation of the Virophage Mavirus In the Marine Protozoan Cafeteria roenbergensis Matthias G Fischer|Thomas Hackl Max Planck Institute for Medical Research
http://dx.doi.org/10.1101/068346 2016-08-07 Animal Behavior and Cognition Human inferences about sequences: A minimal transition probability model Florent Meyniel|Maxime Maheu|Stanislas Dehaene CEA
http://dx.doi.org/10.1101/068270 2016-08-07 Systems Biology CC BY-ND Fundamental principles governing sporulation efficiency: A network theory approach Camellia Sarkar|Saumya Gupta|Himanshu Sinha|Sarika Jalan Indian Institute of Technology Indore;|Tata Institute of Fundamental Research;|Indian Institute of Technology Madras
http://dx.doi.org/10.1101/068320 2016-08-07 Neuroscience Contextual connectivity: A framework for understanding the intrinsic dynamic architecture of large-scale functional brain networks Rastko Ciric|Jason Nomi|Lucina Uddin|Ajay Satpute Pomona College;|University of Miami
http://dx.doi.org/10.1101/068288 2016-08-07 Systems Biology Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells Stefan Semrau|Johanna Goldmann|Magali Soumillon|Tarjei S. Mikkelsen|Rudolf Jaenisch|Alexander van Oudenaarden Leiden University, Leiden, The Netherlands;|Whitehead Institute for Biomedical Research, Cambridge, USA;|Broad Institute, Cambridge, USA;|Hubrecht Institute, Utrecht, The Netherlands
http://dx.doi.org/10.1101/068403 2016-08-08 Biophysics The hidden treasure in your data: Phasing with unexpected weak anomalous scatterers from routine datasets Raghurama P Hegde|Steven C Almo|Udupi A Ramagopal Poornaprajna Institute of Scientific Research;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/068502 2016-08-08 Biochemistry Multiple binding modes of ibuprofen in human serum albumin identified by absolute binding free energy calculations Stefania Evoli|David Mobley|Rita Guzzi|Bruno Rizzuti University of Calabria;|Departments of Pharmaceutical Sciences and Chemistry
http://dx.doi.org/10.1101/068429 2016-08-08 Evolutionary Biology CC BY-NC-ND Dynamics and fate of beneficial mutations under lineage contamination by linked deleterious mutations Sophie Penisson|Tanya Singh|Paul D. Sniegowski|Philip J Gerrish Universite Paris-Est;|University of Pennsylvania;|Georgia Institute of Technology
http://dx.doi.org/10.1101/068460 2016-08-08 Plant Biology CC BY-NC-ND Into the Evening: Complex Interactions in the Arabidopsis circadian clock. He A Huang|Dmitri A. Nusinow Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/068387 2016-08-08 Ecology CC BY The fishing and natural mortality of large, piscivorous Bull Trout and Rainbow Trout in Kootenay Lake, British Columbia (2008-2013) Joseph Thorley|Greg Andrusak Poisson Consulting Ltd.;|BC Fish and Wildlife Branch
http://dx.doi.org/10.1101/068478 2016-08-08 Genomics CC BY recount: A large-scale resource of analysis-ready RNA-seq expression data Leonardo Collado-Torres|Abhinav Nellore|Kai Kammers|Shannon E Ellis|Margaret A Taub|Kasper D Hansen|Andrew E Jaffe|Ben Langmead|Jeffrey Leek Johns Hopkins Bloomberg School of Public Health;|Lieber Institute for Brain Development;|Johns Hopkins University
http://dx.doi.org/10.1101/068445 2016-08-08 Evolutionary Biology CC BY Population structure reduces the benefits from partner choice in mutualism Erol Akcay University of Pennsylvania
http://dx.doi.org/10.1101/068155 2016-08-08 Genomics CC BY-NC-ND No evidence for unknown archaic ancestry in South Asia Pontus Skoglund|Swapan Mallick|Nick Patterson|David Reich Harvard University;|Harvard Medical School;|MIT
http://dx.doi.org/10.1101/068080 2016-08-08 Evolutionary Biology CC BY-NC-ND Testing for local adaptation and evolutionary potential along altitudinal gradients in rainforest Drosophila: limitations of laboratory estimates. Eleanor K O'Brien|Megan Higgie|Alan Reynolds|Ary A Hoffmann|Jon R Bridle University of Bath;|James Cook University;|University of Glasgow;|University of Melbourne;|University of Bristol
http://dx.doi.org/10.1101/062729 2016-08-09 Cell Biology CC BY-NC-ND Palmitoylation of the oncogenic RhoGEF TGAT is dispensable for membrane affinity and consequent activation of RhoA Jakobus van Unen|Dennis Botman|Taofei Yin|Yi I. Wu|Mark A. Hink|Theodorus W.J. Gadella|Marten Postma|Joachim Goedhart University of Amsterdam;|University of Connecticut Health Center
http://dx.doi.org/10.1101/068569 2016-08-09 Ecology CC BY-NC-ND Compensation masks trophic cascades in complex food webs Ashkaan K Fahimipour|Kurt E Anderson|Richard J Williams University of Oregon;|University of California, Riverside;|Vibrant Data Inc.
http://dx.doi.org/10.1101/064550 2016-08-09 Microbiology Bacterial invasion of the pancreas revealed after analyses of the pancreatic cyst fluids Vilvapathy Narayanan|Wesley K Utomo|Marco J Bruno|Maikel P Peppelenbosch|Sergey R Konstantinov Erasmusmc
http://dx.doi.org/10.1101/068627 2016-08-09 Genomics CC BY-NC-ND Animals actively use at least half of the genome Warren R Francis|Gert Worheide Ludwig-Maximilians Universität München
http://dx.doi.org/10.1101/068601 2016-08-09 Animal Behavior and Cognition CC BY-NC Hierarchical Bayesian estimation of metacognitive efficiency from confidence ratings Stephen M Fleming University College London
http://dx.doi.org/10.1101/068536 2016-08-09 Genetics CC BY-NC Visualizing the Geography of Genetic Variants Joseph H Marcus|John Novembre University of Chicago
http://dx.doi.org/10.1101/068577 2016-08-09 Biochemistry CC BY Development and Application of Equilibrium Thermodynamic Models Describing Coupled Protein Oligomerization and Ligand Binding Martin L Rennie|Richard L Kingston National University of Ireland;|University of Auckland
http://dx.doi.org/10.1101/068684 2016-08-09 Genetics CC BY-NC-ND Polygenic analysis of schizophrenia and 19 immune diseases reveals modest pleiotropy Jennie G Pouget|Buhm Han|Emmanuel Mignot|Hanna M Ollila|Jonathan Barker|Sarah Spain|Nick Dand|Richard Trembath|Javier Martin|Maureen D Mayes|Lara Bossini-Castillo|Elena Lopez-Isac|Ying Jin|Stephanie Santorico|Richard A Spritz|Soumya Raychaudhuri|Jo Knight Centre for Addiction and Mental Health;|Asan Medical Center, Seoul, Republic of Korea;|Stanford University School of Medicine, Palo Alto, CA, USA;|Division of Genetics and Molecular Medicine, Kings College London, UK;|Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK;|Institute of Parasitology and Biomedicine Lopez-Neyra, Granada, Spain;|The University of Texas Health Science Center Houston, Houston, TX, USA;|University of Colorado School of Medicine, Aurora, CO, USA;|Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA;|Data Science Institute, Lancaster University, Lancaster, UK
http://dx.doi.org/10.1101/068585 2016-08-09 Neuroscience CC BY-NC-ND Oxytocin enhances intrinsic corticostriatal functional connectivity in women Richard Alexander Ingmar Bethlehem|Michael V. Lombardo|Meng-Chuan Lai|Bonnie Auyeung|Sarah Crockford|Julia Deakin|Sentil Soubramanian|Akeem Sule|Prantik Kundu|Valerie Voon|Simon Baron-Cohen Autism Research Centre, University of Cambridge;|University of Cyprus;|Department of Psychiatry, University of Toronto;|Department of Psychology, University of Edinburgh;|Cambridgeshire and Peterborough NHS Foundation Trust (CPFT), Cambridge, UK;|Brain Imaging Center, Icahn Institute of Medicine at Mt. Sinai;|Behavioural and Clinical Neuroscience Institute, University of Cambridge
http://dx.doi.org/10.1101/068668 2016-08-09 Cell Biology CC BY-NC-ND Excitability in the p53 network mediates robust signaling with tunable activation thresholds in single cells Gregor Moenke|Elena Christiano|Ana Finzel|Dhana Friedrich|Hanspeter Herzel|Martin Falcke|Alexander Loewer EMBL Heidelberg;|Berlin Institute for Medical Systems Biology;|Institute for Theoretical Biology, Charite and Humboldt University, Berlin;|Max Delbrueck Center in the Helmholtz Association, Berlin;|Technical University Darmstadt
http://dx.doi.org/10.1101/068544 2016-08-09 Ecology CC BY-NC-ND Remnant American Chestnut (Castanea dentata (Marsh.) Borkh.; Fagaceae) in Upland Forests of Northwestern New York Robert G. Laport University of Colorado-Boulder
http://dx.doi.org/10.1101/068510 2016-08-09 Evolutionary Biology CC BY-NC-ND Fitness costs of noise in biochemical reaction networks and the evolutionary limits of cellular robustness J. David Van Dyken University of Miami, United States
http://dx.doi.org/10.1101/068593 2016-08-09 Genomics CC BY-NC-ND Common schizophrenia alleles are enriched in mutation-intolerant genes and maintained by background selection Antonio F Pardinas|Peter Holmans|Andrew J Pocklington|Valentina Escott-Price|Stephan Ripke|Noa Carrera|Sophie E Legge|Sophie Bishop|Darren Cameron|Marian L Hamshere|Jun Han|Leon Hubbard|Amy Lynham|Kiran Mantripragada|Elliott Rees|James H MacCabe|Steven A McCarroll|Bernhard T Baune|Gerome Breen|Enda M Byrne|Udo Dannlowski|Thalia C Eley|Caroline Hayward|Nicholas G Martin|Andrew M McIntosh|Robert Plomin|David J Porteous|Naomi R Wray|David A Collier|Dan Rujescu|George Kirov|Michael J Owen|Michael C O'Donovan|James T R Walters MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University, UK;|Department of Psychiatry and Psychotherapy, Charité, Berlin, Germany;|Department of Psychosis Studies, IoPPN, King's College London, UK;|Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard, Cambridge, MA, USA;|Discipline of Psychiatry, University of Adelaide, Australia;|MRC Social, Genetic and Developmental Psychiatry Centre, IoPPN, King's College London, UK;|Queensland Brain Institute, University of Queensland, Brisbane, Australia;|Department of Psychiatry and Psychotherapy, University of Muenster, Muenster, Germany;|Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, UK;|School of Psychology, University of Queensland, Brisbane, Australia;|Division of Psychiatry, University of Edinburgh, Edinburgh, UK;|Eli Lilly and Company Ltd, Lilly Research Laboratories, Erl Wood Manor, Surrey, UK;|Department of Psychiatry, University of Halle, Halle, Germany
http://dx.doi.org/10.1101/068551 2016-08-09 Ecology Environmental DNA enables detection of terrestrial mammals from forest pond water Masayuki Ushio|Hisato Fukuda|Toshiki Inoue|Kobayashi Makoto|Osamu Kishida|Keiichi Sato|Koichi Murata|Masato Nikaido|Tetsuya Sado|Yukuto Sato|Masamichi Takeshita|Wataru Iwasaki|Hiroki Yamanaka|Michio Kondoh|Masaki Miya Ryukoku University;|Department of Environmental Solution Technology, Ryukoku University;|Teshio Experimental Forest, Hokkaido University;|Tomakomai Experimental Forest, Hokkaido University;|Okinawa Churashima Research Center;|College of Bioresource Science, Nihon University;|School of Life Science and Technology, Tokyo Institute of Technology;|Department of Zoology, Natural History Museum and Institute, Chiba;|Tohoku Medical Megabank Organization, Tohoku University;|Department of Biological Science, The University of Tokyo
http://dx.doi.org/10.1101/068528 2016-08-09 Genomics CC BY-ND Improvement of the threespine stickleback (Gasterosteus aculeatus) genome using a Hi-C-based Proximity-Guided Assembly method Catherine L. Peichel|Shawn T. Sullivan|Ivan Liachko|Michael A. White Fred Hutchinson Cancer Research Center;|Phase Genomics;|University of Georgia
http://dx.doi.org/10.1101/068858 2016-08-10 Epidemiology CC BY-NC-ND Survival of Captive Chimpanzees: Impact of Location and Transfers Michael Lauer National Institutes of Health
http://dx.doi.org/10.1101/068692 2016-08-10 Pharmacology and Toxicology CC BY-ND The Powers and Perils of Post-Marketing Data Analysis: Quantification and Mitigation of Biases in the FDA Adverse Event Reporting System Mateusz Maciejewski|Eugen Lounkine|Steven Whitebread|Pierre Farmer|Brian K. Shoichet|Laszlo Urban Pfizer, Inc.;|Novartis Institutes for Biomedical Research;|University of California, San Francisco
http://dx.doi.org/10.1101/068916 2016-08-10 Bioinformatics Bartender: an ultrafast and accurate clustering algorithm to count barcode and amplicon reads Lu Zhao|Zhimin Liu|Sasha F. Levy|Song Wu Stony Brook University
http://dx.doi.org/10.1101/068932 2016-08-10 Evolutionary Biology CC BY-NC-ND Modeling the multiple facets of speciation-with-gene-flow towards improving divergence history inference of a recent fish adaptive radiation. Clement Rougeux|Louis Bernatchez|Pierre-Alexandre Gagnaire Universite Laval;|Departement de biologie, Institut de Biologie Integrative et des Systemes (IBIS), Universite Laval;|Institut des Sciences de Evolution de Montpellier, Universite Montpellier 2 - CNRS, UMR 5554, SMEL
http://dx.doi.org/10.1101/068718 2016-08-10 Evolutionary Biology CC BY-NC-ND The frequency spectrum of chromatin accessibility in Yorubans points toward a significant role of random genetic drift in shaping the chromatin landscape Mariah Weavil-Abueg|Joshua G Schraiber University of Washington;|Temple University
http://dx.doi.org/10.1101/068833 2016-08-10 Neuroscience Contextual Fear Conditioning in Zebrafish Justin W Kenney|Ian C Scott|Sheena A Josselyn|Paul W Frankland The Hospital for Sick Children
http://dx.doi.org/10.1101/068841 2016-08-10 Bioinformatics CC BY-NC-ND Scale-Free Exponents of Resting State are Biomarkers of Neuro-Typical and Atypical Brain Activity Stephen Jose Hanson|Dana Mastrovito|Catherine Hanson|Joe Ramsey|Clark Glymour Rutgers Unversity;|CMU
http://dx.doi.org/10.1101/068791 2016-08-10 Systems Biology Using approximate Bayesian computation to quantify cell-cell adhesion parameters in a cell migratory process Robert Ross|Ruth Baker|Matthew Ford|Richard Mort|Christian Yates University of Oxford;|University of Edinburgh;|University of Bath
http://dx.doi.org/10.1101/068825 2016-08-10 Bioinformatics CC BY-NC Evaluating the genetic diagnostic power of exome sequencing: Identifying missing data. Pascual Lorente-Arencibia|Deyan Guacaran|Antonio Tugores Complejo Hospitalario Universitario Insular Materno Infantil
http://dx.doi.org/10.1101/068775 2016-08-10 Bioinformatics CC BY-NC-ND CIDR: Ultrafast and accurate clustering through imputation for single cell RNA-Seq data Peijie Lin|Michael Troup|Joshua W. K. Ho Victor Chang Cardiac Research Institute
http://dx.doi.org/10.1101/068635 2016-08-10 Bioinformatics A complete tool set for molecular QTL discovery and analysis Olivier Delaneau|Halit Ongen|Andrew Anand Brown|Alexandre Fort|Nikolaos Panousis|Emmanouil Dermitzakis University of Geneva
http://dx.doi.org/10.1101/068734 2016-08-10 Ecology CC BY-NC-ND A comparison of Species Distribution Modeling approaches for an under-sampled parasite of public health importance, Echinococcus multilocularis. Heather M Williams|Brian Egan|Katharina Dittmar State University of New York at Buffalo;|University at Buffalo
http://dx.doi.org/10.1101/068759 2016-08-09 Synthetic Biology CC BY-NC-ND Analytic framework for stochastic binary biological switches Guilherme Innocentini|Sarah Guiziou|Jerome Bonnet|Ovidiu Radulescu IME - USP;|CBS - Montpellier - France;|Universite de Montpellier
http://dx.doi.org/10.1101/068742 2016-08-09 Molecular Biology RNase H enables efficient repair of R-loop induced DNA damage Jeremy D. Amon|Douglas Koshland University of California, Berkeley
http://dx.doi.org/10.1101/069229 2016-08-11 Bioinformatics CC BY-NC-ND Tissue-specific functional effect prediction of genetic variation and applications to complex trait genetics Daniel Backenroth|Krzysztof Kiryluk|Bin Xu|Lynn Pethukova|Badri Vardarajan|Ekta Khurana|Angela Christiano|Joseph Buxbaum|Iuliana Ionita-Laza Columbia University;|Weill Medical College, Cornell University;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/069260 2016-08-11 Systems Biology CC BY-NC-ND Inferring Fitness Landscapes and Selection on Phenotypic States from Single-Cell Genealogical Data Takashi Nozoe|Edo Kussell|Yuichi Wakamoto University of Tokyo;|New York University
http://dx.doi.org/10.1101/069187 2016-08-11 Biochemistry Biotinylation by antibody recognition - A novel method for proximity labeling Daniel Zvi Bar|Kathleen Atkatsh|Urraca Tavarez|Michael R Erdos|Yosef Gruenbaum|Francis S. Collins National Human Genome Research Institute;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/068783 2016-08-11 Developmental Biology CC BY Conserved traits of spiralian development in the bryozoan Membranipora membranacea Bruno Cossermelli Vellutini|Jose M Martin-Duran|Andreas Hejnol Sars Centre, University of Bergen
http://dx.doi.org/10.1101/068999 2016-08-11 Genomics CC BY-NC-ND Bootstrat: Population Informed Bootstrapping for Rare Variant Tests Hailiang Huang|Gina M Peloso|Daniel Howrigan|Barbara Rakitsch|Carl Johann Simon-Gabriel|Jacqueline I Goldstein|Mark J Daly|Karsten Borgwardt|Benjamin M Neale Massachusetts General Hospital;|Max Planck Institute for Developmental Biology and Max Planck Institute for Intelligent Systems;|Eberhard Karls Universitat Tubingen;|Machine Learning and Computational Biology Lab, Department Biosystems Science and Engineering
http://dx.doi.org/10.1101/068908 2016-08-11 Bioengineering CC BY-NC Tunable synthetic transcription factors assembled from TALE-like repeat elements Orlando de Lange|Niklas Schandry|Markus Wunderlich|Kenneth Berendzen|Thomas Lahaye University of Washington;|University of Tuebingen
http://dx.doi.org/10.1101/069104 2016-08-11 Systems Biology CC BY-NC-ND IMAN: Interlog protein network reconstruction, Matching and ANalysis Mohieddin Jafari|Payman Nickchi|Abdollah Safari|Soheil Jahangiri Tazehkand|Mehdi Mirzaie Pasteur Institute of Iran;|Simon Fraser University;|IPM;|Tarbiat Modares University
http://dx.doi.org/10.1101/069179 2016-08-11 Neuroscience CC BY iELVis: An open source MATLAB toolbox for localizing and visualizing human intracranial electrode data David M. Groppe|Stephan Bickel|Andrew R. Dykstra|Xiuyuan Wang|Pierre Megevand|Manuel R. Mercier|Fred A. Lado|Ashesh D. Mehta|Christopher J. Honey Feinstein Institute for Medical Research; University of Toronto;|Montefiore Medical Center; Stanford University;|Ruprecht-Karls-Universität Heidelberg;|New York University School of Medicine;|Feinstein Institute for Medical Research; Hôpitaux Universitaires de Genève;|Montefiore Medical Center; Centrede Recherche Cerveauet Cognition; Albert Einstein College of Med.;|Montefiore Medical Center; Albert Einstein College of Medicine;|Hofstra Northwell School of Medicine; Feinstein Institute for Medical Research;|University of Toronto
http://dx.doi.org/10.1101/069021 2016-08-11 Molecular Biology ChIP-exo interrogation of Crp, DNA, and RNAP holoenzyme interactions Haythem Latif|Stephen Federowicz|Ali Ebrahim|Janna Tarasova|Richard Szubin|Jose Utrilla|Karsten Zengler|Bernhard Palsson University of California San Diego
http://dx.doi.org/10.1101/069153 2016-08-11 Bioinformatics CC BY-NC-ND CAMSA: a Tool for Comparative Analysis and Merging of Scaffold Assemblies Sergey S. Aganezov|Max A. Alekseyev The George Washington University
http://dx.doi.org/10.1101/069112 2016-08-11 Evolutionary Biology CC BY-NC Exploring evolutionary relationships across the genome using topology weighting Simon H. Martin|Steven M. Van Belleghem University of Cambridge;|University of Puerto Rico
http://dx.doi.org/10.1101/068353 2016-08-11 Neuroscience CC BY-NC-ND Lingering representations of stimulus history at encoding influence recall organization Stephanie C.Y. Chan|Marissa C. Applegate|Neal W Morton|Sean M. Polyn|Kenneth A. Norman Princeton University;|The University of Texas at Austin;|Vanderbilt University
http://dx.doi.org/10.1101/069047 2016-08-11 Neuroscience Dopaminergic drugs decrease loss aversion in Parkinson's disease with but not without depression Monique HM Timmer|Guillaume Sescousse|Rianne AJ Esselink|Payam Piray|Roshan Cools Donders Institute for Brain, Cognition and Behaviour, Radboud University
http://dx.doi.org/10.1101/068965 2016-08-11 Biophysics Optogenetically controlled cargo shows full length human myosin VI integrates activation signals in vivo and in vitro Alexander R French|Tobin R Sosnick|Ronald Rock The University of Chicago;|University of Chicago
http://dx.doi.org/10.1101/068940 2016-08-11 Bioinformatics CC BY-NC Gene expression markers of Tumor Infiltrating Leukocytes Patrick Danaher|Sarah Warren|Lucas Dennis|Leonard D'Amico|Andrew White|Mary L Disis|Melissa A Geller|Kunle Odunsi|Joseph Beechem|Stephen P Fling NanoString Technologies;|Tumor Vaccine Group, University of Washington;|Department of Medicine, Division of Oncology, University of Washington;|Department of Obstetrics, Gynecology and Women's Health, University of Minnesota;|Department of Gynecologic Oncology and Center for Immunotherapy, Roswell Park Cancer Institute
http://dx.doi.org/10.1101/069070 2016-08-11 Genetics CC BY-NC Rapid evolution of distinct Helicobacter pylori subpopulations in the Americas Kaisa Thorell|Koji Yahara|Elvire Berthenet|Daniel J Lawson|Ikuko Kato|Alfonso Tenorio Mendez|Federico Canzian|Maria Mercedes Bravo|Rumiko Suzuki|Yoshio Yamaoka|Javier Torres|Samuel K Sheppard|Daniel Falush Dept. of Microbiology, Tumour and Cell Biology, Karolinska Institutet, Sweden;|Dept. of Bacteriology II, National Institute of Infectious Diseases, Japan;|Medical Microbiology and Infectious Disease group, Swansea University, Wales;|Integrative Epidemiology Unit, School of Social and Community Medicine, University of Bristol, UK;|Karmanos Cancer Institute, Wayne State University, United States;|Escuela Nacional de Ciencias Biologicas, IPN, Mexico;|German Cancer Center, Heidelberg;|Grupo de Investigacion en Biologia del Cancer, Instituto Nacional de Cancerologia, Colombia;|Dept. of Environmental and Preventive Medicine, Oita University Faculty of Medicine, Japan;|Unidad de Investigacion en Enfermedades Infecciosas, UMAE Pediatria, IMSS, Mexico;|Milner Center for Evolution, Dept. of Biology and Biochemistry, University of Bath, UK
http://dx.doi.org/10.1101/069120 2016-08-11 Genetics CC BY-NC-ND Exaggerated CpH Methylation in the Autism-Affected Brain Shannon E Ellis|Simone Gupta|Anna Moes|Andrew B West|Shannon E Ellis Johns Hopkins University School of Medicine;|University of Alabama-Birmingham
http://dx.doi.org/10.1101/069096 2016-08-11 Systems Biology CC BY-NC-ND DeepWAS: Directly integrating regulatory information into GWAS using deep learning supports master regulator MEF2C as risk factor for major depressive disorder Gokcen Eraslan|Janine Arloth|Jade Martins|Stella Iurato|Darina Czamara|Elisabeth B. Binder|Fabian J. Theis|Nikola S. Mueller Helmholtz Zentrum Muenchen;|Max Planck Institute of Psychiatry, Munich
http://dx.doi.org/10.1101/068767 2016-08-11 Biophysics Dissection of molecular assembly dynamics by tracking orientation and position of single molecules in live cells Shalin B Mehta|Molly McQuilken|Patrick La Riviere|Patricia Occhipinti|Amitabh Verma|Rudolf Oldenbourg|Amy S Gladfelter|Tomomi Tani Marine Biological Laboratory;|Department of Biological Sciences, Dartmouth College;|Department of Radiology, University of Chicago;|Eugene Bell Center for Regenerative Biology and Tissue Engineering, Marine Biological Laboratory;|Department of Biology, University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/067546 2016-08-11 Genomics CC BY-NC-ND Whole genome sequencing of Plasmodium falciparum from dried blood spots using selective whole genome amplification Samuel O. Oyola|Cristina Valente Ariani|William Hamilton|Mihir Kekre|Lucas Amenga-Etego|Anita Ghansah|Gavin R. Rutledge|Seth Redmond|Magnus Manske|Dushyanth Jyothi|Chris G. Jacob|Thomas Otto|Kirk Rockett|Chris I. Newbold|Matthew Berriman|Dominic P. Kwiatkowski International Livestock Research Institute;|Wellcome Trust Sanger Institute;|Wellcome Trust Sanger Institute, Hinxton CB10 1SA, UK;|Navrongo Health Research Centre, Post office box 114, Navrongo, U. E. R. Ghana;|Noguchi Memorial Institute for Medical Research, University of Ghana, P. O. Box LG 581, Legon, Accra;|Broad Institute, 415 Main St, Cambridge, MA 02142, USA;|Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK;|Weatherall Institute of Molecular Medicine, University of Oxford, Oxford OX3 9DS, UK
http://dx.doi.org/10.1101/068957 2016-08-10 Evolutionary Biology CC BY-NC-ND Phylogenomic Analysis of Ants, Bees and Stinging Wasps: Improved Taxon Sampling Enhances Understanding of Hymenopteran Evolution Michael G. Branstetter|Bryan N. Danforth|James P. Pitts|Brant C. Faircloth|Philip S. Ward|Matthew L. Buffington|Michael W. Gates|Robert R. Kula|Sean G. Brady University of Utah;|Cornell University;|Utah State University;|Louisiana State University;|University of California, Davis;|US Department of Agriculture;|Smithsonian Institution
http://dx.doi.org/10.1101/069062 2016-08-12 Neuroscience Reward learning deficits in Parkinson's disease depend on depression Monique HM Timmer|Guillaume Sescousse|Marieke E van der Schaaf|Rianne AJ Esselink|Roshan Cools Donders Institute for Brain, Cognition and Behaviour, Radboud University;|Radboud University Medical Center, Department of Neurology and Parkinson Centre Nijmegen (ParC)
http://dx.doi.org/10.1101/069286 2016-08-12 Evolutionary Biology Gene-culture co-inheritance of a behavioral trait. Elliot G Aguilar|Erol Akcay University of Pennsylvania
http://dx.doi.org/10.1101/068809 2016-08-12 Genomics CC BY-NC-ND Highly parallel direct RNA sequencing on an array of nanopores Daniel R Garalde|Elizabeth A Snell|Daniel Jachimowicz|Andrew J Heron|Mark Bruce|Joseph Lloyd|Anthony Warland|Nadia Pantic|Tigist Admassu|Jonah Ciccone|Sabrina Serra|Jemma Keenan|Samuel Martin|Luke McNeill|Jayne Wallace|Lakmal Jayasinghe|Chris Wright|Javier Blasco|Botond Sipos|Stephen Young|Sissel Juul|James Clarke|Daniel J Turner Oxford Nanopore Technologies
http://dx.doi.org/10.1101/069203 2016-08-12 Ecology Stochastic competitive exclusion leads to a cascade of species extinctions Jose A Capitan|Sara Cuenda|David Alonso Technical University of Madrid;|Universidad Autonoma de Madrid;|Spanish Council for Scientific Research
http://dx.doi.org/10.1101/069302 2016-08-12 Bioinformatics CC BY-ND phyC: Clustering cancer evolutionary trees Yusuke Matsui|Atsushi Niida|Ryutaro Uchi|Koshi Mimori|Satoru Miyano|Teppei Shimamura Division of Systems Biology, Nagoya University Graduate School of Medicine, Nagoya, Japan;|Health Intelligence Center, The Institute of Medical Science, The University of Tokyo, Japan;|Department of Otorhinolaryngology, Graduate School of Medical Sciences, Kyushu University;|Department of Surgery, Kyushu University Beppu Hospital, Beppu, Japan;|Human Genome Center, Institute of Medical Science, The University of Tokyo, Japan
http://dx.doi.org/10.1101/069351 2016-08-12 Genomics Recurrent promoter mutations in melanoma are defined by an extended context-specific mutational signature Johan Fredriksson|Erik Larsson Sahlgrenska Academy at University of Gothenburg
http://dx.doi.org/10.1101/069245 2016-08-12 Bioinformatics CC BY-NC-ND Efficient randomization of biological networks while preserving functional characterization of individual nodes Francesco Iorio|Andrea Gobbi|Thomas Cokelaer|Marti Bernardo Faura|Giuseppe Jurman|Julio Saez-Rodriguez European Molecular Biology Laboratory;|Fondazione Bruno Kessler;|Institut Pasteur -Bioinformatics and Biostatistics Hub;|Joint Research Centre for Computational Biomedicine (JRC-COMBINE), RWTH Aachen University
http://dx.doi.org/10.1101/069161 2016-08-12 Molecular Biology ARGLU1 is a Glucocorticoid Receptor Coactivator and Splicing Modulator Important in Stress Hormone Signaling and Brain Development Lilia Magomedova|Jens Tiefenbach|Emma Zilberman|Veronique Voisin|Melanie Robitaille|Serge Gueroussov|Manuel Irimia|Debashish Ray|Rucha Patel|ChangJiang Xu|Pancharatnam Jeyasuria|Gary D. Bader|Timothy R. Hughes|Henry Krause|Benjamin J. Blencowe|Stephane Angers|Carolyn L. Cummins University of Toronto;|Wayne State University
http://dx.doi.org/10.1101/069369 2016-08-12 Neuroscience CC BY The field of view available to the cortical reading circuitry Rosemary Le|Nathan Witthoft|Michal Ben-Shachar|Brian Wandell Stanford University;|Bar Ilan University
http://dx.doi.org/10.1101/069013 2016-08-12 Epidemiology CC BY-NC Planning horizon affects prophylactic decision-making and epidemic dynamics Luis G. Nardin|Craig R. Miller|Benjamin J. Ridenhour|Stephen M. Krone|Paul Joyce|Bert O. Baumgaertner University of Idaho
http://dx.doi.org/10.1101/069195 2016-08-12 Epidemiology New method to reconstruct phylogenetic and transmission trees with sequence data from infectious disease outbreaks Don Klinkenberg|Jantien Backer|Xavier Didelot|Caroline Colijn|Jacco Wallinga RIVM (National Institute for Public Health and the Environment);|Imperial College London
http://dx.doi.org/10.1101/069039 2016-08-12 Biophysics Physical model of the sequence-to-function map of proteins Tsvi Tlusty|Albert Libchaber|Jean-Pierre Eckmann Institute for Advanced Study;|Rockefeller University;|University of Geneva
http://dx.doi.org/10.1101/069377 2016-08-12 Cell Biology Loss of a doublecortin (DCX) domain containing protein causes structural defects in a tubulin-based organelle of Toxoplasma gondii and impairs host cell invasion. Eiji Nagayasu|Yu-chen Hwang|Jun Liu|John Murray|Ke Hu University of Miyazaki;|Nikon Instruments Inc.;|Indiana University
http://dx.doi.org/10.1101/069310 2016-08-12 Biophysics CC BY A Single Nucleotide Resolution Model for Large-Scale Simulations of Double Stranded DNA Yair Augusto Gutierrez Fosado|Davide Michieletto|Jim Allan|Chris Brackley|Oliver Henrich|Davide Marenduzzo University of Edinburgh;|Institute of Genetics and Molecular Medicine, MRC Human Ge- netics Unit, University of Edinburgh
http://dx.doi.org/10.1101/068882 2016-08-12 Developmental Biology Evo-engineering and the Cellular and Molecular Origins of the Vertebrate Spinal Cord Benjamin Steventon|Alfonso Martinez Arias University of Cambridge
http://dx.doi.org/10.1101/069252 2016-08-11 Neuroscience CC BY-NC-ND 3-5 Hz membrane potential oscillations decrease the gain of neurons in visual cortex Michael C Einstein|Pierre-Olivier Polack|Peyman Golshani University California, Los Angeles;|Rutgers, The State University of New Jersey
http://dx.doi.org/10.1101/069278 2016-08-11 Neuroscience CC BY-ND Dynamic representation of time in brain states Fernanda Dantas Bueno|Vanessa Carneiro Morita|Raphael Y Camargo|Marcelo B Reyes|Marcelo Salvador Caetano|Andre M Cravo Universidade Federal do ABC
http://dx.doi.org/10.1101/069211 2016-08-11 Plant Biology Low-pH induced reversible reorganizations of chloroplast thylakoid membranes - as revealed by small-angle neutron scattering Renata Unnep|Otto Zsiros|Zsolt T Horcsik|Marton Marko|Anjana Jajoo|Joachim Kohlbrecher|Gyozo Garab|Gergely Nagy Wigner Research Centre for Physics, Institute for Solid State Physics and Optics, Hungarian Academy;|Institute of Plant Biology, Biological Research Center, Hungarian Academy of Sciences;|College of Nyiregyhaza, Institute of Environmental Science, H4400, Nyiregyhaza, Hungary;|School of Life Science, Devi Ahilya University, Khandwa Road, Indore 452 001, India;|Paul Scherrer Institute, Laboratory for Neutron Scattering and Imaging, Switzerland
http://dx.doi.org/10.1101/069237 2016-08-11 Neuroscience Differential state-dependence of low and high firing neurons in the hippocampus Hiroyuki Miyawaki|Kamran Diba University of Wisconsin - Milwaukee;|University of Wisconsin-Milwaukee
http://dx.doi.org/10.1101/069427 2016-08-14 Ecology CC BY-NC climwin: An R Toolbox for Climate Window Analysis Liam D. Bailey|Martijn van de Pol Australian National University;|Australian National University; Netherlands Institute of Ecology
http://dx.doi.org/10.1101/069534 2016-08-14 Genomics Mapping eQTL by leveraging multiple tissues and DNA methylation Chaitanya R Acharya|Kouros Owzar|Andrew S Allen Duke University
http://dx.doi.org/10.1101/069500 2016-08-14 Bioinformatics CC BY OncoSimulR: genetic simulation of cancer progression with arbitrary epistasis and mutator genes Ramon Diaz-Uriarte Department of Biochemistry, Instituto de Investigaciones Biomedicas ``Alberto Sols'' (UAM-CSIC)
http://dx.doi.org/10.1101/069526 2016-08-14 Bioinformatics CC BY-NC-ND Peptide partitions and protein identification: a computational analysis G Sampath Unaffiliated
http://dx.doi.org/10.1101/069518 2016-08-14 Evolutionary Biology CC BY A unifying comparative phylogenetic framework including traits coevolving across interacting lineages Marc Manceau|Amaury Lambert|Helene Morlon Institut de biologie de l'Ecole Normale Superieure;|Laboratoire Probabilites et Modeles Aleatoires, UPMC Univ Paris 06;|Institut de Biologie de l'Ecole Normale Superieure
http://dx.doi.org/10.1101/069294 2016-08-14 Evolutionary Biology CC BY-NC-ND A functional analysis of the contribution of climatic niche divergence to adaptive radiation Alex R Gunderson|D. Luke Mahler|Manuel Leal San Francisco State University;|University of Toronto;|University of Missouri
http://dx.doi.org/10.1101/069393 2016-08-14 Genetics CC BY-NC Clinical Utility of Expanded Carrier Screening: Reproductive Behaviors of At-Risk Couples Caroline Ghiossi|James D Goldberg|Imran S Haque|Gabriel A Lazarin|Kenny K Wong CSU Stanislaus;|Counsyl
http://dx.doi.org/10.1101/069542 2016-08-14 Systems Biology CC BY-NC A Systems-Level Model Reveals That 1,2-Propanediol Utilization Microcompartments Enhance Pathway Flux Through Intermediate Sequestration. Christopher M Jakobson|Marilyn F. Slininger|Danielle Tullman-Ercek|Niall M. Mangan Northwestern University;|University of California, Berkeley;|University of Washington
http://dx.doi.org/10.1101/069468 2016-08-14 CC BY How do Research Faculty in the Biosciences Evaluate Paper Authorship Criteria? Timothy Kassis Massachusetts Institute of Technology
http://dx.doi.org/10.1101/069336 2016-08-14 Biochemistry CC BY-NC Plant Cysteine Oxidases are Dioxygenases that Directly Enable Arginyl Transferase-Catalyzed Arginylation of N-End Rule Targets Mark D White|Maria Klecker|Richard Hopkinson|Daan Weits|Carolin Mueller|Christin Naumann|Rebecca O Neill|James Wickens|Tom N Grossmann|Nico Dissmeyer|Emily Flashman University of Oxford;|Leibniz Institute of Plant Biochemistry (IPB);|RWTH Aachen;|Max Planck Institute for Molecular Physiology
http://dx.doi.org/10.1101/069385 2016-08-14 Genomics Emergent rules for codon choice elucidated by editing rare arginine codons in Escherichia coli Michael G Napolitano|Matthieu Landon|Christopher J. Gregg|Marc J Lajoie|Lakshmi N. Govindarajan|Joshua A. Mosberg|Gleb Kuznetsov|Daniel B. Goodman|Oscar Vargas-Rodriguez|Farren J. Isaacs|Dieter Soll|George M. Church Harvard University;|Harvard University, Ecole des Mines de Paris, Mines Paristech;|Harvard University, University of Washington;|Yale University
http://dx.doi.org/10.1101/068726 2016-08-14 Molecular Biology CC BY-NC-ND High-resolution phenotypic landscape of the RNA Polymerase II trigger loop Chenxi Qiu|Olivia C. Erinne|Jui Dave|Ping Cui|Huiyan Jin|Nandhini Muthukrishnan|Leung K. Tang|Sabareesh Ganesh Babu|Kenny C. Lam|Paul J. Vandeventer|Ralf Strohner|Jan Van den Brulle|Sing-Hoi Sze|Craig D. Kaplan Texas A&M University;|Mississippi State University;|MorphoSys AG
http://dx.doi.org/10.1101/069708 2016-08-15 Genomics CC BY-NC-ND The large majority of intergenic sites in bacteria are selectively constrained, even when known regulatory elements are excluded Harry A Thorpe|Sion C Bayliss|Laurence D Hurst|Edward J Feil University of Bath
http://dx.doi.org/10.1101/069567 2016-08-15 Bioinformatics CC BY-NC-ND BinSanity: Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation Elaina Graham|John Heidelberg|Benjamin Tully University of Southern California
http://dx.doi.org/10.1101/069716 2016-08-15 Molecular Biology Transcriptomic Signatures for Ovulation in Vertebrates Dongteng Liu|Michael Brewer|Shixi Chen|Wanshu Hong|Yong Zhu Xiamen University;|East Carolina University
http://dx.doi.org/10.1101/069658 2016-08-15 Bioinformatics CC BY-NC-ND Statistical Association Mapping of Population-Structured Genetic Data Amir Najafi|Sepehr Janghorbani|Seyed Abolfazl Motahari|Emad Fatemizadeh Sharif University of Technology
http://dx.doi.org/10.1101/069633 2016-08-15 Bioinformatics CC BY scater: pre-processing, quality control, normalisation and visualisation of single-cell RNA-seq data in R Davis J McCarthy|Kieran R Campbell|Aaron T L Lun|Quin F Wills European Molecular Biology Laboratory - European Bioinformatics Institute (EMBL-EBI);|University of Oxford;|Cancer Research UK Cambridge Institute
http://dx.doi.org/10.1101/069641 2016-08-15 Neuroscience CC BY Memory Replay in Balanced Recurrent Networks Nikolay Chenkov|Henning Sprekeler|Richard Kempter Institute for Theoretical Biology, Humboldt-Universitaet zu Berlin;|Department of Software Engineering and Theoretical Computer Science, Technische Universitaet Berli
http://dx.doi.org/10.1101/069682 2016-08-15 Genomics Fast, scalable prediction of deleterious noncoding variants from functional and population genomic data Yi-Fei Huang|Brad Gulko|Adam Siepel Cold Spring Harbor Laboratory;|Cornell University
http://dx.doi.org/10.1101/069724 2016-08-15 Microbiology One-cell Doubling Evaluation by Living Arrays of Yeast, ODELAY! Thurston Herricks|David J Dilworth|Fred D Mast|Song Li|Jennifer J Smith|Alexander V Ratushny|John D Aitchison Institute for Systems Biology, United States
http://dx.doi.org/10.1101/069625 2016-08-15 Genomics CC BY-NC-ND Gene mapping of nine agronomic traits and genome assembly by resequencing a foxtail millet RIL population Xuemei NI|Qiuju Xia|Shu Cheng|Hui Li|Guangyu Fan|Houbao Zhang|Tao Guo|Ping Huang|Haitao Xiang|Qingchun Chen|Ning Li|Hongfeng Zou|Xuemei Cai|Xuejing Lei|Xiaoming Wang|Chengshu Zhou|Zhihai Zhao|Gengyun Zhang|Zhiwu Quan BGI-Shenzhen;|Zhangjiakou Academy of Agricultural Science, China
http://dx.doi.org/10.1101/069609 2016-08-15 Physiology CC BY Frank-Starling law and Bowditch phenomenon may have the common theoretical grounds Yuri Kamnev private initiative
http://dx.doi.org/10.1101/069492 2016-08-15 Evolutionary Biology CC BY-NC-ND Genome-scale rates of evolutionary change in bacteria Sebastian Duchene|Kathryn E Holt|Francois-Xavier Weill|Simon Le Hello|Jane Hawkey|David J Edwards|Mathieu Fourment|Edward C Holmes The University of Melbourne;|Institut Pasteur;|The University of Sydney;|University of Sydney
http://dx.doi.org/10.1101/069617 2016-08-15 Neuroscience CC BY Changes in brain morphology and working memory capacity over childhood Joe Bathelt|Susan Elizabeth Gathercole|Amy Johnson|Duncan Edward Astle MRC Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/064642 2016-08-15 Genomics The Detailed 3D Multi-Loop Aggregate/Rosette Chromatin Architecture and Functional Dynamic Organization of the Human and Mouse Genomes Tobias Aurelius Knoch|Malte Wachsmuth|Nick Kepper|Michael Lesnussa|Anis Abuseiris|A. M. Ali Imam|Petros Kolovos|Jessica Zuin|Christel E. M. Kockx|Rutger W. W. Brouwer|Harmen J. G. van de Werken|Wilfred F. J. van IJken|Kerstin S. Wendt|Frank G. Grosveld Biophysical Genomics, Dept. Cell Biology & Genetics, Erasmus Medical Center;|Cell Biology & Biophysics Unit, European Molecular Biology Laboratory;|Cell Biology, Dept. Cell Biology & Genetics, Erasmus MC;|Cohesin in Chromatin Structure and Gene Regulation, Dept. Cell Biology & Genetics, Erasmus MC;|Center for Biomics, Dept. Cell Biology & Genetics, Erasmus MC
http://dx.doi.org/10.1101/069591 2016-08-15 Molecular Biology CC BY Genome-wide analysis of lncRNAs and mRNAs expression during the differentiation of abdominal preadipocytes in chicken Tao Zhang|Xiangqian Zhang|Kunpeng Han|Genxi Zhang|Jinyu Wang|Kaizhou Xie|Qian Xue Yangzhou University;|Yanghzou University
http://dx.doi.org/10.1101/068676 2016-08-16 Genomics Next generation whole genome sequencing of Plasmodium falciparum using NextSeq500 technology in India Alassane Mbengue|Pragya Namdev|Tarkeshwar Kumar|Kasturi Haldar|Souvik Bhattacharjee University of Notre Dame;|Jawaharlal Nehru University
http://dx.doi.org/10.1101/068817 2016-08-16 Systems Biology Systems Biomedicine of Rabies Delineates the Affected Signaling Pathways Sadegh Azimzadeh Jamalkandi|Hamid Gholami Pourbadie|Mehdi Mirzaie|Sayed Hamid Reza Mozhgani|Farsheed Noorbakhsh|Behrouz Vaziri|Alireza Gholami|Naser Ansari-Pour|Mohieddin Jafari CIRC;|Pasteur Institute of Iran;|Tarbiat Modares;|TUMS;|Tehran University
http://dx.doi.org/10.1101/069930 2016-08-16 Biophysics CC BY-NC Modeling and docking antibody structures with Rosetta Brian D. Weitzner|Jeliazko Jeliazkov|Sergey Lyskov|Nicholas A Marze|Daisuke Kuroda|Rahel Frick|Naireeta Biswas|Jeffrey J Gray Department of Chemical and Biomolecular Engineering, Johns Hopkins University;|Johns Hopkins University;|Department of Analytical and Physical Chemistry, Showa University School of Pharmacy;|Centre for Immune Regulation, Department of Biosciences, University of Oslo
http://dx.doi.org/10.1101/069856 2016-08-16 Microbiology Novel blaKPC-carrying species identified in the hospital environment Hang T.T. Phan|Zoie Aiken|Oluwafemi Akinremi|Julie Cawthorne|Andrew Dodgson|Angela Downes|Matthew Ellington|Ryan George|Amy Mather|Nicole Stoesser|Stephanie Thomas University of Oxford;|Central Manchester University Hospitals NHS Foundation Trust;|Public Health England, London, UK;|Public Health England, UK;|University of Virginia Health System, Charlottesville, Virginia, USA;|University Hospital South Manchester
http://dx.doi.org/10.1101/069831 2016-08-16 Microbiology CC BY-NC-ND What is the link between stringent response, endoribonuclease encoding Type II Toxin-Antitoxin systems and persistence? Bhaskar Chandra Mohan Ramisetty|Dimpy Ghosh|Moumita Roy Chowdhury|Ramachandran Sarojini Santhosh SASTRA University
http://dx.doi.org/10.1101/069799 2016-08-16 Evolutionary Biology XRN1 is a Species-Specific Virus Restriction Factor in Yeasts Paul A Rowley|Brandon Ho|Sarah Bushong|Arlen Johnson|Sara L Sawyer The University of Idaho;|The University of Texas at Austin;|University of Colorado Boulder
http://dx.doi.org/10.1101/069906 2016-08-16 Cell Biology CC BY-NC-ND Separase Protease Activity is Required for Cytokinesis in addition to Chromosome Segregation Xiaofei Bai|Joshua Bembenek UT Knoxville
http://dx.doi.org/10.1101/069807 2016-08-16 Bioinformatics CC BY-NC DEAR-O: Differential Expression Analysis based on RNA-seq data - Online Zong-Hong Zhang|Naomi R Wray|Qiongyi Zhao Queensland Brain Institute
http://dx.doi.org/10.1101/069849 2016-08-16 Genomics Non-Mendelian inheritance of SNP markers reveals extensive chromosomal translocations in dioecious hops (Humulus lupulus L.) Dong Zhang|Nicholi Pitra|Mark Coles|Edward S. Buckler|Paul Matthews Cornell University;|Hopsteiner
http://dx.doi.org/10.1101/069922 2016-08-16 Genetics CC BY-NC-ND The evolution of the natural killer complex; a comparison between mammals using new high-quality genome assemblies and targeted annotation John C Schwartz|Mark S Gibson|Dorothea Heimeier|Sergey Koren|Adam M Phillippy|Derek M Bickhart|Timothy PL Smith|Juan F Medrano|John A Hammond The Pirbright Institute;|National Human Genome Research Institute;|Animal Genomics and Improvement Laboratory, USDA-ARS;|Meat Animal Research Center, USDA-ARS;|University of California, Davis
http://dx.doi.org/10.1101/069344 2016-08-16 Genetics CC BY-ND Rare schizophrenia risk variants are enriched in genes shared with neurodevelopmental disorders Tarjinder Singh|James T. R. Walters|Mandy Johnstone|David Curtis|Jaana Suvisaari|Minna Torniainen|Elliott Rees|Conrad Iyegbe|Douglas Blackwood|Andrew M. McIntosh|Georg Kirov|Daniel Geschwind|Robin M. Murray|Marta Di Forti|Elvira Bramon|Aarno Palotie|Michael C. O'Donovan|Michael J. Owen|Jeffrey C. Barrett Wellcome Trust Sanger Institute;|MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University, UK;|The University of Edinburgh;|University College London;|National Institute for Health and Welfare;|King's College London;|University of California Los Angeles;|Broad Institute of MIT and Harvard;|Cardiff University
http://dx.doi.org/10.1101/069914 2016-08-16 Genomics CC BY-NC-ND A Bacillus anthracis Genome Sequence from the Sverdlovsk 1979 Autopsy Specimens Jason W. Sahl|Talima Pearson|Richard Okinaka|James M. Schupp|John D. Gillece|Hannah Heaton|Dawn Birdsell|Crystal Hepp|Viacheslav Fofanov|Ramon Noseda|Antonio Fasanella|Alex Hoffmaster|David M. Wagner|Paul Keim Northern Arizona University;|Translational Genomics Research Institute;|Laboratorio Azul;|Instito Zooprofilattico Sperimentale of Puglia and Basilicata Via Manfredonia;|The Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/068361 2016-08-16 Systems Biology CC BY-ND The Modular Adaptive Ribosome Anupama Yadav|Aparna Radhakrishnan|Anshuman Panda|Amartya Singh|Himanshu Sinha|Gyan Bhanot Tata Institute of Fundamental Research;|Rutgers University;|Indian Institute of Technology Madras
http://dx.doi.org/10.1101/069575 2016-08-16 Bioinformatics CC BY PubData: search engine for bioinformatics databases worldwide Bohdan Khomtchouk|Kasra A. Vand|Thor Wahlestedt|Kelly Khomtchouk|Mohammed K. Sayed|Claes Wahlestedt University of Miami Miller School of Medicine;|Independent Researcher;|Ransom Everglades School;|University of Miami
http://dx.doi.org/10.1101/069815 2016-08-16 Bioinformatics CC BY-NC HySA: A Hybrid Structural variant Assembly approach using next generation and single-molecule sequencing technologies Xian Fan|Mark Chaisson|Luay Nakhleh|Ken Chen Rice University;|University of Washington;|MD Anderson Cancer Center
http://dx.doi.org/10.1101/069450 2016-08-16 Genomics CC BY-ND FOXA1 directs H3K4 monomethylation at enhancers via recruitment of the methyltransferase MLL3 Kamila M. Jozwik|Igor Chernukhin|Aurelien A. Serandour|Sankari Nagarajan|Jason S. Carroll Cancer Research UK Cambridge Institute, University of Cambridge;|Cancer Research UK Cambridge Institute and European Molecular Biology Laboratory;|Cancer Research UK Cambridge Institute
http://dx.doi.org/10.1101/069484 2016-08-16 Microbiology CC BY-NC-ND 290 Metagenome-assembled Genomes from the Mediterranean Sea: Ongoing Effort to Generate Genomes from the Tara Oceans Dataset Benjamin J Tully|Rohan Sachdeva|Elaina D Graham|John F Heidelberg University of Southern California
http://dx.doi.org/10.1101/069757 2016-08-16 Genomics CC BY-NC-ND Accurate eQTL prioritization with an ensemble-based framework Haoyang Zeng|Matthew D. Edwards|Yuchun Guo|David K. Gifford Massachusetts Institute of Technology
http://dx.doi.org/10.1101/069559 2016-08-16 Biochemistry Molecular mechanisms of substrate-controlled ring dynamics and sub-stepping in a nucleic-acid dependent hexameric motor Nathan D. Thomsen|Michael R. Lawson|Lea B. Witkowsky|Song Qu|James M. Berger Gilead Sciences Inc, Foster City, CA;|Department of Molecular and Cell Biology and QB3 Institute, Berkeley CA;|Scripps Research Institute;|Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, MD
http://dx.doi.org/10.1101/069773 2016-08-16 Biochemistry Ligand-induced and small molecule control of substrate loading in a hexameric helicase Michael R. Lawson|Kevin Dyer|James M. Berger UC Berkeley;|Lawrence Berkeley National Lab, Berkeley CA;|Department of Biophysics and Biophysical Chemistry, Johns Hopkins School of Medicine, Baltimore, MD
http://dx.doi.org/10.1101/069781 2016-08-16 Animal Behavior and Cognition CC BY-ND Understanding the contributions of visual stimuli to contextual fear conditioning: a proof-of-concept study using LCD screens Nathen J. Murawski|Arun Asok University of California Davis;|Columbia University
http://dx.doi.org/10.1101/069997 2016-08-17 Neuroscience CC BY-NC-ND Orientation tuning depends on spatial frequency in mouse visual cortex Inbal Ayzenshtat|Jesse Jackson|Rafael Yuste Columbia University
http://dx.doi.org/10.1101/069955 2016-08-17 Biochemistry Oxidative DNA damage is epigenetic by regulating gene transcription via base excision repair Aaron M. Fleming|Yun Ding|Cynthia J Burrows University of Utah
http://dx.doi.org/10.1101/070037 2016-08-17 Neuroscience Predicting functional neuroanatomical maps from fusing brain networks with genetic information Florian Ganglberger|Joanna Kaczanowska|Josef M. Penninger|Andreas Hess|Katja Buehler|Wulf Haubensak VRVis Research Center;|Research Institute of Molecular Pathology;|Institute of Molecular Biotechnology of the Austrian Academy of Sciences;|Friedrich-Alexander University Erlangen-Nuremberg
http://dx.doi.org/10.1101/070045 2016-08-17 Genomics CC BY-ND Large scale genomic analysis shows no evidence for repeated pathogen adaptation during the invasive phase of bacterial meningitis in humans John Lees|Philip H. C. Kremer|Ana S Manso|Nicholas J Croucher|Bart Ferwerda|Mercedes Valls Seron|Marco R Oggioni|Julian Parkhill|Matthjis C Brouwer|Arie van der Ende|Diederik van de Beek|Stephen D Bentley Wellcome Trust Sanger Institute;|AMC Amsterdam;|University of Leicester;|Imperial College London
http://dx.doi.org/10.1101/069963 2016-08-17 Genomics Easi-CRISPR: Efficient germline modification with long ssDNA donors Rolen M Quadros|Masato Ohtsuka|Donald W Harms|Tomomi Aida|Ronald Redder|Hiromi Miura|Guy P Richardson|Mark A Behlke|Sarah A Zeiner|Ashley M Jacobi|Lisa D Urness|Suzanne L Mansour|Channabasavaiah B Gurumurthy UNMC;|Tokai University;|Tokyo Medical and Dental University;|University of Sussex;|IDT;|University of Utah
http://dx.doi.org/10.1101/070011 2016-08-17 Evolutionary Biology CC BY-NC-ND Pherotype polymorphism in Streptococcus pneumoniae and its effects on population structure and recombination Eric L Miller|Benjamin A Evans|Omar E Cornejo|Ian S Roberts|Daniel Rozen University of Manchester;|University of East Anglia;|Washington State University;|Leiden University
http://dx.doi.org/10.1101/070060 2016-08-17 Bioinformatics Pervasive concerted evolution in gene expression shapes cell type transcriptomes Cong Liang|Jacob M. Musser|Alison Cloutier|Richard Prum|Gunter Wagner Yale university;|Yale University;|University of Toronto
http://dx.doi.org/10.1101/070086 2016-08-17 Neuroscience CC BY-NC-ND Internal states drive nutrient homeostasis by modulating exploration-exploitation trade-off Veronica Maria Corrales-Carvajal|Aldo A Faisal|Carlos Ribeiro Champalimaud Centre for the Unknown;|Department of Bioengineering and Department, Imperial College London, SW7 2AZ London, United Kingdom
http://dx.doi.org/10.1101/070052 2016-08-17 Bioinformatics CC BY-ND A novel quantile regression approach for eQTL discovery Xiaoyu Song|Gen Li|Iuliana Ionita-Laza|Ying Wei Columbia University
http://dx.doi.org/10.1101/069989 2016-08-17 Evolutionary Biology CC BY-NC A non-zero variance of Tajima's estimator for two sequences even for infinitely many unlinked loci Leandra King|John Wakeley|Shai Carmi Harvard University;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/070276 2016-08-18 Molecular Biology Rad51 catalytic mutants differentially affect the Rad51 nucleoprotein filament Maureen M Mundia|Alissa C Magwood|Mark D Baker University of Guelph
http://dx.doi.org/10.1101/070300 2016-08-18 Neuroscience Personalized epilepsy seizure detection using random forest classification over one-dimension transformed EEG data Marco Pinto Orellana|Fabio Cerqueira Universidade Federal de Vicosa
http://dx.doi.org/10.1101/070193 2016-08-18 Genomics An Automated Microwell Platform for Large-Scale Single Cell RNA-Seq Jinzhou Yuan|Peter A. Sims Columbia University
http://dx.doi.org/10.1101/070250 2016-08-18 Ecology CC BY-NC-ND Multidimensionality of plant defenses and herbivore niches: implications for eco-evolutionary dynamics nicolas loeuille|Celine Hauzy University Pierre & Marie Curie
http://dx.doi.org/10.1101/070342 2016-08-18 Biophysics CC BY-NC-ND Pulsatile lipid vesicles under osmotic stress Morgan Chabanon|James C.S. Ho|Bo Liedberg|Atul N. Parikh|Padmini Rangamani University of California San Diego;|Nanyang Technological University;|University of California Davis
http://dx.doi.org/10.1101/070326 2016-08-18 Biophysics CC BY-NC-ND Mathematical Methods for Modeling Chemical Reaction Networks Justin Carden|Casian Pantea|Gheorge Craciun|Raghu Machiraju|Parag Mallick Stanford University;|West Virginia University;|University of Wisconsin;|Ohio State University
http://dx.doi.org/10.1101/070235 2016-08-18 Evolutionary Biology CC BY-NC-ND Reconstructing the backbone of the Saccharomycotina yeast phylogeny using genome-scale data Xing-Xing Shen|Xiaofan Zhou|Jacek Kominek|Cletus P Kurtzman|Chris Todd Hittinger|Antonis Rokas Vanderbilt University, United States;|University of Wisconsin-Madison, United States;|USDA, United States
http://dx.doi.org/10.1101/070128 2016-08-18 Genetics How cognitive genetic factors influence fertility outcomes: A mediational SEM analysis. Michael A Woodley|Joseph A Schwartz|Kevin M Beaver Vrije Universiteit Brussel;|University of Nebraska Omaha;|Florida State University
http://dx.doi.org/10.1101/070227 2016-08-18 Developmental Biology Eph/ephrin signaling controls progenitor identities in the ventral spinal cord Julien Laussu|Christophe Audouard|Anthony Kischel|Poincyane Assis-Nascimento|Nathalie Escalas|Daniel Liebl|Cathy Soula|Alice Davy CNRS;|The Miami Project to Cure Paralysis;|Miami Project to Cure Paralysis
http://dx.doi.org/10.1101/070243 2016-08-18 Evolutionary Biology Natural and laboratory mutations in kuzbanian are associated with heavy metal stress phenotypes in Drosophila melanogaster Hung Le|Lain Guio|Miriam Merenciano|Quirze Rovira|Maite G Barron|Josefa Gonzalez Institute of Evolutionary Biology (CSIC-Universitat Pompeu Fabra)
http://dx.doi.org/10.1101/070177 2016-08-18 Genetics CC BY-NC-ND Phenome-wide Heritability Analysis of the UK Biobank Tian Ge|Chia-Yen Chen|Benjamin M. Neale|Mert R. Sabuncu|Jordan W. Smoller Massachusetts General Hospital
http://dx.doi.org/10.1101/070219 2016-08-18 Cell Biology Single-cell quantitation of histones and histone post-translational modifications across the cell cycle by high-throughput imaging Linda Karine Zane|Fleur Chapus|Gianluca Pegoraro|Tom Misteli NCI/NIH
http://dx.doi.org/10.1101/070318 2016-08-18 Evolutionary Biology Escherichia coli populations adapt to complex, unpredictable fluctuations by minimizing trade-offs across environments Shraddha Madhav Karve|Devika Bhave|Dhanashri Nevgi|Sutirth Dey Indian Institute of Science Education and Research, Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/070144 2016-08-18 Epidemiology CC BY Analysis of infection biomarkers within a Bayesian framework reveals their role in pneumococcal pneumonia diagnosis in HIV patients Austin G Meyer University of Texas at Austin
http://dx.doi.org/10.1101/070201 2016-08-18 Genetics A gene for genetic background in Zea mays: fine-mapping enhancer of teosinte branched1.2 (etb1.2) to a YABBY class transcription factor Chin Jian Yang|Lisa E Kursel|Anthony J Studer|Madelaine E Bartlett|Clint Whipple|John F Doebley University of Wisconsin, United States;|University of Massachusetts-Amherst, United States;|Brigham Young University, United States
http://dx.doi.org/10.1101/070102 2016-08-18 Evolutionary Biology CC BY-NC-ND Viral outbreaks involve destabilised viruses: evidence from Ebola, Influenza and Zika Stephane Aris-Brosou|Neke Ibeh|Jessica Noel University of Ottawa
http://dx.doi.org/10.1101/070169 2016-08-18 Bioinformatics StarBEAST2 brings faster species tree inference and accurate estimates of substitution rates Huw A Ogilvie|Alexei J Drummond Australian National University;|University of Auckland
http://dx.doi.org/10.1101/070151 2016-08-18 Bioinformatics CC BY Tracing co-regulatory network dynamics in noisy, single-cell transcriptome trajectories Pablo Cordero|Joshua M Stuart University of California Santa Cruz
http://dx.doi.org/10.1101/065268 2016-08-18 Biophysics CC BY-NC-ND Crowding-induced transcriptional bursts dictate nucleosome and polymerase density profiles along genes Aafke A van den Berg|Martin Depken Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology
http://dx.doi.org/10.1101/064253 2016-08-18 Microbiology Tuberculosis susceptibility and vaccine protection are independently controlled by host genotype Clare M Smith|Megan Proulx|Andrew J Olive|Dominick Laddy|Bibhuti Mishra|Caitlin Moss|Nuria Martinez Gutierrez|Michelle M Bellerose|Palmira Barreira-Silva|Jia Yao Phuah|Richard E Baker|Samuel M Behar|Hardy Kornfeld|Thomas G Evans|Gillian Beamer|Christopher M Sassetti University of Massachussetts Medical School;|AERAS
http://dx.doi.org/10.1101/070391 2016-08-19 Evolutionary Biology Evolution of copper resistance in the kiwifruit pathogen Pseudomonas syringae pv. actinidiae through acquisition of integrative conjugative elements and plasmids Elena Colombi|Christina Straub|Sven Kunzel|Matthew D Templeton|Honour C McCann|Paul B Rainey NZIAS, Massey University;|Max Planck Institute for Evolutionary Biology;|Plant and Food Research
http://dx.doi.org/10.1101/070490 2016-08-19 Bioinformatics CC BY-NC-ND Deep Learning and Association Rule Mining for Predicting Drug Response in Cancer Konstantinos N Vougas|Thomas Jackson|Alexander Polyzos|Michael Liontos|Elizabeth O Johnson|Vassilis Georgoulias|Paul Townsend|Jiri Bartek|Vassilis G Gorgoulis Biomedical Research Foundation of the Academy of Athens;|University of Manchester;|National and Kapodistrian University of Athens;|University of Crete;|Danish Cancer Society Research Centre
http://dx.doi.org/10.1101/070581 2016-08-19 Genomics CC BY-ND The ExAC Browser: Displaying reference data information from over 60,000 exomes Konrad J Karczewski|Ben Weisburd|Brett Thomas|Douglas M Ruderfer|David Kavanagh|Tymor Hamamsy|Monkol Lek|Kaitlin E Samocha|Beryl B Cummings|Daniel Birnbaum|Mark J Daly|Daniel G MacArthur Massachusetts General Hospital;|Mount Sinai Hospital
http://dx.doi.org/10.1101/070573 2016-08-19 Bioinformatics CC BY-NC-ND Quantifying uncertainty of taxonomic placement in DNA barcoding and metabarcoding Panu Somervuo|Douglas W. Yu|Charles Xu|Yinqiu Ji|Jenni Hultman|Helena Wirta|Otso Ovaskainen University of Helsinki;|Kunming Institute of Zoology
http://dx.doi.org/10.1101/070425 2016-08-19 Genomics Direct determination of diploid genome sequences Neil I Weisenfeld|Vijay Kumar|Preyas Shah|Deanna Church|David B Jaffe 10x Genomics;|10x genomics
http://dx.doi.org/10.1101/070516 2016-08-19 Genetics CC BY-NC-ND ANU-ADRI and not Genetic Risk score predicts MCI in a cohort of older adults followed for 12 years Shea Andrews|Ranmalee Eramudugolla|Jorge I Velez|Nicolas Cherbuin|Simon Easteal|Kaarin J Anstey John Curtin School of Medical Research, Australian National University;|Research School of Population Health Australian National University;|Neuroscience Research Group, University of Antioquia
http://dx.doi.org/10.1101/070375 2016-08-19 Neuroscience CC BY-NC-ND Reward-based training of recurrent neural networks for cognitive and value-based tasks H. Francis Song|Guangyu R. Yang|Xiao-Jing Wang New York University
http://dx.doi.org/10.1101/070409 2016-08-19 Genetics CC BY-NC-ND Association of AKAP6 and MIR2113 with cognitive performance in a population based sample of older adults Shea Andrews|Debjani Das|Kaarin J Anstey|Simon Easteal Australian National University;|John Curtin School of Medical Research, Australian National University, Canberra;|Centre for Research on Ageing, Health and Wellbeing, Australian National University
http://dx.doi.org/10.1101/070367 2016-08-19 Microbiology Microbial Signatures of Oral Dysbiosis, Periodontitis and Edentulism Revealed by Gene Meter Methodology M Colby Hunter|Alexander E Pozhitkov|Peter Anthony Noble Alabama State University;|University of Washington
http://dx.doi.org/10.1101/070094 2016-08-19 Evolutionary Biology CC BY-NC-ND Widespread Historical Contingency in Influenza Viruses Jean Claude Nshogozabahizi|Jonathan Dench|Stephane Aris-Brosou University of Ottawa
http://dx.doi.org/10.1101/070334 2016-08-19 Genomics DNA damage is a major cause of sequencing errors, directly confounding variant identification. Lixin Chen|Pingfang Liu|Thomas Corwin Evans|Laurence Michele Ettwiller New England Biolabs
http://dx.doi.org/10.1101/070078 2016-08-19 Plant Biology CC BY-NC-ND Targeted re-sequencing reveals the genetic signatures and the reticulate history of barley domestication Artem Pankin|Janine Altmuller|Christian Becker|Maria von Korff Max Planck Institute for Plant Breeding Research;|Cologne Center for Genomics (CCG), University of Cologne;|Institute of Plant Genetics, CEPLAS, Heinrich-Heine-University / MPI for Plant Breeding Research
http://dx.doi.org/10.1101/070417 2016-08-19 Synthetic Biology CC BY-NC-ND Assembly of Radically Recoded E. coli Genome Segments Julie E Norville|Cameron L. Gardner|Eduardo Aponte|Conor K. Camplisson|Alexandra Gonzales|David K. Barclay|Katerina A. Turner|Victoria Longe|Maria Mincheva|Jun Teramoto|Kento Tominaga|Ryota Sugimoto|James E. DiCarlo|Marc Guell|Eriona Hysolli|John Aach|Christopher J. Gregg|Barry L. Wanner|George M. Church Harvard Medical School and Wyss Institute for Biologically Inspired Engineering;|National Institute of Health and University of Oxford;|bioMerieux;|Harvard Medical School;|Massachusetts Institute of Technology;|Sofia University;|Kobe University;|Tokyo Metropolitan University;|Tokyo Institute of Technology;|Columbia University;|Wyss Institute for Biologically Inspired Engineering;|GreenLight Biosciences, Inc.
http://dx.doi.org/10.1101/070730 2016-08-21 Bioinformatics CC BY-NC-ND Genetic correlations among brain-behavioral and immune-related phenotypes based on genome-wide association data. Daniel S. Tylee|Jonathan L. Hess|Muhammad A. Tahir|Esha Sharma|Rainer Malik|Bradford B. Worrall|Andrew J. Levine|Jeremy J. Martinson|Sergey Nejenstev|Doug Speed|Annegret Fischer|Eric Mick|Brian R. Walker|Andrew Crawford|Struan F. A. Grant|Constantin Polychronakos|Jonathan P. Bradfield|Patrick M. A. Sleiman|Hakon Hakonarson|Stephen V. Faraone|Stephen J. Glatt SUNY Upstate Medical University, Syracuse, NY, U.S.A.;|Ludwig-Maximilians-University (LMU), Munich, Germany;|University of Virginia School of Medicine, Charlottesville, VA, U.S.A.;|David Geffen School of Medicine, University of California Los Angeles, Los Angeles, CA, U.S.A.;|Graduate School of Public Health, University of Pittsburgh, PA, U.S.A.;|Department of Medicine, University of Cambridge, Cambridge, U.K.;|Genetics Institute, University College London, London, WC1E 6BT, U.K.;|Kiel University and University Hospital Schleswig-Holstein, Kiel, Germany.;|University of Massachusetts Medical School, Worcester, MA, U.S.A.;|University of Edinburgh, Edinburgh, EH16 4TJ, U.K.;|The Childrens Hospital of Philadelphia, Philadelphia, PA, U.S.A.;|McGill University Health Centre, Montreal, Quebec, Canada.
http://dx.doi.org/10.1101/070748 2016-08-21 Neuroscience Elevated serum adenosine deaminase levels in neuroleptic-naive patients with recent-onset schizophrenia Arun Sasidharan|Sunil Kumar|John P John|Mariamma Philip|Sarada Subramanian|Sanjeev Jain|Bindu M Kutty National Institute of Mental Health and Neuro Sciences (NIMHANS), Bengaluru, India.;|National Institute of Mental Health and Neurosciences (NIMHANS)
http://dx.doi.org/10.1101/070763 2016-08-21 Plant Biology CC BY-NC Strigolactone regulates shoot development through a core signalling pathway Tom Bennett|Yueyang Liang|Madeleine Seale|Sally P Ward|Dorte Mueller|Ottoline Leyser University of Cambridge;|University of York
http://dx.doi.org/10.1101/070623 2016-08-21 Developmental Biology CC BY Cholesterol activates the G-protein coupled receptor Smoothened to promote morphogenetic signaling Giovanni Luchetti|Ria Sircar|Jennifer H Kong|Sigrid Nachtergaele|Andreas Sagner|Eamon FX Byrne|Douglas F Covey|Christian Siebold|Rajat Rohatgi Stanford University School of Medicine;|The Francis Crick Institute;|University of Oxford;|Washington University School of Medicine
http://dx.doi.org/10.1101/070532 2016-08-21 Ecology CC BY-NC-ND A framework to assess the contribution of bioaerosols to the outcome of meteorological contexts favorable for rainfall Cindy E. Morris|Samuel Soubeyrand|E. Keith Bigg|Jessie M. Creamean|David C. Sands INRA;|(freelance);|NOAA;|Montana State University
http://dx.doi.org/10.1101/070524 2016-08-21 Neuroscience Intrinsic functional connectivity resembles cortical architecture at various levels of isoflurane anesthesia Felix Fischer|Florian Pieper|Edgar Galindo-Leon|Gerhard Engler|Claus C. Hilgetag|Andreas K. Engel University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/070656 2016-08-21 Microbiology CC BY-NC-ND Genome-wide prediction of microRNAs in Zika virus genomes reveals possible interactions with human genes involved in the nervous system development Juan Cristina|Natalia Echeverria|Fabiana Gambaro|Alvaro Fajardo|Pilar Moreno Facultad de Ciencias, Universidad de la Republica;|Facultad de Ciencias
http://dx.doi.org/10.1101/070615 2016-08-21 Genomics CC BY-ND Local PCA shows how the effect of population structure differs along the genome Han Li|Peter Ralph University of Southern California;|Univeristy of Oregon
http://dx.doi.org/10.1101/070441 2016-08-21 Bioinformatics CC BY-NC DeepAD: Alzheimer′s Disease Classification via Deep Convolutional Neural Networks using MRI and fMRI Saman Sarraf|Ghassem Tofighi Department of Electrical and Computer Engineering, McMaster University, Hamilton, Ontario, Canada;|Electrical and Computer Engineering Department, Ryerson University, Toronto, Ontario, Canada
http://dx.doi.org/10.1101/070961 2016-08-22 Neuroscience Prevalence of Congenital Amusia Isabelle Peretz|Dominique Vuvan BRAMS, University of Montreal;|Skidmore College
http://dx.doi.org/10.1101/070847 2016-08-22 Ecology CC BY Population dynamics of Arabis alpina in the French Alps: evidence for demographic compensation? Marco Andrello|Pierre de Villemereuil|Delphine Busson|Oscar E. Gaggiotti|Irene Till-Bottraud Centre National de la Recherche Scientifique (CNRS);|Universite Grenoble Alpes;|University of St Andrews;|Universite Blaise Pascal
http://dx.doi.org/10.1101/067553 2016-08-22 Neuroscience CC BY-NC-ND Influence of cognitive control on semantic representation Waitsang Keung|Jonathan Cohen|Daniel Osherson Princeton University
http://dx.doi.org/10.1101/070672 2016-08-22 Neuroscience Synchronization principles of gamma rhythms in monkey visual cortex Eric Lowet|Mark Roberts|Alina Peter|Bart Gips|Peter De Weerd Maastricht University;|Ernst Struengmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|Donders Institute for Brain, Cognition and Behaviour, Radboud University Nijmegen
http://dx.doi.org/10.1101/070771 2016-08-22 Ecology CC BY Thousands of primer-free, high-quality, full-length SSU rRNA sequences from all domains of life Soeren M Karst|Morten S Dueholm|Simon J McIlroy|Rasmus H Kirkegaard|Per H Nielsen|Mads Albertsen Aalborg University
http://dx.doi.org/10.1101/070839 2016-08-22 Genomics CC BY SNP analysis implicates the role of cytosine methylation in introducing consequential mutations in Vibrio cholerae genomes. Supriya Khedkar|Aswin Sai Narain Seshasayee|Mohak Sharda National Centre for Biological Sciences;|National Centre for Biological sciences
http://dx.doi.org/10.1101/068643 2016-08-22 Genetics CC BY-NC-ND A genome-wide haplotype association analysis of major depressive disorder identifies two genome-wide significant haplotypes David M Howard|Lynsey S Hall|Jonathan D Hafferty|Yanni Zeng|Mark J Adams|Toni-Kim Clarke|David J Porteous|Caroline Hayward|Blair H Smith|Alison D Murray|Niamh M Ryan|Kathryn L Evans|Chris S Haley|Ian J Deary|Pippa A Thomson|Andrew M McIntosh University of Edinburgh;|University of Dundee;|University of Aberdeen
http://dx.doi.org/10.1101/070904 2016-08-22 Bioinformatics CC BY-ND OrchID: a Generalized Framework for Taxonomic Classification of Images Using Evolved Artificial Neural Networks Serano Pereira|Barbara Gravendeel|Patrick Wijntjes|Rutger Vos Naturalis Biodiversity Center;|Naturalis Biodiversity Center, University of Applied Sciences Leiden;|University of Applied Sciences, Leiden
http://dx.doi.org/10.1101/070821 2016-08-22 Neuroscience Opponent surrounds explain diversity of contextual phenomena across visual modalities David A. Mely|Thomas Serre Brown University
http://dx.doi.org/10.1101/070813 2016-08-22 Bioinformatics CC BY-NC-ND MINT: A multivariate integrative method to identify reproducible molecular signatures across independent experiments and platforms Florian Rohart|Aida Eslami|Nicholas Matigian|Stephanie Bougeard|Kim-Anh Le Cao The University of Queensland Diamantina Institute;|University of British Columbia;|French agency for food, environmental and occupational health safety
http://dx.doi.org/10.1101/070888 2016-08-22 Bioinformatics CC BY ChimPipe: Accurate detection of fusion genes and transcription-induced chimeras from RNA-seq data Bernardo Rodriguez Martin|Emilio Palumbo|Santiago Marco-Sola|Thasso Griebel|Paolo Ribeca|Graciela Alonso|Alberto Rastrojo|Begona Aguado|Roderic Guigo|Sarah Djebali CRG;|CNAG;|The PirBright Institute;|CMBSO;|INRA
http://dx.doi.org/10.1101/070854 2016-08-22 Evolutionary Biology CC BY-NC-ND Information theory and the phenotypic complexity of evolutionary adaptations and innovations Andreas Wagner University of Zurich
http://dx.doi.org/10.1101/070649 2016-08-23 Bioinformatics CC BY-NC-ND Edlib: A C/C++ library for fast, exact sequence alignment using edit distance Martin Sosic|Mile Sikic University of Zagreb, Faculty of Electrical Engineering and Computing
http://dx.doi.org/10.1101/071126 2016-08-23 Ecology CC BY-NC-ND Effects of plant evolution on nutrient cycling couple aboveground and belowground processes Nicolas Loeuille|Tiphaine Le Mao|Sebastien Barot UPMC;|IRD
http://dx.doi.org/10.1101/071027 2016-08-23 Zoology CC BY-NC-ND Insects and associated arthropods analyzed during medicolegal death investigations in Harris County, Texas, USA: January 2013- April 2016 Michelle R. R Sanford Harris County Institute of Forensic Sciences
http://dx.doi.org/10.1101/071175 2016-08-23 Evolutionary Biology CC BY-NC-ND Further confirmation for unknown archaic ancestry in Andaman and South Asia. Mayukh Mondal|Ferran Casals|Partha P Majumder|Jaume Bertranpetit Institut de Biologia Evolutiva (UPF-CSIC), Universitat Pompeu Fabra, Barcelona, Catalonia, Spain;|Servei de Genomica, Universitat Pompeu Fabra, Barcelona, Catalonia, Spain;|National Institute of BioMedical Genomics, Kalyani, West Bengal 741251, India
http://dx.doi.org/10.1101/071233 2016-08-23 Bioinformatics CC BY-NC Ohana, a tool set for population genetic analyses of admixture components Jade Yu Cheng|Thomas Mailund|Rasmus Nielsen Aarhus University;|University of California, Berkeley
http://dx.doi.org/10.1101/071076 2016-08-23 Neuroscience CC BY-NC What the Success of Brain Imaging Implies about the Neural Code Olivia Guest|Bradley C Love University of Oxford;|UCL
http://dx.doi.org/10.1101/071209 2016-08-23 Evolutionary Biology CC BY-NC-ND Determining the factors driving selective effects of new nonsynonymous mutations Christian D Huber|Bernard Y Kim|Clare D Marsden|Kirk E Lohmueller UCLA
http://dx.doi.org/10.1101/071118 2016-08-23 Neuroscience Dynamic updating of hippocampal object representations reflects new conceptual knowledge Michael L Mack|Bradley C Love|Alison R Preston University of Texas at Austin;|University College London
http://dx.doi.org/10.1101/071225 2016-08-23 Cell Biology Growth Factors do not regulate Golgi Complex-to-ER relocation of GalNAc-Ts in HeLa cells Gaetan G Herbomel|Raul E Rojas|Duy T Tran|Monica Ajinkya|Lauren Beck|Lawrence A Tabak Section on Biological Chemistry, National Institute of Dental and Craniofacial Research, NIH
http://dx.doi.org/10.1101/071134 2016-08-23 Systems Biology Ordinary Differential Equations in Cancer Biology Margaret P Chapman|Claire J. Tomlin UC Berkeley
http://dx.doi.org/10.1101/071100 2016-08-23 Synthetic Biology Prototyping of Bacillus megaterium genetic elements through automated cell-free characterization and Bayesian modelling Simon J Moore|James T MacDonald|Sarah Weinecke|Nicolas Kylilis|Karen M Polizzi|Rebekka Biedendieck|Paul S Freemont Imperial College London;|Braunschweig University of Technology
http://dx.doi.org/10.1101/071183 2016-08-23 Genomics CC BY-NC Molecular signatures associated with ZIKV exposure in human cortical neural progenitors Feiran Zhang|Christy Hammack|Sarah Ogden|Yichen Cheng|Emily Lee|Zhexing Wen|Xuyu Qian|Ha Nam Nguyen|Yujing Li|Bing Yao|Miao Xu|Tianlei Xu|Li Chen|Zhiqin Wang|Hao Feng|Wei-Kai Huang|Ki-jun Yoon|Chao Shan|Pei-Yong Shi|Luxoiu Huang|Zhaohui Qin|Kimberly Christian|Mingjiang Xu|Menghang Xia|Wei Zheng|Hao Wu|Hongjun Song|Hengli Tang|Guo-li Ming|Peng Jin Emory University;|Florida State University;|Johns Hopkins University School of Medicine;|National Institutes of Health;|University of Texas Medical Branch, Galveston;|University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/071217 2016-08-23 Systems Biology Network Identification Methods Young Hwan Chang|Claire Tomlin Oregon Health and Science University;|UC Berkeley
http://dx.doi.org/10.1101/068494 2016-08-23 Bioinformatics Machine learning as a tool for predicting insincere effort in power grips Peter Hahn|Eren Cenik|Karl-Josef Prommersberger|Marion Muehldorfer-Fodor Hand Surgery Vulpius Klinik;|Hand Surgery Rhoen Klinikum
http://dx.doi.org/10.1101/071084 2016-08-23 Developmental Biology CC BY-NC-ND PAPC couples the Segmentation Clock to somite morphogenesis by regulating N-cadherin dependent adhesion Jerome Chal|Charlene Guillot|Olivier Pourquie Brigham and Women's Hospital;|Harvard Medical School
http://dx.doi.org/10.1101/070987 2016-08-23 Zoology Inferring physiological energetics of loggerhead turtle (Caretta caretta) from existing data using a general metabolic theory Nina Marn|Bas A. L. M. Kooijman|Marko Jusup|Tarzan Legovic|Tin Klanjscek Rudjer Boskovic Institute;|VU Amsterdam;|Center of Mathematics for Social Creativity, Hokkaido University
http://dx.doi.org/10.1101/070946 2016-08-23 Ecology CC BY Simulations of biomass dynamics in community food webs Eva DELMAS|Ulrich Brose|Dominique Gravel|Daniel Stouffer|Timothee Poisot Universite de Montreal;|iDiv;|Universite de Sherbrooke;|University of Canterbury
http://dx.doi.org/10.1101/070789 2016-08-23 Ecology CC BY-NC-ND Using null models to infer microbial co-occurrence networks Nora Connor|Albert Barberan|Aaron Clauset University of Colorado;|University of Colorado, Santa Fe Institute
http://dx.doi.org/10.1101/071092 2016-08-23 Bioinformatics Scalable genomics: from raw data to aligned reads on Apache YARN Francesco Versaci|Luca Pireddu|Gianluigi Zanetti CRS4
http://dx.doi.org/10.1101/065524 2016-08-23 Bioinformatics hdnom: Building Nomograms for Penalized Cox Models with High-Dimensional Survival Data Nan Xiao|Qing-Song Xu|Miao-Zhu Li Central South University;|Duke University
http://dx.doi.org/10.1101/070714 2016-08-23 Bioinformatics CC BY ResistoMap - online visualization of human gut microbiota antibiotic resistome Konstantin Yarygin|Boris Kovarsky|Tatyana Bibikova|Damir Melnikov|Alexander Tyakht|Dmitry Alexeev Federal Research and Clinical Centre of Physical-Chemical Medicine (FRCC CPM);|Data Laboratory
http://dx.doi.org/10.1101/070797 2016-08-23 Genomics CC BY-NC Population genetic history and polygenic risk biases in 1000 Genomes populations Alicia R Martin|Christopher R Gignoux|Raymond K Walters|Genevieve L Wojcik|Simon Gravel|Mark J Daly|Carlos D Bustamante|Eimear E Kenny Massachusetts General Hospital;|Stanford University;|McGill University;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/070268 2016-08-23 Genetics CC BY-NC High-resolution DNA accessibility profiles increase the discovery and interpretability of genetic associations Aviv Madar|Diana Chang|Feng Gao|Aaron J. Sams|Yedael Y. Waldman|Deborah S. Cunninghame Graham|Timothy J. Vyse|Andrew G. Clark|Alon Keinan Cornell University;|Genentech, Inc.;|King's College London
http://dx.doi.org/10.1101/070755 2016-08-22 Neuroscience CC BY-ND Genetically targeted 3D visualisation of Drosophila neurons under Electron Microscopy and X-Ray Microscopy using miniSOG Julian Ng|Alyssa Browning|Lorenz Lechner|Masako Terada|Gillian Howard|Gregory Jefferis University of Cambridge;|Zeiss X-Ray Microscopy;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/070912 2016-08-22 Neuroscience CC BY-NC-ND Subcortical volume and white matter integrity abnormalities in major depressive disorder: findings from UK Biobank (N=4446) Xueyi Shen|Lianne Reus|Mark Adams|Simon Cox|Ian Deary|David Liewald|Mark Bastin|Daniel Smith|Heather Whalley|Andrew McIntosh Division of Psychiatry, School of Clinical Sciences, The University of Edinburgh;|Centre for Cognitive Ageing and Cognitive Epidemiology, The University of Edinburgh;|Department of Psychology, The University of Edinburgh;|Institute of Health and Wellbeing, Mental Health and Wellbeing Research Group, University of Glasgow;|Division of Psychiatry, The University of Edinburgh
http://dx.doi.org/10.1101/070920 2016-08-22 Biophysics Protein Collapse is Encoded in the Folded State Architecture Himadri S Samanta|Pavel Zhuravlev|Michael Hinczewski|Naoto Hori|Shaon Chakrabarti|Dave Thirumalai University of Texas at Austin;|University of Maryland;|Case Western Reserve University
http://dx.doi.org/10.1101/070862 2016-08-22 Neuroscience CC BY-ND Rhythmic entrainment source separation: Optimizing analyses of neural responses to rhythmic sensory stimulation Michael X Cohen|Rasa Gulbinaite Radboud University;|Centre de Recherche Cerveau & Cognition, Toulouse, France
http://dx.doi.org/10.1101/070979 2016-08-22 Neuroscience Empirical validation of directed functional connectivity Ravi D Mill|Anto Bagic|Walter Schneider|Michael W Cole Center for Molecular and Behavioral Neuroscience, Rutgers University, USA;|Department of Neurology, University of Pittsburgh, USA;|Center for Neuroscience, University of Pittsburgh, USA
http://dx.doi.org/10.1101/071381 2016-08-24 Biophysics Robust nonparametric descriptors for clustering quantification in single-molecule localization microscopy Shenghang Jiang|Sai Divya Challapalli|Yong Wang University of Arkansas
http://dx.doi.org/10.1101/071456 2016-08-24 Animal Behavior and Cognition CC BY-NC-ND Newborn chicks show inherited variability in early social predispositions for hen-like stimuli Elisabetta Versace|Ilaria Fracasso|Gabriele Baldan|Antonella Dalle Zotte|Giorgio Vallortigara Center for Mind/Brain Sciences, University of Trento;|Department of Animal Medicine, Production and Health, University of Padova;|Istituto Istruzione Superiore Agraria Duca degli Abruzzi, Padova (Italy)
http://dx.doi.org/10.1101/071449 2016-08-24 Microbiology CC BY-NC-ND Modeling time-series data from microbial communities Benjamin J Ridenhour|Sarah L Brooker|Janet E Williams|James T Van Leuven|Aaron W Miller|M Denise Dearing|Christopher H Remien University of Idaho;|University of Utah
http://dx.doi.org/10.1101/071423 2016-08-24 Systems Biology CC BY-NC-ND Numerical Analysis of the Immersed Boundary Method for Cell-Based Simulation Fergus R Cooper|Ruth E Baker|Alexander George Fletcher University of Oxford;|University of Sheffield
http://dx.doi.org/10.1101/071415 2016-08-24 Genomics CC BY-NC-ND Identification of Klebsiella capsule synthesis loci from whole genome data Kelly Wyres|Ryan R Wick|Claire Gorrie|Adam Jenney|Rainer Follador|Nicholas R Thomson|Kathryn E Holt University of Melbourne;|The Alfred Hospital;|LimmaTech Biologics;|Sanger
http://dx.doi.org/10.1101/071472 2016-08-24 Neuroscience Representational models: A common framework for understanding encoding, pattern-component, and representational-similarity analysis Joern Diedrichsen|Nikolaus Kriegeskorte Western University;|Medical Research Council, Cambridge University
http://dx.doi.org/10.1101/071274 2016-08-24 Biophysics Unlocked capacity of proteins to attack membranes characteristic of aggregation: the evil for diseases and aging from Pandora's box Liangzhong Lim|Yimei Lu|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/070870 2016-08-24 Systems Biology CC BY-NC-ND Deciphering the tissue specificity of the protein secretory pathway in humans Amir Feizi|Francesco Gatto|Mathias Uhlen|Jens Nielsen Chalmers University of Technology;|Molecular Biotechnology, KTH
http://dx.doi.org/10.1101/071282 2016-08-24 Bioinformatics CC BY Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation Sergey Koren|Brian P. Walenz|Konstantin Berlin|Jason R. Miller|Adam M. Phillippy National Human Genome Research Institute;|Invincea Labs;|J. Craig Venter Institute
http://dx.doi.org/10.1101/071316 2016-08-24 Immunology Heme concentration-dependently modulates the production of specific antibodies in murine Guofu Li|Haiyan Xue|Zeng Fan|Yun Bai Sun Yat-Sen University
http://dx.doi.org/10.1101/071357 2016-08-24 Genomics CC BY-NC Micro-C XL: assaying chromosome conformation at length scales from the nucleosome to the entire genome Tsung-Han Hsieh|Geoffrey Fudenberg|Anton Goloborodko|Oliver Rando UMMS;|MIT;|Univ. Mass. Medical School
http://dx.doi.org/10.1101/071241 2016-08-24 Evolutionary Biology CC BY Estimating time to the common ancestor for a beneficial allele Joel Smith|Graham Coop|Matthew Stephens|John Novembre University of Chicago;|University of California, Davis
http://dx.doi.org/10.1101/066548 2016-08-24 Bioinformatics CC BY-NC-ND HLA-MA: Simple yet powerful matching of samples using HLA typing results Clemens Messerschmidt|Manuel Holtgrewe|Dieter Beule Berlin Institute of Health
http://dx.doi.org/10.1101/071266 2016-08-24 Molecular Biology RNA-DEPENDENT SYNTHESIS OF MAMMALIAN mRNA: IDENTIFICATION OF CHIMERIC INTERMEDIATE AND PUTATIVE END PRODUCT Sophia Rits|Bjorn R Olsen|Vladmir Volloch Howard Hughes Medical Institute at Childrens Hospital, Boston;|Harvard School of Dental Medicine
http://dx.doi.org/10.1101/071308 2016-08-24 Animal Behavior and Cognition CC BY-NC Closing the loop: tracking and perturbing behaviour of individuals in a group in real-time Malte J. Rasch|Aobo Shi|Zilong Ji Key Lab for Cognitve Neurosience & Learning, Beijing Normal University
http://dx.doi.org/10.1101/071332 2016-08-24 Biochemistry FICD acts bi-functionally to AMPylate and de-AMPylate the endoplasmic reticulum chaperone BiP Steffen Preissler|Claudia Rato|Luke Perera|Vladimir Saudek|David Ron University of Cambridge, Cambridge Institute for Medical Research;|University of Cambridge, Institute of Metabolic Science
http://dx.doi.org/10.1101/071050 2016-08-24 Epidemiology CC BY-NC-ND Inference of direction, diversity, and frequency of HIV-1 transmission using approximate Bayesian computation Ethan O Romero-Severson|Ingo Bulla|Nick Hengartner|Ines Bartolo|Ana Abecasis|Jose M Azevedo-Pereira|Nuno Taveira|Thomas Leitner Los Alamos National Laboratory, United States;|Universidade de Lisboa, United States;|Universidade Nova de Lisboa, United States
http://dx.doi.org/10.1101/071191 2016-08-23 Biophysics Molecular Counting with Localization Microscopy: A Redundant Labeling Approach Daniel Nino|Yong Wang|Anton Zilman|Joshua N. Milstein University of Toronto;|University of Arkansas
http://dx.doi.org/10.1101/071373 2016-08-25 Epidemiology CC BY-NC-ND Telomere, epigenetic clock, and biomarker-composite quantifications of biological aging: Do they measure the same thing? Daniel W Belsky|Terrie E Moffitt|Alan A Cohen|David L Corcoran|Steve Horvath|Morgan E Levine|Joseph Prinz|Jonathan Schaefer|Karen Sugden|Benjamin Williams|Richie Poulton|Avshalom Caspi Duke University;|University of Sherbrooke;|UCLA;|University of Otago
http://dx.doi.org/10.1101/071498 2016-08-25 Epidemiology CC BY Using simulation to aid trial design: ring-vaccination trials Matt T. Hitchings|Rebecca F. Grais|Marc Lipsitch Harvard Chan School of Public Health;|Epicentre;|Harvard TH Chan School of Public Health
http://dx.doi.org/10.1101/071530 2016-08-25 Neuroscience CC BY-NC-ND Empirical assessment of published effect sizes and power in the recent cognitive neuroscience and psychology literature Denes Szucs|John PA Ioannidis University of Cambridge;|Stanford University
http://dx.doi.org/10.1101/071571 2016-08-25 Microbiology CC BY-NC-ND Bovine Lactoferrin Activity Against Chikungunya and Zika Viruses Carlos A. M. Carvalho|Samir M. M. Casseb|Rafael B. Goncalves|Eliana V. P. Silva|Andre M. O. Gomes|Pedro F. C. Vasconcelos Instituto Evandro Chagas;|Universidade Federal do Estado do Rio de Janeiro;|Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/071654 2016-08-25 Molecular Biology CC BY-NC-ND Laboratory strains of Aedes aegypti are Competent to Brazilian Zika virus Andre Costa-da-Silva|Rafaella Sayuri Ioshino|Helena Araujo|Bianca Kojin|Paolo Marinho de Andrade Zanotto|Danielle Bruna Leal Oliveira|Stella Rezende Melo|Edison Luiz Durigon|Margareth Capurro Universidade de Sao Paulo
http://dx.doi.org/10.1101/071662 2016-08-25 Plant Biology Deep learning based root-soil segmentation from X-ray tomography Clement DOUARRE|Richard SCHIELEIN|Carole FRINDEL|Stefan GERTH|David ROUSSEAU Universite Lyon 1;|Fraunhoffer institute;|Fraunhoffer Institute
http://dx.doi.org/10.1101/071548 2016-08-25 Microbiology CC BY-ND Root hair-endophyte stacking (RHESt) in an ancient Afro-Indian crop creates an unusual physico-chemical barrier to trap pathogen(s) Walaa K Mousa|Charles Shearer|Victor Limay-Rios|Cassie L Ettinger|Jonathan A Eisen|Manish N Raizada University of Guelph, Department of Plant Agriculture;|University of Guelph, Department of Plant Agriculture, Ridgetown Campus;|University of California, Davis, Genome Center
http://dx.doi.org/10.1101/071696 2016-08-25 Genetics Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis Marcin J Skwark|Nicholas J Croucher|Santeri Puranen|Claire Chewapreecha|Maiju Pesonen|Yingying Xu|Paul Turner|Simon R Harris|Julian Parkhill|Stephen D Bentley|Erik Aurell|Jukka Corander Vanderbilt University;|Imperial College;|Aalto University;|University of Cambridge;|Mahidol University;|Sanger Institute;|KTH The Royal Institute of Technology;|University of Oslo
http://dx.doi.org/10.1101/071639 2016-08-25 Genetics CC BY-ND Evaluating Mendelian nephrotic syndrome genes for evidence of risk alleles or oligogenicity that explain heritability Brendan Crawford|Christopher E Gillies|Catherine C Robertson|Matthias Kretzler|Edgar A Otto|Virginia Vega-Warner|Hyun Min Kang|Matthew Sampson University of Michigan;|University of Virginia;|University of Michigan Medical School;|University of Michigan School of Public Health;|Univ. of Michigan
http://dx.doi.org/10.1101/071670 2016-08-25 Genetics CRISPR/Cas9 gene drives in genetically variable and non-randomly mating wild populations Douglas W Drury|Dylan J Siniard|Gabriel E Zentner|Michael J Wade Indiana University
http://dx.doi.org/10.1101/071555 2016-08-25 Neuroscience Impact of stroke on diurnal heart rate variability in rats Sean Robert Huff|Samreen Ahmed|He Meng|Tiecheng Liu|Jimo Borjigin|Michael M. Wang University of Michigan - Department of Molecular and Integrative Physiology;|University of Michigan - Department of Neurology
http://dx.doi.org/10.1101/071613 2016-08-25 Biochemistry CC BY-NC-ND Molecular basis of outer kinetochore assembly on CENP-T Pim J Huis in 't Veld|Sadasivam Jeganathan|Arsen Petrovic|Juliane John|Priyanka Singh|Florian Weissmann|Tanja Bange|Andrea Musacchio Max Planck Institute of Molecular Physiology;|Research Institute of Molecular Pathology (IMP)
http://dx.doi.org/10.1101/071324 2016-08-25 Developmental Biology TAF10 is required for the integrity of TFIID and SAGA complexes but is initially dispensable for somitogenesis in the mouse embryo Paul Bardot|Stephane D Vincent|Marjorie Fournier|Alexis Hubaud|Mathilde Joint|Laszlo Tora|Olivier Pourquie IGBMC
http://dx.doi.org/10.1101/071589 2016-08-25 Systems Biology CC BY Dynamics Robustness of Cascading Systems Jonathan Young|Testsuhiro S Hatakeyama|Kunihiko Kaneko The University of Tokyo
http://dx.doi.org/10.1101/071514 2016-08-25 Bioinformatics CC BY Empowering Multi-Cohort Gene Expression Analysis to Increase Reproducibility Winston A Haynes|Francesco Vallania|Charles Liu|Erika Bongen|Aurelie Tomczak|Marta Andres-Terre|Shane Lofgren|Andrew Tam|Cole A Deisseroth|Matthew D Li|Timothy E Sweeney|Purvesh Khatri Stanford University
http://dx.doi.org/10.1101/071159 2016-08-25 Neuroscience CC BY-NC Sensory neuron fate is developmentally perturbed by Gars mutations causing human neuropathy James N Sleigh|John M Dawes|Steven J West|Emily L Spaulding|Adriana Gomez-Martin|Robert W Burgess|M. Zameel Cader|Kevin Talbot|David L Bennett|Giampietro Schiavo University College London;|University of Oxford;|Jackson Laboratory
http://dx.doi.org/10.1101/067736 2016-08-25 Genetics Why are frameshift homologs widespread within and across species? Xiaolong Wang|Quanjiang Dong|Gang Chen|Jianye Zhang|Yongqiang Liu|Jinqiao Zhao|Haibo Peng|Yalei Wang|Yujia Cai|Xuxiang Wang|Chao Yang Ocean University of China;|Qingdao Municipal Hospital
http://dx.doi.org/10.1101/071431 2016-08-25 Evolutionary Biology CC BY-NC-ND Inference of the distribution of selection coefficients for new nonsynonymous mutations using large samples Bernard Y Kim|Christian D Huber|Kirk E Lohmueller UCLA
http://dx.doi.org/10.1101/070599 2016-08-25 Genetics CC BY-NC-ND UNTANGLING THE COMPONENTS OF PHENOTYPIC PLASTICITY IN NONLINEAR REACTION NORMS OF DROSOPHILA MEDIOPUNCTATA PIGMENTATION Felipe Bastos Rocha|Louis Bernard Klaczko Universidade Estadual de Campinas
http://dx.doi.org/10.1101/071464 2016-08-25 Synthetic Biology CC BY-NC-ND The impact of chromatin dynamics on Cas9-mediated genome editing in human cells Rene M. Daer|Josh P. Cutts|David A. Brafman|Karmella Haynes Arizona State University
http://dx.doi.org/10.1101/071407 2016-08-26 Molecular Biology Fast Antibiotic Susceptibility Testing (FASTest) based on single cell growth rate measurements. Ozden BALTEKIN|Alexis Boucharin|Dan I Andersson|Johan Elf Uppsala University
http://dx.doi.org/10.1101/071787 2016-08-26 Cell Biology Hepatocyte nuclear factor 4-mediated lipotoxicity provokes mitochondrial damage in peroxisome-deficient pex19 mutants Margret Helene Buelow|Julia Sellin|Christian Wingen|Deniz Senyilmaz|Dominic Gosejacob|Aurelio A Teleman|Michael Hoch University of Bonn;|DKFZ
http://dx.doi.org/10.1101/071753 2016-08-26 Microbiology CC BY-NC-ND Mycobacterium ulcerans low infectious dose and atypical mechanical transmission support insect bites and puncturing injuries in the spread of Buruli ulcer. John R. Wallace|Kirstie M. Mangas|Jessica L. Porter|Renee Marcsisin|Sacha J. Pidot|Brian O. Howden|Till F. Omansen|Weiguang Zeng|Jason K. Axford|Paul D. R. Johnson|Timothy Stinear Millersville University;|University of Melbourne;|University of Groningen
http://dx.doi.org/10.1101/071712 2016-08-26 Bioinformatics CC BY-NC-ND DNAmod: the DNA modification database Ankur Jai Sood|Coby Viner|Michael M. Hoffman Department of Medical Biophysics, University of Toronto, Toronto, ON, Canada;|Department of Computer Science, University of Toronto, Toronto, ON, Canada;|Princess Margaret Cancer Centre, Toronto, ON, Canada
http://dx.doi.org/10.1101/070631 2016-08-26 CC BY Gender disparity in computational biology research publications Kevin S. Bonham|Melanie I. Stefan Curriculum Fellows Program, Harvard Medical School;|University of Edinburgh
http://dx.doi.org/10.1101/071704 2016-08-26 Systems Biology CC BY-NC-ND Network analysis links genome-wide phenotypic and transcriptional stress responses in a bacterial pathogen with a large pan-genome. Paul A. Jensen|Zeyu Zhu|Tim van Opijnen Boston College
http://dx.doi.org/10.1101/071837 2016-08-26 Microbiology CC BY-NC-ND Individual level predictions of Staphylococcus aureus bacteraemia-associated mortality. Mario Recker|Maisem Laabei|Michelle Toleman|Sandra Reuter|Beth Blane|Estee Torok|Sion Bayliss|Sharon Peacock|Ruth Massey University of Exeter;|University of Bath;|University of Cambridge;|Univeristy of Cambridge;|London School of Hygiene and Tropical Medicine
http://dx.doi.org/10.1101/071340 2016-08-26 Evolutionary Biology CC BY-NC-ND Metazoan ribotoxin genes acquired by Horizontal Gene Transfer Walter Jesus Lapadula|Paula Lorena Marcet|Maria Laura Mascotti|Maria Virginia Sanchez-Puerta|Maximiliano Juri Ayub Universidad Nacional de San Luis;|cdc;|IBAM CONICET;|IMIBIO-SL
http://dx.doi.org/10.1101/071001 2016-08-26 Microbiology CC BY-NC-ND Mating promotes lactic-acid gut bacteria in a gift-giving insect Chad C Smith|Robert B Srygley|Emma I Dietrich|Ulrich Mueller University of Texas at Austin;|USDA-ARS Northern Plains Area Research Laboratory
http://dx.doi.org/10.1101/071720 2016-08-26 Immunology CC BY Characterization of the pscC (Type III secretion) gene of Pseudomonas aeruginosa (PA01) and assessment of immunogenicity of pscC protein in rats Md Safiul Alam Bhuiyan|Daisy V John|Fernandes Opook|Hafiza Sultana|Kenneth Francis Rodrigues Biotechnology Research Institute, Universiti Malaysia Sabah;|Rangpur Medical College, Rangpur, Bangladesh;|Biotechnology Research Institute
http://dx.doi.org/10.1101/071746 2016-08-26 Microbiology CC BY-NC-ND Influence of a mono-frequency sound on bacteria can be a function of the sound-level Vijay Kothari|Chinmayi Joshi|Pooja Patel|Milan Mehta|Sashikant Dubey|Brijesh Mishra|Niral Sarvaiya Nirma University;|NIrma University;|Nirma University (Former student)
http://dx.doi.org/10.1101/071910 2016-08-27 Animal Behavior and Cognition CC BY-NC-ND Matching tutor to student: rules and mechanisms for efficient two-stage learning in neural circuits Tiberiu Tesileanu|Bence Olveczky|Vijay Balasubramanian CUNY Graduate Center;|Harvard University;|University of Pennsylvania
http://dx.doi.org/10.1101/070540 2016-08-27 Plant Biology CC BY-NC-ND Paleochronic reversion in Psophocarpus, the decompression function in floral anatomic fields Edward G F Benya UNISINOS (Univeridade do Vale do Rio dos Sinos)
http://dx.doi.org/10.1101/071894 2016-08-27 Evolutionary Biology CC BY-ND Evolution of Drift Robustness in Small Populations of Digital Organisms Thomas LaBar|Christoph Adami Michigan State University
http://dx.doi.org/10.1101/071936 2016-08-27 Cell Biology Direction of actin flow dictates integrin LFA-1 orientation during leukocyte migration Pontus Nordenfelt|Travis I. Moore|Shalin B. Mehta|Joseph Mathew Kalappurakkal|Vinay Swaminathan|Nobuyasu Koga|Talley J. Lambert|David Baker|Jenifer C. Waters|Rudolf Oldenbourg|Tomomi Tani|Satyajit Mayor|Clare M. Waterman|Timothy A. Springer BCMP, Harvard Medical School, Boston, MA, USA;|Eugene Bell Center, Marine Biological Laboratory, Woods Hole MA, USA;|National Center for Biological Sciences, Bangalore, IN;|Cell Biology and Physiology Center, NHLBI, NIH, Bethesda MD, USA;|Institute for Molecular Science, Myodaiji, Okazaki, Japan;|Department of Cell Biology, Harvard Medical School, Boston, MA, USA;|University of Washington, Seattle, WA and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/069443 2016-08-27 Neuroscience Occipital white matter tracts in human and macaque Hiromasa Takemura|Franco Pestilli|Kevin S Weiner|Georgios A Keliris|Sofia M Landi|Julia Sliwa|Frank Q Ye|Michael A Barnett|David A Leopold|Winrich A Freiwald|Nikos K Logothetis|Brian A Wandell National Institute of Information and Communications Technology;|Indiana University;|Stanford University;|University of Antwerp;|The Rockefeller University;|National Institutes of Health;|Max Planck Institute for Biological Cybernetics
http://dx.doi.org/10.1101/071886 2016-08-27 Evolutionary Biology CC BY-NC-ND Reinforcement of conspecific sperm precedence weakens sexual selection in sympatric populations of Drosophila Dean M Castillo|Leonie C Moyle Indiana University
http://dx.doi.org/10.1101/071878 2016-08-27 Immunology CC BY Architecture of a minimal signalling pathway explains the T cell response to a 1,000,000-fold variation in antigen affinity and dose Melissa Lever|Hong-Sheng Lim|Philipp Kruger|John Nguyen|Nicola Trendel|Enas Abu-Shah|Philip K Maini|Philip Anton van der Merwe|Omer Dushek University of Oxford
http://dx.doi.org/10.1101/071860 2016-08-27 Scientific Communication and Education CC BY-NC-ND Lost dollars threaten research in public academic health centers Henry R. Bourne|Eric Vermillion UCSF
http://dx.doi.org/10.1101/071852 2016-08-27 Cell Biology Actin retrograde flow actively aligns and orients ligand-engaged integrins in focal adhesions. Vinay Swaminathan|Joseph Mathew Kalappurakkal|Shalin B. Mehta|Pontus Nordenfelt|Travis I Moore|Koga Nobuyasu|David A. Baker|Rudolf Oldenbourg|Tomomi Tani|Satyajit Mayor|Timothy A Springer|Clare M Waterman NHLBI/NIH, Bethesda, MD;|National Center for Biological Sciences, Bangalore, India;|Marine Biological Laboratory, Woods Hole, MA;|Lund University, Lund, Sweden;|Harvard Medical School, Boston, MA;|Institute of Molecular Science, Okazaki, Japan;|University of Washington, Seattle, WA
http://dx.doi.org/10.1101/071951 2016-08-28 Bioinformatics CC BY The Phenoscape Knowledgebase: tools and APIs for computing across phenotypes from evolutionary diversity and model organisms James P Balhoff RTI International
http://dx.doi.org/10.1101/071969 2016-08-28 Microbiology CC BY Deep mutational scanning identifies sites in influenza nucleoprotein that affect viral inhibition by MxA Orr Ashenberg|Jai Padmakumar|Michael B Doud|Jesse Bloom Fred Hutchinson Cancer Research Center;|University of Washington / Fred Hutchinson Cancer Research Center;|Fred Hutchinson Cancer Research Center / University of Washington
http://dx.doi.org/10.1101/072173 2016-08-29 Neuroscience CC BY-NC-ND Revealing unobserved factors underlying cortical activity using a rectified latent variable model applied to neural population recordings Matthew R Whiteway|Daniel A Butts University of Maryland
http://dx.doi.org/10.1101/072090 2016-08-29 Molecular Biology CC BY-NC-ND Degradation of non-methylated DNA by MsPJI impairs its usefulness as epigenetic tool Maria Belen Jerez|Maximiliano Juri Ayub UNSL-IMIBIO;|IMIBIO-SL
http://dx.doi.org/10.1101/072082 2016-08-29 Evolutionary Biology CC BY-NC panX: pan-genome analysis and exploration Wei Ding|Franz Baumdicker|Richard A Neher Max Planck Institute for Developmental Biology;|Albert-Ludwigs University of Freiburg
http://dx.doi.org/10.1101/072116 2016-08-29 Genomics CC BY-NC-ND Evaluation of GRCh38 and de novo haploid genome assemblies demonstrates the enduring quality of the reference assembly Valerie A Schneider|Tina Graves Lindsay|Kerstin Howe|Nathan Bouk|Hsiu-Chuan Chen|Paul A. Kitts|Terence D Murphy|Kim D. Pruitt|Francoise Thibaud-Nissen|Derek Albracht|Robert S Fulton|Milinn Kremitzki|Vince Magrini|Chris Markovic|Sean McGrath|Karyn Melz Steinberg|Kate Auger|Will Chow|Joanna Collins|Glenn Harden|Tim Hubbard|Sarah Pelan|Jared T Simpson|Glen Threadgold|James Torrance|Jonathan Wood|Laura Clarke|Sergey Koren|Matthew Boitano|Heng Li|Chen-Shan Chin|Adam M. Phillippy|Richard Durbin|Richard K Wilson|Paul Flicek|Deanna M Church NIH/NLM/NCBI;|McDonnell Genome Institute at Washington University;|Wellcome Trust Sanger Institute;|Queen Mary University of London;|Ontario Institute for Cancer Research and University of Toronto;|EBI;|NIH/NHGRI;|Pacific Biosciences;|Broad Institute;|National Human Genome Research Institute, National Institutes of Health;|Sanger Institute;|European Bioinformatics Institute;|10X Genomics
http://dx.doi.org/10.1101/072132 2016-08-29 Ecology CC BY Pollinator species traits do not predict either response to agricultural intensification or functional contribution Ignasi Bartomeus|Daniel Cariveau|Tina Harrison|Rachael Winfree Estacion Biologica de Donana (EBD-CSIC);|University of Minnesota;|Rutgers University;|Rutgers university
http://dx.doi.org/10.1101/071985 2016-08-29 Molecular Biology CC BY-NC-ND The Reading Frame Surveillance Hypothesis and the Origins of RNAi John T. Gray Audentes Therapeutics, Inc.
http://dx.doi.org/10.1101/071795 2016-08-29 Neuroscience CC BY-ND Astrocytes locally translate transcripts in their peripheral processes Kristina Sakers|Allison M Lake|Rohan Khazanchi|Rebecca Ouwenga|Michael J Vasek|Adish Dani|Joseph D Dougherty School of Medicine, Washington University in St Louis;|School of Medicine, Washington University in Saint Louis
http://dx.doi.org/10.1101/071993 2016-08-29 Ecology CC BY How ecological networks evolve Timothee Poisot|Daniel Stouffer Universite de Montreal;|University of Canterbury
http://dx.doi.org/10.1101/072041 2016-08-29 Neuroscience CC BY-NC-ND Calcium Dependent Gap Junction Plasticity: Modulation of Electrotonic Coupling in the Inferior Olive Glomerulus Jornt De Gruijl|Piotr Sokol|Mario Negrello|Cris I De Zeeuw Netherlands Institute for Neuroscience;|Erasmus MC
http://dx.doi.org/10.1101/072009 2016-08-29 Neuroscience CC BY-NC-ND The Effects of Pitch Shifts on Delay-induced Changes in Vocal Sequencing in a Songbird MacKenzie Wyatt|Emily A. Berthiaume|Conor W. Kelly|Samuel J. Sober Emory University
http://dx.doi.org/10.1101/072066 2016-08-29 Evolutionary Biology Remating responses are shaped by male post-copulatory manipulation but not reinforcement in D. pseudoobscura Jeremy S Davis|Dean M Castillo|Leonie C Moyle Indiana University;|Indiana Univeristy
http://dx.doi.org/10.1101/072058 2016-08-29 Molecular Biology The dichotomous effects of caffeine on homologous recombination in mammalian cells Alissa C Magwood|Maureen M Mundia|Dick D Mosser|Mark D Baker University of Guelph
http://dx.doi.org/10.1101/071977 2016-08-29 Neuroscience ENTROPY IN PRIMARY SENSORY AREAS LOWER THAN IN ASSOCIATIVE ONES: THE BRAIN LIES IN HIGHER DIMENSIONS THAN THE ENVIRONMENT James Peters|Arturo Tozzi|Ebubekir Inan|Sheela Ramanna University of Manitoba;|Adıyaman University;|Adıyaman University, Turkey
http://dx.doi.org/10.1101/072017 2016-08-29 Ecology CC BY-NC-ND Dissolved organic matter and inorganic mercury loadings favor novel methylators and fermentation metabolisms in oligotrophic sediments Emily B. Graham|Joseph E. Knelman|Rachel S. Gabor|Shon Schooler|Diane M. McKnight|Diana Nemergut Pacific Northwest National Laboratory;|Joint Genome Institute;|University of Utah;|LSNERR;|University of Colorado at Boulder
http://dx.doi.org/10.1101/071829 2016-08-29 Microbiology CC BY-NC-ND Interactions between helicase and primase are crucial for DNA replication in the enteropathogen Clostridium difficile Erika Van Eijk|Vasileios Paschalis|Matthew Green|Annemieke H. Friggen|Marilynn A. Larson|Keith Spriggs|Geoffrey Briggs|Panos Soultanas|Wiep Klaas Smits Leiden University Medical Center;|University of Nottingham;|University of Nebraska Medical Center
http://dx.doi.org/10.1101/072231 2016-08-30 Ecology CC BY A revised dilution methodology and implications for estimates of rates of plankton mortality Stephen J Beckett|Joshua S Weitz Georgia Institute of Technology
http://dx.doi.org/10.1101/072389 2016-08-30 Evolutionary Biology CC BY-NC-ND Comparative transcriptomics reveal candidate genes involved in the adaptation to non-marine habitats in panpulmonate mollusks Pedro Eduardo Romero|Barbara Feldmeyer|Markus Pfenninger Senckenberg Biodiversity and Climate Research Centre
http://dx.doi.org/10.1101/072371 2016-08-30 Neuroscience CC BY A new foreperiod effect on single-trial phase coherence.\\ Part I: existence and relevance Joaquin Rapela|Marissa Westerfield|Jeanne Townsend|Scott Makeig University of California San Diego;|University of California San Dieog
http://dx.doi.org/10.1101/072439 2016-08-30 Bioinformatics CC BY-NC Zika infection of neural progenitor cells perturbs transcription in neurodevelopmental pathways Lynn Yi|Harold Pimentel|Lior Pachter Caltech;|Stanford University;|Berkeley
http://dx.doi.org/10.1101/072397 2016-08-30 Neuroscience PRIMARY EVIDENCE OF A DONUT-LIKE, FOURTH SPATIAL DIMENSION IN THE BRAIN James Peters|Ebubekir Inan|Arturo Tozzi|Sheela Ramanna University of Manitoba;|Adıyaman University, Turkey;|University of Manitoba, Winnipeg, Canada
http://dx.doi.org/10.1101/072405 2016-08-30 Bioinformatics CC BY-ND Detecting consistent patterns of directional adaptation using differential selection codon models Sahar Parto|Nicolas Lartillot Department of Biochemistry and Molecular Medicine, University of Montreal;|Biometry and Evolution Laboratory, CNRS, University of Lyon 1
http://dx.doi.org/10.1101/072355 2016-08-30 Genetics CC BY-ND QCAT: testing causality of variants using only summary association statistics Donghyung Lee|Tim Bigdeli|Vladimir Vladimirov|Ayman H Fanous|Silviu-Alin Bacanu The Jackson Laboratory;|Virginia Commonwealth University;|Veteran Affairs, DC
http://dx.doi.org/10.1101/072330 2016-08-30 Bioinformatics CC BY-NC GAVIN - Gene-Aware Variant INterpretation for medical sequencing K. Joeri van der Velde|Eddy N de Boer|Cleo van Diemen|Birgit Sikkema-Raddatz|Kristin Abbott|Alain Knopperts|Lude Franke|Rolf Sijmons|Tom J de Koning|Cisca Wijmenga|Richard Sinke|Morris Swertz University Medical Center Groningen
http://dx.doi.org/10.1101/072348 2016-08-30 Genetics CC BY-ND mtDNA diversity in human populations highlights the merit of haplotype matching in gene therapies Ellen Royrvik|Joerg Burgstaller|Iain Johnston University of Warwick, UK;|IFA Tulln, Austria;|University of Birmingham, UK
http://dx.doi.org/10.1101/072322 2016-08-30 Neuroscience A Neural Oscillatory Signature of Reference Mante Nieuwland|Andrea E Martin MPI for Psycholinguistics
http://dx.doi.org/10.1101/072363 2016-08-30 Genetics CC BY-ND Evolution of cell-to-cell variability in stochastic, controlled, heteroplasmic mtDNA populations Iain Johnston|Nick Jones University of Birmingham, UK;|Imperial College London, UK
http://dx.doi.org/10.1101/072306 2016-08-30 Genetics Genetic Prediction of Male Pattern Baldness Saskia P Hagenaars|William David Hill|Sarah E Harris|Stuart J Ritchie|Gail Davies|David Liewald|Catharine Gale|David John Porteous|Ian Deary|Riccardo Marioni University of Edinburgh;|The University of Edinburgh;|University of Southampton
http://dx.doi.org/10.1101/072280 2016-08-30 Biophysics Cooperativity and modularity in protein folding Masaki Sasai|George Chikenji|Tomoki P Terada Nagoya University
http://dx.doi.org/10.1101/071811 2016-08-30 Plant Biology CC BY-NC An immuno-suppressive aphid saliva protein is delivered into the cytosol of plant mesophyll cells during feeding. Sam T Mugford|Elaine Barclay|Claire Drurey|Kim C Findlay|Saskia A Hogenhout John Innes Centre
http://dx.doi.org/10.1101/070003 2016-08-30 Evolutionary Biology CC BY High GC Content Causes De Novo Created Proteins to be Intrinsically Disordered Walter Basile|Oxana Sachenkova|Sara Light|Arne Elofsson Stockholm University
http://dx.doi.org/10.1101/072256 2016-08-30 Genetics CC BY Detecting High-Order Epistasis in Nonlinear Genotype-Phenotype Maps Zachary R Sailer|Michael J Harms University of Oregon, United States;|University of Oregon, IMB, United States
http://dx.doi.org/10.1101/071761 2016-08-30 Bioinformatics CC BY MutationalPatterns: an integrative R package for studying patterns in base substitution catalogues Francis Blokzijl|Roel Janssen|Ruben Van Boxtel|Edwin Cuppen UMC Utrecht
http://dx.doi.org/10.1101/072223 2016-08-30 Biophysics Biophysical models of protein evolution: Understanding the patterns of evolutionary sequence divergence Julian Echave|Claus Wilke Universidad Nacional de San Martin, San Martin, Buenos Aires, Argentina;|The University of Texas at Austin, Austin, TX, USA
http://dx.doi.org/10.1101/072199 2016-08-30 Evolutionary Biology Evolutionary dynamics of an epigenetic switch in a fluctuating environment Mariana Gomez-Schiavon|Nicolas E Buchler Duke University
http://dx.doi.org/10.1101/072207 2016-08-30 Bioengineering Paperfuge: An ultra-low cost, hand-powered centrifuge inspired by the mechanics of a whirligig toy M. Saad Bhamla|Brandon Benson|Chew Chai|Georgios Katsikis|Aanchal Johri|Manu Prakash Stanford University
http://dx.doi.org/10.1101/072181 2016-08-30 Evolutionary Biology CC BY-NC-ND Radiation and hybridization of the Little Devil poison frog (Oophaga sylvatica) in Ecuador Alexandre B Roland|Juan C Santos|Bella C Carriker|Stephanie N Caty|Elicio E Tapia|Luis A Coloma|Lauren A O'Connell Harvard University;|Brigham Young University;|Lakeside High School;|Centro Jambatu de Investigacion y Conservacion de Anfibios
http://dx.doi.org/10.1101/072108 2016-08-30 Ecology Microclimate and radiant energy measurements using a novel device for natural resource monitoring Taylor Thomas|Adam Wolf Arable Labs, Inc;|Arable Labs, Inc.
http://dx.doi.org/10.1101/072215 2016-08-30 Cell Biology CC BY-NC-ND Towards comprehensive and quantitative proteomics for diagnosis and therapy of human disease Paolo Cifani|Alex Kentsis Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/072264 2016-08-30 Evolutionary Biology CC BY-NC-ND Factors contributing to the accumulation of reproductive isolation: a mixed model approach Dean M Castillo Indiana University
http://dx.doi.org/10.1101/071043 2016-09-01 Biochemistry CC BY-ND CH···O Interactions Are Not the Cause of Trends in Reactivity and Secondary Kinetic Isotope Effects for Enzymatic SN2 Methyl Transfer Reactions Jianyu Zhang|Judith P. Klinman University of California, Berkeley;|University of California, Berkeley, California
http://dx.doi.org/10.1101/073056 2016-09-01 Genetics CC BY-ND Genome-wide association and HLA region fine-mapping studies identify susceptibility loci for multiple common infections Chao Tian|David A. Hinds|Bethann S. Hromatka|Amy K Kiefer|Nicholas Eriksson|Joyce Y. Tung 23andMe, Inc;|23andMe, Inc.
http://dx.doi.org/10.1101/073007 2016-09-01 Evolutionary Biology CC BY-NC Selection on heterozygosity drives adaptation in intra- and interspecific hybrids Caiti S. Smukowski Heil|Christopher G. DeSevo|Dave A. Pai|Cheryl M. Tucker|Margaret L. Hoang|Maitreya J. Dunham University of Washington;|Princeton University;|Carnegie Institution
http://dx.doi.org/10.1101/072884 2016-09-01 Paleontology MUSCLES OF FACIAL EXPRESSION IN EXTINCT SPECIES OF THE GENUS HOMO Arturo Tozzi University of Manitoba, Winnipeg, Canada
http://dx.doi.org/10.1101/073049 2016-09-01 Neuroscience Activity of the C. elegans egg-laying behavior circuit is controlledby competing activation and feedback inhibition Kevin Collins|Addys Bode|Robert W. Fernandez|Jessica E. Tanis|Jacob Brewer|Matthew Creamer|Michael R. Koelle University of Miami;|Yale University
http://dx.doi.org/10.1101/073023 2016-09-01 Genomics CC BY-NC-ND The House Fly Y Chromosome is Young and Undifferentiated from its Ancient X Chromosome Partner Richard Meisel|Christopher A Gonzales|Hoang Luu University of Houston
http://dx.doi.org/10.1101/072892 2016-09-01 Cancer Biology CC BY CIViC: A knowledgebase for expert-crowdsourcing the clinical interpretation of variants in cancer. Malachi Griffith|Nicholas C Spies|Kilannin Krysiak|Adam C Coffman|Joshua F McMichael|Benjamin J Ainscough|Damian T Rieke|Arpad M Danos|Lynzey Kujan|Cody A Ramirez|Alex H Wagner|Zachary L Skidmore|Connor J Liu|Martin R Jones|Rachel L Bilski|Robert Lesurf|Erica K Barnell|Nakul M Shah|Melika Bonakdar|Lee Trani|Matthew Matlock|Avinash Ramu|Katie M Campbell|Gregory C Spies|Aaron P Graubert|Karthik Gangavarapu|James M Eldred|David E Larson|Jason R Walker|Benjamin M Good|Chunlei Wu|Andrew I Su|Rodrigo Dienstmann|Steven JM Jones|Ron Bose|David H Spencer|Lukas D Wartman|Richard K Wilson|Elaine R Mardis|Obi L Griffith McDonnell Genome Institute;|Charite Comprehensive Cancer Center;|Michael Smith Genome Sciences Centre;|The Scripps Research Institute;|Vall d'Hebron Institute of Oncology;|Washington University School of Medicine
http://dx.doi.org/10.1101/073015 2016-09-01 Plant Biology Natural Variation in Arabidopsis Cvi-0 Accession Uncovers Regulation of Guard Cell CO2 Signaling by MPK12 Liina Jakobson|Lauri Vaahtera|Kadri Toldsepp|Maris Nuhkat|Cun Wang|Yuh-Shuh Wang|Hanna Horak|Ervin Valk|Priit Pechter|Yana Sindarovska|Jing Tang|Chuanlei Xiao|Yang Xu|Ulvi Gerst Talas|Maido Remm|Saijaliisa Kangasjarvi|M. Rob G. Roelfsema|Honghong Hu|Jaakko Kangasjarvi|Mart Loog|Julian I. Schroeder|Hannes Kollist|Mikael Brosche University of Tartu;|University of Helsinki;|University of California San Diego;|Huazhong Agricultural University;|University of Turku;|University of Würzburg
http://dx.doi.org/10.1101/072702 2016-09-01 Biochemistry CC BY eIF3 plays distinct roles at the mRNA entry and exit channels of the ribosomal preinitiation complex Colin Echeverria Aitken|Petra Beznoskova|Vladislav Vlckova|Wen-Ling Chiu|Fujun Zhou|Leos Shivaya Valasek|Alan G Hinnebusch|Jon R Lorsch NICHD/National Institutes of Health;|Institute of Microbiology ASCR, Prague, Czech Republic
http://dx.doi.org/10.1101/072942 2016-09-01 Evolutionary Biology CC BY-NC-ND Perpendicular axes of incipient speciation generated by mitochondrial introgression Hernan E Morales|Paul Sunnucks|Leo Joseph|Alexandra Pavlova Monash University;|Australian National Wildlife Collection, CSIRO National Research Collections Australia
http://dx.doi.org/10.1101/072900 2016-09-01 Genomics CC BY Regions of very low H3K27me3 partition the Drosophila genome into topological domains Sherif El-Sharnouby|Bettina Fischer|Jose Paolo Magbanua|Benjamin Umans|Rosalyn Flower|Siew Woh Choo|Steven Russell|Rob White University of Cambridge;|University of Malaya
http://dx.doi.org/10.1101/072959 2016-09-01 Evolutionary Biology CC BY Selective constraints on coding sequences of nervous system genes are a major determinant of duplicate gene retention in vertebrates Julien Roux|Jialin Liu|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/072967 2016-09-01 Genetics Integrating gene expression with summary association statistics to identify susceptibility genes for 30 complex traits Nicholas Mancuso|Huwenbo Shi|Page Goddard|Gleb Kichaev|Alexander Gusev|Bogdan Pasaniuc David Geffen School of Medicine, University of California at Los Angeles;|University of California Los Angeles;|University of California, Los Angeles;|Harvard School of Public Health
http://dx.doi.org/10.1101/072975 2016-09-01 Synthetic Biology CC BY-NC-ND Regulation of cancer epigenomes with a histone-binding synthetic transcription factor Karmella A. Haynes|David B. Nyer|Daniel Vargas|Caroline Hom Arizona State University
http://dx.doi.org/10.1101/072868 2016-09-01 Bioinformatics CC BY Contig annotation tool CAT robustly classifies assembled metagenomic contigs and long sequences Diego D. Cambuy|Felipe H. Coutinho|Bas E. Dutilh Utrecht University;|Federal University of Rio de Janeiro
http://dx.doi.org/10.1101/072934 2016-09-01 Genetics CC BY-ND Dissecting the genetics of complex traits using summary association statistics Bogdan Pasaniuc|Alkes L Price UCLA;|Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/072850 2016-09-01 Microbiology CC BY-NC-ND Quorum sensing modulatory effect of sound stimulation on Serratia marcescens and Pseudomonas aeruginosa Vijay Kothari|Pooja Patel|Chinmayi Joshi|Brijesh Mishra|Shashikant Dubey|Milan Mehta Nirma University
http://dx.doi.org/10.1101/072926 2016-09-01 Evolutionary Biology CC BY-NC-ND Genes mirror migrations and cultures in prehistoric Europe - a population genomic perspective Torsten Gunther|Mattias Jakobsson Uppsala University;|Uppsala Universitet
http://dx.doi.org/10.1101/072751 2016-08-31 Neuroscience Schizophrenia and human self-domestication: a linguistic approach Antonio Benitez-Burraco|Wanda Lattanzi University of Huelva;|Universita Cattolica del Sacro Cuore
http://dx.doi.org/10.1101/072769 2016-08-31 Genomics CC BY-NC-ND Major host transitions are modulated through transcriptome-wide reprograming events in Schistocephalus solidus, a threespine stickleback parasite Francois-Olivier Hebert|Stephan Grambauer|Iain Barber|Christian Landry|Nadia Aubin-Horth Universite Laval;|University of Leicester
http://dx.doi.org/10.1101/072587 2016-08-31 Microbiology CC BY-NC A novel ENU-induced ankyrin-1 mutation impairs parasite invasion and increases erythrocyte clearance during malaria infection in mice Hong Ming Huang|Denis Bauer|Patrick Lelliott|Andreas Greth|Brendan McMorran|Simon Foote|Gaetan Burgio John Curtin School of Medical Research, the Australian National University;|CSIRO, Sydney, NSW, Australia.;|IFReC Research Building, Osaka University;|synaps studios GmbH, Brugg, Switzerland
http://dx.doi.org/10.1101/072785 2016-08-31 Molecular Biology CC BY-NC-ND Effects of Pol II catalytic mutants on in vivo elongation rate, processivity, gene expression, mRNA decay and response to nucleotide depletion Indranil Malik|Chenxi Qiu|Thomas Snavely|Craig D. Kaplan Texas A&M University
http://dx.doi.org/10.1101/072744 2016-08-31 Bioinformatics Targeted reconstruction of T cell receptor sequence from single cell RNA-sequencing links CDR3 length to T cell differentiation state Shaked Afik|Kathleen B Yates|Kevin Bi|Samuel Darko|Jernej Godec|Ulrike Gerdemann|Leo Swadling|Daniel C Douek|Paul Klenerman|Eleanor J Barnes|Arlene H Sharpe|W. Nicholas Haining|Nir Yosef UC Berkeley;|Harvard Medical School;|NIAID, NIH;|University of Oxford
http://dx.doi.org/10.1101/072603 2016-08-31 Genetics CC BY-NC-ND Pleiotropy-robust Mendelian Randomization Hans van Kippersluis|Cornelius A Rietveld Erasmus School of Economics
http://dx.doi.org/10.1101/072660 2016-08-31 Physiology CC BY-NC-ND An effect size distribution analysis of heart rate variability studies: Recommendations for reporting the magnitude of group differences Daniel S Quintana University of Oslo
http://dx.doi.org/10.1101/072678 2016-08-31 Animal Behavior and Cognition CC BY-NC-ND Behavioral tagging and the penumbra of learning Samuel J Gershman Harvard University
http://dx.doi.org/10.1101/072579 2016-08-31 Systems Biology Unraveling the differential dynamics of developmental fate in central and peripheral nervous systems DOLA SENGUPTA|Sandip Kar IIT BOMBAY
http://dx.doi.org/10.1101/072645 2016-08-31 Bioinformatics CC BY-NC-ND dms2dfe: Comprehensive Workflow for Analysis of Deep Mutational Scanning Data Rohan Dandage|Kausik Chakraborty CSIR-Institute of Genomics and Integrative BIology;|CSIR-Institute of Genomics and Integrative Biology, New Delhi
http://dx.doi.org/10.1101/072454 2016-08-31 Microbiology The Transcriptome of the Avian Malaria Parasite Plasmodium ashfordi Displays Host-Specific Gene Expression Elin Videvall|Charlie K Cornwallis|Dag Ahren|Vaidas Palinauskas|Gediminas Valkiunas|Olof Hellgren Lund University;|Nature Research Centre
http://dx.doi.org/10.1101/072546 2016-08-31 Ecology CC BY-NC-ND Cost Effective Acoustic Monitoring of Biodiversity and Bird Populations in Kenya Ciira wa Maina|David Muchiri|Peter Njoroge Dedan Kimathi University of Technology;|National Museums of Kenya
http://dx.doi.org/10.1101/071597 2016-08-31 Neuroscience CC BY-ND Consistency of EEG source localization and connectivity estimates Keyvan Mahjoory|Vadim V Nikulin|Loic Botrel|Klaus Linkenkaer-Hansen|Marco M Fato|Stefan Haufe University of Genova;|Charite University Medicine Berlin;|University of Wuerzburg;|Center for Neurogenomics and Cognitive Research (CNCR), Amsterdam;|Technische Universitaet Berlin
http://dx.doi.org/10.1101/072736 2016-08-31 Evolutionary Biology CC BY-NC-ND Population-genomic inference of the strength and timing of selection against gene flow Simon Aeschbacher|Jessica Packard Selby|John H. Willis|Graham Coop University of California, Davis;|Duke University;|University of California: Davis
http://dx.doi.org/10.1101/072652 2016-08-31 Epidemiology CC BY-ND Containing Emerging Epidemics: a Quantitative Comparison of Quarantine and Symptom Monitoring Corey Peak|Lauren M Childs|Yonatan H Grad|Caroline O Buckee Harvard T.H. Chan School of Public Health;|Harvard T.H. Chan School of Public Health, Brigham and Women's Hospital
http://dx.doi.org/10.1101/072413 2016-08-31 Bioinformatics CC BY-NC-ND A phylogenetic transform enhances analysis of compositional microbiota data Justin D Silverman|Alex Washburne|Sayan Mukherjee|Lawrence A David Duke University
http://dx.doi.org/10.1101/072710 2016-08-31 Animal Behavior and Cognition CC BY-NC-ND Mating success associated with the white gene in Drosophila melanogaster Chengfeng Xiao|Shuang Qiu|R Meldrum Robertson Queen's University, Canada
http://dx.doi.org/10.1101/072488 2016-08-31 Genetics Evaluating the Stability and Flexibility of DNA Methylation Patterns from Stem to Differentiated Cells Minseung Choi|Diane P Genereux|Jamie Goodson|Haneen Al-Azzawi|Shannon Q. Allain|Stan Palasek|Carol B. Ware|Chris Cavanaugh|Daniel G. Miller|Winslow C. Johnson|Kevin D. Sinclair|Reinhard Stoger|Charles D. Laird Princeton University;|UMass Medical School and Broad Institute;|University of Washington;|University of Nottingham, Sutton Bonington Campus;|University of Pittsburgh;|University of Nottingham
http://dx.doi.org/10.1101/070185 2016-08-31 Biochemistry Cooperative DNA binding by a splice variant of the transcription factor ETS1 that lacks autoinhibition Daniel Samorodnitsky|Courtney Szyjka|Gerald Koudelka USDA;|University at Buffalo
http://dx.doi.org/10.1101/072512 2016-08-31 Evolutionary Biology CC BY-NC-ND The impacts of drift and selection on genomic evolution in holometabolous insects K. Jun Tong|Sebastian Duchene|Nathan Lo|Simon Y.W. Ho University of Sydney
http://dx.doi.org/10.1101/072504 2016-08-31 Pathology Disrupted cholinergic modulation can underlie abnormal gamma rhythms in the schizophrenia Jung H. Lee Allen Institute for Brain Science
http://dx.doi.org/10.1101/072561 2016-08-31 Systems Biology CC BY-NC-ND A hierarchical Bayesian framework for understanding the spatiotemporal dynamics of the intestinal epithelium Oliver J Maclaren|Aimee Parker|Carmen Pin|Simon R Carding|Alastair JM Watson|Alexander G Fletcher|Helen M Byrne|Philip K Maini The University of Auckland;|Institute of Food Research;|Institute of Food Research/University of East Anglia;|University of Sheffield;|University of Oxford
http://dx.doi.org/10.1101/072538 2016-08-31 Neuroscience A REPETITIVE MODULAR OSCILLATION UNDERLIES HUMAN BRAIN ELECTRIC ACTIVITY Arturo Tozzi|James Peters|Norbert Jausovec University of Manitoba, Winnipeg, Canada;|University of Manitoba;|University of Maribor
http://dx.doi.org/10.1101/072520 2016-08-31 Evolutionary Biology CC BY-NC-ND Evolutionary Genetics of Insecticide Resistance and the Effects of Chemical Rotation Dylan J Siniard|Michael J Wade|Douglas W Drury Indiana University
http://dx.doi.org/10.1101/072462 2016-08-31 Ecology Evolution of natal dispersal in spatially heterogenous environments Robert S. Cantrell|Chris Cosner|Yuan Lou|Sebastian Schreiber University of Miami;|Ohio State University;|University of California, Davis
http://dx.doi.org/10.1101/072496 2016-08-31 Evolutionary Biology CC BY-ND Genomic signature of kin selection in an ant with obligately sterile workers Michael R Warner|Alexander Mikheyev|Timothy A Linksvayer University of Pennsylvania;|Okinawa Institute of Science and Technology
http://dx.doi.org/10.1101/071019 2016-08-31 Bioinformatics CC BY MetacodeR: An R package for manipulation and heat tree visualization of community taxonomic data from metabarcoding Zachary S. L. Foster|Thomas Sharpton|Niklaus J Grunwald Oregon State University;|USDA ARS
http://dx.doi.org/10.1101/072470 2016-08-31 Microbiology CC BY-ND Deep Annotation of Protein Function across Diverse Bacteria from Mutant Phenotypes Morgan N Price|Kelly M Wetmore|Robert Jordan Waters|Mark Callaghan|Jayashree Ray|Jennifer V Kuehl|Ryan A Melnyk|Jacob S Lamson|Yumi Suh|Zuelma Esquivel|Harini Sadeeshkumar|Romy Chakraborty|Benjamin E Rubin|James Bristow|Matthew J Blow|Adam P Arkin|Adam M Deutschbauer Lawrence Berkeley National Laboratory;|Joint Genome Institute, Lawrence Berkeley National Laboratory;|University of California, San Diego
http://dx.doi.org/10.1101/072447 2016-08-31 Bioinformatics CC BY-ND Simera: Modelling the PCR Process to Simulate Realistic Chimera Formation Ben Nichols|Christopher Quince University of Glasgow;|University of Warwick
http://dx.doi.org/10.1101/073098 2016-09-02 Epidemiology CC BY-ND Zika virus infection as a cause of congenital brain abnormalities and Guillain-Barre syndrome: systematic review Fabienne Krauer|Maurane Riesen|Ludovic Reveiz|Olufemi T Oladapo|Ruth Martinez-Vega|Teegwende V Porgo|Anina Haefliger|Nathalie J Broutet|Nicola Low|WHO Zika Causality Working Group University of Bern;|Pan American Health Organization;|World Health Organization;|Universidad Nacional de Santander;|Laval University
http://dx.doi.org/10.1101/071779 2016-09-02 Epidemiology CC BY-ND Virus genomes reveal the factors that spread and sustained the West African Ebola epidemic. Gytis Dudas|Luiz Max Carvalho|Trevor Bedford|Andrew J Tatem|Guy Baele|Nuno Faria|Daniel Park|Jason Ladner|Armando Arias|Danny Asogun|Filip Bielejec|Sarah Caddy|Matt Cotten|Jonathan Dambrozio|Simon Dellicour|Antonino Di Caro|Joseph Diclaro|Sophie Duraffour|Mike Elmore|Lawrence Fakoli|Merle Gilbert|Sahr M Gevao|Stephen Gire|Adrianne Gladden-Young|Andreas Gnirke|Augustine Goba|Donald Grant|Bart Haagmans|Julian Hiscox|Umaru Jah|Brima Kargbo|Jeffrey Kugelman|Di Liu|Jia Lu|Christine Malboeuf|Suzanne Mate|David Matthews|Christian Matranga|Luke Meredith|James Qu|Joshua Quick|Susan Pas|My Phan|Georgios Poliakis|Chantal Reusken|Mariano Sanchez-Lockhart|Stephen Schaffner|John Schieffelin|Rachel Sealfon|Etienne Simon-Loriere|Saskia Smits|Kilian Stoecker|Lucy Thorne|Ekaete Alice Tobin|Mohamed Vandi|Simon Watson|Kendra West|Shannon Whitmer|Michael Wiley|Sarah Winnicki|Shirlee Wohl|Roman Wolfel|Nathan Yozwiak|Kristian Andersen|Sylvia Blyden|Fatorma Bolay|Miles Carroll|Boubacar Diallo|Pierre Formenty|Christophe Fraser|George Gao|Robert Garry|Ian Goodfellow|Stephan Gunther|Christian Happi|Edward Holmes|Brima Kargbo|Paul Kellam|Marion Koopmans|Nicholas Loman|N'Faly Magassouba|Dhamari Naidoo|Stuart Nichol|Tolbert Nyenswah|Gustavo Palacios|Oliver Pybus|Pardis Sabeti|Amadou Sall|Ute Stroher|Isatta Wury|Marc Suchard|Philippe Lemey|Andrew Rambaut Institute of Evolutionary Biology, University of Edinburgh, King's Buildings, Edinburgh, EH9 3FL, UK;|Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, Seattle, WA, USA;|WorldPop, Department of Geography and Environment, University of Southampton, Highfield, UK;|Department of Microbiology and Immunology, Rega Institute, KU Leuven, Leuven, Belgium;|Department of Zoology, University of Oxford, South Parks Road, Oxford, OX1 3PS, UK;|Broad Institute of Harvard and MIT, Cambridge, MA 02138, USA;|Center for Genome Sciences, U.S. Army Medical Research Institute of Infectious Diseases,Fort Detrick;|Department of Pathology, University of Cambridge, Addenbrooke's Hospital, Cambridge, CB2 2QQ, UK;|Institute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Nigeria;|Virus Genomics, Wellcome Trust Sanger Institute, Hinxton, United Kingdom;|National Institute for Infectious Diseases 'L. Spallanzani' - IRCCS, Via Portuense 292, 00149 Rome;|Naval Medical Research Unit 3, 3A Imtidad Ramses Street, Cairo, 11517, Egypt;|Bernhard Nocht Institute for Tropical Medicine, 20359 Hamburg, Germany;|National Infections Service, Public Health England, Porton Down, Salisbury, Wilts SP4 0JG, UK;|Liberian Institute for Biomedical Research, Charlesville, Liberia;|University of Sierra Leone, Freetown, Sierra Leone;|Viral Hemorrhagic Fever Program, Kenema Government Hospital, 1 Combema Road, Kenema, Sierra Leone;|Department of Viroscience, Erasmus University Medical Centre, 300 CA Rotterdam, The Netherlands;|Institute of Infection and Global Health, University of Liverpool, Liverpool L69 2BE, United Kingdom;|University of Makeni, Makeni, Sierra Leone;|Ministry of Health and Sanitation, 4th Floor Youyi Building, Freetown, Sierra Leone;|Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China;|University of Bristol, BS8 1TD, United Kingdom;|Institute of Microbiology and Infection, University of Birmingham, Birmingham B15 2TT, UK;|Department of Pediatrics, Section of Infectious Diseases, New Orleans, LA 70112, USA;|Institut Pasteur, Functional Genetics of Infectious Diseases Unit, 28 rue du Docteur Roux, Paris;|Bundeswehr Institute of Microbiology, Neuherbergstrasse 11, 80937 Munich, Germany;|Viral Special Pathogens Branch, Centers for Disease Control and Prevention, Atlanta, Georgia;|The Scripps Research Institute, Department of Immunology and Microbial Science, La Jolla, CA;|World Health Organization, Conakry, Guinea;|WHO Ebola Response Team;|Department of Infectious Disease Epidemiology, School of Public Health, Imperial College London, UK;|Department of Microbiology & Immunology, New Orleans, LA 70112, USA;|Redeemer's University, Ede, Osun State, Nigeria;|Marie Bashir Institute for Infectious Diseases and Biosecurity, University of Sydney, Australia;|Universite Gamal Abdel Nasser de Conakry, Laboratoire des Fievres Hemorragiques en Guinee, Conakry;|Minstry of Health Liberia, Monrovia, Liberia;|Ministry of Health Guinea, Conakry, Guinea;|Dept of Biostatistics, UCLA Fielding School of Public Health, University of California, Los Angeles;|University of Edinburgh
http://dx.doi.org/10.1101/073064 2016-09-02 Bioinformatics CC BY-NC-ND Reductive Analytics on Big MS Data leads to tremendous reduction in time for peptide deduction Muaaz Gul Awan|Fahad Saeed Western Michigan University
http://dx.doi.org/10.1101/073130 2016-09-02 Neuroscience CC BY-NC-ND Learning improves conscious access at the bottom, but not the top: Reverse hierarchical effects in perceptual learning and metacognition Benjamin Chen|Matthew Mundy|Naotsugu Tsuchiya Monash University
http://dx.doi.org/10.1101/073197 2016-09-02 Microbiology Zika virus replication in the mosquito Culex quinquefasciatus in Brazil Duschinka R.D. Guedes|Marcelo H.S. Paiva|Mariana M.A. Donato|Priscilla P. Barbosa|Larissa Krokovsky|Sura W. dos S. Rocha|Karina L.A. Saraiva|Monica M. Crespo|Rosangela M.R. Barbosa|Claudia M.F. Oliveira|Maria A.V. Melo-Santos|Lindomar Pena|Marli T. Cordeiro|Rafael F. de O. Franca|Andre L.D. de Oliveira|Walter S. Leal|Christina A. Peixoto|Constancia F.J. Ayres Department of Entomology, Centro de Pesquisas Aggeu Magalhaes, Fundacao Oswaldo Cruz-Pernambuco;|Universidade Federal de Pernambuco, Centro Academico do Agreste;|Laboratory of Virology and Experimental Therapy (LAVITE), Centro de Pesquisas Aggeu Magalhaes;|Center for Statistics and Geoprocessing, Centro de Pesquisas Aggeu Magalhaes, Fundacao Oswaldo Cruz;|Department of Molecular and Cellular Biology, University of California-Davis
http://dx.doi.org/10.1101/073114 2016-09-02 Genomics CC BY-NC-ND Using high-resolution variant frequencies to empower clinical genome interpretation Nicola Whiffin|Eric Minikel|Roddy Walsh|Anne O'Donnell-Luria|Konrad Karczewski|Alexander Y Ing|Paul J R Barton|Birgit Funke|Stuart A Cook|Daniel G MacArthur|James S Ware Imperial College London;|Broad Institute of MIT and Harvard;|Analytic and Translational Genetics Unit;|Laboratory for Molecular Medicine;|Massachusetts General Hospital
http://dx.doi.org/10.1101/073171 2016-09-02 Genomics CC BY-NC-ND Trends in DNA methylation with age replicate across diverse human populations Shyamalika Gopalan|Oana Carja|Maud Fagny|Etienne Patin|Justin W Myrick|Lisa McEwen|Sarah M Mah|Michael S Kobor|Alain Froment|Marcus W Feldman|Lluis Quintana-Murci|Brenna M Henn Stony Brook University;|University of Pennsylvania;|Dana-Farber Cancer Institute;|Institut Pasteur;|University of California at Los Angeles;|University of British Columbia;|Centre National de la Recherche Scientifique;|Stanford University
http://dx.doi.org/10.1101/073163 2016-09-02 Neuroscience Ankyrin G membrane partners drive the establishment and maintenance of the axon initial segment Christophe Leterrier|Nadine Clerc|Fanny Rueda-Boroni|Audrey Montersino|Benedicte Dargent|Francis Castets Aix Marseille University, CNRS, CRN2M UMR7286, 13344 cedex 15, Marseille, France
http://dx.doi.org/10.1101/068866 2016-09-02 Animal Behavior and Cognition CC BY-NC-ND Comprehensive Analysis of Two Shank3 and the Cacna1c Mouse Models of Autism Spectrum Disorder Patricia A Kabitzke|Daniela Brunner|Dansha He|Pamela A Fazio|Kimberly Cox|Jane Sutphen|Lucinda Thiede|Emily Sabath|Taleen Hanania|Vadim Alexandrov|Randall Rasmusson|Will Spooren|Anirvan Ghosh|Pamela Feliciano|Barbara Biemans|Marta Benedetti|Alice Luo Clayton PsychoGenics, Inc.;|PsychoGenics Inc.;|SUNY Buffalo School of Medicine and Biomedical Sciences;|Roche Pharma Research and Early Development, NORD, Roche Innovation Center Basel;|Simons Foundation Autism Research Initiative
http://dx.doi.org/10.1101/073148 2016-09-02 Physiology Sexual dimorphism in the Drosophila metabolome increases throughout development Fiona C Ingleby|Edward H Morrow University of Sussex
http://dx.doi.org/10.1101/072793 2016-09-02 Neuroscience CC BY-NC The visual white matter: The application of diffusion MRI and fiber tractography to vision science Ariel Rokem|Hiromasa Takemura|Andrew Bock|K. Suzanne Scherf|Marlene Behrmann|Brian Wandell|Ione Fine|Holly Bridge|Franco Pestilli The University of Washington eScience Institute, Seattle, WA, USA;|Center for Information and Neural Networks (CiNet), National Institute of Information and Communicat;|University of Pennsylvania, Phildelphia, PA, USA;|Penn State University, State College, PA, USA;|Carnegie Mellon University, Pittsburgh, PA, USA;|Stanford University, Stanford, CA, USA;|University of Washington, Seattle, WA, USA;|Oxford University, UK;|Indiana University, Bloomington, IN
http://dx.doi.org/10.1101/073213 2016-09-03 Plant Biology Gene expression analysis provides insight into the physiology of the important staple food crop cassava Mark C Wilson|Andrew M Mutka|Aaron W Hummel|Jeffrey Berry|Raj Deepika Chauhan|Anupama Vijayaraghavan|Nigel J Taylor|Daniel F Voytas|Daniel H. Chitwood|Rebecca S Bart Donald Danforth Plant Science Center;|Department of Genetics, University of Minnesota
http://dx.doi.org/10.1101/073239 2016-09-03 Bioinformatics CC BY-ND Accurate De Novo Prediction of Protein Contact Map by Ultra-Deep Learning Model Sheng Wang|Siqi Sun|Zhen Li|Renyu Zhang|Jinbo Xu Toyota Technological Institute at Chicago
http://dx.doi.org/10.1101/062067 2016-09-03 Plant Biology CC BY-NC Real-time detection of PRT1-mediated ubiquitination via fluorescently labeled substrate probes Nico Dissmeyer|Augustin C Mot|Erik Prell|Maria Klecker|Christin Naumann|Frederik Faden|Bernhard Westermann Leibniz Institute of Plant Biochemistry (IPB)
http://dx.doi.org/10.1101/073247 2016-09-03 Plant Biology CC BY Network Modules Driving Plant Stress Response, Tolerance and Adaptation: A case study using Abscisic acid Induced Protein-protein Interactome of Arabidopsis thaliana Khader Shameer|Mahantesha B Naika|Oommen K Mathew|Ramanathan Sowdhamini NCBS - TIFR, Bangalore;|National Centre for Biological Sciences (TIFR)
http://dx.doi.org/10.1101/073189 2016-09-03 Bioinformatics A Novel Clustering Method for Patient Stratification Hongfu Liu|Rui Zhao|Hongsheng Fang|Feixiong Cheng|Yun Fu|Yang-Yu Liu Northeastern University;|Harvard Medical School
http://dx.doi.org/10.1101/073387 2016-09-04 Molecular Biology CC BY-NC-ND An efficient electroporation protocol for the genetic modification of mammalian cells Leonardo Chicaybam|Camila Barcelos|Barbara Peixoto|Mayra Carneiro|Cintia Gomez Limia|Patricia Redondo|Carla Lira|Flavio Paraguassu-Braga|Zilton Vasconcelos|Luciana Barros|Martin Bonamino Fundacao Instituto Oswaldo Cruz, VPPLR, Rio de Janeiro - Brazil;|Programa de Carcinogenese Molecular, Instituto Nacional de Cancer (INCA), Rio de Janeiro - Brazil;|Centro de Transplante de Medula Ossea, Instituto Nacional de Cancer, Rio de Janeiro, Brazil;|Instituto Fernandes Figueira, Fundacao Oswaldo Cruz, Rio de Janeiro, Brazil;|Banco de Cordao Umbilical e Placentario, Instituto Nacional de Cancer (INCA) Rio de Janeiro - Brazil
http://dx.doi.org/10.1101/073346 2016-09-04 Biophysics Direct and Indirect Models for Protein Chemical Denaturation are Characteristic of Opposite Dynamic Properties Liangzhong Lim|Linlin Miao|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/073270 2016-09-04 Bioengineering Decellularised Human Liver is too Heterogeneous for Designing a Generic ECM-mimic Hepatic Scaffold Giorgio Mattei|Chiara Magliaro|Andrea Pirone|Arti Ahluwalia University of Pisa
http://dx.doi.org/10.1101/073205 2016-09-05 Physiology Impact of type 2 diabetes on cardiorespiratory function and exercise performance Joanie Caron|Gregory R duManoir|Lawrence Labrecque|Audrey Chouinard|Annie Ferland|Sylvie Legault|Paul Poirier|Patrice Brassard Department of Kinesiology, Faculty of Medicine, Universite Laval, Quebec, Canada;|School of Health & Exercise Sciences, University of British Columbia Okanagan, Kelowna;|Centre de recherche - Institut universitaire de cardiologie et de pneumologie de Quebec, Quebec,
http://dx.doi.org/10.1101/073528 2016-09-05 Evolutionary Biology Comparative genomics and metagenomics analyses of endangered Père David’s deer (Elaphurus davidianus) provide insights into population recovery Lifeng Zhu|Xuejing Zhang|Cao Deng|Jingjing Ding|Yi Ren|Xiang Zhao|Shishang Qin|Shilin Zhu|Zhiwen Wang|Xiaoqiang Chai|Huasheng Huang|Yuhua Ding|Guoqing Lu Nanjing Normal University;|PubBio-Tech Services Corporation, Wuhan;|Jiangsu Academy of Forestry, Nanjing, China;|Shanghai Majorbio Bio-pharm Biotechnology Co. Ltd., Shanghai;|DNA Stories Bioinformatics Center, Chengdu;|Jiangsu Dafeng Milu National Nature Reserve, Dafeng;|University of Nebraska at Omaha
http://dx.doi.org/10.1101/073460 2016-09-05 Bioinformatics CC BY-ND Semi-Automated Identification of Ontological Labels in the Biomedical Literature with goldi Christopher B. Cole|Sejal Patel|Jo Knight University of Ottawa;|Centre for Addiction and Mental Health;|Lancaster University
http://dx.doi.org/10.1101/073585 2016-09-05 Neuroscience CC BY-NC-ND Measuring MEG closer to the brain: Performance of on-scalp sensor arrays Joonas Iivanainen|Matti Stenroos|Lauri Parkkonen Aalto University
http://dx.doi.org/10.1101/073437 2016-09-05 Neuroscience CC BY-NC-ND Improving the temporal accuracy of functional Magnetic Resonance Imaging Niels Janssen|Juan A Hernandez-Cabrera|Laura Ezama Foronda Universidad de La Laguna;|University of La Laguna
http://dx.doi.org/10.1101/073478 2016-09-05 Systems Biology Precise label-free quantitative proteomes in high-throughput by microLC and data-independent SWATH acquisition Jakob Vowinckel|Aleksej Zelezniak|Artur Kibler|Roland Bruderer|Michael Muelleder|Lukas Reiter|Markus Ralser University of Cambridge;|Biognosys AG
http://dx.doi.org/10.1101/073494 2016-09-05 Neuroscience CC BY Intrinsic brain connectivity after partial sleep deprivation in young and older adults: results from the Stockholm Sleepy Brain study Gustav Nilsonne|Sandra Tamm|Johanna Schwarz|Rita Almeida|Hakan Fischer|Goran Kecklund|Mats Lekander|Peter Fransson|Torbjorn Akerstedt Karolinska Institutet;|Stockholm University
http://dx.doi.org/10.1101/072595 2016-09-05 Neuroscience CC BY-NC-ND Specific excitatory connectivity for feature integration in mouse primary visual cortex Dylan Muir|Patricia Molina-Luna|Morgane M Roth|Fritjof Helmchen|Bjoern Kampa University of Basel;|RWTH Aachen University;|University of Zurich
http://dx.doi.org/10.1101/073262 2016-09-05 Animal Behavior and Cognition CC BY Behavioral syndromes can reduce population density: behavior and demographic heterogeneity Bruce Kendall|Gordon A Fox|Joseph P Stover University of California, Santa Barbara;|University of South Florida;|Lyon College
http://dx.doi.org/10.1101/073569 2016-09-05 Neuroscience CC BY Investigating resting-state functional connectivity in the cervical spinal cord at 3T Falk Eippert|Yazhuo Kong|Anderson M Winkler|Jesper L Andersson|Jurgen Finsterbusch|Christian Buchel|Jonathan CW Brooks|Irene Tracey FMRIB Centre, Nuffield Department of Clinical Neurosciences, University of Oxford;|Department of Systems Neuroscience, University Medical Center Hamburg-Eppendorf;|Clinical Research and Imaging Centre, University of Bristol
http://dx.doi.org/10.1101/073510 2016-09-05 Genomics CC BY-NC-ND Retroviral origins of the Caenorhabditis elegans orphan gene F58H7.5. Wadim J Kapulkin Veterinary Consultancy, Conrada 16/65, 01-922 Warsaw, Poland
http://dx.doi.org/10.1101/073577 2016-09-05 Ecology An efficient extension of N-mixture models for multi-species abundance estimation Juan Pablo Gomez|Scott K. Robinson|Jose Miguel Ponciano University of Florida;|Florida Museum of Natural History
http://dx.doi.org/10.1101/073445 2016-09-05 Bioinformatics CC BY-NC Improved assemblies and comparison of two ancient Yersinia pestis genomes Nina Luhmann|Daniel Doerr|Cedric Chauve Bielefeld University;|Swiss Federal Institute of Technology in Lausanne;|Simon Fraser University
http://dx.doi.org/10.1101/073403 2016-09-05 Genomics CC BY-NC-ND Differential Expression Analysis for RNAseq using Poisson Mixed Models Shiquan Sun|Michelle Hood|Laura Scott|Qinke Peng|Sayan Mukherjee|Jenny Tung|Xiang Zhou University of Michigan;|Xian Jiaotong University;|Duke University
http://dx.doi.org/10.1101/073551 2016-09-05 Bioinformatics CC BY-NC-ND LoRTE: Detecting transposon-induced genomic variants using low coverage PacBio long read sequences Jonathan Filee|Eric Disdero CNRS / Paris Saclay University
http://dx.doi.org/10.1101/073395 2016-09-05 Bioinformatics Ultrasensitive detection of TCR hypervariable region in solid-tissue RNA-seq data Bo Li|Taiwen Li|Binbin Wang|Ruoxu Dou|Jean-Chrisophe Pignon|Toni K Choueiri|Sabina Signoretti|Jun S Liu|Xiaole Shirley Liu Dana Farber Cancer Institute;|Sichuan University;|Tongji University;|Sun Yat-sen University;|Brigham and Women's hospital;|Harvard University
http://dx.doi.org/10.1101/073411 2016-09-05 Biochemistry A Multi-Crystal Method for Extracting Obscured Signal from Crystallographic Electron Density Nicholas Pearce|Anthony Richard Bradley|Patrick Collins|Tobias Krojer|Radoslaw Nowak|Romain Talon|Brian D Marsden|Sebastian Kelm|Jiye Shi|Charlotte Deane|Frank von Delft University of Oxford;|Diamond Light Source;|UCB Pharma
http://dx.doi.org/10.1101/073221 2016-09-04 Evolutionary Biology CC BY-NC-ND Recent advances in the study of fine-scale population structure in humans John Novembre|Benjamin M Peter University of Chicago
http://dx.doi.org/10.1101/073296 2016-09-04 Bioinformatics CC BY-NC-ND A Scalable Algorithm for Structure Identification of Complex Gene Regulatory Network from Temporal Expression Data Shupeng Gui|Rui Chen|Liang Wu|Ji Liu|Hongyu Miao University of Rochester;|Baylor College of Medicine;|University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/073254 2016-09-04 Bioinformatics Pitfalls in Inferring Human Microbial Dynamics from Temporal Metagenomics Data Hong-Tai Cao|Travis Gibson|Amir Bashan|Yang-Yu Liu University of Southern California;|Harvard Medical School;|Bar-Ilan University
http://dx.doi.org/10.1101/073106 2016-09-04 Ecology CC BY-NC Wolbachia infections in Aedes aegypti differ markedly in their response to cyclical heat stress Perran A Ross|Itsanun Wiwatanaratanabutr|Jason K Axford|Vanessa L White|Nancy M Endersby-Harshman|Ary A Hoffmann The University of Melbourne;|King Mongkut's Institute of Technology Ladkrabang
http://dx.doi.org/10.1101/073304 2016-09-04 Evolutionary Biology CC BY-NC High throughput sequencing of multiple amplicons for barcoding and integrative taxonomy Perrine Cruaud|Jean-Yves Rasplus|Lillian Jennifer Rodriguez|Astrid Cruaud INRA
http://dx.doi.org/10.1101/073379 2016-09-04 Genomics CC BY-NC-ND GPhase: Greedy Approach for Accurate Haplotype Inferencing Kshitij Tayal|Naveen Sivadasan|Rajgopal Srinivasan TCS Innovation Lab
http://dx.doi.org/10.1101/073312 2016-09-04 Evolutionary Biology CC BY-NC-ND Fossils matter: improved estimates of divergence times in Pinus reveal older diversification Bianca Saladin|Andrew B Leslie|Rafael O Wueest|Glenn Litsios|Elena Conti|Nicolas Salamin|Niklaus E Zimmermann Swiss Federal Research Institute WSL;|Brown University;|Federal Office for the Environment FOEN;|University of Zurich;|University of Lausanne
http://dx.doi.org/10.1101/073320 2016-09-04 Evolutionary Biology CC BY Range stability predicts lineage persistence in a morphologically cryptic ground squirrel species complex Mark A Phuong|Ke Bi|Craig Moritz University of California, Berkeley;|University of California, Berkeley; The Australian National University
http://dx.doi.org/10.1101/073650 2016-09-06 Microbiology Investigation of the sexual reproduction strategy of the Perigord black truffle (Tuber melanosporum Vittad.) revealed trioecy Herminia De la Varga|Francois Le Tacon|Melanie Lagoguet|Flora Todesco|Torda Varga|Igor Miquel|Dominique Barry-Etienne|Christophe Robin|Fabien Halkett|Francis Martin|Claude Murat INRA;|Hungarian Academy of Sciences;|ALCINA
http://dx.doi.org/10.1101/073791 2016-09-06 Genomics High-throughput detection of RNA processing in bacteria Erin E Gill|Luisa S Chan|Geoffrey L Winsor|Neil Dobson|Raymond Lo|Shannan J Ho Sui|Bhavjinder K Dhillon|Patrick K Taylor|Raunak Shrestha|Cory Spencer|Robert E W Hancock|Peter J Unrau|Fiona S L Brinkman Simon Fraser University;|University of British Columbia
http://dx.doi.org/10.1101/073817 2016-09-06 Systems Biology CC BY-ND A living vector field reveals constraints on galactose network induction in yeast Sarah R. Stockwell|Scott A. Rifkin University of California, San Diego;|UCSD
http://dx.doi.org/10.1101/073874 2016-09-06 Neuroscience CC BY Interplay between periodic stimulation and GABAergic inhibition in striatal network oscillations Jovana Belic|Arvind Kumar|Jeanette Hellgren Kotaleski Royal Institute of Technology
http://dx.doi.org/10.1101/073742 2016-09-06 Neuroscience Volumetric Two-photon Imaging of Neurons Using Stereoscopy (vTwINS) Alexander Song|Adam S. Charles|Sue Ann Koay|Jeff L. Gauthier|Stephan Y. Thiberge|Jonathan W. Pillow|David W. Tank Princeton University
http://dx.doi.org/10.1101/073635 2016-09-06 Evolutionary Biology The impact of recent population history on the deleterious mutation load in humans and close evolutionary relatives Yuval B Simons|Guy Sella Columbia University
http://dx.doi.org/10.1101/073809 2016-09-06 Genomics CC BY-NC-ND Discovering DNA motifs and genomic variants associated with DNA methylation Haoyang Zeng|David K. Gifford Massachusetts Institute of Technology
http://dx.doi.org/10.1101/073825 2016-09-06 Bioinformatics CC BY-NC De novo extraction of microbial strains from metagenomes reveals intra-species niche partitioning Christopher Quince|Stephanie Connelly|Sebastien Raguideau|Johannes Alneberg|Seung Gu Shin|Gavin Collins|A. Murat Eren University of Warwick;|University of Glasgow;|French National Institute for Agricultural Research, Mathematiques et Informatique Appliques;|KTH Royal Institute of Technology;|Pohang University of Science and Technology;|National University of Ireland, Galway;|University of Chicago
http://dx.doi.org/10.1101/073759 2016-09-06 Neuroscience CC BY-NC-ND Pairwise graphical model for brain-state identification: application to decoding of spatial representations from hippocampal CA1 and CA3 recordings Lorenzo Posani|Simona Cocco|Karel Jezek|Remi Monasson Ecole Normale Superieure;|Charles University
http://dx.doi.org/10.1101/073833 2016-09-06 Bioinformatics CC BY-NC-ND SVScore: An Impact Prediction Tool For Structural Variation Liron Ganel|Haley J Abel|Ira M Hall Washington University in St. Louis
http://dx.doi.org/10.1101/073841 2016-09-06 Synthetic Biology CC BY-ND Cell-free translation is more variable than transcription Fabio Chizzolini|Michele Forlin|Sheref S Mansy University of Trento
http://dx.doi.org/10.1101/073643 2016-09-06 Genomics Integrative classification of human coding and non-coding genes based on RNA metabolism profiles Neelanjan Mukherjee|Lorenzo Calviello|Antje Hirsekorn|Stefano de Pretis|Mattia Pelizzola|Uwe Ohler MDC Berlin;|Center for Genomic Science of IIT@SEMM, Fondazione Instituto Italiano di Tecnologia, Milan, Italy
http://dx.doi.org/10.1101/073593 2016-09-06 Genomics CC BY-NC-ND Genome-wide binding of posterior HOXA/D transcription factors reveals subgrouping and association with CTCF Ivana Jerkovic|Daniel Murad Ibrahim|Guillaume Andrey|Stefan Haas|Peter Hansen|Catrin Janetzki|Irene Gonzalez Navarrete|Peter Nick Robinson|Jochen Hecht|Stefan Mundlos Max-Planck Institute for Molecular Genetics, Research Group Development & Disease;|Max-Planck Institute for Molecular Genetics, Department Computational Molecular Biology;|Institute for Medical and Human Genetics, Charité Universitätsmedizin Berlin;|Berlin-Brandenburg Center for Regenerative Therapies, Charité Universitätsmedizin Berlin;|Genomics Unit, Centre for Genomic Regulation and Universitat Pompeu Fabra
http://dx.doi.org/10.1101/065698 2016-09-06 Systems Biology CC BY-NC-ND Dissection of the contribution of regulation mode to the properties of feedforward and feedback and gene regulatory motifs. Bharat Iyengar|Beena Pillai|K.V. Venkatesh|Chetan J Gadgil CSIR-National Chemical Laboratory;|CSIR-Institute of Genomics and Integrative Biology;|Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/073684 2016-09-06 Evolutionary Biology CC BY-ND Molecular adaptation in Rubisco: discriminating between convergent evolution and positive selection using mechanistic and classical codon models Sahar Parto|Nicolas Lartillot University of Montreal;|University of Lyon 1
http://dx.doi.org/10.1101/070805 2016-09-06 Genomics CC BY-NC-ND Ethnically relevant consensus Korean reference genome towards personal reference genomes Yun Sung Cho|Hyunho Kim|Hak-Min Kim|Sungwoong Jho|JeHoon Jun|Yong Joo Lee|Kyun Shik Chae|Chang Geun Kim|Sangsoo Kim|Anders Eriksson|Jeremy S Edwards|Semin Lee|Byung Chul Kim|Andrea Manica|George M Church|Jong Bhak The Genomics Institute (TGI), Ulsan National Institute of Science and Technology (UNIST);|Geromics;|Personal Genomics Institute, Genome Research Foundation;|National Standard Reference Center, Korea Research Institute of Standards and Science;|School of Systems Biomedical Science, Soongsil University;|Department of Zoology, University of Cambridge;|Chemistry and Chemical Biology, UNM Comprehensive Cancer Center, University of New Mexico;|Department of Genetics, Harvard Medical School
http://dx.doi.org/10.1101/073726 2016-09-06 Genomics Transcriptome analysis revealed the possible contribution of chromosome introgression fragments from Sea Island cotton (Gossypium barbadense) to fiber strength in Upland cotton (Gossypium hirsutum) Quanwei Lu|Yuzhen Shi|Xianghui Xiao|Pengtao Li|Juwu Gong|Aiying Liu|Haihong Shang|Wankui Gong|Tingting Chen|Qun Ge|Junwen Li|Wei Su|Shaoqi Li|Zhen Zhang|Youlu Yuan|Jinling Huang College of Agriculture, Shanxi Agriculture University;|Institute of Cotton Research, Chinese Academy of Agricultural Sciences
http://dx.doi.org/10.1101/073924 2016-09-07 Microbiology CC BY-NC-ND Draft genomes of clinical Bacillus cereus isolates AH725 and B06.009 closely related to reference strains ATCC 14579 and ATCC 10987 Thomas HA Haverkamp|Nicolas J Tourasse|Alexander J Nederbragt|Kjetill Sigurd Jakobsen|Anne-Brit Kolst|Ole Andreas kstad Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, University of Oslo;|Laboratory for Microbial Dynamics, Section for Pharmaceutical Biosciences, University of Oslo;|Laboratory for Microbial Dynamics, School of Pharmacy, University of Oslo;|Centre for Integrative Microbial Evolution and School of Pharmacy, University of Oslo
http://dx.doi.org/10.1101/073940 2016-09-07 Neuroscience CC BY Preserved position information in high-level visual cortex with large receptive fields Kei Majima|Paul Sukhanov|Tomoyasu Horikawa|Yukiyasu Kamitani Kyoto University;|ATR Computational Neuroscience Laboratories
http://dx.doi.org/10.1101/073932 2016-09-07 Neuroscience CC BY-NC-ND A Bayesian method for reducing bias in neural representational similarity analysis Ming Bo Cai|Nicolas W Schuck|Jonathan Pillow|Yael Niv Princeton Neuroscience Institute, Princeton University
http://dx.doi.org/10.1101/073965 2016-09-07 Microbiology Extreme metagenomics using nanopore DNA sequencing: a field report from Svalbard, 78 N Arwyn Edwards|Aliyah R Debbonaire|Birgit Sattler|Luis AJ Mur|Andrew J Hodson Aberystwyth University;|Innsbruck University;|University of Sheffield
http://dx.doi.org/10.1101/073908 2016-09-07 Molecular Biology CC BY Spatial patterning of P granules by RNA-induced phase separation of the intrinsically-disordered protein MEG-3 Jarrett Smith|Deepika Calidas|Helen Schmidt|Tu Lu|Dominique Rasoloson|Geraldine Seydoux Johns Hopkins Medical Institute
http://dx.doi.org/10.1101/074096 2016-09-08 Evolutionary Biology CC BY-NC-ND Learning to cooperate: The evolution of social rewards in repeated interactions Slimane Dridi|Erol Akcay University of Pennsylvania
http://dx.doi.org/10.1101/074112 2016-09-08 Bioinformatics CC BY-ND Phylogenetic factorization of compositional data Alex D Washburne|Justin D Silverman|Jonathan Leff|Dominic J Bennett|John L Darcy|Sayan Mukherjee|Noah Fierer|Lawrence A David Duke University, Nicholas School of the Environment;|Duke University;|UC Boulder;|Imperial College London
http://dx.doi.org/10.1101/073692 2016-09-08 Genomics CC BY Power Analysis of Single Cell RNA‐Sequencing Experiments Valentine Svensson|Kedar N Natarajan|Lam-Ha Ly|Ricardo J Miragaia|Charlotte Labalette|Iain C Macaulay|Ana Cvejic|Sarah A Teichmann EMBL-EBI;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/074153 2016-09-08 Genomics Improving genetic diagnosis in Mendelian disease with transcriptome sequencing Beryl B Cummings|Jamie Lind Marshall|Taru Tukiainen|Monkol Lek|Sandra Donkervoort|Aileen Reghan Foley|Veronique Bolduc|Leigh Brook Waddell|Sarah Annabella Sandaradura|Gina L O'Grady|Elicia Estrella|Hemakumar Mutra Reddy|Fengmei Zhao|Ben Weisburd|Konrad Karczewski|Anne O'Donnell-Luria|Daniel Birnbaum|Anna Sarkozy|Ying Hu|Hernan Gonorazky|Kristl Claeys|Himanshu Joshi|Adam Bournazos|Emily Oates|Roula Ghaoui|Mark Davis|Nigel G Laing|Ana Topf|GTEx Consortium|Alan Beggs|Peter B Kang|Kathryn N North|Volker Straub|James Dowling|Francesco Muntoni|Nigel F Clarke|Sandra T Cooper|Carsten G Bonnemann|Daniel Geoffrey MacArthur The Broad Institute of MIT and Harvard;|National Institute of Neurological Disorders and Stroke, National Institutes of Health;|Institute for Neuroscience and Muscle Research, Childrens Hospital at Westmead;|Division of Pediatric Neurology, Department of Pediatrics, University of Florida College of Medicine;|Dubowitz Neuromuscular Centre, UCL Institute of Child Health;|Division of Neurology, Hospital for Sick Children;|Department of Neurology, University Hospitals Leuven and University of Leuven;|Department of Diagnostic Genomics, PathWest Laboratory Medicine;|Harry Perkins Institute of Medical Research, University of Western Australia;|The John Walton Muscular Dystrophy Research Centre, MRC Centre for Neuromuscular Diseases;|Division of Genetics and Genomics, Boston Childrens Hospital,;|Murdoch Childrens Research Institute, The Royal Childrens Hospital
http://dx.doi.org/10.1101/074104 2016-09-08 CC BY Assessing data quality in citizen science - preprint Margaret Kosmala|Andrea Wiggins|Alexandra Swanson|Brooke Simmons Harvard University;|University of Maryland;|University of Oxford;|University of California, San Diego
http://dx.doi.org/10.1101/074062 2016-09-08 Epidemiology The impact of the newly licensed dengue vaccine in endemic countries Maira Aguiar|Scott B. Halstead|Nico Stollenwerk Lisbon University;|Department of Preventive Medicine and Biometrics
http://dx.doi.org/10.1101/074088 2016-09-08 Epidemiology CC BY-ND Design of Vaccine Trials during Outbreaks with and without a Delayed Vaccination Comparator Natalie Exner Dean|M Elizabeth Halloran|Ira M Longini University of Florida;|Fred Hutchinson Cancer Research Center, University of Washington
http://dx.doi.org/10.1101/074070 2016-09-08 Genetics Insertion patterns of P{lacW} and P{EP} artificial transposons on the third chromosome of Drosophila melanogaster Laura Ioana Popa|Attila Cristian Ratiu|Alexandru Al. Ecovoiu Department of Genetics, University of Bucharest
http://dx.doi.org/10.1101/073700 2016-09-08 Epidemiology CC BY-NC-ND Assessing the public health impact of tolerance-based therapies with mathematical models Nathanael Hoze|Sebastian Bonhoeffer|Roland Regoes ETH Zurich
http://dx.doi.org/10.1101/074047 2016-09-08 Bioinformatics CC BY-NC-ND MTQuant: "Seeing" Beyond the Diffraction Limit in Fluorescence Images to Quantify Neuronal Microtubule Organization Roshni Cooper|Shaul Yogev|Kang Shen|Mark Horowitz Stanford University
http://dx.doi.org/10.1101/073619 2016-09-08 Genomics CC BY-NC-ND HiChIP: Efficient and sensitive analysis of protein-directed genome architecture Maxwell R Mumbach|Adam J. Rubin|Ryan A. Flynn|Chao Dai|Paul A. Khavari|William J. Greenleaf|Howard Y. Chang Stanford University
http://dx.doi.org/10.1101/073999 2016-09-08 CC BY Calculation of a distribution free estimate of effect size and confidence intervals using VBA/Excel Joachim Goedhart University of Amsterdam
http://dx.doi.org/10.1101/073783 2016-09-08 Neuroscience CC BY A self-initiated two-alternative forced choice paradigm for head-fixed mice Fred Marbach|Anthony M Zador CSHL
http://dx.doi.org/10.1101/073668 2016-09-08 Bioinformatics Secondary-structure prediction revisited: Pβ and Pc represent structures of amyloids and aid elucidating phenomena in interspecies transmissions of prion. YUZURU TAGUCHI|Noriyuki Nishida Nagasaki University
http://dx.doi.org/10.1101/073973 2016-09-08 Bioinformatics CC BY Overcoming confounding plate effects in differential expression analyses of single-cell RNA-seq data Aaron TL Lun|John C Marioni CRUK Cambridge Institute;|European Molecular Biology Laboratory - European Bioinformatics Institute
http://dx.doi.org/10.1101/073981 2016-09-08 Neuroscience A spatially resolved network spike in model neuronal cultures reveals nucleation centers, circular traveling waves and drifting spiral waves Alexander Paraskevov|Dmitry Zendrikov National Research Centre "Kurchatov Institute";|Moscow Institute of Physics and Technology (State University)
http://dx.doi.org/10.1101/073676 2016-09-08 Systems Biology 13C metabolic flux ratio analysis by direct measurement of free metabolic intermediates in L. mexicana using gas chromatography-mass spectrometry Milica Ng|Eleanor C. Saunders|Moshe Olshansky|Malcolm J. McConville|Vladimir Likic University of Melbourne, Parkville, Victoria 3010, Australia;|Walter and Eliza Hall Institute of Medical Research, 1 G Royal Parade, Parkville, Victoria 3052, Aus
http://dx.doi.org/10.1101/074237 2016-09-09 Synthetic Biology CC BY-NC Capacity-approaching DNA storage Yaniv Erlich|Dina Zielinski Columbia University/NY Genome Center;|New York Genome Center
http://dx.doi.org/10.1101/074401 2016-09-09 Systems Biology Stochastic dynamics of genetic broadcasting networks Davit Potoyan|Peter Wolynes Rice University
http://dx.doi.org/10.1101/074369 2016-09-09 CC BY-NC-ND A single intracellular protein governs the critical transition from an individual to a coordinated population response during quorum sensing: Origins of primordial language Celina Vila-Sanjurjo|Christoph Engwer|Xiaofei Qin|Lea Hembach|Tania Verdia-Cotelo|Carmen Remunan-Lopez|Anton Vila-Sanjurjo|Francisco M. Goycoolea Westfälische Wilhelms-Universität Münster, Univerdade de Santiago de Compostela;|Westfälische Wilhelms-Universität Münster;|Universidade da Coruña;|Univerdade de Santiago de Compostela
http://dx.doi.org/10.1101/074328 2016-09-09 Ecology CC BY-ND Fitness effects of thermal stress differ between outcrossing and selfing populations in Caenorhabditis elegans Agata Plesnar-Bielak|Marta K. Labocha|Paulina Kosztya|Katarzyna R. Woch|Woronika M. Banot|Karolina Markot|Magdalena Skarbon|Monika A. Prus|Zofia M. Prokop Jagiellonian University, Institute of Environmental Sciences
http://dx.doi.org/10.1101/074385 2016-09-09 Genomics CC BY Who's who? Detecting and resolving sample anomalies in human DNA sequencing studies with peddy. Aaron R Quinlan|Brent S Pedersen University of Utah
http://dx.doi.org/10.1101/074484 2016-09-09 Neuroscience CC BY-NC-ND Shared roles of dorsal and subgenual anterior cingulate cortices in economic decisions Habiba Azab|Benjamin Y. Hayden University of Rochester
http://dx.doi.org/10.1101/074294 2016-09-09 Genomics MAPPING OF LONG-RANGE CHROMATIN INTERACTIONS BY PROXIMITY LIGATION ASSISTED CHIP-SEQ Rongxin Fang|Miao Yu|Guoqiang Li|Sora Chee|Tristin Liu|Anthony Schmitt|Bing Ren Ludwig Institute for Cancer Research; University of California, San Diego;|Ludwig Institute for Cancer Research
http://dx.doi.org/10.1101/073734 2016-09-09 CC BY-NC-ND Prefrontal cortical control of a brainstem social behavior circuit Tamara B. Franklin|Bianca A. Silva|Zinaida Perova|Livia Marrone|Maria E. Masferrer|Yang Zhan|Angie Kaplan|Louise Greetham|Voilaine Verrechia|Andreas Halman|Sara Pagella|Alexei L. Vyssotski|Anna Illarianova|Tiago Branco|Cornelius T. Gross European Molecular Biology Laboratory;|MRC Laboratory of Molecular Biology;|Brain Cognition and Brain Disease Institute, Shenzhen Institute of Advanced Technology;|Institut of Neuroinformatics, University of Zurich;|German Cancer Center DKFZ
http://dx.doi.org/10.1101/074443 2016-09-09 Genomics CC BY-NC-ND The impact of rare variation on gene expression across tissues Xin Li|Yungil Kim|Emily K. Tsang|Joe R. Davis|Farhan N. Damani|Colby Chiang|Zachary Zappala|Benjamin J. Strober|Alexandra J. Scott|Andrea Ganna|Jason Merker|Ira M. Hall|Alexis Battle|Stephen B. Montgomery Stanford University;|Johns Hopkins University;|Washington University School of Medicine;|Broad Institute of MIT and Harvard, Massachusetts General Hospital
http://dx.doi.org/10.1101/074310 2016-09-09 Re-evaluation of SNP heritability in complex human traits Doug Speed|Na Cai|Michael Johnson|Sergey Nejentsev|David Balding University College London;|Wellcome Trust Sanger / EMBL-EBI;|Imperial College London;|University of Cambridge;|University of Melbourne
http://dx.doi.org/10.1101/074450 2016-09-09 Genomics CC BY-NC-ND Local genetic effects on gene expression across 44 human tissues Francois Aguet|Andrew A Brown|Stephane Castel|Joe R Davis|Pejman Mohammadi|Ayellet V Segre|Zachary Zappala|Nathan S Abell|Laure Fresard|Eric R Gamazon|Ellen Gelfand|Machael J Gloudemans|Yuan He|Farhad Hormozdiari|Xiao Li|Xin Li|Boxiang Liu|Diego Garrido-Martin|Halit Ongen|John J Palowitch|YoSon Park|Christine B Peterson|Gerald Quon|Stephan Ripke|Andrey A Shabalin|Tyler C Shimko|Benjamin J Strober|Timothy J Sullivan|Nicole A Teran|Emily K Tsang|Hailei Zhang|Yi-Hui Zhou|Alexis Battle|Carlos D Bustamonte|Nancy J Cox|Barbara E Engelhardt|Eleazar Eskin|Gad Getz|Manolis Kellis|Gen Li|Daniel G MacArthur|Andrew B Nobel|Chiara Sabbati|Xiaoquan Wen|Fred A Wright|Tuuli Lappalainen|Kristin G Ardlie|Emmanouil T Dermitzakis|Christopher D Brown|Stephen B Montgomery The Broad Institute of MIT and Harvard;|University of Geneva Medical School;|New York Genome Center;|Stanford University;|Vanderbilt University;|Johns Hopkins University;|University of California, Los Angeles;|he Broad Institute of MIT and Harvard;|Barcelona Institute of Science and Technology;|University of North Carolina;|University of Pennsylvania;|Massachusetts General Hospital;|Virginia Commonwealth University;|North Carolina State University;|Princeton University;|Columbia University;|University of Michigan
http://dx.doi.org/10.1101/074161 2016-09-09 Bioinformatics SINTAX: a simple non-Bayesian taxonomy classifier for 16S and ITS sequences Robert Edgar Independent Scientist
http://dx.doi.org/10.1101/074245 2016-09-09 Bioinformatics A framework for RNA quality correction in differential expression analysis Andrew E Jaffe|Ran Tao|Alexis Norris|Marc Kealhofer|Abhinav Nellore|Yankai Jia|Thomas Hyde|Joel Kleinman|Richard Straub|Jeffrey T Leek|Daniel Weinberger Lieber Institute for Brain Development;|Johns Hopkins University;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/074419 2016-09-09 Genomics CC BY-NC-ND Distant regulatory effects of genetic variation in multiple human tissues Brian Jo|Yuan He|Benjamin J Strober|Princy Parsana|Francois Aguet|Andrew A Brown|Stephane E Castel|Eric R Gamazon|Ariel Gewirtz|Genna Gliner|Buhm Han|Amy Z He|Eun Yong Kang|Ian C McDowell|Xiao Li|Pejman Mohammadi|Christine B Peterson|Gerald Quon|Ashis Saha|Ayellet V Segre|Jae Hoon Sul|Timothy J Sullivan|Kristin G Ardlie|Christopher D Brown|Donald F Conrad|Nancy J Cox|Emmanouil T Dermitzakis|Eleazar Eskin|Manolis Kellis|Tuuli Lappalainen|Chiara Sabatti|Barbara E Engelhardt|Alexis Battle Princeton University;|Johns Hopkins University;|The Broad Institute of Massachusetts Institute of Technology and Harvard University;|University of Geneva Medical School;|New York Genome Center;|Vanderbilt University Medical School;|Asian Medical Center;|UCLA;|Duke University;|MD Anderson Cancer Center;|UC Davis;|University of Pennsylvania;|Washington University School of Medicine;|Vanderbilt University Medical Center;|Stanford University
http://dx.doi.org/10.1101/074351 2016-09-09 Systems Biology CC BY-NC-ND Comparing individual-based approaches to modelling the self-organization of multicellular tissues James M. Osborne|Alexander G. Fletcher|Joseph M. Pitt-Francis|Philip K. Maini|David J. Gavaghan University of Melbourne;|University of Sheffield;|University of Oxford
http://dx.doi.org/10.1101/074138 2016-09-09 Systems Biology CC BY-NC-ND Automated Visualization of Rule-based Models John A.P. Sekar|Jose-Juan Tapia|James R. Faeder University of Pittsburgh School of Medicine
http://dx.doi.org/10.1101/074500 2016-09-10 Microbiology CC BY-ND Rapid metagenomic next-generation sequencing during an investigation of hospital-acquired human parainfluenza virus 3 infections Alex Greninger|Danielle M Zerr|Xuan Qin|Amanda L Adler|Janet A Englund|Keith R Jerome UW;|University of Washington
http://dx.doi.org/10.1101/074518 2016-09-10 Genomics CC BY-NC-ND Genome-wide reconstruction of complex structural variants using read clouds Noah Spies|Ziming Weng|Alex Bishara|Jennifer McDaniel|David Catoe|Justin M Zook|Marc Salit|Robert B West|Serafim Batzoglou|Arend Sidow NIST/Stanford University;|Stanford University School of Medicine;|Stanford University;|National Institute of Standards and Technology
http://dx.doi.org/10.1101/074393 2016-09-10 Ecology CC BY-ND Simulation model for dynamics of three types of annual plants Andrzej Pekalski University of Wroclaw
http://dx.doi.org/10.1101/074336 2016-09-10 Ecology A phenomenological spatial model for macro-ecological patterns in species-rich ecosystems Sandro Azaele|Fabio Peruzzo University of Leeds
http://dx.doi.org/10.1101/074260 2016-09-10 Bioinformatics CC BY-NC-ND MathIOmica: An Integrative Platform for Dynamic Omics George Mias|Tahir Yusufaly|Raeuf Roushangar|Lavida R.K. Brooks|Vikas Vikram Singh|Christina Christou Michigan State University;|University of Southern California;|Mercy Cancer Center, Department of Radiation Oncology, Mason City, IA
http://dx.doi.org/10.1101/073452 2016-09-10 Genomics CC BY-NC-ND Close genetic relationships between a spousal pair with autism-affected children and high minor allele content in cases in autism-associated SNPs Zuobin Zhu|Xitong Lu|Dejian Yuan|Shi Huang Xuzhou Medical University;|Central South University
http://dx.doi.org/10.1101/074377 2016-09-10 Systems Biology CC BY-NC-ND Properties of compostite feedback-feedforward pulse generating motifs. Bharat Ravi Iyengar CSIR-National Chemical Laboratory
http://dx.doi.org/10.1101/074492 2016-09-10 Ecology A Numerus Population Viability and Harvesting Analyses Web App Wayne Getz|Richard Salter|Colin Carlson|Andrew Lyons|Dana Paige Seidel University of California at Berkeley;|Oberlin College
http://dx.doi.org/10.1101/074625 2016-09-11 Biophysics CC BY-NC-ND Predicting binding free energies: Frontiers and benchmarks David L. Mobley|Michael K. Gilson Departments of Pharmaceutical Sciences and Chemistry;|University of California, San Diego
http://dx.doi.org/10.1101/074641 2016-09-11 Systems Biology CC BY-ND Design principles of autocatalytic cycles constrain enzyme kinetics and force over-expression at flux branch points Uri Barenholz|Dan Davidi|Ed Reznik|Yinon Bar-On|Niv Antonovsky|Elad Noor|Ron Milo Weizmann Institute of Science;|Memorial Sloan Kettering Cancer Center;|ETH Zurich
http://dx.doi.org/10.1101/074617 2016-09-11 Bioinformatics Revealing complex ecological dynamics via symbolic regression Yize Chen|Marco Tulio Angulo|Yang-Yu Liu Harvard Medical School;|National Autonomous University of Mexico
http://dx.doi.org/10.1101/074633 2016-09-11 Ecology CC BY-NC Thermally moderated firefly activity is delayed by precipitation extremes Elizabeth Davidson-Lowe|Bahodir Eshchanov|Sara Hermann|Andrew Myers|Logan Rowe|Saisi Xue|Christie A Bahlai Michigan State University
http://dx.doi.org/10.1101/074690 2016-09-11 Neuroscience CC BY-NC-ND Risky decision-making in major depression is stable and intact Dongil Chung|Kelly Kadlec|Jason A Aimone|Katherine McCurry|Brooks King-Casas|Pearl H Chiu Virginia Tech Carilion Research Institute;|Baylor University
http://dx.doi.org/10.1101/074658 2016-09-11 Neuroscience Global Reduction of Information Exchange during Anesthetic-Induced Unconsciousness Christina Hamilton|Yuncong Ma|Nanyin Zhang The Pennsylvania State University
http://dx.doi.org/10.1101/074666 2016-09-11 Neuroscience Joint analysis of area and thickness of the cerebral cortex replaces cortical volume measurements Anderson M. Winkler|Douglas N. Greve|Knut J. Bjuland|Thomas E. Nichols|Mert R. Sabuncu|Asta K. Haberg|Jon Skranes|Lars M. Rimol University of Oxford;|Martinos Center for Biomedical Imaging, Massachusetts General Hospital/Harvard Medical School;|Norwegian University of Science and Technology;|University of Warwick;|St. Olavs Hospital, Trondheim University Hospital
http://dx.doi.org/10.1101/074682 2016-09-11 Genetics CC BY-NC-ND Estimating the causal tissues for complex traits and diseases Halit Ongen|Andrew A Brown|Olivier Delaneau|Nikolaos Panousis|Alexandra C Nica|Emmanouil T Dermitzakis University of Geneva
http://dx.doi.org/10.1101/074559 2016-09-11 Biochemistry Identification of quercetin from fruits to immediately fight Zika Amrita Roy|Liangzhong Lim|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/074542 2016-09-11 Molecular Biology Validation of Reference Genes for RT-qPCR in Marine Bivalve Ecotoxicology: Systematic Review and Case Study Moritz Volland|Julian Blasco|Miriam Hampel Institute of Marine Sciences of Andalucia (ICMAN-CSIC);|Andalusian Center of Marine Science and Technology (CACYTMAR)
http://dx.doi.org/10.1101/074609 2016-09-11 Neuroscience Top-Down Beta Oscillatory Signaling Conveys Behavioral Context to Primary Visual Cortex Craig Geoffrey Richter|Richard Coppola|Steven L. Bressler Ernst Struengmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|MEG Core Facility, National Institute of Mental Health;|Center for Complex Systems and Brain Science
http://dx.doi.org/10.1101/074286 2016-09-12 Neuroscience CC BY-NC-ND Directed Network Discovery with Dynamic Network Modeling Stefano Anzellotti|Dorit Kliemann|Nir Jacoby|Rebecca Saxe MIT;|Columbia University
http://dx.doi.org/10.1101/074773 2016-09-12 Biochemistry CC BY A bromodomain-DNA interaction facilitates acetylation-dependent bivalent nucleosome recognition by the BET protein BRDT Thomas CR Miller|Bernd Simon|Vladimir Rybin|Helga Grotsch|Sandrine Curtet|Saadi Khochbin|Teresa Carlomagno|Christoph W Muller European Molecular Biology Laboratory (EMBL);|CNRS UMR 5309, INSERM, U1209;|Leibniz University Hannover, Centre for Biomolecular Drug Research
http://dx.doi.org/10.1101/074757 2016-09-12 Microbiology CC BY-NC-ND A large collection of novel nematode-infecting microsporidia and their diverse interactions with C. elegans and other related nematodes Gaotian Zhang|Martin Sachse|Marie-Christine Prevost|Robert J Luallen|Emily Troemel|Marie-Anne Felix Institut de Biologie de Ecole Normale Superieure, CNRS, Inserm, ENS, PSL Research University, 7500;|Ultrapole, Institute Pasteur, 75015 Paris, France;|University of California at San Diego;|University of California, San Diego
http://dx.doi.org/10.1101/074823 2016-09-12 Molecular Biology CC BY-ND PRIMA: a gene-centered, RNA-to-protein method for mapping RNA-protein interactions Alex M Tamburino|Ebru Kaymak|Shaleen Shrestha|Amy D Holdorf|Sean P Ryder|Marian (Albertha) Walhout University of Massachusetts Medical School
http://dx.doi.org/10.1101/074781 2016-09-12 Genetics CC BY-NC-ND Quantifying the extent to which index event biases influence large genetic association studies Hanieh Yaghootkar|Michael Bancks|Sam Jones|Aaron McDaid|Robin Beaumont|Louise Donnelly|Andrew Wood|Archie Campbell|Jessica Tyrrell|Lynne Hocking|Marcus Tuke|Katherine Ruth|Ewan Pearson|Anna Murray|Rachel Freathy|Patricia Munroe|Caroline Hayward|Colin Palmer|Michael Weedon|James Pankow|Timothy Frayling|Zoltan Kutalik University of Exeter;|University of Minnesota;|Lausanne University Hospital;|University of Dundee;|University of Edinburgh;|University of Aberdeen;|Queen Mary University of London
http://dx.doi.org/10.1101/074732 2016-09-12 Molecular Biology CC BY-NC-ND Fast algorithm for determining orientations using angular correlation functions and Bayesian statistics Lanqing Huang|Haiguang Liu Beijing Computational Science Research Center
http://dx.doi.org/10.1101/074799 2016-09-12 Neuroscience CC BY-ND Relating dynamic brain states to dynamic machine states: human and machine solutions to the speech recognition problem Cai Wingfield|Li Su|Xunying Liu|Chao Zhang|Philip Woodland|Andrew Thwaites|Elisabeth Fonteneau|William D Marslen-Wilson Department of Psychology, University of Cambridge;|Department of Psychiatry, University of Cambridge;|Department of Systems Engineering and Engineering Management, The Chinese University of Hong Kong;|Department of Engineering, University of Cambridge
http://dx.doi.org/10.1101/074849 2016-09-12 Ecology CC BY-NC-ND Metagenomic sequencing of dung beetle intestinal contents directly detects and identifies mammalian fauna Conrad P.D.T. Gillett|Andrew J Johnson|Iain Barr|Jiri Hulcr University of Florida;|University of East Anglia
http://dx.doi.org/10.1101/074807 2016-09-12 Bioinformatics CC BY-NC-ND Annotation and differential analysis of alternative splicing using de novo assembly of RNAseq data Clara Benoit-Pilven|Camille Marchet|Emilie Chautard|Leandro Lima|Marie-Pierre Lambert|Gustavo Sacomoto|Amandine Rey|Cyril Bourgeois|Didier Auboeuf|Vincent Lacroix Universite de Lyon, ENS de Lyon, Universite Claude Bernard, CNRS UMR 5239, INSERM U1210, LBMC;|IRISA Inria Rennes Bretagne Atlantique CNRS UMR 6074, Universite Rennes 1, GenScale team;|Universite de Lyon ; Universite Lyon 1 ; CNRS, UMR5558, LBBE ; INRIA Erable;|Universite de Lyon; Universite Lyon 1 ; CNRS, UMR5558, LBBE; INRIA Erable;|Universite de Lyon, ENS de Lyon, Universite Lyon 1, CNRS UMR 5239, INSERM U1210, LBMC;|Universite de Lyon, ; Universite Lyon 1 ; CNRS, UMR5558, LBBE ; INRIA Erable
http://dx.doi.org/10.1101/074716 2016-09-12 Systems Biology CC BY-NC-ND Universal attenuators and their interactions with feedback loops in gene regulatory networks Dianbo Liu|Luca Albergante|Timothy Newman School of Life Sciences, University of Dundee;|University of Dundee/Institut Curie
http://dx.doi.org/10.1101/074831 2016-09-12 Bioinformatics CC BY-NC-ND HDP-Align: Hierarchical Dirichlet Process Clustering for Multiple Peak Alignment of Liquid Chromatography Mass Spectrometry Data. Joe Wandy|Ronan Daly|Simon Rogers University of Glasgow
http://dx.doi.org/10.1101/074724 2016-09-12 Genomics CC BY-NC-ND Chromatin marks govern mutation landscape of cancer at early stage of progression Kyungsik Ha|Hong-Gee Kim|Hwajin Lee Biomedical Knowledge Engineering Laboratory, School of Dentistry, Seoul National University, Seoul
http://dx.doi.org/10.1101/074591 2016-09-12 Neuroscience CC BY-NC-ND A note on detecting statistical outliers in psychophysical data Pete R Jones UCL Institute of Ophthalmology
http://dx.doi.org/10.1101/074708 2016-09-12 Bioinformatics CC BY-NC-ND Graph Theory Approaches for Optimizing Biomedical Data Analysis Using Reproducible Workflows Gaurav Kaushik|Sinisa Ivkovic|Janko Simonovic|Nebojsa Tijanic|Brandi Davis-Dusenbery|Deniz Kural Seven Bridges Genomics
http://dx.doi.org/10.1101/074344 2016-09-12 Immunology Single-cell transcriptome analysis of fish immune cells provides insight into the evolution of vertebrate immunity Santiago J Carmona|Sarah A Teichmann|Lauren Ferreira|Iain C Macaulay|Michael J.T. Stubbington|Ana Cvejic|David Gfeller Ludwig Center for Cancer Research, University of Lausanne; Swiss Institute of Bioinformatics;|European Bioinformatics Institute, Wellcome Trust Sanger Institute;|Wellcome Trust Sanger Institute;|Sanger Institute, EBI Single Cell Genomics Centre;|European Molecular Biology Laboratory European Bioinformatics Institute,;|Wellcome Trust Sanger Institute; Department of Haematology, University of Cambridge
http://dx.doi.org/10.1101/074252 2016-09-12 Bioinformatics UCHIME2: improved chimera prediction for amplicon sequencing Robert Edgar Independent Scientist
http://dx.doi.org/10.1101/076844 2016-09-22 Genomics CC BY Choice of reference genome can introduce massive bias in bisulfite sequencing data Phillip Wulfridge|Ben Langmead|Andrew P Feinberg|Kasper Hansen Johns Hopkins University School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/076901 2016-09-22 Genomics CC BY-ND SiLiCO: A Simulator of Long Read Sequencing in PacBio and Oxford Nanopore Ethan Alexander Garcia Baker|Sara Goodwin|W. Richard McCombie|Olivia Mendivil Ramos Department of Neuroscience, University of Pittsburgh;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/076968 2016-09-22 Genetics CC BY-NC-ND PEMapper / PECaller: A simplified approach to whole-genome sequencing Henry Richard Johnston|Pankaj Chopra|Thomas Wingo|Viren Patel|Michael Epstein|Jennifer Mulle|Stephen Warren|Michael Zwick|David J Cutler Emory University School of Medicine Department of Human Genetics
http://dx.doi.org/10.1101/076927 2016-09-22 Bioinformatics CC BY dbOTU3: A new implementation of distribution-based OTU calling Scott W Olesen|Claire Duvallet|Eric J Alm Massachusetts Institute of Technology
http://dx.doi.org/10.1101/076984 2016-09-22 Genetics CC BY-NC-ND Widespread allelic heterogeneity in complex traits Farhad Hormozdiari|Anthony Zhu|Gleb Kichaev|Ayellet V. Segre|Chelsea J.-T. Ju|Jong Wha Joo|Hyejung Won|Sriram Sankararaman|Bogdan Pasaniuc|Sagiv Shiffman|Eleazar Eskin Department of Computer Science, University of California, Los Angeles, CA;|Bioinformatics IDP, University of California, Los Angeles, CA;|Cancer Program, The Broad Institute of Massachusetts Institute of Technology and Harvard University;|Neurogenetics Program, Department of Neurology, David Geffen School of Medicine, University of Calif;|Department of Pathology and Laboratory Medicine, University of California, Los Angeles;|Department of Genetics, The Institute of Life Sciences, The Hebrew University of Jerusalem;|Department of Computer Science, University of California, Los Angeles
http://dx.doi.org/10.1101/076729 2016-09-22 Genomics Genetic indicators of drug resistance in the highly repetitive genomes of Trichomonas vaginalis and other trichomonads Martina Bradic|Sally D. Warring|Grace E. Tooley|Paul Scheid|William E. Secor|Kirkwood M. Land|Po-Jung Huang|Ting-Wen Chen|Chi-Ching Lee|Petrus Tang|Steven A. Sullivan|Jane M. Carlton Center for Genomics and Systems Biology, New York University;|Center for Global Health, Centers for Disease Control and Prevention;|Department of Biological Sciences, University of the Pacific;|Bioinformatics Center/Molecular Medicine Research Center, Chang Gung University
http://dx.doi.org/10.1101/075713 2016-09-22 Evolutionary Biology CC BY-NC-ND Repeated divergent selection on pigmentation genes in a rapid finch radiation driven by sexual selection Leonardo Campagna|Marcio Repenning|Luis Fabio Silveira|Carla Suertegaray Fontana|Pablo L Tubaro|Irby J Lovette Cornell University;|Pontifícia Universidade Católica do Rio Grande do Sul;|Universidade de São Paulo;|Museo Argentino de Ciencias Naturales 'Bernardino Rivadavia'
http://dx.doi.org/10.1101/075457 2016-09-22 Bioinformatics CC BY Enhancing pre-defined workflows with ad hoc analytics using Galaxy, Docker and Jupyter Bjorn Gruning|Eric Rasche|Boris Rebolledo Jaramillo|Carl Eberhard|Torsten Houwaart|John Chilton|Nathan Coraor|Rolf Backofen|James Taylor|Anton Nekrutenko University of Freiburg;|Texas A&M University;|Universidad del Desarrollo;|Johns Hopkins University;|Albert-Ludwigs University;|Penn State University;|Albert-Ludwigs-Universitat;|Penn State
http://dx.doi.org/10.1101/076810 2016-09-22 Genetics CC BY Inferring recent demography from isolation by distance of long shared sequence blocks Harald Ringbauer|Graham Coop|Nick Hamilton Barton IST Austria;|University of California: Davis
http://dx.doi.org/10.1101/076745 2016-09-22 Genomics CC BY-ND Using RNA-seq for genomic scaffold placement, correcting assemblies, and genetic map creation in a common Brassica rapa mapping population. RJ Cody Markelz|Michael F Covington|Marcus T Brock|Upendra K Devisetty|Daniel J Kliebenstein|Cynthia Weinig|Julin N Maloof University of California at Davis, Department of Plant Biology, United States;|University of Wyoming, Department of Botany, United States;|University of California at Davis, Department of Plant Sciences, United States
http://dx.doi.org/10.1101/076760 2016-09-22 Evolutionary Biology Larger Numbers can Impede Adaptation in Microbial Populations despite Entailing Greater Genetic Variation Yashraj D. Chavhan|Sayyad Irfan Ali|Sutirth Dey Indian Institute of Science Education and Research (IISER) Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/076828 2016-09-22 Evolutionary Biology EARLY INFLAMMATION, IMMUNOPATHOLOGY AND AGING Imroze Khan|Deepa Agashe|Jens Rolff National Centre for Biological Sciences;|Free University of Berlin
http://dx.doi.org/10.1101/076711 2016-09-22 Pharmacology CC BY-NC-ND Insights into the binding mode of MEK type-III inhibitors. A step towards discovering and designing allosteric kinase inhibitors across the human kinome Zheng Zhao|Lei Xie|Philip E. Bourne National Institutes of Health;|Hunter College, The City University of New York;|NIH
http://dx.doi.org/10.1101/076851 2016-09-22 Neuroscience CC BY-NC-ND A Whole-Brain Computational Modeling Approach to Explain the Alterations in Resting-State Functional Connectivity during Progression of Alzheimers Disease Murat Demirtas|Carles Falcon|Juan Domingo Gispert Lopez|Alan Tucholka|Jose Luis Molinuevo|Gustavo Deco Yale University;|Barcelonaβeta Brain Research Center, Pasqual Maragall Foundation;|Center for Brain and Cognition, Universitat Pompeu Fabra
http://dx.doi.org/10.1101/076752 2016-09-22 Biophysics CC BY-NC-ND Laurdan and di-4-ANEPPDHQ probe different properties of the membrane Mariana Amaro|Francesco Reina|Martin Hof|Christian Eggeling|Erdinc Sezgin J. Heyrovsky Institute of Physical Chemistry of the C.A.S;|University of Oxford
http://dx.doi.org/10.1101/076331 2016-09-22 Genomics CC BY Fast genome-wide functional annotation through orthology assignment by eggNOG-mapper Jaime Huerta-Cepas|Kristoffer Forslund|Damian Szklarczyk|Lars Juhl Jensen|Christian von Mering|Peer Bork EMBL, Heidelberg;|Institute of Molecular Life Sciences, University of Zurich;|The Novo Nordisk Foundation Center for Protein Research, University of Copenhagen
http://dx.doi.org/10.1101/076836 2016-09-22 Ecology CC BY-ND Temporal probabilistic modeling of bacterial compositions derived from 16S rRNA sequencing Tarmo Aijo|Christian Lorenz Mueller|Richard Bonneau Simons Foundation;|NYU
http://dx.doi.org/10.1101/076562 2016-09-22 Genomics Contrasting genome dynamics between domesticated and wild yeasts Jia-Xing Yue|Jing Li|Louise Aigrain|Johan Hallin|Karl Persson|Karen Oliver|Anders Bergstrom|Paul Coupland|Jonas Warringer|Marco Cosentino Lagomarsino|Gilles Fischer|Richard Durbin|Gianni Liti Institute for Research on Cancer and Aging, Nice (IRCAN);|Wellcome Trust Sanger Institute;|Gothenburg University;|Sorbonne Universités, UPMC Univ. Paris 06
http://dx.doi.org/10.1101/073718 2016-09-22 Epidemiology Remote effect of Insecticide-treated nets and the personal protection against malaria mosquito bites Nicolas Moiroux|Fabrice Chandre|Jean-Marc Hougard|Vincent Corbel|Cedric Pennetier IRD
http://dx.doi.org/10.1101/076521 2016-09-22 Epidemiology Dynamic forecasting of Zika epidemics using Google Trends Yue Teng|Dehua Bi|Guigang Xie|Yuan Jin|Baihan Lin|Dan Feng State Key Laboratory of Pathogen and Biosecurity, Beijing Institute of Microbiology and Epidemiolog;|State Key Laboratory of Pathogen and Biosecurity;|Computational Neuroscience Program, Department of Psychology, Physics, and Computer Science and Engi;|Division of Standard Operational Management, Institute of Hospital Management, Chinese PLA General H
http://dx.doi.org/10.1101/076679 2016-09-21 Genetics CC BY A global perspective of codon usage Bohdan Khomtchouk|Claes Wahlestedt|Wolfgang Nonner University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/076695 2016-09-21 Cell Biology CC BY-NC-ND Histone deacetylase inhibitors correct the cholesterol storage defect in most NPC1 mutant cells Nina H Pipalia|Kanagaraj Subramanian|Shu Mao|William E Balch|Frederick R Maxfield Weill Cornell Medical College;|The Scripps Research Institute
http://dx.doi.org/10.1101/076703 2016-09-21 Developmental Biology CC BY-NC-ND PDGF signaling directs cardiomyocyte movement toward the midline during heart tube assembly Joshua Bloomekatz|Reena Singh|Owen W.J. Prall|Ariel C. Dunn|Megan Vaughan|Chin-San Loo|Richard P. Harvey|Deborah Yelon UCSD;|Victor Chang Cardiac Research Institute
http://dx.doi.org/10.1101/076661 2016-09-21 Biophysics Polymer physics of nuclear organization and function Assaf Amitai|David Holcman MIT;|ENS
http://dx.doi.org/10.1101/076448 2016-09-21 Neuroscience Cortical correlates of the auditory frequency-following and onset responses: EEG and fMRI evidence Emily BJ Coffey|Gabriella Musacchia|Robert J Zatorre Montreal Neurological Institute;|University of the Pacific;|McGill University
http://dx.doi.org/10.1101/076497 2016-09-21 Ecology CC BY-NC-ND Intraspecific variation shapes community-level behavioural responses to urbanisation in spiders: from traits to function Maxime Dahirel|Jasper Dierick|Maarten De Cock|Dries Bonte University of Rennes 1/ Ghent University;|Ghent University
http://dx.doi.org/10.1101/076422 2016-09-21 Genomics CC BY-NC-ND Whole genome sequence analysis of Salmonella Typhi isolated in Thailand before and after the introduction of a national immunization program Zoe Anne Dyson|Duy Pham Thanh|Ladaporn Bodhidatta|Carl Jeffries Mason|Apichai Srijan|Maia A Rabaa|Phat Voong Vinh|Tuyen Ha Thanh|Guy E Thwaites|Stephen Baker|Kathryn Holt Centre for Systems Genomics, University of Melbourne;|Oxford University Clinical Research Unit;|Armed Forces Research Institute of Medical Sciences
http://dx.doi.org/10.1101/076414 2016-09-21 Genetics CC BY-NC-ND GWAS for serum galactose-deficient IgA1 implicates critical genes of the O-glycosylation pathway Krzysztof Kiryluk|Yifu Li|Zina Moldoveanu|Hitoshi Suzuki|Colin Reily|Ping Hou|Jingyuan Xie|Nikol Mladkova|Sindhuri Prakash|Clara Fischman|Samantha Shapiro|Robert A. LeDesma|Drew Bradbury|Iuliana Ionita-Laza|Frank Eitner|Thomas Rauen|Nicolas Maillard|Francois Berthoux|Jurgen Floege|Nan Chen|Hong Zhang|Francesco Scolari|Robert J. Wyatt|Bruce A. Julian|Ali G. Gharavi|Jan Novak Columbia University;|University of Alabama at Birmingham;|Juntendo University Faculty of Medicine, Tokyo, Japan;|Peking University First Hospital, Peking University Institute of Nephrology, Beijing, China;|Ruijin Hospital, Shanghai Jiaotong University School of Medicine, Shanghai, China;|RWTH University of Aachen, Germany and Bayer Pharma AG;|RWTH University of Aachen, Germany;|University North Hospital, Saint Etienne;|RWTH University of Aachen, Aachen, Germany;|Montichiari Hospital and University of Brescia, Italy;|University of Tennessee Health Sciences Center, Memphis, Tennessee
http://dx.doi.org/10.1101/076570 2016-09-21 Cell Biology CC BY-NC-ND Temporal regulation of epithelium formation Stephen E Von Stetina|Jennifer J. Liang|Georgios Marnellos|Susan E Mango Harvard University;|Seres Therapeutics, Inc
http://dx.doi.org/10.1101/076430 2016-09-21 Microbiology Nuclear pore-like structures in a compartmentalized bacterium Evgeny Sagulenko|Amanda Nouwens|Richard I Webb|Kathryn Green|Benjamin Yee|Gary Morgan|Andrew Leis|Kuo-Chang Lee|Margaret K Butler|Nicholas Chia|Uyen Thi Phuong Pham|Stinus Lindgreen|Ryan Catchpole|Anthony M Poole|John A. Fuerst The University of Queensland;|Uppsala University;|University of Colorado Boulder;|CSIRO Livestock Industries -Australian Animal Health Laboratory;|Mayo Clinic;|University of Canterbury,Christchurch NZ;|University of Canterbury, Christchurch,NZ;|University of Canterbury, Christchurch, NZ
http://dx.doi.org/10.1101/076398 2016-09-21 Genetics CC BY-NC-ND Shared genetics and couple-associated environment are major contributors to the risk of both clinical and self-declared depression Yanni Zeng|Pau Navarro|Charley Xia|Carmen Amador|Ana M Fernandez-Pujals|Pippa A. Thomson|Archie Campbell|Reka Nagy|Toni Kim Clarke|Jonathan D. Hafferty|Blair H. Smith|Lynne J. Hocking|Sandosh Padmanabhan|Caroline Hayward|Donald J MacIntyre|David J Porteous|Chris S. Haley|Andrew M. McIntosh University of Edinburgh;|University of Dundee;|University of Aberdeen;|University of Glasgow
http://dx.doi.org/10.1101/076125 2016-09-21 Cell Biology CC BY-ND Diverse roles of guanine nucleotide exchange factors in regulating collective cell migration Assaf M Zaritsky|Yun-Yu Tseng|Angeles M. Rabadan|Michael Overholtzer|Gaudenz Danuser|Alan Hall UT Southwestern Medical Center;|Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/076364 2016-09-21 Systems Biology ATP homeostasis underlies optimal glucose consumption by Saccharomyces cerevisiae Kulika Chomvong|Daniel Benjamin|Dan Nomura|Jamie Cate University of California, Berkeley;|UC Berkeley
http://dx.doi.org/10.1101/076463 2016-09-21 Bioinformatics shinyheatmap: ultra fast low memory heatmap software for big data genomics Bohdan Khomtchouk|Claes Wahlestedt University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/076356 2016-09-21 Cell Biology Excitable RhoA dynamics drive pulsed contractions in the early C. elegans embryo. Francois B Robin|Jonathan B Michaux|William M McFadden|Edwin M Munro Institut de Biologie Paris-Seine, Paris, France;|University of Chicago
http://dx.doi.org/10.1101/076687 2016-09-21 Neuroscience CC BY-NC-ND How prior knowledge prepares perception: Prestimulus oscillations carry perceptual expectations and influence early visual responses. Jason Samaha|Bastien Boutonnet|Gary Lupyan University of Wisconsin-Madison;|Liden University
http://dx.doi.org/10.1101/075879 2016-09-21 Neuroscience CC BY-ND The tubulin repertoire of C. elegans sensory neurons and its context dependent role in process outgrowth Dean Lockhead|Erich M Schwarz|Robert O'Hagan|Sebastian Bellotti|Michael Krieg|Maureen Barr|Alexander R Dunn|Paul W. Sternberg|Miriam B Goodman Stanford University;|Cornell University;|Rutgers University;|California Institute of Technnology
http://dx.doi.org/10.1101/076455 2016-09-21 Neuroscience Neural correlates of early sound encoding and their relationship to speech in noise perception Emily BJ Coffey|Alexander Chepesiuk|Sibylle Herholz|Sylvain Baillet|Robert J Zatorre Montreal Neurological Institute;|McGill University
http://dx.doi.org/10.1101/076653 2016-09-21 Cancer Biology CC BY-NC Alternative splicing changes as drivers of cancer Hector Climente-Gonzalez|Eduard Porta-Pardo|Adam Godzik|Eduardo Eyras Pompeu Fabra University;|Sanford Burnham Prebys Medical Discovery Institute
http://dx.doi.org/10.1101/076547 2016-09-21 Bioinformatics CC BY-ND Probabilistic inference of bifurcations in single-cell data using a hierarchical mixture of factor analysers Kieran Campbell|Christopher Yau University of Oxford
http://dx.doi.org/10.1101/076596 2016-09-21 Microbiology CC BY Parasitic Infection by Pseudocapillaria tomentosa is Associated with a Longitudinal Restructuring of the Zebrafish Gut Microbiome Christopher A Gaulke|Mauricio L Martins|Virginia Watral|Michael L Kent|Thomas J Sharpton Oregon State University;|Federal University of Santa Catarina
http://dx.doi.org/10.1101/076620 2016-09-21 Bioinformatics CC BY Data aggregation at the level of molecular pathways improves stability of experimental transcriptomic and proteomic data Nicolas Borisov|Maria Suntsova|Andrew Garazha|Ksenia Lezhnina|Olga Kovalchuk|Alexander Aliper|Elena Ilnitskaya|Maxim Sorokin|Mihkail Korzinkin|Vyacheslav Saenko|Yury Saenko|Dmitry G. Sokov|Nurshat M. Gaifullin|Kirill Kashintsev|Valery Shirokorad|Irina Shabalina|Alex Zhavoronkov|Bhubaneswar Mishra|Charles R. Cantor|Anton Buzdin National Research Centre "Kurchatov Institute";|Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry;|D. Rogachyov Federal Research Center of Pediatric Hematology, Oncology and Immunology;|University of Lethbridge;|First Oncology Research and Advisory Center;|Ulyanovsk State University;|Moscow 1st Oncological Hospital;|Lomonosov Moscow State University;|Moscow Oncological Hospital 62;|Petrozavodsk State University;|Johns Hopkins University;|Courant Institute, New York University;|Department of Biomedical Engineering, Boston University
http://dx.doi.org/10.1101/076554 2016-09-21 Neuroscience CC BY-NC-ND Reading positional codes with fMRI: Problems and solutions Kristjan Kalm|Dennis Norris Medical Research Council
http://dx.doi.org/10.1101/076646 2016-09-21 Bioinformatics Performance Evaluation of Empirical Mode Decomposition Algorithms for Mental Task Classification Akshansh Gupta|Dhirendra Kumar|Anirban Chakraborti|Kiran Sharma JNU
http://dx.doi.org/10.1101/076505 2016-09-21 Neuroscience Frontal cortex function derives from hierarchical predictive coding William H Alexander|Joshua W Brown Universiteit Gent;|Indiana University, Bloomington
http://dx.doi.org/10.1101/076638 2016-09-21 Evolutionary Biology CC BY-NC-ND Seasonal influenza circulation patterns and projections for 2016-2017 Trevor Bedford|Richard Neher Fred Hutchinson Cancer Research Center;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/076604 2016-09-21 Cell Biology ATX-2, the C. elegans Ortholog of Human Ataxin-2, Regulates Centrosome Size and Microtubule Dynamics Michael Stubenvoll|Jeffrey Medley|Miranda Irwin|Mi Hye Song Oakland University
http://dx.doi.org/10.1101/076513 2016-09-21 Cell Biology CC BY-NC In vitro profiling of endocrine cell death using UCHL1 and GAD65 as soluble biomarkers Benedicte Brackeva|Sarah Roels|Geert Stange|Gamze Ates|Olivier Costa|Zhidong Ling|Frans Gorus|Geert A. Martens Brussels Free University
http://dx.doi.org/10.1101/076026 2016-09-21 Genetics Mapping eQTLs With RNA-Seq Reveals Novel SLE Susceptibility Genes, Non-Coding RNAs, and Alternative-Splicing Events That Are Concealed Using Microarrays Christopher A Odhams|Andrea Cortini|Lingyan Chen|Amy L Roberts|Ana Vinuela|Alfonso Buil|Kerrin S Small|Emmanouil T Dermitzakis|David L Morris|Timothy J Vyse|Deborah S Cunninghame-Graham King's College London;|University of Geneva
http://dx.doi.org/10.1101/059584 2016-09-21 Bioinformatics CC BY StereoGene: Rapid Estimation of Genomewide Correlation of Continuous or Interval Feature Data Elena D. Stavrovskaya|Alexander V. Favorov|Tejasvi Niranjan|Sarah J. Wheelan|Andrey Mironov Dept. of Bioengineering and Bioinformatics, Moscow State University,Moscow, 119992, Russia;|Div. of Biostatistics & Bioinformatics,Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins;|Department of Oncology, Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins
http://dx.doi.org/10.1101/075382 2016-09-21 Genomics CC BY A machine learning classifier trained on cancer transcriptomes detects NF1 inactivation signal in glioblastoma Gregory P Way|Robert J Allaway|Stephanie J Bouley|Camilo E Fadul|Yolanda Sanchez|Casey S Greene University of Pennsylvania;|The Geisel School of Medicine at Dartmouth;|University of Virginia
http://dx.doi.org/10.1101/076273 2016-09-20 Molecular Biology The RNA-binding protein RBP10 controls a regulatory cascade that defines bloodstream-form trypanosome identity Elisha Mugo|Christine Clayton DKFZ-ZMBH Alliance, Zentrum fuer Molekulare Biologie der Universitaet Heidelberg
http://dx.doi.org/10.1101/076232 2016-09-20 Evolutionary Biology CC BY-NC-ND The Melting Snowball: A Test of the Snowball Model Using RNA Ata Kalirad|Ricardo B. R. Azevedo University of Houston
http://dx.doi.org/10.1101/076315 2016-09-20 Evolutionary Biology Deep-time parallel evolution of myrmecoid syndrome in rove beetle symbionts of army ants Munetoshi Maruyama|Joseph Parker Kyushu University;|Columbia University
http://dx.doi.org/10.1101/076299 2016-09-20 Genomics CC BY-NC-ND Extraction of ultrashort DNA molecules from herbarium specimens Rafal M Gutaker|Ella Reiter|Anja Furtwangler|Verena J Schuenemann|Hernan A Burbano Max Planck Institute for Developmental Biology;|Institute of Archaeological Sciences, University of Tuebingen
http://dx.doi.org/10.1101/076307 2016-09-20 Neuroscience CC BY-ND A comprehensive evaluation of multiband-accelerated sequences and their effects on statistical outcome measures in fMRI. Lysia Demetriou|Oliwia S Kowalczyk|Gabriella Tyson|Thomas Bello|Rexford D Newbould|Matthew B Wall Imanova Centre for Imaging Sciences;|Royal Holloway University of London;|The University of Arizona
http://dx.doi.org/10.1101/076091 2016-09-20 Cell Biology Translational control of gurken mRNA in Drosophila development Christopher J Derrick|Timothy T Weil University of Cambridge
http://dx.doi.org/10.1101/076265 2016-09-20 Physiology Adipocyte JAK2 mediates hepatic insulin sensitivity and the diabetogenic action of Growth Hormone Kevin Corbit|Joao Paulo G. Camporez|Jennifer L Tran|Camella G Wilson|Rachel J Perry|Gerald Schulman|Michael J Jurczak|Ethan Weiss UCSF;|Yale;|University of Pittsburgh
http://dx.doi.org/10.1101/076190 2016-09-20 Evolutionary Biology CC BY Pre-metazoan origin of animal miRNAs Jon Brate|Ralf Stefan Neumann|Bastian Fromm|Arthur Alexander Blorstad Haraldsen|Paul Grini|Kamran Shalchian-Tabrizi University of Oslo
http://dx.doi.org/10.1101/076257 2016-09-20 Bioinformatics CC BY-NC-ND DynOmics to identify delays and co-expression patterns across time course experiments Jasmin Straube|Bevan Emma Huang|Kim-Anh Le Cao University of Queensland;|Janssen R&D
http://dx.doi.org/10.1101/076182 2016-09-20 Zoology CC BY-NC-ND A critical review of the use and performance of different function types for modeling temperature-dependent development of arthropod larvae Brady K. Quinn University of New Brunswick (Saint John)
http://dx.doi.org/10.1101/063933 2016-09-20 Ecology CC BY-NC-ND Competition between IAV subtypes through heterosubtypic immunity modulates re-infection and antibody dynamics in the mallard reservoir Neus Latorre-Margalef|Justin D. Brown|Alinde Fojtik|Rebecca L. Poulson|Deborah Carter|Monique Franca|David E. Stallknecht Lund University;|Pennsylvania Game Commission;|University of Georgia
http://dx.doi.org/10.1101/076208 2016-09-20 Genomics CC BY-NC-ND Using MinION nanopore sequencing to generate a de novo eukaryotic draft genome: preliminary physiological and genomic description of the extremophilic red alga Galdieria sulphuraria strain SAG 107.79 Amanda M. Davis|Manuela Iovinella|Sally James|Thomas Robshaw|Jennifer H. Dodson|Lorenzo Herrero-Davila|James H. Clark|Maria Agapiou|Simon McQueen-Mason|Gabriele Pinto|Claudia Ciniglia|James P. J. Chong|Peter D Ashton|Seth Jon Davis University of York;|University of Naples Federico;|Second University of Naples
http://dx.doi.org/10.1101/076158 2016-09-20 Neuroscience CC BY-NC-ND Heterozygous mutation to Chd8 causes macrocephaly and widespread alteration of neurodevelopmental transcriptional networks in mouse Andrea L Gompers|Linda Su-Feher|Jacob Ellegood|Tyler W Stradleigh|Iva Zdilar|Nycole A Copping|Michael C Pride|Melanie D Schaffler|M Asrafuzzaman Riyadh|Gaurav Kaushik|Brandon Mannion|Ingrid Plajzer-Frick|Veena Afzal|Axel Visel|Len A Pennacchio|Diane Dickel|Jason P Lerch|Jacqueline N Crawley|Konstantinos S Zarbalis|Jill L Silverman|Alex S Nord UC Davis, Depts of Psychiatry and Behavioral Sciences and Neurobiology, Physiology and Behavior;|The Hospital for Sick Children, Mouse Imaging Centre;|UC Davis, Depts of Psychiatry and Behavioral Sciences; UC Davis, MIND Institute, School of Medicine;|UC Davis, Dept. of Pathology; Shriners Hospital, Institute for Pediatric Regenerative Medicine;|Lawrence Berkeley National Laboratory;|Lawrence Berkeley National Laboratory; Dept. of Energy Joint Genome Institute; UC Merced;|Lawrence Berkeley National Laboratory; Dept. of Energy Joint Genome Institute
http://dx.doi.org/10.1101/076240 2016-09-20 Neuroscience Language-selective brain regions track linguistic input more closely than domain-general regions Idan A Blank|Evelina Fedorenko Massachusetts Institute of Technology;|Harvard University
http://dx.doi.org/10.1101/075986 2016-09-20 Neuroscience Transformation of head-direction signal into spatial code Adrien Peyrache|Lisa Roux|Natalie Schieferstein|Gyorgy Buzsaki McGill University;|The Neuroscience Institute, New York University Langone Medical Center, New York, NY, 10016, USA.
http://dx.doi.org/10.1101/076224 2016-09-20 Systems Biology CC BY-ND Tracking single-cell gene regulation in dynamically controlled environments using an integrated microfluidic and computational setup Matthias Kaiser|Florian Jug|Olin Silander|Siddharth Deshpande|Thomas Pfohl|Thomas Julou|Gene Myers|Erik van Nimwegen University of Basel, Basel, Switzerland;|Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany;|Biozentrum, University of Basel
http://dx.doi.org/10.1101/076216 2016-09-20 Genomics Genome-wide association study of HIV whole genome sequences validated using drug resistance Robert A Power|Siva Davaniah|Anne Derache|Eduan Wilkinson|Frank Tanser|Ravindra K Gupta|Deenan Pillay|Tulio de Oliveira Africa Centre for Population Health;|University College London
http://dx.doi.org/10.1101/076083 2016-09-19 Bioinformatics CC BY-ND High throughput estimation of functional cell activities reveals disease mechanisms and predicts relevant clinical outcomes Marta R Hidalgo|Cankut Cubuk|Alicia Amadoz|Francisco Salavert|Jose Carbonell Caballero|Joaquin Dopazo Centro de Investigacion Principe Felipe
http://dx.doi.org/10.1101/076174 2016-09-19 Zoology CC BY-NC-ND Expression biomarkers used for the selective breeding of complex polygenic traits Marta Guarna|Shelley Hoover|Elizabeth Huxter|Heather Higo|Kyung-Mee Moon|Domonik Domanski|Miriam E.F. Bixby|Andony P Melathopoulos|Abdullah Ibrahim|Michael Peirson|Suresh Desai|Derek Micholson|Rick White|Christoph H Borchers|Robert W Currie|Stephen F Pernal|Leonard Foster University of British Columbia;|Agriculture & Agri-Food Canada;|Kettle Valley Queens;|University of Victoria;|University of British Columia;|University of Manitoba
http://dx.doi.org/10.1101/076109 2016-09-19 Biophysics CC BY-NC-ND Diffusion of lipids and GPI-anchored proteins in actin-free plasma membrane vesicles measured by STED-FCS Falk Schneider|Mathias P Clausen|Dominic Waithe|Thomas Koller|Gunes Ozhan|Christian Eggeling|Erdinc Sezgin University of Oxford;|University of Southern Denmark;|Izmir International Biomedicine and Genome Institute (iBG-izmir), Dokuz Eylul University
http://dx.doi.org/10.1101/076000 2016-09-19 Bioinformatics CC BY PTRNAmark: an all-atomic distance-dependent knowledge-based potential for 3D RNA structure evaluation Yi Yang|Qi Gu|Ya-zhou Shi|Zhi-Gang Shao|Zhi-jie Tan Guangdong Provincial Key Laboratory of Quantum Engineering and Quantum Materials, SPTE, South China;|Center for Theoretical Physics and Key Laboratory of Artificial Micro & Nano-structures of Ministry
http://dx.doi.org/10.1101/076133 2016-09-19 Genetics CC BY-NC-ND Correcting subtle stratification in summary association statistics Gaurav Bhatia|Nicholas A Furlotte|Po-Ru Loh|Xuanyao Liu|Hilary Kiyo Finucane|Alexander Gusev|Alkes Price Harvard School of Public Health;|23andMe, Inc.;|Harvard T.H. Chan School of Public Health;|MIT
http://dx.doi.org/10.1101/076166 2016-09-19 Bioinformatics CC BY-NC-ND Towards an Open Data Framework for Body Sensor Networks Supporting Bluetooth Low Energy Ninoshka K. Singh|Darrell O Ricke MIT Lincoln Laboratory
http://dx.doi.org/10.1101/076067 2016-09-19 Bioinformatics CC BY De novo transcriptome assembly for the spiny mouse (Acomys cahirinus) Jared Mamrot|Roxane Legaie|Stacey J Ellery|Trevor Wilson|David Gardner|David W Walker|Peter Temple-Smith|Anthony T Papenfuss|Hayley Dickinson Hudson Institute of Medical Research;|MHTP node - Monash Bioinformatics Platform, Monash University;|MHTP Medical Genomics Facility;|University of Melbourne;|Monash University;|Walter and Eliza Hall Institute
http://dx.doi.org/10.1101/075978 2016-09-19 Bioinformatics CC BY-NC GenomeScope: Fast reference-free genome profiling from short reads Gregory W Vurture|Fritz J Sedlazeck|Maria Nattestad|Charles J. Underwood|Han Fang|James Gurtowski|Michael Schatz Cold Spring Harbor Laboratory;|Johns Hopkins University
http://dx.doi.org/10.1101/064907 2016-09-19 Evolutionary Biology CC BY-NC-ND Discovery of flavivirus-derived endogenous viral elements in two Anopheles mosquito genomes supports the existence of Anopheles-associated insect-specific flaviviruses Sebastian Lequime|Louis Lambrechts Institut Pasteur
http://dx.doi.org/10.1101/075135 2016-09-19 Cell Biology CC BY-NC-ND The FACT complex and cell cycle progression are essential to maintain asymmetric transcription factor partitioning during cell division Eva Herrero|Sonia Stinus|Eleanor Bellows|Peter H Thorpe The Francis Crick Institute;|European Research Institute for the Biology of Ageing;|Nottingham University
http://dx.doi.org/10.1101/075861 2016-09-19 Evolutionary Biology CC BY-NC-ND Multiple factors influence population sex ratios in the Mojave Desert moss Syntrichia caninervis Jenna T. Baughman|Adam C. Payton|Amber E. Paasch|Kirsten M. Fisher|Stuart F. McDaniel University of California, Berkeley;|University of Florida;|American Museum of Natural History;|California State University, Los Angeles
http://dx.doi.org/10.1101/075960 2016-09-19 Genetics CC BY-NC Genetic correlations with climate variables suggest Caenorhabditis elegans natural niche preferences Kathryn S. Evans|Yuehui Zhao|Lijiang Long|Shannon C. Brady|Patrick T. McGrath|Erik C. Andersen Northwestern University, United States;|Georgia Institute of Technology, United States
http://dx.doi.org/10.1101/075911 2016-09-19 Genomics CC BY-NC-ND Massive influence of DNA isolation and library preparation approaches on palaeogenomic sequencing data Axel Barlow|Gloria M Gonzalez Fortes|Love Dalen|Ron Pinhasi|Boris Gasparyan|Gernot Rabeder|Christine Frischchauf|Johanna L.A. Paijmans|Michael Hofreiter University of Potsdam;|Swedish Museum of Natural History;|University College Dublin;|National Academy of Sciences of the Republic of Armenia;|Medizinische Universitat Wien
http://dx.doi.org/10.1101/075754 2016-09-19 Pharmacology Clinically-weighted transcriptomic signatures for protein kinase inhibitor associated cardiotoxicity Johan G.C. van Hasselt|Jens Hansen|Yuguang Xiong|Jaehee Shim|Amanda Pickard|Gomathi Jayaraman|B Hu|Milind Mahajan|James Gallo|Eric A Sobie|Marc R Birtwistle|Evren U Azeloglu|Ravi Iyengar Department of Pharmacological Sciences, Icahn School of Medicine at Mount Sinai;|Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/076042 2016-09-19 Neuroscience CC BY-NC-ND Low-frequency cortical oscillations are modulated by temporal prediction and temporal error coding Louise C Barne|Peter Claessens|Marcelo B Reyes|Marcelo S Caetano|Andre M Cravo Universidade Federal do ABC
http://dx.doi.org/10.1101/075929 2016-09-19 Neuroscience CC BY-NC-ND Cortical dynamics of saccade-target selection during free-viewing of natural scenes Linda Henriksson|Kaisu Olander|Riitta Hari Aalto University;|University of Helsinki
http://dx.doi.org/10.1101/075812 2016-09-19 Ecology CC BY-NC-ND COMPARISON OF TWO DESCRIPTIONS OF HETEROGENEITY USED IN MODELLING PLANTS DYNAMICS Michel Droz|Andrzej Pekalski Departtment of Theoretical Physics, University of Geneva;|Institute of Theoretical Physics, University of Wrocław
http://dx.doi.org/10.1101/075804 2016-09-19 Ecology CC BY-NC-ND ROLE OF TOLERANCE TO RESOURCE DEMAND -- SUPPLY MISMATCH IN A MODEL OF ANNUAL PLANTS Michel Droz|Andrzej Pekalski Department of Theoretical Physics, University of Geneva;|University of Wroclaw
http://dx.doi.org/10.1101/075945 2016-09-19 Ecology CC BY-NC-ND Investigating the potential of opportunistic sighting data to inform wildlife conservation strategies Simone Tenan|Paolo Pedrini|Natalia Bragalanti|Claudio Groff|Chris Sutherland MUSE - Museo delle Scienze;|Provincia Autonoma di Trento, Servizio Foreste e Fauna;|University of Massachussetts - Amherst
http://dx.doi.org/10.1101/076117 2016-09-19 Genomics CC BY-NC Quantitative analysis of cryptic splicing associated with TDP-43 depletion Jack Humphrey|Warren Emmett|PIetro Fratta|Adrian M. Isaacs|Vincent Plagnol University College London
http://dx.doi.org/10.1101/075895 2016-09-19 Ecology CC BY-NC-ND Shrinking of the endangered brown bear Ursus arctos distribution in the French Pyrenees revealed by dynamic occupancy modeling Blaise Piedallu|Pierre-Yves Quenette|Nicolas Bombillon|Adrienne Gastineau|Christian Miquel|Olivier Gimenez CNRS;|ONCFS
http://dx.doi.org/10.1101/075994 2016-09-19 Bioinformatics CC BY Genome‑wide Identification and Characterization of Transcription Factors of Basic Leucine Zipper Family in Malus domestica Zhengrong Zhang|Haoran Cui|Shanshan Xing|Xin Liu|Xuesen Chen|Xiaoyun Wang Shandong Agriculture University, China
http://dx.doi.org/10.1101/075747 2016-09-19 Microbiology Comparison of African, Asian, and American Zika Viruses in Swiss Webster mice: Virulence, neutralizing antibodies, and serotypes Charles B Stauft|Oleksandr Gorbatsevych|Jeronimo Cello|Eckard Wimmer|Bruce Futcher Stony Brook University
http://dx.doi.org/10.1101/075853 2016-09-19 Neuroscience CC BY-NC Deriving robust biomarkers from multi-site resting-state data: An Autism-based example Alexandre Abraham|Michael Milham|Adriana Di Martino|R. Cameron Craddock|Dimitris Samaras|Bertrand Thirion|Gael Varoquaux Inria;|Child Mind Institute, Nathan S. Kline Institute for Psychiatric Research;|NYU Langone Medical Center;|Stony Brook University, Ecole Centrale;|Inria, Parietal team, CEA/DSV/I2BM/Neurospin
http://dx.doi.org/10.1101/075101 2016-09-19 Bioinformatics Phylo-Node: a molecular phylogenetic toolkit using Node.js Damien M O'Halloran George Washington University
http://dx.doi.org/10.1101/075788 2016-09-19 Neuroscience Dynamic Brain Connectivity Patterns in Conscious and Unconscious Brain Yuncong Ma|Christina Hamilton|Nanyin Zhang The Pennsylvania State University
http://dx.doi.org/10.1101/075820 2016-09-19 Biophysics CC BY-NC-ND Ripping RNA by Force using Gaussian Network Models Changbong Hyeon|Dave Thirumalai Korea Institute for Advanced Study;|University of Texas at Austin
http://dx.doi.org/10.1101/075796 2016-09-19 Cell Biology CC BY N-Acyl Dopamines Induce Apoptosis in PC12 Cell Line via the O-1918-Sensitive non-CB1-non-CB2 Receptor Mikhail Akimov|Alina M Ashba|Natalia M Gretskaya|Vladimir V Bezuglov Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry
http://dx.doi.org/10.1101/075846 2016-09-19 Cancer Biology CC BY-NC-ND Collateral sensitivity networks reveal evolutionary instability and novel treatment strategies in ALK mutated non-small cell lung cancer. Andrew Dhawan|Daniel Nichol|Fumi Kinose|Mohamed E. Abazeed|Andriy Marusyk|Eric B. Haura|Jacob G. Scott University of Oxford;|H. Lee Moffitt Cancer Center and Research Institute;|Cleveland Clinic
http://dx.doi.org/10.1101/075887 2016-09-19 Molecular Biology CC BY-NC-ND GeRelion: GPU-enhanced parallel implementation of single particle cryo-EM image processing Huayou Su|Wen Wen|Xiaoli Du|Xicheng Lu|Maofu Liao|Dongsheng Li NUDT;|Department of Cell Biology, Harvard Medical School
http://dx.doi.org/10.1101/073957 2016-09-19 Genomics CC BY Landscape of X chromosome inactivation across human tissues Taru Tukiainen|Alexandra-Chloe Villani|Angela Yen|Manuel A. Rivas|Jamie L. Marshall|Rahul Satija|Matt Aguirre|Laura Gauthier|Mark Fleharty|Andrew Kirby|Beryl B. Cummings|Stephane E. Castel|Konrad J. Karczewski|Francois Aguet|Andrea Byrnes|Tuuli Lappalainen|Aviv Regev|Kristin G. Ardlie|Nir Hacohen|Daniel G. MacArthur Broad Institute;|Massachusetts Institute of Technology;|New York Genome Center
http://dx.doi.org/10.1101/075721 2016-09-17 Genetics Chromatin Landscapes and Genetic Risk For Juvenile Idiopathic Arthritis James N. Jarvis|Lisha Zhu|Kaiyu Jiang|Karstin Webber|Laiping Wong|Tao Liu|Yanmin Chen University at Buffalo Jacobs School of Medicine, United States
http://dx.doi.org/10.1101/075762 2016-09-17 Microbiology CC BY-NC Quorum sensing integrates environmental cues, cell density and cell history to control bacterial competence Stefany Moreno-Gamez|Robin Sorg|Morten Kjos|Franz Weissing|G. Sander van Doorn|Jan-Willem Veening University of Groningen;|University of Lausanne
http://dx.doi.org/10.1101/075580 2016-09-16 Evolutionary Biology CC BY The species problem from the modeler's point of view Marc Manceau|Amaury Lambert Institut de biologie de l'Ecole Normale Superieure;|Laboratoire Probabilites et Modeles Aleatoires, UPMC Univ Paris 06
http://dx.doi.org/10.1101/075333 2016-09-16 Neuroscience CC BY-NC-ND Neuroplasticity of language in left-hemisphere stroke: evidence linking subsecond electrophysiology and structural connections Vitoria Piai|Lars Meyer|Nina F Dronkers|Robert T Knight Radboud University & Radboud UMC;|Max Planck Institute for Human Cognitive and Brain Sciences;|Center for Aphasia and Related Disorders, Veterans Affairs Northern California Health Care System;|University of California, Berkeley
http://dx.doi.org/10.1101/075705 2016-09-16 Bioinformatics CC BY-NC Assessing Prediction Performance of Neoadjuvant Chemotherapy Response in Bladder Cancer Chris Cremer University of Tortonto
http://dx.doi.org/10.1101/075663 2016-09-16 Ecology CC BY-NC-ND Better together: a transboundary approach to brown bear monitoring in the Pyrenees Blaise Piedallu|Pierre-Yves Quenette|Ivan Alfonso Jordana|Nicolas Bombillon|Adrienne Gastineau|Ramon Jato|Christian Miquel|Pablo Munoz|Santiago Palazon|Jordi Sola de la Torre|Olivier Gimenez CNRS;|ONCFS;|Medi Ambient, Conselh Generau d Aran;|Departamento de Produccion y Asistencias Tecnicas, Sociedad Aragonesa de Getion Agroambiental;|Jefe de la Seccion de Habitats, Gobierno de Navarra;|Fauna and Flora Service, Department of Territory and Sustainability;|(8)Unitat de Fauna, Departament de Medi Ambient
http://dx.doi.org/10.1101/075697 2016-09-16 Neuroscience CC BY-NC-ND Bursting deep dorsal horn neurons: the pharmacological target for the anti-spastic effects of Zolmitriptan? Eva Meier Carlsen|Rune Rasmussen University of Copenhagen
http://dx.doi.org/10.1101/075408 2016-09-16 Bioinformatics CC BY-NC-ND Identification of outcome-related driver mutations in cancer using conditional co-occurrence distributions VICTOR TREVINO|Emmanuel Martinez-Ledesma|Jose Gerardo Tamez-Pena Tecnologico de Monterrey;|MD Anderson Cancer Center
http://dx.doi.org/10.1101/075598 2016-09-16 Ecology Evapotranspiration response to land cover and climate change in a Midwest U.S. watershed Stephen K Hamilton|Mir Zaman Hussain|Christopher Lowrie|Bruno Basso|G Philip Robertson Michigan State University
http://dx.doi.org/10.1101/075671 2016-09-16 Genomics CC BY-NC-ND Insertional mutagenesis in PLNR9C transgenic mouse: a case report and a review of the literature on cardiac-specific transgenic expression Alexander Kraev University of Toronto
http://dx.doi.org/10.1101/075655 2016-09-16 Biophysics CC BY-ND Length control of filamentous structures in cells by the limiting pool mechanism Lishibanya Mohapatra|Thibaut J. Lagny|David Harbage|Predrag R. Jelenkovic|Jane Kondev Brandeis University;|Institut Curie, PSL Research University;|Columbia University
http://dx.doi.org/10.1101/074955 2016-09-16 Neuroscience CC BY-NC-ND Synaesthesia lost and found: Two cases of person- and music-colour synaesthesia. Francesca R Farina|Kevin Mitchell|Richard AP Roche University College Dublin;|Trinity College Dublin;|Maynooth University
http://dx.doi.org/10.1101/075481 2016-09-16 Bioinformatics CC BY kWIP: The k-mer Weighted Inner Product, a de novo estimator of genetic similarity Kevin D Murray|Christfried Webers|Cheng Soon Ong|Justin O Borevitz|Norman Warthmann Centre of Excellence in Plant Energy Biology,The Australian National University, Canberra, Australia;|Data61, CSIRO, Canberra, Australia AND Department of Computer Science, ANU, Canberra, Australia
http://dx.doi.org/10.1101/075309 2016-09-16 Developmental Biology CC BY-NC Geometry can provide long-range mechanical guidance for embryogenesis Mahamar Dicko|Pierre Saramito|Jocelyn Etienne Univ. Grenoble Alpes and CNRS, Lab. Jean Kuntzman and Lab. Interdisciplinaire de Physique;|Univ. Grenoble Alpes and CNRS, Lab. Jean Kuntzman;|Univ. Grenoble Alpes and CNRS, Lab. Interdisciplinaire de Physique
http://dx.doi.org/10.1101/075515 2016-09-16 Microbiology CC BY-NC-ND Antibiotic susceptibility of bacterial colonies: An assay and experiments with Staphylococcus aureus. Xinxian Shao|Justin Kim|Ha Jun Jeong|Bruce Levin Emory University
http://dx.doi.org/10.1101/075549 2016-09-16 Microbiology CC BY-NC-ND Aerobic H2 respiration enhances metabolic flexibility of methanotrophic bacteria Carlo R Carere|Kiel Hards|Karen M Houghton|Jean F Power|Ben McDonald|Christophe Collet|Daniel J Gapes|Richard Sparling|Gregory M Cook|Chris Greening|Matthew B Stott GNS Science;|University of Otago;|Scion;|University of Manitoba;|Monash University
http://dx.doi.org/10.1101/075523 2016-09-16 Genomics Estimating the Selective Effect of Heterozygous Protein Truncating Variants from Human Exome Data Christopher A. Cassa|Donate Weghorn|Daniel J. Balick|Daniel M. Jordan|David Nusinow|Kaitlin E. Samocha|Anne O'Donnell Luria|Daniel G. MacArthur|Mark J. Daly|David R. Beier|Shamil R. Sunyaev Harvard Medical School;|Icahn School of Medicine at Mount Sinai;|University of Washington School of Medicine
http://dx.doi.org/10.1101/075556 2016-09-16 Cell Biology Lipid metabolic perturbation is an early-onset phenotype in adult spin mutants: a Drosophila model for lysosomal storage disorders sarita hebbar|Avinash Khandelwal|Jayashree R|Samantha J Hindle|Yin Ning Chiang|Joanne Yew|Sean Sweeney|Dominik Schwudke MPi-CBG;|EMBL/CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), Dr. Aiguader 88, 08003;|c-CAMP, Proteomics Facility, NCBS;|Department of Biology, University of York, York;|Temasek Life Sciences Laboratory, Singapore;|Pacific Biosciences Research Center, University of Hawaii at Mānoa, Honolulu, HI 96822;|Research Center Borstel, Borstel, 23845, Germany
http://dx.doi.org/10.1101/072298 2016-09-16 Microbiology CC BY-NC-ND Application of the stochastic labeling methods with random-sequence barcodes for simultaneous quantification and sequencing of environmental 16S rRNA genes Tatsuhiko Hoshino|Fumio Inagaki Japan Agency for Marine-Earth Science and Technology
http://dx.doi.org/10.1101/075465 2016-09-16 Neuroscience State-dependent modulation of functional connectivity in early blind individuals Maxime Pelland|Pierre Orban|Christian Dansereau|Franco Lepore|Pierre Bellec|Olivier Collignon University of Montreal;|Criugm;|Cimec
http://dx.doi.org/10.1101/075432 2016-09-15 Scientific Communication and Education CC BY-NC-ND Identification of Successful Mentoring Communities using Network-based Analysis of Mentor-Mentee Relationships across Nobel Laureates Julia H. Chariker|Yihang Zhang|John R. Pani|Eric Christian Rouchka University of Louisville
http://dx.doi.org/10.1101/075366 2016-09-15 Systems Biology Noise-processing by signaling networks Styliani Kontogeorgaki|Ruben Sanchez-Garcia|Rob Ewing|Konstantinos Zygalakis|Ben D. MacArthur University of Southampton;|University of Edinburgh
http://dx.doi.org/10.1101/075341 2016-09-15 Neuroscience CC BY-NC Homeostasis of columnar synchronization during cortical map formation Matthew T Colonnese|Jing Shen The George Washington University
http://dx.doi.org/10.1101/075416 2016-09-15 Genomics CC BY-ND Identification of misclassified ClinVar variants using disease population prevalence Naisha Shah|Ying-Chen Claire Hou|Hung-Chun Yu|Rachana Sainger|Eric Dec|Brad Perkins|C. Thomas Caskey|J. Craig Venter|Amalio Telenti Human Longevity Inc., San Diego, CA, USA.;|Baylor College of Medicine in Houston, TX, USA;|Human Longevity Inc., San Diego, CA, USA.; J. Craig Venter Institute, La Jolla, CA, USA.
http://dx.doi.org/10.1101/075283 2016-09-15 Neuroscience Selective activation of ganglion cells without axon bundles using epiretinal electrical stimulation Lauren E Grosberg|Karthik Ganesan|Georges A Goetz|Sasidhar Madugula|Nandita Bhaskhar|Victoria Fan|Peter Li|Pawe Hottowy|Wadysaw Dabrowski|Alexander Sher|Alan M Litke|Subhasish Mitra|E.J. Chichilnisky Stanford University;|Salk Institute for Biological Studies;|AGH University of Science and Technology;|University of California Santa Cruz
http://dx.doi.org/10.1101/075275 2016-09-15 Neuroscience CC BY The Real-time fMRI Neurofeedback Based Stratification of Default Network Regulation Neuroimaging Data Repository. Amalia McDonald|Jordan Muraskin|Nicholas Thomas Van Dam|Caroline Froehlich|Benjamin Puccio|John Pellman|Clemens CC Bauer|Alexis Akeyson|Melissa Breland|Vince Calhoun|Steven Carter|Tiffany Chang|Chelsea Gessner|Alyssa Giannone|Steven Giavasis|Jamie Glass|Steven Homann|Margaret King|Melissa Kramer|Drew Landis|Alexis Lieval|Jonathan Lisinski|Anna MacKay-Brandt|Brittny Miller|Laura Panek|Hayley Reed|Christine Santiago|Eszter Schoell|Richard Sinning|Melissa Sital|Elise Taverna|Russell Tobe|Kristin Trautmann|Betty Varghese|Lauren Walden|Runtang Wang|Abigail B Waters|Dylan C Wood|F. Xavier Castellanos|Bennett L. Leventhal|Stanley J Colcombe|Stephen M LaConte|Michael P Milham|R Cameron Craddock Nathan S. Kline Institute for Psychiatric Research;|Icahn School of Medicine at Mount Sinai;|Child Mind Institute;|Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Boston, MA, USA;|The Mind Research Network, Albuquerque, New Mexico, USA;|Virginia Tech Carilion Research Institute, Roanoke, VA;|The Child Study Center, NYU Langone Medical Center, New York, NY, USA;|Department of Psychiatry, University of California San Francisco, San Francisco, CA, USA;|Virginia Tech Carilion Research Institute, Roanoke, VA, USA;|Child Mind Institute / Nathan S. Kline Institute for Psychiatric Research;|Nathan S. Kline Institute for Psychiatric Research / Child Mind Institute
http://dx.doi.org/10.1101/075374 2016-09-15 Bioinformatics CC BY-NC-ND MCbiclust: a novel algorithm to discover large-scale functionally related gene sets from massive transcriptomics data collections Robert B Bentham|Kevin Bryson|Gyorgy Szabadkai University College London
http://dx.doi.org/10.1101/075358 2016-09-15 Bioinformatics CC BY-NC The Drosophila Gene Expression Tool (DGET) for expression analyses Yanhui Hu|Aram Comjean|Norbert Perrimon|Stephanie Mohr Harvard Medical School
http://dx.doi.org/10.1101/074997 2016-09-15 Microbiology CC BY Metatranscriptomics supports mechanism for biocathode electroautotrophy by "Candidatus Tenderia electrophaga" Brian J. Eddie|Zheng Wang|William Judson Hervey|Dagmar H. Leary|Anthony P. Malanoski|Leonard M. Tender|Baochuan Lin|Sarah M. Strycharz-Glaven US Naval Research Laboratory;|US Naval Research Laboratory, Defense Threat Reduction Agency
http://dx.doi.org/10.1101/075317 2016-09-15 Neuroscience CC BY-NC-ND Functional consequences of pre- and postsynaptic expression of synaptic plasticity Rui Ponte Costa|Beatriz E. P. Mizusaki|P. Jesper Sjostrom|Mark C. W. van Rossum University of Oxford, United Kingdom;|Universidade Federal do Rio Grande do Sul, Brasil;|McGill University, Canada;|University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/075291 2016-09-15 Microbiology CC BY Minimal Tool Set for a Prokaryotic Circadian Clock Nicolas Schmelling|Anika Wiegard|Robert Lehmann|Paushali Chaudhury|Christian Beck|Sonja V Albers|Ilka M Axmann Institute for Synthetic Microbiology, Heinrich Heine University Duesseldorf;|Institute for Theoretical Biology, Humboldt University Berlin;|Molecular Biology of Archaea, University of Freiburg
http://dx.doi.org/10.1101/075325 2016-09-15 Synthetic Biology CC BY-NC-ND Biosynthesis of the Antibiotic Nonribosomal Peptide Penicillin in Baker's Yeast Ali R Awan|Benjamin A Blount|David J Bell|Jack C H Ho|Robert M McKiernan|Tom Ellis Imperial College London
http://dx.doi.org/10.1101/075200 2016-09-14 Ecology CC BY-NC-ND ENVIREM: An expanded set of bioclimatic and topographic variables increases flexibility and improves performance of ecological niche modeling Pascal O Title|Jordan B Bemmels University of Michigan
http://dx.doi.org/10.1101/075069 2016-09-14 Bioinformatics CC BY-NC-ND Solving the influence maximization problem reveals regulatory organization of the yeast cell cycle. David Gibbs|Ilya Shmulevich Institute for Systems Biology
http://dx.doi.org/10.1101/075176 2016-09-14 Synthetic Biology CC BY-NC-ND Catalyzed Synthesis of Zinc Clays by Prebiotic Central Metabolites Ruixin Zhou|Kaustuv Basu|Hyman Hartman|Christopher Matocha|S. Kelly Sears|Hojatollah Vali|Marcelo I Guzman University of Kentucky;|McGill University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/074922 2016-09-14 Plant Biology CC BY Using a structural root system model for an in-depth assessment of root image analysis pipeline Guillaume Lobet|Iko Koevoets|Pierre Tocquin|Loic Pages|Claire Perilleux Forschungszentrum Juelich;|University of Amsterdam;|University of Liege;|INRA
http://dx.doi.org/10.1101/075267 2016-09-14 Bioinformatics CC BY-NC-ND Numericware i: Identical in state matrix calculator Bongsong Kim|William D Beavis Iowa State University
http://dx.doi.org/10.1101/074302 2016-09-14 Ecology CC BY-NC-ND Amphibian diversity and abundance in ponds is lower in exotic plantations than native forests Maider Iglesias-Carrasco|Iraide Artexte|Carlos Cabido|Aitor Larranaga Museo Nacional de Ciencias Naturales;|Sociedad de Ciencias Aranzadi;|University of Basque Country
http://dx.doi.org/10.1101/075184 2016-09-14 Bioinformatics CC BY-NC-ND 3D chromatin structure estimation through a constraint-enhanced score function Claudia Caudai|Emanuele Salerno|Monica Zoppe|Anna Tonazzini National Research Council of Italy CNR
http://dx.doi.org/10.1101/075077 2016-09-14 Genomics CC BY-ND DNA methylation landscape of ocular tissue relative to matched to peripheral blood. Alex Hewitt|Vania Januar|Alexandra Sexton-Oates|Jihoon E Joo|Maria Franchina|Jie Jin Wang|Helena Liang|Jamie E Craig|Richard Saffery University of Melbourne;|Cancer and Disease Epigenetics, Murdoch Childrens Research Institute, Royal Childrens Hospital;|Department of Pathology, University of Melbourne, Australia;|Lions Eye Institute, University of Western Australia, Centre for Ophthalmology and Visual Science;|Centre for Vision Research, Department of Ophthalmology and Westmead Millennium Institute;|Centre for Eye Research Australia, University of Melbourne, Royal Victorian Eye and Ear Hospital;|Department of Ophthalmology, Flinders University, Flinders Medical Centre, Adelaide, South Australia
http://dx.doi.org/10.1101/075259 2016-09-14 Bioinformatics Sequence biases in CLIP experimental data are incorporated in protein RNA-binding models Yaron Orenstein|Raghavendra Hosur|Sean Simmons|Jadwiga Bienkoswka|Bonnie Berger MIT;|Biogen
http://dx.doi.org/10.1101/075168 2016-09-14 Microbiology CC BY-NC-ND Identification of important amino acid replacements in the 2013-2016 Ebola virus outbreak Abayomi S Olabode|Derek Gatherer|Xiaowei Jiang|David Matthews|Julian A Hiscox|Stephan Gunther|Miles W Carroll|Simon C Lovell|David L Robertson University of Manchester;|Lancaster University;|University of Oxford;|University of Bristol;|University of Liverpool;|Bernhard-Nocht-Institute for Tropical Medicine;|Public Health England
http://dx.doi.org/10.1101/075127 2016-09-14 Cell Biology CC BY-NC-ND IMiQC: a novel protein quality control compartment protecting mitochondrial functional integrity Michael Bruderek|Witold Jaworek|Anne Wilkening|Cornelia Rub|Giovanna Cenini|Marc Sylvester|Wolfgang Voos IBMB, University of Bonn
http://dx.doi.org/10.1101/075051 2016-09-14 Synthetic Biology Long-term monitoring of inflammation in the mammalian gut using programmable commensal bacteria David T Riglar|Michael Baym|S Jordan Kerns|Matthew J Niederhuber|Roderick T Bronson|Jonathan W Kotula|Georg K Gerber|Jeffrey C Way|Pamela A. Silver Harvard Medical School;|Brigham and Women's Hospital, Harvard Medical School;|Wyss Institute for Biologically Inspired Engineering, Harvard University
http://dx.doi.org/10.1101/074567 2016-09-14 Biochemistry CC BY-NC-ND Multi-laboratory assessment of reproducibility, qualitative and quantitative performance of SWATH-mass spectrometry Ben C Collins|Christie L Hunter|Yansheng Liu|Birgit Schilling|George Rosenberger Rosenberger|Samuel L Bader|Daniel W Chan|Bradford W Gibson|Anne-Claude Gingras|Jason M Held|Mio Hirayama-Kurogi|Guixue Hou|Christoph Krisp Krisp|Brett Larsen|Liang Lin|Siqi Liu|Mark P Molloy|Robert L Moritz|Sumio Ohtsuki|Ralph Schlapbach|Nathalie Selevsek|Stefani N Thomas|Shin-Cheng Tzeng|Hui Zhang|Ruedi Aebersold ETH Zurich;|Sciex;|Buck Institute for Research on Aging;|Institute for Systems Biology;|Johns Hopkins University School of Medicine;|Lunenfeld-Tanenbaum Research Institute;|Washington University School of Medicine;|Kumamoto University;|BGI-Shenzhen;|Australian Proteome Analysis Facility;|Functional Genomics Center Zurich
http://dx.doi.org/10.1101/075192 2016-09-14 Epidemiology Industry-wide surveillance of Marek's disease virus on commercial poultry farms: underlying potential for virulence evolution and vaccine escape David A Kennedy|Christopher Cairns|Matthew J Jones|Andrew S Bell|Rahel M Salathe|Susan J Baigent|Venugopal K Nair|Patricia A Dunn|Andrew F Read The Pennsylvania State University;|The Pirbright Institute
http://dx.doi.org/10.1101/075044 2016-09-13 Cell Biology CC BY-NC-ND Functionally redundant control of cardiac hypertrophic signaling by inositol 1,4,5-trisphosphate receptors M. Iveth Garcia|Anja Karlstaedt|Javier Amione-Guerra|Keith A Youker|Heinrich Taegtmeyer|Darren Boehning University of Texas Medical Branch;|McGovern Medical School at UTHealth;|Houston Methodist Hospital
http://dx.doi.org/10.1101/075036 2016-09-13 Developmental Biology CC BY-NC-ND Hand2 Inhibits Kidney Specification While Promoting Vein Formation Within the Posterior Mesoderm Elliot A. Perens|Zayra V. Garavito-Aguilar|Gina P. Guio-Vega|Karen T. Pena|Yocheved L. Schindler|Deborah Yelon UCSD;|Universidad de los Andes
http://dx.doi.org/10.1101/074963 2016-09-13 Cell Biology Cotranslational assembly imposes evolutionary constraints on homomeric proteins Eviatar Natan|Tamaki Endoh|Liora Haim-Vilmovsky|Guilhem Chalancon|Tilman Flock|Jonathan TS Hopper|Balint Kintses|Lejla Daruka|Gergely Fekete|Csaba Pal|Balazs Papp|Peter Horvath|Joseph A Marsh|Adrian H Elcock|M Madan Babu|Carol V Robinson|Naoki Sugimoto|Sarah A Teichmann Department of Chemistry, University of Oxford, 12 Mansfield Rd, Oxford, OX1 3TA, UK;|Frontier Institute for Biomolecular Engineering Research (FIBER), Konan University, 7-1-20 Minatoji;|EMBL-European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD;|MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge CB;|Synthetic and System Biology Unit, Biological Research Center of the Hungarian Academia of Sciences,;|Synthetic and System Biology Unit, Biological Research Center of the Hungarian Academia of Sciences;|MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh;|Department of Biochemistry, University of Iowa, Bowen Science Building, 51 Newton Road, Iowa City;|MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge Biomedical Campus, Cambridge;|Current address: Department of Chemistry, University of Oxford, 12 Mansfield Rd, Oxford, OX1 3TA, UK;|Frontier Institute for Biomolecular Engineering Research (FIBER), Konan University, 7-1-20 Minatojim;|Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK
http://dx.doi.org/10.1101/074971 2016-09-13 Systems Biology CC BY Temporal mixture modelling of single-cell RNA-seq data resolves a CD4+ T cell fate bifurcation Tapio Lonnberg|Valentine Svensson|Kylie R James|Daniel Fernandez-Ruiz|Ismail Sebina|Ruddy Montandon|Megan S F Soon|Lily G Fogg|Michael J T Stubbington|Frederik Otzen Bagger|Max Zwiessele|Neil Lawrence|Fernando Souza-Fonseca- Guimaraes|William R Heath|Oliver Billker|Oliver Stegle|Ashraful Haque|Sarah A Teichmann EMBL-EBI;|QIMR Berghofer Medical Research Institute;|Department of Microbiology and Immunology, The Peter Doherty Institute;|Wellcome Trust Sanger Institute;|Department of Computer Science, University of Sheffield
http://dx.doi.org/10.1101/075002 2016-09-13 Ecology Density dependence in demography and dispersal generates fluctuating invasion speeds Lauren L. Sullivan|Bingtuan Li|Tom E. X. Miller|Michael G. Neubert|Allison K. Shaw University of Minnesota;|University of Louisville;|Rice University;|Woods Hole Oceanographic Institution
http://dx.doi.org/10.1101/075028 2016-09-13 Biophysics CC BY Architecture and Co-Evolution of Allosteric Materials Le Yan|Riccardo Ravasio|Carolina Brito|Matthieu Wyart University of California, Santa Barbara;|Ecole Polytechnique Federale de Lausanne;|Universidade Federal do Rio Grande
http://dx.doi.org/10.1101/074989 2016-09-13 Evolutionary Biology CC BY-NC-ND Resurrected protein interaction networks reveal the strong rewiring that leads to network organisation after whole genome duplication Zhicheng Zhang|Heleen Coenen|Philip Ruelens|Rashmi Hazarika|Tareq Al Hindi|Georgianna Oguis|Vera Van Noort|Koen Geuten KULeuven
http://dx.doi.org/10.1101/074872 2016-09-13 Neuroscience CC BY Variation in olfactory neuron repertoires is genetically controlled and environmentally modulated Ximena Ibarra-Soria|Thiago S Nakahara|Jingtao Lilue|Yue Jiang|Casey Trimmer|Mateus A.A. Souza|Paulo H.M. Netto|Kentaro Ikegami|Nicolle R Murphy|Mairi Kusma|Andrea Kirton|Luis R Saraiva|Thomas M Keane|Hiroaki Matsunami|Joel D Mainland|Fabio Papes|Darren W Logan Wellcome Trust Sanger Institute;|University of Campinas;|Duke University Medical Center;|Monell Chemical Senses Center
http://dx.doi.org/10.1101/074864 2016-09-13 Genetics CC BY-ND Personalized genetic assessment of age associated Alzheimers disease risk Rahul S. Desikan|Chun Chieh Fan|Yunpeng Wang|Andrew J. Schork|Howard J. Cabral|Adrienne Cupples|Wesley K. Thompson|Lilah Besser|Walter A. Kukull|Dominic Holland|Chi-Hua Chen|James B. Brewer|David S. Karow|Karolina Kauppi|Aree Witoelar|Celeste M. Karch|Luke W. Bonham|Jennifer S. Yokoyama|Howard J. Rosen|Bruce L. Miller|William P. Dillon|David M. Wilson|Christopher P. Hess|Margaret Pericak-Vance|Jonathan L. Haines|Lindsay A. Farrer|Richard Mayeux|John Hardy|Alison M. Goate|Bradley T. Hyman|Gerard D. Schellenberg|Linda K. McEvoy|Ole A. Andreassen|Anders N. Dale Neuroradiology Section, Department of Radiology and Biomedical Imaging, UCSF;|University of California, San Diego;|NORMENT; Institute of Clinical Medicine, University of Oslo;|Department of Biostatistics, Boston University School of Public Health;|Institute for Biological Psychiatry, Sankt Hans Psychiatric Hospital, Roskilde, Denmark;|National Alzheimer's Coordinating Center, Department of Epidemiology, University of Washington;|Department of Radiology, University of California, San Diego;|Neurosciences, University of California, San Diego;|Department of Psychiatry, Washington University, St. Louis;|Department of Neurology, University of California, San Francisco;|0Department of Neurology, University of California, San Francisco;|The John P. Hussman Institute for Human Genomics, University of Miami;|Department of Epidemiology and Biostatistics and Institute for Computational Biology, Case Western;|Departments of Medicine, BU;|Department of Neurology, Taub Institute on Alzheimer's Disease and the Aging Brain, Columbia U.;|Department of Molecular Neuroscience, UCL Institute of Neurology;|Departments of Neuroscience, Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai;|Department of Neurology, Massachusetts General Hospital;|Department of Pathology and Laboratory Medicine, University of Pennsylvania Perelman School of Medic
http://dx.doi.org/10.1101/074583 2016-09-13 Evolutionary Biology CC BY-NC-ND The Impact of Migratory Flyways on the Spread of Avian Influenza Virus in North America Mathieu Fourment|Aaron E Darling|Edward C Holmes University of Technology Sydney;|University of Sydney
http://dx.doi.org/10.1101/074898 2016-09-13 Neuroscience CC BY Optokinetic nystagmus reflects perceptual directions in the onset binocular rivalry in Parkinson′s disease Mana Fujiwara|Catherine Ding|Lisandro Kaunitz|Julie C Stout|Dominic Thyagarajan|Naotsugu Tsuchiya Monash University, Araya Brain Imaging;|Monash Health;|Monash University, The University of Tokyo;|Monash University
http://dx.doi.org/10.1101/074815 2016-09-13 Epidemiology The Causal Effects of Education on Health, Mortality, Cognition, Well-being, and Income in the UK Biobank Neil M Davies|Matt Dickson|George Davey Smith|Gerard van den Berg|Frank Windmeijer University of Bristol;|University of Bath
http://dx.doi.org/10.1101/074054 2016-09-13 Genetics CC BY Evidence that low socioeconomic position accentuates genetic susceptibility to obesity Jess Tyrrell|Andrew R Wood|Ryan M Ames|Hanieh Yaghootkar|Robin Beaumont|Samuel E Jones|Marcus A Tuke|Katherine S Ruth|Rachel M Freathy|George Davey-Smith|Stephane Joost|Idris Guessous|Anna Murray|David P Strachan|Zoltan Kutalik|Michael N Weedon|Timothy M Frayling University of Exeter;|University of Bristol;|Ecole Polytechnique Federale de Lausanne (EPFL);|Geneva University Hospitals and University of Geneva;|University of London;|Lausanne University Hospital (CHUV)
http://dx.doi.org/10.1101/074476 2016-09-13 Genetics CC BY-NC-ND Na-Dene populations descend from the Paleo-Eskimo migration into America Pavel Flegontov|Nefize Ezgi Altinisik|Piya Changmai|Edward J Vajda|Johannes Krause|Stephan Schiffels Department of Biology and Ecology, Faculty of Science, University of Ostrava, Czech Republic;|Department of Modern and Classical Languages, Western Washington University, Bellingham, USA;|Department of Archaeogenetics, Max Planck Institute for the Science of Human History, Jena, Germany
http://dx.doi.org/10.1101/074880 2016-09-13 Neuroscience CC BY Distributed representation of context by intrinsic subnetworks in prefrontal cortex Michael L Waskom|Anthony D Wagner Stanford University
http://dx.doi.org/10.1101/076919 2016-09-23 Genomics Mapping protein function with CRISPR/Cas9-mediated mutagenesis Katherine F Donovan|Mudra Hegde|Meagan Sullender|Emma W Vaimberg|Cory M Johannessen|David E Root|John G Doench Broad Institute
http://dx.doi.org/10.1101/076992 2016-09-23 Bioinformatics CC BY-ND The Identification of a 1916 Irish Rebel: New Approach for Estimating Relatedness From Low Coverage Homozygous Genomes Daniel M Fernandes|Kendra Sirak|Mario Novak|John Finarelli|John Byrne|Edward Connolly|Jeanette Carlsson|Edmondo Ferretti|Ron Pinhasi|Jens Carlsson University College Dublin;|Emory University;|Institute for Anthropological Research Zagreb;|National Forensic Coordination Office Ireland;|Forensic Science Ireland
http://dx.doi.org/10.1101/076794 2016-09-23 Genomics CC BY-NC-ND Genomic analyses for age at menarche identify 389 independent signals and indicate BMI-independent effects of puberty timing on cancer susceptibility Felix Day|Deborah Thompson|Hannes Helgason|Daniel Chasman|Hilary Finucane|Patrick Sulem|Katherine Ruth|Sean Whalen|Abhishek Sarkar|Eva Albrecht|Elisabeth Altmaier|Marzyeh Amini|Caterina Barbieri|Thibaud Boutin|Archie Campbell|Ellen Demerath|Ayush Giri|Chunyan He|Jouke Hottenga|Robert Karlsson|Ivana Kolcic|Po-Ru Loh|Kathryn Lunetta|Massimo Mangino|Brumat Marco|Gerorge McMahon|Sarah Medland|Ilja Nolte|Raymond Noordam|Teresa Nutile|Lavinia Paternoster|Natalia Perjakova|Eleonora Porcu|Lynda Rose|Katharina Schraut|Ayellet Segre|Albert Smith|Lisette Stolk|Alexander Teumer|Irene Andrulis|Stefania Bandinelli|Matthias Beckmann|Javier Benitez|Sven Bergmann|Murielle Bochud|Eric Boerwinkle|Stig Bojesen|Manjeet Bolla|Judith Brand|Hiltrud Braunch|Hermann Brenner|Linda Broer|Thomas Bruning|Julie Buring|Harry Campbell|Eulalia Catamo|Stephen Chanock|Georgia Chenevix-Trench|Tanguy Corre|Fergus Couch|Diana Cousminer|Angela Cox|Laura Crisponi|Kamila Czene|George Davey-Smith|Eco de Geus|Renne de Mutsert|Immaculata De Vivo|Joe Dennis|Peter Devilee|Isabel dos-Santos-Silva|Alison Dunning|Johan Eriksson|Peter Fasching|Lindsay Fernandez-Rhodes|Luigi Ferrucci|Dieter Flesch-Janys|Lude Franke|Marike Gabrielson|Ilaria Gandin|Graham Giles|Harald Grallert|Daniel Gudbjartsson|Pascal Guenel|Per Hall|Emily Hallberg|Ute Hamann|Tamara Harris|Catharina Hartman|Gerardo Heiss|Maartje Hooning|John Hopper|Frank Hu|David Hunter|Arfan Ikram|Hae Kyung Im|Marjo-Riitta Jarvelin|Peter Joshi|David Karasik|Zoltan Kutalik|Genevieve LaChance|Diether Lambrechts|Claudia Langenberg|Lenore Launer|Joop Laven|Stefania Lenarduzzi|Jingmei Li|Penelope Lind|Sara Lindstrom|YongMei Liu|Jianan Luan|Reedik Magi|Arto Mannermaa|Hamdi Mbarek|Mark McCarthy|Christa Meisinger|Thomas Meitinger|Cristina Menni|Andres Metspalu|Kyriaki Michailidou|Lili Milani|Roger Milne|Grant Montgomery|Anna Mulligan|Mike Nalls|Pau Navarro|Heli Nevanlinna|Dale Nyholt|Albertine Oldehinkel|Tracy O'Mara|Sandosh Padmanabhan|Aarno Palotie|Nancy Pedersen|Annette Peters|Julian Peto|Paul Pharoah|Anneli Pouta|Paolo Radice|Iffat Rahman|Susan Ring|Antonietta Robino|Frits Rosendaal|Igor Rudan|Rico Rueedi|Daniela Ruggiero|Cinzia Sala|Marjanka Schmidt|Robert Scott|Mitul Shah|Rossella Sorice|Melissa Southey|Ulla Sovio|Meir Stampfer|Maristella Steri|Konstantin Strauch|Toshiko Tanaka|Emmi Tikkanen|Nicholas Timpson|Michela Traglia|Therese Truong|Jonathan Tyrer|Andre Uitterlinden|Digna Velez Edwards|Veronique Vitart|Uwe Volker|Peter Vollenweider|Qin Wang|Elisabeth Widen|Ko Willems van Dijk|Gonneke Willemsen|Robert Winqvist|Bruce Wolffenbuttel|Jing Hua Zhao|Magdalena Zoledziewska|Marek Zygmunt|Behrooz Alizadeh|Dorret Boomsma|Marina Ciullo|Francesco Cucca|Tonu Esko|Nora Franceschini|Christian Gieger|Vilmundur Gudnason|Caroline Hayward|Peter Kraft|Debbie Lawlor|Patrik Magnusson|Nicholas Martin|Dennis Mook-Kanamori|Ellen Nohr|Ozren Polasek|David Porteous|Alkes Price|Paul Ridker|Harold Snieder|Tim Spector|Doris Stockl|Daniela Toniolo|Sheila Ulivi|Jenny Visser|Henry Volzke|Nicholas Wareham|James Wilson|Amanda Spurdle|Unnur Thorsteinsdottir|Katherine Pollard|Douglas Easton|Joyce Tung|Jenny Chang-Claude|David Hinds|Anna Murray|Joanne Murabito|Kari Stefansson|Ken Ong|John Perry University of Cambridge;|deCODE genetics;|Brigham and Womens Hospital, Boston MA;|Harvard;|deCODE;|University of Exeter;|Gladstone Institutes;|MIT;|Helmholtz Zentrum Munchen;|University of Groningen;|IRCCS San Raffaele Scientific Institute;|University of Edinburgh;|Minnesotta University;|Vanderbilt University;|Indiana University;|Vrije Universiteit Amsterdam;|Karolinska Institutet;|University of Split;|Boston University;|Kings College London;|University of Trieste;|University of Bristol;|QIMR;|Leiden University;|Institute of Genetics and Biophysics - CNR;|University of Tartu;|Institute of Genetics and Biomedical Research, National Research Council, Cagliari;|Brigham and Womens Hospital;|Broad Institute;|Icelandic Heart Association;|Erasmus MC;|University Medicine Greifswald;|Lunenfeld-Tanenbaum Research Institute of Mount Sinai Hospital;|Azienda Sanitaria Firenze (ASF);|Friedrich-Alexander University Erlangen-Nuremberg;|Spanish National Cancer Research Centre;|University of Lausanne;|University of Texas;|Copenhagen University Hospital;|Dr. Margarete Fischer-Bosch-Institute of Clinical Pharmacology;|German Cancer Research Center (DKFZ);|Institute of the Ruhr University Bochum;|IRCCS Burlo Garofolo, Trieste;|National Cancer Institute, Bethesda;|Mayo Clinic, Rochester;|Children's Hospital of Philadelphia;|University of Sheffield;|National Research Council, Cagliari;|Harvard University;|Leiden University Medical Center;|London School of Hygiene and Tropical Medicine;|Helsinki University;|University Hospital Erlangen;|University of North Carolina;|National Institute on Aging;|University Medical Center Hamburg-Eppendorf;|Cancer Council Victoria, Melbourne;|University Paris-Sud;|The University of Melbourne;|Harvard Medical School;|University of Chicago;|Imperial College London;|Hebrew SeniorLife Institute for Aging Research, Boston;|Vesalius Research Center, VIB;|IRCCS Burlo Garofolo, Trieste, Italy;|University of Washington;|Wake Forest;|University of Eastern Finland;|University of Oxford;|Cancer Epidemiology Centre, Cancer Council Victoria, Melbourne;|University of Toronto;|University of Helsinki;|Queensland University of Technology;|University of Glasgow;|National Institute for Health and Welfare, Finland;|Istituto Nazionale dei Tumori (INT), Milan;|CNR, via Pietro Castellino 111, 80131, Naples;|Vita-Salute San Raffaele University;|The Netherlands Cancer Institute - Antoni van Leeuwenhoek Hospital;|NR, via Pietro Castellino 111, 80131, Naples;|National Research Council, Cagliari, Italy;|National Institute for Health and Welfare, Helsinki, Finland;|University Hospital of Lausanne;|Institute for Molecular Medicine Finland (FIMM);|University of Oulu;|MRC Epidemiology Unit;|University of Groningen, University Medical Center Groningen;|University of Southern Denmark;|Institute for Maternal and Child Health - IRCCS Burlo Garofolo;|23andMe Inc.;|23andMe Inc
http://dx.doi.org/10.1101/076935 2016-09-23 Immunology Biophysical Attributes of CpG Presentation Control TLR9 Signaling to Differentially Polarize Systemic Immune-Responses Jardin A Leleux|Pallab Pradhan|Krishnendu Roy Georgia Institute of Technology
http://dx.doi.org/10.1101/076976 2016-09-23 Plant Biology CC BY-NC-ND Host-induced gene silencing compromises Verticillium wilt in tomato and Arabidopsis Yin Song|Bart Thomma Wageningen University
http://dx.doi.org/10.1101/077065 2016-09-23 Genetics A structural variant in the 5′-flanking region of the TWIST2 gene affects melanocyte development in belted cattle Niveditha Awasthi Mishra|Cord Drogemuller|Vidhya Jagannathan|Remy Bruggmann|Julia Beck|Ekkehard Schutz|Bertram Brenig|Steffi Demmel|Simon Moser|Heidi Signer-Hasler|Aldona Pienkowska-Schelling|Claude Schelling|Ronald Rongen|Stefan Rieder|Robert N. Kelsh|Nadia Mercader|Tosso Leeb University of Bern;|Chronix Biomedical;|University of Göttingen;|Bern University of Applied Sciences;|University of Zurich;|Dutch Belted Cattle Association;|Agroscope;|University of Bath
http://dx.doi.org/10.1101/077107 2016-09-23 Neuroscience CC BY-NC-ND Detecting large-scale networks in the human brain using high-density electroencephalography Quanying Liu|Seyedehrezvan Farahibozorg|Camillo Porcaro|Nicole Wenderoth|Dante Mantini ETH Zurich;|University of Cambridge;|Fatebenefratelli Hospital
http://dx.doi.org/10.1101/076612 2016-09-23 Genetics CC BY Knock-In of a 25-Kilobase Pair BAC-Derived Donor Molecule by Traditional and CRISPR/Cas9-Stimulated Homologous Recombination Tiffany Leidy-Davis|Kai Cheng|Leslie Goodwin|Judith Morgan|Wen Chun Juan|Xavier Roca|Sin-Tiong Ong|David Bergstrom The Jackson Laboratory, Bar Harbor, ME 04609 USA;|Agency for Science, Technology and Research, Singapore;|Nanyang Technological University, Singapore;|Duke-NUS Medical School, Singapore
http://dx.doi.org/10.1101/077115 2016-09-23 Pharmacology CC BY-NC Harnessing Big Data for Systems Pharmacology Lei Xie|Eli Draizen|Philip Bourne Hunter College, CUNY;|Boston University and National Institute of Health;|National Institute of Helath
http://dx.doi.org/10.1101/077057 2016-09-23 Genomics Genome-wide changes in lncRNA, alternative splicing, and cortical patterning in autism Neelroop N Parikshak|Vivek Swarup|T Grant Belgard|Manuel Irimia|Gokul Ramaswami|Michael J. Gandal|Christopher Hartl|Virpi Leppa|Luis de la Torre Ubieta|Jerry Huang|Jennifer K Lowe|Benjamin J. Blencowe|Steve Horvath|Daniel H. Geschwind Program in Neurobehavioral Genetics, University of California, Los Angeles;|Department of Neurology, University of California at Los Angeles;|Department of Neurology, University of California, Los Angeles;|Barcelona Institute of Science and Technology;|Donnelly Centre, University of Toronto;|Department of Biostatistics, University of California, Los Angeles
http://dx.doi.org/10.1101/076869 2016-09-23 Ecology CC BY-NC-ND Identifying the Species Threat Hotspots from Global Supply Chains Daniel D Moran|Keiichiro Kanemoto Industrial Ecology / NTNU;|Shinshu University
http://dx.doi.org/10.1101/077073 2016-09-23 Bioinformatics CC BY-NC-ND Zipper plot: visualizing transcriptional activity of genomic regions Francisco Avila Cobos|Jasper Anckaert|Pieter-Jan Volders|Dries Rombaut|Jo Vandesompele|Katleen De Preter|Pieter Mestdagh Center for Medical Genetics, Ghent University, Ghent, Belgium
http://dx.doi.org/10.1101/076885 2016-09-23 Neuroscience Neuroprotective strategies for NMDAR-mediated excitotoxicity in Huntington's Disease Kimberly Dayle Girling|Yu Tian Wang University of British Columbia
http://dx.doi.org/10.1101/076893 2016-09-23 Cell Biology CC BY Comparative analysis of 2D and 3D distance measurements to study spatial genome organization Elizabeth Finn|Gianluca Pegoraro|Sigal Shachar|Tom Misteli National Cancer Institute, NIH
http://dx.doi.org/10.1101/077099 2016-09-23 Biophysics CC BY-ND NODDI-DTI: extracting neurite orientation and dispersion parameters from a diffusion tensor Luke J Edwards|Kerrin J Pine|Nikolaus Weiskopf|Siawoosh Mohammadi MPI for Human Cognitive and Brain Sciences;|Institut fuer Systemische Neurowissenschaften, Universitaetsklinikum Hamburg-Eppendorf
http://dx.doi.org/10.1101/077321 2016-09-25 Animal Behavior and Cognition CC BY-NC-ND Learning of speech categories in humans and Zebra finches Dimitrios Botskaris|Pralle Kriengwatana|Carel ten Cate Leiden University
http://dx.doi.org/10.1101/077354 2016-09-25 Microbiology Flow environment and matrix structure interact to determine spatial competition in Pseudomonas aeruginosa biofilms Carey Nadell|Deirdre Ricaurte|Jing Yan|Knut Drescher|Bonnie Bassler Max Planck Institute for Terrestrial Microbiology;|Princeton University
http://dx.doi.org/10.1101/077180 2016-09-25 Genetics Insights into the genetic epidemiology of Crohn's and rare diseases in the Ashkenazi Jewish population Manuel Antonio Rivas|Jukka Koskela|Hailiang Huang|Christine Stevens|Brandon E Avila|Talin Haritunians|Benjamin Neale|Mitja Kurki|Andrea Ganna|Daniel Graham|Benjamin Glaser|Inga Peter|Gil Atzmon|Nir Barzilai|Adam Levine|Elena Schiff|Nikolas Pontikos|Ben Weisburd|Konrad J Karczewski|Eric Minikel|Britt-Sabina Petersen|Laurent Beaugerie|Philippe Seksik|Jacques Cosnes|Stefan Schreiber|Bernd Bokemeyer|Johannes Bethge|Graham Heap|Tariq Ahmad|Vincent Plagnol|Anthony W Segal|Stephan Targan|Dan Turner|Paivi Saavalainen|Martti Farkkila|Kimmo Kontula|Matti Pirinen|Aarno Palotie|Steven R Brant|Richard H Duerr|Mark S Silverberg|John D Rioux|Rinse K Weersma|Andre Franke|Daniel G MacArthur|Chaim Jalas|Harry Sokol|Ramnik J Xavier|Ann Pulver|Judy H Cho|Dermot P.B. McGovern|Mark J. Daly Stanford University;|Broad Institute of MIT and Harvard;|Massachusetts General Hospital;|Cedars-Sinai Medical Center, Los Angeles, California;|Massachusetts general hospital;|Hadassah-Hebrew University Medical Center;|Icahn School of Medicine at Mount Sinai;|Albert Einstein College of Medicine;|University College London;|Analytic and Translational Genetics Unit;|Christian-Albrechts-University of Kiel;|Saint-Antoine Hospital;|University Hospital Schleswig-Holstein;|Gastroenterology Practice;|Royal Devon and Exeter NHS Trust;|Peninsula College of Medicine and Dentistry;|Cedars-Sinai Medical Center;|The Hebrew University of Jerusalem;|University of Helsinki;|Helsinki University Hospital;|Johns Hopkins University;|University of Pittsburgh School of Medicine;|Mount Sinai Hospital;|Montreal Heart Institute;|University Medical Center Groningen;|Center for Rare Jewish Genetic Disorders;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/077214 2016-09-25 Neuroscience Traumatic brain injury causes retention of long introns in metabolic genes via regulation of intronic Histone 3 lysine 36 methylation levels in the sub-acute phase of injury Arko Sen|Wen Wu|Oluwademi Okikiolu Nuga|Jenny Liu|Rayanne Burl|Katherine Gurdziel|Roger Pique-Regi|Maik Huttemann|Douglas M Ruden Wayne State University
http://dx.doi.org/10.1101/077123 2016-09-25 Genetics CC BY-NC-ND Cassava HapMap: Managing genetic load in a clonal crop species Punna Ramu|Williams Esuma|Robert Kawuki|Ismail Y Rabbi|Chiedozie Egesi|Jessen V Bredeson|Rebecca S S Bart|Edward S Buckler|Fei Lu Institute of Genomic Diversity, Cornell University;|National Crops Resources Research Institute (NaCRRI), Kampala, Uganda;|International Institute of Tropical Agriculture (IITA), Ibadan, Nigeria;|National Root Crops Research Institute (NRCRI), Umudike, Nigeria;|Department of Molecular and Cell Biology, University of California;|Donald Danforth Plant Science Center;|US Department of Agriculture, Agriculture Research Service
http://dx.doi.org/10.1101/077230 2016-09-25 Neuroscience CC BY-NC-ND Multidimensional stimulus-response correlation reveals supramodal neural responses to naturalistic stimuli Jacek Dmochowski|Jason Ki|Paul De Guzman|Paul Sajda|Lucas C Parra City College of New York;|Neuromatters LLC;|Columbia University
http://dx.doi.org/10.1101/077248 2016-09-25 Biophysics CC BY-NC-ND Lessons learned from comparing molecular dynamics engines on the SAMPL5 dataset Michael R. Shirts|Christoph Klein|Jason M. Swails|Jian Yin|Michael K. Gilson|David L. Mobley|David A. Case|Ellen D. Zhong Department of Chemical and Biological Engineering, University of Colorado Boulder, Boulder, Colorado;|Department of Chemical Engineering, Vanderbilt University, Nashville, TN, USA;|Department of Chemistry and Chemical Biology, Rutgers University, Rutgers, NJ, USA;|Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego, CA, USA;|Departments of Pharmaceutical Sciences and Chemistry, University of California, Irvine, Irvine, CA;|Department of Chemical Engineering, University of Virginia, Charlottesville, VA, USA
http://dx.doi.org/10.1101/077297 2016-09-25 Plant Biology CC BY-NC-ND Stomatal and physiological response of contrasting Z. mauritiana (Lamk.) clones to water stress. Manoj Kulkarni National Research Council
http://dx.doi.org/10.1101/077271 2016-09-25 Bioinformatics CC BY RIblast: An ultrafast RNA-RNA interaction prediction system for comprehensive lncRNA interaction analysis Tsukasa Fukunaga|Michiaki Hamada Waseda University
http://dx.doi.org/10.1101/077313 2016-09-25 Genomics CC BY-NC-ND Error rates, PCR recombination, and sampling depth in HIV-1 Whole Genome Deep Sequencing Fabio Zanini|Johanna Brodin|Jan Albert|Richard Neher Stanford University;|Department of Microbiology, Tumor and Cell Biology, Karolinska Institute;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/077289 2016-09-25 Plant Biology CC BY-NC-ND Reproductive biology of three Ziziphus species (Rhamnaceae) Manoj Kulkarni National Research Council
http://dx.doi.org/10.1101/077172 2016-09-25 Genomics CC BY Identifying Conserved Genomic Elements and Designing Universal Probe Sets To Enrich Them Brant C Faircloth Louisiana State University
http://dx.doi.org/10.1101/077024 2016-09-25 Neuroscience Time to wake up: Studying neurovascular coupling and brain-wide circuit function in the un-anesthetized animal Yu-Rong Gao|Yuncong Ma|Qingguang Zhang|Aaron T Winder|Zhifeng Liang|Lilith Antinori|Patrick J Drew|Nanyin Zhang The Pennsylvania State University
http://dx.doi.org/10.1101/077131 2016-09-25 Neuroscience CC BY Fixing the stimulus-as-fixed-effect fallacy in task fMRI Jacob Westfall|Thomas Nichols|Tal Yarkoni University of Texas at Austin;|University of Warwick
http://dx.doi.org/10.1101/075150 2016-09-25 Bioinformatics CC BY Enrich2: a statistical framework for analyzing deep mutational scanning data Alan F Rubin|Nathan Lucas|Sandra M Bajjalieh|Anthony T Papenfuss|Terence P Speed|Douglas M Fowler The Walter and Eliza Hall Institute of Medical Research;|University of Washington
http://dx.doi.org/10.1101/077677 2016-09-26 Molecular Biology In−silico studies of facilitated VEGF(s) − VEGFR(s) bindings for assessment of Lysine as an indirect Low−Mol−Wt angiogen: Experimental validation of a potential synthetic Low−Mol−Wt angiogen. PRIYANSHU VERMA|Aritri Bir|Anindita Banerjee|Joy Basu|Sujoy Kar|Sujoy Kumar Samanta|Debatosh Datta Indian Institute of Technology Patna;|ICARE Institute of Medical Sciences & Research, Haldia, India;|Apollo Gleneagles Hospital, Kolkata, India
http://dx.doi.org/10.1101/077396 2016-09-26 Neuroscience Mechanisms for Stable Bump Activity, Winner-Take-All and Group Selection in Neuronal Spiking Networks Yanqing Chen The Neurosciences Institute
http://dx.doi.org/10.1101/077560 2016-09-26 Microbiology CC BY-ND Treadmilling by FtsZ filaments drives peptidoglycan synthesis and bacterial cell division. Alexandre Wilson Bisson Filho|Yen-Pang Hsu|Georgia Squyres|Erkin Kuru|Fabai Wu|Calum Jukes|Cees Dekker|Seamus Holden|Michael VanNieuwenhze|Yves Brun|Ethan Garner Molecular and Cellular Biology (FAS) Center for Systems Biology, Harvard University;|Department of Molecular and Cellular Biochemistry, Indiana University;|Department of Bionanoscience, Kavli Institute of Nanoscience Delft, Delft University of Technology;|Centre for Bacterial Cell Biology, Institute for Cell and Molecular Biosciences, Newcastle Universit;|Department of Chemistry, Indiana University;|Department of Biology, Indiana University
http://dx.doi.org/10.1101/077594 2016-09-26 Evolutionary Biology CC BY-NC-ND The Opiliones Tree of Life: shedding light on harvestmen relationships through transcriptomics Rosa Fernandez|Prashant Sharma|Ana LM Tourinho|Gonzalo Giribet Harvard University;|University of Wisconsin - Madison;|Instituto Nacional de Pesquisas da Amazonia, Coordenacao de Biodiversidade (CBIO)
http://dx.doi.org/10.1101/077586 2016-09-26 Neuroscience Synaptic vesicle glycoprotein 2C (SV2C) modulates dopamine release and is disrupted in Parkinsons disease Amy R. Dunn|Kristen A. Stout|Minagi Ozawa|Kelly M. Lohr|Alison I. Bernstein|Yingjie Li|Minzheng Wang|Carmelo Sgobio|Namratha Sastry|Huaibin Cai|W. Michael Caudle|Gary W. Miller Emory University;|National Institutes of Health
http://dx.doi.org/10.1101/077388 2016-09-26 Biophysics Logistic proliferation of cells in scratch assays is delayed Wang Jin|Esha T Shah|Catherine J Penington|Scott W McCue|Philip K Maini|Matthew J Simpson Queensland Univeristy of Technology;|Queensland University of Technology;|University of Oxford
http://dx.doi.org/10.1101/077552 2016-09-26 Ecology CC BY-NC-ND A pyrethroid-treated bed net increases host attractiveness for Anopheles gambiae s.s carrying the kdr allele in a dual choice olfactometer Angelique Porciani|Malal Mamadou Diop|Nicolas Moiroux|Tatiana Kadoke-Lambi|Anna Cohuet|Fabrice Chandre|Laurent Dormont|Cedric Pennetier Institut de Recherche pour le Developpement (IRD);|CREC;|CNRS-CEFE
http://dx.doi.org/10.1101/077461 2016-09-26 Neuroscience CC BY-NC Variational Bayesian parameter estimation techniques for the general linear model Ludger Starke|Dirk Ostwald Freie Universitaet Berlin
http://dx.doi.org/10.1101/077636 2016-09-26 Systems Biology CC BY-ND Managing Uncertainty in Metabolic Network Structure and Improving Predictions Using EnsembleFBA Matthew Biggs|Jason A Papin University of Virginia
http://dx.doi.org/10.1101/077545 2016-09-26 Bioengineering CC BY-ND An Electrochemistry Study of Cryoelectrolysis in Frozen Physiological Saline Thomas J. Manuel|Pujita Munnangi|Boris Rubinsky Mississippi State University;|University of California, Berkeley
http://dx.doi.org/10.1101/077537 2016-09-26 Ecology CC BY-ND Scrounging by foragers can resolve the paradox of enrichment Wataru Toyokawa University of St Andrews
http://dx.doi.org/10.1101/077578 2016-09-26 Genetics CC BY-NC-ND Contribution of de novo non-coding mutations to autism and identification of risk genes from whole-genome sequencing of affected families Yuwen Liu|A. Ercument Cicek|Yanyu Liang|Jinchen Li|Rebecca A Muhle|Nicholas Knoblauch|Martina Krenzer|Yue Mei|Yan Wang|Yi Jiang|Even Geller|Zhongshan Li|Iuliana Ionita-Laza|Jinyu Wu|Kun Xia|James P Noonan|Zhong Sheng Sun|Xin He University of Chicago;|Bilking University;|Carnegie Mellon University;|Chinese Academy of Sciences;|Yale School of Medicine;|The University of Chicago;|Wenzhou Medical University;|Columbia University;|Central South University;|Chinese academy of Sciences
http://dx.doi.org/10.1101/077404 2016-09-26 Genetics A fast multi-locus random-SNP-effect EMMA for genome-wide association studies Yang-Jun Wen|Hanwen Zhang|Jin Zhang|Jian-Ying Feng|Bo Huang|Jim M. Dunwell|Yuan-Ming Zhang|Rongling Wu Nanjing Agricultural University;|The University of British Columbia;|University of Reading;|Huazhong Agricultural University;|The Pennsylvania State University
http://dx.doi.org/10.1101/077511 2016-09-26 Bioinformatics Glutton: large-scale integration of non-model organism transcriptome data for comparative analysis Alan Medlar|Laura Laakso|Andreia Miraldo|Ari Loytynoja Institute of Biotechnology, University of Helsinki;|Center for Macroecology and Evolution, University of Copenhagen
http://dx.doi.org/10.1101/077487 2016-09-26 Immunology CC BY-NC ImSig: A resource for the identification and quantification of immune signatures in blood and tissue transcriptomics data Ajit Johnson Nirmal|Tim Regan|Barbara Bo-Ju Shih|David Arthur Hume|Andrew Harvey Sims|Tom Charles Freeman The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh;|Edinburgh Cancer Research Centre, Institute of Genetics & Molecular Medicine, Univ of Edinburgh
http://dx.doi.org/10.1101/077503 2016-09-26 Bioinformatics Co-estimation of Phylogeny-aware Alignment and Phylogenetic Tree Chunxiang Li|Alan Medlar|Ari Loytynoja Institute of Biotechnology, University of Helsinki
http://dx.doi.org/10.1101/077412 2016-09-26 Molecular Biology CC BY-NC-ND The Mstncmpt-Dl1abc mutation impairs secretion of promyostatin Viktor Vasarhelyi|Maria Trexler|Laszlo Patthy Institute of Enzymology, Research Centre for Natural Sciences
http://dx.doi.org/10.1101/077263 2016-09-26 Neuroscience CC BY-NC-ND Brain oscillations and connectivity in autism spectrum disorders (ASD): new approaches to methodology, measurement and modelling Klaus Kessler|Robert Al Seymour|Gina Rippon Aston University
http://dx.doi.org/10.1101/077933 2016-09-27 Cell Biology CC BY-NC-ND Interaction between distinct pools controls activity-dependent actin dynamics in the dendritic spine Oleg O. Glebov|Juan Burrone King's College London;|Department of Developmental Neurobiology, King's College London
http://dx.doi.org/10.1101/077891 2016-09-27 Neuroscience CC BY-NC-ND Developmental dysfunction of VIP interneurons impairs cortical circuits Renata Batista-Brito|Martin Vinck|Katie Ferguson|David Laubender|Gyorgy Lur|Michael Higley|Jessica A Cardin Yale University
http://dx.doi.org/10.1101/077941 2016-09-27 Genomics CC BY "Same Difference": Comprehensive evaluation of three DNA methylation measurement platforms. Thadeous J Kacmarczyk|Mame P Fall|Xihui Zhang|Yuan Xin|Yushan Li|Alicia Alonso|Doron Betel Weill Cornell Medicine
http://dx.doi.org/10.1101/077909 2016-09-27 Biophysics Spatially periodic calcium profiles around single channels Sergej Mironov Georg-August-University
http://dx.doi.org/10.1101/077818 2016-09-27 Genomics CC BY-ND Transcriptional regulatory logic of the diurnal cycle in the mouse liver Jonathan Aryeh Sobel|Irina Krier|Teemu Andersin|Sunil Raghav|Donatella Canella|Federica Gilardi|Alexandra Styliani Kalantzi|Guillaume Rey|Benjamin Weger|Frederic Gachon|Matteo Dal Peraro|Nouria Hernandez|Ueli Schibler|Bart Deplancke|Felix Naef Institute of Bioengineering, School of Life Sciences, Ecole Polytechnique Federale de Lausanne;|Department of Molecular Biology, University of Geneva;|Center for Integrative Genomics, Faculty of Biology and Medicine, University of Lausanne;|Department of Diabetes and Circadian Rhythms, Nestle Institute of Health Sciences
http://dx.doi.org/10.1101/077727 2016-09-27 Genomics CC BY-NC-ND Genome-wide profiling of heritable and de novo STR variations Thomas Willems|Dina Zielinski|Assaf Gordon|Melissa Gymrek|Yaniv Erlich MIT;|New York Genome Center;|University of California, San Diego
http://dx.doi.org/10.1101/077859 2016-09-27 Neuroscience CC BY The hemodynamic signal as a first-order low-pass temporal filter: Evidence and implications for neuroimaging studies Antoine Sauvage|Guillaume Hubert|Jonathan Touboul|Jerome Ribot CIRB - College de France
http://dx.doi.org/10.1101/077883 2016-09-27 Developmental Biology CC BY-NC-ND PCR artifact in testing for homologous recombination in genomic editing in zebrafish Minho Won|Igor B Dawid Chungnam National University, Daejeon, Korea;|NIH, Bethesda MD, USA
http://dx.doi.org/10.1101/077966 2016-09-27 Bioinformatics CC BY-NC-ND Data-driven identification of potential Zika virus vectors Michelle Evans|Tad A Dallas|Barbara A Han|Courtney C Murdock|John M Drake University of Georgia;|University of California-Davis;|Cary Institute of Ecosystem Studies
http://dx.doi.org/10.1101/077784 2016-09-27 Neuroscience CC BY-NC-ND Resting high frequency heart rate variability is not associated with the recognition of emotional facial expressions in healthy human adults. Brice Beffara|Nicolas Vermeulen|Martial Mermillod Grenoble Alpes University, CNRS, France and UCLouvain, Belgium;|UCLouvain, FNRS, Belgium;|Grenoble Alpes University, CNRS, France
http://dx.doi.org/10.1101/077867 2016-09-27 Genomics CC BY DNA Compass: a secure, client-side site for navigating personal genetic information Charles Curnin|Assaf Gordon|Yaniv Erlich New York Genome Center;|New York Genome Center/Columbia University
http://dx.doi.org/10.1101/077628 2016-09-27 Epidemiology CC BY-ND Prevalence of Zika virus infection in wild African primates Connor R Buechler|Adam L Bailey|Andrea M Weiler|Gabrielle L Barry|Anna J Jasinska|Nelson B Freimer|Cristian Apetrei|Jane E Phillips-Conroy|Clifford J Jolly|Jeffrey Rogers|Thomas C Friedrich|David H O'Connor University of Wisconsin-Madison and Wisconsin National Primate Research Center;|Wisconsin National Primate Research Center;|University of California-Los Angeles;|University of Pittsburgh;|Washington University School of Medicine and Washington University, St. Louis;|New York University;|Baylor College of Medicine
http://dx.doi.org/10.1101/077776 2016-09-27 Epidemiology CC BY-ND Modelling the impact of curtailing antibiotic usage in food animals on antibiotic resistance in humans Bram van Bunnik|Mark Woolhouse University of Edinburgh
http://dx.doi.org/10.1101/077826 2016-09-27 Evolutionary Biology The genetic basis and fitness consequences of sperm midpiece size in deer mice Heidi S Fisher|Emily Jacobs-Palmer|Jean-Marc Lassance|Hopi E Hoekstra University of Maryland;|Harvard University;|Howard Hughes Medical Institute and Harvard University
http://dx.doi.org/10.1101/077305 2016-09-27 Microbiology Human Endometrial Stromal Cells Are Highly Permissive To Productive Infection by Zika Virus Isabel Pagani|Silvia Ghezzi|Adele Ulisse|Alicia Rubio|Filippo Turrini|Elisabetta Garavaglia|Massimo Candiani|Concetta Castilletti|Giuseppe Ippolito|Guido Poli|Vania Broccoli|Paola Panina-Bordignon|Elisa Vicenzi San Raffaele Scientific Institute;|San Raffaele Scientific Institute and Vita-Salute San Raffaele University;|National Institute for Infectious Diseases Lazzaro Spallanzani;|National Research Council
http://dx.doi.org/10.1101/077719 2016-09-27 Neuroscience CC BY-ND Change-point detection without needing to detect change-points? Chaitanya K Ryali|Angela J Yu UC San Diego
http://dx.doi.org/10.1101/077701 2016-09-27 Bioinformatics CC BY-NC-ND Population-level characterization of pathway alterations with SLAPenrich dissects heterogeneity of cancer hallmark acquisition Francesco Iorio|Luz Garcia-Alonso|Jonathan Brammeld|Inigo Martincorena|David R Wille|Ultan McDermott|Julio Saez-Rodriguez EMBL - European BIoinformatics Institute;|Wellcome Trust Sanger Institute;|GlaxoSmithKline;|RWTH Aachen University
http://dx.doi.org/10.1101/077834 2016-09-27 Neuroscience When the Good Guy Becomes the Bad Boy: Social Information Modulates the Neural, Physiological and Subjective Responses to Emotional Facial Expressions Martial Mermillod|Delphine Grynberg|Brice Beffara|Magdalena Rychlowska|Leo Lopez|Nicolas Vermeulen|Paula Niedenthal|Sylvie Droit-Volet Univ. Grenoble Alpes, LPNC, F-38000 Grenoble, France & CNRS, LPNC, F-38000 Grenoble, France;|SCALab, CNRS UMR 9193, 59653 Villeneuve d'Ascq, France;|University Blaise Pascal;|IPSY, University Catholique de Louvain, Louvain-la-Neuve, Belgium;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/077651 2016-09-27 Genomics CC BY-NC-ND Nanopore DNA Sequencing and Genome Assembly on the International Space Station Sarah L Castro-Wallace|Charles Y Chiu|Kristen K John|Sarah E Stahl|Kathleen H Rubins|Alexa B. R. McIntyre|Jason P Dworkin|Mark L Lupisella|David J Smith|Douglas J Botkin|Timothy A Stephenson|Sissel Juul|Daniel J Turner|Fernando Izquierdo|Scot Federman|Doug Stryke|Sneha Somasekar|Noah Alexander|Guixia Yu|Christopher Mason|Aaron S Burton NASA Johnson Space Center;|University of California, San Francisco;|USRA/NASA Johnson Space Center;|Wyle / NASA Johnson Space Center;|Weill Cornell Medical College;|NASA Goddard Space Flight Center;|NASA Ames Research Center;|formerly Wyle / NASA Johnson Space Center;|Oxford Nanopore Technologies;|University of California at San Francisco
http://dx.doi.org/10.1101/077750 2016-09-27 Bioinformatics CC BY-ND SuperTranscript: a reference for analysis and visualization of the transcriptome Anthony DK Hawkins|Alicia Oshlack|Nadia Davidson Murdoch Childrens Research Institute;|Murdoch Childrens Research Insitute
http://dx.doi.org/10.1101/077800 2016-09-27 Biophysics CC BY-NC-ND Real-time observation of replicative helicase assembly onto single-stranded DNA David Dulin|Zhongbo Yu|Tao Ju Cui|Bojk A Berghuis|Martin Depken|Nynke H. Dekker IZKF Junior Research Group, Interdisciplinary Center for Clinical Research, Friedrich-Alexander-Univ;|The State Key Laboratory of Medicinal Chemical Biology, College of Pharmacy, Nankai University;|Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology
http://dx.doi.org/10.1101/077743 2016-09-27 Biophysics Co-operation, competition and crowding: a discrete framework linking Allee kinetics, nonlinear diffusion, shocks and sharp-fronted travelling waves Stuart Johnston|Ruth Baker|Sean McElwain|Matthew Simpson QUT;|University of Oxford
http://dx.doi.org/10.1101/077610 2016-09-26 Microbiology CC BY-NC-ND GTPase activity-coupled treadmilling of the bacterial tubulin FtsZ organizes septal cell-wall synthesis Xinxing Yang|Zhixin Lyu|Amanda Miguel|Ryan McQuillen|Kerwyn Kerwyn Casey Huang|Jie Xiao Johns Hopkins University;|Stanford University
http://dx.doi.org/10.1101/077669 2016-09-26 Cell Biology CC BY-NC-ND The appressorium of Magnaporthe oryzae remains mitotically active during post-penetration hyphal growth in rice cells Kiersun Jones|Cory B Jenkinson|Jie Zhu|Sara Dorhmi|Chang Hyun Khang University of Georgia
http://dx.doi.org/10.1101/077693 2016-09-26 Cell Biology CC BY-NC-ND Nuclear and structural dynamics during the establishment of a specialized effector-secreting cell by Magnaporthe oryzae in living rice cells Emma N. Shipman|Kiersun Jones|Cory B. Jenkinson|Dong Won Kim|Jie Zhu|Chang Hyun Khang University of Georgia
http://dx.doi.org/10.1101/077685 2016-09-26 Neuroscience CC BY Control without controllers: Towards a distributed neuroscience of executive control Benjamin Eisenreich|Rei Akaishi|Benjamin Hayden University of Rochester
http://dx.doi.org/10.1101/078048 2016-09-28 Bioinformatics CC BY-ND pyMAP: a Python package for small and large scale analysis of Illumina 450k methylation platform Amin Mahpour Roswell Park Cancer Institute
http://dx.doi.org/10.1101/078097 2016-09-28 Neuroscience CC BY-NC-ND A Rapid Subcortical Amygdala Route for Faces Irrespective of Spatial Frequency and Emotion Jessica McFadyen|Martial Mermillod|Jason Mattingley|Veronika Halasz|Marta Garrido University of Queensland;|Universite Grenoble Alpes
http://dx.doi.org/10.1101/077917 2016-09-28 Molecular Biology CC BY-NC-ND AN INTERNATIONAL INTER-LABORATORY DIGITAL PCR STUDY DEMONSTRATES HIGH REPRODUCIBILITY FOR THE MEASUREMENT OF A RARE SEQUENCE VARIANT Alexandra S Whale|Alison S Devonshire|George Karlin-Neumann|Jack Regan|Leanne Javier|Simon Cowen|Ana Fernandez-Gonzalez|Gerwyn M Jones|Nicholas Redshaw|Julia Beck|Andreas W Berger|Valerie Combaret|Nina Dahl Kjersgaard|Lisa Davis|Frederic Fina|Tim Forshew|Rikke Fredslund Andersen|Silvia Galbiati|Alvaro Gonzalez Hernandez|Charles Haynes|Filip Janku|Roger Lacave|Justin Lee|Vilas Mistry|Alexandra Pender|Anne Pradines|Charlotte Proudhon|Lao Saal|Elliot Stieglitz|Bryan Ulrich|Carole A Foy|Helen Parkes|Svilen Tzonev|Jim Huggett LGC;|Bio-Rad;|Chronix Biomedical;|Universitatsklinikum Ulm;|Centre Leon Berard;|Roskilde Sygehus;|Genoptix;|Faculte de medecine Nord;|UCL;|Vejle Hospital;|San Raffaele Scientific Institute;|Clinica Universidad de Navarra;|University of British Columbia;|MD Anderson Cancer Center;|Hopital Tenon-APHP;|Johns Hopkins;|University of Leicester;|ICR;|Institut Claudius Regaud;|Institut Curie;|Lund University;|UCSF;|Dana Farber Cancer Institute
http://dx.doi.org/10.1101/077792 2016-09-28 Cell Biology Actomyosin Contractility Drives Bile Regurgitation as an Early Homeostatic Response to Increased Biliary Pressure in Obstructive Cholestasis Kapish Gupta|Qiushi Li|Junjun Fan|Eliza Li Shan Fong|Ziwei Song|Shupei Mo|Haoyu Tang|Inn Chuan Ng|Chan Way Ng|Pornteera Pawijit|Shuangmu Zhuo|Chen-Yuan Dong|Boon Chuan Low|Aileen Wee|Yock Young Dan|Pakorn Kanchanawong|Peter So|Virgile Viasnoff|Hanry Yu Mechanobiology Institute, National University of Singapore, Singapore;|Institute of Bioengineering and Nanotechnology, Agency for Science, Technology and Research (A*STAR);|Department of Physiology, National University of Singapore, Singapore;|NUS Graduate School of Integrative Sciences and Engineering, National University of Singapore;|Fujian Normal University, Fuzhou, Fujian, China;|Department of Physics, National Taiwan University, Taiwan;|Department of Biological Sciences, National University of Singapore;|Department of Pathology, National University of Singapore, Singapore;|Division of Gastroenterology and Hepatology, National University Hospital, Singapore;|BioSyM, Singapore-MIT Alliance for Research and Technology, Singapore;|National University of Singapore
http://dx.doi.org/10.1101/078055 2016-09-28 Neuroscience Theta Oscillations in the Human Medial Temporal Lobe during Real World Ambulatory Movement Zahra M. Aghajan|Peter Schuette|Tony Fields|Michelle Tran|Sameed Siddiqui|Nick Hasulak|Thomas K Tcheng|Dawn Eliashiv|John Stern|Itzhak Fried|Nanthia Suthana University of California, Los Angeles;|NeuroPace, Inc., Mountain View, CA
http://dx.doi.org/10.1101/078006 2016-09-28 Neuroscience CC BY-NC-ND Can we test the influence of prosociality on high frequency heart rate variability? A double-blind sham-controlled approach. Brice Beffara|Martial Mermillod|Nicolas Vermeulen Grenoble Alpes University, CNRS, France, and UCLouvain, Belgium;|Grenoble Alpes University, CNRS, France;|UCLouvain, FNRS, Belgium
http://dx.doi.org/10.1101/077958 2016-09-28 Evolutionary Biology CC BY-NC-ND Approximate Likelihood Inference of Complex Population Histories and Recombination from Multiple Genomes Champak Beeravolu Reddy|Michael J. Hickerson|Laurent A.F. Frantz|Konrad Lohse The City College of New York;|University of Oxford;|University of Edinburgh
http://dx.doi.org/10.1101/078014 2016-09-28 Genetics Educational attainment and personality are genetically intertwined Rene Mottus|Anu Realo|Uku Vainik|Juri Allik|Tonu Esko University of Edinburgh;|University of Warwick;|McGill University;|University of Tartu;|Broad Institute
http://dx.doi.org/10.1101/077644 2016-09-28 Neuroscience CC BY-NC-ND A gunshot approach to identify mechanical nociception genes with a high throughput behavioral assay. Melissa G Christianson|Stephanie E. Mauthner|Dan Tracey Duke University Medical Center;|University of Indiana, Bloomington;|Indiana University Bloomington
http://dx.doi.org/10.1101/078279 2016-09-28 Evolutionary Biology CC BY A phylogenetic codon substitution model for antibody lineages Kenneth Hoehn|Gerton Lunter|Oliver Pybus University of Oxford, United Kingdom;|Oxford University, United Kingdom
http://dx.doi.org/10.1101/078246 2016-09-28 Bioinformatics CC BY-ND Predicting Protein Thermostability Upon Mutation Using Molecular Dynamics Timeseries Data Noah Fleming|Benjamin Kinsella|Christopher Ing University of Toronto
http://dx.doi.org/10.1101/078063 2016-09-28 Bioinformatics Case study: Paralog diverged features may help reduce off-target effects of drugs Zhining Sa|Jingqi Zou|Yangyun Zou|Xun Gu Fudan University;|Iowa State University
http://dx.doi.org/10.1101/078196 2016-09-28 Cell Biology CC BY-NC Protein Kinase C and the stress response pathways are required for kinetochore homeostasis. Elena Ledesma-Fernandez|Eva Herrero|Gujon Olafsson|Peter Thorpe MRC Laboratory for Molecular Cell Biology, University College London;|The Francis Crick Institute
http://dx.doi.org/10.1101/078162 2016-09-28 Molecular Biology CC BY-NC-ND A Pif1-dependent threshold separates DNA double-strand breaks and telomeres Daniel Durocher|Jonathan Strecker The Lunenfeld-Tanenbaum Research Institute
http://dx.doi.org/10.1101/078188 2016-09-28 Genetics CC BY-ND Purifying selection provides buffering of the natural variation co-expression network in a forest tree species Niklas Mahler|Barbara K Terebieniec|Jing Wang|Par K Ingvarsson|Nathaniel R Street|Torgeir R Hvidsten Umeå University;|Norwegian University of Life Sciences
http://dx.doi.org/10.1101/078113 2016-09-28 Biophysics Unique properties of Zika NS2B-NS3pro complexes as decoded by experiments and MD simulations Amrita Roy|Liangzhong Lim|Shagun Srivastava|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/078170 2016-09-28 Microbiology CC BY Evolutionary and Functional Implications of Hypervariable Loci Within the Skin Virome Geoffrey D Hannigan|Qi Zheng|Jacquelyn S Meisel|Samuel Minot|Frederick D Bushman|Elizabeth A Grice University of Pennsylvania;|One Codex
http://dx.doi.org/10.1101/078220 2016-09-28 Ecology CC BY-NC-ND Assessing the Relationship Between Vegetation Structure and Harvestmen Assemblage in an Amazonian Upland Forest Pio Colmenares|Fabricio B. Baccaro|Ana Lucia Tourinho Instituto Nacional de Pesquisas da Amazonia;|Universidade Federal do Amazonas;|Harvard University
http://dx.doi.org/10.1101/078212 2016-09-28 Bioinformatics CC BY-NC Automated Incorporation of Pairwise Dependency in Transcription Factor Binding Site Prediction Using Dinucleotide Weight Tensors Saeed Omidi|Erik van Nimwegen Unversity of Basel;|Biozentrum, University of Basel
http://dx.doi.org/10.1101/078147 2016-09-28 Biochemistry CC BY Proper modelling of ligand binding requires an ensemble of bound and unbound states Nicholas M Pearce|Frank von Delft University of Oxford
http://dx.doi.org/10.1101/077990 2016-09-28 Bioinformatics CC BY-NC Variant Set Enrichment: An R package to Identify Dis-ease-Associated Functional Genomic Regions Musaddeque Ahmed|Richard C Sallari|Haiyang Guo|Jason H Moore|Housheng Hansen He|Mathieu Lupien Princess Margaret Cancer Centre, University Health Network, Toronto, ON, Canada;|Massachusetts Institute of Technology (MIT), Cambridge, MA, USA;|Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USA;|Ontario Cancer Institute
http://dx.doi.org/10.1101/078030 2016-09-28 Biophysics Composition fluctuations in lipid bilayers Svetlana Baoukina|Dmitri Rozmanov|D. Peter Tieleman University of Calgary
http://dx.doi.org/10.1101/069005 2016-09-29 Cell Biology CC BY-NC-ND Modeling of axonal endoplasmic reticulum network by spastic paraplegia proteins Belgin Yalcn|Lu Zhao|Martin Stofanko|Niamh C O'Sullivan|ZiHan Kang|Sophie Zaessinger|Alex L Patto|Valentina Baena|Mark Terasaki|Cahir J. O'Kane University of Cambridge;|University of Connecticut Health Center
http://dx.doi.org/10.1101/077875 2016-09-29 Neuroscience CC BY-NC An odor delivery system for arbitrary time-varying patterns of odors, mixtures and concentrations Priyanka Gupta|Dinu F Albeanu|Upinder S Bhalla Cold Spring Harbor Laboratory;|National Center for Biological Sciences
http://dx.doi.org/10.1101/077974 2016-09-29 Neuroscience CC BY Multiresolution functional brain parcellation in an elderly population with no or mild cognitive impairment Angela Tam|Christian Dansereau|AmanPreet Badhwar|Pierre Orban|Sylvie Belleville|Howard Chertkow|Alain Dagher|Alexandru Hanganu|Oury Monchi|Pedro Rosa-Neto|Amir Shmuel|John Breitner|Pierre Bellec McGill University;|University of Montreal;|Centre de recherche de l'institut universitaire de geriatrie de Montreal
http://dx.doi.org/10.1101/078352 2016-09-29 Biophysics CC BY A pipeline approach to single-particle processing in RELION Rafael Fernandez-Leiro|Sjors Scheres MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/078204 2016-09-29 Cell Biology CC BY-NC-ND Myosin II controls junction fluctuations to guide epithelial tissue ordering Scott Curran|Charlotte Strandkvist|Jasper Bathmann|Marc de Gennes|Alexandre Kabla|Guillaume Salbreux|Buzz Baum MRC Laboratory of Molecular Cell Biology, UCL, London, UK;|The Francis Crick Institute, London, UK;|Department of Chemical Engineering, University of Cambridge, Cambridge, UK
http://dx.doi.org/10.1101/078675 2016-09-30 Evolutionary Biology CC BY-NC-ND Combining phenotypic and genomic approaches reveals no evidence for adaptation to the local mutualist in Medicago lupulina Tia Harrison|Corlett Wood|Isabela Borges|John Stinchcombe University of Toronto
http://dx.doi.org/10.1101/078683 2016-09-30 Genomics CC BY-NC-ND Identifying cis-mediators for trans-eQTLs across many human tissues using genomic mediation analysis Fan Yang|Jiebiao Wang|Brandon L. Pierce|Lin S. Chen University of Chicago
http://dx.doi.org/10.1101/078626 2016-09-30 Biophysics CC BY-NC-ND Kinematics of the Lever Arm Swing in Myosin VI Mauro Mugnai|Dave Thirumalai The University of Texas at Austin
http://dx.doi.org/10.1101/078717 2016-09-30 Bioinformatics CC BY-NC Quantifying the regulatory effect size of cis-acting genetic variation using allelic fold change Pejman Mohammadi|Stephane E Castel|Andrew A Brown|Tuuli Lappalainen New York Genome Center, and Columbia University, New York, NY;|Institute for Genetics and Genomics in Geneva (iGE3), University of Geneva, Geneva, Switzerland
http://dx.doi.org/10.1101/078469 2016-09-30 Bioinformatics CC BY Real-time tagging of biomedical entities Evangelos Pafilis|Lars Juhl Jensen Hellenic Centre for Marine Research (HCMR);|University of Copenhagen
http://dx.doi.org/10.1101/078600 2016-09-30 Genetics CC BY-ND Quality control analysis of the 1000 Genomes Project Omni2.5 genotypes Nicole Roslin|Weili Li|Andrew D. Paterson|Lisa J. Strug Hospital for Sick Children;|The Centre for Applied Genomics, The Hospital for Sick Children;|The Hospital for Sick Children and University of Toronto
http://dx.doi.org/10.1101/077222 2016-09-30 Genetics Han Chinese males with surnames related to the legendary Huang and Yan Emperors are enriched for the top two Neolithic super-grandfather Y chromosomes O3a2c1a and O3a1c, respectively Pei He|Zhengmao Hu|Zhobin Zhu|Kun Xia|Shi Huang Central South University
http://dx.doi.org/10.1101/078642 2016-09-30 Bioinformatics CC BY-NC-ND Comparing multi- and single-sample variant calls to improve variant call sets from deep coverage whole-genome sequencing data Suyash S. Shringarpure|Rasika A. Mathias|Ryan D Hernandez|Timothy D. O'Connor|Zachary A. Szpiech|Raul Torres|Francisco M. De La Vega|Carlos D. Bustamante|Kathleen C. Barnes|Margaret A. Taub Stanford University;|Johns Hopkins University;|University of California San Francisco;|University of Maryland;|University of Colorado Denver
http://dx.doi.org/10.1101/078360 2016-09-30 Genetics CC BY-NC-ND Familial migration of the Neolithic contrasts massive male migration during Bronze Age in Europe inferred from ancient X chromosomes Amy Goldberg|Torsten Gunther|Noah A Rosenberg|Mattias Jakobsson Stanford University;|Uppsala University
http://dx.doi.org/10.1101/078634 2016-09-30 Bioinformatics A Machine Learning-based Framework to Identify Type 2 Diabetes through Electronic Health Records Tao Zheng|Wei Xie|Liling Xu|Xiaoying He|Ya Zhang|Mingrong You|Gong Yang|You Chen Shanghai Jiao Tong University; Tongren Hospital Shanghai Jiao Tong University, Shanghai, China;|Vanderbilt University, Nashville, TN, USA;|Tongren Hospital Shanghai Jiao Tong University, Shanghai, China;|The First Affiliated Hospital of Sun Yat-Sen University, Guangzhou, China;|Shanghai Jiao Tong University, Shanghai, China
http://dx.doi.org/10.1101/078618 2016-09-30 Evolutionary Biology CC BY-NC-ND Accuracy of demographic inferences from Site Frequency Spectrum: The case of the Yoruba population Marguerite Lapierre|Amaury Lambert|Guillaume Achaz Muséum National d'Histoire Naturelle;|Université Paris 06
http://dx.doi.org/10.1101/078584 2016-09-30 Evolutionary Biology CC BY Comparative analysis of variation and selection in the HCV genome Juan Angel Patino Galindo|Fernando Gonzalez Candelas Unidad Mixta Infeccion y Salud Publica FISABIO CSISP Universitat de Valencia, Instituto Cavanilles
http://dx.doi.org/10.1101/078329 2016-09-30 Genetics CC BY-NC-ND Mito-nuclear Incompatibilities and Mitochondrial Replacement Therapy Adam Eyre-Walker University of Sussex
http://dx.doi.org/10.1101/078261 2016-09-30 Genomics CC BY-ND MUMdex: MUM-based structural variation detection Peter A Andrews|Ivan Iossifov|Jude Kendall|Steven Marks|Lakshmi Muthuswamy|Zihua Wang|Dan Levy|Michael Wigler Cold Spring Harbor Laboratory;|New York Genome Center
http://dx.doi.org/10.1101/078519 2016-09-30 Cell Biology CC BY-ND Mitochondrial DNA Density Homeostasis Accounts for the Threshold Effect in Human Mitochondrial Disease Juvid Aryaman|Iain G Johnston|Nick S Jones Imperial College London;|University of Birmingham
http://dx.doi.org/10.1101/078428 2016-09-30 Evolutionary Biology CC BY-NC-ND Quantifying the evolutionary potential and constraints of a drug-targeted viral protein Lei Dai|Yushen Du|Hangfei Qi|Nicholas C Wu|James O Lloyd-Smith|Ren Sun University of California, Los Angeles
http://dx.doi.org/10.1101/078451 2016-09-30 Genomics CC BY-NC-ND Quantitative Seq-LGS: Genome-Wide Identification of Genetic Drivers of Multiple Phenotypes in Malaria Parasites Hussein Abkallo|Axel Martinelli|Megumi Inoue|Abhinay Ramaprasad|Phonepadith Xangsayarath|Jesse Gitaka|Jianxia Tang|Kazuhide Yahata|Augustin Zoungrana|Hayato Mitaka|Paul Hunt|Richard Carter|Osamu Kaneko|Ville Mustonen|Christopher JR Illingworth|Arnab Pain|Richard Culleton Edinburgh University;|Hokkaido University;|Nagasaki University;|King Abdullah University of Science and Technology;|National Institute of Public Health, Lao PDR;|Mount Kenya University, Thika, Kenya;|Jiangsu Institute of Parasitic Diseases;|Wellcome Trust Sanger Centre;|Cambridge University
http://dx.doi.org/10.1101/078394 2016-09-30 Plant Biology CC BY-NC-ND AGO4 is specifically required for heterochromatic siRNA accumulation at Pol V-dependent loci in Arabidopsis thaliana Feng Wang|Michael J Axtell Penn State University
http://dx.doi.org/10.1101/078378 2016-09-30 Bioinformatics Estimating the timing of multiple admixture events using 3-locus Linkage Disequilibrium Mason Liang|Rasmus Nielsen UC Berkeley;|University of California, Berkeley
http://dx.doi.org/10.1101/078154 2016-09-30 Cell Biology CC BY-NC-ND Heterogeneity of single-cell mechanical responses to tumorigenic factors. Aldo Leal-Egana|Gaelle Letort|Jean-Louis Martiel|Andreas Christ|Timothee Vignaud|Caroline Roelants|Odile Filhol|Manuel THERY CEA;|INSERM;|Hopital Saint Louis, CEA
http://dx.doi.org/10.1101/078477 2016-09-30 Genomics CC BY-NC Human enhancers associated with immune response harbour specific sequence composition, activity, and genome organization Charles-Henri Lecellier|Wyeth W Wasserman|Remo Rohs|Anthony Mathelier Institut de Genetique Moleculaire de Montpellier, Universite de Montpellier;|University of British Columbia;|University of Southern California;|Centre for Molecular Medicine Norway (NCMM), University of Oslo
http://dx.doi.org/10.1101/078386 2016-09-30 Bioinformatics CC BY-NC PyVar: An Extensible Framework for Variant Annotator Comparison Julie Wertz|Thomas B Bair|Michael S Chimenti University of Iowa
http://dx.doi.org/10.1101/078337 2016-09-30 Biochemistry CC BY-NC-ND SCFSlmb recognizes a conserved degron within the survival motor neuron (SMN) self-interaction domain to mediate ubiquitylation of SMN and SMNΔ7 isoforms Kelsey M Gray|Kevin A Kaifer|David Baillat|Ying Wen|Jacqueline J Glascock|Allison D Ebert|Sara ten Have|Angus I Lamond|Eric J Wagner|Christian L Lorson|A. Gregory Matera University of North Carolina;|University of Missouri;|University of Texas Medical Branch;|Medical College of Wisconsin;|University of Dundee
http://dx.doi.org/10.1101/078410 2016-09-30 Neuroscience A forward model at Purkinje cell synapses facilitates cerebellar anticipatory motor control Ivan Herreros|Xerxes D Arsiwalla|Paul F.M.J. Verschure Universitat Pompeu Fabra;|Universitat Pompeu Fabra and ICREA
http://dx.doi.org/10.1101/078535 2016-10-01 Ecology Towards a successful translocation of captive slow lorises (Nycticebus spp.) in Borneo: a review and recommendations Lia van der Sandt Orangutan Project Sdn Bhd. Kuching, Malaysia
http://dx.doi.org/10.1101/078543 2016-10-01 Biophysics Identification of a Zika NS2B-NS3pro pocket susceptible to allosteric inhibition by small molecules including qucertin rich in edible plants Liangzhong Lim|Amrita Roy|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/078550 2016-10-01 Microbiology CC BY-NC-ND Use of whole-genome sequencing in the epidemiology of Campylobacter jejuni infections: state-of-knowledge Ann-Katrin Llarena|Mirko Rossi University of Helsinki
http://dx.doi.org/10.1101/078667 2016-10-02 Genetics Integrating Molecular QTL Data into Genome-wide Genetic Association Analysis: Probabilistic Assessment of Enrichment and Colocalization Xiaoquan Wen|Roger Pique-Regi|Francesca Luca Univ. Michigan;|Wayne State University
http://dx.doi.org/10.1101/078741 2016-10-02 Genomics CC BY-NC-ND Co-expression networks reveal the tissue-specific regulation of transcription and splicing Ashis Saha|Yungil Kim|Ariel D. H. Gewirtz|Brian Jo|Chuan Gao|Ian C McDowell|Barbara E Engelhardt|Alexis Battle Johns Hopkins University;|Princeton University;|Duke University
http://dx.doi.org/10.1101/078790 2016-10-02 Genomics Unbiased K-mer Analysis Reveals Changes in Copy Number of Highly Repetitive Sequences During Maize Domestication and Improvement Sanzhen Liu|Jun Zheng|Pierre Migeon|Jie Ren|Ying Hu|Cheng He|Hongjun Liu|Junjie Fu|Frank F White|Christopher Toomajian|Guoying Wang Kansas State University, United States;|Chinese Academy of Agricultural Sciences, China;|Shandong Agricultural University, United States;|University of Florida, United States
http://dx.doi.org/10.1101/078782 2016-10-02 Genetics CC BY-ND Fine mapping of Ur-3, a historically important rust resistance locus in common bean Oscar P. Hurtado-Gonzales|Giseli Valentini|Thiago A. S. Gilio|Alexandre M. Martins|Qijian Song|Marcial A. Pastor-Corrales USDA-ARS BARC-WEST;|Departamento de Agronomia, Universidade Estadual de Maringá;|Coordenacao de Aperfeicoamento de Pessoal de Nivel Superior
http://dx.doi.org/10.1101/078733 2016-10-01 Biochemistry Crystal structure and RNA-binding properties of an Hfq homolog from the deep-branching Aquificae: Conservation of the lateral RNA-binding mode Kimberly A Stanek|Jennifer Patterson West|Peter S Randolph|Cameron Mura University of Virginia
http://dx.doi.org/10.1101/078774 2016-10-01 Neuroscience Oligodendrocytes in the mouse optic nerve originate in the preoptic area Katsuhiko Ono|Kengo Yoshii|Hiroyuki Tominaga|Hitoshi Gotoh|Tadashi Nomura|Hirohide Takebayashi|Kazuhiro Ikenaka Kyoto Prefectural University of Medicine;|Niigata University;|National Institute for Physiological Sciences
http://dx.doi.org/10.1101/049122 2016-10-01 Molecular Biology CC BY-NC-ND Multiplex gene editing by CRISPR-Cpf1 through autonomous processing of a single crRNA array Bernd Zetsche|Matthias Heidenreich|Prarthana Mohanraju|Iana Fedorova|Jeroen Kneppers|Ellen M DeGennaro|Nerges Winblad|Sourav R Choudhury|Omar O Abudayyeh|Jonathan S Gootenberg|Wen Y Wu|David A Scott|Konstantin Severinov|John van der Oost|Feng Zhang Broad Institute of MIT and Harvard; McGovern Institute, MIT;|Wageningen University;|Rutgers University
http://dx.doi.org/10.1101/078964 2016-10-03 Neuroscience On the Effectiveness of Event-related Beta tACS on Episodic Memory Formation and Motor Cortex Excitability Verena Braun|Rodika Sokoliuk|Simon Hanslmayr School of Psychology, University of Birmingham, UK
http://dx.doi.org/10.1101/078881 2016-10-03 Neuroscience CC BY The Healthy Brain Network Serial Scanning Initiative: A resource for evaluating inter-individual differences and their reliabilities across scan conditions and sessions. David O'Connor|Natan Vega Potler|Meagan Kovacs|Ting Xu|Lei Ai|John Pellman|Tamara Vanderwal|Lucas Parra|Samantha Cohen|Satrajit Ghosh|Jasmine Escalera|Natalie Grant-Villegas|Yael Osman|Anastasia Bui|Richard Cameron Craddock|Michael Peter Milham Child Mind Institute Healthy Brain Network;|Yale University;|City College of New York;|The Graduate Center of the City University of New York;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/079046 2016-10-03 Ecology CC BY-ND Monkey in the middle: monkeys serve as amplification hosts but not reservoir hosts of sylvatic chikungunya virus Benjamin M Althouse|Matilde Guerbois|Derek AT Cummings|Ousmane Diop|Ousmane Faye|Abdourahmane Faye|Diawo Diallo|Bakary Djilocalisse Sadio|Abdourahmane Sow|Oumar Faye|Amadou A Sall|Mawlouth Diallo|Brenda Benefit|Evan Simmons|Douglas M Watts|Scott C Weaver|Kathryn A Hanley Institute for Disease Modeling;|University of Texas Medical Branch;|University of Florida;|Institut Pasteur de Dakar;|New Mexico State University;|University of Texas at El Paso
http://dx.doi.org/10.1101/079038 2016-10-03 Molecular Biology CC BY Evolving Notch polyQ tracts reveal possible solenoid interference elements Albert J Erives University of Iowa
http://dx.doi.org/10.1101/078949 2016-10-03 Cancer Biology CC BY-NC-ND Reduced CREB3L2 expression is associated with resistance to sorafenib and poor prognosis in ER-positive breast cancer Sean Mullarkey|Vahid Arabkari|Muhammad Mosaraf Hossain|SANJEEV GUPTA|Ananya Gupta National University of Ireland Galway, Ireland;|National university of ireland Galway
http://dx.doi.org/10.1101/078998 2016-10-03 Biophysics CC BY-NC A unified coarse-grained theory of bacterial physiology explains the relationship between cell size, growth rate and proteome composition under various growth limitations Francois Bertaux|Julius Von Kugelgen|Samuel Marguerat|Vahid Shahrezaei Imperial College London;|MRC Clinical Sciences Centre, Imperial College, Du Cane Road, London
http://dx.doi.org/10.1101/079012 2016-10-03 Cancer Biology CC BY A Hypothesis to Explain Cancers in Confined Colonies of Naked Mole Rats Michael E Hochberg|Robert J Noble|Stanton Braude University of Montpellier;|Washington University in St. Louis
http://dx.doi.org/10.1101/078931 2016-10-03 Neuroscience CC BY-NC-ND A network of topographic numerosity maps in human association cortex Ben M Harvey|Serge O Dumoulin Utrecht University
http://dx.doi.org/10.1101/078816 2016-10-03 Neuroscience CC BY-NC I TRIED A BUNCH OF THINGS: THE DANGERS OF UNEXPECTED OVERFITTING IN CLASSIFICATION Michael Skocik|John Collins|Chloe Callahan-Flintoft|Howard Bowman|Brad Wyble Manada Technology LLC;|Penn State University, USA;|University of Kent, UK;|Penn State University
http://dx.doi.org/10.1101/078659 2016-10-03 Systems Biology CC BY System-wide automatic extraction of functional signatures in Pseudomonas aeruginosa with eADAGE Jie Tan|Georgia Doing|Kimberley A Lewis|Courtney E Price|Kathleen M Chen|Kyle C Cady|Barret Perchuk|Michael T Laub|Deborah A Hogan|Casey S Greene Geisel School of Medicine at Dartmouth;|Perelman School of Medicine, University of Pennsylvania;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/078501 2016-10-03 Microbiology Rapid molecular detection of Zika virus in urine using the recombinase polymerase amplification assay Ahmed Abd El Wahed|Sabri S. Sanabani|Oumar Faye|Rodrigo Pessoa|Joao-Veras Patriota|Ricardo Rodrigues-Giorgi|Pranav Patel|Susanne Boehlken-Fascher|Olfert Landt|Matthias Niedrig|Paolo M. de A. Zanotto|Claus-Peter Czerny|Amadou A. Sall|Manfred Weidmann Georg-August University Goettingen;|Institute of Tropical Medicine, Faculty of Medicine, University of Sao Paulo, Sao Paulo, Brazil;|Institut Pasteur de Dakar, Dakar, Senegal;|Municipal Hospital of Tuparetama, Pernambuco, Brazil;|University of Santo Amaro, Sao Paulo, Brazil;|TIB MOLBIOL Syntheselabor GmbH, Berlin, Germany;|Georg-August-University, Goettingen, Germany;|Robert Koch Institute, Berlin, Germany;|Biomedical Sciences Institute, University of Sao Paulo, Sao Paulo, Brazil;|University of Stirling, Stirling, Scotland, United Kingdom
http://dx.doi.org/10.1101/078857 2016-10-03 Neuroscience Brain activity and connectivity attributable to nociceptive signal block Michael L Meier|Sonja Widmayer|Nuno M.P. Matos|Jetmir Abazi|Dominik A Ettlin Balgrist University Hospital;|Center of Dental Medicine, University of Zurich;|Institute for Complementary and Integrative Medicine, University Hospital Zurich
http://dx.doi.org/10.1101/078865 2016-10-02 Genetics CC BY-NC-ND Systematic tissue-specific functional annotation of the human genome highlights immune-related DNA elements for late-onset Alzheimer's disease Qiongshi Lu|Ryan L Powles|Sarah Abdallah|Derek Ou|Qian Wang|Yiming Hu|Yisi Lu|Wei Liu|Shubhabrata Mukherjee|Paul K Crane|Hongyu Zhao Yale University;|University of Washington
http://dx.doi.org/10.1101/078873 2016-10-02 Neuroscience CC BY-NC-ND Encoding of locomotion kinematics in the mouse cerebellum Tomaso Muzzu|Susanna Mitolo|Giuseppe Gava|Simon Schultz Imperia College London;|Imperial College London
http://dx.doi.org/10.1101/078766 2016-10-02 Neuroscience Combining Multiscale Diffusion Kernels for Learning the Structural and Functional Brain Connectivity Sriniwas Govinda Surampudi|Shruti Naik|Avinash Shrama|Raju Surampudi Bapi|Dipanjan Roy CVIT, IIIT-Hyderabad, India;|Cognitive Science Lab, IIIT-Hyderabad, India;|Cognitive Science Lab, IIIT-Hyderabad, & School of Computer and Info Sci, Univ of Hyderabad, India;|International Institute of Information Technology Hyderabad
http://dx.doi.org/10.1101/078758 2016-10-02 Neuroscience Targeted electrical stimulation of active brain sources using reciprocity Jacek P Dmochowski|Laurent Koessler|Lucas C Parra|Marom Bikson|Anthony M Norcia City College of New York;|CRAN-Nancy;|Stanford University
http://dx.doi.org/10.1101/079269 2016-10-04 Neuroscience CC BY-NC-ND Recovery of hand function after stroke: separable systems for finger strength and control Jing Xu|Naveed Ejaz|Benjamin Hertler|Meret Branscheidt|Mario Widmer|Andreia V Faria|Michelle Harran|Juan C Cortes|Nathan Kim|Pablo A Celnik|Tomoko Kitago|Andreas Luft|John W Krakauer|Jorn Western University Diedrichsen Johns Hopkins University;|Western University;|University of Zurich;|Columbia University;|New York Medical College
http://dx.doi.org/10.1101/079202 2016-10-04 Neuroscience CC BY Commentary: BRAIN NETWORKS. Correlated gene expression supports synchronous activity in brain networks. Science 348, 1241-4. Spiro P. Pantazatos|Xinyi Li Columbia University
http://dx.doi.org/10.1101/079178 2016-10-04 Neuroscience CC BY-NC How Transcranial Magnetic Stimulation over Early Visual Cortex impacts short-term memory precision and guess rate Rosanne Rademaker|Vincent G van de Ven|Frank Tong|Alexander T Sack UC San Diego;|Maastricht University;|Vanderbilt University
http://dx.doi.org/10.1101/079244 2016-10-04 Neuroscience CC BY-NC-ND A transcallosal fiber network between left and right homotopic inferior frontal regions for supporting complex linguistic processing Philipp Kellmeyer University of Freiburg, Medical Center
http://dx.doi.org/10.1101/079186 2016-10-04 Genomics CC BY-NC-ND Transcriptome from saffron (Crocus sativus) plants in Jammu and Kashmir reveals abundant soybean mosaic virus transcripts and several putative pathogen bacterial and fungal genera Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/079145 2016-10-04 Neuroscience CC BY BIDS Apps: Improving ease of use, accessibility and reproducibility of neuroimaging data analysis methods Krzysztof J. Gorgolewski|Fidel Alfaro-Almagro|Tibor Auer|Pierre Bellec|Mihai Capota|Mallar Chakravarty|Nathan W. Churchill|R. Cameron Craddock|Gabriel Devenyi|Anders Eklund|Oscar Esteban|Guillaume Flandin|J. Swaroop Guntupalli|Mark Jenkinson|Anisha Keshavan|Gregory Kiar|Pradeep Reddy Raamana|David Raffelt|Christopher J. Steele|Pierre-Olivier Quirion|Robert E. Smith|Stephen Strother|Gael Varoquaux|Tal Yarkoni|Yida Wang|Russell Poldrack Stanford University;|University of Oxford;|Royal Holloway University of London;|Universitaire Geriatrique de Montreal;|Intel Corporation;|McGill University;|St. Michaels Hospital;|Nathan S. Kline Institute;|Linkoping University;|Wellcome Trust Centre for Neuroimaging;|Dartmouth College;|UC Berkeley-UCSF Graduate Program in Bioengineering;|Johns Hopkins University;|Baycrest Health Sciences;|Florey Institute of Neuroscience and Mental Health;|INRIA;|University of Texas
http://dx.doi.org/10.1101/079152 2016-10-04 Cancer Biology A molecular portrait of microsatellite instability across multiple cancers Isidro Cortes-Ciriano|Sejoon Lee|Woong-Yang Park|Tae-Min Kim|Peter Park Harvard Medical School;|Samsung Medical Center;|The Catholic University of Korea
http://dx.doi.org/10.1101/079251 2016-10-04 Microbiology CC BY-ND Growth-Altering Microbial Interactions Are Highly Sensitive to Environmental Context Angela Liu|Anne Archer|Matthew B Biggs|Jason A Papin University of Virginia
http://dx.doi.org/10.1101/079194 2016-10-04 Ecology CC BY Evidence of cryptic incidence in childhood diseases Christian E Gunning|Matthew J Ferrari|Erik B Erhardt|Helen J Wearing North Carolina State University;|Pennsylvania State University;|University of New Mexico
http://dx.doi.org/10.1101/079236 2016-10-04 Physiology CC BY-NC-ND Disruption of Hepatocyte Jak2 leads to Spontaneous NASH in Aged Mice and Uncouples Metabolic Liver Disease from Insulin Resistance Camella G. Wilson|Jennifer L. Tran|Aras N. Mattis|Kevin Corbit|Ethan J. Weiss UCSF
http://dx.doi.org/10.1101/078923 2016-10-04 Epidemiology A comparative analysis of Chikungunya and Zika transmission Julien Riou|Chiara Poletto|Pierre-Yves Boelle Sorbonne Universités, UPMC Univ Paris 06, INSERM
http://dx.doi.org/10.1101/079095 2016-10-04 Synthetic Biology CC BY-NC-ND Engineering species-like barriers to sexual reproduction Maciej Maselko|Stephen C. Heinsch|Jeremy Chacon|William Harcombe|Michael J. Smanski University of Minnesota
http://dx.doi.org/10.1101/079053 2016-10-04 Cell Biology CC BY-NC Wound induced Ca2+ wave propagates through a simple Release and Diffusion mechanism Naomi Handly|Roy Wollman University of California, Los Angeles
http://dx.doi.org/10.1101/079061 2016-10-04 Bioinformatics CC BY-NC-ND Computational prediction of the tolerance to amino-acid deletion in green-fluorescent protein Eleisha L Jackson|Stephanie J. Spielman|Claus O. Wilke The University of Texas at Austin;|Temple University
http://dx.doi.org/10.1101/079020 2016-10-04 Evolutionary Biology CC BY Determining the role of inflammation in the selection of JAK2 mutant cells in myeloproliferative neoplasms Jie Zhang|Angela Fleischman|Dominik Wodarz|Natalia Komarova UCI;|University of California Irvine
http://dx.doi.org/10.1101/078907 2016-10-04 Plant Biology CC BY-NC-ND Sequencing of small RNAs of the fern Pleopeltis minima (Polypodiaceae) offers insight into the evolution of the microRNA repertoire in land plants Florencia Berruezo|Flavio S J de Souza|Pablo I Picca|Sergio I Nemirovsky|Leandro Martinez-Tosar|Mercedes Rivero|Alejandro N Mentaberry|Alicia M Zelada FBMC-FCEN-UBA;|INGEBI-CONICET; FBMC-FCEN-UBA;|DBBE-FCEN-UBA;|Iquibicen, CONICET-UBA; DQB-FCEN-UBA;|IBBEA, CONICET-UBA;|Instituto de Agrobiotecnologia de Rosario (INDEAR);|IBBEA, CONICET-UBA; DFBMC-FCEN-UBA;|IBBEA, CONICET-UBA; FBMC-FCEN-UBA
http://dx.doi.org/10.1101/079087 2016-10-04 Bioinformatics CC BY Adaptive Somatic Mutations Calls with Deep Learning and Semi-Simulated Data Remi Torracinta|Laurent Mesnard|Susan Levine|Rita Shaknovich|Maureen Hanson|Fabien Campagne Weill Cornell Medicine;|INSERM UMR1155 et Service des Urgences Nephrologiques et Transplantation Renale, APHP, Hopital Tenon;|Levine Clinical Practice;|Weill Cornell Medical College;|Cornell University
http://dx.doi.org/10.1101/078832 2016-10-04 Plant Biology CC BY-NC Morphological plant modeling: Unleashing geometric and topologic potential within the plant sciences Alexander Bucksch|Acheampong Atta-Boateng|Akomian Fortune Azihou|Mathilde Balduzzi|Dorjsuren Battogtokh|Aly Baumgartner|Brad Binder|Siobhan Braybrook|Cynthia Chang|Viktoriya Coneva|Thomas DeWitt|Alexander Fletcher|Malia Gehan|Diego Hernan Diaz Martinez|Lilan Hong|Anjali Iyer-Pascuzzi|Laura Klein|Samuel Leiboff|Mao Li|Jonathan Lynch|Alexis Maizel|Julin Maloof|RJ Cody Markelz|Ciera Martinez|Laura Miller|Washington Mio|Wojtek Palubicki|Hendrik Poorter|Christophe Pradal|Charles Price|Eetu Puttonen|John Reese|Ruben Rellan-Alvarez|Edgar Spalding|Erin Sparks|Chris Topp|Joseph Williams|Daniel Chitwood University of Georgia;|Yale School of Forestry and Environmental Studies;|Laboratory of Applied Ecology, University of Abomey-Calavi;|Universite Montpellier;|Department of Biological Sciences, Virginia Tech;|Baylor University;|Department of Biochemistry & Cellular and Molecular Biology, University of Tennessee, Knoxville;|Sainsbury Laboratory, University of Cambridge;|University of Washington-Bothell;|Danforth Plant Science Center;|Department of Wildlife & Fisheries Sciences, Department of Plant Pathology & Microbiology, Texas A&M;|School of Mathematics & Statistics, University of Sheffield;|Donald Danforth Plant Science Center;|Florida State University;|Cornell University;|Purdue University;|Saint Louis University;|School of Integrative Plant Science, Cornell University;|Department of Plant Science, The Pennsylvania State University;|Center for Organismal Studies, Heidelberg University;|U.C. Davis;|Department of Plant Biology, UC Davis;|U.C. Berkeley;|University of North Carolina, Chapel Hill;|Florida State University, Tallahassee;|Juelich;|Cirad & Inria;|NIMBioS, University of Tennessee, Knoxville;|Finnish Geospatial Research Institute at the National Land Survey of Finland;|Department of Ecology & Evolutionary Biology, University of Tennessee, Knoxville;|Unidad de Genomic Avanzada, Langebio, Cinvestav;|University of Wisconsin-Madison;|Department of Biology, Duke University
http://dx.doi.org/10.1101/079442 2016-10-05 Bioinformatics CC BY-ND Portable and Error-Free DNA-Based Data Storage S. M. Hossein Tabatabaei Yazdi|Ryan Gabrys|Olgica Milenkovic University of Illinois at Urbana Champaign
http://dx.doi.org/10.1101/079434 2016-10-05 Evolutionary Biology CC BY-NC-ND Dynamical patterns of coexisting strategies in a hybrid discrete-continuum spatial evolutionary game model Andrew EF Burgess|Pieta G Schofield|Stephen F Hubbard|Mark AJ Chaplain|Tommaso Lorenzi University of Dundee;|University of St Andrews
http://dx.doi.org/10.1101/079418 2016-10-05 Genetics CC BY-NC-ND Incorporating calibrated functional assay data into the BRCA1 Ex-UV database Bryony A Thompson|Russell Bell|Bryan E Welm|John Burn|Sean Tavtigian Department of Oncological Sciences, Huntsman Cancer Institute, University of Utah School of Medicine;|Department of Surgery, Huntsman Cancer Institute, University of Utah School of Medicine;|Institute of Genetic Medicine, International Centre for Life, Newcastle University, Newcastle upon T
http://dx.doi.org/10.1101/079459 2016-10-05 Genetics Polyphyletic ancestry of expanding Patagonian Chinook salmon populations Cristian Correa|Paul Moran Universidad Austral de Chile;|Conservation Biology Division, Northwest Fisheries Science Center
http://dx.doi.org/10.1101/079350 2016-10-05 Scientific Communication and Education Reproducibility and replicability of rodent phenotyping in preclinical studies Neri Kafkafi|Joseph Agassi|Elissa J Chesler|John C Crabbe|Wim E Crusio|David Eilam|Robert Gerlai|Ilan Golani|Alex Gomez-Marin|Ruth Heller|Fuad Iraqi|Iman Jaljuli|Natasha A Karp|Hugh Morgan|George Nicholson|Donald W Pfaff|Helene S Richter|Philip B Stark|Oliver Stiedl|Victoria Stodden|Lisa M Tarantino|Valter Tucci|William Valdar|Robert W Williams|Hanno Wurbel|Yoav Benjamini Tel Aviv University;|The Jackson Laboratory;|Oregon Health & Science University;|INCIA, Universite de Bordeaux and CNRS;|University of Toronto;|Instituto de Neurociencias CSIC-UMH;|Wellcome Trust Sanger Institute;|Harwell Research Center;|Oxford University;|Rockefeller University;|University of Muenster;|University of California, Berkeley;|VU University Amsterdam;|University of Illinois at Urbana-Champaign;|University of North Carolina at Chapel Hill;|Istituto Italiano di Tecnologia;|University of Tennessee Health Science Center;|University of Bern
http://dx.doi.org/10.1101/079137 2016-10-05 Microbiology CC BY Extensive Horizontal Gene Transfer in Cheese-Associated Bacteria Kevin S Bonham|Benjamin E Wolfe|Rachel J Dutton University of California, San Diego;|Tufts University
http://dx.doi.org/10.1101/079327 2016-10-05 Neuroscience CC BY-NC-ND A dual-strategy expression screen for candidate connectivity labels in the developing thalamus Olivia Bibollet-Bahena|Tatsuya Okafuji|Karsten Hokamp|Kevin J. Mitchell Trinity College Dublin
http://dx.doi.org/10.1101/078592 2016-10-05 Cell Biology CC BY-NC-ND Size-Dependent Accumulation of the Mitotic Activator Cdc25 as a Mechanism of Size Control in Fission Yeast Daniel Keifenheim|Xi-Ming Sun|Edridge D'Souza|Makoto Ohira|Mira Magner|Matthew Mayhew|Samuel Marguerat|Nicholas Rhind UMass Medical School;|MRC Clinical Sciences Centre, Imperial College London;|Lawrence Livermore National Laboratory
http://dx.doi.org/10.1101/079293 2016-10-05 Systems Biology CC BY-NC-ND Multi-algorithm particle simulations with Spatiocyte Satya Arjunan|Koichi Takahashi RIKEN Quantitative Biology Center
http://dx.doi.org/10.1101/079301 2016-10-05 Genomics Omics and bioinformatics approaches to target boar taint Rahul Agarwal|Jitendra Narayan Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences;|University of Namur
http://dx.doi.org/10.1101/079384 2016-10-05 Neuroscience CC BY-NC A Neural Locus for Perceptually-Relevant Saccadic Suppression in Visual-Motor Neurons of the Primate Superior Colliculus Chih-Yang Chen|Ziad M. Hafed Tuebingen University
http://dx.doi.org/10.1101/079368 2016-10-05 Evolutionary Biology CC BY-NC-ND The non-stationary dynamics of fitness distributions: asexual model with epistasis and standing variation. GUILLAUME MARTIN|Lionel Roques CNRS UMR 5554;|INRA BioSP
http://dx.doi.org/10.1101/079335 2016-10-05 Bioengineering CC BY-NC-ND Development of a modular automated system for maintenance and differentiation of adherent human pluripotent stem cells. Duncan E Crombie|Maciej Daniszewski|Helena H Liang|Tejal Kulkarni|Fan Li|Grace E Lidgerwood|Alison Conquest|Damian Hernandez|Sandy S Hung|Katherine P Gill|Elisabeth De Smit|Lisa S Kearns|Linda Clarke|Valentin M Sluch|Xitiz Chamling|Donald J Zack|Raymond CB Wong|Alex Hewitt|Alice Pebay Centre for Eye Research Australia;|University of Tasmania;|Wilmer Eye Institute, Johns Hopkins University School of Medicine;|University of Melbourne
http://dx.doi.org/10.1101/078253 2016-10-05 Bioinformatics CC BY-NC-ND Predicting off-target effects for end-to-end CRISPR guide design Jennifer Listgarten|Michael Weinstein|Melih Elibol|Luong Hoang|John Doench|Nicolo Fusi Microsoft Research;|UCLA;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/079541 2016-10-06 Bioinformatics Assessing Pathogens for Natural versus Laboratory Origins Using Genomic Data and Machine Learning Tonia Korves|Christopher D Garay|Heather A Carleton|Ashley Sabol|Eija Trees|Matthew W Peterson The MITRE Corporation;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/079483 2016-10-06 Evolutionary Biology CC BY-NC-ND Categorizing Ideas about Systematics: Alternative Trees of Trees, and Related Representations Janos Podani|David A. Morrison Eotvos University;|Evolutionary Biology Center, Uppsala University
http://dx.doi.org/10.1101/078725 2016-10-06 Neuroscience CC BY-NC-ND A Saposin deficiency model in Drosophila: lysosomal storage, progressive neurodegeneration, sensory physiological decline and defective calcium homeostasis Samantha J Hindle|Sarita Hebbar|Dominik Schwudke|Christopher J Elliott|Sean T Sweeney Department of Biology, University of York, York, YO10 5DD, U.K.;|National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bangalore, India
http://dx.doi.org/10.1101/079517 2016-10-06 Genomics Two novel genes discovered in human mitochondrial DNA using PacBio full-length transcriptome data Gao Shan|Xiaoxuan Tian|Yu Sun|Zhenfeng Wu|Zhi Cheng|Pengzhi Dong|Bingjun He|Jishou Ruan|Wenjun Bu Nankai University;|Tianjin University of Traditional Chinese Medicine
http://dx.doi.org/10.1101/079491 2016-10-06 Genetics From Typical Sequences to Typical Genotypes Omri Tal|Tat Dat Tran|Jacobus Portegies Max Planck Institute for Mathematics in the Sciences
http://dx.doi.org/10.1101/079467 2016-10-06 Neuroscience CC BY-NC-ND Representations of Subjective Effort Cost Patrick S Hogan|Cary D Frydman|Joseph K Galaro|Vikram S Chib Johns Hopkins University;|University of Southern California
http://dx.doi.org/10.1101/079509 2016-10-06 Bioinformatics SCORPIUS improves trajectory inference and identifies novel modules in dendritic cell development Robrecht Cannoodt|Wouter Saelens|Dorine Sichien|Simon Tavernier|Sophie Janssens|Martin Guilliams|Bart N Lambrecht|Katleen De Preter|Yvan Saeys Ghent University
http://dx.doi.org/10.1101/079707 2016-10-07 Epidemiology Collider Scope: How selection bias can induce spurious associations Marcus R Munafo|Kate Tilling|Amy E Taylor|David M Evans|George Davey Smith University of Bristol;|University of Queensland
http://dx.doi.org/10.1101/079814 2016-10-07 Developmental Biology A Novel function for Cactus/IκB inhibitor to promote Toll signals in the Drosophila embryo Maira A Cardoso|Marcio R Fontenele|Bomyi Lim|Paulo M Bisch|Stanislav Shvartsman|Helena M Araujo Federal University of Rio de Janeiro;|Princeton University
http://dx.doi.org/10.1101/079764 2016-10-07 Bioengineering CC BY-NC-ND QTL-guided metabolic engineering of a complex trait Matthew J Maurer|Lawrence Sutardja|Dominic Pinel|Stefan Bauer|Amanda L Muehlbauer|Tyler D Ames|Jeffrey M Skerker|Adam P Arkin University of California, Berkeley
http://dx.doi.org/10.1101/079798 2016-10-07 Neuroscience CC BY-NC-ND Computational cognitive neuroscience: what is a good model of brain processes? Stefano Palminteri|Valentin Wyart|Etienne Koechlin INSERM U960 - Ecole Normale Superieure
http://dx.doi.org/10.1101/079806 2016-10-07 Neuroscience Alzheimer's disease pathogenesis is dependent on neuronal receptor PTPsigma Yuanzheng Gu|Yaoling Shu|Angela Corona|Kui Xu|Allen F Yi|Shannon Chen|Man Luo|Michel Tremblay|Gary E Landreth|Randy Nelson|Jerry Silver|Yingjie Shen The Ohio State University College of Medicine, Department of Neuroscience;|Case Western Reserve University;|Division of Neurosurgery, Cincinnati Children's Hospital Medical Center;|Department of Biostatistics, School of Public Health, Boston University;|Department of Biochemistry and Goodman Cancer Research Centre, McGill University
http://dx.doi.org/10.1101/079756 2016-10-07 Neuroscience A causal role of the right superior temporal sulcus in emotion recognition from biological motion Rochelle A. Basil|Margaret L. Westwater|Martin Wiener|James C. Thompson George Mason University;|University of Cambridge
http://dx.doi.org/10.1101/079780 2016-10-07 Ecology CC BY Hosts, parasites, and their interactions respond to different climatic variables Timothee Poisot|Cynthia Gueveneux-Julien|Marie-Josee Fortin|Dominique Gravel|Pierre Legendre Universite de Montreal;|University of Toronto;|Universite de Sherbrooke
http://dx.doi.org/10.1101/079715 2016-10-07 Biophysics TatA complexes exhibit a marked change in organisation in response to expression of the TatBC complex Sarah Marie Smith|Andrew Yarwood|Roland Andrew Fleck|Colin Robinson|Corinne J Smith University of Warwick;|JEOL (UK);|Kings College London;|University of Kent
http://dx.doi.org/10.1101/079657 2016-10-07 Evolutionary Biology CC BY-ND Reproductive Isolation through Experimental Manipulation of Sexually Antagonistic Coevolution in Drosophila Melanogaster Zeeshan Ali Syed|Martik Chatterjee|Manas Arun Samant|N G Prasad Indian Institute of Science Education And Research Mohali;|Indian Institute of Science Education and Research, Mohali
http://dx.doi.org/10.1101/079632 2016-10-07 Ecology Atmospheric deposition exposes pandas to toxic pollutants Yi-ping Chen|Ying-juan Zheng|Qiang Liu|Yi Song|Zhi-sheng An|Qing-yi Ma|Aaron Ellison SKLLQG Institute Earth Environment, Chinese Academy of Sciences;|Shaanxi Wild Animal Research Center;|Harvard University
http://dx.doi.org/10.1101/079533 2016-10-07 Biophysics Chiral vortex dynamics on membranes is an intrinsic property of FtsZ, driven by GTP hydrolysis Diego Ramirez|Daniela A. Garcia-Soriano|Ana Raso|Mario Feingold|German Rivas|Petra Schwille Max Planck Institute of Biochemistry;|Max Planck Institute for Biochemistry;|Centro de Investigaciones Biologicas, Consejo Superior de Investigaciones Cientificas (CSIC);|Ben Gurion University
http://dx.doi.org/10.1101/079681 2016-10-07 Bioinformatics CC BY-NC-ND Sensitive protein sequence searching for the analysis of massive data sets Martin Steinegger|Johannes Soeding Max-Planck Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/079723 2016-10-07 Systems Biology CC BY Control mechanisms for stochastic biochemical systems via computation of reachable sets Eszter Lakatos|Michael Stumpf Imperial College London
http://dx.doi.org/10.1101/079343 2016-10-07 Plant Biology CC BY-NC-ND The PhytoClust Tool for Metabolic Gene Clusters Discovery in Plant Genomes Nadine Toepfer|Lisa-Maria Fuchs|Asaph Aharoni Weizmann Institute of Science;|Hochschule fuer Wissenschaft und Technik, Berlin;|Weizmann Institute of Sciences
http://dx.doi.org/10.1101/079673 2016-10-07 Bioinformatics CC BY-NC-ND Accurate contact predictions for thousands of protein families using PconsC3 Marcin J Skwark|Mirco Michel|David Menendez Hurtado|Magnus Ekeberg|Arne Elofsson Department of Information and Computer Science, Aalto University, FI-00076 Aalto, Finland;|Stockholm University;|KTH
http://dx.doi.org/10.1101/079699 2016-10-07 Animal Behavior and Cognition CC BY-NC-ND Behavior of Caenorhabditis elegans in a nicotine gradient modulated by food Robert Sobkowiak|Piotr Kaczmarek|Mateusz Kowalski|Rafa Kabacinski|Andrzej Lesicki Adam Mickiewicz University, Faculty of Biology, Department of Cell Biology;|Poznan University of Technology, Institute of Control and Information Engineering
http://dx.doi.org/10.1101/079772 2016-10-07 Bioinformatics PoGo: Jumping from Peptides to Genomic Loci Christoph N. Schlaffner|Georg Pirklbauer|Andreas Bender|Jyoti S. Choudhary Wellcome Trust Sanger Institute;|University of Cambridge
http://dx.doi.org/10.1101/079731 2016-10-07 Genetics CC BY Genome-Wide Association Study of Ionomics Traits on Diverse Soybean Populations from Germplasm Collections Gregory Ziegler|Randall Nelson|Stephanie Granada|Hari B Krishnan|Jason D Gillman|Ivan Baxter USDA-ARS;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/079749 2016-10-07 Bioinformatics CC BY-NC-ND Considerations and complications of mapping small RNA libraries to transposable elements Alexandros Bousios|Brandon S. Gaut|Nikos Darzentas University of Sussex, Brighton, UK;|University of California, Irvine, USA;|Central European Institute of Technology, Masaryk University, Brno, Czech Republic
http://dx.doi.org/10.1101/079616 2016-10-07 Evolutionary Biology Spatiotemporal patterns of desiccation tolerance in natural populations of Drosophila melanogaster Subhash Rajpurohit|Eran Gefen|Alan Bergland|Dmitri Petrov|Allen Gibbs|Paul Schmidt University of Pennsylvania;|University of Haifa;|University of Virginia;|Stanford University;|University of Nevada
http://dx.doi.org/10.1101/079582 2016-10-07 Evolutionary Biology CC BY-NC An efficient field and laboratory workflow for plant phylotranscriptomic projects Ya Yang|Michael Moore|Samuel Brockington|Alfonso Timoneda-Monfort|Tao Feng|Hannah Marx|Joseph Walker|Stephen Smith University of Minnesota;|Oberlin College;|University of Cambridge;|University of Arizona;|University of Michigan
http://dx.doi.org/10.1101/079608 2016-10-07 Systems Biology CC BY-NC A mathematical approach for secondary structure analysis can provide an eyehole to the RNA world NIKOLAOS KONSTANTINIDES NEW YORK UNIVERSITY
http://dx.doi.org/10.1101/079624 2016-10-07 Evolutionary Biology CC BY-NC-ND Fitness-valley crossing in subdivided asexual populations Michael R. McLaren Stanford University, United States
http://dx.doi.org/10.1101/079566 2016-10-07 Animal Behavior and Cognition CC BY-NC Automatic Head Tracking of The Common Marmoset. Hjalmar K Turesson|Thamiris Botelho Ribeiro Conceicao|Sidarta Ribeiro York University;|Universidade Federal do Rio Grande do Norte;|Brain Institute, Universidade Federal do Rio Grande do Norte
http://dx.doi.org/10.1101/079590 2016-10-07 Bioinformatics CC BY-NC Genetic Information Relationship Network (GIRN): A Force-directed graphing tool for gene expression analysis Gaelle Rondeau|John Welsh Vaccine Research Institute of San Diego
http://dx.doi.org/10.1101/079921 2016-10-09 Bioinformatics CC BY-NC-ND Exploratory bioinformatics analysis reveals importance of "junk" DNA in early embryo development Steven Xijin Ge South Dakota State University
http://dx.doi.org/10.1101/080028 2016-10-09 Genetics Of cats and men: the paleogenetic history of the dispersal of cats in the ancient world Claudio Ottoni|Wim van Neer|Bea De Cupere|Julien Daligault|Silvia Guimaraes|Joris Peters|Nikolai Spassov|Mary E. Pendergast|Nicole Boivin|Arturo Morales-Muniz|Adrian Balasescu|Cornelia Becker|Norbert Benecke|Adina Boronenant|Hijlke Buitenhuis|Jwana Chahoud|Alison Crowther|Laura Llorente|Nina Manaseryan|Herve Monchot|Vedat Onar|Marta Osypinska|Olivier Putelat|Jacqueline Studer|Ursula Wierer|Ronny Decorte|Thierry Grange|Eva-Maria Geigl KU Leuven - University of Leuven, Department of Imaging and Pathology, Leuven, Belgium;|Royal Belgian Institute of Natural Sciences, Brussels, Belgium;|Institut Jacques Monod, CNRS-University Paris Diderot, Paris, France;|Ludwigs-Maximilians-University, Institute of Palaeoanatomy, Munich, Germany;|National Museum of Natural History at the Bulgarian Academy of Sciences, Sofia, Bulgaria;|Radcliffe Institute for Advanced Study, Harvard University, Cambridge, MA, USA;|Max Planck Institute for the Science of Human History, Jena, Germany;|Laboratorio de Arquezoologia, Universidad Autonoma de Madrid, Madrid, Spain;|National History Museum of Romania, Bucharest, Romania;|Institute of Prehistoric Archaeology, Free University Berlin, D-14195 Berlin, Germany;|German Archaeological Institute, Berlin, Germany;|Vasile Parvan Institute of Archaeology of the Romanian Academy, Bucharest, Romania;|Groningen Institute of Archaeology, University of Groningen, The Netherlands;|Archeorient; CNRS/UMR 5133, University Lumiere Lyon II, Lyon, France;|School of Social Science, The University of Queensland, Brisbane, Australia;|Institute of Zoology, National Academy of Sciences of Armenia, Yerevan, Armenia;|Labex Resmed, University Paris IV la Sorbonne, Paris, France;|Istanbul University, Faculty of Veterinary Medicine Avcilar-Istanbul, Turkey;|Institute of Archaeology and Ethnology, Polish Academy of Sciences, Poznan, Poland;|Pole d'Archeologie Interdepartemental Rhenan, F-67600 Selestat, France;|Natural History Museum of Geneva, Geneva, Switzerland;|Soprintendenza Archeologia della Toscana, Firenze, Italy;|University of Leuven, Department of Imaging and Pathology, Leuven, Belgium;|Institut Jacques Monod, UMR 7592, CNRS and University Paris Diderot, Paris, France
http://dx.doi.org/10.1101/079939 2016-10-09 Synthetic Biology CC BY-NC-ND Programming mRNA decay to modulate synthetic circuit resource allocation Ophelia S Venturelli|Mika Tei|Stefan Bauer|Leanne Jade G. Chan|Christopher J Petzold|Adam P Arkin University of California Berkeley;|Energy Biosciences Institute, University of California Berkeley;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/080010 2016-10-09 Biochemistry CC BY The Chd1 chromatin remodeler shifts hexasomes unidirectionally Robert F Levendosky|Anton Sabantsev|Sebastian Deindl|Gregory D Bowman Johns Hopkins University;|Uppsala University
http://dx.doi.org/10.1101/079970 2016-10-09 Evolutionary Biology CC BY-NC 2b or not 2b: Experimental evolution of functional exogenous sequences in a plant RNA virus Anouk Willemsen|Mark Peter Zwart|Silvia Ambros|Jose Luis Carrasco|Santiago F. Elena Instituto de Biología Molecular y Celular de Plantas;|Institute of Theoretical Physics
http://dx.doi.org/10.1101/079889 2016-10-09 Evolutionary Biology CC BY-NC-ND Optimal foraging models reveal barriers and stepping stones to the evolution of host-range generalism in bacteriophage Jeremy Draghi Brooklyn College--CUNY
http://dx.doi.org/10.1101/079905 2016-10-09 Bioinformatics CC BY-NC-ND GW-CALL: Accurate Genome-Wide Variant Caller Maryam Ghareghani|Seyed Abolfazl Motahari|Shahram Khazaei|Mostafa Tavassolipour Sharif University of Technology
http://dx.doi.org/10.1101/079871 2016-10-09 Developmental Biology CC BY-NC-ND Comparative transcriptome analysis by deep RNA sequencing at early stage of skin pigmentation in goats (Capra hircus) Hangxing Ren|Gaofu Wang|Jing Jiang|Liangjia Liu|Nianfu Li|Jie Li|Lin Fu|Haiyan Zhang|Risu Na|Yongfu Huang|Li Zhang|Lei Chen|Yong Huang|Peng Zhou Chongqing Academy of Animal Sciences, China;|Youyang Animal Husbandry Bureau, China;|Southwest University, China
http://dx.doi.org/10.1101/079830 2016-10-09 Genetics CC BY-NC-ND Single Cell Expression Data Reveal Human Genes that Escape X-Chromosome Inactivation Kerem Wainer-Katsir|Michal Linial The Hebrew University of Jerusalem, Israel
http://dx.doi.org/10.1101/079863 2016-10-09 Genetics CC BY-NC-ND Frequency of mosaicism points towards mutation-prone early cleavage cell divisions. Chad Harland|Carole Charlier|Latifa Karim|Nadine Cambisano|Manon Deckers|Erik Mullaart|Wouter Coppieters|Michel Georges Unit of Animal Genomics, GIGA-R & Faculty of Veterinary Medicine, University of Liege, Belgium;|GIGA Genomics Platform, University of Liege, Belgium;|CRV, Arnhem, The Netherlands;|GIGA Genomics Platform, University of Liege, Belgium.;|Unit of Animal Genomics, GIGA-R & Faculty of Veterinary Medicine, University of Liege, Belgium.
http://dx.doi.org/10.1101/080119 2016-10-10 Ecology CC BY-NC-ND Systematic variability enhances the reproducibility of an ecological study Alexandru Milcu|Ruben Puga-Freitas|Aaron M Ellison|Manuel Blouin|Stefan Scheu|Thomas Girin|Gregoire Frechet|Laura Rose|Michael Scherer-Lorenzen|Sebastien Barot|Jean-Christophe Lata|Simone Cesarz|Nico Eisenhauer|Agnes Gigon|Alexandra Weigelt|Amandine Hansart|Anna Greiner|Anne Pando|Arthur Gessler|Carlo Grignani|Davide Assandri|Gerd Gleixner|Jean-Francois Le Galliard|Katherine Urban-Mead|Laura Zavattaro|Marina E.H. Muller|Markus Lange|Martin Lukac|Michael Bonkowski|Neringa Mannerheim|Nina Buchnann|Olaf Butenschoen|Paula Rotter|Rahme Seyhun|Sebastien Devidal|Zachary Kayler|Jacques Roy CNRS;|Institut des Sciences de l'Ecologie et de l'Environnement de Paris;|Harvard University;|IRD;|Georg August University Gottingen;|INRA;|University of Freiburg;|ENS;|German Centre for Integrative Biodiversity Research;|ZALF;|University of Turin;|Max Planck Institute for Biogeochemistry;|University of Reading;|University of Cologne;|ETH Zurich;|Senckenberg Biodiversitat und Klima Forschungszentrum
http://dx.doi.org/10.1101/079913 2016-10-10 Pathology CC BY Using Machine Learning to Parse Breast Pathology Reports Adam Yala|Regina Barzilay|Laura Salama|Molly Griffin|Grace Sollender|Aditya Bardia|Constance Lehman|Julliette M Buckley|Suzanne B Coopey|Fernanda Polubriaginof|Judy E Garber|Barbara L Smith|Michele A Gadd|Michelle C Specht|Thomas M Gudewicz|Anthony Guidi|Alphonse Taghian|Kevin S Hughes Department of Electrical Engineering and Computer Science, CSAIL, MIT;|Department of Radiation Oncology, MGH;|Division of Surgical Oncology, MGH;|Geisel School of Medicine at Dartmouth;|Department of Medical Oncology, MGH;|Department of Radiology, MGH;|Department of Biomedical Informatics, Columbia University;|Department of Medical Oncology, DFCI;|Department of Pathology, MGH;|Department of Pathology, NWH
http://dx.doi.org/10.1101/080036 2016-10-10 Bioinformatics CC BY-NC Netpredictor: R and Shiny package to perform Drug-Target Bipartite network analysis and prediction of missing links. ABHIK SEAL|David John Wild Indiana University
http://dx.doi.org/10.1101/080101 2016-10-10 Bioinformatics Examining the interaction between TGFBR3 and ESRRA in ovarian cancer prognosis Alun Passey|Robert Brown|Charlotte Wilhelm-Benartzi Imperial College London;|Cardiff University
http://dx.doi.org/10.1101/080135 2016-10-10 Neuroscience CC BY-NC Multiplexed computations in retinal ganglion cells of a single type Stephane Deny|Ulisse Ferrari|Emilie Mace|Pierre Yger|Romain Caplette|Serge Picaud|Gasper Tkacik|Olivier Marre Vision Institute;|Friedrich Miescher Institute for Biomedical Research;|Institute of Science and Technology Austria
http://dx.doi.org/10.1101/080085 2016-10-10 Evolutionary Biology CC BY CLEAR: Composition of Likelihoods for Evolve And Resequence Experiments Arya Iranmehr|Ali Akbari|Christian Schlotterer|Vineet Bafna UC San Diego;|Institut fur Populationsgenetik, Vetmeduni, Vienna
http://dx.doi.org/10.1101/080044 2016-10-10 Neuroscience Connecting myelin-related and synaptic dysfunction in schizophrenia with SNP-rich gene expression hubs Hedi Hegyi CEITEC
http://dx.doi.org/10.1101/080051 2016-10-10 Bioinformatics CC BY-NC-ND RNAModR: Functional analysis of mRNA modifications in R Maurits Evers|Andrew Shafik|Ulrike Schumann|Thomas Preiss Department of Genome Sciences, The John Curtin School of Medical Research
http://dx.doi.org/10.1101/080077 2016-10-10 Microbiology CC BY-NC-ND Genomic plasticity and rapid host switching promote the evolution of generalism in the zoonotic pathogen Campylobacter Dan J Woodcock|Peter Krusche|Norval JC Strachan|Ken J Forbes|Frederick M Cohan|Guillaume Meric|Samuel K Sheppard University of Warwick, UK;|University of Aberdeen, UK;|Wesleyan University, USA;|University of Bath
http://dx.doi.org/10.1101/080127 2016-10-10 Bioinformatics CC BY-NC-ND Using predictive specificity to determine when gene set analysis is biologically meaningful Sara Ballouz|Paul Pavlidis|Jesse Gillis Cold Spring Harbor Laboratory;|University of British Columbia
http://dx.doi.org/10.1101/076034 2016-10-11 Bioinformatics ssHMM: Extracting intuitive sequence-structure motifs from high-throughput RNA-binding protein data David Heller|Ralf Krestel|Uwe Ohler|Martin Vingron|Annalisa Marsico Max Planck Institute for Molecular Genetics Berlin Germany;|Hasso Plattner Institute Potsdam Germany;|Max Delbruck Center Berlin Germany;|Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/077529 2016-10-11 Microbiology CC BY-NC-ND Origins and Global Context of Brucella abortus in Italy Giuliano Garofolo|Elisabetta Di Giannatale|Ilenia Platone|Katiuscia Zilli|Lorena Sacchini|Anna Abbas|Massimo Ancora|Cesare Cammá|Guido Di Donato|Fabrizio De Massis|Paolo Calistri|Kevin Drees|Jeffrey Foster Istituto Zooprofilattico Sperimentale del'Abruzzo e del Molise "G. Caporale";|Istituto Zooprofilattico Sperimentale dell'Abruzzo e del Molise "G. Caporale";|Department of Molecular, Cellular, and Biomedical Sciences, University of New Hampshire, Durham, USA
http://dx.doi.org/10.1101/080309 2016-10-11 Neuroscience CC BY-NC-ND Recall without Hippocampal Engagement David Ross|Patrick Sadil|Merika Wilson|Rosemary Cowell University of Massachusetts Amherst
http://dx.doi.org/10.1101/080218 2016-10-13 Bioengineering Feasibility Study of an Optical Caustic Plasmonic Light Scattering Sensor for Human Serum Anti-Dengue Protein E Antibody Detection Antonio A Garcia|Lina S. Franco|M A Pirez-Gomez|J. L. Pech-Pacheco|J. F. Mendez-Galvan|C. Machain-Williams|L. Talavera-Aguilar|J. H. Espinosa-Carrillo|M. M. Duarte-Villasenor|Ch. J. Be Ortiz|L. E. Espinosa de los Monteros|A. Castillo-Pacheco|J. E. Garcia-Rejon|B. Chavez Arizona State University;|Solex Vintel;|Hospital Infantil de México Federico Gomez;|Universidad Autonoma de Yucatan;|Hemolab S.A.
http://dx.doi.org/10.1101/080820 2016-10-13 Genomics Integrated Genomic Analysis of Mitochondrial RNA Processing in Human Cancers Youssef Idaghdour|Alan Hodgkinson New York University Abu Dhabi;|King's College London
http://dx.doi.org/10.1101/080705 2016-10-13 Neuroscience CC BY-NC-ND Linking structure and activity in nonlinear spiking networks Gabriel Koch Ocker|Kresimir Josic|Eric Shea-Brown|Michael A. Buice Allen Institute for Brain Science;|University of Houston;|University of Washington
http://dx.doi.org/10.1101/080630 2016-10-13 Evolutionary Biology CC BY Effect of error and missing data on population structure inference using microsatellite data Patrick A Reeves|Cheryl L Bowker|Christa E Fettig|Luke R Tembrock|Christopher M Richards USDA-ARS;|Colorado State University
http://dx.doi.org/10.1101/080721 2016-10-13 Genomics CC BY-NC-ND Chironomus riparius (Diptera) genome sequencing reveals the impact of minisatellite transposable elements on population divergence Ann-Marie Oppold|Hanno Schmidt|Marcel Rose|Soren Lukas Hellmann|Florian Dolze|Fabian Ripp|Bettina Weich|Urs Schmidt-Ott|Erwin Schmidt|Robert Kofler|Thomas Hankeln|Markus Pfenninger Goethe-University Frankfurt am Main & Senckenberg BIK-F, Germany;|Senckenberg BIK-F, Frankfurt am Main, Germany;|Goethe-University Frankfurt am Main, Germany;|Johannes Gutenberg-University Mainz, Germany;|Department of Organismal Biology and Anatomy, University of Chicago, USA;|VetMedUni Wien
http://dx.doi.org/10.1101/080739 2016-10-13 Neuroscience Degenerate time-dependent network dynamics anticipate seizures in human epileptic brain Adria Tauste Campo|Alessandro Principe|Miguel Ley|Rodrigo Rocamora|Gustavo Deco Epilepsy Monitoring Unit, Department of Neurology, Hospital del Mar medical Research Centre;|Epilepsy Monitoring Unit, Department of Neurology, Hospital del Mar Medical Research Centre;|Epilepsy Monitoring Unit, Department of Neurology, Hospital del Mar Medical Research Center;|Epilepsy Monitoring Unit, Department of Neurology, Hospital del Mar Medical Research;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/080655 2016-10-13 Ecology CC BY-NC-ND Assessing sampling sufficiency of network metrics using bootstrap Grasiela Casas|Vinicius Augusto Galvao Bastazini|Vanderlei Julio Debastiani|Valerio De Patta Pillar Universidade Federal do Rio Grande do Sul
http://dx.doi.org/10.1101/079525 2016-10-13 Scientific Communication and Education CC BY-NC-ND Bayesian Analysis of High Throughput Data Eric Ma|Islam Hussein|Vivian Zhong|Christopher Bandoro|Jonathan Runstadler MIT
http://dx.doi.org/10.1101/080697 2016-10-13 Ecology Liberation from equations: An equation-free method reveals the ecological interaction networks within complex microbial ecosystems Kenta Suzuki|Katsuhiko Yoshida|Yumiko Nakanishi|Shinji Fukuda National Institute for Environmental Studies;|RIKEN Center for Integrative Medical Sciences;|Institute for Advanced Biosciences, Keio University
http://dx.doi.org/10.1101/080663 2016-10-13 Plant Biology CC BY-NC-ND Linking gene expression to unilateral pollen-pistil reproductive barriers Amanda K Broz|Rafael F Guerrero|April M Randle|You Soon Baek|Matthew W Hahn|Patricia A Bedinger Colorado State University;|Indiana University
http://dx.doi.org/10.1101/080804 2016-10-13 Evolutionary Biology Topological features of gene regulatory networks predict patterns of natural diversity in environmental response David L Des Marais|Rafael Guerrero|Jesse R Lasky|Samuel V Scarpino Harvard University;|Indiana University;|Pennsylvania State University.;|University of Vermont
http://dx.doi.org/10.1101/080689 2016-10-13 Genomics An improved de novo pipeline for enrichment of high diversity mitochondrial genomes from Amphibia to high-throughput sequencing Xing Chen|Kai He|Zhao-Li Ding|Gui-Mei Li|Adeniyi C. Adeola|Robert Murphy|Wen-Zhi Wang|Ya-Ping Zhang Kunming Institute of Zoology, Chinese Academy of Sciences;|Royal Ontario Museum
http://dx.doi.org/10.1101/080770 2016-10-13 Genetics CC BY The rate of false polymorphisms introduced when imputing genotypes from global imputation panels Ida Surakka|Antti-Pekka Sarin|Sanni E Ruotsalainen|Richard Durbin|Veikko Salomaa|Mark Daly|Aarno Palotie|Samuli Ripatti Institute for Molecular Medicine Finland (FIMM);|Sanger Institute;|National Institute for Health and Welfare;|Massachusetts General Hospital
http://dx.doi.org/10.1101/080796 2016-10-13 Genomics CC BY An improved assembly and annotation of the allohexaploid wheat genome identifies complete families of agronomic genes and provides genomic evidence for chromosomal translocations. Bernardo J. Clavijo|Luca Venturini|Christian Schudoma|Gonzalo Garcia Accinelli|Gemy Kaithakottil|Jonathan Wright|Philippa Borrill|George Kettleborough|Darren Heavens|Helen Chapman|James Lipcombe|Tom Barker|Fu-Hao Lu|Neil McKenzie|Dina Raats|Ricardo H. Ramirez Gonzalez|Aurore Coince|Ned Peel|Lawrence Percival-Alwyn|Owen Duncan|Josua Trosch|Goutai Yu|Dan Bolser|Guy Naamati|Arnaud Kerhornou|Manuel Spannagl|Heidrun Gundlach|Georg Haberer|Robert P. Davey|Christine Fosker|Federica Di Palma|Andrew Phillips|A. Harvey Millar|Paul J Kersey|Cristobal Uauy|Ksenia V Krasileva|David Swarbreck|Michael W Bevan|Matthew D Clark Earlham Institute;|John Innes Centre;|University of Western Australia;|EMBL European Bioinformatics Institute;|Helmholtz Zentrum Muenchen, Plant Genome and Systems Biology;|Rothamsted Research;|EMBL - The European Bioinformatics Institute
http://dx.doi.org/10.1101/080531 2016-10-13 Biophysics DNA Methylation Landscape Reflects the Spatial Organization of Chromatin in Different Cells Ling Zhang|Wen Jun Xie|Sirui Liu|Luming Meng|Chan Gu|Yi Qin Gao Peking University
http://dx.doi.org/10.1101/080754 2016-10-13 Bioinformatics CC BY-NC-ND InterPred: A pipeline to identify and model protein-protein interactions Bjorn Wallner|Claudio Mirabello Linkoping University
http://dx.doi.org/10.1101/080671 2016-10-13 Ecology CC BY Extracellular peptidases in subsurface sediments of the White Oak River estuary, NC, suggest microbial community adaptation to oxidize degraded organic matter Andrew Decker Steen|Richard T. Kevorkian|Jordan T. Bird|Nina Dombrowski|Brett J. Baker|Shane M. Hagen|Katherine H. Mulligan|Jenna M. Schmidt|Austen T. Webber|Marc J. Alperin University of Tennessee;|University of Texas-Austin;|Louisiana State University;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/080747 2016-10-13 Molecular Biology SIRVs: Spike-In RNA Variants as External Isoform Controls in RNA-Sequencing Lukas Paul|Petra Kubala|Gudrun Horner|Michael Ante|Igor Hollaender|Seitz Alexander|Torsten Reda Lexogen GmbH
http://dx.doi.org/10.1101/080465 2016-10-12 Systems Biology CC BY-NC-ND Analysis of noise mechanisms in cell size control Saurabh Kartik Modi|Cesar Augusto Vargas-Garcia|Khem Raj Ghusinga|Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/080648 2016-10-12 Cell Biology CC BY-NC The duration of mitosis and daughter cell size are modulated by nutrients in budding yeast Ricardo Mendes Leitao|Annie Pham|Douglas Kellogg University of California, Santa Cruz;|University of Colorado, Denver Anschutz Medical Campus
http://dx.doi.org/10.1101/080366 2016-10-12 Epidemiology CC BY A risk stratification approach for improved interpretation of diagnostic accuracy statistics Hormuzd Katki|Mark Schiffman National Cancer Institute
http://dx.doi.org/10.1101/080408 2016-10-12 Microbiology CC BY A bacterial chaperone is required for plastid function in malaria parasites Anat Florentin|David W Cobb|Jillian D Fishburn|Paul S Kim|Manuel A Fierro|Vasant Muralidharan University of Georgia
http://dx.doi.org/10.1101/080580 2016-10-12 Neuroscience CC BY-NC-ND Inferring exemplar discriminability in brain representations Hamed Nili|Alexander Walther|Arjen Alink|Nikolaus Kriegeskorte University of Oxord;|MRC CBSU;|University Medical Center Hamburg-Eppendorf;|Medical Research Council
http://dx.doi.org/10.1101/080374 2016-10-12 Neuroscience CC BY-NC-ND Human anterolateral entorhinal cortex volumes are associated with preclinical cognitive decline Rosanna K Olsen|Lok-Kin Yeung|Alix Noly-Gandon|Maria C D'Angelo|Arber Kacollja|Victoria Smith|Jennifer D Ryan|Morgan D Barense Baycrest;|University of Toronto
http://dx.doi.org/10.1101/080333 2016-10-12 Neuroscience CC BY-NC-ND Genetic,transcriptome, proteomic and epidemiological evidence for blood brain barrier disruption and polymicrobial brain invasion as determinant factors in Alzheimers disease. Chris J Carter PolygenicPathways
http://dx.doi.org/10.1101/080242 2016-10-12 Ecology CC BY-NC-ND A roadmap for a quantitative ecosystem-based environmental impact assessment Jennifer Coston-Guarini|Jean-Marc Guarini|Jody Edmunds|Shawn Hinz|Jeff Wilson|Laurent Chauvaud UMR-6539 LEMAR (UBO);|LIA BeBEST (UBO);|LimOce Environmental Consulting, Ltd.;|Gravity Environmental Consulting
http://dx.doi.org/10.1101/080598 2016-10-12 Neuroscience Cortical seizure propagation respects functional connectivity underlying sensory processing Luigi Federico Rossi|Robert C Wykes|Dimitri Kullman|Matteo Carandini University College London
http://dx.doi.org/10.1101/080317 2016-10-12 Neuroscience CC BY-NC-ND A shared representation of order between encoding and recognition in visual short-term memory Kristjan Kalm|Dennis Norris Medical Research Council
http://dx.doi.org/10.1101/079954 2016-10-12 Bioinformatics iCARE: An R Package to Build and Apply Absolute Risk Models Paige Maas|William Wheeler|Mark Brook|David Check|Montserrat Garcia-Closas|Nilanjan Chatterjee National Cancer Institute;|Information Management Services;|The Institute of Cancer Research;|The National Cancer Institute;|Johns Hopkins University
http://dx.doi.org/10.1101/080457 2016-10-12 Ecology CC BY-NC-ND MaxEnt′s parameter configuration and small samples: Are we paying attention to recommendations? Narkis S Morales|Ignacio C Fernandez|Victoria Baca-Gonzalez Macquarie University;|Arizona State University;|Universidad Complutense de Madrid
http://dx.doi.org/10.1101/080549 2016-10-12 Physiology CC BY-NC Lactobacillus plantarum favors the early emergence of fit and fertile adult Drosophila upon chronic undernutrition Melisandre Tefit|Francois Leulier Ecole Normale Superieure de Lyon
http://dx.doi.org/10.1101/080572 2016-10-12 Microbiology Functional analysis of a biosynthetic cluster essential for production of 4-formylaminooxyvinylglycine, a germination-arrest factor from Pseudomonas fluorescens WH6 Rachel Okrent|Kristin Trippe|Maciej Maselko|Viola Manning USDA ARS National Forage Seed Production Research Unit;|USDA ARS National Forage Seed Production Research Center
http://dx.doi.org/10.1101/079848 2016-10-12 Neuroscience Temporal and spatial localization of prediction-error signals in the visual brain Patrick Johnston|Jonathan Robinson|Athanasios Kokkinakis|Samuel Ridgeway|Michael Simpson|Sam Johnson|Andrew W Young QUT;|University of York;|York Neuroimaging Centre, University of York
http://dx.doi.org/10.1101/080606 2016-10-12 Evolutionary Biology CC BY-NC-ND Bayesian Analysis of Evolutionary Divergence with Genomic Data Under Diverse Demographic Models Yujin Chung|Jody Hey Temple University
http://dx.doi.org/10.1101/080556 2016-10-12 Cell Biology CC BY-NC-ND Microtubule stabilization drives centrosome migration to initiate primary ciliogenesis Amandine Pitaval|Fabrice Senger|Gaelle Letort|Xavier Gidrol|James Sillibourne|Manuel THERY CEA;|Hopital Saint Louis, CEA
http://dx.doi.org/10.1101/080226 2016-10-12 Microbiology CC BY-NC-ND In vivo bioluminescent imaging reveals temporal and spatial dynamics of giardiasis Nanelle Barash|Christopher Nosala|Jonathan K Pham|Shane G McInally|Stephane Gourguechon|Brendan McCarthy-Sinclair|Scott C Dawson University of California Davis;|University of California Berkeley
http://dx.doi.org/10.1101/079947 2016-10-12 Evolutionary Biology Sexual selection drives floral scent diversification in carnivorous pitcher plants (NA Sarraceniaceae) Winnie Ho|Nathan Kutz|Julienne Ng|Jeff Riffell University of Washington;|University of Colorado
http://dx.doi.org/10.1101/079996 2016-10-12 Ecology Temperature drives plant and soil microbial diversity patterns across an elevation gradient from the Andes to the Amazon Andrew Nottingham|Noah Fierer|Benjamin Turner|Jeanette Whitaker|Nick Ostle|Niall McNamara|Richard Bardgett|Jonathan Leff|Norma Salinas|Adan Ccahuana|Miles Silman|Patrick Meir University of Edinburgh;|University of Colorado;|Smithsonian Tropical Research Institute;|Centre of Ecology and Hydrology;|Lancaster Environment Centre;|The University of Manchester;|Pontificia Universidad Catolica del Peru;|Universidad Nacional de San Antonio Abad del Cusco;|Wake Forest University;|Australian National University
http://dx.doi.org/10.1101/080341 2016-10-12 Bioinformatics CC BY-ND De novo assembly of viral quasispecies using overlap graphs Jasmijn Baaijens|Amal Zine El Aabidine|Eric Rivals|Alexander Schoenhuth Centrum Wiskunde & Informatica;|LIRMM UMR 5506 CNRS Universite Montpellier II
http://dx.doi.org/10.1101/080325 2016-10-12 Animal Behavior and Cognition FUNCTIONAL MRI IN AWAKE DOGS PREDICTS SUITABILITY FOR ASSISTANCE WORK Gregory S. Berns|Andrew M. Brooks|Mark Spivak|Kerinne Levy Emory University;|Dog Star Technologies;|Canine Companions for Independence
http://dx.doi.org/10.1101/080200 2016-10-12 Bioinformatics CC BY deSPI: efficient classification of metagenomic reads with lightweight de Bruijn graph-based reference indexing Dengfeng Guan|Bo Liu|Yadong Wang Harbin Institute of Technology
http://dx.doi.org/10.1101/080267 2016-10-12 Neuroscience CC BY-NC-ND AN OSCILLATORY NETWORK MODEL OF HEAD DIRECTION, SPATIALLY PERIODIC CELLS AND PLACE CELLS USING LOCOMOTOR INPUTS Karthik Soman|Vignesh Muralidharan|Srinivasa Chakravarthy Indian Institute of Technology Madras
http://dx.doi.org/10.1101/080424 2016-10-12 Genetics CC BY-NC Rapid evolution of primate type 2 immune response factors linked to asthma susceptibility Matthew F. Barber|Elliot M. Lee|Hayden Griffin|Nels C. Elde University of Utah
http://dx.doi.org/10.1101/080143 2016-10-12 Genomics Identification of genetic variants affecting vitamin D receptor binding and associations with autoimmune disease Giuseppe Gallone|Wilfried Haerty|Giulio Disanto|Sreeram Ramagopalan|Chris P Ponting|Antonio J Berlanga-Taylor Wellcome Trust Sanger Institute;|Earlham Institute;|MRC Functional Genomics Unit, Oxford;|Evidera Inc.;|MRC Human Genetics Unit, University of Edinburgh;|MRC-PHE Centre for Environment and Health, Imperial College London
http://dx.doi.org/10.1101/080283 2016-10-12 Neuroscience Association of polygenic risk for major psychiatric illness with subcortical volumes and white matter integrity in UK Biobank Lianne M Reus|Xueyi Shen|Jude Gibson|Ella Wigmore|Lannie Ligthart|Mark J Adams|Gail Davies|Simon R Cox|Saskia P Hagenaars|Mark E Bastin|Ian J Deary|Heather C Whalley|Andrew M McIntosh University of Edinburgh;|Vrije universiteit
http://dx.doi.org/10.1101/080176 2016-10-12 Molecular Biology Lysine as a potential low molecular weight angiogen: its clinical, experimental and in-silico validation- A brief study Debatosh Datta|Priyanshu Verma|Anindita Banerjee|Sujoy Kar|Tanima Sengupta|Nalinava Sengupta|Sujoy Kumar Samanta|Enam Murshed Khan Apollo Gleneagles Hospital, Kolkata, India;|Indian Institute of Technology Patna;|ICARE Institute of Medical Sciences and Research, Haldia, India;|Epigen, Akershus Universitetssykehus, 1478 Lorenskog, Norway;|iNANOD AS, Oslo, Norway
http://dx.doi.org/10.1101/080168 2016-10-12 Evolutionary Biology CC BY-NC Contrasting patterns of genome-level diversity across distinct co-occurring bacterial populations Sarahi L Garcia|Sarah L. R Stevens|Benjamin Crary|Manuel Martinez-Garcia|Ramunas Stepanauskas|Tanja Woyke|Susannah G Tringe|Siv Andersson|Stefan Bertilsson|Rex R Malmstrom|Katherine D McMahon Uppsala University;|University of Wisconsin-Madison;|University of Alicante;|Bigelow Laboratory for Ocean Sciences;|DOE Joint Genome Institute;|University of Wisconsin Madison
http://dx.doi.org/10.1101/080291 2016-10-12 Evolutionary Biology CC BY-NC-ND Fast Inference of Individual Admixture Coefficients Using Geographic Data Kevin Caye|Flora Jay|Olivier Michel|Olivier Francois Universite Grenoble-Alpes;|Universite Paris Diderot
http://dx.doi.org/10.1101/079574 2016-10-12 Evolutionary Biology CC BY-NC-ND Using the Price equation to analyze multi-level selection on the reproductive policing mechanism of bacterial plasmids Kyriakos Kentzoglanakis|Sam P Brown|Richard A Goldstein University College London;|Georgia Institute of Technology
http://dx.doi.org/10.1101/080416 2016-10-12 Systems Biology CC BY-NC Single Cell Phenotyping Reveals Heterogeneity among Haematopoietic Stem Cells Following Infection Adam L MacLean|Maia A Smith|Juliane Liepe|Aaron Sim|Reema Khorshed|Nico Scherf|Axel Krinner|Ingo Roeder|Cristina Lo Celso|Michael PH Stumpf Imperial College London;|TU Dresden
http://dx.doi.org/10.1101/081018 2016-10-14 Neuroscience CC BY-NC-ND Discovering event structure in continuous narrative perception and memory Christopher Baldassano|Janice Chen|Asieh Zadbood|Jonathan W Pillow|Uri Hasson|Kenneth A Norman Princeton University
http://dx.doi.org/10.1101/081075 2016-10-14 Synthetic Biology CC BY-NC-ND BioBlocks: Programming protocols in biology made easier Vishal Gupta|Jesus Irimia|Ivan Pau|Alfonso Rodriguez-Paton Universidad Politecnica de Madrid
http://dx.doi.org/10.1101/081158 2016-10-14 Cancer Biology Extrachromosal DNA elements can drive disease evolution in glioblastoma Ana C deCarvalho|Hoon Kim|Laila M Poisson|Mary E Winn|Claudius Mueller|David Cherba|Julie Koeman|Sahil Seth|Alexei Protopopov|Michelle Felicella|Siyuan Zheng|Jianhua Zhang|Emmanuel F Petricoin|Lynda Chin|Tom Mikkelsen|Roel Verhaak Henry Ford Hospital;|The Jackson Laboratory for Genomic Medicine;|Van Andel Research Institute;|George Mason University;|University of Texas MD Anderson Cancer Center;|Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/081117 2016-10-14 Genetics CC BY-NC Protected corridors preserve tiger genetic diversity and minimize extinction into the next century Prachi Thatte|Aditya Joshi|Srinivas Vaidyanathan|Uma Ramakrishnan National Center for Biological Sciences;|Wildlife Conservation Trust;|Foundation for Ecological Research, Advocacy and Learning
http://dx.doi.org/10.1101/081091 2016-10-14 Animal Behavior and Cognition Putting bandits into context: How function learning supports decision making Eric Schulz|Emmanouil Konstantinidis|Maarten Speekenbrink University College London;|University of New South Wales
http://dx.doi.org/10.1101/081174 2016-10-14 Neuroscience CC BY-NC-ND Temporal order of Alzheimer's disease-related cognitive marker changes in BLSA and WRAP longitudinal studies Murat Bilgel|Rebecca L Koscik|Yang An|Jerry L Prince|Susan M Resnick|Sterling C Johnson|Bruno M Jedynak National Institute on Aging;|University of Wisconsin School of Medicine and Public Health;|Johns Hopkins University;|Portland State University
http://dx.doi.org/10.1101/080507 2016-10-14 Evolutionary Biology CC BY The coevolution of social learning and sensitivity to changing environments Richard McElreath MPI for Evolutionary Anthropology
http://dx.doi.org/10.1101/080564 2016-10-14 Bioinformatics CC BY-NC-ND ALTRE: workflow for defining ALTered Regulatory Elements using chromatin accessibility data Elizabeth Baskin|Rick Farouni|Ewy A. Mathè The Ohio State University
http://dx.doi.org/10.1101/081109 2016-10-14 Neuroscience CC BY-NC-ND Motivational, proteostatic and transcriptional deficits precede synapse loss, gliosis and neurodegeneration in the B6.HttQ111/+ model of Huntington's disease Robert M Bragg|Sydney R Coffey|Rory M Weston|Seth A Ament|Jeffrey P Cantle|Shawn Minnig|Cory C Funk|Dominic D Shuttleworth|Emily L Woods|Bonnie R Sullivan|Lindsey Jones|Anne Glickenhaus|John S Anderson|Michael D Anderson|Stephen B Dunnett|Vanessa C Wheeler|Marcy E MacDonald|Simon P Brooks|Nathan D Price|Jeffrey Bryan Carroll Behavioral Neuroscience Program, Department of Psychology, Western Washington University, Bellingham;|Department of Pharmacology and Toxicology, Virginia Commonwealth University, Richmond, VA, USA;|Institute for Systems Biology, Seattle, WA, USA;|The Brain Repair Group, Cardiff University School of Biosciences, Cardiff, Wales, UK;|Center for Human Genetic Research, Massachusetts General Hospital, Harvard Medical School, Boston;|Western Washington University
http://dx.doi.org/10.1101/080978 2016-10-14 Bioinformatics CC BY Benchmarking substrate-based kinase activity inference using phosphoproteomic data Claudia Hernandez-Armenta|David Ochoa|Emanuel Goncalves|Julio Saez-Rodriguez|Pedro Beltrao EMBL-EBI;|RWTH Aachen, Faculty of Medicine
http://dx.doi.org/10.1101/081125 2016-10-14 Neuroscience CC BY-NC-ND Field Potential Reflects the Balance of Synaptic Excitation and Inhibition Richard D Gao|Erik J Peterson|Bradley Voytek University of California, San Diego
http://dx.doi.org/10.1101/081083 2016-10-14 Neuroscience CC BY-NC-ND Sexually dimorphic differentiation of a C. elegans hub neuron is cell-autonomously controlled by a conserved transcription factor Esther Serrano Saiz|Meital Oren-Suissa|Emily Ann Bayer|Oliver Hobert Columbia University
http://dx.doi.org/10.1101/080960 2016-10-14 Microbiology CC BY-NC-ND Rapid and consistent evolution of colistin resistance in Pseudomonas aeruginosa during morbidostat culture Bianca Regenbogen|Matthias Willmann|Matthias Steglich|Boyke Bunk|Ulrich Nubel|Silke Peter|Richard A Neher Max Planck Institute for Developmental Biology, Tuebingen;|Institute of Medical Microbiology and Hygiene, University of Tuebingen;|Leibniz Institute DSMZ, Braunschweig
http://dx.doi.org/10.1101/080952 2016-10-14 Evolutionary Biology Grow with the flow: a latitudinal cline in physiology is associated with more variable precipitation in Mimulus cardinalis Christopher D Muir|Amy L Angert University of British Columbia
http://dx.doi.org/10.1101/080994 2016-10-14 Animal Behavior and Cognition Loss of the habenula neuromodulator Kisspeptin1 disrupts learning Charlotte Lupton|Mohini Sengupta|Ruey-Kuang Cheng|Joanne Chia|Vatsala Thirumalai|Suresh Jesuthasan University of Sheffield;|National Centre for Biological Sciences;|Lee Kong Chian School of Medicine, NTU;|National University of Singapore;|National Centre for Biological Sciences, India.;|Lee Kong Chian School of Medicine
http://dx.doi.org/10.1101/080788 2016-10-14 Bioinformatics CC BY-NC-ND Proteus: A Random Forest Classifier to Predict disorder-to-order Transitioning Binding Regions in Intrinsically Disordered Proteins. Sankar Basu|Fredrik Soderquist|Bjorn Wallner Linkoping University
http://dx.doi.org/10.1101/081026 2016-10-14 Bioinformatics Gist: an ensemble approach to the taxonomic classification of metatranscriptomic sequence data. Samantha Halliday|John Parkinson University of Toronto;|Hospital for Sick Children
http://dx.doi.org/10.1101/080895 2016-10-14 Cancer Biology CC BY-NC-ND Cell Dynamics in the Wound Healing Process in Tumor Environment After Treatments Leili Shahriyari The Ohio State University
http://dx.doi.org/10.1101/080937 2016-10-14 Neuroscience CC BY-ND Measurements of morphological and biochemical alterations in individual neuron cells associated with early neurotoxic effects in Parkinson's disease using optical diffraction tomography Su-A Yang|Jonghee Yoon|Kyoohyun Kim|YongKeun Park Korea Advanced Institute of Science and Technology
http://dx.doi.org/10.1101/081042 2016-10-14 Evolutionary Biology CC BY-NC-ND Evolutionary rescue in randomly mating, selfing, and clonal populations Hildegard Uecker ETH Zurich
http://dx.doi.org/10.1101/077768 2016-10-14 Ecology CC BY-ND Dynamics of the bacterial community associated with Phaeodactylum tricornutum cultures Fiona Wanjiku Moejes|Ovidiu Popa|Antonella Succurro|Julie Maguire|Oliver Ebenhoeh Heinrich Heine University Dusseldorf;|Daithi O'Murchu Marine Research Station
http://dx.doi.org/10.1101/080853 2016-10-14 Developmental Biology A shielded irradiation assay to investigate mechanisms of in vivo stem cell migration in planarians Prasad Abnave|Ellen Aboukhatwa|Nobuyoshi Kosaka|James Thompson|Mark Hill|Aziz Aboobaker University of Oxford
http://dx.doi.org/10.1101/080861 2016-10-14 Neuroscience CC BY-NC-ND A cryptography-based approach for movement decoding Eva L Dyer|Mohammad Gheshlaghi Azar|Hugo L Fernandes|Matthew Perich|Stephanie Naufel|Lee Miller|Konrad Kording Northwestern University
http://dx.doi.org/10.1101/074856 2016-10-14 Neuroscience CC BY-NC-ND Measuring and Modeling Transformations of Information Between Brain Regions with fMRI Stefano Anzellotti|Evelina Fedorenko|Alfonso Caramazza|Rebecca Saxe MIT;|Harvard University
http://dx.doi.org/10.1101/080986 2016-10-14 Ecology CC BY-NC-ND Low plastic ingestion rate in Atlantic Cod (Gadus morhua) from Newfoundland destined for human consumption collected through citizen science methods Max Liboiron|France Liboiron|Emily Wells|Natalie Richard|Alexander Zahara|Charles Mather|Hillary Bradshaw|Judyannet Murichi Memorial University of Newfoundland
http://dx.doi.org/10.1101/080903 2016-10-14 Bioinformatics AGFusion: annotate and visualize gene fusions Charlie Murphy|Olivier Elemento Weill Cornell Medicine
http://dx.doi.org/10.1101/081000 2016-10-14 Neuroscience CC BY High precision registration between zebrafish brain atlases using symmetric diffeomorphic normalization Gregory D. Marquart|Kathryn M. Tabor|Eric J. Horstick|Mary Brown|Harold A. Burgess National Institute of Child Health and Human Development
http://dx.doi.org/10.1101/080887 2016-10-14 Genetics Mcmdc2, a minichromosome maintenance (MCM) paralog, is required for repair of meiotic DNA breaks and homolog pairing in mouse meiosis Adrian J McNairn|Vera D Rinaldi|John C Schimenti Cornell Univ, United States;|Cornell Univ., United States
http://dx.doi.org/10.1101/080879 2016-10-14 Ecology CC BY-NC-ND Confronting preferential sampling in wildlife surveys: diagnosis and model-based triage Paul B Conn|James T Thorson|Devin S Johnson NOAA/AFSC Marine Mammal Lab;|NOAA/NWFSC
http://dx.doi.org/10.1101/081257 2016-10-15 Bioinformatics UNOISE2: improved error-correction for Illumina 16S and ITS amplicon sequencing Robert C Edgar Independent Scientist
http://dx.doi.org/10.1101/080846 2016-10-15 Microbiology CC BY-NC Structure and culture of the gut microbiome of the Mormon cricket Anabrus simplex Chad C Smith|Robert B Srygley|Frank Healy|Karthikeyan Swaminath University of Texas at Austin;|USDA-ARS Northern Plains Area Research Laboratory;|Trinity University
http://dx.doi.org/10.1101/081273 2016-10-15 Bioinformatics Take ACTION to identify high-resolution cell types and associated transcriptional pathways Shahin Mohammadi|Vikram Ravindra|David Gleich|Ananth Grama Purdue;|Purdue University
http://dx.doi.org/10.1101/081281 2016-10-15 Genetics CC BY-NC-ND Evaluating the accuracy of genomic prediction of growth and wood traits in two Eucalyptus species and their F1 hybrids Biyue Tan|Dario Grattapaglia|Gustavo Salgado Martins|Karina Zamprogno Ferreira|Bjorn Sundberg|Par K Ingvarsson Umeå university;|EMBRAPA Genetic Resources and Biotechnology;|Veracel Celulose S.A.;|Stora Enso;|Umeå University
http://dx.doi.org/10.1101/081067 2016-10-15 Epidemiology CC BY-NC-ND Modeling antimicrobial cycling and mixing: Differences arising from an individual-based versus a population-based perspective Hildegard Uecker|Sebastian Bonhoeffer ETH Zurich
http://dx.doi.org/10.1101/080713 2016-10-15 Genetics CC BY-NC Systematic Design and Comparison of Expanded Carrier Screening Panels Kyle A Beauchamp|Dale Muzzey|Kenny K Wong|Gregory J Hogan|Kambiz Karimi|Sophie I Candille|Nikita Mehta|Rebecca Mar-Heyming|H. Peter Kang|Eric A Evans|James D Goldberg|Gabriel A Lazarin|Imran S Haque Counsyl
http://dx.doi.org/10.1101/081141 2016-10-15 Genomics CC BY-NC-ND A comparative study of metagenomics analysis pipelines at the species level Yee Voan Teo|Nicola Neretti Brown University
http://dx.doi.org/10.1101/081232 2016-10-16 Epidemiology A broad sense measure of health and its properties in the HRS Phillip A. Cantu|Connor M. Sheehan|Ben W. Domingue Population Research Center and Department of Sociology, University of Texas at Austin;|Stanford Graduate School of Education
http://dx.doi.org/10.1101/081265 2016-10-16 Bioinformatics Identification of new bacterial type III secreted effectors with a recursive Hidden Markov Model profile-alignment strategy Xi Cheng|Xinjie Hui|Aaron P. White|Zhirong Guo|Yueming Hu|Yejun Wang Shenzhen University Health Science Center;|University of Saskatchewan;|Beijing Chest Hospital
http://dx.doi.org/10.1101/081240 2016-10-16 Neuroscience CC BY-NC Ring attractor dynamics emerge from a spiking model of the entire protocerebral bridge Kyobi S Kakaria|Benjamin L de Bivort Harvard University
http://dx.doi.org/10.1101/081182 2016-10-16 Genomics CC BY-NC-ND Chromosomal dynamics predicted by an elastic network model explains genome-wide accessibility and long-range couplings Natalie Sauerwald|She Zhang|Carl Kingsford|Ivet Bahar Carnegie Mellon University;|University of Pittsburgh
http://dx.doi.org/10.1101/081356 2016-10-16 Neuroscience CC BY-NC-ND Complete coverage of space favors modularity of the grid system in the brain Alessandro Sanzeni|Vijay Balasubramanian|Guido Tiana|Massimo Vergassola University of Milan;|University of Pennsylvania;|University of Milan and INFN;|University of California San Diego
http://dx.doi.org/10.1101/080929 2016-10-16 Systems Biology Systems assessment of transcriptional regulation on central carbon metabolism by Cra and CRP Donghyuk Kim|Sang Woo Seo|Hojung Nam|Gabriela I. Guzman|Ye Gao|Bernhard O. Palsson Kyung Hee University;|Seoul National Unviersity;|GIST;|University of California, San Diego
http://dx.doi.org/10.1101/081307 2016-10-16 Evolutionary Biology CC BY-NC-ND The hidden elasticity of avian and mammalian genomes Aurelie Kapusta|Alexander Suh|Cedric Feschotte University of Utah School of Medicine;|Uppsala University;|University of Utah
http://dx.doi.org/10.1101/080432 2016-10-16 Genetics A sensitized mutagenesis screen in Factor V Leiden mice identifies novel thrombosis suppressor loci Randal J Westrick|Kart Tomberg|Amy E Siebert|Guojing Zhu|Mary E Winn|Sarah L Dobies|Sara L Manning|Marisa A Brake|Audrey Cleuren|Lena M Mishack|Linzi M Hobbs|Alexander Johnston|David R Siemieniak|Jishu Xu|Jun Z Li|David Ginsburg Oakland University;|University of Michigan;|Department of Biological Sciences, Oakland University;|Howard Hughes Medical Institute
http://dx.doi.org/10.1101/081216 2016-10-16 Evolutionary Biology Pervasive adaptation in Plasmodium-interacting proteins in mammals Emily R Ebel|Natalie Telis|Sandeep Venkataram|David Enard|Dmitri Petrov Stanford University
http://dx.doi.org/10.1101/081166 2016-10-16 Neuroscience CC BY Measuring speaker-listener neural coupling with functional near infrared spectroscopy Yichuan Liu|Elise A. Piazza|Erez Simony|Patricia A. Shewokis|Banu Onaral|Uri Hasson|Hasan Ayaz Drexel University;|Princeton University;|Princeton Neuroscience Institute;|Drexel University; University of Pennsylvania; Children's Hospital of Philadelphia
http://dx.doi.org/10.1101/081208 2016-10-16 Neuroscience CC BY-NC-ND How we transmit memories to other brains: constructing shared neural representations via communication Asieh Zadbood|Janice Chen|Yuan Chang Leong|Kenneth A. Norman|Uri Hasson Princeton Neuroscience Institute and Department of Psychology, Princeton University, Princeton, NJ,;|Department of Psychology, Stanford University, Stanford, CA, 94305, USA.
http://dx.doi.org/10.1101/081646 2016-10-17 Biophysics CC BY Flexibility and design: conformational heterogeneity along the evolutionary trajectory of a redesigned ubiquitin Justin T Biel|Michael C Thompson|Christian N Cunningham|Jacob E Corn|James S Fraser UCSF;|Genentech;|UC Berkeley
http://dx.doi.org/10.1101/081570 2016-10-17 Evolutionary Biology CC BY-NC-ND Hierarchical Evolutionary Preferences Explain Discrepancies in Expected Utility Theory Michael Holton Price|James Holland Jones Pennsylvania State University;|Stanford University
http://dx.doi.org/10.1101/081513 2016-10-17 Neuroscience CC BY-NC Neuropilin 1 sequestration by neuropathogenic mutant glycyl-tRNA synthetase is permissive to vascular development and homeostasis James Nicholas Sleigh|Adriana Gomez-Martin|Giampietro Schiavo University College London
http://dx.doi.org/10.1101/081448 2016-10-17 Genomics CC BY FISH-ing for captured contacts: towards reconciling FISH and 3C Geoff Fudenberg|Maxim Imakaev MIT
http://dx.doi.org/10.1101/081596 2016-10-17 Bioinformatics CC BY-NC-ND Overlapping long sequence reads: Current innovations and challenges in developing sensitive, specific and scalable algorithms Justin Chu|Hamid Mohamadi|Rene Warren|Chen Yang|Inanc Birol Michael Smith Genome Sciences Centre
http://dx.doi.org/10.1101/081547 2016-10-17 Evolutionary Biology CC BY-NC Asexual but not clonal: evolutionary processes in populations with automictic reproduction Jan Engelstaedter The University of Queensland, Australia
http://dx.doi.org/10.1101/081612 2016-10-17 Genomics CC BY-NC-ND The effects of increasing the number of taxa on inferences of molecular convergence Gregg W.C. Thomas|Matthew W. Hahn|Yoonsoo Hahn Indiana University Bloomington;|Chung-Ang University
http://dx.doi.org/10.1101/080515 2016-10-17 Biophysics A Probabilistic Approach to the Detection and Diagnosis of Obstructive Sleep Apnea and Its Environmental Factors Using Chest Movement Analysis, Recursive Noise Reduction and Machine Learning Algorithms. Raj Ramnani|Anshul Tripathi Jayshree Periwal International School;|PACE Junior Science College
http://dx.doi.org/10.1101/081455 2016-10-17 Microbiology CC BY-NC-ND Aer is a family of Energy-Taxis Receptors in Pseudomonas which also involves Aer-2 and CttP Sean Booth|Raymond J Turner University of Calgary
http://dx.doi.org/10.1101/081414 2016-10-17 Physiology CC BY-NC-ND Refinement of intraperitoneal injection of sodium pentobarbital for euthanasia in laboratory rats (Rattus norvegicus) K Zatroch|C G Knight|J Reimer|Daniel SJ Pang CARE Centre Animal Hospital;|Veterinary Clinical & Diagnostic Sciences, University of Calgary;|University of Calgary
http://dx.doi.org/10.1101/081554 2016-10-17 Genomics CC BY Whole genome resequencing of a laboratory-adapted Drosophila melanogaster population sample William P. Gilks|Tanya M Pennell|Ilona Flis|Matthew T Webster|Edward H. Morrow University of Sussex;|University of Uppsala
http://dx.doi.org/10.1101/081380 2016-10-17 Bioinformatics CC BY-NC FIDDLE: An integrative deep learning framework for functional genomic data inference Umut Eser|L. Stirling Churchman Harvard Medical School
http://dx.doi.org/10.1101/081620 2016-10-17 Genomics CC BY-NC-ND Rapid evolution of female-biased genes among four species of Anopheles malaria mosquitoes Francesco Papa|Nikolai Windbichler|Robert M. Waterhouse|Alessia Cagnetti|Rocco D'Amato|Tania Presampieri|Mara K.N. Lawniczak|Tony Nolan|Philippos Aris A. Papathanos University of Perugia;|Imperial College London;|University of Geneva Medical School and Swiss Institute of Bioinformatics; MIT;|University of Perugia and PoloGGB;|Welcome Trust Sanger Institute
http://dx.doi.org/10.1101/081505 2016-10-17 Genetics SweGen: A whole-genome map of genetic variability in a cross-section of the Swedish population Adam Ameur|Johan Dahlberg|Pall Olason|Francesco Vezzi|Robert Karlsson|Par Lundin|Huiwen Che|Jessada Thutkawkorapin|Andreas Kusalananda Kahari|Mats Dahlberg|Johan Viklund|Jonas Hagberg|Niclas Jareborg|Inger Jonasson|Asa Johansson|Sverker Lundin|Daniel Nilsson|Bjorn Nystedt|Patrik Magnusson|Ulf Gyllensten Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University;|Science for Life Laboratory, Department of Medical Sciences, Molecular Medicine, Uppsala University;|Science for Life Laboratory, Department of Cell and Molecular Biology, Uppsala University;|Science for Life Laboratory, Department of Biochemistry and Biophysics (DBB), Stockholm University;|Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm;|Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University,;|Department of Molecular Medicine and Surgery, Karolinska Institutet, Stockholm;|Science for Life Laboratory, Division of Gene Technology, Royal Institute of Technology, Stockholm
http://dx.doi.org/10.1101/081604 2016-10-17 Neuroscience The effect of acquisition resolution on orientation decoding from V1 BOLD fMRI at 7 Tesla Ayan Sengupta|Renat Yakupov|Oliver Speck|Stefan Pollmann|Michael Hanke Otto-von-Guericke-University Magdeburg
http://dx.doi.org/10.1101/081430 2016-10-17 Synthetic Biology CC BY-NC-ND A two-state photoconversion model predicts the spectral response dynamics of optogenetic systems Evan J Olson|Constantine N Tzouanas|Jeffrey J Tabor Rice University
http://dx.doi.org/10.1101/081463 2016-10-17 Bioinformatics CC BY-NC Automatic time-series phenotyping using massive feature extraction Ben D Fulcher|Nick S Jones Monash University;|Imperial College London
http://dx.doi.org/10.1101/081323 2016-10-17 Genomics CC BY HOMINID: A framework for identifying associations between host genetic variation and microbiome composition Joshua Lynch|Karen Tang|Joanna Sands|Margaret Sands|Evan Tang|Sayan Mukherjee|Dan Knights|Ran Blekhman University of Minnesota;|Duke University
http://dx.doi.org/10.1101/080499 2016-10-17 Bioengineering A Pilot Study: Development of a Reference Spatiotemporal Gait Data Set for Indian Subjects. Raj Ramnani|Pooja Mukul|Siddhant Jain|Abhishek Tripathi Jayshree Periwal International School;|Bhagwan Mahaveer Viklang Sahatya Samiti
http://dx.doi.org/10.1101/081349 2016-10-17 Neuroscience CC BY-NC-ND Hierarchical Frequency Tagging reveals neural markers of predictive coding under varying uncertainty Noam Gordon|Roger Koenig-Robert|Naotsugu Tsuchiya|Jeroen vanBoxtel|Jakob Hohwy Monash University;|The University of New South Wales
http://dx.doi.org/10.1101/081299 2016-10-17 Biophysics CC BY-NC-ND Collapse Precedes Folding in Denaturant-Dependent Assembly of Ubiquitin Dave Thirumalai|Govardhan Reddy University of Texas at Austin;|Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/081539 2016-10-17 Neuroscience Shared neural basis for experiencing the beauty of human faces and visual art: Evidence from a meta-analyses of fMRI studies Chuan-Peng Hu|Yi Huang|Simon B Eickhoff|Kaiping Peng|Jie Sui Tsinghua University;|Institute of Neuroscience and Medicine (INM-1), Research Center Julich;|University of Bath
http://dx.doi.org/10.1101/081521 2016-10-17 Plant Biology CC BY-NC-ND Artificial Microbiome-Selection to Engineer Microbiomes That Confer Salt-Tolerance to Plants Ulrich G Mueller|Thomas Juenger|Melissa Kardish|Alexis Carlson|Kathleen Burns|Chad Smith|David De Marais University of Texas at Austin
http://dx.doi.org/10.1101/080382 2016-10-17 Bioinformatics Semi-automated genome annotation using epigenomic data and Segway Eric G. Roberts|Mickael Mendez|Coby Viner|Mehran Karimzadeh|Rachel C. W. Chan|Rachel Ancar|Davide Chicco|Jay R. Hesselberth|Anshul Kundaje|Michael M. Hoffman Princess Margaret Cancer Centre;|University of Toronto;|University of British Columbia;|University of Colorado School of Medicine;|Stanford University
http://dx.doi.org/10.1101/081422 2016-10-17 Microbiology Deconstructing cell size control into physiological modules in Escherichia coli Fangwei Si|Dongyang Li|Sarah E Cox|John T Sauls|Omid Azizi|Amy B Schwartz|Michael J Erickstad|Yonggun Jun|Xintian Li|Suckjoon Jun Department of Physics, University of California San Diego;|Section of Molecular Biology, Division of Biology, University of California San Diego;|Department of Bioengineering, University of California San Diego
http://dx.doi.org/10.1101/081398 2016-10-17 Neuroscience CC BY-NC-ND Hypercomplex properties of Drosophila object detecting neurons Mehmet F Keles|Mark A Frye UCLA
http://dx.doi.org/10.1101/081497 2016-10-17 Physiology The Divisive-Normalization Model of V1 Neurons: A Comprehensive Comparison of Physiological Data and Model Predictions Tadamasa Sawada|Alexander A. Petrov Higher School of Economics;|Ohio State University
http://dx.doi.org/10.1101/081364 2016-10-17 Cell Biology CC BY-NC-ND Deep Learning for Imaging Flow Cytometry: Cell Cycle Analysis of Jurkat Cells Philipp Eulenberg|Niklas Koehler|Thomas Blasi|Andrew Filby|Anne E. Carpenter|Paul Rees|Fabian J. Theis|F. Alexander Wolf Helmholtz Center Munich;|Newcastle University;|Broad Institute of Harvard and MIT;|Swansea University
http://dx.doi.org/10.1101/079558 2016-10-17 Biophysics CC BY-NC-ND Hi-C-constrained physical models of human chromosomes recover functionally-related properties of genome organization Marco Di Stefano|Jonas Paulsen|Tonje G. Lien|Eivind Hovig|Cristian Micheletti CNAG-CRG;|University of Oslo - Faculty of Medicine;|University of Oslo - Department of Mathematics;|University of Oslo - Department of Informatics;|SISSA
http://dx.doi.org/10.1101/081471 2016-10-17 Neuroscience Oscillatory integration windows in neurons Nitin Gupta|Swikriti Saran Singh|Mark Stopfer Indian Institute of Technology Kanpur;|NIH
http://dx.doi.org/10.1101/081794 2016-10-18 Plant Biology CC BY Tomographic docking suggests the mechanism of auxin receptor TIR1 selectivity Veselina V. Uzunova|Mussa Quareshy|Charo del Genio|Richard Napier University of Warwick
http://dx.doi.org/10.1101/081778 2016-10-18 Evolutionary Biology CC BY-NC-ND Challenging the Raunkiaeran shortfall and the consequences of using imputed databases Lucas Lacerda Caldas Zanini Jardim|Luis M. Bini|Jose Alexandre F. Diniz-Filho|Fabricio Villalobos Universidade Federal de Goiás;|Universidade Federal de Goiás, Instituto de Ecología, A. C.
http://dx.doi.org/10.1101/081729 2016-10-18 Systems Biology CC BY-ND Design Specifications for Cellular Regulation David C. Krakauer|Lydia Mueller|Sonja J. Prohaska|Peter F. Stadler Santa Fe Institute;|University Leipzig
http://dx.doi.org/10.1101/081695 2016-10-18 Neuroscience CC BY-NC-ND Network Dynamics Theory of Human Intelligence Aki Nikolaidis|Aron Barbey Child Mind Institute;|University of Illinois at Urbana Champaign
http://dx.doi.org/10.1101/081661 2016-10-18 Neuroscience Inferring the brain's internal model from sensory responses in a probabilistic inference framework Richard D Lange|Ralf M Haefner University of Rochester
http://dx.doi.org/10.1101/081745 2016-10-18 Bioinformatics CC BY-NC-ND Functional determinants of protein assembly into homomeric complexes Therese Bergendahl|Joseph A Marsh University of Edinburgh
http://dx.doi.org/10.1101/081786 2016-10-18 Bioinformatics CC BY-NC SWALO: scaffolding with assembly likelihood optimization Atif Rahman|Lior Pachter University of California, Berkeley;|U.C. Berkeley
http://dx.doi.org/10.1101/081711 2016-10-18 Genetics CC BY-ND Improving power for rare variant tests by integrating external controls Seunggeun Lee|Sehee Kim|Christian Fuchsberger University of Michigan
http://dx.doi.org/10.1101/081489 2016-10-18 Ecology CC BY Extinction rate has a complex and non-linear relationship with area Petr Keil|Juliano S Cabral|Jonathan Chase|Ines S Martins|Felix May|Henrique M Pereira|Marten Winter German Centre for Integrative Biodiversity Research (iDiv), Halle-Jena-Leipzig;|Ecosystem Modeling, Center for Computational and Theoretical Biology (CCTB), University of Wuerzburg
http://dx.doi.org/10.1101/080440 2016-10-17 Biochemistry CC BY-NC-ND The large terminase DNA packaging motor grips DNA with its ATPase domain for cleavage by the flexible nuclease domain Brendan J. Hilbert|Janelle A. Hayes|Nicholas P. Stone|Rui-Gang Xu|Brian A. Kelch University of Massachusetts Medical School;|University of York
http://dx.doi.org/10.1101/066258 2016-10-19 Evolutionary Biology CC BY-NC-ND Climate change promotes hybridisation between deeply divergent species of European toads Daniele Canestrelli|Roberta Bisconti|Andrea Chiocchio|Luigi Maiorano|Mauro Zampiglia|Giuseppe Nascetti Tuscia University;|University of Rome La Sapienza
http://dx.doi.org/10.1101/082016 2016-10-19 Evolutionary Biology CC BY-NC Natural selection and maladaptive plasticity in the red-shouldered soapberry bug Meredith Cenzer University of California, Davis
http://dx.doi.org/10.1101/081950 2016-10-19 Evolutionary Biology CC BY De-novo emergence and template switching of SINE retroposons during the early evolution of passerine birds Alexander Suh|Sandra Bachg|Stephen Donnellan|Leo Joseph|Juergen Brosius|Jan Ole Kriegs|Juergen Schmitz Uppsala University;|University of Muenster;|South Australian Museum;|CSIRO National Research Collections Australia;|LWL-Museum fuer Naturkunde Muenster
http://dx.doi.org/10.1101/081927 2016-10-19 Neuroscience SimTracker tool and code template to design, manage and analyze neural network model simulations in parallel NEURON Marianne Bezaire|Ivan Raikov|Kelly Burk|Caren Armstrong|Ivan Soltesz Boston University;|Stanford;|UC Irvine
http://dx.doi.org/10.1101/082008 2016-10-19 Molecular Biology CC BY-NC-ND Pif1-family helicases cooperate to suppress widespread replication fork arrest at tRNA genes Joseph S Osmundson|Jayashree Kumar|Rani Yeung|Duncan J Smith New York University
http://dx.doi.org/10.1101/081752 2016-10-19 Neuroscience CC BY-NC-ND Activity Dynamics and Signal Representation in Striatal Network Model with Distance-dependent Connectivity Sebastian Spreizer|Martin Angelhuber|Jyotika Bahuguna|Ad Aertsen|Arvind Kumar University of Freiburg;|Research Centre Juelich;|KTH Royal Institute of Technology
http://dx.doi.org/10.1101/082024 2016-10-19 Genetics CC BY-NC-ND Linkage disequilibrium dependent architecture of human complex traits reveals action of negative selection Steven Gazal|Hilary Finucane|Nicholas A Furlotte|Po-Ru Loh|Pier Francesco Palamara|Xuanyao Liu|Armin Schoech|Brendan Bulik-Sullivan|Benjamin M Neale|Alexander Gusev|Alkes L Price Harvard T.H. Chan School of Public Health;|23andMe, Inc. Mountain View, California;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/081844 2016-10-19 Genetics CC BY-NC-ND Genome-wide meta-analysis of cognitive empathy: heritability, and correlates with sex, neuropsychiatric conditions and brain anatomy Varun Warrier|Katrina Grasby|Florina Uzefovsky|Roberto Toro|Paula Smith|Bhismadev Chakrabarti|Jyoti Khadake|Nadia Litterman|Jouke-Jan Hottenga|Gitta Lubke|Dorret I Boomsma|Nicholas G Martin|Peter K Hatemi|Sarah E Medland|David A Hinds|Thomas Bourgeron|Simon Baron-Cohen University of Cambridge;|QIMR Berghofer Medical Research Institute, Brisbane, Australia.;|Autism Research Centre, University of Cambridge;|Institut Pasteur;|University of Reading;|NIHR Cambridge BioResource;|23andMe;|Vrije Universiteit Amsterdam;|QIMR Berghofer Medical Research Institute, Brisbane, Australia;|Political Science,Microbiology and Biochemistry, Pennsylvania State University;|23andMe Inc.,
http://dx.doi.org/10.1101/081653 2016-10-19 Systems Biology Dynamic proteomics of HSV1 infection reveals molecular events that govern non-stochastic infection outcomes Nir Drayman|Omer Karin|Avi Mayo|Tamar Danon|Lev Shapira|Oren Kobiler|Uri Alon Weizmann Institute of Science;|Tel-Aviv University
http://dx.doi.org/10.1101/081968 2016-10-19 Neuroscience CC BY Reactive Oxygen Species Regulate Activity-Dependent Neuronal Structural Plasticity Matthew C W Oswald|Paul S Brooks|Maarten F Zwart|Amrita Mukherjee|Ryan J H West|Khomgrit Morarach|Sean T Sweeney|Matthias Landgraf University of Cambridge;|HHMI Janelia Research Campus;|University of York;|Khomgrit Morarach1
http://dx.doi.org/10.1101/081935 2016-10-19 Bioinformatics CC BY-NC-ND Combining transcription factor binding affinities with open-chromatin data for accurate gene expression prediction Florian Schmidt|Nina Gasparoni|Gilles Gasparoni|Kathrin Gianmoena|Cristina Cadenas|Julia K. Polansky|Peter Ebert|Karl Nordstroem|Matthias Barann|Anupam Sinha|Sebastian Froehler|Jieyi Xiong|Azim Dehghani Amirabad|Fatemeh Behjati Ardakani|Barbara Hutter|Gideon Zipprich|Baerbel Felder|Juergen Eils|Benedikt Brors|Wei Chen|Jan G. Hengstler|Alf Hamann|Thomas Lengauer|Philip Rosenstiel|Joern Walter|Marcel H. Schulz Cluster of Excellence on Multimodal Computing and Interaction, Saarland University;|Department of Genetics, Saarland University;|Leibniz Research Centre for Working Environment and Human Factors IfADo;|Experimental Rheumatology, German Rheumatism Research Centre;|Computational Biology & Applied Algorithmics, Max Planck Institute for Informatics;|Institute of Clinical Molecular Biology, Christian-Albrechts-University Kiel;|Berlin Institute for Medical Systems Biology, Max-Delbrueck Center for Molecular Medicine;|Applied Bioinformatics, Deutsches Krebsforschungszentrum;|Data Management and Genomics IT, Deutsches Krebsforschungszentrum;|Leibniz Research Centre for Working Environment and Human Factors, IfADo;|Institute of Clinical Molecular Biology, Christian-Albrects-University Kiel
http://dx.doi.org/10.1101/081869 2016-10-19 Developmental Biology A regulated environment for micro-organs defines essential conditions for intercellular Ca2+ waves Cody E Narciso|Nicholas M Contento|Thomas J Storey|David J Hoelzle|Jeremiah J Zartman University of Notre Dame;|The Ohio State University
http://dx.doi.org/10.1101/081943 2016-10-19 Biophysics ULTRAFAST LASER-PROBING SPECTROCOPY FOR STUDYING MOLECULAR STRUCTURE OF POLYMERIC PROTEINS Huihun Jung|Chester Szwejkowski|Abdon Pena-Francesch|Benjamin Allen|Sahin Ozdemir|Patrick Hopkins|Melik Demirel Penn State;|University of Virginia;|Washington University, St. Louis
http://dx.doi.org/10.1101/081885 2016-10-19 Genomics CC BY-NC-ND Contamination as a major factor in poor Illumina assembly of microbial isolate genomes Haeyoung Jeong|Jae-Goo Pan|Seung-Hwan Park Korea Research Institute of Bioscience and Biotechnology
http://dx.doi.org/10.1101/082131 2016-10-20 Microbiology CC BY-NC-ND First report of the East-Central South African Genotype of Chikungunya Virus in Rio de Janeiro, Brazil Thiara Manuele de Souza|Elzinandes Leal de Azeredo|Jessica Badolato Correa da Silva|Paulo Vieira Damasco|Carla Cunha Santos|Fabienne Petitinga de Paiva|Priscila Conrado Guerra Nunes|Luciana Santos Barbosa|Marcio da Costa Cipitelli|Thais Chouin Carneiro|Nieli Rodrigues da Costa Faria|Rita Maria Ribeiro Nogueira|Fernanda de Bruycker-Nogueira|Flavia Barreto dos Santos Oswaldo Cruz Institute;|Oswalco Druz Institute;|UNIRIO, UERJ and Rio Laranjeiras Hospital;|Rio Laranjeiras Hospital
http://dx.doi.org/10.1101/082156 2016-10-20 Microbiology CC BY-NC Effect of common and experimental anti-tuberculosis treatments on Mycobacterium tuberculosis growing as biofilms James P Dalton|Benedict Uy|Narisa Phummarin|Brent R Copp|William A Denny|Simon Swift|Siouxsie Wiles University of Auckland
http://dx.doi.org/10.1101/081331 2016-10-20 Biochemistry A novel mechanism of ″metal gel-shift″ by histidine-rich Ni2+-binding Hpn protein from Helicobacter pylori strain SS1 Rahul Mahadev Shelake|Yuki Ito|Junya Masumoto|Eugene Hayato Morita|Hidenori Hayashi Proteo-Science Center, Ehime University, Matsuyama, 7908577, Japan;|Ehime University, Matsuyama, 790856 and Josai University, Saitama, 3500295, Japan
http://dx.doi.org/10.1101/082081 2016-10-20 Bioinformatics CC BY-ND Lowest expressing microRNAs capture indispensable information - identifying cancer types Roni Rasnic|Nathan Linial|Michal Linial The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/082107 2016-10-20 Microbiology CC BY-NC-ND Population diversity jeopardizes the efficacy of antibiotic cycling Yunxin J Jiao|Michael Baym|Adrian Veres|Roy Kishony Harvard Medical School;|Technion -- Israel Institute of Technology
http://dx.doi.org/10.1101/082032 2016-10-20 Bioinformatics The E. coli molecular phenotype under different growth conditions MEHMET UMUT UMUT CAGLAR|JOHN R HOUSER|Craig S. Barnhart|Daniel R. Boutz|Sean M. Carroll|Aurko Dasgupta|Walter F. Lenoir|Bartram L. Smith|Viswanadham Sridhara|Dariya K. Sydykova|Drew Vander Wood|Christopher J. Marx|Edward M. Marcotte|Jeffrey E. Barrick|Claus O. Wilke UNIVERSITY OF TEXAS AT AUSTIN;|UC SAN DIEGO HEALTH SCIENCES;|ATRECA INC;|WASHINGTON UNIVERSITY IN ST. LOUIS;|CHAN SOON-SHIONG INSTITUTE OF MOLECULAR MEDICINE;|UNIVERSITY OF IDAHO
http://dx.doi.org/10.1101/081984 2016-10-20 Animal Behavior and Cognition CC BY-NC Modelling avoidance in pathologically anxious humans using reinforcement-learning Anahit Mkrtchian|Jessica Aylward|Peter Dayan|Jonathan P Roiser|Oliver J Robinson UCL
http://dx.doi.org/10.1101/082255 2016-10-20 Neuroscience CC BY-NC Potent optogenetic inhibition of behavior with anion channelrhodopsins Farhan Mohammad|James Stewart|Stanislav Ott|Katarina Chlebikova|Jia Yi Chua|Tong-Wey Koh|Joses Ho|Adam Claridge-Chang Duke-NUS Medical School;|Institute of Molecular and Cell Biology;|Temasek Life Sciences Laboratory
http://dx.doi.org/10.1101/082230 2016-10-20 Microbiology CC BY-NC-ND The fitness of Pseudomonas aeruginosa quorum sensing signal cheats is influenced by the diffusivity of the environment Anne Mund|Stephen P Diggle|Freya Harrison Centre for Mathematics, Technical University of Munich;|Centre for Biomolecular Sciences, School of Life Sciences, University of Nottingha;|School of Life Sciences, University of Warwick
http://dx.doi.org/10.1101/082099 2016-10-20 Systems Biology CC BY-NC Network inference and hypotheses-generation from single-cell transcriptomic data using multivariate information measures Thalia E Chan|Michael Stumpf|Ann C Babtie Imperial College London
http://dx.doi.org/10.1101/082222 2016-10-20 Developmental Biology Chimeric Genes Revealed in the Polyploidy Fish Hybrids of Carassius cuvieri (Female) × Megalobrama amblycephala (Male) Fangzhou Hu|Chang Wu|Yunfan Zhou|Shi Wang|Jun Xiao|Yanhong Wu|Kang Xu|Li Ren|Qingfeng Liu|Wuhui Li|Ming Wen|Min Tao|Qinbo Qin|Rurong Zhao|Kaikun Luo|Shaojun Liu Hunan Normal University, China
http://dx.doi.org/10.1101/082115 2016-10-20 Ecology CC BY-NC-ND Quantifying predator dependence in the functional response of generalist predators. Mark Novak|Christopher Wolf|Kyle E Coblentz|Isaac Shepard Oregon State University
http://dx.doi.org/10.1101/082065 2016-10-20 Genomics CC BY-ND Transcriptional landscape of cell lines and their tissues of origin Camila Miranda Lopes-Ramos|Joseph N Paulson|Cho-Yi Chen|Marieke L Kuijjer|Maud Fagny|John Platig|Abhijeet R Sonawane|Dawn L DeMeo|John Quackenbush|Kimberly Glass Harvard T.H. Chan School of Public Health; Dana-Farber Cancer Institute;|Channing Division of Network Medicine, Brigham and Women's Hospital, and Harvard Medical School
http://dx.doi.org/10.1101/082305 2016-10-20 Microbiology Metabolomic and proteomic analyses of a quiescent Escherichia coli cell factory reveal the mechanisms behind its production efficiency Nicholas M Thomson|Tomokazu Shirai|Marco Chiapello|Akihiko Kondo|Krishnan J Mukherjee|Easan Sivaniah|David K Summers|Keiji Numata University of Cambridge;|Riken, Cell Factory Research Team;|Jawaharlal Nehru University;|Kyoto University;|Riken, Enzyme Research Team
http://dx.doi.org/10.1101/082214 2016-10-20 Bioinformatics Bit-twiddling on Nucleotides Fabian Klotzl MPI for Evolutionary Biology
http://dx.doi.org/10.1101/082263 2016-10-20 Bioinformatics CC BY-NC-ND normR: Regime enrichment calling for ChIP-seq data Johannes Helmuth|Na Li|Laura Arrigoni|Kathrin Gianmoena|Cristina Cadenas|Gilles Gasparoni|Anupam Sinha|Philip Rosenstiel|Jorn Walter|Jan G. Hengstler|Thomas Manke|Ho-Ryun Chung Otto-Warburg-Laboratory: Epigenomics at Max Planck Institute for Molecular Genetics;|Max Planck Institute of Immunobiology and Epigenetics;|Leibniz Research Centre for Working Environment and Human Factors;|The Department of Genetics and Epigenetics, University of Saarland;|Institute of Clinical Molecular Biology, Christian-Albrechts-University of Kiel
http://dx.doi.org/10.1101/082123 2016-10-20 Bioinformatics Ribbon: Visualizing complex genome alignments and structural variation Maria Nattestad|Chen-Shan Chin|Michael C Schatz Cold Spring Harbor Laboratory;|Pacific Biosciences;|Johns Hopkins University, Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/081802 2016-10-20 Bioinformatics CC BY-ND Tissue-aware RNA-Seq processing and normalization for heterogeneous and sparse data Joseph Paulson|Cho-Yi Chen|Camila M Lopes-Ramos|Marieke L Kuijjer|John Platig|Abhijeet R Sonawane|Maud Fagny|Kimberly Glass|John Quackenbush Dana-Farber Cancer Institute;|Channing Division of Network Medicine
http://dx.doi.org/10.1101/082297 2016-10-20 Genomics CC BY Striking differences in patterns of germline mutation between mice and humans Sarah J Lindsay|Raheleh Rahbari|Joanna Kaplanis|Thomas Keane|Matthew Hurles Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/082289 2016-10-20 Genomics CC BY-ND Sexual dimorphism in gene expression and regulatory networks across human tissues Cho-Yi Chen|Camila Miranda Lopes-Ramos|Marieke L Kuijjer|Joseph N Paulson|Abhijeet R Sonawane|Maud Fagny|John Platig|Kimberly Glass|John Quackenbush|Dawn L DeMeo Dana-Farber Cancer Institute;|Harvard T.H. Chan School of Public Health;|Harvard Medical School
http://dx.doi.org/10.1101/082537 2016-10-21 Microbiology CC BY-NC-ND The genome-wide transcriptional response to varying RpoS levels in Escherichia coli K-12 Garrett T Wong|Richard P Bonocora|Alicia N Schep|Suzannah M Beeler|Anna Lee|Lauren Shull|Lakshmi Batachari|Moira Dillon|Ciaran Evans|Johanna Hardin|Joseph T Wade|Daniel M Stoebel Harvey Mudd College;|Wadsworth Center, New York State Department of Health;|Pomona College;|Wadsworth Center, NY Dept of Health & Dept of Biomedical Sciences, U of Albany
http://dx.doi.org/10.1101/082248 2016-10-21 Evolutionary Biology CC BY-NC-ND Transposable elements reveals punctuated patterns of evolution in Mammals Marco Ricci|Valentina Peona|Etienne Guichard|Alessio Boattini University of Bologna
http://dx.doi.org/10.1101/082479 2016-10-21 Bioinformatics CC BY-ND Binary Relation Extraction from Biomedical Literature using Dependency Trees and SVMs Anuj Sharma|Vassilis Virvilis|Tina Lekka|Christos Andronis Biovista
http://dx.doi.org/10.1101/082503 2016-10-21 Evolutionary Biology CC BY Fidelity of parent-offspring transmission and the evolution of social behavior in structured populations Florence Debarre CNRS
http://dx.doi.org/10.1101/081828 2016-10-21 Microbiology CC BY-NC Studying vertical microbiome transmission from mothers to infants by strain-level metagenomic profiling Francesco Asnicar|Serena Manara|Moreno Zolfo|Duy Tin Truong|Matthias Scholz|Federica Armanini|Pamela Ferrretti|Valentina Gorfer|Anna Pedrotti|Adrian Tett|Nicola Segata Centre for Integrative Biology, University of Trento, Italy;|Azienda Provinciale per i Servizi Sanitari, Trento, Italy
http://dx.doi.org/10.1101/082461 2016-10-21 Biophysics Probing the effect of uniaxial compression on cell migration Nishit Srivastava|Robert R Kay|Alexandre J Kabla University of Cambridge;|MRC Laboratory of Molecular Biology;|Department of Engineering
http://dx.doi.org/10.1101/082487 2016-10-21 Neuroscience Regulation of sleep plasticity by a thermo-sensitive circuit in Drosophila Angelique Lamaze|Arzu Ozturk-Colak|Robin Fischer|Nicolai Peschel|Kyunghee Koh|James E.C Jepson UCL Institute of Neurology;|Thomas Jefferson University;|University of Wurzburg
http://dx.doi.org/10.1101/082529 2016-10-21 Bioengineering CC BY-NC-ND Cell-to-cell Modelling of the inter-phase between Atrial and Sinoatrial Anisotropic Heterogeneous Nets Gabriel Lopez|Norma Pilar Castellanos|Rafael Godinez Universidad Autonoma Metropolitana;|Universidad Autonoma Metropoilitana
http://dx.doi.org/10.1101/082495 2016-10-21 Neuroscience CC BY-NC-ND Reverse-engineering human olfactory perception from chemical features of odor molecules Andreas Keller|Richard C. Gerkin|Yuanfang Guan|Amit Dhurandhar|Gabor Turu|Bence Szalai|Joel D. Mainland|Yusuke Ihara|Chung Wen Yu|Russ Wolfinger|Celine Vens|Leander Schietgat|Kurt De Grave|Raquel Norel|Gustavo Stolovitzky|Guillermo Cecchi|Leslie B. Vosshall|Pablo Meyer Rockefeller University;|Arizona State University;|University of Michigan;|IBM; TJ Watson, Computational Biology Center;|Semmelweis University and MTA-SE;|Monell Chemical Senses Center and University of Pennsylvania;|Monell Chemical Senses Center and Institution for Innovation, Ajinomoto Co., Inc.;|Monell Chemical Senses Center;|SAS Institute, Inc.;|KU Leuven;|KU Leuven and Flanders Make;|The Rockefeller University and HHMI
http://dx.doi.org/10.1101/082420 2016-10-21 Neuroscience Estimating the implicit component of visuomotor rotation learning by constraining movement preparation time. Li-Ann Leow|Welber Marinovic|Reece Gunn|Timothy J Carroll The University of Queensland;|Curtin University of Technology
http://dx.doi.org/10.1101/082446 2016-10-21 Biophysics CC BY-NC-ND How to fold intricately: using theory and experiments to unravel the properties of knotted proteins Sophie E. Jackson|Antonio Suma|Cristian Micheletti University of Cambridge;|Scuola Internazionale Superiore di Studi Avanzati
http://dx.doi.org/10.1101/082370 2016-10-21 Neuroscience Shorter neural adaptation to sounds accounts for dyslexics' abnormal perceptual and reading dynamics Sagi Jaffe-Dax|Orr Frenkel|Merav Ahissar Princeton University and Hebrew University;|Hebrew University
http://dx.doi.org/10.1101/080945 2016-10-21 Genomics CC BY-NC-ND Empirical Bayes estimation of semi-parametric hierarchical mixture models for unbiased characterization of polygenic disease architectures jo nishino|Yuta Kochi|Daichi Shigemizu|Mamoru Kato|Katsunori Ikari|Hidenori Ochi|Hisashi Noma|Kota Matsui|Takashi Morizono|Keith A Anthony Boroevich|Tatsuhiko Tsunoda|Shigeyuki Matsui Department of Biostatistics, Nagoya University Graduate School of Medicine;|Laboratory for Autoimmune Diseases, RIKEN Center for Integrative Medical Sciences;|Department of Medical Science Mathematics, Medical Research Institute;|Department of Bioinformatics, National Cancer Center Research Institute;|Institute of Rheumatology, Tokyo Women's Medical University;|Department of Medicine and Molecular Science, Division of Frontier Medical Science;|Department of Data Science, The Institute of Statistical Mathematics;|Laboratory for Medical Science Mathematics, RIKEN Center for Integrative Medical Sciences
http://dx.doi.org/10.1101/082347 2016-10-21 Bioinformatics CC BY geneXtendeR: R/Bioconductor package for functional annotation of histone modification ChIP-seq data in a 3D genome world Bohdan Khomtchouk|Derek Van Booven|Claes Wahlestedt University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/082362 2016-10-21 Genomics CC BY-ND The human functional genome defined by genetic diversity Julia di Iulio|Istvan Bartha|Emily Wong|Hung-Chun Yu|Michael Hicks|Naisha Shah|Victor Lavrenko|Ewen Kirkness|Martin Fabani|Dongchan Yang|Inkyung Jung|Williams Biggs|Bing Ren|J. Craig Venter|Amalio Telenti Human Longevity Inc.;|Human Longevity, inc;|Kaist;|UCSD;|JCVI
http://dx.doi.org/10.1101/082271 2016-10-21 Ecology CC BY Bees Without Flowers: Before Peak Bloom, Diverse Native Bees Visit Insect-produced Honeydew Sugars Joan M Meiners|Terry L Griswold|David J Harris|S.K. Morgan Ernest University of Florida;|USDA-ARS Pollinating Insects Research Unit
http://dx.doi.org/10.1101/082321 2016-10-21 Bioinformatics CC BY-NC-ND Selection Corrected Statistical Inference for Region Detection with High-throughput Assays Yuval Benjamini|Jonathan Taylor|Rafael A Irizarry Hebrew University;|Stanford University;|Harvar University
http://dx.doi.org/10.1101/082339 2016-10-21 Cell Biology The p150N domain of Chromatin Assembly Factor-1 regulates Ki-67 accumulation on the mitotic perichromosomal layer Timothy Matheson|Paul Kaufman University of Massachusetts Medical School
http://dx.doi.org/10.1101/082628 2016-10-22 Neuroscience CC BY-NC-ND A Computational Model of Perceptual and Mnemonic Deficits in Medial Temporal Lobe Amnesia Patrick Sadil|Rosemary R. A. Cowell University of Massachusetts, Amherst
http://dx.doi.org/10.1101/082610 2016-10-22 Neuroscience Neuronal responses support a role for orbitofrontal cortex in cognitive set reconfiguration Brianna Sleezer|Giuliana Loconte|Meghan Castagno|Benjamin Hayden University of Rochester
http://dx.doi.org/10.1101/082644 2016-10-22 Evolutionary Biology CC BY-NC Inference of multiple-wave population admixture by modeling decay of linkage disequilibrium with polynomial functions Ying zhou|Kai Yuan|Yaoliang Yu|Xuming Ni|Pengtao Xie|Eric P Xing|Shuhua Xu CAS-MPG Partner Institute for Computational Biology, China;|Machine Learning Department, Carnegie Mellon University, China;|Department of Mathematics, School of Science, Beijing Jiaotong University, United States
http://dx.doi.org/10.1101/082669 2016-10-22 Neuroscience Cooperation not competition: bihemispheric tDCS and fMRI show role for ipsilateral hemisphere in motor learning Sheena Waters|Tobias Wiestler|Joern Diedrichsen University College London;|Western University
http://dx.doi.org/10.1101/082636 2016-10-22 Neuroscience Robust mixture modeling reveals category-free selectivity in reward region neuronal ensembles Tommy C Blanchard|Steven T Piantadosi|Benjamin Hayden University of Rochester
http://dx.doi.org/10.1101/082651 2016-10-22 Cancer Biology CC BY-NC-ND High-risk human papillomavirus in oral cavity squamous cell carcinoma Vinayak Palve|Jamir Bagwan|Neeraja M Krishnan|Manisha Pareek|Udita Chandola|Amritha Suresh|Gangotri Siddappa|Bonney L James|Vikram Kekatpure|Moni A Kuriakose|Binay Panda Ganit Labs;|MSCTR;|MSCC
http://dx.doi.org/10.1101/082693 2016-10-22 Neuroscience CC BY-NC-ND Electrophysiological correlates of phosphene perception induced by stimulation of human occipital and parietal cortex Jason Samaha|Olivia Gosseries|Bradley R. Postle University of Wisconsin-Madison;|Universite de Liege and University of Wisconsin-Madison
http://dx.doi.org/10.1101/082438 2016-10-22 Neuroscience CC BY-NC-ND Alternating dynamics of segregation and integration in human brain functional networks during working-memory task Antonio Giuliano Zippo|Pasquale Anthony Della Rosa|Isabella Castiglioni|Gabriele Eliseo Mario Biella Consiglio Nazionale delle Ricerche;|Institute of Molecular Bioimaging and Physiology
http://dx.doi.org/10.1101/082552 2016-10-22 Bioinformatics Methods for detecting co-mutated pathways in cancer samples to inform treatment selection Tingting Jiang|Uri Shaham|Fabio Parisi|Ruth Halaban|Anton Safonov|Harriet Kluger|Sherman Weissman|Joseph Chang|Yuval Kluger Yale University
http://dx.doi.org/10.1101/083022 2016-10-24 Neuroscience Neural differentiation of incorrectly predicted memories Ghootae Kim|Kenneth A Norman|Nicholas B Turk-Browne Princeton University
http://dx.doi.org/10.1101/082982 2016-10-24 Cancer Biology CC BY-ND Optimal structure of heterogeneous stem cell niche: The importance of cell migration in delaying tumorigenesis Leili Shahriyari|Ali Mahdipour Shirayeh The Ohio State University;|University of Waterloo
http://dx.doi.org/10.1101/082735 2016-10-24 Bioinformatics CC BY-NC-ND Characterization of Dependencies Between Growth and Division in Budding Yeast Michael B Mayhew|Edwin S Iversen|Alexander J Hartemink Lawrence Livermore National Laboratory;|Duke University
http://dx.doi.org/10.1101/082958 2016-10-24 Developmental Biology CC BY Collective epithelial migration drives timely morphogenesis of the retinal neuroepithelium Caren Norden|Jaydeep Sidhaye|Niklas Ifflaender MPI of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/083055 2016-10-24 Biophysics CC BY Energy Conservation as a Measure of Simulation Accuracy Peter Eastman|Vijay S. Pande Stanford University
http://dx.doi.org/10.1101/082925 2016-10-24 Systems Biology Inferability of transcriptional networks from large scale gene deletion studies Christopher Frederik Blum|Nadia Heramvand|Armin S Khonsari|Markus Kollmann Institute for Mathematical Modeling of Biological Systems, Heinrich Heine University of Duesseldorf
http://dx.doi.org/10.1101/082974 2016-10-24 Neuroscience Death and rebirth of neural activity in sparse inhibitory networks David Angulo-Garcia|Stefano Luccioli|Simona Olmi|Alessandro Torcini Aix Marseille Universite;|CNR - Consiglio Nazionale delle Ricerche - Istituto dei Sistemi Complessi, 50019 Sesto Fiorentino, I;|Weierstrass Institute, Berlin, Germany;|Aix-Marseille Universite
http://dx.doi.org/10.1101/082917 2016-10-24 Genomics CC BY-NC-ND Searching for the chromatin determinants of human hematopoiesis Enrique Carrillo de Santa Pau|David Juan|Vera Pancaldi|Felipe Were|Ignacio Martin-Subero|Daniel Rico|Alfonso Valencia Spanish National Cancer Research Centre;|Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS);|Newcastle University
http://dx.doi.org/10.1101/082891 2016-10-24 Evolutionary Biology CC BY-NC-ND Reconstruction of phylogenetic history to resolve the subspecies anomaly of Pantherine cats Ranajit Das|Priyanka Upadhyai Manipal University;|Kasturba Medical College, Manipal
http://dx.doi.org/10.1101/082818 2016-10-24 Neuroscience Multivariate EEG analyses support high-resolution tracking of feature-based attentional selection Johannes Jacobus Fahrenfort|Anna Grubert|Christian N.L. Olivers|Martin Eimer Department of Experimental and Applied Psychology, Vrije Universiteit, The Netherlands;|Department of Psychology, Durham University, UK;|Department of Psychological Sciences, Birkbeck, University of London, UK
http://dx.doi.org/10.1101/083014 2016-10-24 Biochemistry p53 dynamically directs TFIID assembly on target gene promoters Robert A Coleman|Zhen Qiao|Sameer K Singh|Chunte S Peng|Michael Cianfrocco|Zhengjian Zhang|Lihua Song|Ania Piasecka|Hannah Aldeborgh|Givi Basishvili|William Rice|Wei-Li Liu Albert Einstein College of Medicine;|University of California, San Diego;|Howard Hughes Medical Institute, Janelia Research Campus;|The New York Structural Biology Center
http://dx.doi.org/10.1101/083006 2016-10-24 Neuroscience CC BY-NC-ND Automated remote focusing, drift correction, and photostimulation to evaluate structural plasticity in dendritic spines Michael Sergey Smirnov|Paul Robert Evans|Tavita R Garrett|Long Yan|Ryohei Yasuda Max Planck Florida Institute for Neuroscience
http://dx.doi.org/10.1101/082966 2016-10-24 Epidemiology CC BY-NC-ND Phylodynamics on local sexual contact networks David A. Rasmussen|Roger Kouyos|Huldrych F Gunthard|Tanja Stalder ETH Zurich;|University of Zurich
http://dx.doi.org/10.1101/082396 2016-10-24 Epidemiology CC BY-NC-ND Statistical and biological uncertainties associated with vaccine efficacy estimates and their implications for dengue vaccine impact projections Alex Perkins|Robert Reiner|Quirine ten Bosch|Guido Espana|Amit Verma|Kelly Liebman|Valerie Paz-Soldan|John Elder|Amy Morrison|Steven Stoddard|Uriel Kitron|Gonzalo Vazquez-Prokopec|Thomas Scott|David Smith University of Notre Dame;|University of Washington;|Center for Disease Dynamics, Economics, and Policy;|University of California, Davis;|Tulane University;|San Diego State University;|Emory University
http://dx.doi.org/10.1101/082990 2016-10-24 Epidemiology Signatures of non-neutral processes within the population structure of Streptococcus pneumoniae Jose Lourenco|Eleanor R Watkins|Uri Obolski|Samuel J Peacock|Callum Morris|Martin CJ Maiden|Sunetra Gupta University of Oxford;|University of Durham
http://dx.doi.org/10.1101/082792 2016-10-24 Genetics CC BY-NC-ND Genome-wide association analyses of sleep disturbance traits identify new loci and highlight shared genetics with neuropsychiatric and metabolic traits Jacqueline M Lane|Jingjing Liang|Irma Vlasac|Simon G Anderson|David A Bechtold|Jack Bowden|Richard Emsley|Shubhroz Gill|Max A Little|AnneMarie I Luik|Andrew Loudon|Frank A.J.L. Scheer|Shaun M Purcell|Simon D Kyle|Deborah A Lawlor|Xiaofeng Zhu|Susan Redline|David W Ray|Martin K Rutter|Richa Saxena Massachusetts General Hospital, Broad Institute;|Case Western Reserve University;|University of Manchester;|University of Bristol;|Broad Institute;|Aston University, MIT;|University of Oxford;|Brigham and Women's Hospital;|Brigham and Women's Hospital, Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/082776 2016-10-24 Bioinformatics Towards an ontology-based recommender system for relevant bioinformatics workflows Ahmed Halioui|Petko Valtchev|Abdoulaye Banire Diallo Universite du Quebec a Montreal
http://dx.doi.org/10.1101/082750 2016-10-24 Microbiology The molecular mechanism of the type IVa pilus motors Matthew McCallum|Stephanie Tammam|Ahmad Khan|Lori L. Burrows|P. Lynne Howell University of Toronto/Hospital for Sick Children;|Hospital for Sick Children;|University of Toronto;|McMaster University;|The Hospital for Sick Children
http://dx.doi.org/10.1101/082602 2016-10-24 Cancer Biology Mice deficient of Myc super-enhancer region reveal a differential control mechanism between normal and pathological growth Kashyap Dave|Inderpreet Sur|Jian Yan|Jilin Zhang|Eevi Kaasinen|Fan Zhong|Leander Blaas|Xiaoze Li|Robert Mansson|Jussi Taipale Karolinska Institute;|Karolinska Institutet
http://dx.doi.org/10.1101/082594 2016-10-24 Bioinformatics LR-DNase: Predicting TF binding from DNase-seq data Arjan G van der Velde|Michael Purcaro|William Stafford Noble|Zhiping Weng Boston University / University of Massachusetts Medical School;|University of Massachusetts Medical School;|U. Washington
http://dx.doi.org/10.1101/082511 2016-10-24 Bioinformatics CC BY-NC GSKB: A gene set database for pathway analysis in mouse Liming Lai|Jason Hennessey|Valerie Bares|Eun Woo Son|Yuguang Ban|Wei Wang|Jianli Qi|Gaixin Jiang|Arthur Liberzon|Steven Ge South Dakota State University;|Boston University;|University of Miami;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/082784 2016-10-24 Bioinformatics Ontology-based workflow extraction from texts using word sense disambiguation Ahmed Halioui|Petko Valtchev|Abdoulaye Banire Diallo Universite du Quebec a Montreal
http://dx.doi.org/10.1101/082685 2016-10-24 Bioinformatics The presence or absence alone of miRNA isoforms (isomiRs) successfully discriminate amongst the 32 TCGA cancer types Aristeidis Telonis|Rogan Magee|Phillipe Loher|Inna Chervoneva|Eric Londin|Isidore Rigoutsos Thomas Jefferson University
http://dx.doi.org/10.1101/075440 2016-10-24 Bioinformatics QuickStitch for seamless stitching of confocal mosaics through high-pass filtering and recursive normalization Pavel A Brodskiy|Paulina M Eberts|Cody Narciso|Jochen Kursawe|Alexander Fletcher|Jeremiah J Zartman University of Notre Dame;|University of Oxford;|University of Sheffield
http://dx.doi.org/10.1101/082719 2016-10-24 Neuroscience The demise of the synapse as the locus of memory: A looming paradigm shift? Patrick C. Trettenbrein University of Graz
http://dx.doi.org/10.1101/082677 2016-10-24 Genetics CC BY-ND Structure and origin of the White Cap locus and its role in evolution of grain color in maize Bao-Cai Tan|Jiahn-Chou Guan|Shou Ding|Shan Wu|Jonathan W Saunders|Karen E Koch|Donald R McCarty Shandong University;|University of Florida
http://dx.doi.org/10.1101/082768 2016-10-24 Bioinformatics CC BY-NC-ND CASTOR: A machine learning platform for reproducible viral genome classification Mohamed Amine Remita|Ahmed Halioui|Abou Abdallah Malick Diouara|Bruno Daigle|Golrokh Kiani|Abdoulaye Banire Diallo Universite du Quebec a Montreal
http://dx.doi.org/10.1101/083386 2016-10-25 Microbiology Growth-independent cross-feeding modifies boundaries for coexistence in a bacterial mutualism Alexandra L McCully|Breah LaSarre|James B McKinlay Indiana University
http://dx.doi.org/10.1101/083410 2016-10-25 Bioinformatics CC BY Connecting tumor genomics with therapeutics through multi-dimensional network modules James T Webber|Max V Ranall|Swati Kaushik|Sourav Bandyopadhyay University of California, San Francisco
http://dx.doi.org/10.1101/083246 2016-10-25 Genomics|Molecular Biology CC BY-NC Genome-wide Analysis of Differential Transcriptional and Epigenetic Variability Across Human Immune Cell Types Simone Ecker|Lu Chen|Vera Pancaldi|Frederik O. Bagger|Jose Maria Fernandez|Enrique Carrillo de Santa Pau|David Juan|Alice Mann|Stephen Watt|Francesco Paolo Casale|Nikos Sidiropoulos|Nicolas Rapin|Angelika Merkel|Henk Stunnenberg|Oliver Stegle|Mattia Frontini|Kate Downes|Tomi Pastinen|Taco W Kuijpers|Daniel Rico|Alfonso Valencia|Stephan Beck|Nicole Soranzo|Dirk S. Paul University College London;|The Wellcome Trust Sanger Institute;|Spanish National Cancer Research Centre (CNIO);|University of Cambridge;|European Bioinformatics Institute;|University of Copenhagen;|Centro Nacional de Analisis Genomico (CNAG);|Radboud University;|McGill University;|Academic Medical Center (AMC), University of Amsterdam
http://dx.doi.org/10.1101/083162 2016-10-25 Neuroscience Uncovering the underlying mechanisms and whole-brain dynamics of therapeutic deep brain stimulation for Parkinson's disease Victor M Saenger|Joshua Kahan|Tom Foltynie|Karl Friston|Tipu Z Aziz|Alexander L Green|Tim J van Hartevelt|Angus B. A. Stevner|Henrique M Fernandes|Laura Mancini|John Thornton|Tarek Yousry|Patricia Limousin|Ludvic Zrinzo|Marwan Hariz|Morten L Kringelbach|Gustavo Deco Universitat Pompeu Fabra;|UCL Institute of Neurology;|Nuffield Department of Surgical Sciences, University of Oxford;|Department of Psychiatry, University of Oxford;|Lysholm Department of Neuroradiology, National Hospital for Neurology and Neurosurgery UCLH
http://dx.doi.org/10.1101/083436 2016-10-25 Neuroscience CC BY-NC-ND UNC-5 (UNC5) Regulates the Length and Number of Processes that Caenorhabditis elegans Neurons Can Develop Gerard Limerick|Xia Tang|Won Suk Lee|Ahmed Mohamed|Aseel Al-Aamiri|William G Wadsworth Rutgers Robert Wood Johnson Medical School, United States;|Robert Wood Johnson Medical School, United States
http://dx.doi.org/10.1101/083352 2016-10-25 Neuroscience CC BY Large-scale meta-analysis suggests low regional modularity in lateral frontal cortex. Alejandro de la Vega|Tal Yarkoni|Tor D Wager|Marie T Banich University of Texas at Austin;|University of Colorado Boulder
http://dx.doi.org/10.1101/083212 2016-10-25 Genomics CC BY-NC-ND Natural Selection has Shaped Coding and Non-coding Transcription in Primate CD4+ T-cells Charles G Danko|Zhong Wang|Edward J Rice|Tinyi Chu|Andre L Martins|Elia Tait Wojno|John T Lis|Lee W Kraus|Adam Siepel Cornell University;|University of Texas Southwestern Medical Center;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/083170 2016-10-25 Biochemistry CC BY-NC-ND Extremely fast and incredibly close: co-transcriptional splicing in budding yeast Edward Wallace|Jean Beggs University of Edinburgh
http://dx.doi.org/10.1101/083378 2016-10-25 Cell Biology CC BY-NC-ND Casein Kinase II is Required for Proper Cell Division and Acts as a Negative Regulator of Centrosome Duplication in C. elegans Embryos Mi Hye Song|Jeffrey C Medley|Megan M Kabara|Michael D Stubenvoll|Lauren E DeMeyer Oakland University
http://dx.doi.org/10.1101/083204 2016-10-25 Biochemistry CC BY Experimental and Computational Investigation of the Structure of Peptide Monolayers on Gold Nanoparticles Elena Colangelo|Qiubo Chen|Adam M Davidson|David Paramelle|Michael B Sullivan|Martin Volk|Raphael Levy University of Liverpool;|Institute of High Performance Computing, A*STAR;|Institute of Materials Research and Engineering, A*STAR
http://dx.doi.org/10.1101/083238 2016-10-25 Bioinformatics CC BY-NC-ND An Optimized Approach for Annotation of Large Eukaryotic Genomic Sequences using Genetic Algorithm Biswanath Chowdhury|Arnav Garai|Gautam Garai University of Calcutta;|Infosys Technologies Ltd;|Saha Institute of Nuclear Physics
http://dx.doi.org/10.1101/083329 2016-10-25 Synthetic Biology CC BY The Effect of Compositional Context on Synthetic Gene Net- works Enoch Yeung|Aaron J Dy|Kyle B Martin|Andrew H Ng|Domitilla Del Vecchio|James L Beck|James J. Collins|Richard M Murray Pacific Northwest National Laboratories;|Massachusetts Institute of Technology;|Callifornia Institute of Technology;|University of California Berkeley;|California Institute of Technology
http://dx.doi.org/10.1101/083253 2016-10-25 Evolutionary Biology Tempo and timing of ecological trait divergence associated with transitions to coexistence in birds Jay P. McEntee|Joseph A. Tobias|J. Gordon Burleigh University of Florida;|Imperial College London
http://dx.doi.org/10.1101/083097 2016-10-25 Systems Biology A compound that directly and selectively stalls PCSK9 translation Nathanael Lintner|Kim McClure|Donna Petersen|Allyn Londregan|David Piotrowski|Liuqing Wei|Jun Xiao|Michael Bolt|Paula Loria|Bruce Maguire|Kieran Geoghegan|Austin Huang|Timothy Rolph|Spiros Liras|Jennifer Doudna|Robert Dullea|Jamie Cate Pfizer;|N/A;|UC Berkeley
http://dx.doi.org/10.1101/083089 2016-10-25 Ecology CC BY-NC Exact probabilities for the indeterminacy of complex networks as perceived through press perturbations David Koslicki|Mark Novak Oregon State University
http://dx.doi.org/10.1101/083154 2016-10-25 Evolutionary Biology CC BY-NC Cytoplasmic-nuclear incompatibility between wild-isolates of Caenorhabditis nouraguensis Piero Lamelza|Michael Ailion University of Washington, United States
http://dx.doi.org/10.1101/083071 2016-10-25 Animal Behavior and Cognition The Drosophila pheromone Z4-11Al is encoded together with habitat olfactory cues and mediates species-specific communication Sebastien Lebreton|Felipe Borrero-Echeverry|Francisco Gonzalez|Marit Solum|Erika Wallin|Erik Hedenstroem|Bill S. Hansson|Anna-Lena Gustavsson|Marie Bengtsson|Goeran Birgersson|William B. Walker|Hany Dweck|Paul G. Becher|Peter Witzgall SLU;|Corpoica;|MIUN;|MPI Jena;|KI
http://dx.doi.org/10.1101/083030 2016-10-25 Epidemiology CC BY-NC-ND A comprehensive survey of genetic variation in 20,691 subjects from four large cohorts Sara Lindstrom|Stephanie Loomis|Constance Turman|Hongyan Huang|Jinyan Huang|Hugues Aschard|Andrew Chan|Hyon Choi|Marilyn Cornelis|Gary Curhan|Immaculata De Vivo|Heather Eliassen|Charles Fuchs|Michael Gaziano|Susan Hankinson|Frank Hu|Majken Jensen|Jae Hee Kang|Christopher Kabrhel|Liming Liang|Louis Pasquale|Eric Rimm|Meir Stampfer|Rulla Tamimi|Shelley Tworoger|Janey Wiggs|David Hunter|Peter Kraft University of Washington;|Harvard Medical School;|Harvard TH Chan School of Public Health;|Massachusetts General Hospital;|Boston University;|Northwestern University;|Brigham and Women's Hospital;|Dana Farber Cancer Institute;|University of Massachusetts
http://dx.doi.org/10.1101/083733 2016-10-26 Neuroscience CC BY-NC-ND THETA-Rhythm makes the world go round: Dissociative effects of TMS theta vs alpha entrainment of right pTPJ on embodied perspective transformations Gerard F Gooding-Williams|Hongfang Wang|Klaus Kessler Aston University
http://dx.doi.org/10.1101/083808 2016-10-26 Genetics CC BY-NC-ND Quantitative Modeling and Automated Analysis of Meiotic Recombination Martin White|Shunxin Wang|Liangran Zhang|Nancy Kleckner Harvard University;|Shandong University
http://dx.doi.org/10.1101/083790 2016-10-26 Biochemistry CC BY-NC-ND The best formula for estimating the low density lipoprotein cholesterol on a North African population benghezel hichem|Boukrous hanane|ZEHAF mouna|SAADI Radia faculty of medecin, department of pharmacy;|faculty of medecin, department of medecin
http://dx.doi.org/10.1101/083766 2016-10-26 Neuroscience CC BY-NC-ND Adaptive, arousal-related adjustments of perceptual biases optimize perception in a dynamic environment Kamesh Krishnamurthy|Matthew R Nassar|Shilpa Sarode|Joshua I Gold University of Pennsylvania;|Brown University
http://dx.doi.org/10.1101/083741 2016-10-26 Genomics Analytical and Clinical Validity Study of FirstStepDx PLUS: A Chromosomal Microarray Optimized for Patients with Neurodevelopmental Conditions Charles H. Hensel|Rena Vanzo|Megan Martin|Sean Dixon|Christophe G. Lambert|Brynn Levy|Lesa Nelson|Andy Peiffer|Karen Ho|Patricia Mowery-Rushton|Moises Serrano|Sarah South|Kenneth Ward|E. Robert Wassman Lineagen, Inc.;|LIneagen, Inc.;|University of New Mexico;|Columbia University Medical Center;|Affiliated Genetics, Inc.;|Lineagen, Inc., University of Utah;|23 & Me
http://dx.doi.org/10.1101/083758 2016-10-26 Microbiology Inhibition of microbial biofuel production in drought stressed switchgrass hydrolysate Rebecca Garlock Ong|Alan Higbee|Scott Bottoms|Quinn Dickinson|Dan Xie|Scott A. Smith|Jose Serate|Edward Pohlmann|Arthur Daniel Jones|Joshua J. Coon|Trey K. Sato|Gregg R. Sanford|Dustin Eilert|Lawrence G. Oates|Jeff S. Piotrowski|Donna M. Bates|David Cavalier|Yaoping Zhang Michigan Technological University;|University of Wisconsin-Madison;|Michigan State University
http://dx.doi.org/10.1101/083717 2016-10-26 Bioinformatics PatternMarkers and Genome-Wide CoGAPS Analysis in Parallel Sets (GWCoGAPS) for data-driven detection of novel biomarkers via whole transcriptome Non-negative matrix factorization (NMF) Genevieve Stein-O'Brien|Jacob Carey|Wai-shing Lee|Michael Considine|Alexander Favorov|Emily Flam|Theresa Guo|Lucy Li|Luigi Marchionni|Thomas Sherman|Daria Gaykalova|Ronald McKay|Michael Ochs|Carlo Colantuoni|Elana Fertig Johns Hopkins School of Medicine;|Johns Hopkins School of Medicine Baltimore, MD, USA;|Johns Hopkins University Baltimore, MD, USA;|The College of New Jersey;|Lieber Institute for Brain Development
http://dx.doi.org/10.1101/046318 2016-10-26 Zoology A NEW SPECIES OF SEEDEATER (EMBERIZIDAE: SPOROPHILA) FROM THE IBERA GRASSLANDS, IN NORTHEAST ARGENTINA Adrian Di Giacomo|Bernabe Lopez Lanus|Cecilia Kopuchian CONICET;|Audiornis
http://dx.doi.org/10.1101/083287 2016-10-26 Biophysics CC BY Applying Corrections in Single-Molecule FRET Antonino Ingargiola UCLA
http://dx.doi.org/10.1101/083691 2016-10-26 Neuroscience Microsaccadic information sampling provides Drosophila hyperacute vision Mikko Juusola|An Dau|Zhuoyi Song|Narendra Solanki|Diana Rien|David Jaciuch|Sidhartha Dongre|Florence Blanchard|Gonzalo G de Polavieja|Roger C Hardie|Jouni Takalo University of Sheffield;|Champalimaud Center for the Unknown;|University of Cambridge
http://dx.doi.org/10.1101/083725 2016-10-26 Biophysics A simple molecular mechanism explains multiple patterns of cell-size regulation Morgan Delarue|Daniel Weissman|Oskar Hallatschek New York University Langone Medical Center;|Emory University;|University of California, Berkeley
http://dx.doi.org/10.1101/083535 2016-10-26 Bioinformatics CC BY plantiSMASH: automated identification, annotation and expression analysis of plant biosynthetic gene clusters Satria A Kautsar|Hernando G Suarez Duran|Kai Blin|Anne Osbourn|Marnix H Medema Bioinformatics Group, Wageningen University, Wageningen, The Netherlands;|The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark;|Department of Metabolic Biology, John Innes Centre, Norwich, UK
http://dx.doi.org/10.1101/083444 2016-10-26 Plant Biology CC BY-NC-ND Compromised External Validity: Federally Produced Cannabis Does Not Reflect Legal Markets Daniela Vergara|Cinnamon Bidwell|Reggie Gaudino|Anthony Torres|Gary Du|Travis Ruthenburg|Kymron deCesare|Donald P Land|Kent E Hutchison|Nolan C Kane University of Colorado Boulder;|Steep Hill Labs Inc
http://dx.doi.org/10.1101/083576 2016-10-26 Bioinformatics HBP: an integrative and flexible pipeline for the interaction analysis of Hi-C dataset Chao He|Ping Li|Minglei Shi|Yan Zhang|Bingyu Ye|Dejian Xie|Wenlong Shen|Zhihu Zhao Beijing Institute of Biotechnology
http://dx.doi.org/10.1101/083675 2016-10-26 Genetics CC BY-ND Metafounders are Fst fixation indices and reduce bias in single step genomic evaluations Carolina Andrea Garcia-Baccino|Andres Legarra|Ole F Christensen|Ignacy Misztal|Ivan Pocrnic|Zulma G Vitezica|Rodolfo J.C. Cantet Universidad de Buenos Aires;|INRA;|University of Aarhus;|University of Georgia;|INPT
http://dx.doi.org/10.1101/083592 2016-10-26 Neuroscience RECONSTRUCTION OF THE CORTICAL MAPS OF THE TASMANIAN TIGER AND COMPARISON TO THE TASMANIAN DEVIL Gregory S. Berns|Ken W.S. Ashwell Emory University;|University of New South Wales
http://dx.doi.org/10.1101/081992 2016-10-26 Cancer Biology CC BY-NC CancerGD: a resource for identifying and interpreting genetic dependencies in cancer Stephen Bridgett|James Campbell|Christopher J Lord|Colm J Ryan University College Dublin;|The Institute of Cancer Research
http://dx.doi.org/10.1101/083543 2016-10-26 Evolutionary Biology CC BY-NC-ND Fractal model of emergence of a proto-plant Valerii V Galitskii Institute of Physical-Chemical and Biological Problems of Soil Science RAS
http://dx.doi.org/10.1101/083626 2016-10-26 Neuroscience UP-DOWN cortical dynamics reflect state transitions in a bistable balanced network Daniel Jercog|Alex Roxin|Peter Bartho|Artur Luczak|Albert Compte|Jaime de la Rocha Institut d Investigacions Biomediques August Pi i Sunyer (IDIBAPS), Barcelona, Spain.;|Centre de Recerca Matematica, Bellaterra, Spain.;|MTA TTK NAP B Research Group of Sleep Oscillations, Budapest, Hungary.;|Canadian Center for Behavioural Neuroscience, University of Lethbridge, Lethbridge, AB, Canada.
http://dx.doi.org/10.1101/083402 2016-10-26 Biophysics CC BY-NC-ND Analyzing Single Molecule Localization Microscopy Data Using Cubic Splines Hazen Babcock|Xiaowei Zhuang Harvard University;|Howard Hughes Medical Institute
http://dx.doi.org/10.1101/083451 2016-10-26 Ecology Trajectories: how functional traits influence plant growth and shade tolerance across the life-cycle Daniel S Falster|Remko Duursma|Richard G FitzJohn Macquarie University;|University of Western Sydney;|Imperial College, London, United Kingdom
http://dx.doi.org/10.1101/083550 2016-10-26 Neuroscience CC BY-NC-ND Lower brain pH as a shared endophenotype of psychotic disorders Hideo Hagihara|Vibeke S Catts|Yuta Katayama|Tsuyoshi Takagi|Freesia L Huang|Kuo-Ping Huang|Shunsuke Ishii|Isabella A Graef|Gerald R Crabtree|Keiichi I Nakayama|Cynthia S Weickert|Tsuyoshi Miyakawa Institute for Comprehensive Medical Science, Fujita Health University;|Schizophrenia Research Laboratory, Neuroscience Research Australia;|Department of Molecular and Cellular Biology, Medical Institute of Bioregulation, Kyushu University;|Institute for Developmental Research, Aichi Human Service Center;|Program of Developmental Neurobiology, NICHD, NIH;|RIKEN Tsukuba Institute;|Department of Pathology, Stanford University of Medicine, Stanford
http://dx.doi.org/10.1101/083493 2016-10-26 Neuroscience Visual field map clusters in human frontoparietal cortex Wayne E Mackey|Jonathan Winawer|Clayton E Curtis New York University
http://dx.doi.org/10.1101/083618 2016-10-26 Cell Biology CC BY-NC-ND CENP-F couples cargo to growing and shortening microtubule ends Gil Kanfer|Martin Peterka|Vladimir K. Arzhanik|Alexei L. Drobyshev|Fazly I. Ataullakhanov|Vladimir A. Volkov|Benoit Kornmann Institute of Biochemistry, ETH Zurich, Zurich, Switzerland;|Department of Bioengineering and Bioinformatics, Moscow State University, Moscow, Russia;|Center for theoretical problems of physico-chemical pharmacology, Russian Academy of Sciences;|Center for theoretical problems of physicochemical pharmacology, Russian Academy of Sciences
http://dx.doi.org/10.1101/083428 2016-10-26 Genetics Exonic somatic mutations contribute risk for autism spectrum disorder Deidre R Krupp|Rebecca A Barnard|Yannis Duffourd|Sara Evans|Raphael Bernier|Jean-Baptist Riviere|Eric Fombonne|Brian J O'Roak Oregon Health & Science University;|Universitè Bourgogne Franche-Comtè;|University of Washington;|McGill University;|Oregon Health and Science University
http://dx.doi.org/10.1101/083634 2016-10-26 Genomics CC BY-NC-ND A structural variant encoding hybrid glycophorins is associated with resistance to severe malaria Ellen M Leffler|Gavin Band|George BJ Busby|Katja Kivinen|Quang Si Le|Geraldine M Clarke|Kalifa A Bojang|David J Conway|Muminatou Jallow|Fatoumatta Sisay-Joof|Edith C Bougouma|Valentina D Mangano|David Modiano|Sodiomon B Sirima|Eric Achidi|Tobias O Apinjoh|Kevin Marsh|Carolyne M Ndila|Norbert Peshu|Thomas N Williams|Chris Drakeley|Alphaxard Manjurano|Hugh Reyburn|Eleanor Riley|David Kachala|Malcolm Molyneux|Vysaul Nyirongo|Terrie Taylor|Nicole Thornton|Louise Tilley|Shane Grimsley|Eleanor Drury|Jim Stalker|Victoria Cornelius|Christina Hubbart|Anna E Jeffreys|Kate Rowlands|Kirk A Rockett|Chris CA Spencer|Dominic P Kwiatkowski University of Oxford, UK;|Wellcome Trust Sanger Institute, UK;|Medical Research Council Unit, The Gambia;|Centre National de Recherche et de Formation sur le Paludisme, Burkina Faso;|University of Rome La Sapienza, Italy;|University of Buea, Cameroon;|KEMRI-Wellcome Trust Research Programme, Kenya;|Kilimanjaro Christian Medical Centre, Tanzania;|London School of Hygiene and Tropical Medicine, UK;|Queen Elizabeth Central Hospital, College of Medicine, Malawi;|International Blood Group Reference Laboratory, NHS Blood and Transplant, UK
http://dx.doi.org/10.1101/083642 2016-10-26 Genomics Phenotype-specific information improves prediction of functional impact for noncoding variants Corneliu A Bodea|Adele A Mitchell|Heiko Runz|Shamil R Sunyaev Merck Research Laboratories, Merck & Co. Inc.;|Brigham & Women's Hospital, Harvard Medical School
http://dx.doi.org/10.1101/083261 2016-10-26 Molecular Biology CC BY-ND Intron-driven gene expression in the absence of a core promoter in Arabidopsis thaliana Jenna E Gallegos|Alan B Rose University of California, Davis
http://dx.doi.org/10.1101/083485 2016-10-26 Evolutionary Biology An assessment of phylogenetic tools for analyzing the interplay between interspecific interactions and phenotypic evolution Jonathan Drury|Gregory F. Grether|Theodore Garland|Helene Morlon UCLA;|UC Riverside;|Ecole Normale Supérieure
http://dx.doi.org/10.1101/083469 2016-10-26 Genomics A population genomics approach to assessing the genetic basis of within-host microevolution underlying recurrent cryptococcal meningitis infection Johanna Rhodes|Mathew Beale|Mathieu Vanhove|Joseph N Jarvis|Shichina Kannambath|John A Simpson|Anthea Ryan|Graeme Meintjes|Thomas S Harrison|Matthew Fisher|Tihana Bicanic Imperial College London;|University College London;|University of Pennsylvania;|St. George's University London;|National Health Laboratory Service;|University of Cape Town
http://dx.doi.org/10.1101/084012 2016-10-27 Epidemiology CC BY-ND How polio vaccination affects poliovirus transmission Michael Famulare|Guillaume Chabot-Couture|Philip A Eckhoff|Hil Lyons|Kevin A McCarthy|Christian Selinger Institute for Disease Modeling
http://dx.doi.org/10.1101/084038 2016-10-27 Cancer Biology CC BY-NC-ND An exactly solvable, spatial model of mutation accumulation in cancer Chay Paterson|Martin A Nowak|Bartlomiej Waclaw The University of Edinburgh;|Harvard University
http://dx.doi.org/10.1101/084020 2016-10-27 Biophysics CC BY MSMBuilder: Statistical Models for Biomolecular Dynamics Matthew P Harrigan|Mohammad M Sultan|Carlos Xavier X Hernandez|Brooke E Husic|Peter Eastman|Christian R Schwantes|Kyle A Beauchamp|Robert T McGibbon|Vijay S Pande Stanford University;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/083113 2016-10-27 Genetics CC BY-NC-ND Transcriptomic Description of an Endogenous Female State in C. elegans David Angeles-Albores|Daniel H. W. Leighton|Tiffany Tsou|Tiffany H Khaw|Igor Antoshechkin|Paul Sternberg Caltech;|UCLA
http://dx.doi.org/10.1101/083998 2016-10-27 Bioinformatics Mocap: Large-scale inference of transcription factor binding sites from chromatin accessibility Xi Chen|Bowen Yu|Nicholas Carriero|Claudio Silva|Richard Bonneau New York University;|Simons Foundation;|New York University, Simons Foundation
http://dx.doi.org/10.1101/083980 2016-10-27 Genomics Transposable element exaptation is the primary source of novelty in the primate gene regulatory landscape Marco Trizzino|YoSon Park|Marcia Holsbach-Beltrame|Katherine Aracena|Katelyn Mika|Minal Caliskan|George H. Perry|Vincent J. Lynch|Christopher D. Brown University of Pennsylvania;|University of Chicago;|Pennsylvania State University
http://dx.doi.org/10.1101/083964 2016-10-27 Genomics CC BY-NC-ND Scaffolding of long read assemblies using long range contact information Jay Ghurye|Mihai Pop|Sergey Koren|Chen-Shan Chin University of Maryland College Park;|University of Maryland;|National Human Genome Research Institute;|Pacific Biosciences
http://dx.doi.org/10.1101/083972 2016-10-27 Evolutionary Biology THE IDENTIFICATION OF SOURCE AND VECTOR OF A PROLIFIC MARINE INVADER Stacy A Krueger-Hadfield|Nicole Kollars|Allan Strand|James Byers|Sarah Shainker|Ryuta Terada|Thomas Greig|Mareike Hammann|David Murray|Florian Weinberger|Erik Sotka University of Alabama at Birmingham;|College of Charleston;|University of Georgia;|Kagoshima University;|NOAA;|GEOMAR
http://dx.doi.org/10.1101/083881 2016-10-27 Evolutionary Biology A defensive body plan was pre-adaptive for termitophily in the rove beetle tribe Termitohospitini (Staphylinidae: Aleocharinae) Taisuke Kanao|Ken Eldredge|Munetoshi Maruyama Kyoto University;|University of Kansas;|Kyushu University
http://dx.doi.org/10.1101/083915 2016-10-27 Genetics CC BY-ND FST and kinship for arbitrary population structures I: Generalized definitions Alejandro Ochoa|John D. Storey Princeton University
http://dx.doi.org/10.1101/083931 2016-10-27 Evolutionary Biology CC BY Recombination Suppression is Unlikely to Contribute to Speciation in Sympatric Heliconius Butterflies John W. Davey|Sarah L. Barker|Pasi M. Rastas|Ana Pinharanda|Simon H. Martin|Richard Durbin|Richard M. Merrill|Chris D. Jiggins University of Cambridge;|Sanger Institute
http://dx.doi.org/10.1101/083956 2016-10-27 Biophysics CC BY-NC-ND Effects of of dimethyl sulfoxide on surface water near phospholipid bilayers Yuno Lee|Philip A Pincus|Changbong Hyeon Korea Institute for Advanced Study;|University of California, Santa Barbara
http://dx.doi.org/10.1101/083923 2016-10-27 Genetics CC BY-ND FST and kinship for arbitrary population structures II: Method of moments estimators Alejandro Ochoa|John D. Storey Princeton University
http://dx.doi.org/10.1101/083907 2016-10-27 Animal Behavior and Cognition Cultural transmission and biological markets Claude Loverdo|Hugo Viciana Laboratoire Jean Perrin, UMR 8237 - CNRS - UPMC;|Evocog, Human Cognition and Evolution Group, Associated Unit to IFISC
http://dx.doi.org/10.1101/083873 2016-10-27 Immunology CC BY-NC-ND The transcriptional repressor HIC1 regulates intestinal immune homeostasis Kyle Burrows|Frann Antignano|Michael Bramhall|Alistair Chenery|Sebastian Scheer|Vladimir Korinek|T. Michael Underhill|Colby Zaph University of British Columbia;|Monash University;|Institute of Molecular Genetics
http://dx.doi.org/10.1101/083774 2016-10-27 Genomics Pooled CRISPR screening with single-cell transcriptome read-out Paul Datlinger|Christian Schmidl|Andre F Rendeiro|Peter Traxler|Johanna Klughammer|Linda Schuster|Christoph Bock CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
http://dx.doi.org/10.1101/083865 2016-10-27 Plant Biology CC BY-NC-ND Time dependent genetic analysis links field and controlled environment phenotypes in the model C4 grass Setaria Max J Feldman|Rachel E Paul|Darshi Banan|Jennifer F Barrett|Jose Sebastian|Muh-Ching Yee|Hui Jiang|Alexander E Lipka|Thomas P Brutnell|Jose R Dinneny|Andrew D.B. Leakey|Ivan Baxter Donald Danforth Plant Science Center;|University of Illinois Urbana-Champaign;|Carnegie Institution for Science;|Carnegie Institute for Science;|USDA-ARS
http://dx.doi.org/10.1101/083857 2016-10-27 Neuroscience Predictive representations can link model-based reinforcement learning to model-free mechanisms Evan M. Russek|Ida Momennejad|Matthew M. Botvinick|Samuel J. Gershman|Nathaniel D. Daw New York University;|Princeton University;|Google DeepMind;|Harvard University
http://dx.doi.org/10.1101/081737 2016-10-27 Biophysics CC BY-NC-ND Self assembly of HIV-1 Gag protein on lipid membranes generates PI(4,5)P2/Cholesterolnanoclusters. Naresh Yandrapalli|Quentin Lubart|Hanumant S. Tanwar|Catherine PICART|Johnson Mak|Delphine Muriaux|Cyril Favard CPBS-CNRS;|LMGP-INP Grenoble;|Deakin University
http://dx.doi.org/10.1101/083816 2016-10-27 Genetics Rare disruptive variants in the DISC1 Interactome and Regulome: association with cognitive ability and schizophrenia Shaolei Teng|Pippa Thomson|Shane McCarthy|Melissa Kramer|Stephanie Muller|Jayon Lihm|Stewart Morris|Dinesh Soares|William Hennah|Sarah Harris|Luiz Miguel Camargo|Vladislav Malkov|Andrew McIntosh|J. Kirsty Millar|Douglas Blackwood|Kathryn Evans|Ian Deary|David Porteous|W. Richard McCombie Howard University;|University of Edinburgh;|Cold Spring Harbor Laboratory;|University of Helsinki;|UCB New Medicines;|Merck & Co.
http://dx.doi.org/10.1101/083824 2016-10-27 Neuroscience CC BY-ND The successor representation in human reinforcement learning Ida Momennejad|Evan M. Russek|Jin H. Cheong|Matthew M. Botvinick|Nathaniel Daw|Samuel J. Gershman Princeton Neuroscience Institute;|Center for Neural Science, New York University;|Department of Psychological and Brain Sciences, Dartmouth College;|Google DeepMind and Gatsby Computational Neuroscience Unit, University College London;|Department of Psychology and Center for Brain Science, Harvard University
http://dx.doi.org/10.1101/084194 2016-10-28 Neuroscience CC BY-NC-ND Dual origins of measured phase-amplitude coupling reveal distinct neural mechanisms underlying episodic memory in the human cortex Alex P Vaz|Robert B Yaffe|John H Wittig|Sara K Inati|Kareem A Zaghloul Duke University School of Medicine;|Johns Hopkins University;|National Institute of Neurological Disorders and Stroke (NINDS)
http://dx.doi.org/10.1101/084251 2016-10-28 Genomics CC BY-NC-ND Genomic diagnosis for children with intellectual disability and/or developmental delay Kevin M Bowling|Michelle L Thompson|Michelle D Amaral|Candice R Finnila|Susan M Hiatt|Krysta L Engel|J Nicholas Cochran|Kyle B Brothers|Kelly M East|David E Gray|Whitley V Kelley|Neil E Lamb|Edward J Lose|Carla A Rich|Shirley Simmons|Jana S Whittle|Benjamin T Weaver|Richard M Myers|Gregory S Barsh|E Martina Bebin|Gregory M Cooper HudsonAlpha Institute for Biotechnology;|University of Louisville;|University of Alabama at Birmingham
http://dx.doi.org/10.1101/084269 2016-10-28 Bioinformatics CC BY-NC-ND CMPyMOL: A Tool for Protein Contact-Map Analysis Venkatramanan Krishnamani University of Iowa
http://dx.doi.org/10.1101/084145 2016-10-28 Genomics CC BY-NC-ND Challenges and solutions for transcriptome assembly in non-model organisms with an application to hybrid specimens Arnaud Ungaro|Nicolas Pech|Jean-Francois Martin|Scott RJ McCairns|Remi Chappaz|Andre Gilles Aix Marseille Universite;|Montpellier SupAgro;|Aix Marseille Universite - INRA
http://dx.doi.org/10.1101/084285 2016-10-28 Cell Biology CC BY-NC-ND Na+/Ca2+ exchangers and Orai channels jointly refill endoplasmic reticulum (ER) Ca2+ via ER nanojunctions in vascular endothelial cells Cristiana Maria Loredana Di Giuro|Niroj Shrestha|Roland Malli|Klaus Groschner|cornelis van breemen|Nicola Fameli Medical University of Graz;|University of British Columbia
http://dx.doi.org/10.1101/084087 2016-10-28 Genomics Single cell analysis of lincRNA expression during human blastocyst differentiation identifies TERT (+) multi-lineage precursor cells Jens Durruthy-Durruthy|Mark Wossidlo|Vittorio Sebastiano|Gennadi Glinsky Stanford University;|University of California San Diego
http://dx.doi.org/10.1101/084178 2016-10-28 Ecology CC BY-NC-ND The need to include phylogeny in trait-based analyses of community composition Daijiang Li|Anthony R Ives University of Wisconsin-Madison
http://dx.doi.org/10.1101/084160 2016-10-28 Neuroscience CC BY-NC-ND Distinctive BOLD Connectivity Patterns in the Schizophrenia Brain: Machine-learning based comparison between various connectivity measures Hio-Been Han Department of Psychology, Yonsei University
http://dx.doi.org/10.1101/084244 2016-10-28 Genetics Genome-wide screen for haploinsufficient cell size genes in the opportunistic yeast Candida albicans Julien Chaillot|Michael A Cook|Jacques Corbeil|Adnane Sellam Université Laval;|Samuel Lunenfeld Research Institute
http://dx.doi.org/10.1101/083840 2016-10-28 Neuroscience CC BY-NC-ND Neuronal synchrony and the relation between the BOLD response and the local field potential. Dora Hermes|Mai Nguyen|Jonathan Winawer Brain Center Rudolf Magnus, UMC Utrecht, The Netherlands;|Princeton University;|New York University
http://dx.doi.org/10.1101/084103 2016-10-28 Neuroscience CC BY-NC-ND Single or Multi-Frequency Generators in On-going Brain Activity: a Mechanistic Whole-Brain Model following empirical MEG evidences Gustavo Deco|Joana Cabral|Mark Woolrich|Angus Stevner|Tim van Hartevelt|Morten Kringelbach UPF;|University of Oxford;|Oxford Centre for Human Brain Actvity
http://dx.doi.org/10.1101/084046 2016-10-28 Paleontology CC BY-NC The case for species selection Carl Simpson National Museum of Natural History, Smithsonian Institution
http://dx.doi.org/10.1101/084228 2016-10-28 Microbiology CC BY-NC Genome scale mutational analysis of Geobacter sulfurreducens reveals distinct molecular mechanisms for respiration of poised electrodes vs. Fe(III) oxides Chi Ho Chan|Caleb E. Levar|Fernanda Jimenez Otero|Daniel R. Bond University of Minnesota
http://dx.doi.org/10.1101/084210 2016-10-28 Bioinformatics CC BY-NC Leveraging uncertainty information from deep neural networks for disease detection Christian Leibig|Vaneeda Allken|Philipp Berens|Siegfried Wahl University of Tuebingen
http://dx.doi.org/10.1101/084129 2016-10-28 Bioinformatics Accurate prediction of human essential genes using only nucleotide composition and association information Feng-Biao Guo|Chuan Dong|Hong-Li Hua|Shuo Liu|Hao Luo|Hong-Wan Zhang|Yan-Ting Jin|Kai-Yue Zhang School of Life Science and Technology, University of Electronic Science and Technology of China;|School of Life Science and Technology, University of Electronic Science and Technology of China,;|Department of Physics, Tianjin University
http://dx.doi.org/10.1101/083949 2016-10-28 Developmental Biology A microRNA family exerts maternal control on sex determination in C. elegans Katherine McJunkin|Victor Ambros University of Massachusetts Medical School
http://dx.doi.org/10.1101/083659 2016-10-28 Biochemistry CC BY-NC-ND Structural and Functional analysis of the GABARAP Interaction Motif (GIM). Vladimir V Rogov|Alexandra Stolz|Arvind C. Ravicahandran|Alexander Law|Hironori Suzuki|Andreas Kniss|Diana O. Rios-Szwed|Frank Loehr|Soichi Wakatsuki|Volker Doetsch|Ivan Dikic|Renwick C.J. Dobson|David McEwan Institute of Biophysical Chemistry and Center for Biomolecular Magnetic Resonance;|Institute of Biochemistry II;|Biomolecular Interaction Centre;|Biomolecular Interaction Centre & Structural Biology Research Center;|Division of Cell Signalling & Immunology, School of Life Sciences;|Structural Biology (School of Medicine), Beckman Center;|Biomolecular Interaction Centre, School of Biological Sciences;|University of Dundee
http://dx.doi.org/10.1101/084293 2016-10-29 Genetics CC BY-NC Constraints on eQTL fine mapping in the presence of multi-site local regulation of gene expression Biao Zeng|Luke Lloyd-Jones|Alexander Holloway|Urko M Marigorta|Andres Metspalu|Grant W Montgomery|Tonu Esko|Kenneth L Brigham|Arshed A Quyyumi|Youssef Idaghdour|Jian Yang|Peter M Visscher|Joseph E Powell|Greg Gibson Georgia Institute of Technology;|University of Queensland;|University of Tartu;|Emory University;|NYU Abu Dhabi
http://dx.doi.org/10.1101/084111 2016-10-29 Neuroscience Modeling Cognitive Processes with Neural Reinforcement Learning Sander E. Bosch|Katja Seeliger|Marcel A. J. van Gerven Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/084426 2016-10-30 Evolutionary Biology CC BY Ancestry in adapting, spatially-extended populations Daniel B Weissman Emory University
http://dx.doi.org/10.1101/084335 2016-10-30 Evolutionary Biology CC BY-NC-ND Level-Based Analysis of Genetic Algorithms and Other Search Processes Dogan Corus|Duc-Cuong Dang|Anton Eremeev|Per Kristian Lehre University of Sheffield;|University of Nottingham;|Omsk Branch of Sobolev Institute of Mathematics, Russia
http://dx.doi.org/10.1101/084202 2016-10-30 Systems Biology CC BY-NC-ND Single-cell entropy for quantification of differentiation potency from a cell's transcriptome Andrew E Teschendorff University College London + CAS-MPG Partner Institute for Computational Biology
http://dx.doi.org/10.1101/084376 2016-10-30 Evolutionary Biology CC BY-NC-ND The structured diversity of specialized gut symbionts of the New World army ants Piotr Lukasik|Justin A. Newton|Jon G. Sanders|Yi Hu|Corrie Moreau|Daniel Kronauer|Sean O'Donnell|Ryuichi Koga|Jacob A. Russell Drexel University, Philadelphia, PA, U.S.A.;|Harvard University, Cambridge, MA, U.S.A.;|Field Museum of Natural History, Chicago, IL, U.S.A.;|Rockefeller University, New York, NY, U.S.A.;|National Institute of Advanced Industrial Science and Technology, Tsukuba, Japan
http://dx.doi.org/10.1101/084392 2016-10-30 Cancer Biology CC BY-NC-ND Interplay of Driver, Mini-Driver, and Deleterious Passenger Mutations on Cancer Progression Xin Li|Dave Thirumalai University of Texas at Austin
http://dx.doi.org/10.1101/084400 2016-10-30 Systems Biology Phosphorylation energy and nonlinear kinetics as key determinants for G2/M transition in fission yeast cell cycle Teng Wang|Jian Zhao|Qi Ouyang|Hong Qian|Yu V. Fu|Fangting Li School of Physics, Center for Quantitative Biology, Peking University, Beijing 100871, China;|State Key Laboratory of Microbial Resources, Institute Of Microbiology, Chinese Academy of Sciences,;|Department of Applied Mathematics, University of Washington, Seattle, Washington 98195, U.S.A.
http://dx.doi.org/10.1101/084343 2016-10-30 Evolutionary Biology CC BY-NC Rapid evolution of the human mutation spectrum Kelley Harris|Jonathan Pritchard Stanford University
http://dx.doi.org/10.1101/082164 2016-10-30 Plant Biology Arabidopsis MADS-box transcription factor AGL21 acts as environmental surveillance for seed germination by regulating ABI5 Chengbin Xiang|Lin-Hui Yu|Jie Wu|Zi-Qing Miao|Ping-Xia Zhao|Zhen Wang School of Life Sciences, USTC
http://dx.doi.org/10.1101/084350 2016-10-30 Epidemiology CC BY-ND Non-polio enteroviruses in faeces of children diagnosed with acute flaccid paralysis in Nigeria. Temitope O.C. FALEYE|Moses O. Adewumi|Magaret O. Adeoti|Oluwole M. David|Adekemi O. Oluyege|Johnson A. Adeniji|Oladiran Famurewa Ekiti State University;|University of Ibadan;|Obafemi Awolowo University;|Kings University
http://dx.doi.org/10.1101/084715 2016-10-31 Bioinformatics Pavian: Interactive analysis of metagenomics data for microbiomics and pathogen identification Florian P Breitwieser|Steven L Salzberg Johns Hopkins University
http://dx.doi.org/10.1101/084657 2016-10-31 Microbiology 16S rRNA Gene Sequencing as a Clinical Diagnostic Aid for Gastrointestinal-related Conditions Daniel E Almonacid|Laurens Kraal|Francisco J Ossandon|Yelena V Budovskaya|Juan Pablo Cardenas|Jessica Richman|Zachary S Apte uBiome;|uBiome, UCSF
http://dx.doi.org/10.1101/084673 2016-10-31 Ecology CC BY Latitudinal metacommunity gradients in New Zealand stream invertebrates Jonathan D Tonkin|Russell G Death|Timo Muotka|Anna Astorga|David A Lytle Oregon State University;|Massey University;|University of Oulu;|P. Universidad Catolica de Chile & Centro de Investigacion de Ecosistemas de la Patagoni
http://dx.doi.org/10.1101/084707 2016-10-31 Microbiology CC BY-NC-ND Metabolic and spatio-taxonomic response of uncultivated seafloor bacteria following the Deepwater Horizon oil spill Kim M Handley|Piceno M Yvette|Ping Hu|Lauren M Tom|Olivia U Mason|Gary L Andersen|Janet K Jansson|Jack A Gilbert University of Auckland;|Lawrence Berkeley National Laboratory;|Florida State University;|Pacific Northwest National Laboratory;|University of Chicago
http://dx.doi.org/10.1101/084590 2016-10-31 Epidemiology Can you catch Ebola from a stork bite? Inductive reasoning influences on zoonosis risk perception Tyler Davis|Micah B Goldwater|Molly E Ireland|Nicholas Gaylord|Jason Van Allen Texas Tech University;|University of Sydney;|Gaylord Research
http://dx.doi.org/10.1101/084566 2016-10-31 Epidemiology CC BY-ND Enterovirus A119 in a child with Acute Flaccid Paralysis, Nigeria Johnson A. Adeniji|Arthur O. Oragwa|Uwem E. George|Ukeme I. Ibok|TEMITOPE O. C. FALEYE|Moses O. Adewumi University of Ibadan, Nigeria;|University of Jos, Nigeria;|Ekiti State University;|University of Ibadan
http://dx.doi.org/10.1101/084418 2016-10-31 Bioinformatics CC BY-NC-ND netDx: Patient classification using integrated patient similarity networks Shraddha Pai|Shirley Hui|Ruth Isserlin|Hussam Kaka|Gary Bader University of Toronto
http://dx.doi.org/10.1101/084608 2016-10-31 Biophysics Chromosome interactome inferred from mitosis-G1 transition Yuri Eidelman|Svetlana Slanina|Alina Aleshchenko|Sergey Andreev Institute of Biochemical Physics (Russian Academy of Sciences);|Institute of Biochemical Physics (Russian Academy of Sciences); National Research Nuclear University
http://dx.doi.org/10.1101/084616 2016-10-31 Genetics Fine-scale temporal analysis of genotype-dependent mortality at settlement in the Pacific oyster Crassostrea gigas Louis V. Plough University of Maryland Center for Environmental Science
http://dx.doi.org/10.1101/084624 2016-10-31 Evolutionary Biology CC BY-NC-ND The natural selection of metabolism and mass selects allometric transitions from prokaryotes to mammals Lars Witting Greenland Institute of Natural Resources
http://dx.doi.org/10.1101/084632 2016-10-31 Neuroscience Visual processing mode switching regulated by VIP cells Jung Hoon Lee|Stefan Mihalas Allen Institute for Brain Science
http://dx.doi.org/10.1101/084582 2016-10-31 Bioinformatics Phenopolis: an open platform for harmonization and analysis of sequencing and phenotype data Nikolas Pontikos|Jing Yu|Fiona Blanco-Kelly|Tom Vulliamy|Tsz Lun Wong|Cian Murphy|Valentina Cipriani|Alessia Fiorentino|Gavin Arno|Daniel Greene|Julius OB Jacobsen|Tristan Clark|David S Gregory|Andrea Nemeth|Stephanie Halford|Susan Downes|Graeme C Black|Andrew R Webster|Alison Hardcastle|Vincent Plagnol University College London;|Nuffield Department of Clinical Neurosciences, University of Oxford;|UCL Institute of Ophthalmology, University College London;|Barts and The London School of Medicine and Dentistry, Queen Mary University of London;|UCL Genetics Institute, University College London;|University of Cambridge, NHS Blood and Transplant, Cambridge Biomedical Campus;|Barts and The London, Queen Mary's School of Medicine and Dentistry;|Computer Science Department, University College London;|Nuffield Department of Clinical Neurosciences University of Oxford;|Oxford Eye Hospital, John Radcliffe Hospital, Oxford;|Manchester Royal Eye Hospital, Central Manchester University Hospitals NHS Foundation Trust;|Moorfields Eye Hospital, London
http://dx.doi.org/10.1101/084467 2016-10-31 Evolutionary Biology CC BY-NC-ND Ploidy tug-of-war: evolutionary and genetic environments influence the rate of ploidy drive in a human fungal pathogen Aleeza Gerstein|Heekyung Lim|Judith Berman|Meleah Hickman University of Minnesota;|Tel Aviv University;|Emory University
http://dx.doi.org/10.1101/084541 2016-10-31 Epidemiology CC BY Power calculator for instrumental variable analysis in pharmacoepidemiology Venexia M Walker|Neil M Davies|Frank Windmeijer|Stephen Burgess|Richard M Martin University of Bristol;|University of Cambridge
http://dx.doi.org/10.1101/084483 2016-10-31 Bioinformatics CC BY EuMicrobedbLite: A lightweight genomic resource and analytic platform for draft oomycete genomes Arijit Panda|Diya Sen|Arup Ghosh|Akash Gupta|Mathu Malar C|Gyan Prakash Mishra|Deeksha Singh|Wenwu Ye|Brett M. Tyler|Sucheta Tripathy Indian Institute of Chemical Biology;|Oregon State University,Nanjing Agricultural University;|Oregon State University
http://dx.doi.org/10.1101/084533 2016-10-31 Biochemistry CC BY-NC-ND A modified FASP protocol for high-throughput preparation of protein samples for mass spectrometry Jeremy Potriquet|Marut Laohaviroj|Jeffery Bethony|Jason Mulvenna QIMR Berghofer MRI;|Khon Kaen University;|George Washington University
http://dx.doi.org/10.1101/084517 2016-10-31 Neuroscience CC BY-NC-ND Bayesian mapping reveals that attention boosts neural responses to predicted and unpredicted stimuli Marta Garrido|Elise Rowe|Veronika Halasz|Jason Mattingley The University of Queensland
http://dx.doi.org/10.1101/084558 2016-10-31 Evolutionary Biology CC BY-NC Vertically transmitted rhabdoviruses are found across three insect families and have dynamic interactions with their hosts Ben Longdon|Jon Day|Nora Schulz|Philip T Leftwich|Maaike A de Jong|Casper J Breuker|Melanie Gibbs|Darren J Obbard|Lena Wilfert|Sophia CL Smith|John E McGonigle|Thomas M Houslay|Lucy I Wright|Luca Livraghi|Luke C Evans|Lucy A Friend|Tracey Chapman|John Vontas|Natasa Kambouraki|Francis M Jiggins University of Exeter;|University of Cambridge;|Westfalische Wilhelms-Universitat Munster;|University of East Anglia;|University of Bristol;|Oxford Brookes University;|Centre for Ecology and Hydrology;|University of Edinburgh;|Zoological Society of London;|Agricultural University of Athens;|fmj1001@cam.ac.uk
http://dx.doi.org/10.1101/084459 2016-10-31 Evolutionary Biology CC BY Minimal-assumption inference from population-genomic data Daniel B Weissman|Oskar Hallatschek Emory University;|University of California, Berkeley
http://dx.doi.org/10.1101/084442 2016-10-31 Systems Biology High temporal resolution of gene expression dynamics in developing mouse embryonic stem cells Brian S Gloss|Bethany Signal|Seth W Cheetham|Franziska Gruhl|Dominik Kaczorowski|Andrew C Perkins|Marcel E Dinger Garvan Institute of Medical Research;|Gurdon Institute;|University of Lausanne;|Mater-UQ Research Insitute
http://dx.doi.org/10.1101/084764 2016-11-01 Biophysics CC BY-NC-ND Causality, Transfer Entropy and Allosteric Communication Landscapes in Proteins with Harmonic Interactions Aysima Hacisuleyman|Burak Erman Koc University
http://dx.doi.org/10.1101/084756 2016-11-01 Biophysics Entropy Transfer between Residue Pairs Shows that Allostery is an Intrinsic Property of Proteins: Quantifying Allosteric Communication in Ubiquitin Aysima Hacisuleyman|Burak Erman Koc University
http://dx.doi.org/10.1101/084723 2016-11-01 Biophysics CC BY-NC-ND THE CREATION OF A NEGATIVE SLOPE CONDUCTANCE REGION BY THE ACTIVATION OF THE PERSISTENT SODIUM CURRENT PROLONGS NEAR-THRESHOLD SYNAPTIC POTENTIALS Cesar Ceballos|Antonio Roque|Ricardo Leao University of Sao Paulo
http://dx.doi.org/10.1101/084798 2016-11-01 Genetics Cognitive ability and physical health: a Mendelian randomization study Saskia Hagenaars|Catharine R Gale|Ian J Deary|Sarah E Harris University of Edinburgh
http://dx.doi.org/10.1101/084806 2016-11-01 Animal Behavior and Cognition CC BY-NC-ND Unexpected diversity in socially synchronized rhythms of shorebirds Martin Bulla|Mihai Valcu|Adriaan A. Dokter|Alexei A. Dondua|Andras Kosztolanyi|Anne Rutten|Barbara Helm|Brett K. Sandercock|Bruce Casler|Bruno J. Ens|Caleb S. Spiegel|Chris J. Hassell|Clemens Kupper|Clive Minton|Daniel Burgas|David B. Lank|David C. Payer|Egor E. Loktinov|Erica Nol|Eunbi Kwon|Fletcher Smith|H. River Gates|Hana Vitnerova|Hanna Pruter|James A. Johnson|James J. H. St Clair|Jean-Francois Lamarre|Jennie Rausch|Jeroen Reneerkens|Jesse R. Conklin|Joana Burger|Joe Liebezeit|Joel Bety|Jonathan T. Coleman|Jordi Figuerola|Jos C. E. W. Hooijmeijer|Jose A. Alves|Joseph A. M. Smith|Karel Weidinger|Kari Koivula|Ken Gosbell|Larry Niles|Laura Koloski|Laura McKinnon|Libor Praus|Marcel Klaassen|Marie-Andree Giroux|Martin Sladecek|Megan L. Boldenow|Michael Exo|Michael I. Goldstein|Miroslav Salek|Nathan Senner|Nelli Ronka|Nicolas Lecomte|Olivier Gilg|Orsolya Vincze|Oscar W. Johnson|Paul A. Smith|Paul F. Woodard|Pavel S. Tomkovich|Phil Battley|Rebecca Bentzen|Richard B. Lanctot|Ron Porter|Sarah T. Saalfeld|Scott Freeman|Stephen C. Brown|Stephen Yezerinac|Tamas Szekely|Tomas Montalvo|Theunis Piersma|Vanessa Loverti|Veli-Matti Pakanen|Wim Tijsen|Bart Kempenaers Max Planck Institute for Ornithology;|University of Amsterdam;|Independent researcher;|University of Veterinary Medicine Budapest and University of Debrecen;|University of Glasgow;|Kansas State University;|Box 1094, 89407, Fallon, NV, USA;|Sovon Dutch Centre for Field Ornithology;|US Fish and Wildlife Service;|Global Flyway Network;|University of Graz;|Victorian Wader Study Group;|University of Helsinki and University of Jyvaskyla;|Simon Fraser University;|U.S. National Park Service;|Bauman Moscow State Technical University;|Trent University;|Virginia Polytechnic Institute and State University;|College of William and Mary and Virginia Commonwealth University;|ABR, Inc. Environmental Research and Services;|Charles University in Prague;|Leibniz Institute for Zoo and Wildlife Research;|University of Bath and University of Western Australia;|Universite du Quebec a Rimouski;|Environment and Climate Change Canada;|University of Groningen;|Rutgers University;|Audubon Society of Portland;|Queensland Wader Study Group;|Donana Biological Station (CSIC);|University of Aveiro & University of Iceland;|Conservation Services International;|Palacky University;|University of Oulu;|Australasian Wader Studies Group;|LJ Niles Associates;|York University Glendon Campus;|Deakin University;|Universite du Quebec a Rimouski and Universite de Moncton;|Czech University of Life Sciences Prague;|University of Alaska Fairbanks;|Vogelwarte Helgoland;|University of Alaska Southeast;|University of Groningen and Cornell Lab of Ornithology;|Universite de Moncton;|Universite de Bourgogne;|University of Debrecen and Babes Bolyai University;|Montana State University;|Lomonosov Moscow State University;|Massey University;|Wildlife Conservation Society;|Delaware Bay Shorebird Project;|Shorebird Recovery Program;|Fieldday Consulting;|University of Bath;|Agencia de Salut Publica de Barcelona;|University of Groningen and NIOZ Royal Netherlands Institute for Sea Research;|U.S. Fish and Wildlife Service;|Poelweg 12, 1778 KB, Westerland, The Netherlands
http://dx.doi.org/10.1101/084848 2016-11-01 Microbiology CC BY-NC-ND Lipopolysaccharide composition determines the preferred route and entry kinetics of bacterial outer membrane vesicles into host cells Eloise J ODonoghue|Douglas F Browning|Ewa Bielska|Luke Alderwick|Sara Jabbari|Anne Marie Krachler Institute of Microbiology and Infection, School of Biosciences, University of Birmingham;|School of Mathematics, University of Birmingham;|Department of Microbiology and Molecular Genetics, University of Texas McGovern Medical School
http://dx.doi.org/10.1101/084780 2016-11-01 Bioinformatics CC BY-NC-ND PREDetector 2.0: Online and Enhanced Version of the Prokaryotic Regulatory Elements Detector Tool Pierre Tocquin|Aymeric Naome|Samuel Jourdan|Sinaeda Anderssen|Samuel Hiard|Gilles P van Wezel|Marc Hanikenne|Denis Baurain|Sebastien Rigali University of Liege;|University of Leiden
http://dx.doi.org/10.1101/083683 2016-11-01 Evolutionary Biology Bacterial but not protist gut microbiota align with ecological specialization in a set of lower termite species Lena Waidele|Judith Korb|Sven Kuenzel|Franck Dedeine|Fabian Staubach Albert Ludwigs Universitaet Freiburg;|Max Planck Institut fuer Evolutionsbiologie;|Universite de Tours
http://dx.doi.org/10.1101/084772 2016-11-01 Genomics CC BY-NC-ND The megabase-sized fungal genome of Rhizoctonia solani assembled from nanopore reads only. Erwin Datema|Raymond J.M. Hulzink|Lisanne Blommers|Jose Espejo Valle-Inclan|Nathalie Van Orsouw|Alexander H.J. Wittenberg|Martin De Vos Keygene N.V.
http://dx.doi.org/10.1101/084731 2016-11-01 Neuroscience CC BY-NC Sleep regulation of the distribution of cortical firing rates Daniel Levenstein|Brendon O Watson|John Rinzel|Gyorgy Buzsaki New York University
http://dx.doi.org/10.1101/085266 2016-11-02 Biochemistry Microbes use encapsulin protein organelles to sequester toxic reactions Tobias Wolfgang Giessen|Pamela Ann Silver Harvard Medical School
http://dx.doi.org/10.1101/085118 2016-11-02 Bioinformatics CC BY Automating Morphological Profiling with Generic Deep Convolutional Networks Nick Pawlowski|Juan C Caicedo|Shantanu Singh|Anne E Carpenter|Amos Storkey Imperial College London;|Broad Institute of MIT and Harvard;|University of Edinburgh
http://dx.doi.org/10.1101/085274 2016-11-02 Neuroscience CC BY-NC-ND Exploring Anti-correlated Resting State BOLD Signals Through Dynamic Functional Connectivity and Whole-brain Computational Modeling Murat Demirtas|Matthieu Gilson|John D. Murray|Dina Popovic|Eduard Vieta|Luis Pintor|Vesna Prckovska|Pablo Villoslada|Gustavo Deco Yale University;|Universitat Pompeu Fabra, Barcelona;|IDIBAPS, Barcelona;|IDIBAPS, Barcelona; Mint Labs, Barcelona;|IDIBAPS, Barcelona; University of California San Diego, USA
http://dx.doi.org/10.1101/085241 2016-11-02 Bioinformatics CC BY-NC-ND Predicting Enhancer-Promoter Interaction from Genomic Sequence with Deep Neural Networks Shashank Singh|Yang Yang|Barnabas Poczos|Jian Ma Carnegie Mellon University
http://dx.doi.org/10.1101/085258 2016-11-02 Biochemistry CC BY-ND Quod erat demonstrandum? No restriction endonuclease fold in MIF Lakshminarayan M Iyer|L Aravind NCBI/NLM/NIH;|National Center for Biotechnology Information
http://dx.doi.org/10.1101/085183 2016-11-02 Pharmacology and Toxicology CC BY-NC-ND First Indications for Long-Term Benzodiazepine and Z-drugs use in the United Kingdom James Davies|Todd Rae|Luke Montagu University of Roehampton;|All Party Parliamentary Group for Prescribed Drug Dependence
http://dx.doi.org/10.1101/085233 2016-11-02 Synthetic Biology CC BY-NC-ND Engineering Genetically-Encoded Mineralization and Magnetism via Directed Evolution Xueliang Leon Liu|Paola A Lopez|Tobias W Giessen|Michael Giles|Jeffrey C Way|Pamela A Silver Harvard University;|Graduate Program in Bioengineering UC Berkeley/UCSF;|Harvard Medical School;|Wyss Institute for Biologically Inspired Engineering
http://dx.doi.org/10.1101/085225 2016-11-02 Microbiology A Rhizobiales-specific unipolar polysaccharide adhesin contributes to Rhodopseudomonas palustris biofilm formation across diverse photoheterotrophic conditions Ryan K Fritts|Breah LaSarre|Ari M Stoner|Amanda L Posto|James B McKinlay Indiana University
http://dx.doi.org/10.1101/085175 2016-11-02 Genomics Smooth Quantile Normalization Stephanie C Hicks|Kwame Okrah|Joseph N Paulson|John Quackenbush|Rafael A Irizarry|Hector Corrada Bravo Dana-Farber Cancer Institute;|Genentech;|Dana-Farber Cancer Institue;|University of Maryland
http://dx.doi.org/10.1101/085134 2016-11-02 Evolutionary Biology A positive association between population genetic differentiation and speciation rates in New World birds Michael Harvey|Glenn F Seeholzer|Brian Tilston Smith|Daniel L Rabosky|Andres M Cuervo|John T Klicka|Robb T Brumfield University of Michigan;|Department of Biological Sciences and Museum of Natural Science, Louisiana State University;|Department of Ecology and Evolutionary Biology and Museum of Zoology, University of Michigan;|Department of Ecology and Evolutionary Biology, Tulane University;|Department of Biology and the Burke Museum of Natural History and Culture, University of Washington
http://dx.doi.org/10.1101/085167 2016-11-02 Biophysics Folding Principle of Chromosome Emerges from Mapping of Genome Features onto its 3D Structure Wen Jun Xie|Luming Meng|Sirui Liu|Ling Zhang|Xiaoxia Cai|Yi Qin Gao Peking University
http://dx.doi.org/10.1101/085126 2016-11-02 Evolutionary Biology Habitat preference predicts genetic diversity and population divergence in Amazonian birds Michael Harvey|Alexandre Aleixo|Camila C Ribas|Robb T Brumfield University of Michigan;|Museu Paraense Emílio Goeldi (MPEG);|Instituto Nacional de Pesquisas da Amazônia (INPA);|Department of Biological Sciences and Museum of Natural Science, Louisiana State University
http://dx.doi.org/10.1101/085001 2016-11-02 Bioinformatics Dynamic Modeling, Parameter Estimation and Uncertainty Analysis in R Daniel Kaschek|Wolfgang Mader|Mirjam Fehling-Kaschek|Marcus Rosenblatt|Jens Timmer University of Freiburg
http://dx.doi.org/10.1101/085035 2016-11-02 Neuroscience CC BY-NC The HTM Spatial Pooler: a neocortical algorithm for online sparse distributed coding Yuwei Cui|Subutai Ahmad|Jeff Hawkins Numenta, Inc
http://dx.doi.org/10.1101/084525 2016-11-02 Neuroscience TrkB signaling underlies the rapid antidepressant effects of isoflurane Hanna Antila|Plinio Casarotto|Dina Popova|Pia Sipila|Ramon Guirado|Samuel Kohtala|Maria Ryazantseva|Liisa Vesa|Jesse Lindholm|Ipek Yalcin|Vinicius Sato|Helka Goos|Sarah Lempriere|Joshua Cordeira|Henri Autio|Mikhail Kislin|Maribel Rios|Samia Joca|Leonard Khiroug|Sari Lauri|Markku Varjosalo|Seth G.N. Grant|Tomi Taira|Eero Castren|Tomi Rantamaki Neuroscience Center, University of Helsinki, Finland;|Department of Biosciences, University of Helsinki, Finland;|INCI, Strasbourg, France;|School of Pharmaceutical Sciences of Ribeirao Preto, Brazil;|eInstitute of Biotechnology, University of Helsinki, Finland;|University of Edinburgh, UK;|Tufts University, Boston, MA, USA;|Institute of Biotechnology, University of Helsinki, Finland
http://dx.doi.org/10.1101/084871 2016-11-02 Bioinformatics CC BY-NC-ND PopPAnTe: population and pedigree association testing for quantitative data Alessia Visconti|Mashael Al-Shafai|Wadha A Al Muftah|Shaza B Zaghlool|Massimo Mangino|Karsten Suhre|Mario Falchi King's College London;|Department of Physiology and Biophysics, Weill Cornell Medical College in Qatar, Doha, Qatar
http://dx.doi.org/10.1101/085084 2016-11-02 Genetics CC BY-NC Smith-Lemli-Opitz syndrome carrier frequency and estimates of in utero mortality rates Gabriel A. Lazarin|Imran S Haque|Eric A Evans|James D. Goldberg Counsyl
http://dx.doi.org/10.1101/084640 2016-11-02 Genomics CC BY-ND Prioritisation of Structural Variant Calls in Cancer Genomes Miika J Ahdesmaki|Brad Chapman|Pablo E Cingolani|Oliver Hofmann|Aleksandr Sidoruk|Zhongwu Lai|Gennadii Zakharov|Mikhail Rodichenko|Mikhail Alperovich|David Jenkins|T. Hedley Carr|Daniel Stetson|Brian Dougherty|J. Carl Barrett|Justin J Johnson AstraZeneca;|Harvard T.H. Chan School of Public Health;|Kew Inc.;|University of Melbourne Centre for Cancer Research;|EPAM Inc;|EPAM Inc.;|Boston University
http://dx.doi.org/10.1101/084665 2016-11-02 Neuroscience CC BY-ND Individual differences in functional connectivity during naturalistic viewing conditions Tamara Vanderwal|Jeffrey Eilbott|Emily S. Finn|R. Cameron Craddock|Adam G. Turnbull|Francisco Xavier Castellanos Yale University;|Child Mind Institute;|Child Study Center at New York University Langone Medical Center
http://dx.doi.org/10.1101/084970 2016-11-02 Neuroscience CC BY-ND Ventral tegmental area neurons use an ensemble code for representing information about ongoing actions Jesse Wood|Nicholas W Simon|Spencer Koerner|Robert E Kass|Bita Moghaddam University of Pittsburgh;|University of Memphis;|Carnegie Mellon University
http://dx.doi.org/10.1101/084897 2016-11-02 Genomics CC BY-NC Longitudinal genomic surveillance of Plasmodium falciparum malaria parasites reveals complex genomic architecture of emerging artemisinin resistance in western Thailand Gustavo C Cerqueira|Ian H Cheeseman|Steve F Schaffner|Shalini Nair|Marina McDew-White|Aung Pyae Phyo|Elizabeth A Ashley|Alexandre Melnikov|Peter Rogov|Bruce W Birren|Francois Nosten|Timothy J.C. Anderson|Daniel E Neafsey Broad Institute of MIT and Harvard;|Texas Biomedical Research Institute;|Shoklo Malaria Research Unit, Mahidol University
http://dx.doi.org/10.1101/085050 2016-11-02 Bioinformatics CC BY WhatsHap: fast and accurate read-based phasing Marcel Martin|Murray Patterson|Shilpa Garg|Sarah Fischer|Nadia Pisanti|Gunnar W. Klau|Alexander Schoenhuth|Tobias Marschall Science for Life Laboratory;|Universite de Lyon;|Saarland University and Max Planck Institute for Informatics;|Saarland University;|University of Pisa;|Centrum Wiskunde & Informatica (CWI)
http://dx.doi.org/10.1101/076059 2016-11-02 Ecology CC BY-NC-ND Parasite-microbiota interactions potentially affect intestinal communities in wild mammals Tuomas Aivelo|Anna Norberg University of Zurich;|University of Helsinki
http://dx.doi.org/10.1101/084327 2016-11-02 Epidemiology CC BY-NC-ND Pre-Hospital Midazolam for Treatment of Status Epilepticus Before and After the Rapid Anticonvulsant Medication Prior to Arrival Trial (RAMPART): A National Observational Cohort Study Eytan Shtull-Leber|Robert Silbergleit|William J Meurer University of Michigan
http://dx.doi.org/10.1101/084988 2016-11-02 Plant Biology The Tension-sensitive Ion Transport Activity of MSL8 is Critical for its Function in Pollen Hydration and Germination Eric S. Hamilton|Elizabeth S. Haswell Washington University;|Washington University in Saint Louis
http://dx.doi.org/10.1101/084947 2016-11-02 Genetics CC BY-ND Major histocompatibility complex haplotyping and long-amplicon allele discovery in cynomolgus macaques from Chinese breeding facilities Julie A Karl|Michael E Graham|Roger W Wiseman|Katelyn E Heimbruch|Samantha M Gieger|Gaby GM Doxiadis|Ronald E Bontrop|David H O'Connor University of Wisconsin-Madison;|Biomedical Primate Research Centre
http://dx.doi.org/10.1101/085027 2016-11-02 Biophysics CC BY Multispot single-molecule FRET: high-throughput analysis of freely diffusing molecules Antonino Ingargiola|Eitan Lerner|SangYoon Chung|Francesco Panzeri|Angelo Gulinatti|Ivan Rech|Massimo Ghioni|Shimon Weiss|Xavier Michalet University of California Los Angeles;|Politecnico di Milano
http://dx.doi.org/10.1101/085043 2016-11-02 Plant Biology tRNA-derived small RNAs target transposable element transcripts Sarah Choudury|Keith Slotkin|German Martinez The Ohio State University;|Swedish University of Agricultural Sciences and Linnean Center of Plant Biology
http://dx.doi.org/10.1101/084954 2016-11-02 Bioinformatics HiC-bench: comprehensive and reproducible Hi-C data analysis designed for parameter exploration and benchmarking Charalampos Lazaris|Stephen Kelly|Panagiotis Ntziachristos|Iannis Aifantis|Aristotelis Tsirigos New York University;|Northwestern University
http://dx.doi.org/10.1101/084889 2016-11-02 Cell Biology CC BY A mouse model of hereditary hemorrhagic telangiectasia generated by transmammary-delivered immunoblocking of BMP9 and BMP10 Santiago Ruiz|Haitian Zhao|Pallavi Chandakkar|Prodyot Chatterjee|Lionel Blanc|Christine Metz|Fabien Campagne|Philippe Marambaud The Feinstein Institute - Northwell Health;|The Weill Cornell Medical College
http://dx.doi.org/10.1101/085092 2016-11-02 Genomics True causal effect size heterogeneity is required to explain trans-ethnic differences in GWAS signals Daniela Zanetti|Michael E. Weale University of Barcelona;|Kings College London
http://dx.doi.org/10.1101/083295 2016-11-02 Evolutionary Biology Contribution of mobile elements to the uniqueness of human genome with more than 15,000 human-specific insertions Wanxiangfu Tang|Seyoung Mun|Adiya Joshi|Kyundong Han|Ping Liang Department of Biological Sciences, Brock University;|Center for Regenerative Medicine, Dankook University;|Department of Nanobiomedical Science, Dankook University
http://dx.doi.org/10.1101/085597 2016-11-03 Immunology CC BY Constitutive Immune Activity Promotes Tumorigenesis in Drosophila Intestinal Progenitor Cells. Kristina Petkau|Silvia Guntermann|Edan Foley University of Alberta
http://dx.doi.org/10.1101/085571 2016-11-03 Genomics CC BY-ND Rfx2 stabilizes Foxj1 binding at chromatin loops to enable multiciliated cell gene expression Ian K Quigley|Chris Kintner Salk Institute for Biological Studies
http://dx.doi.org/10.1101/085498 2016-11-03 Bioinformatics Assessment of Antibody Library Diversity through Next Generation Sequencing and Technical Error Compensation. Marco Fantini|Luca Pandolfini|Simonetta Lisi|Michele Chirichella|Ivan Arisi|Marco Terrigno|Martina Goracci|Federico Cremisi|Antonino Cattaneo Bio@SNS Laboratory, Scuola Normale Superiore, Pisa, Italy;|European Brain Research Institute, Roma, Italy
http://dx.doi.org/10.1101/085522 2016-11-03 Genomics CC BY-NC-ND Sequence features explain most of the mRNA stability variation across genes Jun Cheng|Ziga Avsec|Julien Gagneur Technical University of Munich
http://dx.doi.org/10.1101/085530 2016-11-03 Biophysics CC BY Using the Volta phase plate with defocus for cryo-EM single particle analysis Radostin Danev|Dimitry Tegunov|Wolfgang Baumeister Max Planck Institute of Biochemistry;|Max Planck Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/085555 2016-11-03 Plant Biology CC BY Dynamical modelling of the heat shock response in Chlamydomonas reinhardtii Stefano Magni|Antonella Succurro|Alexander Skupin|Oliver Ebenhoeh Luxembourg Centre for System Biomedicine, University of Luxembourg;|Cologne Biocenter, University of Cologne;|Heinrich Heine University Duesseldorf
http://dx.doi.org/10.1101/085548 2016-11-03 Neuroscience CC BY-ND Bridging multiple scales in the human brain using computational modelling Michael Schirner|Anthony Randal McIntosh|Viktor Jirsa|Gustavo Deco|Petra Ritter Charite Berlin;|Baycrest Centre;|Aix-Marseille Universite;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/084962 2016-11-03 Systems Biology CC BY-NC-ND Interrogating the Topological Robustness of Gene Regulatory Circuits Bin Huang|Mingyang Lu|Dongya Jia|Eshel Ben-Jacob|Herbert Levine|Jose Onuchic Rice University;|The Jackson Laboratory;|Tel Aviv University
http://dx.doi.org/10.1101/085191 2016-11-03 Bioinformatics CC BY-NC-ND RNA-protein binding motifs mining with a new hybrid deep learning based cross-domain knowledge integration approach Xiaoyong Pan|Hong-Bin Shen University of Copenhagen;|Shanghai Jiao Tong University
http://dx.doi.org/10.1101/085019 2016-11-03 Bioinformatics Duplicates, redundancies, and inconsistencies in the primary nucleotide databases: a descriptive study Qingyu Chen|Justin Zobel|Karin Verspoor The University of Melbourne
http://dx.doi.org/10.1101/085431 2016-11-03 Evolutionary Biology Inferring the role of habitat dynamics in driving diversification: evidence for a species pump in Lake Tanganyika cichlids Thijs Janzen|Rampal Etienne Max Planck Institute for Evolutionary Biology;|University of Groningen
http://dx.doi.org/10.1101/085324 2016-11-03 Bioinformatics Benchmarks for Measurement of Duplicate Detection Methods in Nucleotide Databases Qingyu Chen|Justin Zobel|Karin Verspoor The University of Melbourne
http://dx.doi.org/10.1101/085340 2016-11-03 Microbiology CC BY-NC A novel restraint device for injection of Galleria mellonella larvae that minimises the risk of accidental operator needle stick injury James P Dalton|Benedict Uy|Simon Swift|Siouxsie Wiles Bioluminescent Superbugs Lab, University of Auckland;|University of Auckland
http://dx.doi.org/10.1101/085100 2016-11-03 Scientific Communication and Education CC BY Starting from the end: what to do when restricted data is released Marta Teperek|Rhys Morgan|Michelle Renee Ellefson|Danny Kingsley University of Cambridge
http://dx.doi.org/10.1101/085399 2016-11-03 Genomics CC BY Evaluation of the accuracy of imputed sequence variants and their utility for causal variant detection in cattle Hubert Pausch|Iona M MacLeod|Ruedi Fries|Reiner Emmerling|Phil J Bowman|Hans D Daetwyler|Michael E Goddard Biosciences Research;|Biosciences Research, DEDJTR;|Technische Universitaet Muenchen;|Institute of Animal Breeding, Bavarian State Research Center for Agriculture;|School of Applied Systems Biology, LaTrobe University; Biosciences Research, DEDJTR;|Faculty of Veterinary and Agricultural Sciences, University of Melbourne
http://dx.doi.org/10.1101/085332 2016-11-03 Neuroscience CC BY-NC-ND The lexical categorization model: A computational model of left ventral occipito-temporal cortex activation in visual word recognition Benjamin Gagl|Fabio Richlan|Philipp Ludersdorfer|Jona Sassenhagen|Christian J. Fiebach Goethe University Frankfurt;|University of Salzburg;|University College London
http://dx.doi.org/10.1101/084921 2016-11-03 Scientific Communication and Education CC BY-NC-ND All or Nothing: the False Promise of Anonymity Neil M Walker Cambridge University Hospitals NHS Foundation Trust
http://dx.doi.org/10.1101/085456 2016-11-03 Ecology Identifying Migrant Origins Using Genetics, Isotopes, and Habitat Suitability Kristen C Ruegg|Eric Anderson|Ryan J Harrigan|Kristina L Paxton|Jeff Kelly|Frank Moore|Thomas B Smith University of California, Santa Cruz;|NOAA;|University of California, Los Angeles;|Department of Biology, University of Hawaii, Hilo;|Oklahoma Biological Survey, University of Oklahoma;|University of Southern Mississippi
http://dx.doi.org/10.1101/085415 2016-11-03 Microbiology CC BY-NC Standard Issue: Copy number heterogeneity of JC virus standards discovered through next-generation sequencing Alexander Greninger|Allen C Bateman|Ederlyn E. Atienza|Sharon Wendt|Keith R. Jerome|Linda Cook University of Washington
http://dx.doi.org/10.1101/085472 2016-11-03 Evolutionary Biology CC BY-NC-ND Phylogenetic relationships and genome size evolution within the genus Amaranthus indicate the ancestors of an ancient crop Markus G Stetter|Karl J Schmid University of Hohenheim
http://dx.doi.org/10.1101/085423 2016-11-03 Cancer Biology An evolving cancer instigates clonally unrelated neighboring cells to form distant metastases. Jie Dong|Cedric Darini|Farhia Kabeer|Sarah Dendievel|Junxia Min|Dolores Hambardzumyan|Louis Gaboury|Tom Lenaerts|Guillaume Darrasse-Jeze|Yi Li|Katrina Podsypanina Baylor College of Medicine;|Lady Davis Institute for Medical Research;|British Columbia Cancer Agency;|Ghent University;|Zhejiang University;|Lerner Research Institute;|Université de Montréal;|Université Libre de Bruxelles;|Université René Descartes;|Institut Curie
http://dx.doi.org/10.1101/085381 2016-11-03 Neuroscience Feature-coding transitions to conjunction-coding with progression through human visual cortex Rosemary A. Cowell|John T. Serences University of Massachusetts Amherst;|University of California at San Diego
http://dx.doi.org/10.1101/085357 2016-11-03 Bioinformatics CC BY-NC Tissue specificity of in vitro drug sensitivity Fupan Yao|Seyed Ali Madani Tonekaboni|Zhaleh Safikhani|Petr Smirnov|Nehme El-Hachem|Mark Freeman|Venkata Satya Kumar Manem|Benjamin Haibe-Kains Princess Margaret Cancer Centre;|Institut de recherches cliniques de Montreal;|Princes Margaret Cancer Centre;|University Health Network
http://dx.doi.org/10.1101/085068 2016-11-03 Neuroscience The neural basis of precise visual short-term memory for complex recognisable objects Michele Veldsman|Daniel J Mitchell|Rhodri Cusack University of Oxford;|Medical Research Council Cognition and Brain Sciences Unit;|Brain and Mind Institute, University of Western Ontario
http://dx.doi.org/10.1101/055756 2016-11-03 Evolutionary Biology CC BY The Monarch Initiative: Insights across species reveal human disease mechanisms Christopher Mungall|Julie McMurry|Sebastian Koehler|James Balhoff|Charles Borromeo|Matthew Brush|Seth Carbon|TOM CONLIN|Nathan Dunn|Mark Engelstad|Erin Foster|Jean-Philippe Gourdine|Julius Jacobsen|Daniel Keith|Bryan Laraway|Suzanna Lewis|Jeremy Nguyen Xuan|Kent Shefchek|Nicole Vasilevsky|Zhou Yuan|Nicole Washington|Harry Hochheiser|Tudor Groza|Damian Smedley|Peter Robinson|Melissa Haendel LBNL;|OHSU;|Charite;|RTI;|UPitt;|QMUL;|Garvan;|Jackson Laboratory
http://dx.doi.org/10.1101/085365 2016-11-03 Neuroscience CC BY Transcriptomics reveals patterns of sexually dimorphic gene expression in an avian hypothalamic-pituitary-gonadal (HPG) axis Matthew MacManes|Suzanne Austin|Andrew Lang|April Booth|Victoria Farrar|Rebecca M Calisi University of New Hampshire;|University of California, Davis
http://dx.doi.org/10.1101/079962 2016-11-03 Neuroscience CC BY-NC-ND Long-range suppressive influences from the visual surround can be explained by anatomically plausible recruitment of local competition in a model of columnar cortex Hongzhi You|Giacomo Indiveri|Dylan Muir University of Electronic Science and Technology of China;|University / ETH Zurich;|University of Basel
http://dx.doi.org/10.1101/085860 2016-11-04 Biophysics CC BY-NC Histone code and higher-order chromatin folding: A hypothesis Kirti Prakash|David Fournier Department of Embryology, Carnegie Institution for Science, Baltimore, MD 21218, USA;|Faculty of Biology and Center for Computational Sciences, Johannes Gutenberg University Mainz, 55128
http://dx.doi.org/10.1101/085688 2016-11-04 Cell Biology CC BY Pharmaceutical efficacy of human epiphyseal chondrocytes with differential replication numbers for cellular therapy products Michiyo Nasu|Shinichiro Takayama|AKIHIRO UMEZAWA National Research Institute for Child Health and Development
http://dx.doi.org/10.1101/085712 2016-11-04 Biophysics CC BY-NC-ND Gentle, fast and effective crystal soaking by acoustic dispensing Patrick M Collins|Jia Tsing Ng|Romain Talon|Karolina Nekrosiute|Tobias Krojer|Alice Douangamath|Jose Brandao-Neto|Nathan Wright|Nicholas M Pearce|Frank von Delft Diamond Light Source;|Structural Genomics Consortium (SGC)
http://dx.doi.org/10.1101/085670 2016-11-04 Neuroscience CC BY-NC-ND Impaired lexical selection with competing distractors: Evidence from left temporal and left prefrontal lesions Vitoria Piai|Robert T Knight Radboud University & Radboud UMC;|Helen Wills Neuroscience Institute & Department of Psychology, University of California, Berkeley
http://dx.doi.org/10.1101/085746 2016-11-04 Evolutionary Biology CC BY Phylogenetic analysis suggests joint control of transmission mode in a grass-endophyte symbiosis Alexandra Lynne Brown|Erol Akcay University of Pennsylvania
http://dx.doi.org/10.1101/085696 2016-11-04 Genomics CC BY-NC-ND RNA-seq library preparation from single pancreatic acinar cells Damian Wollny|Sheng Zhao|Ana Martin-Villalba German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/084913 2016-11-04 Neuroscience CC BY A modification-specific peptide-based immunization approach using CRM197 carrier protein: Development of a selective vaccine against pyroglutamate Aβ peptides Valerie Vingtdeux|Haitian Zhao|Pallavi Chandakkar|Christopher Acker|Peter Davies|Philippe Marambaud The Feinstein Institute for Medical Research - Northwell Health
http://dx.doi.org/10.1101/084434 2016-11-04 Cell Biology Drosophila BEACH domain autophagic adaptor blue cheese shuttles between vesicle populations and is required for an early step in autophagy Joan Sim|Kathleen Amy Osborne|Irene Argudo Garcia|Artur Matysik|Rachel Kraut National Neuroscience Institute Singapore;|Nanyang Technological University
http://dx.doi.org/10.1101/085639 2016-11-04 Bioinformatics CC BY Sequence kernel association tests for large sets of markers: tail probabilities for large quadratic forms Thomas Lumley|Jennifer A Brody|Gina Peloso|Kenneth Rice Department of Statistics, University of Auckland;|Cardiovascular Health Research Unit, University of Washington;|Boston University, Department of Biostatistics;|University of Washington, Department of Biostatistics
http://dx.doi.org/10.1101/085647 2016-11-04 Bioinformatics CC BY Secure Wavelet Matrix: Alphabet-Friendly Privacy-Preserving String Search Hiroki Sudo|Masanobu Jimbo|Koji Nuida|Kana Shimizu Waseda University;|National Institute of Advanced Industrial Science and Technology
http://dx.doi.org/10.1101/085605 2016-11-04 Neuroscience CC BY-NC-ND Phase-coherence classification: a new wavelet-based method to separate local field potentials into local (in)coherent and volume-conducted components Michael von Papen|Haidar Dafsari|Esther Florin|Felix Gerick|Lars Timmermann|Joachim Saur University of Cologne;|University Hospital Cologne;|Heinrich-Heine-University Duesseldorf
http://dx.doi.org/10.1101/085654 2016-11-04 Bioinformatics Genome-wide analysis of human putative transcriptional target genes reveals significant functional enrichments Naoki Osato Osaka University
http://dx.doi.org/10.1101/085894 2016-11-05 Plant Biology CC BY-NC-ND Verticillium dahliae LysM effectors differentially contribute to virulence on plant hosts Anja Kombrink|Hanna Rovenich|Xiaoqian Shi-Kunne|Eduardo Rojas-Padilla|Grardy van den Berg|Emmanouil Domazakis|Ronnie de Jonge|Dirk-Jan Valkenburg|Andrea Sanchez-Vallet|Michael Seidl|Bart Thomma Wageningen University
http://dx.doi.org/10.1101/085944 2016-11-05 Animal Behavior and Cognition CC BY-NC-ND Social ecology of a woodland songbird community: from individual movements to the emergence of population social structure Damien R Farine|Ben C Sheldon Max Planck Institute for Ornithology;|Edward Grey Institute of Field Ornithology, Department of Zoology, University of Oxford
http://dx.doi.org/10.1101/085910 2016-11-05 Cancer Biology CC BY Harnessing the lymphocyte meta-phenotype to optimize adoptive cell therapy Andreas Buttenschoen|Asmaa Elkenawi|Fadoua El Moustaid|Alexander Fletcher|Clemens Grassberger|Eunjung Kim|Andriy Marusyk|Harry-Luke McClelland|Daria Miroshnychenko|Daniel Nichol|John Mullinax|Cliona O'Farrely|Jacob Scott University of Alberta;|Moffitt Cancer Center and Research Institute;|Virginia Tech;|University of Sheffield;|Massachusetts General Hospital;|Washington University;|University of Oxford;|Trinity College Dublin;|Cleveland Clinic
http://dx.doi.org/10.1101/085936 2016-11-05 Bioinformatics Large-scale Population Genotyping from Low-coverage Sequencing Data using a Reference Panel Lin Huang|Petr Danecek|Sivan Bercovici|Serafim Batzoglou Stanford University;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/085878 2016-11-05 Bioinformatics CC BY-NC-ND Quark enables semi-reference-based compression of RNA-seq data Hirak Sarkar|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/085316 2016-11-05 CC BY Cis-Compound Mutations are Prevalent in Triple Negative Breast Cancer and Can Drive Tumor Progression Nao Hiranuma|Jie Liu|Chaozhong Song|Jacob Goldsmith|Michael Dorschner|Colin Pritchard|Kimberly Burton|Elisabeth Mahen|Sibel Blau|Francis Senecal|Wayne Monsky|Stephanie Parker|Stephen Schmechel|Stephen Allison|VK Gadi|Sofie Salama|Amie Radenbaugh|Mary Goldman|Jill Johnsen|Shelly Heimfeld|Vitalina Komashko|Marissa LaMadrid-Hermannsfeldt|Zhijun Duan|Steven Benz|Patrick Soon-Shiong|David Haussler|Jingchun Zhu|Walter Ruzzo|William Noble|C. Anthony Blau University of Washington;|Northwest Medical Specialties;|University of California Santa Cruz;|Bloodworks Northwest;|Fred Hutchinson Cancer Research Center;|Trialomics;|NantOmics;|Nantworks
http://dx.doi.org/10.1101/085613 2016-11-05 Epidemiology CC BY-NC-ND The origin and evolution of a pandemic lineage of the kiwifruit pathogen Pseudomonas syringae pv. actinidiae Honour C McCann|Li Li|Yifei Liu|Dawei Li|Pan Hui|Canhong Zhong|Erik Rikkerink|Matthew Templeton|Christina Straub|Elena Colombi|Paul B Rainey|Hongwen Huang New Zealand Institute for Advanced Study, Massey University;|Wuhan Botanical Garden, Chinese Academy of Sciences;|South China Botanical Garden, Chinese Academy of Sciences;|New Zealand Institute for Plant and Food Research;|Ecole Supérieure de Physique et de Chimie Industrielles de la Ville de Paris
http://dx.doi.org/10.1101/085373 2016-11-05 Epidemiology The Utility of Red Cell Distribution Width as a Parameter for Calculating Indices of Allostatic Load Ghalib A Bello|Gerard Dumancas Icahn School of Medicine at Mount Sinai;|Louisiana State University - Alexandria
http://dx.doi.org/10.1101/085621 2016-11-05 Neuroscience CC BY-NC-ND A mathematical approach to correlating objective spectro-temporal features of environmental sounds with their subjective perceptions. Thomas F Burns|Ramesh Rajan Monash University
http://dx.doi.org/10.1101/085720 2016-11-05 Microbiology CC BY Genome-Wide Fitness Analyses of the Foodborne Pathogen Campylobacter jejuni in In Vitro and In Vivo Models Stefan de Vries|Srishti Gupta|Abiyad Baig|Elli Wright|Amy Wedley|Annette Nygaard Jensen|Lizeth LaCharme Lora|Suzanne Humphrey|Henrik Skovgard|Kareen Macleod|Elsa Pont|Dominika Wolanska|Joanna L'Heureux|Fredrick Mobegi|David Smith|Paul Everest|Aldert Zomer|Nicola Williams|Paul Wigley|Thomas Humphrey|Duncan Maskell|Andrew Grant University of Cambridge;|University of Liverpool;|Technical University of Denmark;|University of Aarhus;|University of Glasgow;|Radboud University Medical Centre;|Heriot-Watt University;|Utrecht University;|Swansea University
http://dx.doi.org/10.1101/084574 2016-11-06 Neuroscience CC BY-NC-ND The effect of subthreshold transcranial magnetic stimulation on the excitation of corticospinal volleys with different conduction times Niclas Niemann|Patrick Wiegel|John C. Rothwell|Christian Leukel University of Freiburg;|University College London
http://dx.doi.org/10.1101/085217 2016-11-06 Biophysics A looping-based model for quenching repression Yaroslav Pollak|Sarah Goldberg|Roee Amit Technion Israel Institute of Technology
http://dx.doi.org/10.1101/085514 2016-11-06 Neuroscience CC BY-NC Structural connectome topology relates to regional BOLD signal dynamics in the mouse brain Sarab S Sethi|Valerio Zerbi|Nicole Wenderoth|Alex Fornito|Ben D Fulcher Imperial College London;|ETH Zurich;|Monash Biomedical Imaging
http://dx.doi.org/10.1101/086256 2016-11-07 Neuroscience Feedback Dynamics Determine the Structure of Spike-Count Correlation in Visual Cortex Adrian Gopnik Bondy|Bruce G Cumming National Institutes of Health
http://dx.doi.org/10.1101/086132 2016-11-07 Genetics CC BY-ND Incomplete dominance of deleterious alleles contribute substantially to trait variation and heterosis in maize Jinliang Yang|Sofiane Mezmouk|Andy Baumgarten|Edward S Buckler|Katherine E Guill|Michael D McMullen|Rita H Mumm|Jeffrey Ross-Ibarra Department of Plant Sciences, University of California, Davis, CA 95616, USA;|KWS SAAT SE, Grimsehlstr. 31, 37555 Einbeck, Germany;|DuPont Pioneer, Johnston, IA 50131, USA;|US Department of Agriculture, Agricultural Research Service, Ithaca, NY 14853, USA;|US Department of Agriculture, Agricultural Research Service, Columbia, MO 65211, USA;|Division of Plant Sciences, University of Missouri, Columbia, MO 65211, USA;|Dept of Crop Sciences, the Illinois Plant Breeding Ctr, University of Illinois at Urbana-Champaign;|Center for Population Biology and Genome Center, University of California, Davis, CA 95616, USA
http://dx.doi.org/10.1101/086082 2016-11-07 Genetics CC BY-NC-ND A large scale joint analysis of flowering time reveals independent temperate adaptations in maize Kelly Swarts|Eva Bauer|Jeffrey C Glaubitz|Tiffany Ho|Lynn Johnson|Yongxiang Li|Yu Li|Zachary Miller|Cinta Romay|Chris-Carolin Schoen|Tianyu Wang|Zhiwu Zhang|Edward S Buckler|Peter J Bradbury Department of Plant Breeding and Genetics, United States;|Plant Breeding, TUM School of Life Sciences Weihenstephan, Technical University of Munich, Germany;|Genomic Diversity Facility, Cornell University, United States;|Department of Plant Breeding and Genetics, Cornell University, United States;|Genomic Diversity Facility, Institute of Biotechnology, Institute of Biotechnology, United States;|Institute of Crop Science, Chinese Academy of Agricultural Sciences, China;|Department of Crop and Soil Sciences, Washington State University, China;|USDA-ARS/Department of Plant Breeding and Genetics, United States;|USDA-ARS, United States
http://dx.doi.org/10.1101/086041 2016-11-07 Evolutionary Biology CC BY-NC-ND Rapid and recent evolution of LTR retrotransposons drives rice genome evolution during the speciation of AA- genome Oryza species Qun-Jie Zhang|Li-zhi Gao Guangdong Academy of Agricultural Sciences, China;|Kunming Institute of Botany, China
http://dx.doi.org/10.1101/085506 2016-11-07 Neuroscience CC BY-NC Predicting brain-age from multimodal imaging data captures cognitive impairment Franziskus Liem|Gael Varoquaux|Jana Kynast|Frauke Beyer|Shahrzad Kharabian Masouleh|Julia M Huntenburg|Leonie Lampe|Mehdi Rahim|Alexandre Abraham|R. Cameron Craddock|Steffi Riedel-Heller|Tobias Luck|Markus Loeffler|Matthias L Schroeter|Anja Veronica Witte|Arno Villringer|Daniel S Margulies Max Planck Institute for Human Cognitive and Brain Sciences;|Parietal project team - INRIA;|Center for the Developing Brain, Child Mind Institute;|Leipzig Research Center for Civilization Diseases (LIFE)
http://dx.doi.org/10.1101/086231 2016-11-07 Evolutionary Biology CC BY-NC-ND Evolutionary forces affecting synonymous variations in plant genomes Yves Clement|Gautier Sarah|Yan Holtz|Felix Homa|Stephanie Pointet|Sandy Contreras|Benoit Nabholz|Francois Sabot|Laure Saune|Morgane Ardisson|Roberto Bacilieri|Guillaume Besnard|Angelique Berger|Celine Cardi|Fabien De Bellis|Olivier Fouet|Cyril Jourda|Bouchaib Khadari|Claire Lanaud|Thierry Leroy|David Pot|Christopher Sauvage|Nora Sarcelli|James Tregear|Yves Vigouroux|Nabila Yahiaoui|Manuel Ruiz|Sylvain Santoni|Jean-Pierre Labouisse|Jean-Louis Pham|Jacques David|Sylvain Glemin Institut de Biologie de l'ENS, UMR 8197, Paris, France;|CIRAD, UMR AGAP, Montpellier, France;|Montpellier SupAgro, UMR AGAP, F-34060 Montpellier;|Department of Cell and Molecular Biology, Science for Life Laboratory, Uppsala University, Uppsal;|CIRAD, UMR AGAP, F-34398 Montpellier, France;|GenoScreen, 59000 Lille, France;|UMR 5554 ISEM (Université de Montpellier-CNRS-IRD-EPHE), Montpellier, France;|IRD, UMR DIADE, Montpellier, France;|INRA, UMR1062 CBGP, Montferrier-sur-lez cedex, France;|INRA, UMR AGAP, F-34060 Montpellier;|UMR 5174 EDB (CNRS/ENSFEA/IRD/Université Toulouse III), Toulouse, France;|UMR 1334 AGAP (INRA-CIRAD-SupAgro), Montpellier, France;|UR1052 GAFL (INRA), Montfavet, France
http://dx.doi.org/10.1101/085837 2016-11-07 Bioinformatics EthSEQ: ethnicity annotation from whole exome sequencing data Alessandro Romanel|Tuo Zhang|Olivier Elemento|Francesca Demichelis University of Trento;|Genomics Core Facility, Weill Cornell Medicine;|Institute for Computational Biomedicine, Weill Cornell Medicine;|CIBIO, University of Trento
http://dx.doi.org/10.1101/086223 2016-11-07 Evolutionary Biology CC BY-NC-ND Buchnera has changed flatmate but the repeated replacement of co-obligate symbionts is not associated with the ecological expansions of their aphid hosts Andrea S Meseguer|Alejandro Manzano-Marin|Armelle Coeur d'Acier|Anne-Laure Clamens|Martin Godefroid|Emmanuelle Jousselin INRA, UMR 1062, CBGP (INRA, IRD, CIRAD, Montpellier SupAgro)
http://dx.doi.org/10.1101/086074 2016-11-07 Neuroscience A Canonical Neural Mechanism for Behavioral Variability Ran Darshan|William E. Wood|Susan Peters|Arthur Leblois|David Hansel ELSC, The Hebrew University of Jerusalem, Israel;|Center for Neurophysics, Physiology and Pathology; Cerebral Dynamics, Learning and Memory Lab; CNRS;|Duke Univ., Durham, NC
http://dx.doi.org/10.1101/086207 2016-11-07 Evolutionary Biology CC BY-NC-ND Direct estimation of the spontaneous mutation rate by short-term mutation accumulation lines in Chironomus riparius Ann-Marie Oppold|Markus Pfenninger Faculty of Biological Science, Institute for Ecology, Evolution and Diversity, Goethe University, Ma;|Senckenberg Biodiversity and Climate Research Centre, Goethe University
http://dx.doi.org/10.1101/086157 2016-11-07 Neuroscience CC BY-NC-ND Neurons in the inferior temporal cortex of macaque monkeys are sensitive to multiple surface features from natural objects Hiroshi Tamura|Haruki Otsuka|Yukako Yamane Osaka University
http://dx.doi.org/10.1101/086165 2016-11-07 Systems Biology CC BY Modeling trophic dependencies and exchanges among insects' bacterial symbionts in a host-simulated environment. Itai Opatovsky|Diego Santos-Garcia|Tamar Lahav|Shani Ofaim|Laurence Mouton|Valeria Barbe|Einat Zchori-Fein|Shiri Freilich Agricultural Research Organization; Regional Agricultural Research and Development Center, Israel;|The Hebrew University of Jerusalem;|The Agricultural Research Organization, Ramat Yishay, Israel;|Laboratoire de Biometrie et Biologie Evolutive, Universite de Lyon, 69622 Villeurbanne Cedex, France;|CEA/DSV/IG/Genoscope, Evry, France
http://dx.doi.org/10.1101/084137 2016-11-07 Neuroscience Tractography-based connectomes are dominated by false-positive connections Klaus Maier-Hein|Peter Neher|Jean-Christophe Houde|Marc-Alexandre Cote|Eleftherios Garyfallidis|Jidan Zhong|Maxime Chamberland|Fang-Cheng Yeh|Ying Chia Lin|Qing Ji|Wilburn E. Reddick|John O. Glass|David Qixiang Chen|Yuanjing Feng|Chengfeng Gao|Ye Wu|Jieyan Ma|He Renjie|Qiang Li|Carl-Fredrik Westin|Samuel Deslauriers-Gauthier|J. Omar Ocegueda Gonzalez|Michael Paquette|Samuel St-Jean|Gabriel Girard|Francois Rheault|Jasmeen Sidhu|Chantal M. W. Tax|Fenghua Guo|Hamed Y. Mesri|Szabolcs David|Martijn Froeling|Anneriet M. Heemskerk|Alexander Leemans|Arnaud Bore|Basile Pinsard|Christophe Bedetti|Matthieu Desrosiers|Simona Brambati|Julien Doyon|Alessia Sarica|Roberta Vasta|Antonio Cerasa|Aldo Quattrone|Jason Yeatman|Ali R. Khan|Wesley Hodges|Simon Alexander|Darcvi Romascano|Muhamed Barakovic|Anna Auria|Oscar Esteban|Alia Lemkaddem|Jean-Philippe Thiran|H. Ertan Cetingul|Benjamin L. Odry|Boris Mailhe|Mariappan Nadar|Fabrizio Pizzagalli|Gautam Prasad|Julio Villalon-Reina|Justin Galvis|Paul Thompson|Francisco Requejo|Pedro Laguna|Luis Lacerda|Rachel Barrett|Flavio Dell'Acqua|Marco Catani|Laurent Petit|Emmanuel Caruyer|Alessandro Daducci|Tim Dyrby|Tim Holland-Letz|Claus Hilgetag|Bram Stieltjes|Maxime Descoteaux German Cancer Research Center;|Universite de Sherbrooke;|University Health Network;|Carnegie Mellon University;|Institute for Advanced Studies;|St. Jude Children's Research Hospital;|Zhejiang University of Technology;|United Imaging Healthcare Co;|Shanghai Advanced Research Institute;|Harvard Medical School;|Center for Research in Mathematics;|University Medical Center Utrecht;|Universite de Montreal;|Sorbonne Universites and Universite de Montreal;|Universite de Montreal and Hopital du Sacre-Coeur de Montreal;|Policlinico Magna Graecia;|University Magna Graecia;|University of Washington;|Western University;|Synaptive Medical Inc;|Ecole Polytechnique Federale de Lausanne;|U. Politecnica de Madrid and CIBER-BBN;|Siemens Healthcare;|University of Southern California;|King's College London;|University of Bordeaux;|Inria Rennes Bretagne Atlantique;|Copenhagen University Hospital Hvidovre;|University Clinic Eppendorf;|University Hospital Basel
http://dx.doi.org/10.1101/086280 2016-11-07 Bioinformatics CC BY-NC-ND Development and assessment of fully automated and globally transitive geometric morphometric methods, with application to a biological comparative dataset with high interspecific variation Tingran Gao|Gabriel S Yapuncich|Ingrid Daubechies|Sayan Mukherjee|Doug M Boyer Duke University
http://dx.doi.org/10.1101/086066 2016-11-07 Neuroscience CC BY CRACKING THE BARCODES OF FULLERENE-LIKE CORTICAL MICROCOLUMNS Arturo Tozzi|James Peters|Ottorino Ori University of North Texas, USA;|University of Manitoba, Canada;|Actinium Chemical Research, Rome, Italy
http://dx.doi.org/10.1101/086140 2016-11-07 Biophysics Flowtrace: simple visualization of coherent structures in biological fluid flows William Gilpin|Vivek N. Prakash|Manu Prakash Stanford University;|Stanford
http://dx.doi.org/10.1101/086272 2016-11-07 Biophysics Bridging microscopic and macroscopic mechanisms of p53-MDM2 binding using molecular simulations and kinetic network models Guangfeng Zhou|George A Pantelopulos|Sudipto Mukherjee|Vincent A Voelz Temple University
http://dx.doi.org/10.1101/086033 2016-11-07 Bioinformatics CC BY-NC-ND Deep learning with feature embedding for compound-protein interaction prediction Fangping Wan|Jianyang Zeng Tsinghua University
http://dx.doi.org/10.1101/086116 2016-11-07 Neuroscience CC BY-ND L-DOPA reduces model-free control of behavior by attenuating the transfer of value to action Nils B Kroemer|Ying Lee|Shakoor Pooseh|Ben Eppinger|Thomas Goschke|Michael N Smolka TU Dresden;|Concordia University
http://dx.doi.org/10.1101/086249 2016-11-07 Microbiology CC BY Histone deacetylase inhibitors reduce the number of herpes simplex virus-1 genomes initiating expression in individual cells. Lev Shapira|Maya Ralph|Enosh Tomer|Shai Cohen|Oren Kobiler Tel Aviv University;|Tel Aviv University- Sackler School of Medicine
http://dx.doi.org/10.1101/085977 2016-11-07 Microbiology Structure of the Legionella Dot/Icm type IV secretion system in situ by electron cryotomography Debnath Ghosal|Yi-Wei Chang|Kwangcheol C Jeong|Joseph P. Vogel|Grant J Jensen California Institute of Technology;|University of Florida, Gainesville;|Washington University, School of Medicine, St. Louis
http://dx.doi.org/10.1101/086017 2016-11-07 Genomics Software tools for visualizing Hi-C data Galip Gurkan Yardimci|William Stafford Noble University of Washington
http://dx.doi.org/10.1101/085985 2016-11-07 Microbiology Vaccination has minimal impact on the intrahost diversity of H3N2 influenza viruses Kari Debbink|John T. McCrone|Joshua G. Petrie|Rachel Truscon|Emileigh Johnson|Emily K. Mantlo|Arnold S. Monto|Adam S. Lauring University of Michigan
http://dx.doi.org/10.1101/085993 2016-11-07 Evolutionary Biology CC BY-NC-ND Estimation of sub-epidemic dynamics by means of Sequential Monte Carlo Approximate Bayesian Computation: an application to the Swiss HIV Cohort Study Neke Ibeh|Stephane Aris-Brosou University of Ottawa
http://dx.doi.org/10.1101/085969 2016-11-07 Evolutionary Biology CC BY-NC Identifying genetic variants that affect viability in large cohorts Hakhamanesh Mostafavi|Tomaz Berisa|Molly Przeworski|Joseph K Pickrell Columbia University;|New York Genome Center
http://dx.doi.org/10.1101/086124 2016-11-07 Neuroscience CC BY-NC Promiscuity of peripheral molecular biomarkers in major psychiatric disorders: a transdiagnostic systematic review Jairo V. Pinto|Thiago C. Moulin|Marcia Kauer-Sant'Anna|Flavio Kapczinski|Olavo B. Amaral Universidade Federal do Rio Grande do Sul;|Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/086025 2016-11-07 Genomics CC BY-NC A unified encyclopedia of human functional DNA elements through fully automated annotation of 164 human cell types Maxwell Wing Libbrecht|Oscar Rodriguez|Zhiping Weng|Michael Hoffman|Jeffrey A Bilmes|William Stafford Noble University of Washington;|Icahn School of Medicine at Mount Sinai;|University of Massachusetts Medical School;|Princess Margaret Cancer Centre;|U. Washington
http://dx.doi.org/10.1101/085738 2016-11-07 Genomics CC BY-ND GARFIELD - GWAS Analysis of Regulatory or Functional Information Enrichment with LD correction Valentina Iotchkova|Graham R.S. Ritchie|Matthias Geihs|Sandro Morganella|Josine L. Min|Klaudia Walter|Nicholas J. Timpson|Ian Dunham|Ewan Birney|Nicole Soranzo European Bioinformatics Institute / Wellcome Trust Sanger Institute;|University of Edinburgh;|Wellcome Trust Sanger Institute;|European Bioinformatics Institute;|MRC Integrative Epidemiology Unit, School of Social and Community Medicine, University of Bristol
http://dx.doi.org/10.1101/086108 2016-11-07 Systems Biology Short CT-rich motifs can trigger context-specific silencing of gene expression in bacteria Lior Levy|Leon Anavy|Oz Solomon|Roni Cohen|Shilo Ohayon|Orna Atar|Sarah Goldberg|Zohar Yakhini|Roee Amit Technion
http://dx.doi.org/10.1101/086504 2016-11-08 Genomics Complete avian malaria parasite genomes reveal host-specific parasite evolution in birds and mammals Ulrike Boehme|Thomas D. Otto|James Cotton|Sascha Steinbiss|Mandy Sanders|Samuel O. Oyola|Antoine Nicot|Sylvain Gandon|Kailash P. Patra|Colin Herd|Ellen Bushell|Katarzyna K. Modrzynska|Oliver Billker|Joseph M. Vinetz|Ana Rivero|Chris I. Newbold|Matthew Berriman Wellcome Trust Sanger Institute;|International Livestock Research Institute, Nairobi, Kenya;|University of Montpellier;|University of California San Diego;|University of California, San Diego;|MIVEGEC (CNRS UMR 5290), Montpellier, France;|University of Oxford;|Sanger Institute
http://dx.doi.org/10.1101/086512 2016-11-08 Genetics CC BY-NC-ND Synthetic hypermutation: gene-drug mutation rate synergy reveals a translesion synthesis mechanism Romulo M Segovia|Yaoqing Shen|Scott A Lujan|Steven Jones|Peter C Stirling BC Cancer Agency;|Michael Smith Genome Sciences Centre;|Genome Integrity and Structural Biology Laboratory, National Institute of Environmental Health Scien
http://dx.doi.org/10.1101/086553 2016-11-08 Cancer Biology CC BY-NC-ND Novel computational method for predicting polytherapy switching strategies to overcome tumor heterogeneity and evolution Vanessa D Jonsson|Colin M Blakely|Luping Lin|Saurabh Asthana|Victor Olivas|Matthew A Gubens|Nikolai Matni|Boris C Bastian|Barry S Taylor|John C Doyle|Trever G Bivona City of Hope National Medical Center;|UCSF;|USCF;|California Institute of Technology;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/086413 2016-11-08 Animal Behavior and Cognition CC BY-NC Neuromodulatory circuit effects on Drosophila feeding behaviour and metabolism Anders Eriksson|Marlena Raczkowska|Rapeechai Navawongse|Deepak Choudhury|James Stewart|Yi Ling Tang|Zhiping Wang|Adam Claridge-Chang Institute of Molecular and Cell Biology;|Singapore Institute of Manufacturing Technology,;|Singapore Institute of Manufacturing Technology;|Duke-NUS Medical School
http://dx.doi.org/10.1101/086421 2016-11-08 Bioinformatics CC BY-NC-ND A Deep Boosting Based Approach for Capturing the Sequence Binding Preferences of RNA-Binding Proteins from High-Throughput CLIP-Seq Data Shuya Li|Fanghong Dong|Yuexin Wu|Sai Zhang|Chen Zhang|Xiao Liu|Tao Jiang|Jianyang Zeng Tsinghua University;|University of California - Riverside
http://dx.doi.org/10.1101/086462 2016-11-08 Microbiology Theory for the spatiotemporal interaction between lytic phages and biofilm-dwelling bacteria Matthew Simmons|Knut Drescher|Carey Nadell|Vanni Bucci University of Massachusetts, Dartmouth;|Max Planck Institute for Terrestrial Microbiology
http://dx.doi.org/10.1101/086538 2016-11-08 Biophysics CC BY-NC-ND A Critical-like Collective State Leads to Long-range Cell Communication in Dictyostelium discoideum Aggregation Giovanna De Palo|Darvin Yi|Robert Endres Imperial College London;|Stanford University
http://dx.doi.org/10.1101/086397 2016-11-08 Neuroscience Asymmetrical representation of the upper and lower visual fields in oculomotor maps Zhiguo Wang|Benchi Wang|Matthew Finkbeiner Hangzhou Normal University;|Department of Cognitive Psychology, Vrije Universiteit Amsterdam;|Department of Cognitive Science, Macquarie University
http://dx.doi.org/10.1101/086439 2016-11-08 Genetics CC BY-NC-ND Selection on the FADS region in Europeans Matthew T Buckley|Fernando Racimo|Morten E. Allentoft|Majken K. Karoline|Anna Jonsson|Hongyan Huang|Farhad Hormozdiari|Martin Sikora|Davide Marnetto|Eleazar Eskin|Marit E. Jrgensen|Niels Grarup|Oluf Pedersen|Torben Hansen|Peter Kraft|Eske Willerslev|Rasmus Nielsen UC Berkeley;|University of Copenhagen;|Harvard T.H. Chan School of Public Health;|University of California, Los Angeles;|University of Torino;|University of Southern Denmark
http://dx.doi.org/10.1101/086389 2016-11-08 Bioinformatics Rotamer libraries for the high-resolution design of beta-amino acid foldamers Andrew W Watkins|P. Douglas Renfrew|Timothy W Craven|Paramjit S Arora|Richard Bonneau NYU & Stanford;|Simons Foundation;|NYU & University of Washington;|NYU;|NYU & Simons Foundation
http://dx.doi.org/10.1101/085589 2016-11-08 Neuroscience CC BY-NC-ND Examination of memory from a first-person frame of reference provides evidence for a relationship between learning and LTP induction Kunjumon I Vadakkan Neurosearch Center, Toronto
http://dx.doi.org/10.1101/086058 2016-11-08 Neuroscience CC BY-NC-ND Resting state functional coupling between the ascending synchronising system, limbic system and the default mode network via theta oscillations Parnesh Raniga|Bryan Paton|Gary Egan The Australian eHealth Research Centre, CSIRO Health and Biosecurity;|School of Psychology, University of Newcastle;|Monash Biomedical Imaging, Monash University
http://dx.doi.org/10.1101/086488 2016-11-08 Bioinformatics CC BY-NC-ND ploidyNGS: Visually exploring ploidy with Next Generation Sequencing data Renato A. C. dos Santos|Gustavo H Goldman|Diego M Riano-Pachon Centro National de Pesquisa em Energia e Materiais;|Universidade de Sao Paulo
http://dx.doi.org/10.1101/069880 2016-11-08 Neuroscience CC BY-NC-ND Stability and plasticity of contextual modulation in the mouse visual cortex Adam Ranson Cardiff University
http://dx.doi.org/10.1101/086470 2016-11-08 Bioinformatics CC BY Predicting the phenotype of Mendelian disease missense mutations using amino acid conservation and protein stability change Maria T Chavez|Ethan O Perlstein Perlara PBC
http://dx.doi.org/10.1101/086199 2016-11-08 Synthetic Biology CC BY-ND Ribo-attenuators: novel elements for reliable and modular riboswitch engineering Thomas Folliard|Thomas Paul Prescott|Christopher W Jones|Travis Bayer|Judith P Armitage|Antonis Papachristodoulou|Lynn J Rothschild University of Oxford;|Asilomar Bio;|National Aeronautics and Space Administration
http://dx.doi.org/10.1101/086306 2016-11-08 Bioinformatics CC BY Measuring the importance of annotation granularity to the detection of semantic similarity between phenotype profiles Prashanti Manda|James P Balhoff|Todd J Vision University of North Carolina, Greensboro;|RTI International;|University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/086322 2016-11-08 Bioinformatics Exploiting expression patterns across multiple gene isoforms to identify radiation response biomarkers in early-stage breast cancer patients. Chaitanya R Acharya|Kouros Owzar|Janet K Horton|Andrew S Allen Duke University
http://dx.doi.org/10.1101/086298 2016-11-08 Evolutionary Biology CC BY-NC-ND Anchored Phylogenomics of Angiosperms I: Assessing the Robustness of Phylogenetic Estimates Chris Budenhagen|Alan R. Lemmon|Emily Moriarty Lemmon|Jeremy Bruhl|Jennifer Cappa|Wendy L. Clement|Michael Donoghue|Erika J. Edwards|Andrew L. Hipp|Michelle Kortyna|Nora Mitchell|Abigail Moore|Christina J. Prychid|Maria C. Segovia-Salcedo|Mark P. Simmons|Pamela S. Soltis|Stefan Wanke|Austin Mast Florida State University;|University of New England;|Colorado State University;|The College of New Jersey;|Yale University;|Brown University;|University of Connecticut;|University of Oklahoma;|Royal Botanic Gardens Kew;|Universidad de las Fuerzas Armadas;|University of Florida;|Institut fur Botanik, Technische Universitat
http://dx.doi.org/10.1101/086371 2016-11-07 Developmental Biology PRDX6 inhibits neurogenesis of neural precursor cells through downregulation of wdfy1 mediated TLR4 signal Mi Hee Park|Dong Ju Son|Kyoung Tak Nam|So Young Kim|Sang Yeon Oh|Min Ji Song|Hyung Ok Chun|Tae Hyung Lee|Jin Tae Hong Chungbuk National University
http://dx.doi.org/10.1101/086348 2016-11-07 Physiology CC BY-NC-ND Rapid shift in substrate utilization driven by hypothalamic Agrp neurons Joao Paulo Cavalcanti-de-Albuquerque|Marcelo R. Zimmer|Jeremy Bober|Marcelo O. Dietrich Yale University
http://dx.doi.org/10.1101/086363 2016-11-07 Neuroscience CC BY-NC-ND Multidimensional imbalances in cortical circuit activity in Fragile-X Syndrome mice Cian O'Donnell|J. Tiago Goncalves|Carlos Portera-Cailliau|Terrence J Sejnowski University of Bristol;|Einstein College of Medicine;|University of California Los Angeles;|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/086330 2016-11-07 Biochemistry Odorant cues linked to social immunity induce lateralized antenna stimulation in honey bees (Apis mellifera L.) Alison McAfee|Troy F Collins|Lufiani L Madilao|Leonard J Foster University of British Columbia
http://dx.doi.org/10.1101/086793 2016-11-09 Genetics Connecting genetic risk to disease endpoints through the human blood plasma proteome Karsten Suhre|Matthias Arnold|Aditya Bhagwat|Richard J Cotton|Rudolf Engelke|Annika Laser|Johannes Raffler|Hina Sarwath|Gaurav Thareja|Robert Kirk DeLisle|Larry Gold|Marija Pezer|Gordan Lauc|Mohammed A. El-Din Selim|Dennis O. Mook-Kanamori|Eman K. Al-Dous|Yasmin A. Mohamoud|Joel Malek|Konstantin Strauch|Harald Grallert|Annette Peters|Gabi Kastenmuller|Christian Gieger|Johannes Graumann Weill Cornell Medicine - Qatar;|Helmholtz Center Munich;|Somalogic Inc;|Genos Inc;|Hamad Medical Corporation;|Leiden University Medical Centre
http://dx.doi.org/10.1101/086660 2016-11-09 Bioinformatics Establishing wonder oil, Solanesol, as a novel inhibitor for Focal Adhesive Kinase by in silico strategies Betty Daneial|Devashish das|Jacob V J Paul|Guruprasad R St Josephs college, Bangalore, India;|Educept, New Delhi;|St. Josephs college, Bangalore, India;|Durga Femto Technologies and Research, Bangalore, India
http://dx.doi.org/10.1101/086819 2016-11-09 Evolutionary Biology CC BY-NC Inactivation of thermogenic UCP1 as a historical contingency in multiple placental mammal clades Michael Gaudry|Martin Jastroch|Jason Treberg|Michael Hofreiter|Johanna Paijmans|James Starett|Nathan Wales|Anthony Signore|Mark Springer|Kevin L Campbell University of Manitoba;|Helmholtz Zentrum Munchen;|University of Potsdam;|San Diego State University;|Natural History Museum of Denmark;|University of Nebraska, Lincoln;|University of California, Riverside
http://dx.doi.org/10.1101/086785 2016-11-09 Genomics CC BY-NC-ND Directional evolution in temperature-responsive gene expression in yeast Xueying C Li|Justin C. Fay Washington University in St. Louis
http://dx.doi.org/10.1101/086801 2016-11-09 Genomics CC BY-NC-ND De novo transcriptome characterization of a sterilizing trematode parasite (Microphallus sp.) from two species of New Zealand snails Laura Bankers|Maurine Neiman University of Iowa, United States
http://dx.doi.org/10.1101/086595 2016-11-09 Synthetic Biology Optimizing complex phenotypes through model-guided multiplex genome engineering Gleb Kuznetsov|Daniel B. Goodman|Gabriel T. Filsinger|Matthieu Landon|Nadin Rohland|John Aach|Marc J. Lajoie|George M. Church Harvard Medical School
http://dx.doi.org/10.1101/086702 2016-11-09 Developmental Biology CC BY-ND DNA-polymerase guided elimination of paternal mitochondrial genomes: An escape-proof obstacle to their transmission Zhongsheng Yu|Patrick H. O'Farrell|Nikita Yakubovich|Steven Z. DeLuca UCSF;|Carnegie Institution of Science, Dept. of Embryology
http://dx.doi.org/10.1101/086728 2016-11-09 Biophysics CC BY-NC-ND Balance of microtubule stiffness and cortical tension determines the size of blood cells with marginal band across species Serge Dmitrieff|Adolfo Alsina|Aastha Mathur|Francois Nedelec EMBL
http://dx.doi.org/10.1101/086587 2016-11-09 Genomics CC BY-ND A network-based approach to eQTL interpretation and SNP functional characterization Maud Fagny|Joseph N. Paulson|Marieke L. Kuijjer|Abhijeet R. Sonawane|Cho-Yi Chen|Camila M. Lopes-Ramos|Kimberly Glass|John Quackenbush|John Platig Harvard T.H. Chan School of Public Health;|Dana-Farber Cancer Institute, Harvard T.H. Chan School of Public Health;|Channing Division of Network Medicine, Brigham and Women's Hospital, Harvard Medical School
http://dx.doi.org/10.1101/086454 2016-11-09 Neuroscience Segregation between the parietal memory network and the default mode network: Effects of spatial smoothing and model order in ICA Yang Hu|Jijun Wang|Chunbo Li|Yinshan Wang|Zhi Yang|Xi-Nian Zuo Institute of Psychology, Chinese Academy of Sciences;|Shanghai Mental Health Center
http://dx.doi.org/10.1101/086611 2016-11-09 Microbiology CC BY Complete mapping of viral escape from neutralizing antibodies Michael B Doud|Scott E Hensley|Jesse D Bloom Fred Hutch Cancer Research Center;|University of Pennsylvania;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/086678 2016-11-09 Bioinformatics CC BY-NC-ND Unified Framework for Representing and Ranking Jim Jing-Yan Wang|Halima Bensmail KAUST;|Qatar Foundation
http://dx.doi.org/10.1101/086629 2016-11-09 Evolutionary Biology CC BY Cladogenetic and Anagenetic Models of Chromosome Number Evolution: a Bayesian Model Averaging Approach William A Freyman|Sebastian Hoehna University of California Berkeley
http://dx.doi.org/10.1101/086637 2016-11-09 Neuroscience A mixture of sparse coding models explaining properties of face neurons related to holistic and parts-based processing Haruo Hosoya|Aapo Hyvarinen ATR International;|University of Helsinki
http://dx.doi.org/10.1101/086652 2016-11-09 Biochemistry T cell co-stimulatory receptor CD28 is a primary target for PD-1-mediated inhibition Enfu Hui|Jeanne Cheung|Jing Zhu|Xiaolei Su|Marcus J. Taylor|Heidi A. Wallweber|Dibyendu K. Sasmal|Jun Huang|Jeong M. Kim|Ira Mellman|Ronald D. Vale HHMI, University of California San Francisco;|Genentech;|HHMI, University of California, San Francisco;|University of Chicago
http://dx.doi.org/10.1101/086645 2016-11-09 Cancer Biology Differential protein expression marks the transition from infection with Opisthorchis viverrini to cholangiocarcinoma Jarinya Khoontawad|Chawalit Pairojkul|Rucksak Rucksaken|Porntip Pinlaor|Chaisiri Wongkham|Puangrat Yongvanit|Ake Pugkhem|Alun Jones|Jordan Plieskatt|Jeremy Potriquet|Jeffery Bethony|Somchai Pinlaor|Jason Mulvenna Khon Kaen University;|Rajamangala University of Technology Isan;|University of Queensland;|George Washington University;|QIMR Berghofer MRI
http://dx.doi.org/10.1101/086173 2016-11-09 Animal Behavior and Cognition CC BY-NC-ND Inducible nitric oxide synthase (NOS2) knockout mice as a model of trichotillomania Plinio C Casarotto|Caroline Biojone|Karina Montezuma|Fernando Q Cunha|Samia R L Joca|Eero Castren|Francisco S Guimaraes University of Helsinki;|University of Sao Paulo
http://dx.doi.org/10.1101/086496 2016-11-09 Zoology How lizards fly: A novel type of wing in animals J Maximilian Dehling University of Koblenz-Landau
http://dx.doi.org/10.1101/086215 2016-11-09 Systems Biology CC BY-NC-ND Impact of Zygosity in Bimodal Phenotype Distributions Thomas Holst-Hansen|Elena Abad|Aura Muntasell|Miguel Lopez-Botet|Mogens H. Jensen|Ala Trusina|Jordi Garcia-Ojalvo Niels Bohr Institute;|Department of Experimental and Health Sciences, Universitat Pompeu Fabra;|Hospital del Mar Medical Research Institute
http://dx.doi.org/10.1101/087163 2016-11-10 Genetics CC BY-NC-ND Evaluating Methods of Updating Training Data in Long-Term Genomewide Selection Jeffrey L Neyhart|Tyler Tiede|Aaron J Lorenz|Kevin P Smith University of Minnesota
http://dx.doi.org/10.1101/087106 2016-11-10 Immunology CC BY-ND Y-RNA and tRNA Cleavage by RNase L Mediates Terminal dsRNA Response Jesse Donovan|Sneha Rath|David Kolet-Mandrikov|Alexei Korennykh Princeton University
http://dx.doi.org/10.1101/087114 2016-11-10 Systems Biology Genome-scale transcriptional regulatory network models for the mouse and human striatum predict roles for SMAD3 and other transcription factors in Huntington's disease Seth A Ament|Jocelynn R Pearl|Robert Bragg|Peter J Skene|Sydney Coffey|Dani E Bergey|Christopher Plaisier|Vanessa Wheeler|Marcy MacDonald|Nitin S Baliga|Jim Rosinski|Leroy E Hood|Jeffrey B Carroll|Nathan D Price University of Maryland School of Medicine;|University of Washington;|Western Washington University;|Fred Hutchinson Cancer Research Center;|Institute for Systems Biology;|Center for Human Genetic Research, Massachusetts General Hospital, Harvard Medical School;|CHDI Foundation;|Behavioral Neuroscience Program, Department of Psychology, Western Washington University
http://dx.doi.org/10.1101/087130 2016-11-10 Neuroscience Learning enhances sensory processing in mouse V1 before improving behavior Ovidiu Jurjut|Petya Georgieva|Laura Busse|Steffen Katzner Centre for Integrative Neuroscience, University of Tuebingen;|Division of Neurobiology, Department Biology II, LMU Munich
http://dx.doi.org/10.1101/087072 2016-11-10 Biochemistry CC BY-NC-ND Interpreting deep mutational scanning data resulting from selections on solid media Justin R. Klesmith|Sarah Thorwall|Timothy A. Whitehead Michigan State University
http://dx.doi.org/10.1101/086579 2016-11-10 Biophysics CC BY-NC-ND Computing structure-based lipid accessibility of membrane proteins with mp_lipid_acc in RosettaMP Julia Koehler Leman|Sergey Lyskov|Richard Bonneau Simons Foundation / NYU;|Johns Hopkins University
http://dx.doi.org/10.1101/086876 2016-11-10 Bioinformatics CC BY-NC Fast and accurate differential splicing analysis across multiple conditions with replicates Juan C Entizne|Juan L Trincado|Gerald Hysenaj|Babita Singh|Miha Skalic|David J Elliott|Eduardo Eyras Pompeu Fabra University;|Newcastle University;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/061705 2016-11-10 Microbiology CC BY-ND Influenza C incidence and herd immunity in Lancaster, UK, in the winter of 2014-2015 Kate V Atkinson|Lisa A Bishop|Glenn Rhodes|Nico Salez|Neil R McEwan|Matthew J Hegarty|Julie Robey|Nicola Harding|Simon Wetherell|Robert Macmillan M Lauder|Roger William W Pickup|Mark Wilkinson|Derek Gatherer Lancaster University;|UHMB NHS Foundation Trust;|Centre for Ecology and Hydrology;|Aix-Marseille University;|Aberystwyth University;|Queen Square Medical Practice
http://dx.doi.org/10.1101/087080 2016-11-10 Bioinformatics lncRNA-screen: an interactive platform for computationally screening long non-coding RNAs in large genomics datasets Yixiao Gong|Hsuan-Ting Huang|Yu Liang|Thomas Trimarchi|Ioannis Aifantis|Aristotelis Tsirigos New York University Langone Medical Center;|University of Miami;|Goldman Sachs Group Inc
http://dx.doi.org/10.1101/086884 2016-11-10 Immunology Mouse T cell repertoires as statistical ensembles: overall characterization and age dependence Zachary Sethna|Yuval Elhanati|Crissy S Dudgeon|Curtis G. Callan|Arnold Levine|Thierry Mora|Aleksandra Walczak Princeton University;|Ecole normale superieure;|Cancer Institute of New Jersey;|Institute for Advanced Study
http://dx.doi.org/10.1101/086983 2016-11-10 Pharmacology and Toxicology CC BY-NC-ND Antidepressant-like effects of P2 purinergic antagonist PPADS is dependent on serotonergic and noradrenergic integrity Cassiano R A F Diniz|Murilo Rodrigues|Plinio C Casarotto|Vitor S Pereira|Carlos C Crestani|Samia R L Joca University of Sao Paulo;|University of Helsinki;|Aarhus University;|Universidade Estadual Paulista
http://dx.doi.org/10.1101/087007 2016-11-10 Genetics CC BY-NC-ND The NDE1 Genomic Locus Affects Treatment of Psychiatric Illness through Gene Expression Changes Related to MicroRNA-484 Nicholas J Bradshaw|Maiju Pankakoski|Liisa Ukkola-Vuoti|Amanda B Zheutlin|Alfredo Ortega-Alonso|Minna Torniainen-Holm|Vishal Sinha|Sebastian Therman|Tiina Paunio|Jaana Suvisaari|Jouko Lonnqvist|Tyrone D Cannon|Jari Haukka|William Hennah Department of Neuropathology, Heinrich Heine University, Dusseldorf, Germany;|Department of Health, Mental Health Unit, National Institute for Health and Welfare, Helsinki;|Institute for Molecular Medicine Finland FIMM, University of Helsinki, Finland;|Department of Psychology, Yale University, USA;|Department of Psychiatry, University of Helsinki and Helsinki University Hospital, Finland
http://dx.doi.org/10.1101/086934 2016-11-10 Neuroscience CC BY-NC-ND Spike interval coding of translatory optic flow and depth from motion in the fly visual system Kit D. Longden|Martina Wicklein|Benjamin J. Hardcastle|Stephen J. Huston|Holger G. Krapp Dept Bioengineering, Imperial College London
http://dx.doi.org/10.1101/086991 2016-11-10 Neuroscience CC BY-NC Recent progress in multi-electrode spike sorting methods Baptiste Lefebvre|Pierre Yger|Olivier Marre INSERM
http://dx.doi.org/10.1101/087031 2016-11-10 Neuroscience Response variability and population coupling of cortical synaptic inputs are strongly influenced by network properties Nathaniel C. Wright|Mahmood S. Hoseini|Tansel Baran Yasar|Ralf Wessel Washington University in St. Louis
http://dx.doi.org/10.1101/086892 2016-11-10 Neuroscience Spatial tuning shifts increase the discriminability and fidelity of population codes in visual cortex Vy Ai Vo|Thomas Sprague|John Serences University of California, San Diego;|New York University
http://dx.doi.org/10.1101/087049 2016-11-10 Neuroscience Adaptation modulates correlated response variability in visual cortex Nathaniel C. Wright|Mahmood S. Hoseini|Ralf Wessel Washington University in St. Louis
http://dx.doi.org/10.1101/086868 2016-11-10 Synthetic Biology CC BY Millstone: Software for Multiplex Microbial Genome Analysis and Engineering Daniel B Goodman|Gleb Kuznetsov|Marc J. Lajoie|Brian W. Ahern|Michael G. Napolitano|Kevin Y. Chen|Changping Chen|George M. Church Wyss Institute for Bioinspired Engineering;|Department of Genetics, Harvard Medical School;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/086843 2016-11-10 Cancer Biology CC BY Multi-omic analysis of urothelial cancer patients treated with PD-L1 blockade demonstrates the contribution of both systemic and somatic factors to the biology of response and resistance Alexandra Snyder|Tavi Nathanson|Samuel Funt|Arun Ahuja|Jacqueline Buros Novik|Matthew D. Hellmann|Eliza Chang|Bulent Arman Aksoy|Hikmat Al-Ahmadie|Erik Yusko|Marissa Vignali|Sharon Benzeno|Mariel Boyd|Meredith Moran|Gopa Iyer|Harlan S. Robins|Elaine R. Mardis|Taha Merghoub|Jeff Hammerbacher|Jonathan Rosenberg|Dean Bajorin Memorial Sloan Kettering Cancer Center; Weill Cornell Medical College;|Icahn School of Medicine at Mount Sinai;|Memorial Sloan Kettering Cancer Center;|Adaptive Biotechnologies;|Adaptive Biotechnologies; Fred Hutchinson Cancer Research Center;|The Ohio State University College of Medicine
http://dx.doi.org/10.1101/087122 2016-11-11 Microbiology CC BY-NC-ND Giardia alters commensal microbial diversity throughout the murine gut Nanelle R Barash|Jennifer G Maloney|Steven Singer|Scott C Dawson University of California Davis;|Georgetown University
http://dx.doi.org/10.1101/087213 2016-11-11 Epidemiology CC BY-NC Modeling disease spread in populations with birth, death, and concurrency Joel Miller|Anja C Slim Monash University
http://dx.doi.org/10.1101/087270 2016-11-11 Microbiology CC BY-ND Proteotype profiling unmasks a viral signaling network essential for poxvirus assembly and transcriptional competence Karel Novy|Samuel Kilcher|Ulrich Omasits|Christopher Karl Ernst Bleck|Corina Beerli|Mohammedyaseen Syedbasha|Alessio Maiolica|Jason Mercer|Bernd Wollscheid Institute of Molecular Systems Biology, D-BIOL, ETH Zurich 8093 Zurich, Switzerland;|MRC-Laboratory for Molecular Cell Biology, University College London, London WC1E 6BT, UK;|Institute of Molecular Systems Biology, D-BIOL, ETH Zurich, 8093 Zurich, Switzerland;|Center for Cellular Imaging and NanoAnalytics (C-CINA), Biozentrum, University of Basel, Switzerland;|Institute of Biochemistry, D-BIOL, ETH Zurich, 8093 Zurich, Switzerland;|University College London;|Department of Health Sciences and Technology (D-HEST), ETH Zurich, 8093 Zurich, Switzerland
http://dx.doi.org/10.1101/087023 2016-11-11 Neuroscience Genetic overlap between in-scanner head motion and the default network connectivity Yuan Zhou|Jie Chen|Yu Luo|Dang Zheng|Li-Lin Rao|Xinying Li|Jianxin Zhang|Shu Li|Karl Friston|Xi-Nian Zuo Institute of Psychology, Chinese Academy of Sciences;|The Wellcome Trust Centre for Neuroimaging, University College London
http://dx.doi.org/10.1101/087189 2016-11-11 Epidemiology CC BY-NC Mathematical models of SIR disease spread with combined non-sexual and sexual transmission routes Joel Miller Monash University
http://dx.doi.org/10.1101/087247 2016-11-11 Microbiology CC BY-NC-ND Crosstalk and eavesdropping among quorum sensing peptide signals that regulate bacteriocin production in Streptococcus pneumoniae Eric Miller|Morten Kjos|Monica Abrudan|Ian S. Roberts|Jan-Willem Veening|Daniel Rozen University of Manchester;|Norwegian University of Life Sciences;|Wellcome Trust Sanger Institute;|University of Lausanne;|Leiden University
http://dx.doi.org/10.1101/087197 2016-11-11 Neuroscience CC BY-NC-ND Test-retest reliability of functional connectivity networks during naturalistic fMRI paradigms Jiahui Wang|Yudan Ren|Xintao Hu|Vinh Thai Nguyen|Lei Guo|Junwei Han|Christine Cong Guo School of Automation, Northwestern Polytechnical University, Xi'an, China;|QIMR Berghofer Medical Research Institute, Herston, Queensland, Australia
http://dx.doi.org/10.1101/087288 2016-11-11 Neuroscience Network activity influences the subthreshold and spiking visual responses of pyramidal neurons in a three-layer cortex Nathaniel C. Wright|Ralf Wessel Washington University in St. Louis
http://dx.doi.org/10.1101/087254 2016-11-11 Genomics CC BY-NC-ND An annotated draft genome for Radix auricularia(Gastropoda, Mollusca) Tilman Schell|Barbara Feldmeyer|Hanno Schmidt|Bastian Greshake|Oliver Tills|Manuela Truebano|Simon D. Rundle|Juraj Paule|Ingo Ebersberger|Markus Pfenninger Senckenberg Biodiversity and Climate Research Centre;|Goethe-University, Frankfurt am Main;|Plymouth University;|Senckenberg Research Institute
http://dx.doi.org/10.1101/086942 2016-11-11 Evolutionary Biology CC BY-ND Recurrent gene duplication leads to diverse repertoires of centromeric histones in Drosophila species Lisa E. Kursel|Harmit Singh Malik Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/086827 2016-11-11 Neuroscience CC BY A TOPOLOGICAL/ECOLOGICAL APPROACH TO PERCEPTION Arturo Tozzi|James Peters|Sheela Ramanna University of North Texas, USA;|University of Manitoba;|Adıyaman University, Turkey
http://dx.doi.org/10.1101/087148 2016-11-11 Systems Biology CC BY-NC-ND Combining inferred regulatory and reconstructed metabolic networks enhances phenotype prediction in yeast Zhuo Wang|Samuel A Danziger|Benjamin D Heavner|Shuyi Ma|Jennifer J Smith|Song Li|Thurston Herricks|Evangelos Simeonidis|Nitin S Baliga|John D Aitchison|Nathan D Price Shanghai Jiao Tong University;|Center for Infectious Disease Research;|Institute for Systems Biology
http://dx.doi.org/10.1101/087239 2016-11-11 Bioinformatics CC BY Ensembl Core Software Resources: storage and programmatic access for DNA sequence and genome annotation Magali Ruffier|Andreas Kahari|Monika Komorowska|Stephen Keenan|Matthew R Laird|Ian Longden|Glenn Proctor|Steve Searle|Daniel Staines|Kieron Taylor|Alessandro Vullo|Andrew Yates|Daniel Zerbino|Paul Flicek EMBL-EBI;|Wellcome Trust Sanger Institute;|European Bioinformatics Institute
http://dx.doi.org/10.1101/087171 2016-11-11 Microbiology CC BY-NC EMDUnifrac: Exact linear time computation of the Unifrac metric and identification of differentially abundant organisms Jason McClelland|David Koslicki Oregon State University
http://dx.doi.org/10.1101/087015 2016-11-11 Scientific Communication and Education CC BY Copyright and the Use of Images as Biodiversity Data Willi Egloff|Donat Agosti|Puneet Kishor|David Patterson|Jeremy A. Miller Plazi;|University of Sydney;|Naturalis Biodiversity Center
http://dx.doi.org/10.1101/085852 2016-11-11 Ecology Resilience, invariability, and ecological stability across levels of organization Bart Haegeman|Jean-Francois Arnoldi|Shaopeng Wang|Claire de Mazancourt|Jose M. Montoya|Michel Loreau CNRS;|iDiv
http://dx.doi.org/10.1101/085886 2016-11-11 Neuroscience CC BY-NC-ND Cause for pause before leaping to conclusions about stepping Ariel Zylberberg|Michael N Shadlen Columbia University
http://dx.doi.org/10.1101/087155 2016-11-11 Evolutionary Biology CC BY-NC Genetic variation for mitochondrial function in the New Zealand freshwater snail Potamopyrgus antipodarum Joel Sharbrough|Jennifer L Cruise|Megan Beetch|Nicole M Enright|Maurine Neiman University of Iowa;|University of Saint Thomas
http://dx.doi.org/10.1101/087403 2016-11-12 Neuroscience CC BY Interneuronal mechanisms of hippocampal theta oscillation in a full-scale model of the rodent CA1 circuit Marianne Bezaire|Ivan Raikov|Kelly Burk|Dhrumil Vyas|Ivan Soltesz Boston University;|Stanford University;|UC Irvine
http://dx.doi.org/10.1101/087353 2016-11-12 Neuroscience CC BY-NC-ND A first-principle for the nervous system Kunjumon I Vadakkan Neurosearch Center
http://dx.doi.org/10.1101/087296 2016-11-12 Ecology Regime shifts, alternative states and hysteresis in the Sarracenia microecosystem Matthew K Lau|Ben Baiser|Nicholas J Gotelli|Aaron M Ellison Harvard University;|University of Florida;|University of Vermont
http://dx.doi.org/10.1101/087387 2016-11-12 Genetics CC BY-NC-ND Genomic Rearrangements Considered as Quantitative Traits Martha Imprialou|Andre Kahles|Joshua B Steffen|Edward J Osborne|Xiangchao Gan|Janne Lempe|Amarjit Bhomra|Eric J Belfield|Anne Visscher|Robert Greenhalgh|Nicholas P Harberd|Richard Goram|Jotun John Hein|Alexandre Robert-Seilaniantz|Jonathan J Jones|Oliver Stegle|Paula X Kover|Miltos Tsiantis|Magnus Nordborg|Gunnar Ratsch|Richard Clark|Richard Mott Wellcome Trust Centre for Human Genetics;|Memorial Sloan Kettering Cancer Center;|Colby-Sawyer College;|University of Utah;|Max Planck Institute for Plant Breeding Research;|University of Oxford;|Kew Gardens;|Oxford University;|John Innes Centre;|UMR INRA-Agrocampus Ouest-Université de Rennes;|The Sainsbury Laboratory;|EMBL-EBI;|University of Bath;|Gregor Mendel Institute of Molecular Plant Biology;|University College London
http://dx.doi.org/10.1101/087429 2016-11-12 Genetics CC BY-NC-ND Association of five SNPs with human hair colour in the Polish population Anna Siewierska-Gorska|Aneta Sitek|Elzbieta Zadzinska|Grzegorz Bartosz|Dominik Strapagiel University of Lodz, Department of Molecular Biophysics;|University of Lodz, Department of Anthropology;|University of Lodz, Department of Molecular Biophysics, Biobank Lab
http://dx.doi.org/10.1101/086900 2016-11-12 Synthetic Biology CC BY-NC-ND Self-destructive altruism in a synthetic developmental program enables complex feedstock utilization Robert Egbert|Leandra M Brettner|David Zong|Eric Klavins University of Washington
http://dx.doi.org/10.1101/087437 2016-11-13 Genomics CC BY-NC-ND Environmental DNA Barcode Sequence Capture: Targeted, PCR-free Sequence Capture for Biodiversity Analysis from Bulk Environmental Samples Shadi Shokralla|Joel Gibson|Ian King|Donald Baird|Daniel Janzen|Winnie Hallwachs|Mehrdad Hajibabaei University of Guelph;|University of New Brunswick;|University of Pennsylvania
http://dx.doi.org/10.1101/087361 2016-11-13 Genomics CC BY-NC A functional genomic meta-analysis of clinical trials in systemic sclerosis: towards precision medicine and combination therapy Jaclyn N Taroni|Viktor Martyanov|J. Matthew Mahoney|Michael L Whitfield Geisel School of Medicine at Dartmouth;|College of Medicine University of Vermont
http://dx.doi.org/10.1101/087700 2016-11-14 Evolutionary Biology CC BY-NC-ND Accelerated simulation of evolutionary trajectories in origin-fixation models Ashley I Teufel|Claus O Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/087726 2016-11-14 Bioinformatics CC BY-NC-ND Automatic Tracing of Ultra-Volume of Neuronal Images Hanchuan Peng|Zhi Zhou|Erik Meijering|Ting Zhao|Giorgio Ascoli|Michael Hawrylycz Allen Institute for Brain Science;|Erasmus University Medical Center Rotterdam, Rotterdam, Netherlands.;|HHMI;|George Mason University;|Allen Institute
http://dx.doi.org/10.1101/087379 2016-11-14 Synthetic Biology CC BY-NC-ND A Bayesian approach to inferring chemical signal timing and amplitude in a temporal logic gate using the cell population distributional response Ania-Ariadna Baetica|Thomas Anthony Catanach|Victoria Hsiao|Richard Murray|James Beck California Institute of Technology
http://dx.doi.org/10.1101/087742 2016-11-14 Genetics Problems with Estimating Anthesis Phenology Parameters in Zea mays: Consequences for Combining Ecophysiological Models with Genetics Abhishes Lamsal|Stephen Welch|Jeffrey White|Kelly Thorp|Nora Bello Kansas State University;|USDA
http://dx.doi.org/10.1101/087692 2016-11-14 Neuroscience CC BY-NC-ND Modulation of Body Mass Composition using Vestibular Nerve Stimulation. Paul D. McGeoch|Jason McKeown|Vilayanur S. Ramachandran University of California, San Diego;|UCSD
http://dx.doi.org/10.1101/086447 2016-11-14 Evolutionary Biology CC BY-NC Biased gene conversion drives codon usage in human and precludes selection on translation efficiency Fanny Pouyet|Dominique Mouchiroud|Laurent Duret|Marie Semon LBBE, UMR 5558, CNRS, Universite de Lyon;|IGFL, ENS Lyon, Universite de Lyon
http://dx.doi.org/10.1101/087494 2016-11-14 Ecology CC BY-NC-ND Microbiome engineers: Grazers, browsers, and the phytobiome stampede Karen A Garrett|Erin E Frank|Shauna P Dendy|John F Leslie|Amgad Saleh University of Florida;|Kansas State University;|King Saud University
http://dx.doi.org/10.1101/087510 2016-11-14 Genomics Deciphering the genic basis of environmental adaptations by simultaneous forward and reverse genetics in Saccharomyces cerevisiae Jianzhi Zhang|Calum Maclean|Brian Metzger|Jian-Rong Yang|Wei-Chin Ho|Bryan Moyers University of Michigan
http://dx.doi.org/10.1101/087569 2016-11-14 Evolutionary Biology CC BY-NC-ND An overview on the DNA nucleotide compositions across kingdoms Yabin Guo Medical Research Center, Sun Yat-Sen Memorial Hospital, Sun Yat-Sen University
http://dx.doi.org/10.1101/087585 2016-11-14 Microbiology Cobalt enrichment in anaerobic microbial cocultures revealed by synchrotron X-ray fluorescence imaging Jennifer B Glass|Si Chen|Katherine S Dawson|Damian R Horton|Stefan Vogt|Ellery D Ingall|Benjamin S Twining|Victoria J Orphan Georgia Institute of Technology;|Argonne National Laboratory;|California Institute of Technology;|Bigelow Laboratory for Ocean Sciences
http://dx.doi.org/10.1101/065615 2016-11-14 CC BY-NC-ND MARS: Motif Assessment and Ranking Suite for transcription factor binding motifs Caleb Kipkurui Kibet|Philip Machanick Rhodes University
http://dx.doi.org/10.1101/087593 2016-11-14 Synthetic Biology CC BY-NC Tunable Extracellular Self-Assembly of Multi-Protein Conjugates from Bacillus subtilis Charlie Gilbert|Mark Howarth|Colin Harwood|Tom Ellis Imperial College London;|Oxford University;|Newcastle University
http://dx.doi.org/10.1101/086744 2016-11-14 Microbiology CC BY On the (im)possibility to reconstruct plasmids from whole genome short-read sequencing data Sergio Arredondo-Alonso|Willem van Schaik|Rob J Willems|Anita C Schurch University Medical Center Utrecht - Department of Medical Microbiology
http://dx.doi.org/10.1101/087445 2016-11-14 Bioinformatics Efficient repositioning of approved drugs as anti-HIV agents using Anti-HIV-Predictor Shao-Xing Dai|Huan Chen|Wen-Xing Li|Yi-Cheng Guo|Jia-Qian Liu|Jun-Juan Zheng|Qian Wang|Hui-Juan Li|Bi-Wen Chen|Yue-Dong Gao|Gong-Hua Li|Yong-Tang Zheng|Jing-Fei Huang State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, CAS;|Kunming Institute of Zoology, CAS;|Kunming Biological Diversity Regional Center of Instruments, Kunming Institute of Zoology,CAS
http://dx.doi.org/10.1101/087619 2016-11-14 Bioinformatics CC BY Systematic integration of biomedical knowledge prioritizes drugs for repurposing Daniel S Himmelstein|Antoine Lizee|Christine Hessler|Leo Brueggeman|Sabrina L Chen|Dexter Hadley|Ari Green|Pouya Khankhanian|Sergio E Baranzini UCSF;|University of California, San Francisco;|University of Iowa;|Johns Hopkins University;|University of Pennsylvania
http://dx.doi.org/10.1101/087551 2016-11-14 Neuroscience CC BY-NC-ND Metrics for comparing Neuronal Tree Shapes based on Persistent Homology Yanjie Li|Giorgio Ascoli|Partha P Mitra|Yusu Wang Ohio State University;|George Mason University;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/087411 2016-11-14 Immunology CC BY-NC-ND Unifying the two different classes of plant non-specific lipid-transfer proteins allergens classified in the WHO/IUIS allergen database through a motif with conserved sequence, structural and electrostatic features Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/087395 2016-11-14 Neuroscience CC BY T-SNE visualization of large-scale neural recordings. George Dimitriadis|Joana Neto|Adam Kampff Sainsbury Wellcome Centre, UCL
http://dx.doi.org/10.1101/087304 2016-11-14 Genetics CC BY-NC-ND Statistical properties of simple random-effects models for genetic heritability David Steinsaltz|Andrew Dahl|Kenneth W Wachter University of Oxford;|Wellcome Trust Centre for Human Genetics;|University of California, Berkeley, Department of Statistics
http://dx.doi.org/10.1101/087676 2016-11-14 Neuroscience Optical-flow analysis toolbox for characterization of spatiotemporal dynamics in mesoscale optical imaging of brain activity Navvab Afrashteh|Samsoon Inayat|Mostafa Mohsenvand|Majid Mohajerani University of Lethbridge;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/087643 2016-11-14 Genomics Nitrogen cost minimization is promoted by structural changes in the transcriptome of N deprived Prochlorococcus cells Robert W Read|Paul M Berube|Steven J Biller|Iva Neveux|Andres Cubillos-Ruiz|Sallie W Chisholm|Joseph J Grzymski Desert Research Institute;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/087668 2016-11-14 Molecular Biology Kinetic modeling predicts a role for ribosome collisions at elongation stall sites in bacteria Michael Ferrin|Arvind R. Subramaniam Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/087627 2016-11-14 CC BY-NC-ND Chromosome segregation drives division site selection in Streptococcus pneumoniae Renske van Raaphorst|Morten Kjos|Jan-Willem Veening University of Groningen;|Norwegian University of Life Sciences;|University of Lausanne
http://dx.doi.org/10.1101/087650 2016-11-14 Evolutionary Biology CC BY-NC-ND The natural selection of metabolism and mass selects lifeforms from viruses to multicellular animals Lars Witting Greenland Institute of Natural Resources
http://dx.doi.org/10.1101/087577 2016-11-14 Molecular Biology CC BY-NC-ND Domains of methylated CAC and CG target MeCP2 to tune transcription in the brain Sabine Lagger|John C Connelly|Gabriele Schweikert|Shaun Webb|Jim Selfridge|Bernhard H Ramsahoye|Miao Yu|Dina DeSousa|Christian Seiser|Chuan He|Guido Sanguinetti|Lawrence C Sowers|Malcolm D Walkinshaw|Adrian P Bird University of Edinburgh;|University of Chicago;|Medical University of Vienna;|University of Texas Medical Branch
http://dx.doi.org/10.1101/087460 2016-11-14 Biophysics CC BY-NC Refractive index tomograms and dynamic membrane fluctuations of red blood cells from patients with diabetes mellitus SangYun Lee|HyunJoo Park|Kyoohyun Kim|YongHak Sohn|Seongsoo Jang|YongKeun Park KAIST;|Eulji University Hospital;|Asan Medical Center
http://dx.doi.org/10.1101/087486 2016-11-14 Cancer Biology Time-resolved proteomics vs. ribosome profiling reveals translation dynamics under stress Tzu-Yu Liu|Hector H. Huang|Diamond Wheeler|James A. Wells|Yun S. Song|Arun P. Wiita University of Pennsylvania;|University of California, San Francisco;|University of California, Berkeley
http://dx.doi.org/10.1101/087874 2016-11-15 Neuroscience CC BY A LOGICAL INQUIRY OF EMOTIONS AND COGNITION Arturo Tozzi|Colin James|James Peters University of North Texas;|Ersatz Systems Machine Cognition, LLC;|University of Manitoba
http://dx.doi.org/10.1101/087817 2016-11-15 Neuroscience CC BY-ND Antenatal maternal anxiety modulates the BOLD response in 20-year old adolescents during an endogenous cognitive control task Maarten Mennes|Bea R.H. Van den Bergh|Stefan Sunaert|Lieven Lagae|Peter Stiers Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen, The Netherlands;|Department of Psychology, Tilburg University, Tilburg, The Netherlands;|Department of Radiology, University Hospital KU Leuven, Leuven, Belgium;|Department of Child Neurology, University Hospital KU Leuven, Leuven, Belgium;|Department of Neuropsychology and Psychopharmacology, Maastricht University, Maastricht, The Netherl
http://dx.doi.org/10.1101/087965 2016-11-15 Microbiology The type IVa pilus machinery is pre-installed during cell division Lori L. Burrows|P. Lynne Howell|Ryan N.C. Buensuceso|Stephanie Tammam|Tyson Carter|Hanjeong Harvey|Ryan P. Lamers McMaster University;|The Hospital for Sick Children
http://dx.doi.org/10.1101/087882 2016-11-15 Genomics Functional transcriptomics in diverse intestinal epithelial cell types reveals robust gut microbial sensitivity of microRNAs in intestinal stem cells Bailey CE Peck|Amanda T Mah|Wendy A Pitman|Shengli Ding|P. Kay Lund|Praveen Sethupathy University of North Carolina at Chapel Hill;|Stanford University
http://dx.doi.org/10.1101/087916 2016-11-15 Cancer Biology CC BY-NC-ND A lottery simulation model for predicting cancer risk based on the strength and abundance of individual mutations Alexander J Wolfe|Adam Giangreco University College London
http://dx.doi.org/10.1101/087783 2016-11-15 Microbiology Shifting microbial communities sustain multi-year iron reduction and methanogenesis in ferruginous sediment incubations Marcus S Bray|Jieying Wu|Benjamin C Reed|Cecilia B Kretz|Rachel L Simister|Cynthia Henny|Frank J Stewart|Thomas J DiChristina|Jay A Brandes|David A Fowle|Sean A Crowe|Jennifer B Glass Georgia Institute of Technology;|University of British Columbia;|Indonesian Institute of Sciences;|Skidaway Institute of Oceanography;|University of Kansas
http://dx.doi.org/10.1101/087924 2016-11-15 Evolutionary Biology CC BY-NC-ND Functional constraints on replacing an essential gene with its ancient and modern homologs Betul Kacar|Eva Garmendia|Nurcan Tuncbag|Dan I Andersson|Diarmaid Hughes Harvard University;|Uppsala University;|Middle East Technical University
http://dx.doi.org/10.1101/087833 2016-11-15 Genetics A nearest neighbour approach by genic distance to the assignment of individuals to geographic origin Bernd Degen|Celine Blanc-Jolivet|Katrin Stierand|Elizabeth Gillet Thuenen-Institute of Forest Genetics;|Faculty of Forest Sciences and Forest Ecology, Georg-August University Goettingen
http://dx.doi.org/10.1101/087981 2016-11-15 Bioinformatics SplitThreader: Exploration and analysis of rearrangements in cancer genomes Maria Nattestad|Marley C. Alford|Fritz J. Sedlazeck|Michael C. Schatz Cold Spring Harbor Laboratory, Cold Spring Harbor, NY;|Bard College, Annandale-On-Hudson, NY;|Departments of Computer Science and Biology, Johns Hopkins University, Baltimore, MD
http://dx.doi.org/10.1101/087858 2016-11-15 Biophysics CC BY-NC-ND Cell wall remodeling drives engulfment during Bacillus subtilis sporulation Nikola Ojkic|Javier Lopez-Garrido|Kit Pogliano|Robert Endres Imperial College London;|University of California at San Diego
http://dx.doi.org/10.1101/087866 2016-11-15 Cell Biology CC BY Microtubule organization within mitotic spindles revealed by serial block face scanning EM and image analysis Faye M Nixon|Thomas R Honnor|Georgina P Starling|Alison J Beckett|Adam M Johansen|Julia A Brettschneider|Ian A Prior|Stephen J Royle Warwick Medical School;|University of Warwick;|University of Liverpool
http://dx.doi.org/10.1101/087940 2016-11-15 Biophysics Slow and steady wins the race: encounters of myosin-5 and myosin-6 on shared actin filaments Alicja Santos|Joanna Kalita|Ronald Rock University of Chicago
http://dx.doi.org/10.1101/087908 2016-11-15 Biochemistry CC BY Structure-based alignment of human caspase recruitment domains provides a framework for understanding their function Joseph P Boyle|Tom Monie University of Cambridge
http://dx.doi.org/10.1101/087841 2016-11-15 Biophysics CC BY Cryo-EM structure of haemoglobin at 3.2 A determined with the Volta phase plate Maryam Khoshouei|Mazdak Radjainia|Wolfgang Baumeister|Radostin Danev Max Planck Institute of Biochemistry;|Monash University
http://dx.doi.org/10.1101/087932 2016-11-15 Genetics CC BY-NC biMM: Efficient estimation of genetic variances and covariances for cohorts with high-dimensional phenotype measurements Matti Pirinen|Christian Benner|Pekka Marttinen|Marjo-Riitta Jarvelin|Manuel A Rivas|Samuli Ripatti Institute for Molecular Medicine Finland (FIMM);|Aalto University;|University of Oulu;|Stanford University
http://dx.doi.org/10.1101/087775 2016-11-15 Bioinformatics CC BY Scalable latent-factor models applied to single-cell RNA-seq data separate biological drivers from confounding effects Florian Buettner|Naruemon Pratanwanich|John C Marioni|Oliver Stegle European Molecular Biology Laboratory - European Bioinformatics Institute
http://dx.doi.org/10.1101/087809 2016-11-15 Bioinformatics A community-based collaboration to build prediction models for short-term discontinuation of docetaxel in metastatic castration-resistant prostate cancer patients Fatemeh Seyednasrollah|Devin C Koestler|Tao Wang|Stephen R Piccolo|Roberto Vega|Russ Greiner|Christiane Fuchs|Eyal Gofer|Luke Kumar|Russel D Wolfinger|Kimberly Kanigel Winner|Chris Bare|Elias Chaibub Neto|Thomas Yu|Liji Shen|Kald Abdallah|Thea Norman|Gustavo Stolovitzky|Howard Soule|Chistopher J Sweeney|Charles J Ryan|Howard I Scher|Oliver Sartor|Laura L Elo|Fang L Zhou|Justin Guinney|James C Costello University of Turku;|University of Kansas Medical Center;|University of Texas Southwestern Medical Center;|Brigham Young University;|University of Alberta;|Helmholtz Zentrum Munchen;|The Hebrew University;|SAS Institute;|University of Colorado Anschutz Medical Campus;|Sage Bionetworks;|Sanofi;|AstraZeneca;|IBM;|Prostate Cancer Foundation;|Dana-Farber Cancer Institute;|University of California, San Francisco;|Memorial Sloan-Kettering Cancer Center;|Tulane University
http://dx.doi.org/10.1101/087718 2016-11-15 Bioinformatics CC BY Determining causal genes from GWAS signals using topologically associating domains Gregory P Way|Daniel W Youngstrom|Kurt D. Hankenson|Casey S Greene|Struan F. A. Grant University of Pennsylvania;|Michigan State University;|The Children's Hospital of Philadelphia
http://dx.doi.org/10.1101/088153 2016-11-16 Plant Biology CC BY-NC Shared characteristics underpinning C4 leaf maturation derived from analysis of multiple C3 and C4 species of Flaveria Britta MC Kumpers|Steven J Burgess|Ivan Reyna-Llorens|Richard Smith-Unna|Chris Boursnell|Julian M Hibberd Department of Plant Sciences, University of Cambridge
http://dx.doi.org/10.1101/088179 2016-11-16 Ecology Adaptive anonymity: Crypsis as an evolutionary trait of floral yeasts? Moritz Mittelbach|Andrey M Yurkov|Dominik Begerow Department of Geobotany, Ruhr University Bochum;|Leibniz Institute DSMZ German Collection of Microorganisms and Cell Cultures
http://dx.doi.org/10.1101/088161 2016-11-16 Cell Biology|Molecular Biology Phylogenomics-guided discovery of a novel conserved cassette of short linear motifs in BubR1 essential for the spindle checkpoint Eelco Tromer|Debora Bade|Berend Snel|Geert JPL Kops Hubrecht Institute;|Utrecht University
http://dx.doi.org/10.1101/088112 2016-11-16 Bioinformatics CC BY-NC-ND Exploiting Next Generation Sequencing to solve the Haplotyping puzzle in Polyploids: a Simulation study Ehsan Motazedi|Richard Finkers|Chris Maliepaard|Dick de Ridder Wageningen University and Research
http://dx.doi.org/10.1101/088146 2016-11-16 Molecular Biology CC BY Visualizing adenosine to inosine RNA editing in single mammalian cells Ian A Mellis|Rohit K Gupte|Arjun Raj|Sara H Rouhanifard University of Pennsylvania
http://dx.doi.org/10.1101/088138 2016-11-16 Bioinformatics CC BY-NC-ND Computational evidence of a compound with nicotinic α4β2-Ach receptor partial agonist properties as possible coadjuvant for the treatment of obesity Helena den Haan|Juan Jose Hernandez Morante|Horacio Perez-Sanchez Bioinformatics and High Performance Computing Research Group;|Catholic University of Murcia
http://dx.doi.org/10.1101/088013 2016-11-16 Evolutionary Biology Optimization of lag phase shapes the evolution of a bacterial enzyme Bharat V. Adkar|Michael Manhart|Sanchari Bhattacharyya|Jian Tian|Michael Musharbash|Eugene I. Shakhnovich Harvard University;|Chinese Academy of Agricultural Sciences
http://dx.doi.org/10.1101/088005 2016-11-16 Synthetic Biology A computational method for the investigation of multistable systems and its application to genetic switches Miriam Leon|Mae Louise Woods|Alex J H Fedorec|Chris P Barnes UCL
http://dx.doi.org/10.1101/088047 2016-11-16 Ecology Eco-evolutionary theory and insect outbreaks David Paez|Vanja Dukic|Jonathan Dushoff|Arietta Fleming-Davies|Greg Dwyer University of Chicago;|U Colorado;|McMaster University;|U Chicago
http://dx.doi.org/10.1101/087973 2016-11-16 Evolutionary Biology What can genomics tell us about the success of enhancement programs in anadromous Chinook salmon? A comparative analysis across four generations Charles D. Waters|Jeffrey J. Hard|Marine S.O. Brieuc|David E. Fast|Kenneth I. Warheit|Robin S. Waples|Curtis M. Knudsen|Willliam J. Bosch|Kerry A. Naish University of Washington;|National Oceanic and Atmospheric Administration, Northwest Fisheries Science Center;|Yakama Nation Fisheries;|Washington Department of Fish and Wildlife;|Oncorh Consulting
http://dx.doi.org/10.1101/088070 2016-11-16 Genetics Chimeras Link to Tandem Repeats and Transposable Elements in Tetraploid Hybrid Fish Lihai Ye|Xiaojun Tang|Yiyi Chen|Xiaolan Ye|Li Ren|Fangzhou Hu|Shi Wang|Ming Wen|Chun Zhang|Ming Tao|Rurong Zhao|Zhanzhou Yao|Shaojun Liu College of Life Sciences, Hunan Normal University, China;|Key Laboratory of Protein Chemistry and Fish Developmental Biology of Education Ministry of China, C, China
http://dx.doi.org/10.1101/088120 2016-11-16 Bioengineering CC BY-NC-ND Electroceutical disinfection strategies impair the motility of pathogenic Pseudomonas aeruginosa and Escherichia coli Kristina Doxsee|Ryan Berthelot|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/088062 2016-11-16 Molecular Biology CC BY-NC-ND Quantitative analysis of 3D alignment quality: its impact on soft-validation, particle pruning and homogeneity analysis Javier Vargas|Roberto Melero|Josue Gomez-Blanco|Jose-Maria Carazo|Carlos Oscar Sanchez Sorzano Centro Nacional de Biotecnologia-CSIC
http://dx.doi.org/10.1101/088096 2016-11-16 Ecology CC BY-NC-ND Upstream trophic structure modulates downstream community dynamics via resource subsidies. Eric Harvey|Isabelle Gounand|Chelsea Little|Emanuel A. Fronhofer|Florian Altermatt University of Zurich
http://dx.doi.org/10.1101/088088 2016-11-16 Genetics CC BY Unstable inheritance of 45S rRNA genes in Arabidopsis thaliana Fernando A Rabanal|Viktoria Nizhynska|Terezie Mandakova|Polina Yu Novikova|Martin Lysak|Richard Mott|Magnus Nordborg Gregor Mendel Institute, Austria;|Central European Institute of Technology, Austria;|University College London, Czech Republic
http://dx.doi.org/10.1101/088054 2016-11-16 Ecology Disentangling the Effects of Weather and Density on the Dynamics of a Fungal Pathogen Colin Kyle|Eli Goldwyn|Greg Dwyer University of Chicago;|U Chicago
http://dx.doi.org/10.1101/088039 2016-11-16 Bioinformatics CC BY-NC-ND Detecting Selection Signals In Plasmodium falciparum Using Identity-By-Descent Analysis Lyndal Henden|Stuart Lee|Ivo Mueller|Alyssa Barry|Melanie Bahlo Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/088021 2016-11-16 Neuroscience Persistent neural activity encoding real-time presence of visual stimuli decays along the ventral stream Edden M. Gerber|Tal Golan|Robert T Knight|Leon Y Deouell Hebrew University of Jerusalem;|University of California, Berkeley
http://dx.doi.org/10.1101/087759 2016-11-16 Bioinformatics Efficient Heuristic for Decomposing a Flow with Minimum Number of Paths Mingfu Shao|Carl Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/087825 2016-11-16 Epidemiology CC BY-NC-ND Livestock and microcephaly, traces of an association? Ion G de Andrade Universiade Potiguar, Medical School and Secretaria de Estado da Saude do RN/CEFOPE-ETSUS
http://dx.doi.org/10.1101/088310 2016-11-17 Neuroscience CC BY-ND Multivariate association between single-nucleotide polymorphisms in Alzgene linkage regions and structural changes in the brain: discovery, refinement and validation Elena Szefer|Donghuan Lu|Farouk Nathoo|Mirza Faisal Beg|Jinko Graham Department of Statistics and Actuarial Science, Simon Fraser University;|School of Engineering Science, Simon Fraser University;|Department of Mathematics and Statistics, University of Victoria
http://dx.doi.org/10.1101/088252 2016-11-17 Genetics CC BY-NC Development and validation of a 36-gene sequencing assay for hereditary cancer risk assessment Valentina S. Vysotskaia|Gregory J. Hogan|Genevieve M. Gould|Xin Wang|Alex D. Robertson|Kevin R. Haas|Mark R. Theilmann|Lindsay Spurka|Peter V. Grauman|Henry H. Lai|Diana Jeon|Genevieve Haliburton|Matt Leggett|Clement S. Chu|Kevin Lori|Jared R. Maguire|Kaylene Ready|Eric A. Evans|Hyunseok P. Kang|Imran S. Haque Counsyl Inc;|Color Genomics
http://dx.doi.org/10.1101/088336 2016-11-17 Microbiology CC BY-NC High-throughput CRISPRi phenotyping in Streptococcus pneumoniae identifies new essential genes involved in cell wall synthesis and competence development Xue Liu|Clement Gallay|Morten Kjos|Arnau Domenech|Jelle Slager|Sebastiaan P. van Kessel|Kevin Knoops|Robin A. Sorg|Jing-Ren Zhang|Jan-Willem Veening University of Groningen;|Norwegian University of Life Sciences;|Tsinghua University;|University of Lausanne
http://dx.doi.org/10.1101/088229 2016-11-17 Molecular Biology CC BY miR-106b-responsive gene landscape identifies regulation of Kruppel-like factor family Cody J. Wehrkamp|Sathish Kumar Natarajan|Ashley M. Mohr|Mary Anne Phillippi|Justin L. Mott University of Nebraska Medical Center;|University of Nebraska
http://dx.doi.org/10.1101/088393 2016-11-17 Evolutionary Biology CC BY-ND Engineered reciprocal chromosome translocations drive high threshold, reversible population replacement in Drosophila Anna B Buchman|Tobin Ivy|John M Marshall|Omar Akbari|Bruce A. Hay Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA;|Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA.;|School of Public Health, University of California Berkeley, Berkeley CA
http://dx.doi.org/10.1101/088328 2016-11-17 Neuroscience CC BY-NC-ND Structural and functional brain changes following four weeks of unimanual motor training: evidence from fMRI-guided diffusion MRI tractography Lee Bremner Reid|Martin V Sale|Ross Cunnington|Jason B Mattingley|Stephen E Rose CSIRO;|The Queensland Brain Institute
http://dx.doi.org/10.1101/088377 2016-11-17 Genetics CC BY-NC SOFIA: an R package for enhancing genetic visualization with Circos Luis Diaz-Garcia|Giovanny Covarrubias-Pazaran|Brandon Schlautman|Juan Zalapa University of Wisconsin-Madison;|The Land Institute
http://dx.doi.org/10.1101/088286 2016-11-17 Cancer Biology CC BY Somatic Mutations and Neoepitope Homology in Melanomas Treated with CTLA-4 Blockade Tavi Nathanson|Arun Ahuja|Alexander Rubinsteyn|Bulent Arman Aksoy|Matthew D. Hellmann|Diana Miao|Eliezer Van Allen|Taha Merghoub|Jedd Wolchok|Alexandra Snyder|Jeff Hammerbacher Icahn School of Medicine at Mount Sinai;|Memorial Sloan Kettering Cancer Center; Weill Cornell Medical College;|Dana-Farber Cancer Institute; Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/088260 2016-11-17 Genetics CC BY-NC-ND A unified characterization of population structure and relatedness. Bruce S Weir|Jerome Goudet University of Washington;|University of Lausanne
http://dx.doi.org/10.1101/088427 2016-11-17 Evolutionary Biology CC BY-ND Overcoming evolved resistance to population-suppressing homing-based gene drives John Marshall|Anna Buchman|Hector M Sanchez C.|Omar S Akbari UCB;|UCR;|School of Medicine, Mexico
http://dx.doi.org/10.1101/088419 2016-11-17 Genomics Construction of a high-density American cranberry (Vaccinium macrocarpon Ait.) composite map using genotyping-by-sequencing for multi-pedigree linkage mapping Brandon Schlautman|Giovanny Covarrubias-Pazaran|Luis Diaz-Garcia|Massmo Iorizzo|James Polashock|Edward Grygleski|Nicholi Vorsa|Juan Zalapa The Land Institute, United States;|Department of Horticulture, University of Wisconsin-Madison, United States;|University of Wisconsin-Madison, United States;|Plants for Human Health Institute, Department of Horticulture Sciences, North Carolina State Univesi, United States;|USDA ARS, Genetic Improvement of Fruits and Vegetables Laboratory, United States;|Valley Corp., United States;|Blueberry and Cranberry Research and Extension Center, Rutgers University, United States;|USDA ARS Vegetable Crops Research Unit, Department of Horticulture, University of Wisconsin-Madison, United States
http://dx.doi.org/10.1101/088302 2016-11-17 Neuroscience CC BY-NC-ND Structural and functional brain changes following four weeks of unimanual motor training: evidence from behaviour, neural stimulation, cortical thickness and functional MRI Martin V Sale|Lee Bremner Reid|Luca Cocchi|Alex Michael Pagnozzi|Stephen E Rose|Jason B Mattingley The Queensland Brain Institute;|CSIRO
http://dx.doi.org/10.1101/088609 2016-11-18 Developmental Biology Pulse of α-2-macroglobulin and lipocalin-1 in the pregnant uterus of European polecats (Mustela putorius) at the time of implantation Heli Lindeberg|Richard Burchmore|Malcolm W. Kennedy Natural Resources Institute Finland (Luke);|University of Glasgow
http://dx.doi.org/10.1101/088583 2016-11-18 Ecology CC BY-NC-ND Floral Radiometry: A Biophysical Basis to Characterize Landscapes. Jaishanker Raghunathan Nair|Sooraj N P|Somasekheran M Pillai|Athira Kakkara|Ammini Joseph|Aswathy Krishna|Indu I|Saroj Kumar Vasundharan Indian Institute of Information Technology and Management - Kerala;|University College, Thiruvananthapuram;|Cochin University of Science and Technology
http://dx.doi.org/10.1101/088617 2016-11-18 Cell Biology An icosahedral virus as a fluorescent calibration standard: methods for counting protein molecules in cells by fluorescence microscopy John Murray Indiana University
http://dx.doi.org/10.1101/088518 2016-11-18 Ecology CC BY-NC-ND Deterministic assembly processes govern seasonal and spatial variation in microbiomes across hydrologically-connected hyporheic zones Emily B. Graham|Alex R. Crump|Charles T. Resch|Sarah Fansler|Evan Arntzen|David W. Kennedy|Jim K. Fredrickson|James C. Stegen Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/088591 2016-11-18 Bioinformatics CC BY A mapping tool to identify causal mutations from forward genetic screens Guy Wachsman|Jennifer L Modliszewski|Manuel Valdes|Philip N Benfey Duke;|University of North Carolina
http://dx.doi.org/10.1101/088468 2016-11-17 Biochemistry Simulations of CYP51A from Aspergillus fumigatus in a model bilayer provide insights into triazole drug resistance Anthony Nash|Johanna Rhodes University College London;|Imperial College London
http://dx.doi.org/10.1101/088484 2016-11-17 Genomics CC BY-NC Chromatin environment, transcriptional regulation, and splicing distinguish lincRNAs and mRNAs Marta Mele|Kaia Mattioli|William Mallard|David M Shechner|Chiara Gerhardinger|John Rinn Harvard University
http://dx.doi.org/10.1101/088195 2016-11-17 Plant Biology CC BY-NC Plant growth regulators ameliorate or exacerbate abiotic and biotic stress effects on Zea mays kernel weight in a genotype-specific manner Lauren Stutts|Yishi Wang|Ann E Stapleton University of North Carolina Wilmington
http://dx.doi.org/10.1101/088401 2016-11-17 Bioinformatics CC BY-NC-ND GLASS: assisted and standardized assessment of gene variations from Sanger sequence trace data Karol Pal|Vojtech Bystry|Tomas Reigl|Martin Demko|Adam Krejci|Tasoula Touloumenidou|Evangelia Stalika|Boris Tichy|Paolo Ghia|Kostas Stamatopoulos|Sarka Pospisilova|Jitka Malcikova|Nikos Darzentas CEITEC;|G. Papanicolaou Hospital, Thessaloniki, Greece,;|CERTH;|IRCCS San Raffaele Scientific Institute and Universita Vita- Salute San Raffaele, Milan, Italy
http://dx.doi.org/10.1101/088385 2016-11-17 Genetics CC BY-NC-ND A Unified Characterization of Population Structure and Relatedness Bruce S. Weir|Jerome Goudet University of Washington;|University of Lausanne
http://dx.doi.org/10.1101/088740 2016-11-19 Bioinformatics CC BY OME Files - An open source reference library for the OME-XML metadata model and the OME-TIFF file format Roger Leigh|David Gault|Melissa Linkert|Jean-Marie Burel|Josh Moore|Sebastien Besson|Jason Swedlow University of Dundee;|Glencoe Software, Inc.;|Univeristy of Dundee
http://dx.doi.org/10.1101/088732 2016-11-19 Genomics Chromatin accessibility dynamics reveal novel functional enhancers in C. elegans Aaron C Daugherty|Robin Yeo|Jason D Buenrostro|William J Greenleaf|Anshul Kundaje|Anne Brunet Stanford University;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/088716 2016-11-19 Genetics Identifying Y-chromosome haplogroups in arbitrarily large samples of sequenced or genotyped men G. David Poznik 23andMe
http://dx.doi.org/10.1101/088435 2016-11-19 Bioinformatics CC BY-NC-ND Chromosome assembly of large and complex genomes using multiple references Mikhail Kolmogorov|Joel Armstrong|Brian J. Raney|Ian Streeter|Matthew Dunn|Fengtang Yang|Duncan Odom|Paul Flicek|Thomas Keane|David Thybert|Benedict Paten|Son Pham UC San Diego;|UC Santa Cruz;|European Bioinformatics Institute;|Wellcome Trust Sanger Institute;|Cancer Research UK Cambridge Institute;|BioTuring
http://dx.doi.org/10.1101/081976 2016-11-19 Neuroscience CC BY-NC-ND Resting-state fMRI correlations: from link-wise unreliability to whole brain stability Mario Pannunzi|Rikkert Hindriks|Ruggero Bettinardi|Elisabeth Wenger|Nina Lisofsky|Johan Martensson|Oisin Butler|Elisa Filevich|Maxi Becker|Martyna Lochstet|Ulman Lindenberger|Simone Kuehn|Gustavo Deco Universitat Pompeu Fabra;|Max Planck for human development
http://dx.doi.org/10.1101/087320 2016-11-19 Neuroscience CC BY-NC Anterior cingulate is a source of valence-specific information about value and uncertainty Ilya E Monosov Washington University School of Medicine
http://dx.doi.org/10.1101/081703 2016-11-19 Bioinformatics CC BY-NC-ND Scalable variational inference for super resolution microscopy Ruoxi Sun|Evan Archer|Liam Paninski Columbia University
http://dx.doi.org/10.1101/088666 2016-11-19 Bioinformatics UNCROSS: Filtering of high-frequency cross-talk in 16S amplicon reads Robert C Edgar Independent Scientist
http://dx.doi.org/10.1101/088492 2016-11-19 Biochemistry Conformational landscape of the p28-bound human proteasome regulatory particle Ying Lu|Jiayi Wu|Shuobing Chen|Shuangwu Sun|Yong-Bei Ma|Qi Ouyang|Daniel Finley|Marc W. Kirschner|Youdong Mao Harvard Medical School;|Peking University;|Dana-Farber Cancer Institute;|Peking University, Harvard Medical School
http://dx.doi.org/10.1101/088633 2016-11-19 Cell Biology Host Vesicle Fusion Proteins VAPB, Rab11b and Rab18 Contribute to HSV-1 Infectivity by Facilitating Egress through the Nuclear Membrane Natalia Saiz-Ros|Rafal Czapiewski|Andrew Stevenson|Ilaria Epifano|Selene K. Swanson|Marion McElwee|Swetha Vijayakrishnan|Christine A. Richardson|Charles Dixon|Lior Pytowski|Martin W. Goldberg|Laurence Florens|Sheila V. Graham|Eric C. Schirmer University of Edinburgh;|University of Glasgow;|Stowers Institute for Medical Research;|Durham University
http://dx.doi.org/10.1101/088708 2016-11-19 Developmental Biology DIV-1/PolA2 Promotes GLP-1/Notch-Mediated Cellular Events in Caenorhabditis elegans Dong Suk Yoon|Dong Seok Cha|Myon-Hee Lee Brody School of Medicine at East Carolina University;|Woosuk University
http://dx.doi.org/10.1101/088476 2016-11-19 Cell Biology Microtubules with a twist: a lumenal interrupted helix in human sperm tail microtubules John M Heumann|Cindi L Schwartz|Azusa Suzuki-Shinjo|Garry Morgan|Per Olov Widlund|Johanna Louise Hoog University of Colorado;|University of Gothenburg
http://dx.doi.org/10.1101/088757 2016-11-19 Pharmacology and Toxicology CC BY-NC-ND Immunotropic aspect of the Bacillus coagulans probiotic action Tatiana Bomko|Tatiana Nosalskaya|Tatiana Kabluchko|Yuriy Lisnyak|Artur Viktorovich Martynov Mechnikov Institute of Microbiology and Immunology
http://dx.doi.org/10.1101/088773 2016-11-19 Systems Biology CC BY PhysiCell: an Open Source Physics-Based Cell Simulator for 3-D Multicellular Systems Ahmadreza Ghaffarizadeh|Samuel H. Friedman|Shannon M. Mumenthaler|Paul Macklin USC Ellison Institute for Transformative Medicine;|USC Lawrence J. Ellison Institute for Transformative Medicine
http://dx.doi.org/10.1101/088930 2016-11-21 Synthetic Biology Logic Synthesis of Recombinase-Based Genetic Circuits Tai-Yin Chiu|Jie-Hong Roland Jiang Graduate Institute of Electronics Engineering, National Taiwan University
http://dx.doi.org/10.1101/088831 2016-11-21 Immunology CC BY-NC-ND Dynamical System Modeling to Simulate Donor T Cell Response to Whole Exome Sequencing-Derived Recipient Peptides: Understanding Randomness in Clinical Outcomes Following Stem Cell Transplantation Vishal Koparde|Badar Abdul Razzaq|Tara Suntum|Roy Sabo|Allison Scalora|Myrna Serrano|Max Jameson-Lee|Charles Hall|David Kobulnicky|Nihar Sheth|Juliana Sampson|Catherine Roberts|Gregory Buck|Michael Neale|Amir Toor Virginia Commonwealth University
http://dx.doi.org/10.1101/088948 2016-11-21 Genetics CC BY-NC-ND New single nucleotide polymorphisms (SNPs) in homologous recombination repair genes detected by microarray analysis in Polish breast cancer patients Hanna Romanowicz|Dominik Strapagiel|Marcin Slomka|Marta Sobalska-Kwapis|Ewa Kepka|Anna Siewierska-Gorska|Marek Zadrozny|Beata Smolarz Department of Clinical Pathomorphology, Polish Mother's Memorial Hospital - Research Institute;|Biobank Lab, University of Lodz;|Department of Molecular Biophysics, University of Lodz;|Polish Mother's Memorial Hospital - Research Institute
http://dx.doi.org/10.1101/088849 2016-11-21 Biophysics CC BY How fast can fast-folding proteins autonomously fold in silico? Yuan-Ping Pang Mayo Clinic
http://dx.doi.org/10.1101/088864 2016-11-21 Ecology CC BY-NC-ND Ubiquity and quantitative significance of bacterioplankton lineages inhabiting the oxygenated hypolimnion of deep freshwater lakes Yusuke Okazaki|Shohei Fujinaga|Atsushi Tanaka|Ayato Kohzu|Hideo Oyagi|Shin-ichi Nakano Kyoto University;|National Institute for Environmental Studies;|Nihon University
http://dx.doi.org/10.1101/088872 2016-11-21 Genomics CC BY Predicting causal variants affecting expression using whole genome sequence and RNA-seq from multiple human tissues. Andrew Anand Brown|Ana Vinuela|Olivier Delaneau|Timothy Spector|Kerrin Small|Emmanouil Dermitzakis University of Geneva;|King's College London;|Geneva Medical School
http://dx.doi.org/10.1101/089003 2016-11-21 Systems Biology CC BY-ND Estimating Drivers of Cell State Transitions Using Gene Regulatory Network Models Daniel Schlauch|Kimberly Glass|Craig P Hersh|Edwin K Silverman|John Quackenbush Harvard TH Chan School of Public Health;|Brigham and Woman's Hospital;|Channing Division of Network Medicine;|Brigham and Women's Hospital, Harvard Medical School;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/088922 2016-11-21 Bioinformatics CC BY-NC HiC-Spector: A matrix library for spectral and reproducibility analysis of Hi-C contact maps Koon-Kiu Yan|Galip Gurkan Yardmc|William S Noble|Mark Gerstein Yale University;|University of Washington, Seattle;|Yale university
http://dx.doi.org/10.1101/088955 2016-11-21 Pharmacology and Toxicology G protein-coupled estrogen receptor regulates heart rate in zebrafish embryos Shannon N Romano|Hailey E Edwards|Jaclyn Paige Souder|Xiangqin Cui|Daniel A Gorelick University of Alabama at Birmingham
http://dx.doi.org/10.1101/088898 2016-11-21 Neuroscience CC BY-NC-ND Visual crowding is a combination of an increase of positional uncertainty, source confusion, and featural averaging William J Harrison|Peter J Bex University of Cambridge;|Northeastern University
http://dx.doi.org/10.1101/088856 2016-11-21 Bioinformatics CC BY SCODE: An efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation Hirotaka Matsumoto|Hisanori Kiryu|Chikara Furusawa|Minoru S.H. Ko|Shigeru B.H. Ko|Norio Gouda|Tetsutaro Hayashi|Itoshi Nikaido RIKEN;|The University of Tokyo;|Keio University School of Medicine
http://dx.doi.org/10.1101/088823 2016-11-21 Epidemiology CC BY A location-specific spreadsheet for estimating Zika risk and timing for Zika vector surveillance, using U.S. military facilities as an example Desmond H Foley|David B Pecor Smithsonian Institution;|Walter Reed Army Institute of Research
http://dx.doi.org/10.1101/088906 2016-11-21 Bioinformatics CC BY-NC-ND ConfocalGN : a minimalistic confocal image simulator. Serge Dmitrieff|Francois Nedelec EMBL
http://dx.doi.org/10.1101/088914 2016-11-21 Developmental Biology CC BY-NC-ND An RNA binding polymer specifies nematode sperm fate Scott Takeo Aoki|Douglas F Porter|Aman Prasad|Marvin Wickens|Craig A Bingman|Judith Kimble University of Wisconsin-Madison
http://dx.doi.org/10.1101/088526 2016-11-21 Plant Biology CC BY Autophagy mitigates high-temperature injury during microsporogenesis in Arabidopsis thaliana Atsushi Higashitani|Zhenhua Shao|Mami Kikuta|Sakuya Nakamura|Masanori Izumi Tohoku University
http://dx.doi.org/10.1101/088765 2016-11-20 Bioinformatics CC BY Isolator: accurate and stable analysis of isoform-level expression in RNA-Seq experiments Daniel C. Jones|Kavitha T. Kuppusamy|Nathan J. Palpant|Xinxia Peng|Charles E. Murry|Hannele Ruohola-Baker|Walter L. Ruzzo University of Washington
http://dx.doi.org/10.1101/088781 2016-11-20 Animal Behavior and Cognition CC BY-NC-ND Ultraviolet and yellow reflectance but not fluorescence is important for visual discrimination of conspecifics by Heliconius erato Susan D. Finkbeiner|Dmitry A. Fishman|Daniel Osorio|Adriana D. Briscoe Boston University;|University of California, Irvine;|University of Sussex
http://dx.doi.org/10.1101/082057 2016-11-20 Immunology Immunological Patterns from Four Melioidosis Cases: Constant and Variable Protein Antigens Jinhee Yi|Kelsey Herring|Timothy C Sanchez|Srinivas Iyer|Joshua K. Stone|Judy Lee|Mark Mayo|Bart J. Currie|Apichai Tuanyok|Paul Keim Northern Arizona University;|Los Alamos National Laboratory;|Menzies School of Health Research;|University of Florida
http://dx.doi.org/10.1101/088690 2016-11-20 Cell Biology Engineered tRNA suppression of a CFTR nonsense mutation John D Lueck|Daniel T Infield|Adam L Mackey|Marshall R Pope|Paul B McCray|Christopher A Ahern The University of Iowa
http://dx.doi.org/10.1101/080622 2016-11-20 Cancer Biology E-scape: Interactive visualization of single cell phylogenetics and spatio-temporal evolution in cancer Maia A Smith|Cydney Nielsen|Fong Chun Chan|Andrew McPherson|Andrew Roth|Hossein Farahani|Daniel Machev|Adi Steif|Sohrab P Shah The University of British Columbia;|BC Cancer Agency
http://dx.doi.org/10.1101/089235 2016-11-22 Immunology CC BY-NC-ND Profiling adaptive immune repertoires across multiple human tissues by RNA Sequencing Serghei Mangul|Igor Mandric|Harry Taegyun Yang|Nicolas Strauli|Dennis Montoya|Jeremy Rotman|Will Van Der Wey|Jiem R. Ronas|Benjamin Statz|Alex Zelikovsky|Roberto Spreafico|Sagiv Shifman|Noah Zaitlen|Maura Rossetti|K. Mark Ansel|Eleazar Eskin UCLA;|Georgia State University;|UCSF;|Department of Genetics, The Institute of Life Sciences, The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/089227 2016-11-22 Bioinformatics Development of a multivariate clinical prediction model for the diagnosis of mild stroke/TIA in physician first-contact patient settings Maximilian B Bibok|Andrew M Penn|Mary L Lesperance|Kristine Votova|Robert Balshaw Vancouver Island Health Authority, Dept. of Research & Capacity Building;|Vancouver Island Health Authority, Stroke Rapid Assessment Unit;|University of Victoria, Dept. of Mathematics and Statistics;|5.British Columbia Centre for Disease Control
http://dx.doi.org/10.1101/089219 2016-11-22 Neuroscience CC BY-NC-ND NeuroExpresso: A cross-laboratory database of brain cell-type expression profiles with applications to marker gene identification and bulk brain tissue transcriptome interpretation B. Ogan Mancarci|Lilah Toker|Shreejoy Tripathy|Brenna Li|Brad Rocco|Etienne Sibille|Paul Pavlidis University of British Columbia;|Campbell Family Mental Health Research Institute of CAMH
http://dx.doi.org/10.1101/089201 2016-11-22 Developmental Biology A new coactivator complex required for retinoic acid-dependent regulation of embryonic symmetry Goncalo C. Vilhais-Neto|Marjorie Fournier|Jean-Luc Plassat|Mihaela E. Sardiu|Anita Saraf|Jean-Marie Garnier|Mitsuji Maruhashi|Laurence Florens|Michael P. Washburn|Olivier Pourquie Institut de Genetique et de Biologie Moleculaire et Cellulaire (IGBMC);|Stowers Institute for Medical Research;|Harvard Medical School
http://dx.doi.org/10.1101/089185 2016-11-22 Cell Biology CC BY-NC Flagellar synchronization is a simple alternative to cell cycle synchronization for ciliary and flagellar studies Soumita Dutta|Prachee Avasthi University of Kansas Medical Center
http://dx.doi.org/10.1101/089078 2016-11-22 Plant Biology CC BY-NC-ND Rooting density differentiates wheat genotypes through Bayesian modeling Anton P Wasson|Grace S Chiu|Alexander B Zwart|Timothy R Binns CSIRO Agriculture Flagship;|Australian National University;|CSIRO Data61;|Australian Taxation Office
http://dx.doi.org/10.1101/089052 2016-11-22 Bioinformatics CC BY-NC-ND Multiple Confounders Correction with Regularized Linear Mixed Effect Models, with Application in Biological Processes Haohan Wang|Jingkang Yang Carnegie Mellon University;|International School, Beijing University of Posts and Telecommunications
http://dx.doi.org/10.1101/089177 2016-11-22 Bioinformatics CC BY-NC-ND Constructing high-density linkage maps with MapDisto 2.0 Christopher Heffelfinger|Christopher A Fragoso|Mathias Lorieux Yale University, United States;|IRD/CIAT, United States
http://dx.doi.org/10.1101/089060 2016-11-22 Neuroscience Age and sex affect intersubject correlation of EEG throughout development Agustin Petroni|Samantha Cohen|Nicolas Langer|Simon Henin|Tamara Vanderwal|Michael P Milham|Lucas C Parra City College of New York;|City University of New York;|Zurich University;|Yale University;|Child Mind Institute
http://dx.doi.org/10.1101/089144 2016-11-22 Ecology CC BY Predator phylogenetic diversity decreases predation rate via antagonistic interactions Andrew A. M. MacDonald|Gustavo Q Romero|Diane S Srivastava Universite Paul Sabatier;|Universidade Estadual de Campinas;|University of British Columbia
http://dx.doi.org/10.1101/088989 2016-11-22 Evolutionary Biology CC BY Ancient hybridization and strong adaptation to viruses across African vervet monkey populations Hannes Svardal|Anna Jasinska|Cristian Apetrei|Giovanni Coppola|Yu Huang|Christopher Schmitt|Beatrice Jacquelin|Michaela Muller-Trutwin|George Weinstock|Paul Grobler|Richard Wilson|Trudy Turner|Wesley Warren|Nelson Freimer|Magnus Nordborg GMI;|UCLA;|U Pittsburg;|CAS;|Boston U;|Institut Pasteur;|The Jackson Laboratory for Genomic Medicine;|University of the Free State;|Washington University;|University of Wisconsin-Milwaukee;|Gregor Mendel Institute
http://dx.doi.org/10.1101/088963 2016-11-22 Neuroscience CC BY-NC-ND Distinct sources of deterministic and stochastic components of action timing decisions in rodent frontal cortex Masayoshi Murakami|Hanan Shteingart|Yonatan Loewenstein|Zachary F. Mainen Champalimaud Research, Champalimaud Centre for the Unknown;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/088997 2016-11-22 Evolutionary Biology CC BY-NC-ND The natural selection of metabolism bends body mass evolution in time Lars Witting Greenland Institute of Natural Resources
http://dx.doi.org/10.1101/089094 2016-11-22 Biophysics CC BY-ND Raoult's law revisited: accurately predicting equilibrium relative humidity points for humidity control experiments. Michael G Bowler|David R Bowler|Matthew W Bowler University of Oxford;|University College London;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/089151 2016-11-22 Evolutionary Biology CC BY-NC The Impact of Lethal Recessive Alleles on Bottlenecks with Implications for Conservation Genetics R. B. Campbell University of Northern Iowa, United States
http://dx.doi.org/10.1101/085902 2016-11-22 Neuroscience CC BY-NC-ND Neuronal components of evaluating the human 1 origin of abstract shapes Hagar Goldberg|Yuval Hart|Avraham Mayo|Uri Alon|Rafael Malach Weizmann Institute of Science;|Harvard University
http://dx.doi.org/10.1101/088682 2016-11-22 Biophysics CC BY-NC-ND In vivo imaging of coral tissue and skeleton with optical coherence tomography Daniel Wangpraseurt|Camilla Wentzel|Steven L Jacques|Michael Wagner|Michael Kuhl Marine Biological Section, Department of Biology, University of Copenhagen;|Deptartment of Biomedical Engineering, Oregon Health & Science University;|Engler-Bunte Institute, Chair of Water Chemistry and Water Technology, Karlsruhe Institute of Techn
http://dx.doi.org/10.1101/089086 2016-11-22 Systems Biology CC BY Scalable parameter estimation for genome-scale biochemical reaction networks Fabian Frohlich|Barbara Kaltenbacher|Fabian J Theis|Jan Hasenauer Helmholtz Zentrum München;|University of Klagenfurt
http://dx.doi.org/10.1101/087890 2016-11-22 Genomics CC BY Reducing mitochondrial reads in ATAC-seq using CRISPR/Cas9 Lindsey Montefiori|Liana Gonzales|Zijie Zhang|Yoav Gilad|Carole Ober|Gregory Crawford|Marcelo Nobrega|Noboru Jo Sakabe Department of Human Genetics, University of Chicago;|Department of Pediatrics, Center for Genomic and Computational Biology, Duke University
http://dx.doi.org/10.1101/089011 2016-11-22 Genomics CC BY-NC-ND Detecting hierarchical 3-D genome domain reconfiguration with network modularity Heidi K Norton|Harvey Huang|Daniel J Emerson|Jesi Kim|Shi Gu|Danielle S Bassett|Jennifer E Phillips-Cremins University of Pennsylvania
http://dx.doi.org/10.1101/089128 2016-11-22 Cancer Biology MYCOPLASMA FAUCIUM AND BREAST CANCER Valentin Mitin|Lidia Tumanova|Natalia Botnariuc Institute of Genetics, Physiology and Plant Protection;|Institute of Oncology of Moldova
http://dx.doi.org/10.1101/089102 2016-11-22 Bioinformatics CC BY-ND Predicting gene expression level in E. coli from mRNA sequence information Linlin Zhao|Nima Abedpour|Christopher Blum|Petra Kolkhof|Mathias Beller|Markus Kollmann|Emidio Capriotti Heinrich-Heine-University Dusseldorf;|University of Cologne;|University of Bologna
http://dx.doi.org/10.1101/088724 2016-11-22 Neuroscience CC BY-NC-ND Sexually satiated male Drosophila melanogaster uses gustatory-to-neuropeptide integrative circuits to reduce time investment for mating Woo Jae Kim|Seung Gee Lee|Anne-Christine Auge|Lily Yeh Jan|Yuh Nung Jan University of Ottawa;|University of California, San Francisco
http://dx.doi.org/10.1101/086710 2016-11-21 Evolutionary Biology CC BY-NC-ND Revisiting the effect of red on competition in humans Laura Fortunato|Aaron Clauset University of Oxford;|University of Colorado
http://dx.doi.org/10.1101/089292 2016-11-23 Genetics Homozygous c.259G>A variant in ISCA1 is associated with a new multiple mitochondrial dysfunctions syndrome Anju Shukla|Malavika Hebbar|Anshika Srivastava|Rajagopal Kadavigere|Priyanka Upadhyai|Anil Kanthi|Oliver Brandau|Stephanie Bielas|Katta Girisha Kasturba Medical College;|Michigan Medical School, University of Michigan;|Centogene, AG
http://dx.doi.org/10.1101/089342 2016-11-23 Genetics CC BY-NC-ND Polygenic transmission disequilibrium confirms that common and rare variation act additively to create risk for autism spectrum disorders Daniel J. Weiner|Emilie M. Wigdor|Stephan Ripke|Raymond K. Walters|Jack A. Kosmicki|Jakob Grove|Kaitlin E. Samocha|Jacqueline Goldstein|Aysu Okbay|Jonas Bybjerg-Gauholm|Thomas Werge|David M. Hougaard|Jacob Taylor|David Skuse|Bernie Devlin|Richard Anney|Stephan Sanders|Somer Bishop|Preben Bo Mortensen|Anders Borglum|George Davey Smith|Mark J Daly|Elise B. Robinson Massachusetts General Hospital;|Broad Institute of MIT and Harvard;|Aarhus University;|Vrije Universiteit Amsterdam;|Statens Serum Institut;|University of Copenhagen;|University College London;|University of Pittsburgh School of Medicine;|Cardiff University;|University of California San Francisco;|University of Bristol
http://dx.doi.org/10.1101/089367 2016-11-23 Systems Biology NaviCom: A web application to create interactive molecular network portraits using multi-level omics data Mathurin Dorel|Emmanuel Barillot|Andrei Zinovyev|Inna Kuperstein Institut Curie
http://dx.doi.org/10.1101/089326 2016-11-23 Neuroscience CC BY-NC-ND The dynamics of human cognition: increasing global integration coupled with decreasing segregation found using intracortical EEG Josephine Cruzat|Gustavo Deco|Adria Tauste Campo|Alessandro Principe|Marco Calabria|Albert Costa|Morten L. Kringelbach|Rodrigo Rocamora Pompeu Fabra University;|Universitat Pompeu Fabra;|IMIM;|University of Oxford
http://dx.doi.org/10.1101/089334 2016-11-23 Systems Biology CC BY-ND History of Antibiotic Adaptation Influences Microbial Evolutionary Dynamics During Subsequent Treatment Phillip Yen|Jason Papin University of Virginia
http://dx.doi.org/10.1101/089300 2016-11-23 Neuroscience Activating task relevant prior knowledge increases active information storage in content specific brain areas Alla Brodski-Guerniero|Georg-Friedrich Paasch|Patricia Wollstadt|Ipek Oezdemir|Joseph T. Lizier|Michael Wibral MEG Unit, Brain Imaging Center, Goethe University Frankfurt;|MEG Unit, Brain Imaging Center,Goethe University Frankfurt;|Complex Systems Research Group and Centre for Complex Systems, The University of Sydney
http://dx.doi.org/10.1101/085795 2016-11-23 Plant Biology CC BY-NC Ancient coding sequences underpin the spatial patterning of gene expression in C4 leaves Ivan Reyna-Llorens|Steven J Burgess|Ben P Williams|Susan Stanley|Chris Boursnell|Julian M Hibberd University of Cambridge
http://dx.doi.org/10.1101/089243 2016-11-23 Cancer Biology CC BY-NC-ND Transition into inflammatory cancer-associated adipocytes in breast cancer microenvironment requires microRNA regulatory mechanism Jiwoo Lee|Han Suk Ryu|Bok Sil Hong|Han-Byoel Lee|Minju Lee|In Ae Park|Jisun Kim|Wonshik Han|Dong-Young Noh|Hyeong-Gon Moon Center for Medical Innovation, Seoul National University Hospital, Seoul;|Department of Pathology, Seoul National University Hospital;|Department of Surgery, Seoul National University College of Medicine, Seoul
http://dx.doi.org/10.1101/089110 2016-11-23 Systems Biology CC BY-NC-ND SINCERITIES: Inferring gene regulatory networks from time-stamped single cell transcriptional expression profiles Nan Papili Gao|Minhaz S.M. Ud-Dean|Rudiyanto Gunawan ETH Zurich;|Eberhard Karls University Tuebingen
http://dx.doi.org/10.1101/089268 2016-11-23 Evolutionary Biology CC BY-NC-ND Adaptive mutations in RNA polymerase and the transcriptional terminator Rho have similar effects on Escherichia coli gene expression Andrea Gonzalez-Gonzalez|Alejandra Rodriguez-Verdugo|Shaun Hug|Jagdish Suresh Patel|Brandon Gaut University of Idaho;|ETH Zurich;|University of California, Irvine;|UC Irvine
http://dx.doi.org/10.1101/089284 2016-11-23 Biophysics CC BY-NC Probing cytoskeletal modulation of passive and active intracellular dynamics using nanobody-functionalized quantum dots Eugene A Katrukha|Marina Mikhaylova|Hugo X van Brakel|Paul M van Bergen en Henegouwen|Anna Akhmanova|Casper C Hoogenraad|Lukas C Kapitein Utrecht University;|University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/086090 2016-11-23 Cell Biology Super-resolution microscopy of the β-carboxysome reveals a homogenous matrix Matthew J Niederhuber|Talley J Lambert|Clarence Yapp|Pamela A. Silver|Jessica K Polka Harvard Medical School
http://dx.doi.org/10.1101/069971 2016-11-23 Genetics CC BY-NC-ND Premature termination codons signaled targeted repair of frameshift mutation by endogenous RNA-directed gene editing Xiaolong Wang|Haibo Peng|Chunyan Li|Xuxiang Wang|Yalei Wang|Gang Chen|Jianye Zhang Ocean University of China
http://dx.doi.org/10.1101/089169 2016-11-24 Pharmacology and Toxicology CC BY-NC Analgesic effects of neurotensin agonists in a rat bone cancer pain model Louis Dore-Savard|Pascal Tetreault|Melisange Roux|Marylie Martel|Myriam Lemire|Karine Belleville|Nicolas Beaudet|Philippe Sarret Research Institute - McGill University Health Center;|University of Alberta;|Universite de Sherbrooke
http://dx.doi.org/10.1101/089409 2016-11-24 Systems Biology Knowledge Formalization and High-Throughput Data Visualization Using Signaling Network Maps Maria Kondratova|Emmanuel Barillot|Andrei Zinovyev|Inna Kuperstein Institut Curie
http://dx.doi.org/10.1101/089516 2016-11-25 Neuroscience CC BY-NC-ND Robust extraction of spatio-temporal patterns from resting state fMRI Katharina Glomb|Adrian Ponce-Alvarez|Matthieu Gilson|Petra Ritter|Gustavo Deco Universitat Pompeu Fabra;|Charite University Medicine
http://dx.doi.org/10.1101/089615 2016-11-25 Neuroscience CC BY-NC-ND The Semantics of Adjective Noun Phrases in the Human Brain Alona Fyshe|Gustavo Sudre|Leila Wehbe|Nicole Rafidi|Tom M Mitchell University of Victoria;|National Human Genome Research Institute, National Institutes of Health;|Helen Wills Neuroscience Institute, University of California, Berkeley;|Machine Learning Department, Carnegie Mellon University
http://dx.doi.org/10.1101/089417 2016-11-25 Bioinformatics CC BY-NC-ND Graph regularized, semi-supervised learning improves annotation of de novo transcriptomes Laraib I Malik|Shravya Thatipally|Nikhil Junneti|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/089565 2016-11-25 Neuroscience Coordinate Based Random Effect Size meta-analysis of neuroimaging studies Christopher Tench|Radu Tanasescu|William Cottam|Cris Constantinescu|Dorothee Auer University of Nottingham
http://dx.doi.org/10.1101/089383 2016-11-25 Genetics A genetic risk score to guide age-specific, personalized prostate cancer screening Tyler M. Seibert|Chun Chieh Fan|Yunpeng Wang|Verena Zuber|Roshan Karunamuni|J. Kellogg Parsons|Rosalind A. Eeles|Douglas F. Easton|Zsofia Kote-Jarai|Ali Amin Al Olama|Sara Benlloch Garcia|Kenneth Muir|Henrik Gronberg|Fredrik Wiklund|Markus Aly|Johanna Schleutker|Csilla Sipeky|Teuvo LJ Tammela|Brge G. Nordestgaard|Sune F. Nielsen|Maren Weischer|Rasmus Bisbjerg|M. Andreas Rder|Peter Iversen|Tim J. Key|Ruth C. Travis|David E. Neal|Jenny L. Donovan|Freddie C. Hamdy|Paul Pharoah|Nora Pashayan|Kay-Tee Khaw|Christiane Maier|Walther Vogel|Manuel Luedeke|Kathleen Herkommer|Adam S. Kibel|Cezary Cybulski|Dominika Wokolorczyk|Wojciech Kluzniak|Lisa Cannon-Albright|Hermann Brenner|Katarina Cuk|Kai-Uwe Saum|Jong Y. Park|Thomas A. Sellers|Chavdar Slavov|Radka Kaneva|Vanio Mitev|Jyotsna Batra|Judith A. Clements|Amanda Spurdle|Manuel R. Teixeira|Paula Paulo|Sofia Maia|Hardev Pandha|Agnieszka Michael|Andrzej Kierzek|David S. Karow|Ian G. Mills|Ole A. Andreassen|Anders M. Dale University of California, San Diego, USA;|University of Oslo, Norway;|The Institute of Cancer Research, London, UK;|University of Cambridge, UK;|University of Manchester, UK;|Karolinska Institutet, Sweden;|University of Turku, Finland;|University of Tampere, Finland;|University of Copenhagen, Denmark;|Copenhagen University Hospital, Denmark;|University of Oxford, UK;|University of Bristol, UK;|University College London, UK;|University Hospital of Ulm, Germany;|Klinikum rechts der Isar der Technischen Universitaet Muenchen, Germany;|Brigham and Women's Hospital and Dana-Farber Cancer Institute, USA;|Pomeranian Medical University, Poland;|University of Utah, USA;|German Cancer Research Center, Germany;|Moffitt Cancer Center, USA;|Medical University, Bulgaria;|Queensland University of Technology, Australia;|Portuguese Oncology Institute, Porto, Portugal;|The University of Surrey, Guildford, UK;|University of San Diego, USA
http://dx.doi.org/10.1101/089441 2016-11-25 Bioinformatics DNA sequence+shape kernel enables alignment-free modeling of transcription factor binding Wenxiu Ma|Lin Yang|Remo Rohs|William S Noble University of California Riverside;|University of Southern California;|University of Washington
http://dx.doi.org/10.1101/089508 2016-11-25 Cancer Biology Relationships between chromosomal aberration breakpoints and chromosomal contacts: biophysical modeling study Yuri Eidelman|Alina Aleshchenko|Sergey Andreev Institute of Biochemical Physics (Russian Academy of Sciences);|Institute of Biochemical Physics (Russian Academy of Sciences); National Research Nuclear University
http://dx.doi.org/10.1101/088815 2016-11-25 Genomics CC BY-NC-ND Genome-Wide Association Study Reveals First Locus for Anorexia Nervosa and Metabolic Correlations Laramie Duncan|Zeynep Yilmaz|Raymond Walters|Jackie Goldstein|Verneri Antilla|Brendan Bulik-Sullivan|Stephan Ripke|Roger Adan|Lars Alfredsson|Tetsuya Ando|Ole Andreassen|Harald Aschauer|Jessica Baker|Jeffrey Barrett|Vladimir Bencko|Andrew Bergen|Wade Berrettini|Andreas Birgegard|Claudette Boni|Vesna Boraska Perica|Harry Brandt|Roland Bughardt|Laura Carlberg|Matteo Cassina|Carolyn Cesta|Sven Cichon|Maurizio Clementi|Sarah Cohen-Woods|Joni Coleman|Roger Cone|Philippe Courtet|Steven Crawford|Scott Crow|Jim Crowley|Unna Danner|Oliver Davis|Martia de Zaan|George Dedoussis|Daniela Degortes|Janiece DeSocio|Danielle Dick|Dimitris Dikeos|Christian Dina|Bo Ding|Monika Dmitrzak-Weglarz|Elisa Docampo|Karin Egberts|Stefan Ehrlich|Georgia Escaramis|Tonu Esko|Thomas Espeseth|Xavier Estivill|Angela Favaro|Fernando Fernandez-Aranda|Manfred Fichter|Chris Finan|Krista Fischer|James Floyd|Manuel Focker|Lenka Foretova|Monica Forzan|Caroline Fox|Christopher Franklin|Valerie Bagorieau|Steven Gallinger|Giovanni Gambaro|Helena Gaspar|Ina Giegling|Fragiskos Gonidakis|Philip Gorwood|Monica Gratacos|Sebastien Guillaume|Yiran Guo|Hakon Hakonarson|Katherine Halmi|Rebecca Harrison|Konstantinos Hatzikotoulas|Hoanna Hauser|Johannes Hebebrand|Sietske Helder|Judith Hendriks|Stefan Herms|Beate Herpertz-Dahlmann|Wolfgang Herzog|Christopher Hilliard|Laura Huckins|James Hudson|Julia Huemer|Hartmut Imgart|Hidetoshi Inoko|Sigrid Jall|Vladimir Janout|Susana Jimenez-Murcia|Susana Jimenez-Murcia|Jenny Jordan|Antonio Julia|Anders Jureus|Gursharan Kalsi|Allan Kaplan|Allan Kaplan|Leila Karhunen|Andreas Karwautz|Martien Kas|Walter Kaye|Martin Kennedy|James Kennedy|Anna Keski-Rahkonen|Kirsty Kiezebrink|Youl-Ri Kim|Lars Klareskog|Kelly Klump|Gun Peggy Knudsen|Bobby Koeleman|Doris Koubek|Maria La Via|Mikael Landen|Stephanie Le Hellard|Robert Levitan|Dong Li|Paul Lichtenstein|Lisa Lilenfeld|Jolanta Lissowska|Astri Lundervold|Pierre Magistretti|Mario Maj|Katrin Mannik|Katrin Mannik|Debora Kaminska|Nicholas Martin|Morten Mattingsdal|Sara McDevitt|Peter McGuffin|Elisabeth Merl|Andres Metspalu|Ingrid Meulenbelt|Nadia Micali|James Mitchell|Karen Mitchell|Palmiero Monteleone|Alessio Maria Monteleone|Grant Montgomery|Preben Mortensen|Melissa Munn-Chernoff|Timo Muller|Benedetta Nacmias|Marie Navratilova|Ida Nilsson|Claes Norring|Ioanna Ntalla|Roel Ophoff|Julie O'Toole|Aarno Palotie|Jacques Pantel|Hana Papezova|Richard Parker|Dalila Pinto|Raquel Rabionet|Anu Raevuori|Andrzej Rajewski|Nicolas Ramoz|N. William Rayner|Ted Reichborn-Kjennerud|Valdo Ricca|Samuli Ripatti|Franziska Ritschel|Marion Roberts|Alessandro Rotondo|Dan Rujescu|Filip Rybakowski|Paolo Santonastaso|Andre Scherag|Stephen Scherer|Ulrike Schmidt|Nicholas Schork|Alexandra Schosser|Jochen Seitz|Lenka Slachtova|Robert Sladek|P. Eline Slagboom|Margarita Slof-Op 't Landt|Agnieszka Slopien|Agnieszka Slopien|Nicole Soranzo|Sandro Sorbi|Lorraine Southam|Vidar Steen|Vidar Steen|Michael Strober|Jin Szatkiewicz|Neonila Szeszenia-Dabrowska|Ioanna Tachmazidou|Elena Tenconi|Alfonso Tortorella|Federica Tozzi|Janet Treasure|Matthias Tschop|Artemis Tsitsika|Konstantinos Tziouvas|Annemarie van Elburg|Eric van Furth|Tracey Wade|Gudrun Wagner|Esther Walton|Hunna Watson|H-Erich Wichmann|Elisabeth Widen|D. Blake Woodside|Jack Yanovski|Shuyang Yao|Stephanie Zerwas|Stephan Zipfel|Laura Thornton|Anke Hinney|Mark Daly|Patrick Sullivan|Eleftheria Zeggini|Gerome Breen|Cynthia Bulik Stanford University, Broad Institute of MIT and Harvard, Stanford UnivMassachusetts General Hospital;|University of North Carolina at Chapel Hill;|Broad Institute of MIT and Harvard, Massachusetts General Hospital;|Charite Universtatsmedizin Berlin;|University Medical Center Utrecht, Altrecht Eating Disorders Rintveld;|Karolinska Institutet;|National Institute of Mental Health;|University of Oslo, Oslo University Hospital;|Biopsychosocial Corporation;|Sanger Institute;|Charles University, First Faculty of Medicine, Institute of Hygiene and Epidemiology;|Biorealm Research, Culver City, CA;|Perelman School of Medicine at the University of Pennsylvania;|Karolinska Institutet, Stockholm Health Care Services;|Centre of Psychiatry and Neuroscience;|Wellcome Trust Sanger Institute, University of Split School of Medicine;|The Center for Eating Disorders at Sheppard Pratt, Baltimore;|Klinikum Frankfurt/Oder;|Medical University of Vienna;|University of Padova;|University Hospital Basel;|Finders University;|Kings College London;|Vanderbilt University School of Medicine;|CHRU Montpellier, University of Montpellier;|The Center for Eating Disorders at Sheppard Pratt;|University of Minnesota;|University of North Carolina at Chapel Hill, Karolinska Institutet;|Altrecht Eating Disorders Rintveld;|University of Bristol;|Hannover Medical School;|Harokopio University;|Seattle University College of Nursing;|Virginia Commonwealth University;|Athens University Medical School;|University of Nantes;|University of California at San Diego;|Poznan University of Medical Sciences;|The Barcelona Institute of Science and Technology, Universitat Pompeu Fabra, CIBER Epidemiologia;|University Hospital of Wurzburg;|Division of Psychological and Social Medicine and Developmental Neurosciences, Faculty of Medicine;|The Barcelona Institute of Science and Technology, Universitat Pompeu Fabra, Centro de Investigacio;|University of Tartu, Broad Institute;|Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology;|University Hospital of Bellvitge-IDIBELL, University of Barcelona;|Ludwig-Maximilians-University Munich, Schon Klinik Roseneck;|Wellcome Trust Sanger Institute;|University of Tartu;|Wellcome Trust Sanger Institute, Genomics PLC;|Dept of Child and Adolescent Psychiatry, University Hospital Essen, University of Duisburg-Essen;|Masaryk Memorial Cancer Institute;|University Hospital of Padova;|National Heart Lung and Blood Institute;|International Agency for Research on Cancer;|University of Toronto;|Columbus-Gemelli University Hospital;|Martin Luther University of Halle-Wittenberg;|National and Kapodistrian University of Athens;|INSERM U984, Sainte-Anne Hospital, University of Paris-Descartes;|The Barcelona Institute of Science and Technology;|Childrens Hospital of Philadelphia;|Childrens Hospital of Philadelphia, University of Pennsylvania;|Weill Cornell Medical College;|Zorg op Orde, Kings College London;|University Utrecht;|University of Basel;|RWTH Aachen;|Heidelberg University;|Icahn School of Medicine, Wellcome Trust Sanger Institute;|McLean Hospital/Harvard Medical School;|Parkland-Klinik;|Tokai University School of Medicine;|Helmholtz Centre Munich - German Research Center for Environmental Healt;|Ostrava University;|University of Otago, Canterbury District Health Board;|Vall dHebron Hospital Research Institute;|Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden;|University of Eastern Finland;|University of Groningen, University Medical Center Utrecht;|University of California, San Diego;|University of Otago;|University of Helsinki;|University of Aberdeen;|Inje University;|Michigan State University;|Norwegian Institute of Public Health;|University Medical Center Utrecht;|Karolinska Institutet, Gothenburg University;|University of Bergen, Haukeland University Hospital;|American School of Professional Psychology at Argosy University, Washington DC;|M. Sklodowska-Curie Cancer Center and Institute of Oncology;|University of Bergen, K. G. Jebsen Center for Neuropsychiatric Disorders;|Brain Mind Institute, EPFL, Center for Psychiatric Neuroscience, Department of Psychiatry - CHUV/UNI;|University of Tartu, University of Lausanne;|Charles University;|QIMR Berghofer Medical Research Institute;|Oslo University;|University College Cork, Health Service Executive South;|Leiden University Medical Centre;|Icahn School of Medicine, University College London;|University of North Dakota School of Medicine and Health Sciences;|VA Boston Healthcare System, Boston University School of Medicine;|University of Salerno, University of Naples SUN;|University of Naples SUN;|University of Queensland;|Aarhus University;|Helmholtz Centre Munich - German Research Center for Environmental Health;|University of Florence;|Department of Molecular Medicine and Surgery, Karolinska Institutet, Center for Molecular Medicine;|University of California Los Angeles, University Medical Center Utrecht;|Kartini Clinic;|Massachusetts General Hospital, Broad Institute of MIT and Harvard, Institute for Molecular Medicine;|Centre de Psychiatrie et Neurosciences - Inserm U894;|Icahn School of Medicine;|University of Helsinki, Helsinki University Central Hospital, University of Turku;|Wellcome Trust Sanger Institute, Oxford Centre for Diabetes, Endocrinology and Metabolism;|Norwegian Institute of Public Health, University of Oslo;|University of Pisa;|Martin Luther University of Halle-Wittenberg, Ludwig-Maximilians-University Munich;|Institute of Psychiatry and Neurology, University of Social Sciences and Humanities;|Jena University Hospital;|The Hospital for Sick Children, University of Toronto;|J. Craig Venter Institute;|McGill University, Genome Quebec Innovation Centre;|Rivierduinen Eating Disorders Ursula, Leiden University Medical Centre;|Uniwersytet Medyczny im. Karola Marcinkowskiego;|Human Genetics, Wellcome Trust Sanger Institute, Genome Campus, Hinxton, CB10 1HH;|University of Florence, IRCSS Fondazione Don Gnocchi;|Wellcome Trust Sanger Institute, Wellcome Trust Centre for Human Genetics;|University of California, Los Angeles;|Nofer Institute of Occupational Medicine, Department of Environmental Epidemiology;|University of Naples SUN, University of Perugia;|University of Cyprus;|University of Athens P. & A. Kyriakou Childrens Hospital;|P. & A. Kyriakou Childrens Hospital, PICU;|Center for Eating Disorders Rintveld, University of Utrecht;|Rivierduinen Eating Disorders Ursula, Leiden University Medical Center;|Flinders University;|Division of Psychological and Social Medicine and Developmental Neurosciences, Faculty of Medicine,;|University of North Carolina at Chapel Hill; School of Paediatrics and Child Health, Faculty of Medi;|Institute for Molecular Medicine;|University of Toronto, Toronto General Hospital;|National Institutes of Health;|Karolinksa Institutet;|University Medical Hospital Tuebingen;|Department of Child and Adolescent Psychiatry, University Hospital Essen, University of Duisburg-Ess
http://dx.doi.org/10.1101/089649 2016-11-25 Scientific Communication and Education Statistical Quality Scale 6 (SQS-6) Jose F de Morais|Gilmar F do Prado|Gecilmar P Borges Universidade Federal de Uberlandia;|Universidade Federal de Sao Paulo
http://dx.doi.org/10.1101/089425 2016-11-25 Neuroscience CC BY-NC-ND Prestimulus alpha-band power biases visual discrimination confidence, but not accuracy Jason Samaha|Luca Iemi|Bradley Postle University of Wisconsin-Madison;|Berlin School of Mind and Brain, Humboldt-Universitat zu Berlin, Germany
http://dx.doi.org/10.1101/089599 2016-11-25 Microbiology CC BY-NC-ND Kinetics of multi-substrate in Beauveria bassiana JUCHE22 Sarangam Majumdar|Subhoshmita Mondal Department of Mathematics, Universitat Hamburg, Bundesstrae, 55 20146 Hamburg;|Department of Chemical Engineering, Jadavpur University, Kolkata 700032, India
http://dx.doi.org/10.1101/089466 2016-11-25 Genomics Tracing the biogeographical origin of South Asian populations using DNA SatNav Ranajit Das|Priyanka Upadhyai Manipal University;|Kasturba Medical College, Manipal
http://dx.doi.org/10.1101/089755 2016-11-25 Cancer Biology Physical models of spatial genome organization Svetlana Slanina|Alina Aleshchenko|Yuri Eidelman|Sergey Andreev Institute of Biochemical Physics (Russian Academy of Sciences);|Institute of Biochemical Physics (Russian Academy of Sciences); National Research Nuclear University
http://dx.doi.org/10.1101/089680 2016-11-25 Evolutionary Biology CC BY-NC-ND Biased evolutionary inferences from bulk tumor samples Joao M Alves|Tamara Prieto|David Posada University of Vigo
http://dx.doi.org/10.1101/089391 2016-11-25 Bioinformatics INFERENCE OF CELL TYPE COMPOSITION FROM HUMAN BRAIN TRANSCRIPTOMIC DATASETS ILLUMINATES THE EFFECTS OF AGE, MANNER OF DEATH, DISSECTION, AND PSYCHIATRIC DIAGNOSIS Megan Hastings Hagenauer|Jun Z Li|David M Walsh|Marquis P Vawter|Robert C Thompson|Cortney A Turner|William E Bunney|Richard M. Myers|Jack D. Barchas|Alan F. Schatzberg|Stanley J. Watson|Huda Akil University of Michigan;|University of California-Irvine;|HudsonAlpha Institute for Biotechnology;|Weill Cornell Medical College;|Stanford University
http://dx.doi.org/10.1101/089490 2016-11-25 Scientific Communication and Education CC BY-NC-ND Can paid reviews promote scientific quality and offer novel career perspectives for young scientists? Christian Wurzbacher|Hans-Peter Grossart|Erik Kristiansson|Henrik R Nilsson|Martin Unterseher University of Gothenburg;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries;|Chalmers University of Technology;|Ernst-Moritz-Arndt University Greifswald
http://dx.doi.org/10.1101/089607 2016-11-25 Biochemistry CC BY-NC Towards new cholera prophylactics and treatment: Crystal structures of bacterial enterotoxins in complex with GM1 mimics Julie E Heggelund|Alasdair Mackenzie|Tobias Martinsen|Pavel Cheshev|Anna Bernardi|Ute Krengel University of Oslo;|Alere Technologies AS;|Universita degli Studi di Milano
http://dx.doi.org/10.1101/089482 2016-11-25 Biochemistry CC BY-NC-ND Gluten-Free Beer via Hydrodynamic Cavitation Assisted Brewing of Barley Malts Lorenzo Albanese|Rosaria Ciriminna|Francesco Meneguzzo|Mario Pagliaro CNR, IBIMET;|CNR, ISMN;|CNR
http://dx.doi.org/10.1101/089359 2016-11-24 Bioinformatics CC BY The Image Data Resource: A Scalable Platform for Biological Image Data Access, Integration, and Dissemination Eleanor Williams|Josh Moore|Simon W Li|Gabriella Rustici|Aleksandra Tarkowska|Anatole Chessel|Simone Leo|Balint Antal|Richard K Ferguson|Ugis Sarkans|Alvis Brazma|Rafael E Carazo-Salas|Jason Swedlow University of Dundee;|University of Cambridge;|EMBL-EBI
http://dx.doi.org/10.1101/089839 2016-11-26 Genomics CC BY An interaction map of circulating metabolites, immune gene networks and their genetic regulation Artika P Nath|Scott C Ritchie|Sean G Byars|Liam G Fearnley|Aki S Havulinna|Anni Joensuu|Antti J Kangas|Pasi Soininen|Annika Wennerstrom|Lili Milani|Andres Metspalu|Satu Mannisto|Peter Wurtz|Johannes Kettunen|Emma Raitoharju|Mika Kahonen|Markus Juonala|Aarno Palotie|Mika Ala-Korpela|Samuli Ripatti|Terho Lehtimaki|Gad Abraham|Olli Raitakari|Veikko Salomaa|Markus Perola|Michael Inouye Centre for Systems Genomics, University of Melbourne;|National Institute for Health and Welfare, Helsinki 00271, Finland;|Computational Medicine, Faculty of Medicine, University of Oulu, Oulu 90014, Finland;|University of Tartu, Estonian Genome Center, Tartu 51010, Estonia;|Department of Clinical Chemistry, Fimlab Laboratories, School of Medicine, University of Tampere;|Dept of Clinical Physiology, University of Tampere and Tampere University Hospital;|Department of Medicine, University of Turku and Division of Medicine, Turku University Hospital;|Institute for Molecular Medicine Finland, University of Helsinki, Helsinki 00014, Finland;|Department of Clinical Physiology and Nuclear Medicine, Turku University Hospital, Turku
http://dx.doi.org/10.1101/089706 2016-11-26 Biochemistry CC BY-NC-ND PolyCut: a computer programme for assignments of MSn signals of metallo-biomolecules by considering the entire isotope patterns Zhenyu Shi|Chak Ming Sze University of Melbourne
http://dx.doi.org/10.1101/089938 2016-11-26 Molecular Biology Structural and Functional Characterization of the Alanine Racemase from Streptomyces coelicolor A3(2) Raffaella Tassoni|Lizah van der Aart|Marcellus Ubbink|Gilles P. van Wezel|Navraj Pannu Leiden University
http://dx.doi.org/10.1101/089813 2016-11-26 Bioinformatics CC BY-NC-ND Baseline mutation profiling of 1134 samples of circulating cell-free DNA and blood cells from healthy individuals Ligang Xia|Zhoufang Li|Bo Zhou|Geng Tian|Lidong Zeng|Hongyu Dai|Fang Deng|Yuancai Xie|Shixin Lu|Xiaohua Li|Chaoyu Liu|Weiren Huang|Jiankui He Department of Gastrointestinal Surgery, Shenzhen Peoples Hospital;|South University of Science and Technology of China;|Shenzhen Second Peoples Hospital;|Direct Genomics Co., Ltd.;|Shenzhen GeneHealth Co., Ltd.;|Anhui Provincial Cancer Hospital;|Peking University Shenzhen Hospital
http://dx.doi.org/10.1101/089920 2016-11-26 Microbiology Hyphal aggregation and surface attachment of Streptomyces is governed by extracellular poly-β-1,6-N-acetylglucosamine Dino van Dissel|Joost Willemse|Boris Zacchetti|Dennis Claessen|Gerald Pier|Gilles van Wezel Leiden University;|Harvard Medical School
http://dx.doi.org/10.1101/089730 2016-11-26 Systems Biology CC BY-NC Investigating side effect modules in the interactome and their use in drug adverse effect discovery Emre Guney IRB Barcelona
http://dx.doi.org/10.1101/089847 2016-11-26 Neuroscience fMRI Correlates of Reaction Time Prolongation during intentional False Responding; an inter-individual difference study Morteza Pishnamazi|Maral Yeganeh Doost|Habib Ganjgahi|Hamed Ekhtiari|Mohammad Ali Oghabian Tehran University of Medical Sciences;|Universite catholique de Louvain;|University of Warwick Coventry
http://dx.doi.org/10.1101/089904 2016-11-26 Biochemistry CC BY-ND Metabolome Identification by Systematic Stable Isotope Labeling Experiments and False Discovery Analysis with a Target-Decoy Strategy Drew R. Jones|Xusheng Wang|Tim Shaw|Ji-Hoon Cho|Ping-Chung Chen|Kaushik Kumar Dey|Suiping Zhou|Yuxin Li|Nam Chul Kim|J. Paul Taylor|Udhghatri Kolli|Jiaxu Li|Junmin Peng St. Jude Children's Research Hospital;|Mississippi State University
http://dx.doi.org/10.1101/089797 2016-11-26 Microbiology Global-scale structure of the eelgrass microbiome Ashkaan K Fahimipour|Melissa R Kardish|Jonathan A Eisen|Jenna M Lang|Jessica L Green|John J Stachowicz University of Oregon;|University of California, Davis
http://dx.doi.org/10.1101/089664 2016-11-26 Synthetic Biology Heat-stable preservation of protein expression systems for portable therapeutics production David Karig|Seneca Bessling|Peter Thielen|Sherry Zhang|Joshua Wolfe Johns Hopkins University Applied Physics Laboratory
http://dx.doi.org/10.1101/089631 2016-11-26 Genomics CC BY-ND Enhancing Knowledge Discovery from Cancer Genomics Data with Galaxy Marco A Albuquerque|Bruno M Grande|Elie Ritch|Selin Jessa|Martin I Krzywinski|Jasleen Grewal|Sohrab Shah|Paul Boutros|Ryan Morin Simon Fraser University;|Genome Sciences Centre;|BC Cancer Agency;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/089805 2016-11-26 Evolutionary Biology Time-dependent-asymmetric-linear-parsimonious ancestral state reconstruction Gilles Didier CNRS
http://dx.doi.org/10.1101/089714 2016-11-26 Bioinformatics CC BY-NC-ND FlyLimbTracker: an active contour based approach for leg segment tracking in unmarked, freely behaving Drosophila Virginie Uhlmann|Pavan Ramdya|Ricard Delgado-Gonzalo|Richard Benton|Michael Unser Ecole Polytechnique Federale de Lausanne;|California Institute of Technology;|Centre Suisse d Electronique et Microtechnique (CSEM);|University of Lausanne
http://dx.doi.org/10.1101/089821 2016-11-26 Molecular Biology CC BY Locus-specific ChIP combined with NGS analysis reveals genomic regulatory regions that physically interact with the Pax5 promoter in a chicken B cell line Toshitsugu Fujita|Fusako Kitaura|Miyuki Yuno|Yutaka Suzuki|Sumio Sugano|Hodaka Fujii Osaka University;|The University of Tokyo
http://dx.doi.org/10.1101/089623 2016-11-26 Genetics CC BY-NC-ND Inference of candidate germline mutator loci in humans from genome-wide haplotype data Cathal Seoighe|Aylwyn Scally National University of Ireland, Galway;|University of Cambridge
http://dx.doi.org/10.1101/089581 2016-11-26 Molecular Biology CC BY-NC Structural reorganization of the chromatin remodeling enzyme Chd1 upon engagement with nucleosomes. Ramasubramanian Sundaramoorthy|Amanda L Hughes|Vijender Singh|Nicola Wiechens|Daniel P Ryan|Hassane El-Mkami|Maxim Petoukhov|Dmitri I Svergun|Barbara Treuutlein|Monika Fischer|Jens Michaelis|Bettina Bottcher|David G Norman|Tom Owen-Hughes University of Dundee;|Univesrity of Dundee;|The Australian National University;|University of St Andrews;|European Molecular Biology Laboratory;|European Molecular Biology Organisation;|Max Planck Institute for Evolutionary Anthropology;|University of Ulm;|University of Wuerzburg
http://dx.doi.org/10.1101/089276 2016-11-26 Evolutionary Biology CC BY-NC-ND Inference of evolutionary jumps in large phylogenies using Levy processes Pablo Duchen|Christoph Leuenberger|Sandor M Szilagyi|Luke Harmon|Jonathan Eastman|Manuel Schweizer|Daniel Wegmann Department of Biology, University of Fribourg;|Department of Mathematics, University of Fribourg;|Department of Informatics, Petru Maior University;|Department of Biological Sciences, University of Idaho;|Bern Natural History Museum;|University of Fribourg
http://dx.doi.org/10.1101/089987 2016-11-27 Evolutionary Biology Testing the neutral hypothesis of phenotypic evolution Wei-Chin Ho|Yoshikazu Ohya|Jianzhi Zhang University of Michigan;|University of Tokyo
http://dx.doi.org/10.1101/090001 2016-11-27 Genomics CC BY-NC-ND HI-C 2.0: AN OPTIMIZED HI-C PROCEDURE FOR HIGH-RESOLUTION GENOME-WIDE MAPPING OF CHROMOSOME CONFORMATION Houda Belaghzal|Job Dekker|Johan H. Gibcus University of Massachusetts Medical School;|Howard Hughes Medical Institute, University of Massachusetts Medical School
http://dx.doi.org/10.1101/089961 2016-11-27 Microbiology Genome sequencing and analysis of the first spontaneous Nanosilver resistant bacterium Proteus mirabilis strain SCDR1 Amr T. M. Saeb|Khalid Al-Rubeaan|Mohamed Abouelhoda|Manojkumar Selvaraju|Hamsa T. Tayeb King Saud University;|King Faisal Specialist Hospital and Research Center;|Saudi Human Genome Project, King Abdulaziz City for Science and Technology
http://dx.doi.org/10.1101/089912 2016-11-27 Neuroscience CC BY-NC-ND Electrical Stimulus Artifact Cancellation and Neural Spike Detection on Large Multi-Electrode Arrays Gonzalo E Mena|Lauren E Grosberg|Pawel Hottowy|Alan Litke|John Cunningham|EJ Chichilnisky|Liam Paninski Columbia University;|Stanford University;|AGH University of Science and Technology;|University of California, Santa Cruz;|Columbia Univeristy
http://dx.doi.org/10.1101/090027 2016-11-27 Bioinformatics Knowledge-Guided Prioritization of Genes Determinant of Drug Response using ProGENI Amin Emad|Junmei Cairns|Krishna R. Kalari|Liewei Wang|Saurabh Sinha University of Illinois at Urbana-Champaign;|Mayo Clinic
http://dx.doi.org/10.1101/089946 2016-11-27 Synthetic Biology CC BY-NC-ND Retargeting: an unrecognized consideration in endonuclease-based gene drive biology Andrew M Scharenberg|Barry L Stoddard|Raymond J Monnat|Anthony Nolan University of Washington, Seattle Children's Research Institute;|Fred Hutchinson Cancer Research Center;|University of Washington;|Imperial College
http://dx.doi.org/10.1101/089979 2016-11-27 Neuroscience Distinct cAMP signaling modalities mediate behavioral flexibility and consolidation of social status in Drosophila aggression. Nitin Singh Chouhan|Krithika Mohan|Aurnab Ghose Indian Institute of Science Education and Research (IISER) Pune;|Indian Institute of Science Education and Research (IISER), Pune
http://dx.doi.org/10.1101/089771 2016-11-27 Ecology CC BY Ecological Interactions and the Netflix Problem Philippe Desjardins-Proulx|Idaline Laigle|Timothee Poisot|Dominique Gravel Universite de Sherbrooke;|Universite de Montreal
http://dx.doi.org/10.1101/090084 2016-11-28 Evolutionary Biology CC BY Soft sweeps are the dominant mode of adaptation in the human genome Daniel R. Schrider|Andrew D. Kern Rutgers University
http://dx.doi.org/10.1101/090209 2016-11-28 Neuroscience CC BY-NC-ND Behavioral evidence for feedback gain control by the inhibitory microcircuit of the substantia nigra Jennifer Brown|Kathleen A Martin|Joshua Dudman Janelia Research Campus of HHMI
http://dx.doi.org/10.1101/090142 2016-11-28 Cell Biology CC BY-NC-ND Sphingolipid metabolic flow controls phosphoinositide turnover at the trans Golgi network Serena Capasso|Lucia Sticco|Riccardo Rizzo|Marinella Pirozzi|Domenico Russo|Nina Dathan|Felix Campelo|Josse van Galen|Angelika Hausser|Vivek Malhotra|Seetharaman Parashuraman|Alberto Luini|Giovanni D'Angelo National Research Council of Italy Institute of Protein Biochemistry;|ICFO-The Institute of Photonic Sciences Av. Carl Friedrich Gauss;|ICFO-Institut de Ciencies Fotoniques, The Barcelona Institute of Science and Technology;|University of Stuttgart, Institute of Cell Biology and Immunology;|Centre for Genomic Regulation, The Barcelona Institute of Science and Technology
http://dx.doi.org/10.1101/090134 2016-11-28 Cancer Biology CC BY Chemotherapy weakly contributes to predicted neoantigen expression in ovarian cancer Timothy O'Donnell|Elizabeth L. Christie|Jacqueline Buros|Bulent Arman Aksoy|David D. L. Bowtell|Alexandra Snyder Charen|Jeffrey Hammerbacher Mount Sinai School of Medicine;|Peter MacCallum Cancer Centre;|Memorial Sloan Kettering Cancer Center, Weill Cornell Medical College
http://dx.doi.org/10.1101/089995 2016-11-28 Evolutionary Biology Intra- and inter-specific variations of gene expression levels in yeast are largely neutral Jian-Rong Yang|Calum Maclean|Chungoo Park|Huabin Zhao|Jianzhi Zhang University of Michigan
http://dx.doi.org/10.1101/090175 2016-11-28 Neuroscience Retrotransposon Activation Contributes to Neurodegeneration in a Drosophila TDP-43 Model of ALS. Lisa Krug|Nabanita Chatterjee|Rebeca Borges-Monroy|Stephen Hearn|Wen-Wei Liao|Kathleen Morrill|Lisa Prazak|Yung-Heng Chang|Richard M Keegan|Nikolay Rozhkov|Delphine Theodorou|Molly Hammell|Josh Dubnau Watson School of Biological Sciences, Cold Spring Harbor Lab;|Cold Spring Harbor Lab;|Farmingdale State College, Farmingdale, NY 11735;|Stony Brook School of Medicine;|Stony Brook University
http://dx.doi.org/10.1101/090035 2016-11-28 Ecology CC BY-NC-ND The Global Avian Invasions Atlas - A database of alien bird distributions worldwide Ellie E Dyer|David W Redding|Tim M Blackburn University College London
http://dx.doi.org/10.1101/090225 2016-11-28 Ecology CC BY-NC-ND Seasonal succession influences the functioning of a host-associated microbial food web David W Armitage University of Notre Dame
http://dx.doi.org/10.1101/090183 2016-11-28 Genomics CC BY-NC-ND Retrotransposons are specified as DNA replication origins in the gene-poor regions of Arabidopsis heterochromatin Zaida Vergara|Joana Sequeira-Mendes|Jordi Morata|Elizabeth Henaff|Ramon Peiro|Celina Costas|Josep M Casacuberta|Crisanto Gutierrez Centro de Biología Molecular Severo Ochoa, CSIC-UAM;|Center for Research in Agricultural Genomics
http://dx.doi.org/10.1101/090191 2016-11-28 Evolutionary Biology CC BY-NC-ND The natural selection of metabolism explains curvature in allometric scaling Lars Witting Greenland Institute of Natural Resources
http://dx.doi.org/10.1101/090167 2016-11-28 Genomics CC BY-NC-ND SCnorm: A quantile-regression based approach for robust normalization of single-cell RNA-seq data Rhonda Bacher|Li-Fang Chu|Ning Leng|Audrey P. Gasch|James A. Thomson|Ron M. Stewart|Michael Newton|Christina Kendziorski University of Wisconsin-Madison;|Morgridge Institute for Research
http://dx.doi.org/10.1101/090092 2016-11-28 Neuroscience CC BY-NC Hydrogen Bond Networks and Hydrophobic Effects in the Amyloid β30-35 Chain in Water: A Molecular Dynamics Study Kwang Hyok Jong|Luca Grisanti|Ali Hassanali SISSA-International School for Advanced Studies;|International Centre for Theoretical Physics
http://dx.doi.org/10.1101/090076 2016-11-28 Epidemiology CC BY-NC-ND Structure of general-population antibody titer distributions to influenza A virus Nguyen Thi Duy Nhat|Stacy Todd|Erwin de Bruin|Tran Thi Nhu Thao|Nguyen Ha Thao Vy|Tran Minh Quan|Dao Nguyen Vinh|Janko van Beek|Pham Hong Anh|Ha Minh Lam|Nguyen Thanh Hung|Nguyen Thi Le Thanh|Huynh Le Anh Huy|Vo Thi Hong Ha|Stephen Baker|Guy E Thwaites|Nguyen Thi Nam Lien|Tran Thi Kim Hong|Jeremy Farrar|Cameron P Simmons|Nguyen Van Vinh Chau|Marion Koopmans|Maciej F Boni Oxford University Clinical Research Unit;|Liverpool School of Tropical Medicine;|Erasmus Medical Centre;|Dutch National Institute for Public Health and Environment;|Khanh Hoa Provincial Hospital;|Hue Provincial Hospital;|Dak Lak General Hospital;|Oxford University Clinical Research Unit, The Wellcome Trust;|University of Melbourne;|Hospital for Tropical Diseases
http://dx.doi.org/10.1101/088351 2016-11-28 Cell Biology TriPer, an optical probe tuned to the endoplasmic reticulum, tracks H2O2 consumption by glutathione Eduardo Pinho Melo|Carlos Lopes|Peter Gollwitzer|Stephan Lortz|Sigurd Lenzen|Ilir Mehmeti|Clemens F Kaminski|David Ron|Edward Avezov Center for Biomedical Research, Universidade do Algarve, Faro, Portugal;|University of Cambridge, Cambridge Institute for Medical Research;|Institute of Clinical Biochemistry, Hannover Medical School, Hannover 30625, Germany;|University of Cambridge, Department of Chemical Engineering and Biotechnology, Cambridge, UK
http://dx.doi.org/10.1101/090415 2016-11-29 Bioinformatics CC BY DMAP - Graphical representation of physical and genetic map correlation David Michael Alan Martin|Glenn Bryan University of Dundee;|James Hutton Institute
http://dx.doi.org/10.1101/090217 2016-11-29 Neuroscience CC BY Estimation of time-varying decision thresholds from the choice and reaction times without assumptions on the shape Yul Hyoung Ryul Kang Columbia University
http://dx.doi.org/10.1101/090449 2016-11-29 Plant Biology CC BY NLR signaling network mediates immunity to diverse plant pathogens Chih-Hang Wu|Ahmed Abd-El-Haliem|Tolga O. Bozkurt|Khaoula Belhaj|Ryohei Terauchi|Jack H. Vossen|Sophien Kamoun The Sainsbury Laboratory;|Wageningen University and Research;|Imperial College London;|Iwate Biotechnology Research Center
http://dx.doi.org/10.1101/090233 2016-11-29 Neuroscience CC BY Structural covariance networks across the lifespan, from 6-94 years of age Elizabeth DuPre|R. Nathan Spreng Cornell University
http://dx.doi.org/10.1101/090340 2016-11-29 Developmental Biology CC BY foxQ2 evolved a key role in anterior head and central brain patterning in protostomes Peter Kitzmann|Matthias Weisskopf|Magdalena Ines Schacht|Gregor Bucher Georg-August-University Goettingen;|Friedrich-Alexander-University Erlangen/Nuremberg
http://dx.doi.org/10.1101/090308 2016-11-29 Biophysics CC BY-NC-ND Voltage-dependent K+ Channels Improve the Energy Efficiency of Signalling in Blowfly Photoreceptors Francisco J H Heras|John Anderson|Simon B Laughlin|Jeremy E Niven University of Cambridge;|University of Sussex
http://dx.doi.org/10.1101/090357 2016-11-29 Biochemistry CC BY Evaluation of quantum dot conjugated antibodies for immunofluorescent labelling of cellular targets Jennifer Elizabeth Francis|David Mason|Raphael Levy University of Liverpool
http://dx.doi.org/10.1101/090332 2016-11-29 Bioinformatics SPRING: a kinetic interface for visualizing high dimensional single-cell expression data Caleb Weinreb|Samuel Wolock|Allon Klein Department of Systems Biology, Harvard Medical School
http://dx.doi.org/10.1101/083121 2016-11-29 Evolutionary Biology Genome-level parameters describe the pan-nuclear fractal nature of eukaryotic interphase chromosomal arrangement Sarosh N. Fatakia|Basuthkar J Rao Tata Institute of Fundamental Research;|Tata Institute of Fundamental Research (TIFR)
http://dx.doi.org/10.1101/089953 2016-11-29 Evolutionary Biology CC BY-NC-ND Temporal Genetic Dynamics of an Experimental, Biparental Field Population of Phytophthora capsici Maryn O. Carlson|Elodie Gazave|Michael A. Gore|Christine D. Smart Cornell University
http://dx.doi.org/10.1101/090126 2016-11-29 Evolutionary Biology CC BY-NC-ND The evolutionary history of bears is shaped by gene flow across species Vikas Kumar|Fritjof Lammers|Tobias Bidon|Markus Pfenninger|Lydia Kolter|Maria A Nilsson|Axel Janke Senckenberg Biodiversity and Climate Research Centre;|AG Zoologischer Garten Cologne
http://dx.doi.org/10.1101/090274 2016-11-28 Genomics CC BY-ND The accuracy and bias of single-step genomic prediction for populations under selection Wan-Ling Hsu|Dorian J Garrick|Rohan L Fernando Iowa State University, United States
http://dx.doi.org/10.1101/090258 2016-11-28 Evolutionary Biology CC BY-NC-ND Tuning the course of evolution on the biophysical fitness landscape of an RNA virus Assaf Rotem|Adrian Serohijos|Connie Chang|Joshua Wolfe|Audrey Fischer|Thomas Mehoke|Huidan Zhang|Ye Tao|Lloyd Ung|Jeong-Mo Choi|Abimbola Kolawole|Stephan Koehler|Susan Wu|Peter Thielen|Naiwen Cui|Plamen Demirev|Nicholas Giacobbi|Timothy Julian|Kellogg Schwab|Jeffrey Lin|Thomas Smith|James Pipas|Christiane Wobus|Andrew Feldman|David Weitz|Eugene Shakhnovich Harvard University;|University of Montreal;|Montana State University;|Johns Hopkins University APL;|University of Michigan-Ann Arbor;|Johns Hopkins University;|University of Pittsburgh;|Swiss Federal Institute of Aquatic Science and Technology;|University of Texas Medical Branch at Galveston;|University of Pittsburg;|Johns Hopkins Medicine
http://dx.doi.org/10.1101/088278 2016-11-28 Scientific Communication and Education CC BY-NC Ten simple rules for structuring papers Konrad P Kording|Brett Mensh Northwestern University;|optimize sciene
http://dx.doi.org/10.1101/090738 2016-11-30 CC BY-ND Shorter season options through transplanted fodder beet Edith N Khaembah|Shane Maley|Warrick Nelson The New Zealand Institute for Plant and Food Research Limited;|The New Zealand Institute for Plant and Food Ressearch Limited
http://dx.doi.org/10.1101/090704 2016-11-30 Genomics CC BY-NC-ND Accounting for GC-content bias reduces systematic errors and batch effects in ChIP-Seq peak callers Mingxiang Teng|Rafael A. Irizarry Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/090456 2016-11-30 Systems Biology CC BY MultiCellDS: a community-developed standard for curating microenvironment-dependent multicellular data Samuel H. Friedman|Alexander R.A. Anderson|David M. Bortz|Alexander G. Fletcher|Hermann B. Frieboes|Ahmadreza Ghaffarizadeh|David Robert Grimes|Andrea Hawkins-Daarud|Stefan Hoehme|Edwin F. Juarez|Carl Kesselman|Roeland Merks|Shannon M. Mumenthaler|Paul K. Newton|Kerri-Ann Norton|Rishi Rawat|Russell C. Rockne|Daniel Ruderman|Jacob Scott|Suzanne S. Sindi|Jessica L. Sparks|Kristin Swanson|David B. Agus|Paul Macklin University of Southern California;|Moffitt Cancer Center;|University of Colorado, Boulder;|University of Sheffield;|University of Louisville;|University of Oxford;|Mayo Clinic, Phoenix;|University of Leipzig;|Centrum Wiskunde & Informatics;|Johns Hopkins University;|City of Hope;|Cleveland Clinic;|University of California, Merced;|Miami University;|Mayo Clinic;|Indiana University
http://dx.doi.org/10.1101/090662 2016-11-30 Neuroscience CC BY-ND Recurring functional interactions predict network architecture of interictal and ictal states in neocortical epilepsy Ankit N Khambhati|Danielle S Bassett|Brian S Oommen|Stephanie H Chen|Timothy H Lucas|Kathryn A Davis|Brian Litt University of Pennsylvania
http://dx.doi.org/10.1101/090613 2016-11-30 Ecology Fine-scale variation in microclimate across an urban landscape changes the capacity of Aedes albopictus to vector arbovirus Courtney Murdock|Michelle V Evans|Taylor McClanahan|Kerri Miazgowicz|Blanka Tesla University of Georgia;|University of Arkansas Little Rock
http://dx.doi.org/10.1101/090555 2016-11-30 Neuroscience CC BY-NC-ND Temporal anticipation based on memory Andre M Cravo|Gustavo Rohenkohl|Karin M Santos|Anna Christina Nobre Universidade Federal do ABC;|Oxford Centre for Human Brain Activity, University of Oxford
http://dx.doi.org/10.1101/090654 2016-11-30 Animal Behavior and Cognition Confirmation bias in human reinforcement learning: evidence from counterfactual feedback processing Stefano Palminteri|Germain Lefebvre|Emma J Kilford|Sarah-Jayne Blakemore Laboratoire de Neurosciences Cognitives, Ecole Normale Superieure, Paris, FR.;|Institute of Cognitive Neuroscience, University College London, London, UK.
http://dx.doi.org/10.1101/090621 2016-11-30 Ecology CC BY-NC-ND I3S Classic and Insect Species Identification of Diptera and Hymenoptera (Mosquitoes and Bees). Nayna Vyas-Patel|John D Mumford Runnemede Bioscience;|Imperial College London
http://dx.doi.org/10.1101/090530 2016-11-30 Microbiology CC BY-NC-ND Clinical metagenomics of bone and joint infections: a proof of concept study Etienne Ruppe|Vladimir Lazarevic|Myriam Girard|William Mouton|Tristan Ferry|Frederic Laurent|Jacques Schrenzel Geneva University Hospital;|Hospices Civils de Lyon
http://dx.doi.org/10.1101/090506 2016-11-30 Bioinformatics MetaSRA: normalized sample-specific metadata for the Sequence Read Archive Matthew N. Bernstein|AnHai Doan|Colin N. Dewey University of Wisconsin - Madison
http://dx.doi.org/10.1101/090563 2016-11-30 Plant Biology CC BY-NC-ND Ubiquitylation activates a peptidase that promotes cleavage and destabilization of its activating E3 ligases and diverse growth regulatory proteins to limit cell proliferation in Arabidopsis Hui Dong|Jack Dumenil|Fu-Hao Lu|Li Na|Hannes Vanhaeren|Cristin Naumann|Maria Klecker|Rachel Prior|Caroline Smith|Neil McKenzie|Gerhard Saalbach|Liangliang Chen|Tian Xia|Nathalie Gonzalez|Mathilde Seguela|Dirk Inze|Nico Dissmeyer|Yunhai Li|Michael W Bevan John Innes Centre;|Institute of Genetics and Developmental Biology;|Dept of Plant Systems Biology;|Leibniz Institute of Plant Biology (IBP);|Leibniz Institute of Plant Biochemistry (IPB);|Institute of Genetics and Developmental Biology, Chinese Academy of Sciences;|Institut Jean-Pierre Bourgin;|Dept Plant Systems Biology
http://dx.doi.org/10.1101/090498 2016-11-30 Evolutionary Biology CC BY-NC-ND The effect of known mutator alleles in a cluster of clinical Saccharomyces cerevisiae strains Daniel A Skelly|Paul M Magwene|Brianna Meeks|Helen A Murphy The Jackson Laboratory;|Duke University;|The College of William and Mary
http://dx.doi.org/10.1101/090514 2016-11-30 Genetics CC BY-NC The NCA-1 ion channel functions downstream of Gq and Rho to regulate locomotion in C. elegans Irini Topalidou|Pin-An Chen|Kirsten Cooper|Shigeki Watanabe|Erik M. Jorgensen|Michael Ailion University of Washington, United States;|University of Utah, United States;|Johns Hopkins University, United States
http://dx.doi.org/10.1101/090605 2016-11-30 Bioinformatics CC BY-NC-ND A comparative microarray analysis identifies a conserved gene expression signature between airway injury and lung cancer Adam Giangreco UCL
http://dx.doi.org/10.1101/090068 2016-11-30 Cell Biology Glyceraldehyde-3-Phosphate Dehydrogenase and Seven in Absentia Homolog -1 Interactions in Mammalian Cells Visualized Using Proximity Ligation Assay Harkewal Singh|Christopher Melm MilliporeSigma
http://dx.doi.org/10.1101/090431 2016-11-30 Bioinformatics CC BY-NC Mindcontrol: A Web Application for Brain Segmentation Quality Control Anisha Keshavan|Esha Datta|Ian McDonough|Christopher R Madan|Kesshi Jordan|Roland Henry UCSF;|University of Alabama;|Boston College
http://dx.doi.org/10.1101/090324 2016-11-30 Epidemiology CC BY The risk of sustained sexual transmission of Zika is underestimated Antoine Allard|Benjamin M. Althouse|Laurent Hebert-Dufresne|Samuel V. Scarpino Universitat de Barcelona;|Institute for Disease Modeling;|University of Vermont
http://dx.doi.org/10.1101/090290 2016-11-30 Bioinformatics The unbalanced distribution of the amino aicds(Arg, Lys) in high pI proteins of complete proteomes, its origin and evolution Zhenhua Xie|Zhenhua Xie The Shenzhen Key Laboratory of Health Sciences and Technology, Graduate School at Shenzhen, Tsinghua
http://dx.doi.org/10.1101/090480 2016-11-29 Genetics CC BY-NC-ND Natural Genetic Variation Modifies Gene Expression Dynamics at the Protein Level During Pheromone Response in Saccharomyces cerevisiae Daniel A Pollard|Ciara K Asamoto|Homa Rahnamoun|Austin S Abendroth|Suzanne R Lee|Scott A Rifkin Western Washington University;|University of California San Diego
http://dx.doi.org/10.1101/090472 2016-11-29 Neuroscience CC BY-NC-ND Multimodal representations of person identity individuated with fMRI Stefano Anzellotti|Alfonso Caramazza MIT;|Harvard University
http://dx.doi.org/10.1101/090316 2016-11-29 Ecology CC BY-NC-ND Spatial organization, grouping strategies and cyclic dominance in asymmetric predator-prey games Annette Cazaubiel|Alessandra F. Lutz|Jeferson J. Arenzon École Normale Supérieure (Paris);|Instituto de Física - UFRGS - Brazil
http://dx.doi.org/10.1101/090894 2016-12-01 Evolutionary Biology CC BY-NC-ND Adaptive and Non-adaptive Responses of Populations to Environmental Change Tim Coulson|Bruce E Kendall|Julia Barthold|Floriane Plard|Susanne Schindler|Arpat Ozgul|Jean-Michel Gaillard University of Oxford;|University of California, Santa Barbara;|University of Southern Denmark;|Stanford University;|University of Zurich;|University of Lyon
http://dx.doi.org/10.1101/090886 2016-12-01 Evolutionary Biology CC BY-NC-ND Pervasive Antagonistic Interactions Among Hybrid Incompatibility Loci Rafael F Guerrero|Takuya Nakazato|Christopher D Muir|Sarah Josway|Leonie C Moyle Indiana University;|University of British Columbia
http://dx.doi.org/10.1101/089433 2016-12-01 Developmental Biology Germ granules prevent accumulation of somatic transcripts in the adult C. elegans germline Andrew Kekupaa Knutson|Thea A. Egelhofer|Andreas Rechtsteiner|Susan Strome University of California, Santa Cruz
http://dx.doi.org/10.1101/090860 2016-12-01 Evolutionary Biology CC BY New genes and functional innovation in mammals Jose Luis Villanueva-Canas|Jorge Ruiz-Orera|Isabel Agea|Maria Gallo|David Andreu|Mar Alba Hospital del Mar Research Institute (IMIM);|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/090845 2016-12-01 Evolutionary Biology CC BY-NC-ND The Bacterial Sequential Markov Coalescent Nicola De Maio|Daniel J Wilson University of Oxford, United Kingdom
http://dx.doi.org/10.1101/090837 2016-12-01 Genomics CC BY-NC-ND Identification and quantitative analysis of the major determinants of translation elongation rate variation Khanh Dao Duc|Yun S. Song University of Pennsylvania;|University of California, Berkeley
http://dx.doi.org/10.1101/090795 2016-12-01 Cancer Biology CC BY-NC-ND Discrete mutations in colorectal cancer correlate with defined microbial communities in the tumor microenvironment Michael B Burns|Emmanuel Montassier|Juan Abrahante|Timothy K. Starr|Dan Knights|Ran Blekhman Loyola University Chicago;|University of Nantes;|University of Minnesota
http://dx.doi.org/10.1101/090829 2016-12-01 Microbiology CC BY-NC-ND High levels of antibiotic tolerance and persistence are induced by the commercial anti-microbial triclosan Corey S Westfall|Petra Anne Levin Washington University in St. Louis
http://dx.doi.org/10.1101/090761 2016-12-01 Cell Biology Cadm1 regulates airway stem cell growth and differentiation via modulation of Stat3 activity Pooja Seedhar|Elizabeth Sage|Sabari Vallath|Gabrielle Sturges|Adam Giangreco UCL
http://dx.doi.org/10.1101/090571 2016-12-01 Genetics CC BY-NC-ND Finite-sites multiple mutations interference gives rise to wavelet-like oscillations of multilocus linkage disequilibrium Victor Garcia|Emily C Glassberg|Arbel Harpak|Marcus W Feldman Stanford University
http://dx.doi.org/10.1101/090811 2016-12-01 Bioinformatics CC BY-ND BCFtools/csq: Haplotype-aware variant consequences Petr Danecek|Shane A McCarthy Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/090746 2016-12-01 Bioinformatics CC BY-NC-ND Tumor Origin Detection with Tissue-Specific miRNA and DNA methylation Markers Wei Tang|Shixiang Wan|Quan Zou Tianjin University;|School of Computer Science and Technology, Tianjin University
http://dx.doi.org/10.1101/090241 2016-12-02 Genomics CC BY-NC-ND Genetic determinants of chromatin accessibility and gene regulation in T cell activation across human individuals Christine S Cheng|Rachel E Gate|Aviva P Aiden|Atsede Siba|Marcin Tabaka|Dmytro Lituiev|Ido Machol|Meena Subramaniam|Muhammad Shammim|Kendrick L Hougen|Ivo Wortman|Su-Chen Huang|Neva C Durand|Ting Feng|Philip L De Jager|Howard Y Chang|Erez Lieberman Aiden|Christophe Benoist|Micheal A Beer|Chun J Ye|Aviv Regev Broad Institute of MIT and Harvard;|UCSF;|Baylor College of Medicine and Rice University;|Baylor College of Medicine;|John Hopkins University;|Harvard Medical School;|Broad Institute of MIT and Harvard, Brigham and Women's Hospital, Harvard Medical School;|Stanford University;|Broad Institute of MIT and Harvard and HHMI
http://dx.doi.org/10.1101/091256 2016-12-02 Biochemistry Mechanism of ribosome rescue by ArfA and RF2 Gabriel Demo|Egor Svidritskiy|Rohini Madireddy|Ruben Diaz-Avalos|Timothy Grant|Nikolaus Grigorieff|Duncan Sousa|Andrei Korostelev University of Massachusetts Medical School, RNA Therapeutics Institute;|Janelia Research Campus, Howard Hughes Medical Institute;|Department of Biological Science, Florida State University
http://dx.doi.org/10.1101/091207 2016-12-02 Neuroscience Resonance modulation, annihilation and generation of anti-resonance and anti-phasonance in 3D neuronal systems: interplay of resonant and amplifying currents with slow dynamics Horacio G Rotstein New Jersey Institute of Technology
http://dx.doi.org/10.1101/091264 2016-12-02 Genomics Pathways analyses of schizophrenia GWAS focusing on known and novel drug targets Helena Alexandra Gaspar|Gerome Breen King's College London
http://dx.doi.org/10.1101/091280 2016-12-02 Bioinformatics Characterizing Xenopus tropicalis endurance capacities with multilevel transcriptomics Adam J Richards|Anthony Herrel|Mathieu Videlier|Konrad Paszkiewicz|Nicolas Pollet|Camille Bonneaud CNRS;|University of Exeter
http://dx.doi.org/10.1101/091223 2016-12-02 Microbiology Nus factors have a widespread regulatory function in bacteria Gabriele Baniulyte|Navjot Singh|Courtney Benoit|Richard Johnson|Robert Ferguson|Mauricio Paramo|Anne Stringer|Ashley Scott|Pascal Lapierre|Joseph Wade Department of Biomedical Sciences, School of Public Health, University at Albany;|Wadsworth Center, New York State Department of Health
http://dx.doi.org/10.1101/091272 2016-12-02 Cell Biology Negative regulation of uPAR activity by a GPI-specific phospholipase C Michiel van Veen|Elisa Matas-Rico|Koen van de Wetering|Daniela Leyton-Puig|Katarzyna M Kedziora|Nicolai Sidenius|Kees Jalink|Anastassis Perrakis|Wouter H Moolenaar The Netherlands Cancer Institute;|The FIRC Institute of Molecular Oncology
http://dx.doi.org/10.1101/091082 2016-12-02 Systems Biology CC BY-NC-ND Gene expression models based on a reference laboratory strain are bad predictors of Mycobacterium tuberculosis complex transcriptional diversity. Alvaro Chiner-Oms|Fernando Gonzalez-Candelas|Inaki Comas University of Valencia;|Biomedicine Institute of Valencia (IBV-CSIC)
http://dx.doi.org/10.1101/091058 2016-12-02 Evolutionary Biology CC BY-NC The Structured Coalescent and its Approximations Nicola Felix Mueller|David Alan Rasmussen|Tanja Stadler ETH Zuerich
http://dx.doi.org/10.1101/091116 2016-12-02 Developmental Biology Effective Cell Immunoablation in Undisrupted Developing Avian Embryos Mariacruz Lopez Diaz|Julia Bujan Valera|Carlos Cadorniga INIA;|UAH
http://dx.doi.org/10.1101/091132 2016-12-02 Neuroscience CC BY-NC-ND Multi-scale approaches for high-speed imaging and analysis of large neural populations Johannes Friedrich|Weijian Yang|Daniel Soudry|Yu Mu|Misha B Ahrens|Rafael Yuste|Darcy S Peterka|Liam Paninski Columbia University;|Janelia Research Campus
http://dx.doi.org/10.1101/091199 2016-12-02 Developmental Biology Senescence gives insights into the morphogenetic evolution of anamniotes. Eric Villiard|Jean-Francois Denis|Faranak Sadat Hashemi|Sebastian Igelmann|Gerardo Ferbeyre|Stephane Roy Universite de Montreal
http://dx.doi.org/10.1101/091066 2016-12-02 Neuroscience CC BY A Bayesian Heteroscedastic GLM with Application to fMRI Data with Motion Spikes Anders Eklund|Martin A Lindquist|Mattias Villani Linkoping university;|Johns Hopkins University
http://dx.doi.org/10.1101/091090 2016-12-02 Genetics CC BY-NC Joint inference of demography and mutation rates from polymorphism data and pedigrees Florence Parat|Sandor Miklos Szilagyi|Daniel Wegmann|Aurelien Tellier Technische Universitaet Muenchen;|Petru Maior University;|University of Fribourg
http://dx.doi.org/10.1101/091074 2016-12-02 Evolutionary Biology The Tell-Tale Genome EUGENIO BORTOLINI|Luca Pagani|Enrico Ryunosuke Crema|Stefania Sarno|Chiara Barbieri|Alessio Boattini|Marco Sazzini|Sara Graca da Silva|Gessica Martini|Mait Metspalu|Davide Pettener|Donata Luiselli|Jamshid Johari Tehrani IMF-CSIC, Spanish National Research Council, 08001 Barcelona, Spain;|Estonian Biocentre, 51010 Tartu, Estonia;|McDonald Institute for Archaeological Research, CB2 3ER Cambridge, UK;|Department of Biological, Geological and Environmental Sciences, University of Bologna,40126 Bologna;|Max Planck Institute for the Science of Human History, 07745 Jena, Germany;|New University of Lisbon, 1069-061 Lisbon, Portugal;|Department of Anthropology, Durham University, DH1 3LE Durham, UK
http://dx.doi.org/10.1101/090993 2016-12-02 Microbiology CC BY-NC-ND High-resolution tracking of microbial colonization in Fecal Microbiota Transplantation experiments via metagenome-assembled genomes Sonny TM Lee|Stacy A Kahn|Tom O Delmont|Nathaniel A Hubert|Hilary G Morrison|Dionysios A Antonopoulos|David T Rubin|A. Murat Eren University of Chicago;|Marine Biological Laboratory
http://dx.doi.org/10.1101/091124 2016-12-02 Evolutionary Biology Analyses of the core eukaryotic protein subunit of telomerase support extensive adaptation to different evolutionary and life histories in the Metazoa Alvina G Lai|Natalia Pouchkina-Stantcheva|Alessia Di Donfrancesco|Gerda Kildisiute|Sounak Sahu|Aziz Aboobaker University of Oxford
http://dx.doi.org/10.1101/090936 2016-12-02 Immunology CC BY-NC-ND Lung epithelial cells have virus-specific and shared gene expression responses to infection by diverse respiratory viruses James T Van Leuven|Benjamin J Ridenhour|Craig R Miller|Tanya A Miura University of Idaho
http://dx.doi.org/10.1101/090753 2016-12-02 Genomics CC BY-NC-ND How well do RNA-Seq differential gene expression tools perform in higher eukaryotes? Kimon Froussios|Nicholas J Schurch|Katarzyna Mackinnon|Marek Gierlinski|Celine Duc|Gordon G Simpson|Geoffrey J Barton University of Dundee;|GReD;|University of dundee
http://dx.doi.org/10.1101/090852 2016-12-02 Evolutionary Biology CC BY-NC Climate-driven range shifts in fragmented ecosystems Robin Cristofari|Xiaoming Liu|Francesco Bonadonna|Yves Cherel|Pierre Pistorius|Yvon Le Maho|Virginie Raybaud|Nils Chr Stenseth|Celine Le Bohec|Emiliano Trucchi Centre National de la Recherche Scientifique;|University of Texas Health Science Center;|Universite Paul-Valery Montpellier;|CNRS-Universite de La Rochelle;|Nelson Mandela Metropolitan University;|Universite Cote Azur;|University of Oslo;|Centre Scientifique de Monaco;|University of Ferrara
http://dx.doi.org/10.1101/090878 2016-12-02 Evolutionary Biology CC BY-NC-ND Impact of climatic changes in the Late Pleistocene on migrations and extinctions of mammals in Europe: four case studies Mateusz Baca|Adam Nadachowski|Grzegorz Lipecki|Pawe Mackiewicz|Adrian Marciszak|Danijela Popovic|Pawe Socha|Krzysztof Stefaniak|Piotr Wojtal Laboratory of Paleogenetics and Conservation Genetics, Centre of New Technologies, University of War;|Institute of Systematics and Evolution of Animals, Polish Academy of Sciences;|Department of Genomics, Faculty of Biotechnology, University of Wrocław;|Department of Paleozoology, Institute of Environmental Biology, University of Wrocław
http://dx.doi.org/10.1101/090944 2016-12-02 Bioengineering CC BY-NC-ND Summary of muscle parameters for Hill-based muscle modeling in the human lower limb Ross Miller University of Maryland
http://dx.doi.org/10.1101/086561 2016-12-02 Genomics CC BY-NC Improved Search of Large Transcriptomic Sequencing Databases Using Split Sequence Bloom Trees Brad Solomon|Carl Kingsford Carnegie Mellon;|Carnegie Mellon University
http://dx.doi.org/10.1101/090464 2016-12-02 Bioinformatics CC BY-ND AllSome Sequence Bloom Trees Chen Sun|Robert S. Harris|Rayan Chikhi|Paul Medvedev The Pennsylvania State University;|Department of Biology, The Pennsylvania State University, USA;|CNRS, CRIStAL, University of Lille, France
http://dx.doi.org/10.1101/090928 2016-12-02 Evolutionary Biology Taming the Late Quaternary phylogeography of the Eurasiatic wild ass through ancient and modern DNA E. Andrew Bennett|Sophie Champlot|Joris Peters|Benjamin S. Arbuckle|Silvia Guimaraes|Melanie Pruvost|Shirli Bar-David|Simon J.M. Davis|Mathieu Gautier|Petra Kaczensky|Ralph Kuehn|Marjan Mashkour|Arturo Morales-Muniz|Erich Pucher|Jean-Francois Tournepiche|Hans-Peter Uerpmann|Adrian Balasescu|Mietje Germonpre|Can Y. Gunden|Mahmoud-Reza Hemami|Pierre-Elie Moulle|Aliye Oztan|Margarete Uerpmann|Chris Walzer|Thierry Grange|Eva-Maria Geigl Institut Jacques Monod, CNRS-University Paris Diderot, Paris, France;|Institute of Palaeoanatomy, Ludwig-Maximilian University, Munich, Germany;|University of North Carolina at Chapel Hill,Chapel Hill, N.C. 27599-135, USA;|Institut Jacques Monod CNRS-University Paris Diderot, Paris, France;|Jacob Blaustein Institutes for Desert Research, Ben-Gurion University, Israel;|Laboratorio de Arqueociencias, (DGPC), Lisbon, Portugal;|Centre de Biologie pour la Gestion des Populations CBGP, Montferrier-sur-Lez, France;|Research Institute of Wildlife Ecology, University of Veterinary Medicine, Vienna, Austria;|Technische Universitaet Muenchen, AG Molekulare Zoologie/Lehrstuhl fuer Zoologie, Freising, Germany;|Museum national d'Histoire naturelle, UMR 7209, Archeozoology, archeobotany, Paris, France;|Laboratory of Archaeozoology, Universidad Autonoma de Madrid, Madrid, Spain;|Naturhistorisches Museum, Vienna, Austria;|Musee d'Angouleme, Angouleme, France;|Eberhard-Karls-Universitaet Tuebingen, Institut fuer Ur- und Fruehgeschichte, Tuebingen, Germany;|National History Museum of Romania, National Centre of Pluridisciplinary Research, Bucarest, Romania;|Royal Belgian Institute of Natural Sciences, Brussels, Belgium;|Fen Edebiyat Fakultesi, Batman, Turkey;|Department of Natural Resources, Isfahan University of Technology, Isfahan, Iran;|Musee de Prehistoire Regionale, Menton, France;|Ankara University Dil ve Tarih-Cografya Fakultesi, Ankara, Turkey;|CNRS - University Paris Diderot
http://dx.doi.org/10.1101/090969 2016-12-02 Genomics Single-molecule sequencing of the Drosophila serrata genome Scott L Allen|Emily Kay Delaney|Artyom Kopp|Stephen F Chenoweth The University of Queensland, Australia;|Univeristy of California, Davis, United States;|University of California - Davis, United States;|University of Queensland, Australia
http://dx.doi.org/10.1101/090985 2016-12-02 Genomics Long-read whole genome sequencing identifies causal structural variation in a Mendelian disease Jason Merker|Aaron M Wenger|Tam Sneddon|Megan Grove|Daryl Waggott|Sowmi Utiramerur|Yanli Hou|Christine C Lambert|Kevin S Eng|Luke Hickey|Jonas Korlach|James Ford|Euan A Ashley Stanford University;|Pacific Biosciences;|Stanford Health Care
http://dx.doi.org/10.1101/091306 2016-12-03 Synthetic Biology CC BY-NC-ND Resource Competition Shapes the Response of Genetic Circuits Yili Qian|Hsin-Ho Huang|Jose Jimenez|Domitilla Del Vecchio Massachusetts Institute of Technology;|University of Surrey
http://dx.doi.org/10.1101/091298 2016-12-03 Animal Behavior and Cognition Compositional Inductive Biases in Function Learning Eric Schulz|Joshua B Tenenbaum|David Duvenaud|Maarten Speekenbrink|Samuel J Gershman University College London;|Massachusetts Institute of Technology;|University of Toronto;|Harvard University
http://dx.doi.org/10.1101/091322 2016-12-03 Neuroscience CC BY Mindboggling morphometry of human brains Arno Klein|Satrajit S. Ghosh|Forrest S. Bao|Joachim Giard|Yrjo Hame|Eliezer Stavsky|Noah Lee|Brian Rossa|Martin Reuter|Elias Chaibub Neto|Anisha Keshavan Child Mind Institute;|MIT;|University of Akron;|University of Louvain, Belgium;|Columbia University;|TankThink Labs, Boston;|Harvard Medical School;|Sage Bionetworks, Seattle;|University of California San Francisco
http://dx.doi.org/10.1101/091355 2016-12-03 Biophysics Monolayer-crystal streptavidin support films provide an internal standard of cryo-EM image quality Bong-Gyoon Han|Zoe L Watson|Jamie H D Cate|Robert M Glaeser Lawrence Berkeley National Laboratory;|UC Berkeley
http://dx.doi.org/10.1101/091389 2016-12-03 Evolutionary Biology CC BY-NC-ND Exploring the mutational robustness of nucleic acids by searching genotype neighbourhoods in sequence space Qingtong Zhou|Xianbao Sun|Xiaole Xia|Zhou Fan|Zhaofeng Luo|Suwen Zhao|Haojun Liang|Eugene Shakhnovich ShanghaiTech University;|University of Science and Technology of China;|Jiangnan University;|Harvard University
http://dx.doi.org/10.1101/091173 2016-12-03 Cancer Biology CC BY-NC-ND How Cancer Genomics Drives Cancer Biology: Does Synthetic Lethality Explain Mutually Exclusive Oncogenic Mutations? Harold Varmus|Arun M Unni|William W Lockwood Weill Cornell Medicine;|BC Cancer Agency and University of British Columbia
http://dx.doi.org/10.1101/091314 2016-12-03 Genomics CC BY-NC-ND Bacterial genome reduction as a result of short read sequence assembly Charles H.D. Williamson|Andrew Sanchez|Adam Vazquez|Joshua Gutman|Jason W Sahl Northern Arizona University
http://dx.doi.org/10.1101/091579 2016-12-04 Genetics The population genetics of human disease: the case of recessive, lethal mutations Carlos Eduardo Guerra Amorim|Ziuye Gao|Zachary Baker|Jose Francisco Diesel|Yuval B. Simons|Imran S. Haque|Joseph Pickrell|Molly Przeworski Columbia University;|Howard Hughes Medical Institution, Stanford University;|Universidade Federal de Santa Maria;|Counsyl;|New York Genome Center
http://dx.doi.org/10.1101/091595 2016-12-04 Bioinformatics CC BY-NC-ND SiFit: A Method for Inferring Tumor Trees from Single-Cell Sequencing Data under Finite-site Models Hamim Zafar|Anthony Tzen|Nicholas Navin|Ken Chen|Luay Nakhleh Rice University;|UT MD Anderson Cancer Center
http://dx.doi.org/10.1101/091629 2016-12-04 Molecular Biology CC BY-NC-ND BLISS: quantitative and versatile genome-wide profiling of DNA breaks in situ Winston X Yan|Reza Mirzazadeh|Silvano Garnerone|David A Scott|Martin W Schneider|Tomasz Kallas|Joaquin Custodio|Erik Wernersson|Linyi Gao|Yinqing Li|Yana Federova|Bernd Zetsche|Feng Zhang|Magda Bienko|Nicola Crosetto Broad Institute and MIT;|Karolinska Institutet
http://dx.doi.org/10.1101/090977 2016-12-04 Neuroscience CC BY-NC-ND Monozygotic twin pairs discordant for amyotrophic lateral sclerosis carry both common and unique epigenetic differences relevant to disease Paul E Young|Stephen Kum Jew|Michael E Buckland|Roger Pamphlett|Catherine M Suter Victor Chang Cardiac Research Institute;|University of Sydney;|Royal Prince Alfred Hospital
http://dx.doi.org/10.1101/091587 2016-12-04 Neuroscience Heterogeneous firing responses predict diverse couplings to presynaptic activity in mice layer V pyramidal neurons Yann Zerlaut|Alain Destexhe Istituto Italiano di Tecnologia;|Centre National de la Recherche Scientifique
http://dx.doi.org/10.1101/091611 2016-12-04 Synthetic Biology CC BY-NC-ND Engineered Cpf1 Enzymes with Altered PAM Specificities Linyi Gao|David B.T. Cox|Winston X Yan|John Manteiga|Martin Schneider|Takashi Yamano|Hiroshi Nishimasu|Osamu Nureki|Feng Zhang Broad Institute and MIT;|University of Tokyo;|Broad Institute of MIT and Harvard; McGovern Institute for Brain Research at MIT
http://dx.doi.org/10.1101/091553 2016-12-04 Neuroscience CC BY The interaction of orientation-specific surround suppression and visual-spatial attention Ariel Rokem|Ayelet Nina Landau The University of Washington;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/091504 2016-12-04 Developmental Biology CC BY-NC-ND Zebrafish Nanog is not required in embryonic cells James A Gagnon|Kamal Obbad|Alexander F Schier Harvard University
http://dx.doi.org/10.1101/091488 2016-12-04 Genomics CC BY-ND Maximizing ecological and evolutionary insight from bisulfite sequencing data sets Amanda Lea|Tauras Vilgalys|Paul Durst|Jenny Tung Duke University;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/091462 2016-12-04 Microbiology CC BY-NC-ND Genome-wide survey of Pseudomonas aeruginosa PA14 reveals a role for the glyoxylate pathway and extracellular proteases in the limited utilization of mucin Jeffrey M Flynn|Chi Q Phan|Ryan C Hunter University of Minnesota
http://dx.doi.org/10.1101/091520 2016-12-04 Synthetic Biology CC BY-NC-ND Prototyping a valinomycin biosynthesis pathway within a cell-free transcription-translation (TX-TL) system Tiffany Zhou California Institute of Technology
http://dx.doi.org/10.1101/091496 2016-12-04 Microbiology A Novel DNA-binding Protein Coordinates Asymmetric Chromosome Replication and Chromosome Partitioning James Taylor|Gael Panis|Patrick Viollier|Gregory Marczynski University of Ottawa;|University of Geneva Medical School;|McGill University
http://dx.doi.org/10.1101/091421 2016-12-04 Neuroscience CC BY-NC-ND Stimulus visibility controls the balance between attention-induced changes in contrast appearance and decision bias Sirawaj Itthipuripat|Kai-Yu Chang|Ashley Bong|John T Serences UCSD Neurosciences Graduate Program;|UCSD Cognitive Neuroscience Department;|UCSD Bioengineering Department;|UCSD Neurosciences Graduate Program and Psychology Department
http://dx.doi.org/10.1101/091413 2016-12-04 Neuroscience CC BY-NC-ND Training qualitatively shifts the neural mechanisms that support attentional selection Sirawaj Itthipuripat|Kexin Cha|Anna Byers|John T Serences UCSD Neurosciences Graduate Program;|UCSD Psychology Department;|UCSD Neurosciences Graduate Program and Psychology Department
http://dx.doi.org/10.1101/091538 2016-12-04 Evolutionary Biology CC BY-NC-ND The Phenotypic, Genotypic, & Environmental Drivers of Local Adaptation to a Harsh Granite Outcrop Environment in Mimulus Kathleen G. Ferris|John H. Willis University of California Davis;|Duke University
http://dx.doi.org/10.1101/091470 2016-12-04 Genetics CC BY-NC-ND Precise Quantification of Translation Inhibition by mRNA Structures that Overlap with the Ribosomal Footprint in N-terminal Coding Sequences Amin Espah Borujeni|Daniel Cetnar|Iman Farasat|Ashlee Smith|Natasha Lundgren|Howard M Salis Pennsylvania State University
http://dx.doi.org/10.1101/091454 2016-12-04 Pharmacology and Toxicology CC BY-NC-ND Life Cycle Perspectives on Human Health Impacts of Ionic Liquids Amirhossein Mehrkesh|Arunprakash T Karunanithi University of Colorado Denver
http://dx.doi.org/10.1101/091215 2016-12-04 Zoology Mitogenome and nuclear DNA differentiation in spinner (Stenella longirostris) and pantropical spotted dolphins (S. attenuata) from the eastern tropical Pacific Ocean Matthew S. Leslie|Frederick I. Archer|Phillip A. Morin Scripps Institution of Oceanography, University of California San Diego;|Southwest Fisheries Science Center, National Marine Fisheries Service, NOAA
http://dx.doi.org/10.1101/091512 2016-12-04 Microbiology CC BY-NC-ND Microbial regime changes and indicators of eutrophication on the Mississippi River identified via a human-powered 2900 km transect Michael W Henson|Jordan Hanssen|Greg Spooner|Patrick Flemming|Markus Pukonen|Fedrick Stahr|J. Cameron Thrash Louisiana State University;|OAR Northwest;|University of Washington
http://dx.doi.org/10.1101/088807 2016-12-04 Molecular Biology mRNA turnover through CDS-targeting is the primary role of miRNA in the green alga Chlamydomonas. Betty YW Chung|Mike J Deery|Arnoud J Groen|Julie Howard|David C Baulcombe University of Cambridge
http://dx.doi.org/10.1101/091397 2016-12-04 Neuroscience CC BY-NC-ND Cerebellar anodal tDCS increases implicit visuomotor remapping when strategic re-aiming is suppressed Li-Ann Leow|Welber Marinovic|Stephan Riek|Timothy Carroll The University of Queensland;|Curtin University
http://dx.doi.org/10.1101/091991 2016-12-06 Biophysics CC BY Melittin-induced alterations in morphology and deformability of human red blood cells using quantitative phase imaging techniques Joonseok Hur|Kyoohyun Kim|SangYun Lee|Hyunjoo Park|YongKeun Park MIT;|KAIST
http://dx.doi.org/10.1101/090910 2016-12-06 Evolutionary Biology CC BY-NC A Phylogenetic Analysis of Shape Covariance Structure in the Anthropoid Skull Guilherme Garcia|Felipe Bandoni de Oliveira|Gabriel Marroig Universidade de Sao Paulo
http://dx.doi.org/10.1101/091934 2016-12-06 Evolutionary Biology CC BY-NC-ND The adaptive significance of phasic colony cycles in army ants Simon Garnier|Daniel J. C. Kronauer New Jersey Institute of Technology;|The Rockefeller University
http://dx.doi.org/10.1101/092056 2016-12-06 Evolutionary Biology CC BY-NC Non-random inversion landscapes in prokaryotic genomes are shaped by heterogeneous selection pressures Jelena Repar|Tobias Warnecke MRC Clinical Sciences Centre;|Imperial College London
http://dx.doi.org/10.1101/091678 2016-12-06 Molecular Biology CC BY No evidence for genome editing of the endogenous DNA in mouse zygotes and HEK293T human cell line using the DNA-guided Natronobacterium gregoryi Argonaute (NgAgo). Nay Chi Khin|Jenna Louise Lowe|Jensen M Lora|Gaetan Burgio John Curtin School of Medical Research, the Australian National University
http://dx.doi.org/10.1101/091850 2016-12-06 Ecology CC BY Resource-Driven Encounters and the Induction of Disease Among Consumers Rebecca K. Borchering|Steve E. Bellan|Jason M. Flynn|Juliet R.C. Pulliam|Scott A. McKinley University of Florida;|University of Georgia;|Tulane University;|Stellenbosch University
http://dx.doi.org/10.1101/091777 2016-12-06 Ecology CC BY-NC-ND Community-level facilitation by macroalgal foundation species peaks at an intermediate level of environmental stress Ricardo A Scrosati St. Francis Xavier University
http://dx.doi.org/10.1101/091041 2016-12-06 Evolutionary Biology CC BY-NC-ND Non-linear tradeoffs allow cooperation to evolve from Prisoner's Dilemma to Snow Drift Lin Chao|Santiago Elena Section of Ecology, Behavior and Evolution, Division of Biological Sciences, UCSD;|CSIC
http://dx.doi.org/10.1101/092023 2016-12-06 Cancer Biology CC BY-NC Homeostasis Back and Forth: An Eco-Evolutionary Perspective of Cancer David Basanta|Alexander Anderson H. Lee Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/091975 2016-12-06 Plant Biology CC BY Rice protein models from the Nutritious Rice for the World Project Ling-Hong Hung|Ram Samudrala University of Washington Tacoma;|State University of New York (SUNY) Buffalo
http://dx.doi.org/10.1101/092007 2016-12-06 Genomics CC BY-NC-ND Understanding genetic changes underlying the molybdate resistance and the glutathione production in Saccharomyces cerevisiae wine strains using an evolution-based strategy Francesco Mezzetti|Justin C. Fay|Paolo Giudici|Luciana De Vero University of Modena and Reggio Emilia;|Washington University in St. Louis
http://dx.doi.org/10.1101/091918 2016-12-06 Animal Behavior and Cognition CC BY-ND A new law of human perception Xue-Xin Wei|Alan A Stocker Columbia University;|University of Pennsylvania
http://dx.doi.org/10.1101/091900 2016-12-06 Neuroscience CC BY-NC-ND Expanding the language network: Domain-specific hippocampal recruitment during high-level linguistic processing Idan Blank|Melissa C Duff|Sarah Brown-Schmidt|Evelina Fedorenko MIT;|Department of Hearing and Speech Sciences, Vanderbilt University Medical Center;|Department of Psychology and Human Development, Vanderbilt University;|Department of Psychiatry, Harvard Medical School
http://dx.doi.org/10.1101/091330 2016-12-06 Genomics CC BY Cross-tissue integration of genetic and epigenetic data offers insight into autism spectrum disorder Shan V. Andrews|Shannon E. Ellis|Kelly M. Bakulski|Brooke Sheppard|Lisa A. Croen|Irva Hertz-Picciotto|Craig J. Newschaffer|Andrew P. Feinberg|Dan E. Arking|Christine Ladd-Acosta|M. Daniele Fallin Johns Hopkins Bloomberg School of Public Health;|Johns Hopkins University School of Medicine;|University of Michigan School of Public Health;|Kaiser Permanente Northern California;|University of California Davis School of Medicine;|Drexel University Dornsife School of Public Health
http://dx.doi.org/10.1101/091710 2016-12-06 Neuroscience CC BY-NC-ND Spatiotemporal characterization of the neural correlates of outcome valence and surprise during reward learning in humans Elsa Fouragnan|Filippo Queirazza|Chris Retzler|Karen J Mullinger|Marios G Philiastides University of Oxford;|University of Glasgow;|University of Huddersfield;|University of Nottingham
http://dx.doi.org/10.1101/091751 2016-12-06 Ecology Critical transitions and the fragmenting of global forests Leonardo A. Saravia|Santiago Doyle|Benjamin Bond-Lamberty Universidad Nacional de General Sarmiento;|Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/091702 2016-12-06 Ecology CC BY-NC-ND Colonization and transmission of the gut microbiota of the burying beetle, Nicrophorus vespilloides, through development Yin Wang|Daniel Rozen Leiden University
http://dx.doi.org/10.1101/091785 2016-12-06 Microbiology CC BY-NC-ND Cell Cycle Constraints and Environmental Control of Local DNA Hypomethylation in Alpha-Proteobacteria Silvia Ardissone|Peter Redder|Giancarlo Russo|Antonio Frandi|Coralie Fumeaux|Andrea Patrignani|Ralph Schlapbach|Laurent Falquet|Patrick H Viollier Department of Microbiology and Molecular Medicine, University of Geneva, Geneva, Switzerland;|LMGM, Centre de Biologie Integrative, Universite Paul Sabatier, Toulouse, France;|Functional Genomics Center Zurich, ETH/University of Zurich, Zurich, Switzerland;|Biochemistry Unit, Dept. of Biology, University of Fribourg and Swiss Institute of Bioinformatics, F
http://dx.doi.org/10.1101/091884 2016-12-06 Microbiology CC BY-NC-ND Evolutionary variations in the biofilm-associated protein BslA from the genus Bacillus Ryan J. Morris|Marieke Schor|Rachel M.C. Gillespie|Ana Sofia Ferreira|Keith M. Bromley|Lucia Baldauf|Sofia Arnaouteli|Tetyana Sukhodub|Chris Earl|Nicola R. Stanley-Wall|Cait E. MacPhee University of Edinburgh;|University of Dundee
http://dx.doi.org/10.1101/091405 2016-12-06 Microbiology CC BY Validating Regulatory Predictions from Diverse Bacteria with Mutant Fitness Data Shiori Sagawa|Morgan N Price|Adam M Deutschbauer|Adam P. Arkin UC Berkeley;|Lawrence Berkeley Lab;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/090647 2016-12-06 Evolutionary Biology CC BY-NC-ND The emergence, evolution, and diversification of the miR390-TAS3-ARF pathway in land plants Rui Xia|Jing Xu|Blake C. Meyers South China Agricultural University;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/091876 2016-12-06 Genetics CC BY-NC Experimental evolution reveals favored adaptive routes to cell aggregation in yeast Elyse A. Hope|Clara J. Amorosi|Aaron W. Miller|Kolena Dang|Caiti Smukowski Heil|Maitreya J. Dunham University of Washington, United States
http://dx.doi.org/10.1101/091801 2016-12-06 Biophysics CC BY OpenMM 7: Rapid Development of High Performance Algorithms for Molecular Dynamics Peter Eastman|Jason Swails|John D. Chodera|Robert T. McGibbon|Yutong Zhao|Kyle A. Beauchamp|Lee-Ping Wang|Andrew C. Simmonett|Matthew P. Harrigan|Bernard R. Brooks|Vijay S. Pande Stanford University;|Rutgers University;|Memorial Sloan Kettering Cancer Center;|University of California, Davis;|National Heart, Lung, and Blood Institute, National Institutes of Health
http://dx.doi.org/10.1101/089763 2016-12-05 Molecular Biology CC BY The Aquarius/EMB-4 helicase licenses co-transcriptional gene silencing Alper Akay|Tomas Di Domenico|Kin Man Suen|Amena Nabih|Guillermo Eduardo Parada|Mark Larance|Ragini Medhi|Ahmet Can Berkyurek|Christopher J. Wedeles|Xinlian Zhang|Ping Ma|Angus I. Lamond|Martin Hemberg|Julie M. Claycomb|Eric Alexander Miska University of Cambridge;|University of Toronto;|University of Dundee;|University of Georgia;|Sanger Institute
http://dx.doi.org/10.1101/091835 2016-12-05 Evolutionary Biology CC BY-NC-ND The innate immune systems of malacostracan crustaceans exhibit both conserved and evolutionarily distinct components Alvina G Lai|Aziz Aboobaker University of Oxford
http://dx.doi.org/10.1101/091793 2016-12-05 Developmental Biology Specific expression and function of the Six3 optix in serially homologous organs Amer Al-Khatib|Natalia Siomava|Nico Posnien|Fernando Casares CABD (Andalusian Centre for Developmental Biology), CSIC-UPO-JA. Campus UPO, 41013 Seville, SPAIN;|Georg-August-University Goettingen, 37077 Goettingen, GERMANY
http://dx.doi.org/10.1101/091231 2016-12-05 Biochemistry CC BY Cushing's Syndrome mutant PKAL205R exhibits altered substrate specificity Joshua M Lubner|Kimberly L Dodge-Kafka|Cathrine R Carlson|George M Church|Michael F Chou|Daniel Schwartz University of Connecticut;|University of Connecticut Health Center;|University of Oslo;|Harvard Medical School
http://dx.doi.org/10.1101/091728 2016-12-05 Genetics CC BY-ND Effect of obesity-linked FTO rs9939609 variant on physical activity and dietary patterns in physically active men and women Nathan R West|James Dorling|Alice E Thackray|Samantha E Decombel|David J Stensel|Stuart J Grice FitnessGenes;|Loughborough University;|Univerity of Oxford
http://dx.doi.org/10.1101/091843 2016-12-05 Genetics Discovery of an autoimmunity-associated IL2RA enhancer by unbiased targeting of transcriptional activation Dimitre R Simeonov|Benjamin G Gowen|Mandy Boontanrart|Theo Roth|Youjin Lee|Alice Chan|Michelle L Nguyen|Rachel E Gate|Meena Subramaniam|Jonathan M Woo|Therese Mitros|Graham J Ray|Nicolas L Bray|Gemma L Curie|Nicki Naddaf|Eric Boyer|Frederic Van Gool|Kathrin Schumann|Mark J Daly|Kyle K Fahr|Chun Ye|Jeffrey A Bluestone|Mark S Anderson|Jacob E Corn|Alexander Marson University of California, San Francisco;|University of California, Berkeley;|Broad Institute of MIT;|Illumina Inc.
http://dx.doi.org/10.1101/091892 2016-12-05 Biochemistry CC BY Reprogramming protein kinase substrate specificity through synthetic mutations Joshua M Lubner|George M Church|Michael F Chou|Daniel Schwartz University of Connecticut;|Harvard Medical School
http://dx.doi.org/10.1101/091827 2016-12-05 Genomics CC BY-NC The dynamic three-dimensional organization of the diploid yeast genome Seungsoo Kim|Ivan Liachko|Donna G. Brickner|Kate Cook|William S. Noble|Jason H Brickner|Jay Shendure|Maitreya Dunham University of Washington;|Northwestern University
http://dx.doi.org/10.1101/091736 2016-12-05 Biophysics CC BY-NC-ND Revealing compartmentalised membrane diffusion in living cells with interferometric scattering microscopy Gabi de Wit|David Albrecht|Helge Ewers|Philipp Kukura University of Oxford;|University College London;|Freie University Berlin
http://dx.doi.org/10.1101/091637 2016-12-05 Genomics CC BY-NC Splice Expression Variation Analysis (SEVA) for Differential Gene Isoform Usage in Cancer Bahman Afsari|Theresa Guo|Michael Considine|Liliana Florea|Dylan Kelly|Emily Flam|Patrick Ha|Donald Geman|Michael F Ochs|Joseph A Califano|Daria A Gaykalova|Alexander V Favorov|Elana J Fertig Johns Hopkins University;|University of California San Francisco;|The College of New Jersey;|University of California San Diego;|Johns Hopkins Uniersity
http://dx.doi.org/10.1101/090399 2016-12-05 Microbiology MtrA is an essential regulator that coordinates antibiotic production and development in Streptomyces species Nicolle F Som|Daniel Heine|John T Munnoch|Neil A Holmes|Felicity Knowles|Govind Chandra|Ryan F Seipke|Paul A Hoskisson|Barrie Wilkinson Wilkinson|Matthew I Hutchings University of East Anglia;|John Innes Centre;|University of Leeds;|University of Strathclyde
http://dx.doi.org/10.1101/091744 2016-12-05 Evolutionary Biology Adaptive evolution by spontaneous domain fusion and protein relocalisation Andrew D Farr|Paul B Rainey Wageningen UR;|ESPCI (ParisTech)
http://dx.doi.org/10.1101/091652 2016-12-05 Evolutionary Biology CC BY-ND Similar evolutionary trajectories for retrotransposon accumulation in mammals Reuben M Buckley|R Daniel Kortschak|Joy M Raison|David L Adelson The University of Adelaide
http://dx.doi.org/10.1101/091686 2016-12-05 Ecology Geographical restructuring of Arabidopsis thaliana's genetic makeup in the Iberian Peninsula due to climate change based on genetic cluster membership Arnald Marcer|Marie-Josee Fortin|F. Xavier Pico CREAF, Universitat Autònoma de Barcelona;|Dept. of Ecology and Evolutionary Biology, University of Toronto;|Dpto. de Ecología Integrativa, Estacion Biológica de Doñana (EBD-CSIC)
http://dx.doi.org/10.1101/091660 2016-12-05 Genomics CC BY Impact of regulatory variation across human iPSCs and differentiated cells Nicholas E Banovich|Yang I Li|Anil Raj|Michelle C Ward|Peyton Greenside|Diego Calderon|Po Yuan Tung|Jonathan E Burnett|Marsha Myrthil|Samantha M Thomas|Courtney K Burrows|Irene Gallego Romero|Bryan J Pavlovic|Anshul Kundaje|Jonathan K Pritchard|Yoav Gilad University of Chicago;|Stanford University
http://dx.doi.org/10.1101/092361 2016-12-07 Systems Biology CC BY A synthesis of over 9,000 mass spectrometry experiments reveals the core set of human protein complexes Kevin Drew|Chanjae Lee|Ryan L. Huizar|Fan Tu|Blake Borgeson|Claire D. McWhite|Yun Ma|John B. Wallingford|Edward M. Marcotte University of Texas at Austin
http://dx.doi.org/10.1101/092379 2016-12-07 Bioinformatics CC BY-NC Complete fold annotation of the human proteome using a novel structural feature space Sarah Middleton|Joseph Illuminati|Junhyong Kim University of Pennsylvania
http://dx.doi.org/10.1101/091942 2016-12-07 Evolutionary Biology CC BY-NC-ND Recent evolution of cestode growth suppression by threespine stickleback Jesse N Weber|Natalie C Steinel|Kum C Shim|Daniel I Bolnick University of Montana;|University of Texas at Austin
http://dx.doi.org/10.1101/092130 2016-12-07 Neuroscience CC BY-NC-ND Neural Homophily: Similar Neural Responses Predict Friendship Carolyn Parkinson|Adam M Kleinbaum|Thalia Wheatley University of California, Los Angeles;|Tuck School of Business, Dartmouth College;|Dartmouth College
http://dx.doi.org/10.1101/092106 2016-12-07 Bioinformatics Review: Population Structure in Genetic Studies: Confounding Factors and Mixed Models Lana S. Martin|Eleazar Eskin University of California, Los Angeles
http://dx.doi.org/10.1101/092080 2016-12-07 Neuroscience Influence Of Desire To Belong And Feelings Of Loneliness On Emotional Prosody Perception In Schizophrenia. Rachel Mitchell|Krystal Gamez|Christian Kohler|Monica E Calkins|Bruce I Turetsky|David I Leitman Kings College London;|Immaculata University;|University of Pennsylvania
http://dx.doi.org/10.1101/092189 2016-12-07 Genomics CC BY Genomic analysis of Mycobacterium tuberculosis reveals complex etiology of tuberculosis in Vietnam including frequent introduction and transmission of Beijing lineage and positive selection for EsxW Beijing variant Kathryn E Holt|Paul McAdam|Vuong Khac Thai Phan|Thi Minh Ha Dang|Ngoc Lan Nguyen|Huu Lan Nguyen|Thi Quynh Nhu Nguyen|Thuy Thuong Thuong Nguyen|Guy Thwaites|David J Edwards|Kym Pham|Jeremy Farrar|Chiea Chuen Khor|Yik Ying Teo|Michael Inouye|Maxine Caws|Sarah J Dunstan Centre for Systems Genomics, University of Melbourne;|Dept of Biochemistry and Molecular Biology, Bio21 Molecular Science and Biotechnology Institute;|Pham Ngoc Thach Hospital for Tuberculosis and Lung Disease, Ho Chi Minh City, District 5, Viet Nam;|Oxford University Clinical Research Unit, Ho Chi Minh City, District 5, Viet Nam;|Dept of Pathology, University of Melbourne;|Genome Institute of Singapore, Singapore;|Department of Statistics and Applied Probability, National University of Singapore, Singapore;|Liverpool School of Tropical Medicine, Liverpool, UK;|Peter Doherty Institute for Infection and Immunity, University of Melbourne
http://dx.doi.org/10.1101/092205 2016-12-07 Bioinformatics CC BY A meta-analysis of bioinformatics software benchmarks reveals that publication-bias unduly influences software accuracy Paul Gardner|James M Paterson|Fatemeh Ashari Ghomi|Sinan Ugur U Umu|Stephanie McGimpsey|Aleksandra Pawlik University of Canterbury;|School of Biological Sciences, University of Canterbury, Christchurch, New Zealand;|McConomy School of Dance, Derry, Ireland;|New Zealand eScience Infrastructure, 49 Symonds St, Auckland, New Zealand
http://dx.doi.org/10.1101/092098 2016-12-07 Neuroscience What rhythmic perception and amusia can tell us about vocal social communication in schizophrenia Rachel L. C Mitchell|Krystal Gamez|Joshua Bolgar|Eli S Neustadter|Monica E Calkins|Tyler M Moore|David I Leitman Kings College London;|Immaculata University;|University of Pennsylvania;|University of Pennsylavnia
http://dx.doi.org/10.1101/092122 2016-12-07 Genomics CC BY Updated reference genome sequence and annotation of Mycobacterium bovis AF2122/97 Kerri M Malone|Damien Farrell|Tod P Stuber|Olga T Schubert|Ruedi Aebersold|Suelee Robbe-Austerman|Stephen V Gordon School of Veterinary Medicine, University College Dublin, Ireland;|Diagnostic Bacteriology Laboratory, National Veterinary Services Laboratories, Ames, Iowa, USA;|Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, CH-8093, Switzerland
http://dx.doi.org/10.1101/092163 2016-12-07 Genomics CC BY-NC-ND Pan-Cancer Analysis Reveals Technical Artifacts in The Cancer Genome Atlas (TCGA) Germline Variant Calls Alexandra R Buckley|Kristopher A Standish|Kunal Bhutani|Trey Ideker|Olivier Harismendy|Hannah Carter|Nik J Schork UCSD;|JCVI
http://dx.doi.org/10.1101/092221 2016-12-07 Neuroscience CC BY-NC Decoding visual stimuli in human brain by using Anatomical Pattern Analysis on fMRI images Muhammad Yousefnezhad|Daoqiang Zhang Nanjing University of Aeronautics and Astronautics
http://dx.doi.org/10.1101/091603 2016-12-07 Genomics CC BY Genomic characterization of serial-passaged Ebola virus in a boa constrictor cell line Greg Fedewa|Sheli R Radoshitzky|Xiaoli Chi|Lian Dong|Melissa Spear|Nicolas Strauli|Mark D Stenglein|Ryan Hernandez|Peter B Jahrling|Jens H Kuhn|Joseph DeRisi University of California, San Francisco;|United States Army Medical Research Institute of Infectious Diseases;|Colorado State University;|UCSF;|Integrated Research Facility at Fort Detrick, National Institute of Allergy and Infectious Diseases;|UC San Francisco
http://dx.doi.org/10.1101/092155 2016-12-07 Biophysics CC BY Markov modeling reveals novel intracellular modulation of the human TREK-2 selectivity filter Matthew P Harrigan|Keri A McKiernan|Veerabahu Shanmugasundaram|Rajiah Aldrin Denny|Vijay S Pande Stanford University;|Pfizer, Inc
http://dx.doi.org/10.1101/092247 2016-12-07 Neuroscience CC BY-NC Local Discriminant Hyperalignment for multi-subject fMRI data alignment Muhammad Yousefnezhad|Daoqiang Zhang Nanjing University of Aeronautics and Astronautics
http://dx.doi.org/10.1101/090720 2016-12-07 Genetics CC BY Pathogenic ASXL1 somatic variants in reference databases complicate germline variant interpretation for Bohring-Opitz Syndrome Colleen M. Carlston|Anne O'Donnell-Luria|Hunter R. Underhill|Beryl B. Cummings|Ben Weisburd|Eric V. Minikel|Daniel P. Birnbaum|Tatiana Tvrdik|Daniel G. MacArthur|Rong Mao University of Utah;|Broad Institute;|ARUP Institute for Clinical and Experimental Pathology
http://dx.doi.org/10.1101/092239 2016-12-07 Genetics CC BY-NC-ND Revising mtDNA haplotypes of the ancient Hungarian conquerors with next generation sequencing Endre Neparaczki|Klaudia Kocsy|Gabor Endre Toth|Zoltan Maroti|Tibor Kalmar|Peter Bihari|Istvan Nagy|Gyorgy Palfi|Erika Molnar|Istvan Rasko|Tibor Torok Department of Genetics, University of Szeged, Hungary;|Department of Pediatrics and Pediatric Health Center, University of Szeged, Faculty of Medicine;|SeqOmics Biotechnology Ltd. Morahalom, Hungary;|Department of Biological Anthropology University of Szeged, Hungary;|Institute of Genetics, Biological Research Centre, Szeged, Hungary
http://dx.doi.org/10.1101/092262 2016-12-07 Evolutionary Biology Codon based co-occurrence network motifs in human mitochondria Pramod Shinde|Camellia Sarkar|Sarika Jalan Indian Institute of Technology Indore
http://dx.doi.org/10.1101/092213 2016-12-07 Neuroscience CC BY A Resource for Assessing Information Processing in the Developing Brain Using EEG and Eye Tracking Nicolas Langer|Erica J. Ho|Lindsay M. Alexander|Helen Y. Xu|Renee K. Jozanovic|Simon Henin|Samantha Cohen|Enitan T. Marcelle|Lucas C. Parra|Michael P. Milham|Simon P. Kelly Methods of Plasticity Research, Department of Psychology, University of Zurich, Zurich, Switzerland;|Center for the Developing Brain, Child Mind Institute, New York, NY, USA;|Department of Biomedical Engineering, City College of New York, New York, USA;|Department of Psychology, University of California, Berkeley, USA
http://dx.doi.org/10.1101/092338 2016-12-07 Cell Biology CC BY-NC-ND An Estradiol-Inducible Promoter Enables Fast, Graduated Control of Gene Expression in Fission Yeast Makoto Ohira|David G. Hendrickson|R. Scott McIsaac|Nicholas Rhind UMass Medical School;|Calico Life Sciences
http://dx.doi.org/10.1101/092304 2016-12-07 Microbiology CC BY Clostridium difficile colonizes alternative nutrient niches during infection across distinct murine gut environments Matthew L Jenior|Jhansi L Leslie|Vincent B Young|Patrick Schloss University of Michigan
http://dx.doi.org/10.1101/092148 2016-12-07 Genetics CC BY-NC Population history of the Sardinian people inferred from whole-genome sequencing Charleston W.K. Chiang|Joseph H. Marcus|Carlo Sidore|Hussein Al-Asadi|Magdalena Zoledziewska|Maristella Pitzalis|Fabio Busonero|Andrea Maschio|Giorgio Pistis|Maristella Steri|Andrea Angius|Kirk E. Lohmueller|Goncalo R Abecasis|David Schlessinger|Francesco Cucca|John Novembre UCLA;|University of Chicago;|Istituto di Ricerca Genetica e Biomedica, Consiglio Nazionale delle Ricerche;|University of Michigan;|National Institute of Aging, NIH;|Universita degli Studi di Sassari
http://dx.doi.org/10.1101/092072 2016-12-07 Neuroscience CC BY C. elegans detect the color of pigmented food sources to guide foraging decisions. D. Dipon Ghosh|Xin Jin|Michael Nitabach Yale University;|Yale School of Medicine
http://dx.doi.org/10.1101/092114 2016-12-07 Developmental Biology Ras/ERK-signalling promotes tRNA synthesis and growth via the RNA polymerase III repressor Maf1 in Drosophila Shrivani Sriskanthadevan-Pirahas|Rujuta Deshpande|Byoungchun Lee|Savraj Grewal University of Calgary
http://dx.doi.org/10.1101/092296 2016-12-07 Developmental Biology Hoxa1 and TALE proteins display cross-regulatory interactions and form a combinatorial binding code on Hoxa1 targets Bony De Kumar|Hugo J Parker|Ariel Paulson|Mark E Parrish|Irina Pushel|Brian D Slaughter|Jay R Unruh|Julia B Zeitlinger|Robb Krumlauf Stowers Institute for Medical Research
http://dx.doi.org/10.1101/091819 2016-12-07 Optimizing Communication of Emergency Response Adaptive Randomization Clinical Trials to Potential Participants William J Meurer|David Haidar|Jason Tehranisa|Brendan McEvoy University of Michigan;|University Hospitals of Cleveland
http://dx.doi.org/10.1101/092015 2016-12-07 Epidemiology Cannabis use and risk of schizophrenia: a Mendelian randomization study Julien Vaucher|Brendan J Keating|Aurelie M Lasserre|Wei Gan|Donald Lyall|Joey Ward|Daniel J Smith|Jill Pell|Naveed Sattar|Guillaume Pare|Michael Holmes Lausanne University Hospital;|University of Pennsylvania;|University of Oxford;|University of Glasgow;|McMaster University
http://dx.doi.org/10.1101/092684 2016-12-08 Microbiology CC BY-NC-ND Flux through lipid synthesis dictates bacterial cell size. Stephen Vadia|Jessica L. Tse|Jue D. Wang|Petra Anne Levin Washington University in St. Louis;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/092668 2016-12-08 Genetics CC BY Local genetic correlation gives insights into the shared genetic architecture of complex traits Huwenbo Shi|Nicholas Mancuso|Sarah Spendlove|Bogdan Pasaniuc University of California Los Angeles;|David Geffen School of Medicine, University of California at Los Angeles;|Department of Biology, Brigham Young University
http://dx.doi.org/10.1101/081687 2016-12-08 Molecular Biology CC BY Serum extracellular vesicle depletion processes affect release and infectivity of HIV-1 in culture Zhaohao Liao|Dillon C Muth|Erez Eitan|Meghan Travers|Elin Lehrmann|Kenneth W Witwer The Johns Hopkins University School of Medicine;|National Institute on Aging
http://dx.doi.org/10.1101/092536 2016-12-08 Cell Biology CC BY-NC-ND New single-molecule imaging of the eisosome BAR domain protein Pil1p reveals filament-like dynamics Michael Lacy|David Baddeley|Julien Berro Yale University
http://dx.doi.org/10.1101/092601 2016-12-08 Cell Biology CC BY-NC-ND IMPORT AND EXPORT OF GOLD NANOPARTICLES: EXCHANGE RATE IN CANCER CELLS AND FIBROBLASTS Vladimir Ivosev|Gloria Jimenez Sanchez|Darine Abi Haidar|Rana Bazzi|Stephane Roux|Sandrine Lacombe University Paris Saclay;|University of Bourgogne Franche-Comte;|University Paris-Saclay
http://dx.doi.org/10.1101/092551 2016-12-08 Neuroscience Evidence that the ventral stream codes the errors used in hierarchical inference and learning Elias B. Issa|Charles F. Cadieu|James J. DiCarlo Massachusetts Institute of Technology
http://dx.doi.org/10.1101/092619 2016-12-08 Genetics CC BY-NC-ND Resolving the Functional Significance of BRCA1 RING Domain Missense Substitutions Andrew Paquette|Kayoko Tao|Alex W Stark|Judith Rosenthal|Russell Bell|Bryony A Thompson|Brett A Milash|Jason Gertz|Katherine E Varley|Alun Thomas|Kenneth Boucher|William D Foulkes|David E Goldgar|Sean V Tavtigian University of Utah;|University of Utah and University of Melbourne;|McGill University
http://dx.doi.org/10.1101/092510 2016-12-08 Developmental Biology Tracking the embryonic stem cell transition from ground state pluripotency Tuzer Kalkan|Nelly Olova|Mila Roode|Carla Mulas|Heather J Lee|Isabelle Nett|Hendrik Marks|Rachael Walker|Hendrik G Stunnenberg|Kathryn Lilley|Jennifer Nichols|Wolf Reik|Paul Bertone|Austin Smith University of Cambridge;|BAbraham Institute;|University of Oxford;|Babraham Institute;|Horizon Discovery;|Radboud University;|Radbound University
http://dx.doi.org/10.1101/092643 2016-12-08 Bioengineering CC BY-NC-ND Fast and Stable Signal Deconvolution via Compressible State-Space Models Abbas Kazemipour|Ji Liu|Krystyna Solarana|Daniel A. Nagode|Patrick O. Kanold|Min Wu|Behtash Babadi University of Maryland, College Park
http://dx.doi.org/10.1101/092445 2016-12-08 Genomics CC BY-NC-ND Paired CRISPR/Cas9 guide-RNAs enable high-throughput deletion scanning (ScanDel) of a Mendelian disease locus for functionally critical non-coding elements Molly Gasperini|Gregory M Findlay|Aaron McKenna|Jennifer H Milbank|Choli Lee|Melissa D Zhang|Darren A Cusanovich|Jay Shendure Department of Genome Sciences, University of Washington, Seattle, WA, USA;|Department of Genome Sciences, University of Washington, Seattle, WA, USA.;|Howard Hughes Medical Institute,Seattle, WA, USA
http://dx.doi.org/10.1101/092494 2016-12-08 Genomics CC BY-NC-ND Recombinant DNA resources for the comparative genomics of Ancylostoma ceylanicum. Wadim J Kapulkin|Adriana Magalska|Ewa Janecka|Arkadiusz Ciesielski|Malgorzata Lobocka|Jerzy Behnke|Halina Wedrychowicz Faculty of Veterinary Medicine, Grochowska 272, 03-849 Warsaw, Poland;|Institute for Biochemistry and Biophysics PAS, Pawinskiego 5a, 02-106 Warsaw, Poland;|School of Life Science, University of Nottingham, University Park, NG7 2RD Nottingham, U.K.
http://dx.doi.org/10.1101/092478 2016-12-08 Bioinformatics CC BY-NC Detection and characterization of low and high genome coverage regions using an efficient running median and a double threshold approach. Dimitri Desvillechabrol|Christiane Bouchier|Sean Kennedy|Thomas Cokelaer Institut Pasteur
http://dx.doi.org/10.1101/092460 2016-12-08 Biochemistry CC BY-NC VIP36 preferentially binds to core-fucosylated N-glycans: a molecular docking study Klaus Fiedler Fribourg
http://dx.doi.org/10.1101/092031 2016-12-08 Biochemistry Lysine methyltransferase SETD6 modifies histones and non-histone proteins Olivier Binda Universite Lyon 1
http://dx.doi.org/10.1101/092346 2016-12-08 Genetics Mapping Autosomal Recessive Intellectual Disability: Combined Microarray and Exome Sequencing Identifies 26 Novel Candidate Genes in 192 Consanguineous Families Ricardo Harripaul|Nasim Vasli|Anna Mikhailov|Muhammad Arshad Rafiq|Kirti Mittal|Christian Windpassinger|Taimoor Sheikh|Abdul Noor|Huda Mahmood|Samantha Downey|Maneesha Johnson|Kayla Vleuten|Lauren Bell|Muhammad Ilyas|Falak Sher Khan|Valeed Khan|Mohammad Moradi|Muhammad Ayaz|Farooq Naeem|Abolfazl Heidari|Iltaf Ahmed|Shirin Ghadami|Zehra Agha|Sirous Zeinali|Raheel Qamar|Hossein Mozhdehipanah|Peter John|Asif Mir|Muhammad Ansar|Leon French|Muhammad Ayub|John B Vincent Centre for Addiction and Mental Health;|Institute of Human Genetics, Medical University of Graz, Graz, Austria;|Mount Sinai Hospital;|International Islamic University, Islamabad, Pakistan;|Quaid-i-Azam University, Islamabad, Pakistan;|Qazvin University of Medical Science, Qazvin, Iran;|Lahore Institute of Research & Development, Lahore, Pakistan;|Queens University, Kingston, ON, Canada;|National University of Sciences and Technology (NUST), Islamabad, Pakistan;|Pasteur Institute of Iran, Tehran, Iran;|COMSATS Institute of Information Technology, Islamabad, Pakistan;|Qazvin University of Medical Sciences, Qazvin, Iran;|Centre for Addiction and Mental Health, Toronto, ON, Canada
http://dx.doi.org/10.1101/092585 2016-12-08 Evolutionary Biology CC BY-NC Mobile introns shape the genetic diversity of their host genes Jelena Repar|Tobias Warnecke MRC Clinical Sciences Centre, United Kingdom
http://dx.doi.org/10.1101/092486 2016-12-08 Developmental Biology CC BY-ND The architectural balance of the Ventral Nerve Cord depends on the level of JNK signaling activity Katerina Karkali|George Panayotou|Timothy E Saunders|Enrique Martin-Blanco IBMB (CSIC);|BSRC Alexander Fleming;|Mechanobiology Institute
http://dx.doi.org/10.1101/089698 2016-12-08 Pharmacology and Toxicology CC BY-NC-ND Perfluorooctane sulfonate affects proliferation and differentiation of pluripotent human teratocarcinoma cells Mina Popovic|Brett A Neilan|Francesco Pomati University of Ghent;|University of New South Wales;|Eawag, Swiss Federal Institue of Water Science and Technology
http://dx.doi.org/10.1101/090712 2016-12-08 Neuroscience CC BY-NC-ND Decoding the nonconscious dynamics of thought generation Roger Koenig-Robert|Joel Pearson University of New South Wales
http://dx.doi.org/10.1101/082842 2016-12-08 Genetics CC BY-NC-ND The detection of covariation of mRNA levels of large sets of genes across multiple human populations Yu Quan|Chao Xie|Rohan B. H. Williams|Peter Little Life Sciences Institute, National University of Singapore;|Singapore Centre for Environmental Life Sciences Engineering, National University of Singapore
http://dx.doi.org/10.1101/092403 2016-12-08 Systems Biology CC BY Systematic morphological profiling of human gene and allele function reveals Hippo-NF-κB pathway connectivity Mohammad Hossein Rohban|Shantanu Singh|Xiaoyun Wu|Julia B Berthet|Mark-Anthony Bray|Yashaswi Shrestha|Xaralabos Varelas|Jesse S Boehm|Anne E Carpenter Broad Institute of MIT and Harvard;|Boston University;|Novartis
http://dx.doi.org/10.1101/092387 2016-12-08 Biophysics CC BY-NC-ND Decoding Single Molecule Time Traces with Dynamic Disorder Wonseok Hwang|Il-Buem Lee|Seok-Cheol Hong|Changbong Hyeon Korea Institute of Advanced Study;|Korea University;|Korea Institute for Advanced Study
http://dx.doi.org/10.1101/092734 2016-12-09 Genetics CC BY-NC-ND A framework to interpret short tandem repeat variation in humans Melissa Gymrek|Thomas Willems|David E. Reich|Yaniv Erlich University of California San Diego;|MIT;|Harvard Medical School;|New York Genome Center
http://dx.doi.org/10.1101/092924 2016-12-09 Biophysics CC BY Impact of implementation choices on quantitative predictions of cell-based computational models Jochen Kursawe|Ruth E Baker|Alexander G Fletcher University of Oxford;|University of Sheffield
http://dx.doi.org/10.1101/092940 2016-12-09 Bioinformatics CC BY SNVPhyl: A Single Nucleotide Variant Phylogenomics pipeline for microbial genomic epidemiology Aaron Petkau|Philip Mabon|Cameron Sieffert|Natalie Knox|Jennifer Cabral|Mariam Iskander|Mark Iskander|Kelly Weedmark|Rahat Zaheer|Lee S Katz|Celine Nadon|Aleisha Reimer|Eduardo Taboada|Robert G Beiko|William Hsiao|Fiona Brinkman|Morag Graham|Gary Van Domselaar National Microbiology Laboratory, Public Health Agency of Canada;|University of Manitoba;|Health Canada - Bureau of Microbial Hazards;|Lethbridge Research and Development Centre;|Centers for Disease Control and Prevention;|Dalhousie University;|BC Public Health Microbiology and Reference Laboratory;|Simon Fraser University
http://dx.doi.org/10.1101/092932 2016-12-09 Evolutionary Biology CC BY-NC-ND Antisocial rewarding in structured populations Miguel dos Santos|Jorge Pena University of Oxford;|Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/092916 2016-12-09 Bioinformatics CC BY-ND Easy and Accurate Reconstruction of Whole HIV Genomes from Short-Read Sequence Data Chris Wymant|Francois Blanquart|Astrid Gall|Margreet Bakker|Daniela Bezemer|Nicholas J Croucher|Tanya Golubchik|Matthew Hall|Mariska Hillebregt|Swee Hoe Ong|Jan Albert|Norbert Bannert|Jacques Fellay|Katrien Fransen|Annabelle Gourlay|M. Kate Grabowski|Barbara Gunsenheimer-Bartmeyer|Huldrych Gunthard|Pia Kivela|Roger Kouyos|Oliver Laeyendecker|Kirsi Liitsola|Laurence Meyer|Kholoud Porter|Matti Ristola|Ard van Sighem|Guido Vanham|Ben Berkhout|Marion Cornelissen|Paul Kellam|Peter Reiss|Christophe Fraser University of Oxford;|Imperial College London;|Wellcome Trust Sanger Institute;|Academic Medical Center of the University of Amsterdam;|Stichting HIV Monitoring;|Karolinska Institutet;|Robert Koch Institute;|Ecole Polytechnique Federale de Lausanne;|Institute of Tropical Medicine, Antwerpen;|University College London;|John Hopkins University;|Robert Koch-Institute;|University of Zurich;|Helsinki University Hospital;|Laboratory of Immunoregulation, NIAID, NIH;|Université Paris Sud;|Kymab Ltd, Cambridge
http://dx.doi.org/10.1101/092866 2016-12-09 Evolutionary Biology The Evolution of Primate Body Size: Left-skewness, Maximum Size, and Cope's Rule Richard C. Tilquist|Lauren G Shoemaker|Kevin Bracy Knight|Aaron Clauset University of Colorado
http://dx.doi.org/10.1101/092817 2016-12-09 Scientific Communication and Education CC BY On the origin of nonequivalent states: how we can talk about preprints Cameron Neylon|Damian Pattinson|Geoffrey Bilder|Jennifer Lin Centre for Culture and Technology, Curtin University;|Research Square;|Crossref
http://dx.doi.org/10.1101/092544 2016-12-09 Genomics Evaluation on Efficient Detection of Structural Variants at Low Coverage by Long-Read Sequencing Li Fang|Jiang Hu|Depeng Wang|Kai Wang Grandomics Biosciences, Beijing 102206, China;|Institute for Genomic Medicine, Columbia University Medical Center, New York, NY 10032, USA; Departm
http://dx.doi.org/10.1101/092841 2016-12-09 Cancer Biology CC BY-ND Familial heterogeneity in breast cancer predisposition: a study of 22 Utah families Elizabeth O'Brien|Richard A Kerber|Raymond L White University of Louisville;|University of California San Francisco
http://dx.doi.org/10.1101/092833 2016-12-09 Zoology CC BY-NC-ND Evidence for Philopatry and Homing in a New World Elapid Snake Alexander S. Hall|Abigail M. K. Vazquez-Quinto|Antonio Ramirez-Velazquez|Eric N. Smith The University of Texas at Arlington;|Zoológico Regional Miguel Álvarez del Toro
http://dx.doi.org/10.1101/091967 2016-12-09 Ecology Direct and context-dependent effects of light, temperature, and phytoplankton shape bacterial community composition Sara Paver|Angela Kent University of Illinois Urbana-Champaign
http://dx.doi.org/10.1101/092353 2016-12-09 Molecular Biology CC BY-NC Yorkie is required to restrict the injury responses in planarians Alexander Y.T. Lin|Bret J Pearson University of Toronto;|Hospital for Sick Children
http://dx.doi.org/10.1101/092882 2016-12-09 Microbiology Paradoxes in Leaky Microbial Trade Yoav Kallus|John Miller|Eric Libby Santa Fe Institute
http://dx.doi.org/10.1101/092825 2016-12-09 Bioinformatics CC BY-ND High-dimensional regression over disease subgroups Frank Dondelinger|Sach Mukherjee Lancaster University;|German Centre for Neurodegenerative Diseases
http://dx.doi.org/10.1101/092874 2016-12-09 Genetics Genetic variation and gene expression across multiple tissues and developmental stages in a non-human primate Anna J Jasinska|Ivette Zelaya|Susan K Service|Christine Peterson|Rita M Cantor|Oi-Wa Choi|Joseph DeYoung|Eleazar Eskin|Lynn A Fairbanks|Scott Fears|Allison Furterer|Yu S Huang|Vasily Ramensky|Christopher A Schmitt|Hannes Svardal|Matthew J Jorgensen|Jay R Kaplan|Diego Villar|Bronwen L Aken|Paul Flicek|Rishi Nag|Emily S Wong|John Blangero|Thomas D Dyer|Marina Bogomolov|Yoav Benjamini|George M Weinstock|Ken Dewar|Chiara Sabatti|Richard K Wilson|J David Jentsch|Wesley Warren|Giovanni Coppola|Roger P Woods|Nelson B Freimer UCLA;|MD Anderson Cancer Center;|Wellcome Trust Sanger Institute;|Wake Forest School of Medicine;|University of Cambridge;|EMBL-EBI;|UTHSCSA/UTRGV;|Technicon;|Tel Aviv University;|The Jackson Laboratory for Genomic Medicine;|McGill University;|Stanford University;|The McDonnell Genome Institute
http://dx.doi.org/10.1101/092742 2016-12-09 Bioinformatics CC BY Simple adjustment of the sequence weight algorithm remarkably enhances PSI-BLAST performance Toshiyuki Oda|Kyungtaek Lim|Kentaro Tomii AIST
http://dx.doi.org/10.1101/092569 2016-12-09 Neuroscience In vivo magnetic recording of neuronal activity Laure Caruso|Thomas Wunderle|Christopher Murphy Lewis|Joao Valadeiro|Vincent Trauchessec|Josue Trejo-Rosillo|Jose Pedro Amaral|Jianguang Ni|Claude Fermon|Susana Cardoso|Paulo Peixeiro Freitas|Pascal Fries|Myriam Pannetier-Lecoeur SPEC, CEA, CNRS, Universite Paris-Saclay, CEA Saclay;|Ernst Strüngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|Instituto de Engenharia de Sistemas de Computadores-Microsystems and Nanotechnology (INESC-MN)
http://dx.doi.org/10.1101/092767 2016-12-09 Systems Biology Genomic determinants of protein abundance variation in colorectal cancer cells Theodoros I. Roumeliotis|Steven Paul Williams|Emanuel Goncalves|Fatemeh Zamanzad Ghavidel|Nanne Aben|Magali Michaut|Michael Schubert|James C. Wright|Mi Yang|Clara Alsinet|Rodrigo Dienstmann|Justin Guinney|Pedro Beltrao|Alvis Brazma|Oliver Stegle|David J. Adams|Lodewyk Wessels|Julio Saez-Rodriguez|Ultan McDermott|Jyoti S. Choudhary Wellcome Trust Sanger Institute;|European Molecular Biology Laboratory, European Bioinformatics Institute;|The Netherlands Cancer Institute;|European Molecular Biology Laborattory, European Bioinformatics Institute, Wellcome Trust Genome Cam;|RWTH Aachen University;|Sage Bionetworks, Fred Hutchinson Cancer Research Center;|Computational Cancer Biology, The Netherlands Cancer Institute, Amsterdam, The Netherlands
http://dx.doi.org/10.1101/091009 2016-12-09 Genetics Practical Use of Methods for Imputation of HLA Alleles from SNP Genotype Data Allan Motyer|Damjan Vukcevic|Alexander Dilthey|Peter Donnelly|Gil McVean|Stephen Leslie University of Melbourne;|National Human Genome Research Institute, National Institutes of Health;|Wellcome Trust Centre for Human Genetics, University of Oxford
http://dx.doi.org/10.1101/092791 2016-12-09 Cell Biology CC BY-NC DYNC1H1 mutations associated with neurological diseases compromise processivity of dynein-dynactin-cargo adaptor complexes Ha Thi Hoang|Max A Schlager|Andrew P Carter|Simon L Bullock MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/090696 2016-12-09 Systems Biology CC BY MultiCellDS: a standard and a community for sharing multicellular data Samuel H. Friedman|Alexander R.A. Anderson|David M. Bortz|Alexander G. Fletcher|Hermann B. Frieboes|Ahmadreza Ghaffarizadeh|David Robert Grimes|Andrea Hawkins-Daarud|Stefan Hoehme|Edwin F. Juarez|Carl Kesselman|Roeland M.H. Merks|Shannon M. Mumenthaler|Paul K. Newton|Kerri-Ann Norton|Rishi Rawat|Russell C. Rockne|Daniel Ruderman|Jacob Scott|Suzanne S. Sindi|Jessica L. Sparks|Kristin Swanson|David B. Agus|Paul Macklin University of Southern California;|Moffitt Cancer Center;|University of Colorado, Boulder;|University of Sheffield;|University of Louisville;|University of Oxford;|Mayo Clinic;|University of Leipzig;|Centrum Wiskunde & Informatica;|Johns Hopkins University;|City of Hope;|Cleveland Clinic;|University of California, Merced;|Miami University
http://dx.doi.org/10.1101/092700 2016-12-09 Evolutionary Biology CC BY-NC-ND Phenotypic plasticity promotes recombination and gene clustering in periodic environments Davorka Gulisija|Joshua Plotkin University of Pennsylvania
http://dx.doi.org/10.1101/092718 2016-12-09 Evolutionary Biology CC BY-NC-ND Phenotypic plasticity can facilitate evolutionary rescue Oana Carja|Joshua B. Plotkin University of Pennsylvania
http://dx.doi.org/10.1101/092650 2016-12-09 Developmental Biology CC BY-ND The Dachsous/Fat/Four-jointed pathway implements axial long-range cell orientation Federica Mangione|Enrique Martin-Blanco IBMB (CSIC)
http://dx.doi.org/10.1101/092726 2016-12-09 Bioinformatics LOCALIZER: subcellular localization prediction of plant and effector proteins in the plant cell Jana Sperschneider|Ann-Maree Catanzariti|Kathleen DeBoer|Benjamin Petre|Donald Gardiner|Karam Singh|Peter Dodds|Jennifer Taylor CSIRO;|UWA;|Sainsbury Laboratory
http://dx.doi.org/10.1101/092577 2016-12-09 Microbiology CC BY-NC-ND Cas13b is a Type VI-B CRISPR-associated RNA-Guided RNase differentially regulated by accessory proteins Csx27 and Csx28 Aaron Smargon|David B.T. Cox|Neena Pyzocha|Kaijie Zheng|Ian M Slaymaker|Jonathan S Gootenberg|Omar A Abudayyeh|Patrick Essletzbichler|Sergey Shmakov|Kira S Makarova|Eugene V Koonin|Feng Zhang Broad Institute and MIT;|NIH
http://dx.doi.org/10.1101/093047 2016-12-10 Cancer Biology CC BY-NC KIF21A influences breast cancer metastasis and survival Anton Joseph Lucanus|George W Yip|Victoria King University of Western Australia;|National University of Singapore
http://dx.doi.org/10.1101/092973 2016-12-09 Neuroscience Random versus maximum entropy models of neural population activity Ulisse Ferrari|Tomoyuki Obuchi|Thierry Mora Universite Pierre et Marie Curie;|Tokyo Institute of Technology;|Ecole normale superieure
http://dx.doi.org/10.1101/093005 2016-12-09 Neuroscience CC BY Variability and stability of large-scale cortical oscillation patterns Roy Cox|Anna Schapiro|Robert Stickgold Beth Israel Deaconess Medical Center / Harvard Medical School
http://dx.doi.org/10.1101/092957 2016-12-09 Neuroscience CC BY-NC-ND Early survival and delayed death of developmentally-born dentate gyrus neurons Shaina P Cahill|Ru Qi Yu|Dylan C Green|Evgenia V Todorova|Jason Scott Snyder University of British Columbia
http://dx.doi.org/10.1101/092981 2016-12-09 Neuroscience Neurons in the mouse deep superior colliculus encode orientation/direction through suppression and extract selective visual features Shinya Ito|David A Feldheim|Alan M Litke University of California, Santa Cruz
http://dx.doi.org/10.1101/093229 2016-12-11 Zoology Deploying dengue-suppressing Wolbachia: robust models predict slow but effective spatial spread in Aedes aegypti Michael Turelli|Nicholas Barton University of California;|Institute of Science and Technology, Austria
http://dx.doi.org/10.1101/093161 2016-12-11 Bioinformatics CC BY Historian: accurate reconstruction of ancestral sequences and evolutionary rates Ian H Holmes University of California at Berkeley
http://dx.doi.org/10.1101/093138 2016-12-11 Neuroscience CC BY-NC-ND RL mechanisms of short-term plasticity of auditory cortex Elena Krugliakova|Alexey Gorin|Anna Shestakova|Tommaso Fedele|Vasily Klucharev Centre for Cognition and Decision Making, National Research University Higher School of Economics;|Neurosurgery Department, University Hospital Zurich, Zurich, Switzerland
http://dx.doi.org/10.1101/093112 2016-12-11 Ecology CC BY-NC-ND Using social media to quantify spatial and temporal dynamics of wildlife tourism activities Francesca Mancini|George M Coghill|David Lusseau University of Aberdeen
http://dx.doi.org/10.1101/093096 2016-12-11 Evolutionary Biology CC BY-NC-ND Repeated losses of PRDM9-directed recombination despite the conservation of PRDM9 across vertebrates Zachary Baker|Molly Schumer|Yuki Haba|Chris Holland|Gil G Rosenthal|Molly Przeworski Columbia University;|Dept. of Biological Sciences, Columbia University;|Dept. of Evolution, Ecology and Environmental Biology, Columbia University;|Centro de Investigaciones Cientificas de las Huastecas Aguazarca;|Dept. of Systems Biology, Columbia University
http://dx.doi.org/10.1101/092452 2016-12-11 Ecology CC BY-NC-ND Use of phenylacetonitrile plus acetic acid to monitor Pandemis pyrusana (Lepidoptera: Tortricidae) in apple Ashraf El-Sayed|David Max Suckling Plant and Food Research
http://dx.doi.org/10.1101/092999 2016-12-11 Genetics CC BY Detecting ancient positive selection in humans using extended lineage sorting Stephane Peyregne|Michael Dannemann|Kay Prufer Departement of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/093153 2016-12-11 Evolutionary Biology CC BY-NC-ND Fitness landscapes reveal simple strategies for steering evolution to minimize antibiotic resistance Maria Smith|Sarah Cobey University of Chicago
http://dx.doi.org/10.1101/093104 2016-12-11 Cell Biology Non Diaphanous Formin Delphilin Acts as a Barbed End Capping Protein Priyanka Dutta|SANKAR MAITI Indian Institute of Science Education and Research Kolkata
http://dx.doi.org/10.1101/093070 2016-12-11 Evolutionary Biology Conserved Non-exonic Elements: A Novel Class of Marker for Phylogenomics Scott V. Edwards|Alison Cloutier|Allan J. Baker Harvard University;|Royal Ontario Museum
http://dx.doi.org/10.1101/089458 2016-12-11 Neuroscience CC BY-NC-ND Transcriptional signatures of connectomic subregions of the human striatum Linden Parkes|Ben Fulcher|Murat Yucel|Alex Fornito Monash University
http://dx.doi.org/10.1101/093211 2016-12-11 Genomics CC BY-NC-ND Microbial Genome-Wide Association Studies: Lessons from Human GWAS Robert Power|Julian Parkhill|Tulio de Oliveira Africa Health Research Institute;|Sanger Institute;|University of KwaZulu-Natal
http://dx.doi.org/10.1101/093021 2016-12-11 Bioinformatics CC BY Cox-nnet: an artificial neural network Cox regression for prognosis prediction Travers Ching|Xun Zhu|Lana Garmire University of Hawaii Cancer Center, United States
http://dx.doi.org/10.1101/093203 2016-12-11 Neuroscience CC BY-NC-ND The computations underlying human confidence reports are probabilistic, but not Bayesian William T Adler|Wei Ji Ma New York University
http://dx.doi.org/10.1101/093120 2016-12-11 Evolutionary Biology Darwinian Selection Induces Lamarckian Adaptation in a Holobiont Model Dino Osmanovic|David A Kessler|Yitzhak Rabin|Yoav Soen Bar Ilan University;|Weizmann Institute of Science
http://dx.doi.org/10.1101/093195 2016-12-11 Systems Biology Cell-to-cell variability in the yeast pheromone response: Cytoplasmic microtubule function stabilizes signal generation and promotes accurate fate choice Gustavo Pesce|Stefan Zdraljevic|Alan Bush|Victoria Repetto|William Peria|Richard C. Yu|Alejandro Colman-Lerner|Roger Brent The former Molecular Sciences Institute;|IFIBYNE-UBA-CONICET and Departamento de Fisiologia, Biologia Molecular y Celular, Facultad de Cienci;|Division of Basic Sciences, Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/093187 2016-12-11 Systems Biology Cell-to-cell variability in the yeast pheromone response: high throughput screen identifies genes with different effects on transmitted signal and response C. Gustavo Pesce|William Peria|Stefan Zdraljevic|Dan Rockwell|Richard C. Yu|Alejandro Colman-Lerner|Roger Brent The former Molecular Sciences Institute;|FHCRC;|IFIBYNE-UBA-CONICET and Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/093054 2016-12-10 Cell Biology The centrosome is a selective phase that nucleates microtubules by concentrating tubulin Jeffrey B Woodruff|Beatriz Ferreira Gomes|Per O Widlund|Julia Mahamid|Anthony A Hyman Max Planck Institute of Molecular Cell Biology and Genetics, Pfotenhauerstrasse 108, 01307 Dresden,;|Department of Chemistry and Molecular Biology, University of Gothenburg, Medicinaregatan 9 c, 40530;|Department of Molecular Structural Biology, Max Planck Institute of Biochemistry, Martinsried 82152,
http://dx.doi.org/10.1101/093575 2016-12-12 CC BY-NC-ND Genetic overlap between educational attainment, schizophrenia and autism Varun Warrier|Richard A.I. Bethlehem|Daniel Geschwind|Simon Baron-Cohen University of Cambridge;|UCLA
http://dx.doi.org/10.1101/093237 2016-12-12 Bioinformatics CC BY-NC Correcting Chimeric Crosstalk in Single Cell RNA-seq Experiments Atray Dixit MIT, Broad Institute
http://dx.doi.org/10.1101/093369 2016-12-12 Genomics CC BY Chromosomal rearrangements are commonly post-transcriptionally attenuated in cancer Emanuel Goncalves|Athanassios Fraguais|Luz Garcia-Alonso|Thorsten Cramer|Julio Saez-Rodriguez|Pedro Beltrao EMBL-EBI;|RWTH Aachen University;|European Bioinformatics Institute
http://dx.doi.org/10.1101/093450 2016-12-12 Genomics CC BY A bioinformatic panel to interrogate thousands of ExAC variants with minor reference allele that are missed by conventional variant calling Mahmoud Koko|Mohammed Omar Elsiddieg Abdallah|Mutaz Amin|Muntaser Ibrahim Institute of Endemic Diseases University of Khartoum;|Faculty of Medicine University of Khartoum
http://dx.doi.org/10.1101/093393 2016-12-12 Cancer Biology BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes Ines de Santiago|Martin O'Reilly|Ke Yuan|Chandra SR Chilamakuri|Bruce AJ Ponder|Kerstin B Meyer|Florian Markowetz University of Cambridge, UK
http://dx.doi.org/10.1101/093377 2016-12-12 Biophysics The impact of a simple α helical transmembrane peptide on lipid membrane dynamics Marie Olsinova|Piotr Jurkiewicz|Jan Sykora|Jan Sabo|Martin Hof|Lukasz Cwiklik|Marek Cebecauer J. Heyrovsky Institute of Physical Chemistry of the CASy;|J. Heyrovsky Institute of Physical Chemistry of the CAS;|J. Heyrovsky Institute of Physical Chemistry of the CAS, v. v. i.
http://dx.doi.org/10.1101/093492 2016-12-12 Cell Biology Protein phosphatase 1 down regulates ZYG-1 levels to limit centriole duplication Nina Peel|Jyoti Iyer|Anar Naik|Michael P Dougherty|Markus Decker|Kevin F O'Connell The College of New Jersey;|NIDDK, NIH;|TCNJ;|Genentech Inc
http://dx.doi.org/10.1101/093435 2016-12-12 Biophysics Stochastic Model for Direction Changes of Swimming Bacteria Guido Fier|David Hansmann|Ruben Carlos Buceta Instituto de Investigaciones Fisicas de Mar del Plata, UNMdP and CONICET;|Departamento de Fisica, FCEyN, Universidad Nacional de Mar del Plata
http://dx.doi.org/10.1101/093476 2016-12-12 Biophysics CC BY-NC-ND CTCF and Cohesin Regulate Chromatin Loop Stability with Distinct Dynamics Anders S Hansen|Iryna Pustova|Claudia Cattoglio|Robert Tjian|Xavier Darzacq UC Berkeley/HHMI;|UC Berkeley
http://dx.doi.org/10.1101/090159 2016-12-12 Biophysics CC BY-NC-ND Charge influences substrate recognition and self-assembly of hydrophobic FG sequences Wesley G Chen|Jacob Witten|Scott C Grindy|Niels Holten-Andersen|Katharina Ribbeck Massachusetts Institute of Technology
http://dx.doi.org/10.1101/093344 2016-12-12 Epidemiology CC BY Detecting telomere elongation in longitudinal datasets: Analysis of a proposal by Simons, Stulp and Nakagawa Daniel Nettle|Melissa Bateson Newcastle University
http://dx.doi.org/10.1101/093278 2016-12-12 Neuroscience MicroRNA exocytosis by large dense-core vesicle fusion Alican Gumurdu|Ramazan Yildiz|Erden Eren|Gokhan Karakulah|Turgay Unver|Sermin Genc|Yongsoo Park Izmir International Biomedicine and Genome Institute (iBG-izmir), Dokuz Eylul University
http://dx.doi.org/10.1101/093245 2016-12-12 Bioinformatics CC BY BioMake: a GNU Make-compatible utility for declarative workflow management Ian H Holmes|Christopher J Mungall University of California at Berkeley;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/091108 2016-12-12 Biochemistry Preliminary investigation of Incorporation and Viability of Crystal Violet in Aspergillus flavus Luanda Caroline Parreira de Paula|Daniel Guerra Franco|Clarice Rossatto Marchetti|Giovana Cristina Giannesi|Fabiana Fonseca Zanoelo|Carla Santos de Oliveira Universidade Federal de Mato Grosso do Sul
http://dx.doi.org/10.1101/093179 2016-12-12 Biochemistry CC BY Genetic variation and RNA structure regulate microRNA biogenesis Noemi Fernandez|Ross A. Cordiner|Robert S. Young|Nele Hug|Sara Macias|Javier Fernando Caceres MRC Human Genetics Unit, University of Edinburgh;|MRC Human Genetics Unit. MRC IGMM. University of Edinburgh
http://dx.doi.org/10.1101/093294 2016-12-12 Cell Biology CC BY Parkin knockout inhibits neuronal development via regulation of proteasomal degradation of p21 Mi Hee Park|Hwa Jeong Lee|Hye Lim Lee|Dong Ju Son|Jung Hoon Ju|Byung Kook Hyun|Sung Hee Jung|Ju-Kyoung Song|Dong-Hoon Lee|Chul-Ju Hwang|Sang Bae Han|Sanghyeon Kim|Jin Tae Hong Chungbuk National University;|SMRI Laboratory of Brain Research
http://dx.doi.org/10.1101/093252 2016-12-12 Genetics CC BY-NC The sek-1 p38 MAP kinase pathway regulates Gq signaling in C. elegans Jill M Hoyt|Samuel K Wilson|Madhuri Kasa|Jeremy S Rise|Irini Topalidou|Michael Ailion University of Washington, United States
http://dx.doi.org/10.1101/093310 2016-12-12 Cancer Biology VHL inactivation without hypoxia is sufficient to achieve genome hypermethylation Artem V Artemov|Nadezhda Zhigalova|Svetlana Zhenilo|Alexander M Mazur|Egor B Prokhortchouk Institute of Bioengineering, Research Center of Biotechnology RAS, Moscow, Russian Federation
http://dx.doi.org/10.1101/093716 2016-12-13 Microbiology VIRUS-HOST INFECTION DYNAMICS OF MARINE SINGLE-CELLED EUKARYOTES RESOLVED FROM METATRANSCRIPTOMICS Mohammad Moniruzzaman|Louie L Wurch|Harriet Alexander|Sonya T Dyhrman|Christopher J Gobler|Steven W Wilhelm University of Tennessee;|James Madison University;|Department of Earth and Environmental Science and Lamont-Doherty Earth Observatory, Columbia;|School of Marine and Atmospheric Sciences, Stony Brook University, Stony Brook, NY
http://dx.doi.org/10.1101/093419 2016-12-13 Neuroscience Quantitative Analysis of Dopamine Neuron Subtypes Generated from Mouse Embryonic Stem Cells Yu-Ting L. Dingle|Katherine Xiong|Jason T. Machan|Kimberly A. Seymour|Debra Ellisor|Diane Hoffman-Kim|Mark Zervas Tufts University;|University of Texas Southwestern Medical Center;|Departments of Orthopedics and Surgery at Rhode Island Hospital and The Warren Alpert Medical School;|Department of Molecular Biology, Cell Biology, and Biochemistry, Brown University;|National Institute of Standards and Technology;|Department of Molecular Pharmacology, Physiology, and Biotechnology, Brown University;|Amgen
http://dx.doi.org/10.1101/093880 2016-12-13 Developmental Biology Nodal secures pluripotency upon embryonic stem cell progression from the ground state Carla Mulas|Tuzer Kalkan|Austin Smith Wellcome Trust - Medical Research Council Stem Cell Institute, University of Cambridge;|WT-MRC Cambridge Stem Cell Institute
http://dx.doi.org/10.1101/093658 2016-12-13 Evolutionary Biology Accumulation of deleterious mutations during bacterial range expansions Lars Bosshard|Isabelle Dupanloup|Olivier Tenaillon|Remy Bruggmann|Martin Ackermann|Stephan Peischl|Laurent Excoffier University of Bern;|University of Berne;|Inserm;|ETHZ
http://dx.doi.org/10.1101/093633 2016-12-13 Neuroscience Openspritzer: an open hardware pressure ejection system for reliably delivering picolitre volumes. Chris J Forman|Hayley Tomes|Buchule Mbobo|Tom Baden|Joseph V Raimondo University of Sussex;|University of Cape Town
http://dx.doi.org/10.1101/093773 2016-12-13 Plant Biology Defining the genetic architecture of stripe rust resistance in the barley accession HOR 1428 Shaun Clare|William Kitcher|Matthew Gardiner|Phon Green|Amelia Hubbard|Matthew James Moscou The Sainsbury Laboratory;|National Institute of Agricultural Botany
http://dx.doi.org/10.1101/093666 2016-12-13 Molecular Biology CC BY-NC-ND Genome-wide analysis of phased nucleosomal arrays reveals the functional characteristic of the nucleosome remodeler ACF Dhawal S Jain|Sandro Baldi|Angelika Zabel|Tobias Straub|Peter B Becker Biomedical Center, Ludwig-Maximilians-University, Planegg-Martinsried, Germany;|Ludwig Maximilians Univ.
http://dx.doi.org/10.1101/093500 2016-12-13 Neuroscience CC BY-NC-ND The triple-flash illusion reveals a driving role of alpha-band reverberations in visual perception Rasa Gulbinaite|Barkn Ilhan|Rufin VanRullen Meram Medical Faculty, Konya N.E. University, Konya, Turkey;|Centre de Recherche Cerveau et Cognition, CNRS UMR 5549, Toulouse, France
http://dx.doi.org/10.1101/092528 2016-12-13 Genetics CC BY-NC-ND Identifying the diamond in the rough: a study of allelic diversity underlying flowering time adaptation in maize landraces J. Alberto Romero Navarro|Martha Wilcox|Juan Burgueno|Cinta Romay|Kelly Swarts|Samuel Trachsel|Ernesto Preciado|Arturo Terron|Humberto Vallejo Delgado|Victor Vidal|Alejandro Ortega|Armando Espinoza Banda|Noel Orlando Gomez Montiel|Ivan Ortiz-Monasterio|Felix San Vicente|Armando Guadarrama Espinoza|Gary Atlin|Peter Wenzl|Sarah Hearne|Edward S. Buckler School of Integrative Plant Sciences, Cornell University;|International Maize and Wheat Improvement Center (CIMMYT);|Institute for Genomic Diversity, Cornell University;|Instituto Nacional de Investigaciones Forestales Agricolas y Pecuarias (INIFAP);|Universidad Autonoma Agraria Antonio Narro;|US Department of Agriculture, Agriculture Research Service
http://dx.doi.org/10.1101/093682 2016-12-13 Plant Biology CC BY-NC-ND Architecture and dynamics of the jasmonic acid gene regulatory network Richard J. Hickman|Marcel C. Van Verk|Anja J.H. Van Dijken|Marciel Pereira Mendes|Irene A. Vos|Lotte Caarls|Merel Steenbergen|Ivo Van Der Nagel|Gert Jan Wesselink|Aleksey Jironkin|Adam Talbot|Johanna Rhodes|Michel De Vries|Robert C. Schuurink|Katherine J. Denby|Corne M.J. Pieterse|Saskia Van Wees Utrecht University;|University of Warwick;|University of Amsterdam;|University of York
http://dx.doi.org/10.1101/093625 2016-12-13 Bioinformatics CC BY-ND DiffTAD: Detecting Differential contact frequency in Topologically Associating Domains Hi-C experiments between conditions Rafal Zaborowski|Bartek Wilczynski University of Warsaw
http://dx.doi.org/10.1101/093617 2016-12-13 Systems Biology CC BY-NC-ND A space-jump derivation for non-local models of cell-cell adhesion and non-local chemotaxis Andreas Buttenschoen|Thomas Hillen|Alf Gerisch|Kevin Painter University of Alberta;|Technische Universitaet Darmstadt;|Heriot-Watt University
http://dx.doi.org/10.1101/093740 2016-12-13 Ecology CC BY-NC-ND Trade-offs in the use of multiple survey methods for spiders and harvestmen assemblages in an Amazonian upland forest Ana Lucia Tourinho|Sidclay C Dias|Nancy Lo Man Hung|Ricardo Pinto-da-Rocha|Fabricio B Baccaro|Alexandre B Bonaldo Harvard University;|Instituto Nacional de Pesquisas da Amazonia;|Museu Paraense Emilio Goeldi;|Universidade Federal de Sao Paulo;|Universidade Federal do Amazonas
http://dx.doi.org/10.1101/093856 2016-12-13 Evolutionary Biology CC BY Comparative genomics of beetle-vectored fungal pathogens reveals a reduction in genome size and independent evolution of pathogenicity of two tree pathogens Taruna A Schuelke|Anthony Westbrook|Keith Woeste|David Plachetzki|Kirk Broders|Matthew MacManes University of New Hampshire;|USDA Forest Service;|Colorado State University
http://dx.doi.org/10.1101/093781 2016-12-13 Ecology CC BY-NC Critical minimum temperature limits xylogenesis and maintains treelines on the Tibetan Plateau Xiaoxia Li|Eryuan Liang|Jozica Gricar|Sergio Rossi|Katarina Cufar|Aaron Ellison institute of Tibetan Plateau Research, Chinese Academy of Sciences;|Slovenian Forestry Institute;|University of Quebec at Chicoutimi;|University of Ljubljana;|Harvard University
http://dx.doi.org/10.1101/093724 2016-12-13 Neuroscience CC BY Slice-sampled Bayesian PRF mapping Silvan C. Quax|Thomas C. van Koppen|Pasi Jylanki|Serge O. Dumoulin|Marcel A.J. van Gerven Donders Institute, Radboud University;|Donders Institute, Radboud University/Helmholtz Institute, Utrecht University;|Helmholtz Institute, Utrecht University
http://dx.doi.org/10.1101/093708 2016-12-13 Microbiology CC BY A polymerisation-associated conformational switch in FtsZ that enables treadmilling James Mark Wagstaff|Matt Tsim|Maria A Oliva|Alba Garcia-Sanchez|Danguole Kureisaite-Ciziene|Jose M Andreu|Jan Lowe MRC Laboratory of Molecular Biology;|Centro de Investigaciones Biologicas, CSIC
http://dx.doi.org/10.1101/093526 2016-12-13 Genomics CrowdVariant: a crowdsourcing approach to classify copy number variants Peyton Greenside|Justin Zook|Marc Salit|Ryan Poplin|Madeleine Cule|Mark DePristo Stanford University, Verily Life Sciences;|NIST;|NIST, JIMB;|Verily Life Sciences, Google Inc.;|Verily Life Sciences
http://dx.doi.org/10.1101/093559 2016-12-13 Genetics CC BY-ND Improved full-length killer cell immunoglobulin-like receptor transcript discovery in Mauritian cynomolgus macaques Trent M Prall|Michael E Graham|Julie A Karl|Roger W Wiseman|Adam J Ericsen|Muthuswamy Raveendran|R. Alan Harris|Donna M Muzny|Richard A Gibbs|Jeffrey Rogers|David H O'Connor University of Wisconsin Madison;|Baylor College of Medicine
http://dx.doi.org/10.1101/093567 2016-12-13 Microbiology CC BY-NC-ND Insights on the importance of salinity from the first cultured freshwater SAR11 (LD12) representative Michael Winslow Henson|V. Celeste Lanclos|J. Cameron Thrash Louisiana State University
http://dx.doi.org/10.1101/093591 2016-12-13 Evolutionary Biology Correlated Evolution of Metabolic Functions over the Tree of Life Murray Patterson|Thomas Bernard|Daniel Kahn University of Milano-Bicocca;|University of Lyon 1;|University of Lyon 1 and INRA, France
http://dx.doi.org/10.1101/093609 2016-12-13 Evolutionary Biology CC BY-NC-ND Induced defenses alter the strength and direction of natural selection on reproductive traits in common milkweed Ken A. Thompson|Kaitlin A Cory|Marc T.J. Johnson University of Toronto;|University of Toronto Mississauga;|University of Toronto at Mississauga
http://dx.doi.org/10.1101/093534 2016-12-13 Bioinformatics CC BY http://dx.doi.org/10.1101/079087 CONTINUATION: Evaluation of adaptive somatic models in a gold standard whole genome somatic dataset Fabien Campagne Weill Medical College of Cornell University
http://dx.doi.org/10.1101/093468 2016-12-13 Genomics CC BY-NC-ND Ancient individuals from the North American Northwest Coast reveal 10,000 years of regional genetic continuity John Lindo|Alessandro Achilli|Ugo Perego|David Archer|Cristina Valdiosera|Barbara Petzelt|Joycelynn Mitchell|Rosita Worl|E. James Dixon|Terence Fifield|Morten Rasmussen|Eske Willerslev|Jerome Cybulski|Brian Kemp|Michael DeGiorgio|Ripan S. Malhi University of Chicago;|University of Pavia;|3589 Fifth Avenue East, Prince Rupert, B.C.;|La Trobe University;|Metlakatla Treaty Office;|Sealaska Heritage Institute;|University of New Mexico;|University of Alaska Southeast;|Stanford University;|Centre for GeoGenetics, Natural History Museum of Denmark;|Canadian Museum of History;|University of Oklahoma;|Pennsylvania State University;|University of Illinois, Champaign-Urbana
http://dx.doi.org/10.1101/094326 2016-12-14 Genomics CC BY-NC-ND Strong and Fluctuating Sequence Constraints Drive Alu Evolution Aaron C Wacholder|David Pollock UC Denver School of Medicine
http://dx.doi.org/10.1101/094334 2016-12-14 Neuroscience CC BY-NC-ND Stabilized supralinear network dynamics account for stimulus-induced changes of noise variability in the cortex Guillaume Hennequin|Yashar Ahmadian|Daniel B Rubin|Mate Lengyel|Kenneth D Miller University of Cambridge;|University of Oregon;|Harvard Medical School;|Columbia University
http://dx.doi.org/10.1101/094094 2016-12-14 Microbiology Magnitude and mechanism of siderophore-mediated competition in bacterial interactions Konstanze Schiessl|Elisabeth M.-L. Janssen|Stephan M Kraemer|Kristopher McNeill|Martin Ackermann Columbia University;|Swiss Federal Institute of Technology (ETH Zurich);|University of Vienna, Austria
http://dx.doi.org/10.1101/093815 2016-12-14 Neuroscience A theory of working memory without consciousness or sustained activity Darinka Trubutschek|Sebastien Marti|Andres Ojeda|Jean-Remi King|Yuanyuan Mi|Misha Tsodyks|Stanislas Dehaene Inserm-CEA Cognitive Neuroimaging Unit;|University of Oxford;|New York University;|Institute of Basic Medical Sciences;|Weizmann Institute of Science;|College de France
http://dx.doi.org/10.1101/094284 2016-12-14 Bioinformatics CC BY-ND Domain prediction with probabilistic directional context Alejandro Ochoa|Mona Singh Princeton University
http://dx.doi.org/10.1101/093641 2016-12-14 Microbiology Ancient recombination events between human herpes simplex viruses Sonia Burrel|David Boutolleau|Diane Ryu|Henri Agut|Kevin Merkel|Fabian Leendertz|Sebastien Calvignac-Spencer University Hospital La Pitie-Salpetriere - Charles Foix;|Robert Koch-Institut
http://dx.doi.org/10.1101/094037 2016-12-14 Microbiology Reversible metamorphosis in a bacterium Karina Ramijan|Joost Willemse|Eveline Ultee|Joeri Wondergem|Anne van der Meij|Ariane Briegel|Doris Heinrich|Gilles van Wezel|Dennis Claessen Leiden University
http://dx.doi.org/10.1101/094128 2016-12-14 Neuroscience The contribution of area MT to visual motion perception depends on training Liu Liu|Christopher Pack McGill University
http://dx.doi.org/10.1101/094144 2016-12-14 Cell Biology A systematic cell size screen uncovers coupling of growth to division by the p38/HOG network in Candida albicans Adnane Sellam|Julien Chaillot|Jaideep Mallick|Faiza Tebbji|Julien Richard Albert|Michael A Cook|Mike Tyers University Laval;|University of Montreal;|University of British Columbia;|University of Toronto
http://dx.doi.org/10.1101/092890 2016-12-14 Genomics Creating a universal SNP and small indel variant caller with deep neural networks Ryan Poplin|Dan Newburger|Jojo Dijamco|Nam Nguyen|Dion Loy|Sam Gross|Cory Y. McLean|Mark DePristo Google Inc;|Verily Life Sciences;|Google
http://dx.doi.org/10.1101/093963 2016-12-14 Ecology First record of double-edged sword effect of caterpillar-induced plant volatiles in nature Ashraf El Sayed|David Max Suckling The New Zealand Institute for Plant & Food Research Limited
http://dx.doi.org/10.1101/094276 2016-12-14 Bioinformatics CC BY-NC-ND Deep learning is effective for the classification of OCT images of normal versus Age-related Macular Degeneration Cecilia S Lee|Doug M Baughman|Aaron Y Lee University of Washington
http://dx.doi.org/10.1101/093922 2016-12-14 Animal Behavior and Cognition CC BY Localizing hidden regularities with known temporal structure in the EEG evoked response data Aleksandra Kuznetsova|Elena Krugliakova|Alexei Ossadtchi Centre for Cognition and Decision Making, National Research University Higher School of Economics
http://dx.doi.org/10.1101/093906 2016-12-14 Cancer Biology CC BY Rapid identification of optimal drug combinations for personalized cancer therapy using microfluidics Federica Eduati|Ramesh Utharala|Dharanija Madhavan|Ulf Peter Neumann|Thorsten Cramer|Julio Saez-Rodriguez|Christoph A. Merten European Bioinformatics Institute (EMBL-EBI);|European Molecular Biology Laboratory (EMBL);|RWTH University Hospital, Aachen;|RWTH Aachen University, Aachen;|RWTH Aachen University
http://dx.doi.org/10.1101/094045 2016-12-14 Cell Biology Exosomes purified from a single cell type have diverse morphology and composition Davide Zabeo|Aleksander Cvjetkovic|Cecilia Lasser|Martin Schorb|Jan Lotvall|Johanna L Hoog University of Gothenburg;|European Molecular Biology Laboratories
http://dx.doi.org/10.1101/094003 2016-12-14 Bioinformatics Machine-learning annotation of human splicing branchpoints Bethany Signal|Brian S Gloss|Marcel E Dinger|Timothy R Mercer Garvan Institute of Medical Research
http://dx.doi.org/10.1101/094078 2016-12-14 Neuroscience CC BY-NC-ND Impact of gray matter signal regression in resting state and language task functional networks Luis C. T. Herrera|Ana Coan|Ludwing Marenco|Carlos Lenz Cesar|Gabriela Castellano Neurophysics Group, IFGW, UNICAMP, Campinas, SP, Brazil;|Neurology Department, School of Medical Sciences, UNICAMP, Campinas, SP;|Department of Quantum Electronics, IFGW, UNICAMP, Campinas, SP, Brazil
http://dx.doi.org/10.1101/094011 2016-12-14 Bioinformatics On expert curation and sustainability: UniProtKB/Swiss-Prot as a case study Sylvain Poux|Cecilia N. Arighi|Michele Magrane|Alex Bateman|Chih-Hsuan Wei|Zhiyong Lu|Emmanuel Boutet|Hema Bye-A-Jee|Maria Livia Famiglietti|Bernd Roechert SIB Swiss Institute of Bioinformatics;|Protein Information Resource, University of Delaware;|European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI);|National Center for Biotechnology Information (NCBI), US National Library of Medicine
http://dx.doi.org/10.1101/094177 2016-12-14 Bioinformatics CC BY-ND Repliscan: a tool for classifying replication timing regions Gregory J Zynda|Jawon Song|Lorenzo Concia|Emily E Wear|Linda Hanley-Bowdoin|William F Thompson|Matthew W Vaughn Texas Advanced Computing Center, University of Texas at Austin;|Department of Plant and Microbial Biology, North Carolina State University
http://dx.doi.org/10.1101/094086 2016-12-14 Evolutionary Biology Individual- versus group-optimality in the production of secreted bacterial compounds Konstanze Schiessl|Adin Ross-Gillespie|Daniel M Cornforth|Michael Weigert|Colette Bigosch|Sam P Brown|Martin Ackermann|Rolf Kummerli Columbia University;|University of Zürich, Switzerland;|University of Texas, Austin, USA;|Swiss Federal Institute of Aquatic Science and Technology (Eawag);|University of Edinburgh, UK;|Swiss Federal Institute of Technology (ETH Zurich)
http://dx.doi.org/10.1101/094052 2016-12-14 Biophysics CC BY-NC-ND Diffusion or advection? Mass transfer and diffusive boundary layer landscapes of the brown alga Fucus vesiculosus Mads Lichtenberg|Rasmus Dyrmose Noerregaard|Michael Kuhl University of Copenhagen, Marine Biological Section, Department of Biology;|Aarhus University, Arctic Research Center, Department of Bioscience
http://dx.doi.org/10.1101/093351 2016-12-14 Neuroscience CC BY-NC-ND Fractone bulbs derive from ependymal cells and their laminin composition affects cell proliferation in the subventricular zone Marcos Assis Nascimento|Tatiana Coelho-Sampaio|Lydia Sorokin University of Muenster / Federal University of Rio de Janeiro;|Federal University of Rio de Janeiro;|University of Muenster
http://dx.doi.org/10.1101/094169 2016-12-14 Microbiology CC BY-NC-ND Novel chromosome organization pattern in actinomycetales-overlapping replication cycles combined with diploidy Kati Boehm|Fabian Meyer|Agata Rhomberg|Joern Kalinowski|Catriona Donovan|Marc Bramkamp LMU Munich;|Bielefeld University
http://dx.doi.org/10.1101/093948 2016-12-14 Microbiology CC BY-NC-ND Benefits of siderophore release lie in mediating diffusion limitation at low iron solubility Gabriel Leventhal|Martin Ackermann|Konstanze Schiessl Massachusetts Institute of Technology, USA;|Swiss Federal Institute of Technology Zurich, Switzerland;|Columbia University
http://dx.doi.org/10.1101/094151 2016-12-14 Bioinformatics CC BY The value of prior knowledge in machine learning of complex network systems David Craft|Dana Ferranti|David Krane Harvard Medical School;|Massachusetts General Hospital;|Williams College
http://dx.doi.org/10.1101/094102 2016-12-14 Neuroscience Searching for Principles of Brain Computation Wolfgang Maass Graz University of Technology
http://dx.doi.org/10.1101/094235 2016-12-14 Bioinformatics CC BY-NC-ND Disentangled Long-Read De Bruijn Graphs via Optical Maps Bahar Alipanahi|Leena Salmela|Simon Puglisi|Martin Muggli|Christina Boucher University of Florida;|Helsinki Institute for Information Technology HIIT, University of Helsinki;|Colorado State University
http://dx.doi.org/10.1101/093971 2016-12-14 Bioinformatics HICL table can manipulate all proteins in human complete proteome Zhenhua Xie Graduate School at Shenzhen, Tsinghua University
http://dx.doi.org/10.1101/093518 2016-12-14 Scientific Communication and Education CC BY The sharing of open data: a game-theoretic approach Bradly Alicea Orthogonal Research
http://dx.doi.org/10.1101/094029 2016-12-14 Evolutionary Biology CC BY-NC-ND A simulation-based evaluation of STRUCTURE software for exploring the introduction routes of invasive species Eric Lombaert|Thomas Guillemaud|Emeline Deleury INRA
http://dx.doi.org/10.1101/093989 2016-12-14 Evolutionary Biology CC BY Deconstructing isolation-by-distance: the genomic consequences of limited dispersal Stepfanie Aguillon|John W. Fitzpatrick|Reed Bowman|Stephan J. Schoech|Andrew G. Clark|Graham Coop|Nancy Chen Cornell University;|Archbold Biological Station;|University of Memphis;|UC Davis
http://dx.doi.org/10.1101/093757 2016-12-14 Evolutionary Biology CC BY Universal expressions of population change by the Price equation: natural selection, information, and maximum entropy production Steven A. Frank Univ. of California, Irvine
http://dx.doi.org/10.1101/093799 2016-12-14 Genetics Pharmacogenetics of antidepressant response: a polygenic approach Judit Garcia-Gonzalez|Katherine E. Tansey|Joanna Hauser|Neven Henigsberg|Wolfgang Maier|Ole Mors|Anna Placentino|Marcella Rietschel|Daniel Souery|Tina Zagar|Piotr M. Czerski|Borut Jerman|Henriette N. Buttenschn|Thomas G. Schulze|Astrid Zobel|Anne Farmer|Katherine J. Aitchison|Ian Craig|Peter McGuffin|Michel Giupponi|Nader Perroud|Guido Bondolfi|David Evans|Michael O'Donovan|Tim J. Peters|Jens R. Wendland|Glyn Lewis|Shitij Kapur|Roy Perlis|Volker Arolt|Katharina Domschke|Gerome Breen|Charles Curtis|Lee Sang-Hyuk|Carol Kan|Stephen Newhouse|Hamel Patel|Bernhard T. Baune|Rudolf Uher|Cathryn M. Lewis|Chiara Fabbri Institute of Psychiatry, Psychology and Neuroscience, King's College London;|College of Biomedical and Life Sciences, Cardiff University;|Laboratory of Psychiatric Genetics, Department of Psychiatry, Poznan University of Medical Sciences;|Croatian Institute for Brain Research, Medical School, University of Zagreb;|Department of Psychiatry, University of Bonn;|Aarhus University Hospital / The Lundbeck Foundation Initiative for Integrative Psychiatric Research;|Istituto Di Ricovero e Cura a Carattere Scientifico, Centro San Giovanni di Dio;|Division of Genetic Epidemiology in Psychiatry, Central Institute of Mental Health;|Université Libre de Bruxelles and Psy Pluriel;|Institute of Public Health of the Republic of Slovenia;|Laboratory of Psychiatric Genetics, Poznan University of Medical Sciences;|Institute of Public Health of the Republic of Slovenia / Jozef Stefan Institute;|Department of Clinical Medicine, Aarhus University;|Department of Psychiatry, University of Alberta;|Department of Genetic Medicine and Laboratories, University Hospitals of Geneva;|Department of Psychiatry, University of Geneva;|Center of Excellence for Drug Discovery in Psychiatry, GlaxoSmithKline Medicines Research Centre;|MRC CAiTE Centre, School of Social and Community Medicine, University of Bristol;|MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University;|School of Clinical Sciences, University of Bristol;|Pharma Research and Early Development, F. Hoffmann - La Roche;|Division of Psychiatry, University College London;|Center for Experimental Drugs and Diagnostics, Massachusetts General Hospital;|Department of Psychiatry, University of Münster;|Department of Psychiatry Psychosomatics and Psychotherapy, University of Wuerzburg;|Discipline of Psychiatry, School of Medicine, University of Adelaide;|Department of Psychiatry, Dalhousie University, Halifax;|King's College London / University of Bologna
http://dx.doi.org/10.1101/093914 2016-12-14 Plant Biology CC BY-NC-ND A global co-expression network approach for connecting genes to specialized metabolic pathways in plants Jennifer H Wisecaver|Alexander T Borowsky|Vered Tzin|Georg Jander|Daniel Kliebenstein|Antonis Rokas Vanderbilt University;|Ben Gurion University;|Cornell University;|University of California-Davis
http://dx.doi.org/10.1101/093955 2016-12-14 Ecology Development of 2-phenylethanol plus acetic acid lures to monitor obliquebanded leafroller (Lepidoptera: Tortricidae) under mating disruption Ashraf El Sayed Plant and Food Research
http://dx.doi.org/10.1101/093690 2016-12-14 Neuroscience CC BY-NC-ND Cortical excitability controls the strength of mental imagery Rebecca Keogh|Johanna Bergmann|Joel Pearson University of New South Wales;|Max Plank Institute for Brain Research
http://dx.doi.org/10.1101/092429 2016-12-14 Neuroscience CC BY NeuroNLP: a natural language portal for aggregated fruit fly brain data Nikul H Ukani|Adam Tomkins|Chung-Heng Yeh|Wesley Bruning|Allison L Fenichel|Yiyin Zhou|Yu-Chi Huang|Dorian Florescu|Carlos Luna Ortiz|Paul Richmond|Chung-Chuan Lo|Daniel Coca|Ann-Shyn Chiang|Aurel A Lazar Columbia University;|The University of Sheffield;|National Tsing Hua University
http://dx.doi.org/10.1101/092288 2016-12-14 Neuroscience CC BY The Fruit Fly Brain Observatory: from structure to function Nikul H Ukani|Chung-Heng Yeh|Adam Tomkins|Yiyin Zhou|Dorian Florescu|Carlos Luna Ortiz|Yu-Chi Huang|Cheng-Te Wang|Paul Richmond|Chung-Chuan Lo|Daniel Coca|Ann-Shyn Chiang|Aurel A Lazar Columbia University;|The University of Sheffield;|National Tsing Hua University
http://dx.doi.org/10.1101/092437 2016-12-14 Neuroscience CC BY NeuroGFX: a graphical functional explorer for fruit fly brain circuits Chung-Heng Yeh|Yiyin Zhou|Nikul H Ukani|Aurel A Lazar Columbia University
http://dx.doi.org/10.1101/094672 2016-12-15 CC BY-ND De novo Identification of DNA Modifications Enabled by Genome-Guided Nanopore Signal Processing Marcus H Stoiber|Joshua Quick|Rob Egan|Ji Eun Lee|Susan E Celniker|Robert Neely|Nicholas Loman|Len Pennacchio|James B Brown Lawrence Berkeley National Laboratory;|University of Birmingham
http://dx.doi.org/10.1101/094656 2016-12-15 CC BY-NC-ND Co-occurring eQTLs and mQTLs: detecting shared causal variants and shared biological mechanisms Brandon Pierce|Lint Tong|Maria Argos|Farzana Jasmine|Muhammad Rakibuz-Zaman|Golam Sarwar|Md. Tariqul Islam|Hasan Shahriar|Tariqul Islam|Mahfuzar Rahman|Md. Yunus|Muhammad G. Kibriya|Lin S. Chen|Habibul Ahsan University of Chicago;|University of Illinois at Chicago;|UChicago Research Bangladesh;|BRAC;|ICDDR,B
http://dx.doi.org/10.1101/094110 2016-12-15 CC BY-NC 10 Simple Rules for Sharing Human Genomic Data Manuel Corpas|Charlotte Whicher|Nadezna V Kovalevskaya|Tom Byers|Amanda A McMurray|Fiona GG Nielsen|Varsha K Khodiyar Repositive;|Springer Nature
http://dx.doi.org/10.1101/089854 2016-12-15 Cross-species functional diversity within the PIN auxin efflux protein family Devin Lee O'Connor|Mon Mandy Hsia|John Vogel|Ottoline Leyser Sainsbury Laboratory University of Cambridge, Cambridge UK.;|USDA-ARS Western Regional Research Center, Albany, CA.;|U.S. Department of Energy Joint Genome Institute, Walnut Creek, CA.
http://dx.doi.org/10.1101/094524 2016-12-15 CC BY-NC-ND Dynamically controlled light delivery over large brain volumes through tapered optical fibers Ferruccio Pisanello|Gil Mandelbaum|Marco Pisanello|Ian Oldenburg|Leo Sileo|Jeffrey Markowitz|Ralph Peterson|Andrea Della Patria|Trevor Haynes|Mohamed Emara|Barbara Spagnolo|Sandeep R Datta|Bernardo Sabatini|Massimo De Vittorio IIT Lecce;|HHMI, HMS;|IIT and University of Salento, Lecce;|HMS;|Harvard Medical School, Howard Hughes Medical Institute;|Istituto Italiano di Tecnologia; University of Salento, Lecce
http://dx.doi.org/10.1101/094516 2016-12-15 CC BY-ND The Bayesian-Laplacian Brain Semir Zeki|Oliver Y. Chen University College London;|Yale University
http://dx.doi.org/10.1101/094185 2016-12-15 CC BY Two independent modes of chromosome organization are revealed by cohesin removal Wibke Schwarzer|Nezar Abdennur|Anton Goloborodko|Aleksandra Pekowska|Geoffrey Fudenberg|Yann Loe-Mie|Nuno A Fonseca|Wolfgang Huber|Christian Haering|Leonid Mirny|Francois Spitz European Molecular Biology Laboratory;|Massachusetts Institute of Technology;|MIT;|Institut Pasteur, CNRS;|European Bioinformatics Institute;|Institut Pasteur
http://dx.doi.org/10.1101/094458 2016-12-15 ISCA1 and CRY4: An improbable proposition Tobias Hochstoeger|Simon Nimpf|David Keays IMP
http://dx.doi.org/10.1101/094607 2016-12-15 A magnetic protein compass ? Michael Winklhofer|Henrik Mouritsen University of Oldenburg
http://dx.doi.org/10.1101/094623 2016-12-15 Biochemistry CC BY-NC Vitrification after multiple rounds of sample application and blotting improves particle density on cryo-electron microscopy grids. Joost Snijder|Andrew J Borst|Annie Dosey|Alexandra C Walls|Anika Burrell|Vijay S Reddy|Justin M Kollman|David Veesler University of Washington;|The Scripps Research Institute
http://dx.doi.org/10.1101/094631 2016-12-15 Pharmacology and Toxicology CC BY Development of Narrow Spectrum ATP-competitive Kinase Inhibitors as Probes for BIKE and AAK1 Rafael M. Counago|Alison D. Axtman|Hatylas Azevedo|David H. Drewry|Jonathan M. Elkins|Opher Gileadi|Cristiano R. W. Guimaraes|Alessandra Mascarello|Carrow I. Wells|Timothy M. Willson|William J. Zuercher Universidade Estadual de Campinas;|UNC Eshelman School of Pharmacy;|Ache Laboratorios Famaceuticos SA;|University of Oxford
http://dx.doi.org/10.1101/094433 2016-12-15 Genetics Mathematical constraints on FST: biallelic markers in arbitrarily many populations Nicolas Alcala|Noah A Rosenberg Stanford University
http://dx.doi.org/10.1101/094466 2016-12-15 Genomics Cell cycle dynamics of chromosomal organisation at single-cell resolution Takashi Nagano|Yaniv Lubling|Csilla Varnai|Carmel Dudley|Wing Leung|Yael Baran|Netta Mandelson Cohen|Steven Wingett|Peter Fraser|Amos Tanay The Babraham Institute;|Weizmann Institute;|Babraham Institute
http://dx.doi.org/10.1101/094482 2016-12-15 Genomics CC BY-NC-ND Diversity patterns across 1,800 chloroplast genomes of wild (Oryza rufipogon Griff.) and cultivated rice (O. sativa L.) Peter Civan|Terence A. Brown School of Earth and Environmental Sciences, University of Manchester
http://dx.doi.org/10.1101/094532 2016-12-15 Bioinformatics CC BY-NC-ND Model-based branching point detection in single-cell data by K-Branches clustering Nikolaos K. Chlis|F. Alexander Wolf|Fabian J. Theis Helmholtz Zentrum Muenchen ICB
http://dx.doi.org/10.1101/094490 2016-12-15 Bioengineering Single-channel in-Ear-EEG predicts the focus of auditory attention to concurrent tone streams and mixed speech Lorenz Fiedler|Malte Woestmann|Carina Graversen|Alex Brandmeyer|Thomas Lunner|Jonas Obleser University of Luebeck, Department of Psychology, Luebeck, Germany;|Eriksholm Research Centre A/S, Oticon, Denmark;|Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany
http://dx.doi.org/10.1101/094474 2016-12-15 Bioinformatics CC BY-NC-ND A computational method for detection of structural variants using Deviant Reads and read pair Orientation: DevRO Shumaila Sayyab|Nima Rafati|Miguel Carneiro|Herve Garreau|Goran Andersson|Leif Andersson|Carl Johan Rubin Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences;|Department of Medical Biochemistry and Microbiology, Uppsala University;|CIBIO/Inbio, Centro de Investigacao em Biodiversidade e Recursos Geneticos, Universidade do Porto;|INRA, UMR1388 Genetique, Physiologie et Systemes d Elevage, F-31326 Castanet-Tolosan, France;|Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences, Uppsala
http://dx.doi.org/10.1101/094599 2016-12-15 Bioinformatics CC BY-NC-ND A coarse-graining, ultrametric approach to resolve the phylogeny of prokaryotic strains with frequent recombination Tin Yau Pang Heinrich-Heine-University Duesseldorf
http://dx.doi.org/10.1101/088500 2016-12-15 Genomics CC BY Single-cell transcriptomes of fluorescent, ubiquitination-based cell cycle indicator cells Michael Bottcher|Tsukasa Kouno|Elo Madissoon|Efthymios Motakis|Imad Abugessaisa|Sachi Kato|Harukazu Suzuki|Yoshihide Hayashizaki|Takeya Kasukawa|Piero Carninci|Timo Lassmann|Jay Shin|Charles Plessy RIKEN Center for Life Science Technologies;|Karolinska Institutet;|Telethon Kids Institute
http://dx.doi.org/10.1101/089250 2016-12-15 Bioinformatics MECAT: an ultra-fast mapping, error correction and de novo assembly tool for single-molecule sequencing reads Chuan-Le Xiao|Ying Chen|Shang-Qian Xie|Kai-Ning Chen|Yan Wang|Feng Luo|Zhi Xie Sun Yat-sen University;|School of Computing, Clemson University, Clemson
http://dx.doi.org/10.1101/088534 2016-12-15 Ecology CC BY-NC-ND Biodiversity of Tropical Forests Anna Tovo|Samir Suweis|Marco Formentin|Marco Favretti|Jayanth R. Banavar|Sandro Azaele|Amos Maritan Univerity of Padova;|University of Padova;|University of Maryland;|University of Leeds
http://dx.doi.org/10.1101/094417 2016-12-15 Ecology CC BY-NC-ND Patterns of temporal and enemy niche use by a community of leaf cone moths (Caloptilia) coexisting on maples (Acer) as revealed by metabarcoding Ryosuke Nakadai|Atsushi Kawakita Center for Ecological Research, Kyoto University
http://dx.doi.org/10.1101/094136 2016-12-15 Bioinformatics CC BY Perturbed human sub-networks by Fusobacterium nucleatum candidate virulence factors Andreas Zanzoni|Sherazade Braham|Lionel Spinelli|Christine Brun Inserm - Aix Marseille University
http://dx.doi.org/10.1101/094243 2016-12-15 Evolutionary Biology CC BY The Stone Age Plague: 1000 years of Persistence in Eurasia Aida Andrades Valtuena|Alissa Mittnik|Ken Massy|Raili Allmae|Mantas Daubaras|Rimantas Jankauskas|Mari Torv|Saskia Pfrengle|Maria A. Spyrou|Michal Feldman|Wolfgang Haak|Kirsten I. Bos|Philipp W. Stockhammer|Alexander Herbig|Johannes Krause Max Planck Institute for the Science of Human History;|Ludwig-Maximilians-University;|Archaeological Research Collection, Tallinn University;|Department of Archaeology, Lithuanian Institute of History;|Department of Anatomy, Histology and Anthropology, Vilnius University;|Independent researcher;|Institute for Archaeological Sciences, Archaeo- and Palaeogenetics, University of Tuebingen
http://dx.doi.org/10.1101/094615 2016-12-15 Physiology CC BY Integrating proteomics and selected reaction monitoring to develop a non-invasive assay for geoduck reproductive maturation Emma B. Timmins-Schiffman|Grace A. Crandall|Brent Vadopalas|Michael E. Riffle|Brook L. Nunn|Steven B. Roberts Department of Genome Sciences, University of Washington, Seattle, WA 98105;|Department of Aquatic and Fishery Sciences, University of Washington, Seattle, WA 98105;|Department of Biochemistry, University of Washington, Seattle, WA 98105
http://dx.doi.org/10.1101/093898 2016-12-15 Bioinformatics CC BY-NC-ND Shared Nearest Neighbor clustering in a Locality Sensitive Hashing framework Sawsan Kanj|Thomas Bruls|Stephane Gazut CEA-LIST;|CEA
http://dx.doi.org/10.1101/094391 2016-12-15 Bioinformatics CC BY-NC-ND Rigid geometry solves “curse of dimensionality” effects: an application to proteomics Shun Adachi Kyoto University
http://dx.doi.org/10.1101/094383 2016-12-15 Neuroscience CC BY-NC-ND Dynamic flexibility in striatal-cortical circuits supports reinforcement learning Raphael T. Gerraty|Juliet Y Davidow|Karin Foerde|Adriana Galvan|Danielle S Bassett|Daphna Shohamy Columbia University;|Harvard University;|New York University;|UCLA;|University of Pennsylvania
http://dx.doi.org/10.1101/094375 2016-12-15 Cancer Biology CC BY-NC-ND A Reaction-Diffusion Model for Radiation-Induced Bystander Effects Oluwole Olobatuyi|Thomas Hillen|Gerda de Vries University of Alberta
http://dx.doi.org/10.1101/093930 2016-12-16 Physiology CC BY-NC-ND Ghrelin-Reactive Autoantibodies are elevated in Children with Prader-Willi Syndrome Gabrielle Crisp|Ohn Nyunt|Lisa Chopin|Inge Seim|Mark Harris|Penny Jeffery Queensland University of Technology;|Royal North Shore Hospital;|Lady Cilento Children's Hospital
http://dx.doi.org/10.1101/094847 2016-12-16 Microbiology Opposing transcriptional mechanisms regulate Toxoplasma development. Dong-Pyo Hong|Joshua B Radke|Michael W White University of South Florida
http://dx.doi.org/10.1101/094797 2016-12-16 Genomics Subgenome dominance in an interspecific hybrid, synthetic allopolyploid, and a 140 year old naturally established neo-allopolyploid monkeyflower. Patrick P Edgar|Ronald D Smith|Michael R McKain|Arielle M Cooley|Mario Vallejo-Marin|Yaowu Yuan|Adam J Bewick|Lexiang Ji|Adrian E Platts|Megan J Bowman|Kevin L Childs|Robert J Schmitz|Gregory D Smith|J Chris Pires|Joshua R Puzey Michigan State University;|The College of William and Mary;|Donald Danforth Plant Science Center;|Whitman College;|University of Stirling;|University of Connecticut;|University of Georgia;|McGill University;|University of Missouri
http://dx.doi.org/10.1101/094771 2016-12-16 Evolutionary Biology CC BY-NC-ND Screening for the ancient polar bear mitochondrial genome reveals low integration of mitochondrial pseudogenes (numts) in bears Fritjof Lammers|Axel Janke|Cornelia Rueckle|Vera Zizka|Maria Anna Nilsson Senckenberg Biodiversity and Climate Research Centre (BiK-F)
http://dx.doi.org/10.1101/078972 2016-12-16 Epidemiology CC BY MR-Base: a platform for systematic causal inference across the phenome using billions of genetic associations Gibran Hemani|Jie Zheng|Kaitlin H Wade|Charles Laurin|Benjamin Elsworth|Stephen Burgess|Jack Bowden|Ryan Langdon|Vanessa Tan|James Yarmolinsky|Hashem A. Shihab|Nicholas Timpson|David M Evans|Caroline Relton|Richard M Martin|George Davey Smith|Tom R Gaunt|Philip C Haycock University of Bristol;|University of Cambridge;|University of Bristol & University of Queensland
http://dx.doi.org/10.1101/094839 2016-12-16 Biophysics CC BY-NC-ND Resolving Biology Beyond the Diffraction Limit with Single-Molecule Localization Microscopy Nafiseh Rafiei|Daniel Nino|Joshua N Milstein University of Toronto
http://dx.doi.org/10.1101/094755 2016-12-16 Cancer Biology CC BY Dissecting cancer resistance to therapies with cell-type-specific dynamic logic models Federica Eduati|Victoria Doldan-Martelli|Bertram Klinger|Thomas Cokelaer|Anja Sieber|Fiona Kogera|Mathurin Dorel|Mathew J Garnett|Nils Bluthgen|Julio Saez-Rodriguez European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI);|Universidad Autónoma de Madrid;|Universitätsmedizin Berlin;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/094722 2016-12-16 Cancer Biology CC BY-NC-ND A statistical test on single-cell data reveals widespread recurrent mutations in tumor evolution Jack Kuipers|Katharina Jahn|Benjamin J Raphael|Niko Beerenwinkel D-BSSE, ETH Zurich;|Department of Computer Science, Princeton University
http://dx.doi.org/10.1101/094698 2016-12-16 Genetics CC BY-NC Genome-wide association study in Collaborative Cross mice revealed a skeletal role for Rhbdf2 Roei Levy|Clemence Levet|eren Cohen|Matthew Freeman|Richard Mott|Fuad Iraqi|Yankel Gabet Tel aviv university;|Dunn School of Pathology, South Parks Road, Oxford;|Tel Aviv University;|UCL Genetics Institute
http://dx.doi.org/10.1101/094540 2016-12-16 Genomics CC BY-NC Genome-wide analysis of ivermectin response by Onchocerca volvulus reveals that genetic drift and soft selective sweeps contribute to loss of drug sensitivity Stephen R Doyle|Catherine Bourguinat|Hugues C Nana-Djeunga|Jonas A Kengne-Ouafo|Sebastien D.S. Pion|Jean Bopda|Joseph Kamgno|Samuel Wanji|Hua Che|Annette C. Kuesel|Martin Walker|Maria-Gloria Basanez|Daniel Boakye|Mike Y. Osei-Atweneboana|Michel Boussinesq|Roger K. Prichard|Warwick N. Grant Wellcome Trust Sanger Institute;|Institute of Parasitology, McGill University;|Centre for Research on Filariasis and other Tropical Diseases (CRFilMT);|Research Foundation in Tropical Diseases and the Environment;|Institut de Recherche pour le Développement, Université de Montpellier;|UNICEF/UNDP/World Bank/WHO Special Programme for Research and Training in Tropical Diseases, WHO;|Department of Infectious Disease Epidemiology / London Centre for Neglected Tropical Disease Reseach;|Noguchi Memorial Institute for Medical Research, University of Ghana;|Department of Environmental Biology and Health, CSIR Water Research Institute;|Institut de Recherche pour le Développement (IRD);|Department of Animal, Plant and Soil Sciences, La Trobe University
http://dx.doi.org/10.1101/094680 2016-12-16 Neuroscience CC BY-NC-ND CORTICO-CORTICAL FEEDBACK CONTROLS SPATIAL SUMMATION IN PRIMATE VISUAL CORTEX Lauri Nurminen|Sam Merlin|Marym Bijanzadeh|Frederick Federer|Alessandra Angelucci University of Utah
http://dx.doi.org/10.1101/094748 2016-12-16 Evolutionary Biology CC BY-NC Evidence of Late Pleistocene origin of Astyanax mexicanus cavefish Julien Fumey|Helene Hinaux|Celine Noirot|Sylvie Retaux|Didier Casane EGCE, CNRS Gif;|DECA group, Paris-Saclay Institute of Neuroscience, UMR 9197, CNRS;|Plateforme Bioinformatique Toulouse, Midi-Pyrénées, UBIA, INRA
http://dx.doi.org/10.1101/094649 2016-12-16 Biochemistry Cryo-EM structure of the ATP-sensitive potassium channel illuminates mechanisms of assembly and gating Gregory M Martin|Craig Yoshioka|Emily A Rex|Jonathan F Fay|Qing Xie|Matt R Whorton|James Z Chen|Show-Ling Shyng Oregon Health & Science University
http://dx.doi.org/10.1101/095034 2016-12-17 Molecular Biology CC BY Helical reconstruction in RELION Shaoda He|Sjors Scheres MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/094987 2016-12-17 Microbiology CC BY Bacterial communities affected by experimental disturbances to canopy soils of a temperate rainforest Cody R. Dangerfield|Nalini M. Nadkarni|William J. Brazelton University of Utah
http://dx.doi.org/10.1101/094961 2016-12-17 Biochemistry In culture cross-linking of bacterial cells reveals proteome scale dynamic protein-protein interactions at peptide level Luitzen de Jong|Edward A de Koning|Winfried Roseboom|Hansuk Buncherd|Martin J Wanner|Petra J Jansen|Irena Dapic|Jan H van Maarseveen|Garry L Corthals|Peter J Lewis|Leendert W Hamoen|Chris G de Koster Swammerdam Institute for Life Sciences University of Amsterdam;|e Sciences University of Amsterdam;|Faculty of Medical Technology Prince of Songkla University Hatyai Songkhla 90110 Thailand;|Van t Hoff Institute of Molecular Science, University of Amsterdam;|School of Environmental and Life Sciences, University of Newcastle, Callaghan, NSW 2308, Australia;|Swammerdam Institute for Life Sciences, University of Amsterdam
http://dx.doi.org/10.1101/095042 2016-12-17 Biophysics CC BY-NC-ND Quantifying the Heat Dissipation from Molecular Motor's Transport Properties in Nonequilibrium Steady States Wonseok Hwang|Changbong Hyeon Korea Institute of Advanced Study;|Korea Institute for Advanced Study
http://dx.doi.org/10.1101/095067 2016-12-17 Neuroscience CC BY-NC-ND Dissecting the role of non-coding RNAs in the accumulation of amyloid and tau neuropathologies in Alzheimer's disease. Ellis Patrick|Sathyapriya Rajagopal|Hon-Kit Andus Wong|Cristin McCabe|Jishu Xu|Anna Tang|Selina H. Imboywa|Julie A. Schneider|Nathalie Pochet|Anna M. Krichevsky|Lori B. Chibnik|David A. Bennett|Philip L. De Jager Harvard Medical School;|Brigham and Women's Hospital;|Broad Institute;|Rush University Medical Center
http://dx.doi.org/10.1101/095075 2016-12-17 Bioinformatics CC BY-NC-ND Benchmarking BarraCUDA on Epigenetic DNA and nVidia Pascal GPUs W Langdon UCL
http://dx.doi.org/10.1101/094995 2016-12-17 Evolutionary Biology CC BY-NC-ND Genetic footprint of population fragmentation and contemporary collapse in a freshwater cetacean Minmin Chen|Michael C Fontaine|Yacine Ben Chehida|Jinsong Zheng|Zhigang Mei|Yujiang Hao|Kexiong Wang|Min Wu|Qingzhong Zhao|Ding Wang The Key Laboratory of Aquatic Biodiversity and Conservation of Chinese Academy of Sciences;|University of Groningen, Groningen Institute for Evolutionary Life Sciences (GELIFES)
http://dx.doi.org/10.1101/095018 2016-12-17 Ecology CC BY-NC-ND Universal scaling of maximum speed with body mass - Why the largest animals are not the fastest Myriam Hirt|Walter Jetz|Bjoern C. Rall|Ulrich Brose German Centre for Integrative Biodiversity Research;|Yale University;|iDiv
http://dx.doi.org/10.1101/095059 2016-12-17 Bioinformatics CC BY Computational studies of P-glycoprotein polymorphisms in antiepileptic drug resistance mechanisms Sindhu Varghese|Ashok Palaniappan Chettinad Academy of Research and Education, India;|Biotechnology - Sri Venkateswara College of Engineering (autonomous), Chennai
http://dx.doi.org/10.1101/094979 2016-12-17 Bioinformatics CC BY-NC poRe GUIs for parallel and real-time processing of MinION sequence data Robert Stewart|Mick Watson The Roslin Institute, University of Edinburgh
http://dx.doi.org/10.1101/093401 2016-12-17 Evolutionary Biology CC BY-NC-ND Genome sequence of a diabetes-prone desert rodent reveals a mutation hotspot around the ParaHox gene cluster Adam D Hargreaves|Long Zhou|Josef Christensen|Ferdinand Marletaz|Shiping Liu|Fang Li|Peter Gildsig Jansen|Enrico Spiga|Matilde Thye Hansen|Signe Vendelbo Horn Pedersen|Shameek Biswas|Kyle Serikawa|Brian A Fox|William R Taylor|John F Mulley|Guojie Zhang|R Scott Heller|Peter W H Holland University of Oxford, UK;|China National Genebank, BGI-Shenzhen, China;|Novo Nordisk, Denmark;|The Francis Crick Institute, UK;|Novo Nordisk Research Center, USA;|Bangor University, UK
http://dx.doi.org/10.1101/094862 2016-12-17 Bioinformatics CC BY-ND Accuracy in wrist-worn, sensor-based measurements of heart rate and energy expenditure in a diverse cohort Anna Shcherbina|C. Mikael Mattsson|Daryl Waggott|Heidi Salisbury|Jeffrey W. Christle|Trevor J Hastie|Matthew T Wheeler|Euan A Ashley Stanford University;|Astrand Laboratory of Work Physiology, The Swedish School of Sport and Health Sciences, Stockholm;|Division of Cardiovascular Medicine, Department of Medicine, Stanford University, Stanford, CA USA;|Ctr for Inherited Cardiovascular Disease, Division of Cardiovascular Medicine, Stanford University;|Department of Statistics, Stanford University, Stanford, CA USA
http://dx.doi.org/10.1101/094946 2016-12-17 Genomics Cohesin dependent compaction of mitotic chromosomes Stephanie A Schalbetter|Anton Goloborodko|Geoffrey Fudenberg|Jon M Belton|Catrina Miles|Miao Yu|Job Dekker|Leonid Mirny|Jon Baxter University of Sussex;|Massachusetts Institute of Technology;|University of Massachusetts Medical School;|MIT
http://dx.doi.org/10.1101/094920 2016-12-17 Bioinformatics CC BY-NC-ND An Integrated Risk Predictor for Pulmonary Nodules Paul Kearney|Xiao-Jun Li|Alex Porter|Steve Springmeyer|Peter Mazzone Integrated Diagnostics;|Cleveland Clinic
http://dx.doi.org/10.1101/094441 2016-12-17 Genomics CC BY-NC-ND YeATSAM analysis of the chloroplast genome of walnut reveals several putative un-annotated genes and mis-annotation of the trans-spliced rps12 gene in other organisms Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/094888 2016-12-17 Bioinformatics CC BY-NC-ND DataMed: Finding useful data across multiple biomedical data repositories Lucila Ohno-Machado|Susanna-Assunta Sansone|George Alter|Ian Fore|Jeffrey Grethe|Hua Xu|Alejandra Gonzalez-Beltran|Philippe Rocca-Serra|Ergin Soysal|Nansu Zong|Hyeon-eui Kim University of California San Diego;|University of Oxford;|University of Michigan Ann Arbor;|National Institutes of Health;|The University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/094953 2016-12-17 Biochemistry CC BY-NC-ND Familial Mutations and Post-translational Modifications of UCH-L1 in Parkinson′s Disease and Neurodegenerative Disorders Yun-Tzai Cloud Lee|Shang-Te Danny Hsu Academia Sinica
http://dx.doi.org/10.1101/094714 2016-12-17 Genomics CC BY FlashPCA2: principal component analysis of biobank-scale genotype datasets Gad Abraham|Yixuan Qiu|Michael Inouye University of Melbourne;|Purdue University
http://dx.doi.org/10.1101/094896 2016-12-17 Evolutionary Biology CC BY-NC-ND Quantifying the relationship between pollinator behavior and plant reproductive isolation Robin Hopkins Harvard University
http://dx.doi.org/10.1101/094763 2016-12-17 Genomics A dense brown trout (Salmo trutta) linkage map reveals recent chromosomal rearrangements in the Salmo genus and the impact of selection on linked neutral diversity Maeva Leitwein|Bruno Guinand|Juliette Pouzadoux|Erick Desmarais|Patrick Berrebi|Pierre-Alexandre Gagnaire ISEM Institut des Sciences de l'Evolution Montpellier;|UMR ISEM, Institut des Sciences de l'Evolution de Montpellier, Université de Montpellier
http://dx.doi.org/10.1101/094904 2016-12-17 Systems Biology CC BY-NC-ND Spatial Analysis of Functional Enrichment (SAFE) in Large Biological Networks Anastasia Baryshnikova Princeton University
http://dx.doi.org/10.1101/093013 2016-12-17 Biophysics Intensity-based axial localization approaches for multifocal plane microscopy Ramraj Velmurugan|Jerry Chao|Sripad Ram|E. Sally Ward|Raimund J Ober UT Southwestern Medical Center;|Texas A&M University;|Pfizer, Inc.;|Texas A&M University Health Sciences Center
http://dx.doi.org/10.1101/095158 2016-12-18 CC BY-NC-ND Structurally distinct oligomers of islet amyloid polypeptide mediate toxic and non-toxic membrane poration Melissa Birol|Sunil Kumar|Elizabeth Rhoades|Andrew D Miranker Yale University, University of Pennsylvania;|New York University;|University of Pennsylvania;|Yale University
http://dx.doi.org/10.1101/095257 2016-12-18 CC BY GeNNet: An Integrated Platform for Unifying Scientific Workflow Management and Graph Databases for Transcriptome Data Analysis Raquel L. Costa|Luiz Gadelha|Marcelo Ribeiro-Alves|Fabio Porto INCA;|LNCC;|Fiocruz
http://dx.doi.org/10.1101/095208 2016-12-18 CC BY FerriTag: A Genetically-Encoded Inducible Tag for Correlative Light-Electron Microscopy Nicholas I Clarke|Stephen J Royle University of Warwick
http://dx.doi.org/10.1101/095224 2016-12-18 Systematic assessment of multi-gene predictors of pan-cancer cell line sensitivity to drugs exploiting gene expression data Linh Nguyen|Cuong Dang|Pedro Ballester INSERM
http://dx.doi.org/10.1101/095182 2016-12-18 Deep sequencing of natural and experimental populations of Drosophila melanogaster reveals biases in the spectrum of new mutations Zoe June Assaf|Susanne Tilk|Jane Park|Mark L Siegal|Dmitri Petrov Stanford University;|New York University
http://dx.doi.org/10.1101/095133 2016-12-18 Biophysics CC BY-NC-ND Active Vertex Model for Cell-Resolution Description of Epithelial Tissue Mechanics Daniel L Barton|Silke Henkes|Cornelis J Weijer|Rastko Sknepnek University of Dundee;|University of Aberdeen
http://dx.doi.org/10.1101/094938 2016-12-18 Cell Biology DNA damage response decreases during induced pluripotent and embryonic stem cell differentiation Kalpana Mujoo|Raj K Pandita|Anjina Tiwari|Vijay Charaka|Sharmistha Chakraborti|Walter Hittelman|Nobuo Horikoshi|Clayton Hunt|KumKum Khanna|Alexander Kots|Brian Butler|Ferid Murad|Tej K Pandita THMRI;|MDACC;|QIMR;|GWU
http://dx.doi.org/10.1101/095141 2016-12-18 Biophysics New Insights into the Dynamics of Swarming Bacteria: A Theoretical Study David Hansmann|Guido Fier|Ruben Carlos Buceta Departamento de Fisica, Universidad Nacional de Mar del Plata;|Instituto de Investigaciones Fisicas de Mar del Plata (IFIMAR)
http://dx.doi.org/10.1101/095489 2016-12-19 Mortality prediction in sepsis via gene expression analysis: a community approach Timothy E Sweeney|Thanneer M Perumal|Ricardo Henao|Marshall Nichols|Judith A Howrylak|Augustine M Choi|Jesus F Bermejo-Martin|Raquel Almansa|Eduardo Tamayo|Emma E Davenport|Katie L Burnham|Charles J Hinds|Julian C Knight|Stephen F Kingsmore|Chris W Woods|Geoffrey S Ginsburg|Hector R Wong|Grant P Parnell|Benjamin Tang|Lyle L Moldawer|Frederick E Moore|Larsson Omberg|Purvesh Khatri|Ephraim L Tsalik|Lara M Mangravite|Raymond J Langley Stanford University;|Sage Bionetworks;|Duke University;|Penn State Milton S. Hershey Medical Center;|Cornell Medical Center;|Hospital Clinico Universitario de Valladolid;|Harvard Medical School;|Wellcome Trust Centre for Human Genetics;|Queen Mary University;|Rady Childrens Institute for Genomic Medicine;|Cincinnati Childrens Hospital Medical Center and Cincinnati Childrens Research Foundation;|Centre for Immunology and Allergy Research, Westmead Institute for Medical Research;|Nepean Hospital;|University of Florida College of Medicine;|University of South Alabama
http://dx.doi.org/10.1101/095505 2016-12-19 CC BY-NC-ND In silico epitope prediction and 3D model analysis of Peste des petits ruminants virus nucleoprotein (PPRV N) Bakang Baloi University of Botswana
http://dx.doi.org/10.1101/095497 2016-12-19 CC BY-ND Malate-dependent Fe accumulation is a critical checkpoint in the root developmental response to low phosphate Javier Mora-Macias|Jonathan Odilon Ojeda-Rivera|Dolores Gutierrez-Alanis|Lenin Yong-Villalobos|Araceli Oropeza-Aburto|Javier Raya-Gonzalez|Gabriel Jimenez-Dominguez|Gabriela Chavez-Calvillo|Ruben Rellan-Alvarez|Luis Rafael Herrera-Estrella Laboratorio Nacional de Genomica para la Biodiversidad (Langebio)/Unidad de Genomica Avanzada
http://dx.doi.org/10.1101/095539 2016-12-19 CC BY-NC-ND Co-estimating Reticulate Phylogenies and Gene Trees from Multi-locus Sequence Data Dingqiao Wen|Luay Nakhleh Rice University
http://dx.doi.org/10.1101/095521 2016-12-19 CC BY-ND Hardy Weinberg Exact Test In Large Scale Variant Calling Quality Control Zhuoyi Huang|Navin Rustagi|Degui Zhi|Adrienne Cupples|Richard Gibbs|Eric Boerwinkle|Fuli Yu Baylor College of Medicine;|University of Alabama at Birmingham;|Boston University School of Public Health;|University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/095307 2016-12-19 CC BY-ND Blood flow directs arterial-venous remodeling through Notch activation and endothelial cell migration Bart Weijts|Edgar Gutierrez|Semion K Saikin|Ararat J Ablooglu|David Traver|Alex Groisman|Eugene Tkachenko Univ. California San Deigo;|Harvard;|UC San Diego
http://dx.doi.org/10.1101/095356 2016-12-19 CC BY-NC-ND Large-scale network dynamics of beta-band oscillations underlie auditory perceptual decision making Mohsen Alavash|Christoph Daube|Malte Woestmann|Alex Brandmeyer|Jonas Obleser University of Luebeck;|Max Planck Institute for Human Cognitive and Brain Sciences
http://dx.doi.org/10.1101/095414 2016-12-19 Microbiology CC BY-NC In situ estimates of iron-oxidation and accretion rates for iron-oxidizing bacterial mats at Loihi Seamount. David Emerson|Jarrod J Scott|Anna H Leavitt|Emily Fleming|Craig L Moyer Bigelow Laboratory for Ocean Sciences;|California State University, Chico;|Western Washington University
http://dx.doi.org/10.1101/095265 2016-12-19 Evolutionary Biology CC BY-NC Habitat predicts levels of genetic admixture in Saccharomyces cerevisiae Viranga Tilakaratna|Douda Bensasson University of Manchester;|University of Georgia
http://dx.doi.org/10.1101/095323 2016-12-19 Microbiology CC BY-NC-ND The social evolution of siderophore production in Pseudomonas aeruginosa is environmentally determined. Freya Harrison|Alan McNally|Ana C. da Silva|Stephen P. Diggle University of Nottingham;|University of Birmingham
http://dx.doi.org/10.1101/095398 2016-12-19 Neuroscience Second Generation Drosophila Chemical Tags: Sensitivity, Versatility and Speed Ben Sutcliffe|Julian Ng|Thomas O. Auer|Mathias Pasche|Richard Benton|Gregory S. X. E. Jefferis|Sebastian Cachero MRC Laboratory of Molecular Biology, United Kingdom;|University of Cambridge, United Kingdom;|Center for Integrative Genomics, Switzerland
http://dx.doi.org/10.1101/093831 2016-12-19 Bioinformatics CC BY-NC-ND Detection of long repeat expansions from PCR-free whole-genome sequence data Egor Dolzhenko|Joke J.F.A. van Vugt|Richard J. Shaw|Mitchell A. Bekritsky|Marka van Blitterswijk|Zoya Kingsbury|Sean J. Humphray|Raymond D. Schellevis|William J. Brands|Matt Baker|Rosa Rademakers|Maarten Kooyman|Gijs H.P. Tazelaar|Michael A. van Es|Russell McLaughlin|William Sproviero|Aleksey Shatunov|Ashley Jones|Ahmad Al Khleifat|Alan Pittman|Sarah Morgan|Orla Hardiman|Ammar Al-Chalabi|Leonard H. van den Berg|David R. Bentley|Michael A. Eberle|Jan H. Veldink Illumina, San Diego, USA;|University Medical Center Utrecht, Utrecht, The Netherlands;|Illumina, Cambridge, UK;|Mayo Clinic, Jacksonville, FL, USA;|Erasmus Medical Center, Rotterdam, the Netherlands;|Trinity College Dublin, Dublin, Republic of Ireland;|King's College London, London, UK;|UCL Institute of Neurology, London, UK
http://dx.doi.org/10.1101/095349 2016-12-19 Genomics CC BY-NC Shared activity patterns arising at genetic susceptibility loci reveal underlying genomic and cellular architecture of human disease. John Kenneth Baillie|Andrew Bretherick|Chris Haley|Sara Clohisey|Alan Gray|Jeffrey Barret|Eli Stahl|Albert Tenesa|Robin Andersson|James Bentley Brown|Geoffrey Faulkner|Marina Lizio|Ulf Schaefer|Carsten Daub|Masayoshi Itoh|Naoto Kondo|Timo Lassmann|Jun Kawai|Vladimir B Bajic|Peter Heutink|Michael Rehli|Hideya Kawaji|Albin Sandelin|Harukazu Suzuki|Jack Satsangi|Christine Wells|Hacohen Nir|Tom Freeman|Yoshihide Hayashizaki|Piero Carninci|Alistair R Forrest|David A Hume Roslin Institute, University of Edinburgh;|University of Edinburgh;|Wellcome Trust Sanger Institute;|Broad Institute of MIT and Harvard;|University of Copenhagen;|University of California, Berkeley;|Mater Medical Research Institute;|RIKEN Institute;|KAUST;|German Center for Neurodegenerative Diseases;|University Hospital Regensburg, 93053 Regensburg;|University of Queensland;|Broad Institute;|RIKEN OMICS Science Center
http://dx.doi.org/10.1101/095315 2016-12-19 Bioinformatics CC BY-NC RNAtor: an Android-based application for biologists to plan RNA sequencing experiments. Shruti Kane|Himanshu Garg|Neeraja M Krishnan|Aditya Singh|Binay Panda Ganit Labs
http://dx.doi.org/10.1101/095364 2016-12-19 Cancer Biology Incidental identification of maternal malignancies in two Asian women underwent noninvasive prenatal test Xing Ji|Fang Chen|Yafeng Zhou|Jia LI|Yuying Yuan|Yu Mo|Qiang Liu|Jen-Yu Tseng|Diego Shih-Chieh Lin|Shu-Huei Shen|Yu Liu|Weiping Ye|Hongyun Zhang|Na Liu|Li Shen|Xin Jin|Pi-Lin Sung|Mao Mao Department of Prenatal Diagnosis, Xin Hua Hospital Affiliated to Shanghai Jiaotong University;|BGI-Shenzhen, Shenzhen, 518083, China;|Department of Obstetrics and Gynecology, Taipei Veterans General Hospital, Taipei, Taiwan;|National Yang-Ming University School of Medicine, Taipei, Taiwan;|Department of obstetrics, Xin Hua Hospital Affiliated to Shanghai Jiaotong University;|Department of Pathology, Shanghai Pu Nan Hospital, Shanghai, China
http://dx.doi.org/10.1101/095430 2016-12-19 Neuroscience CC BY Distributed alpha networks underlie individual differences in memory performance Roy Cox|Anna C Schapiro|Robert Stickgold Beth Israel Deaconess Medical Center / Harvard Medical School
http://dx.doi.org/10.1101/095281 2016-12-19 Cell Biology CC BY Fetal therapy model of myelomeningocele with three-dimensional skin using amniotic fluid cell-derived induced pluripotent stem cells Kazuhiro Kajiwara|Tomohiro Tanemoto|Seiji Wada|Jurii Karibe|Norimasa Ihara|Yu Ikemoto|Tomoyuki Kawasaki|Yoshie Ohishi|Osamu Samura|Kohji Okamura|Shuji Takada|Hidenori Akutsu|Haruhiko Sago|Aikou Okamoto|AKIHIRO UMEZAWA National Research Institute for Child Health and Development;|Chiba University Graduate School of Medicine;|The Jikei University School of Medicine
http://dx.doi.org/10.1101/079004 2016-12-19 Genomics The complex sequence landscape of maize revealed by single molecule technologies Yinping Jiao|Paul Peluso|Jinghua Shi|Tiffany Liang|Michelle C Stitzer|Bo Wang|Michael Campbell|Joshua C Stein|Xuehong Wei|Chen-Shan Chin|Katherine Guill|Michael Regulski|Sunita Kumari|Andrew Olson|Jonathan Gent|Kevin L Schneider|Thomas K Wolfgruber|Michael May|Nathan Springer|Eric Antoniou|Richard McCombie|Gernot G Presting|Michael McMullen|Jeffrey Ross-Ibarra|R. Kelly Dawe|Alex Hastie|David R Rank|Doreen Ware Cold Spring Harbor Laboratory;|Pacific Biosciences;|BioNano Genomics;|University of California, Davis;|USDA-ARS;|University of Georgia;|University of Hawaii;|University of Minnesota;|University of California;|USDA-ARS/Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/095273 2016-12-19 Evolutionary Biology Environmental exposure does not explain putative maladaptation in road-adjacent populations Steven P Brady Dartmouth College
http://dx.doi.org/10.1101/095372 2016-12-19 Bioinformatics CC BY McClintock: An integrated pipeline for detecting transposable element insertions in whole genome shotgun sequencing data. Michael G. Nelson|Raquel S. Linheiro|Casey M. Bergman University of Manchester;|Universidade Catolica Portuguesa;|University of Georgia
http://dx.doi.org/10.1101/095216 2016-12-19 Evolutionary Biology CC BY-NC-ND Silversword and lobeliad reintroduction linked to landscape restoration on Mauna Loa and Kilauea, and its implications for plant adaptive radiation in Hawaii Robert H Robichaux|Patrice Y Moriyasu|Jaime H Enoka|Sierra McDaniel|Rhonda K Loh|Kealii F Bio|Ane Bakutis|J Timothy Tunison|Steven T Bergfeld|J Lyman Perry|Frederick R Warshauer|Mark Wasser|T Colleen Cole|Nicholas R Agorastos|Ian W Cole|J Kualii Camara|Tanya Rubenstein|A Namaka Whitehead|Joshua R VanDeMark|Reid Loo|Marie M Bruegmann University of Arizona;|Volcano Rare Plant Facility, University of Hawaii;|Hawaii Volcanoes National Park;|BioLogical LLC;|Molokai Plant Extinction Prevention Program;|Hawaii Department of Land and Natural Resources;|US Geological Survey;|Three Mountain Alliance;|Kamehameha Schools;|Hawaii Plant Extinction Prevention Program;|US Fish and Wildlife Service
http://dx.doi.org/10.1101/095083 2016-12-19 Bioinformatics CC BY-NC-ND Genome Wide Computational Prediction of miRNAs in Kyasanur Forest Disease Virus and their Targeted Genes in Human Sandeep Saini|Chander Jyoti Thakur|Varinder Kumar GGDSD College, Sector-32C, Chandigarh, India
http://dx.doi.org/10.1101/095190 2016-12-19 Animal Behavior and Cognition A tutorial on Gaussian process regression with a focus on exploration-exploitation scenarios Eric Schulz|Maarten Speekenbrink|Andreas Krause University College London;|ETH Zurich
http://dx.doi.org/10.1101/094789 2016-12-19 Microbiology CC BY Same-day diagnostic and surveillance data for tuberculosis via whole genome sequencing of direct respiratory samples. Antonina A Votintseva|Phelim Bradley|Louise Pankhurst|Carlos del Ojo Elias|Matthew Loose|Kayzad Nilgiriwala|Anirvan Chatterjee|E Grace Smith|Nicholas Sanderson|Timothy M Walker|Marcus R Morgan|David H Wyllie|A Sarah Walker|Tim EA Peto|Derrick W Crook|Zamin Iqbal University of Oxford;|University of Nottingham;|Foundation for Medical Research, Mumbai;|Heartlands Hospital, Birmingham;|John Radcliffe Hospital, Oxford, UK
http://dx.doi.org/10.1101/095778 2016-12-20 CC BY-NC-ND How to improve parameter estimates in GLM-based fMRI data analysis: cross-validated Bayesian model averaging Joram Soch|Achim Pascal Meyer|John-Dylan Haynes|Carsten Allefeld Bernstein Center for Computational Neuroscience, Berlin, Germany
http://dx.doi.org/10.1101/095737 2016-12-20 CC BY-NC-ND Functional Analysis of All Salmonid Genomes (FAASG): an international initiative supporting future salmonid research, conservation and aquaculture Daniel J Macqueen|Craig R Primmer|Ross D Houston|Barbara F Nowak|Louis Bernatchez|Steinar Bergseth|William S Davidson|Cristian Gallardo-Escarate|Tom Goldammer|Yann Guiguen|Patricia Iturra|James W Kijas|Ben F Koop|Sigbjorn Lien|Alejandro Maass|Samuel A.M. Martin|Philip McGinnity|Martin Montecino|Kerry A Naish|Krista M Nichols|Kristinn Olafsson|Stig W Omholt|Yniv Palti|Graham S Plastow|Caird E Rexroa|Matthew L Rise|Rachael J Ritchie|Simen R Sandve|Patricia M Schulte|Alfredo Tello|Rodrigo Vidal|Jon Olav Vik|Anna Wargelius|Jose Manuel Yanez Institute of Biological and Environmental Sciences, University of Aberdeen, Aberdeen AB24 2TZ, UK;|Department of Biology, University of Turku, 20014, Finland;|The Roslin Institute and Royal (Dick) School of Veterinary Studies, The University of Edinburgh, Mid;|Institute for Marine and Antarctic Studies, University of Tasmania Launceston, Tasmania, Australia;|Universite Laval, Quebec, Canada;|The Research Council of Norway;|Simon Fraser University, Canada.;|Universidad de Concepcion, Concepcion 4030000, Chile;|Leibniz Institute for Farm Animal Biology, Germany;|INRA, UR1037 Fish Physiology and Genomics, Rennes, France;|Faculty of Medicine, University of Chile, Santiago 8380453, Chile;|CSIRO Agriculture, St Lucia, QLD, 4067, Australia;|Department of Biology, University of Victoria, Victoria, British Columbia, Canada;|Norwegian University of Life Sciences, Aas NO-1432, Norway;|Center for Genome Regulation, University of Chile, Santiago 8370456, Chile;|School of Biological, Earth and Environmental Sciences, University College Cork, Cork, Ireland;|Center for Biomedical Research, Universidad Andres Bello, Santiago 8370146, Chile;|University of Washington, Box 355020, Seattle, WA 98195, USA;|Northwest Fisheries Science Center, National Marine Fisheries Service, USA;|Matis Ltd, Vinlandsleio 12, 113 Reykjavik, Iceland;|NTNU - Norwegian University of Science and Technology, NO-7491 Trondheim, Norway;|National Center for Cool and Cold Water Aquaculture, USDA ARS, USA;|Department of Agricultural, Food, and Nutritional Science, University of Alberta, Canada;|Office of National Programs, USDA ARS, 5601 Sunnyside Avenue, Beltsville, Maryland, USA;|Department of Ocean Sciences, Memorial University of Newfoundland, St. Johns, NL, Canada;|Genome British Columbia, Vancouver BC V5Z 0C4, Canada;|Department of Animal and Aquacultural Sciences, Norwegian University of Life Sciences, Aas, Norway;|Department of Zoology, University of British Columbia, 6270 University Blvd., Vancouver, BC, Canada;|Instituto Tecnologico del Salmon S.A., INTESAL de SalmonChile, Chile;|Department of Biology, University of Santiago, Santiago 9170022, Chile;|Institute of Marine Research, P.O. Box 1870, Nordnes, 5817 Bergen, Norway;|University of Chile, Santiago, Chile
http://dx.doi.org/10.1101/095794 2016-12-20 CC BY-NC Deep Multi-instance Networks with Sparse Label Assignment for Whole Mammogram Classification Wentao Zhu|Qi Lou|Yeeleng Scott Vang|Xiaohui Xie UC Irvine
http://dx.doi.org/10.1101/095786 2016-12-20 CC BY-NC Adversarial Deep Structural Networks for Mammographic Mass Segmentation Wentao Zhu|Xiaohui Xie UC Irvine
http://dx.doi.org/10.1101/095752 2016-12-20 The interplay of stiffness and force anisotropies drive embryo elongation Thanh Thi Kim Vuong-Brender|Martine Ben Amar|Julien Pontabry|Michel Labouesse Sorbonne Universites, UPMC Univ Paris 06, CNRS, UMR7622, Institut de Biologie Paris-Seine;|Laboratoire de Physique Statistique, Ecole Normale Superieure, Univ Paris 6 & 7, CNRS;|Development and Stem Cells Program, IGBMC, CNRS (UMR7104), INSERM (U964), Universite de Strasbourg;|Sorbonne Universites, UPMC Univ Paris 06, CNRS, UMR7622 - Institut de Biology Paris-Seine
http://dx.doi.org/10.1101/095745 2016-12-20 Cleanliness in context: reconciling hygiene with a modern microbial perspective Roo Vandegrift|Ashley C Bateman|Kyla N Siemens|May Nguyen|Jessica L Green|Kevin G Van Den Wymelenberg|Roxana J Hickey University of Oregon
http://dx.doi.org/10.1101/095695 2016-12-20 Mechanism of Nuclear Movements in a Multinucleated Cell Romain Gibeaux|Antonio Politi|Peter Philippsen|Francois Nedelec University of California;|European Molecular Biology Laboratory;|University of Basel
http://dx.doi.org/10.1101/095679 2016-12-20 Evolutionary Biology Genomes of an entire Plasmodium subgenus reveal paths to virulent human malaria Thomas D Otto|Aude Gilabert|Thomas Crellen|Ulrike Bohme|Celine Arnathau|Mandy Sanders|Samuel Oyola|Alain P Okauga|Larson Boundenga|Eric Wuillaume|Barthelemy Ngoubangoye|Nancy Moukodoum|Christophe Paupy|Patrick Durand|Virginie Rougeron|Benjamin Ollomo|Francois Renaud|Chris Newbold|Matt Berriman|Franck Prugnolle Wellcome Trust Sanger Institute;|Laboratoire MIVEGEC, Montpellier;|Laboratoire MIVEGEC Montpellier;|Centre International de Recherches Médicales de Franceville;|Sodepal, Parc of la Lékédi;|Weatherall Institute of Molecular Medicine
http://dx.doi.org/10.1101/095570 2016-12-20 Neuroscience CC BY-NC-ND When null hypothesis significance testing is unsuitable for research: a reassessment Denes Szucs|John PA Ioannidis University of Cambridge;|Stanford University
http://dx.doi.org/10.1101/095471 2016-12-20 Microbiology CC BY-NC Decoding bacterioplankton metabolism in the northern Gulf of Mexico Dead Zone J. Cameron Thrash|Kiley W. Seitz|Brett J. Baker|Ben Temperton|Lauren E. Gillies|Nancy N. Rabalais|Bernard Henrissat|Olivia U. Mason Louisiana State University;|Marine Science Institute, University of Texas at Austin;|University of Exeter;|Florida State University;|Louisiana State University and LUMCON;|Aix-Marseille Universite and King Abdulaziz University
http://dx.doi.org/10.1101/095455 2016-12-20 Immunology Two-zone tumor tolerance can arise from a simple immunological feedforward motif that estimates tumor growth rates Eduardo Sontag Rutgers University
http://dx.doi.org/10.1101/095620 2016-12-20 Neuroscience CC BY-NC-ND Multivariate pattern analysis of MEG and EEG: a comparison of representational structure in time and space Radoslaw Martin Cichy|Dimitrios Pantazis Free University Berlin;|MIT
http://dx.doi.org/10.1101/095463 2016-12-20 Genomics Umap and Bismap: quantifying genome and methylome mappability Mehran Karimzadeh|Carl Ernst|Anshul Kundaje|Michael M. Hoffman University of Toronto;|McGill University;|Stanford University;|Princess Margaret Cancer Centre
http://dx.doi.org/10.1101/095513 2016-12-20 Genetics CC BY-NC-ND Whole genome sequence accuracy is improved by replication in a population of mutagenized sorghum. Charles Addo-Quaye|Mitch Tuinstra|Nicola Carraro|Clifford Weil|Brian P Dilkes Purdue University, United States
http://dx.doi.org/10.1101/095661 2016-12-20 Genetics CC BY-NC-ND Biased phylodynamic inferences from analysing clusters of viral sequences Bethany Dearlove|Fei Xiang|Simon Frost University of Cambridge
http://dx.doi.org/10.1101/095687 2016-12-20 Synthetic Biology CC BY Population dynamics of synthetic Terraformation motifs Ricard Sole|Raul Montanez|Salva Duran-Nebreda|Daniel R Amor|Blai Vidiella|Josep Sardanyes Universitat Pompeu Fabra;|MIT
http://dx.doi.org/10.1101/095596 2016-12-20 Evolutionary Biology CC BY-NC-ND Mitochondrial-nuclear interactions maintain a deep mitochondrial split in the face of nuclear gene flow Hernan E Morales|Alexandra Pavlova|Nevil Amos|Richard Major|Jason Bragg|Andrzej Kilian|Chris Greening|Paul Sunnucks University of Gothenburg;|Monash University;|Arthur Rylah Institute for Environmental Research;|Australian Museum Research Institute;|National Herbarium of NSW;|Diversity Arrays Technology Pty Ltd
http://dx.doi.org/10.1101/095646 2016-12-20 Genetics Loss of the homologous recombination gene rad51 leads to Fanconi anemia-like symptoms in zebrafish Jan Gregor Botthof|Ewa Bielczyk-Maczynska|Lauren Ferreira|Ana Cvejic University of Cambridge
http://dx.doi.org/10.1101/095638 2016-12-20 Bioinformatics Partitioned learning of deep Boltzmann machines for SNP data Moritz Hess|Stefan Lenz|Tamara Blaette|Lars Bullinger|Harald Binder University Medical Center Johannes Gutenberg University Mainz;|University Hospital of Ulm
http://dx.doi.org/10.1101/095562 2016-12-20 Biophysics CC BY-NC-ND Single-enzyme approach predicts natural emergence of inhibitor-activator duality Tal Rotbart|Shlomi Reuveni|Michael Urbakh Tel-Aviv University;|Harvard Medical School
http://dx.doi.org/10.1101/095653 2016-12-20 Bioinformatics Integrated deep learned transcriptomic and structure-based predictor of clinical trials outcomes Artem V Artemov|Evgeny Putin|Quentin Vanhaelen|Alexander Aliper|Ivan V Ozerov|Alex Zhavoronkov Insilico Medicine, Inc.
http://dx.doi.org/10.1101/095547 2016-12-20 Genomics CC BY Gene fractionation and function in the ancient subgenomes of maize Simon Renny-Byfield|Eli Rodgers-Melnick|Jeff Ross-Ibarra DuPont Pioneer, Johnston, IA; Dept. Plant Sciences, UC Davis;|DuPont Pioneer, Johnston, IA; Institute of Genomic Diversity, Cornell University;|UCDavis
http://dx.doi.org/10.1101/095554 2016-12-20 Developmental Biology Myotome adaptability confers developmental robustness to somitic myogenesis in response to fibre number alteration. Shukolpa Dutta duttaroy|Victoria C Williams-Ward|Tapan G Pipalia|Chrissy L Hammond|Stefanie Knappe|Robert D Knight|Simon M Hughes|Kuoyu Li King's College London
http://dx.doi.org/10.1101/095828 2016-12-21 Dynamic compensation, parameter identifiability, and equivariances Eduardo Sontag Rutgers University
http://dx.doi.org/10.1101/095984 2016-12-21 Neuroscience Activity-dependent expression of reporter proteins at dendritic spines for synaptic activity mapping and optogenetic stimulation Francesco Gobbo|Laura Marchetti|Claudia Alia|Stefano Luin|Antonino Cattaneo Bio@SNS, Scuola Normale Superiore;|CNI@NEST, Istituto Italiano di Tecnologia;|NEST, Scuola Normale Superiore
http://dx.doi.org/10.1101/095935 2016-12-21 Neuroscience The Constancy of Colored After-Images Semir Zeki|Samuel Cheadle|Joshua Pepper|Dimitris Mylonas University College London
http://dx.doi.org/10.1101/095588 2016-12-21 Neuroscience CC BY-NC Transcranial stimulation enhances memory-relevant sleep oscillations and their functional coupling in mild cognitive impairment Julia Ladenbauer|Josef Ladenbauer|Nadine Kulzow|Rebecca de Boor|Elena Avramova|Ulrike Grittner|Agnes Floel Charité Universitätsmedizin Berlin;|Technische Universität Berlin
http://dx.doi.org/10.1101/095844 2016-12-21 Neuroscience CC BY BAYESIAN NON-CENTRAL CHI REGRESSION FOR NEUROIMAGING Bertil Wegmann|Anders Eklund|Mattias Villani Linkoping University
http://dx.doi.org/10.1101/095703 2016-12-21 Neuroscience CC BY Online control of prehension predicts performance on a standardised motor assessment test in 8-12 year-old children Caroline C. V. Blanchard|Hannah L. McGlashan|Blandine French|Rachel J. Sperring|Bianca Petrocochino|Nicholas P. Holmes School of Psychology, University of Nottingham, University Park, Nottingham NG7 2RD, UK;|School of Psychology and Clinical Language Sciences, University of Reading, Reading RG6 6AL, UK
http://dx.doi.org/10.1101/095851 2016-12-21 Ecology CC BY-NC-ND Coefficient of determination R2 and intra-class correlation coefficient ICC from generalized linear mixed-effects models revisited and expanded Shinichi Nakagawa|Holger Schielzeth University of New South Wales;|Friedrich Schiller University Jena
http://dx.doi.org/10.1101/095869 2016-12-21 Microbiology Transcriptional study of the ABC transporter-encoding genes in response to fungicide treatment and during plant infection in the phytopathogenic fungus Botrytis cinerea Elise LOISEL|Isabelle R GONCALVES|Nathalie POUSSEREAU|Marie-Claire GROSJEAN-COURNOYER|Francois VILLALBA|Christophe BRUEL Lyon UCBL University (France);|BAYER Cropscience SAS Lyon France
http://dx.doi.org/10.1101/095448 2016-12-21 Microbiology CC BY Acidic pH-dependent depletion of Mycobacterium tuberculosis thiol pools potentiates antibiotics and oxidizing agents Garry B Coulson|Benjamin K Johnson|Christopher J. Colvin|Robert J Fillinger|Huiqing Zheng|Elizabeth R. Haiderer|Neal D Hammer|Robert B. Abramovitch Michigan State University
http://dx.doi.org/10.1101/095893 2016-12-21 Bioinformatics CC BY-NC-ND A Unique Ribosome Signature Reveals Bacterial Translation Initiation Sites Adam Giess|Elvis Ndah|Veronique Jonckheere|Petra Van Damme|Eivind Valen University of Bergen;|Ghent University
http://dx.doi.org/10.1101/096057 2016-12-21 Evolutionary Biology CC BY Transcriptomic Evidence for Reproductive Suppression in Male Peromyscus eremicus (Cactus Mouse) Subjected to Acute Dehydration Lauren Kordonowy|Matthew MacManes University of New Hampshire
http://dx.doi.org/10.1101/096024 2016-12-21 Genomics CC BY-NC-ND Noninvasive Prenatal Screening at Low Fetal Fraction: Comparing Whole- Genome Sequencing and Single-Nucleotide Polymorphism Methods Carlo G. Artieri|Carrie Haverty|Eric A. Evans|James D. Goldberg|Imran S. Haque|Yuval Yaron|Dale Muzzey Counsyl Inc.;|Genetic Institute, Tel Aviv Sourasky Medical Center and Sackler Faculty of Medicine Tel Aviv U.
http://dx.doi.org/10.1101/095885 2016-12-21 Microbiology CC BY-NC Speciation trajectories in recombining bacterial species Pekka Marttinen|Bill Hanage Aalto University;|Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/095901 2016-12-21 Evolutionary Biology CC BY-NC-ND Non-random mating and information theory Antonio Carvajal-Rodriguez Universidad de Vigo
http://dx.doi.org/10.1101/095877 2016-12-21 Evolutionary Biology CC BY-NC-ND Isolation and Gene Flow in a Speciation Continuum in Newts Maciej Pabijan|Piotr Zielinski|Katarzyna Dudek|Michal Stuglik|Wieslaw Babik Institute of Zoology, Jagiellonian University;|Institute of Environmental Sciences, Jagiellonian University;|Scotlands Rural College, Integrative Animal Sciences
http://dx.doi.org/10.1101/095950 2016-12-21 Neuroscience CC BY-NC-ND Behavioural, modeling, and electrophysiological evidence for domain-generality in human metacognition Nathan Faivre|Elisa Filevich|Guillermo Solovey|Simone Kuhn|Olaf Blanke CNRS;|Humboldt Universitat;|Universidad de Buenos Aires;|Max Planck Institute;|EPFL
http://dx.doi.org/10.1101/095927 2016-12-21 Biophysics The Liquid Structure of Elastin Sarah Rauscher|Regis Pomes Hospital for Sick Children
http://dx.doi.org/10.1101/095711 2016-12-21 Genetics A SUMO-Ubiquitin Relay Recruits Proteasomes to Chromosome Axes to Regulate Meiotic Recombination H.B.D. Prasada Rao|Huanyu Qiao|Shubhang K. Bhatt|Logan R.J. Bailey|Hung D. Tran|Sarah L. Bourne|Wendy Qiu|Anusha Deshpande|Ajay N. Sharma|Connor J. Beebout|Roberto J. Pezza|Neil Hunter University of California, Davis;|Oklahoma Medical Research Foundation
http://dx.doi.org/10.1101/095992 2016-12-21 Biophysics CC BY Non-equilibrium chromosome looping via molecular slip-links Chris A Brackley|James Johnson|Davide Michieletto|Alexander N Morozov|Mario Nicodemi|Peter R Cook|Davide Marenduzzo University of Edinburgh;|Universiy of Edinburgh;|Universita di Napoli;|University of Oxford
http://dx.doi.org/10.1101/096008 2016-12-21 Cell Biology CC BY-NC Chlamydomonas reinhardtii formin and profilin are optimized for acute rapid actin filament assembly Jenna R Christensen|Michael J Glista|David M Mueller|Yujie Li|Jennifer A Sees|Colleen T Skau|Laurens J Mets|Prachee Avasthi|David R Kovar University of Chicago;|University of Kansas Medical Center
http://dx.doi.org/10.1101/095976 2016-12-21 Biophysics CC BY-NC-ND Cell Mechanosensing and Avoidance of Strain Gradients Sophie Chagnon-Lessard|Hubert Jean-Ruel|Michel Godin|Andrew E. Pelling University of Ottawa;|Carleton University
http://dx.doi.org/10.1101/095810 2016-12-21 Bioinformatics Using Single Nucleotide Variations in Cancer Single-Cell RNA-Seq Data for Subpopulation Identification and Genotype-phenotype Linkage Analysis Olivier B. Poirion|Xun Zhu|Travers Ching|Lana X. Garmire University of Hawaii Cancer Center
http://dx.doi.org/10.1101/089870 2016-12-21 Neuroscience Statistical testing and power analysis for brain-wide association study Weikang Gong|Lin Wan|Wenlian Lu|Liang Ma|Fan Cheng|Wei Cheng|Stefan Gruenewald|Jianfeng Feng Chinese Academy of Sciences;|Fudan University
http://dx.doi.org/10.1101/095802 2016-12-21 Genomics CC BY-NC Targeted degradation of CTCF decouples local insulation of chromosome domains from higher-order genomic compartmentalization Elphege P Nora|Anton Goloborodko|Anne-Laure Valton|Johan Gibcus|Alec Uebsersohn|Nezar Abdennur|Job Dekker|Leonid Mirny|Benoit Bruneau Gladstone Institute of Cardiovascular Disease;|Massachusetts Institute of Technology;|University of Massachusetts Medical School;|Berkeley University
http://dx.doi.org/10.1101/096388 2016-12-22 CC BY Quantitative mRNA Imaging Throughout the Entire Drosophila Brain Xi Long|Jennifer Colonell|Allan M Wong|Robert H Singer|Timothee Lionnet HHMI Janelia Research Campus
http://dx.doi.org/10.1101/096412 2016-12-22 CC BY Unicycler: resolving bacterial genome assemblies from short and long sequencing reads Ryan R. Wick|Louise M. Judd|Claire L. Gorrie|Kathryn E. Holt Centre for Systems Genomics, The University of Melbourne, Victoria, Australia
http://dx.doi.org/10.1101/096222 2016-12-22 CC BY-NC-ND ASAP: a Web-based platform for the analysis and inter-active visualization of single-cell RNA-seq data Vincent Gardeux|Fabrice David|Adrian Shajkofci|Petra C Schwalie|Bart Deplancke EPFL
http://dx.doi.org/10.1101/096289 2016-12-22 CC BY Natural diversity of the malaria vector Anopheles gambiae Alistair Miles|Nicholas J Harding|Giordano Botta|Chris Clarkson|Tiago Antao|Krzysztof Kozak|Daniel Schrider|Andrew Kern|Seth Redmond|Igor Sharakhov|Richard Pearson|Christina Bergey|Michael Fontaine|Arlete Troco|Abdoulaye Diabate|Carlo Costantini|Kyanne Rohatgi|Nohal Elissa|Boubacar Coulibaly|Joao Dinis|Janet Midega|Charles Mbogo|Henry Mawejje|Jim Stalker|Kirk Rockett|Eleanor Drury|Dan Mead|Anna Jeffreys|Christina Hubbart|Kate Rowlands|Alison Isaacs|Dushyanth Jyothi|Cinzia Malangone|Paul Vauterin|Ben Jeffrey|Ian Wright|Lee Hart|Krzysztof Kluczynski|Victoria Cornelius|Bronwyn MacInnis|Christa Henrichs|Rachel Giacomantonio|Diego Ayala|Philip Bejon|Nora Besansky|Austin Burt|Beniamino Caputo|Alessandra della Torre|Charles Godfray|Matthew Hahn|Daniel Neafsey|Samantha O'Loughlin|Joao Pinto|Michelle Riehle|Kenneth Vernick|David Weetman|Craig Wilding|Bradley White|Mara Lawniczak|Martin Donnelly|Dominic Kwiatkowski Wellcome Trust Sanger Institute and Oxford University;|University of Oxford;|Universita di Roma SAPIENZA;|Wellcome Trust Sanger Institute;|University of Montana;|Rutgers, The State University of New Jersey;|Broad Institute;|Virginia Tech;|University of Notre Dame;|Groningen Institute for Evolutionary Life Sciences;|Ministerio da Saude, Luanda, Angola;|Institut de Recherche en Sciences de la Sante (IRSS), Bobo Dioulasso, Burkina Faso;|Institut de Recherche pour le Developpement;|Centre International de Recherches Medicales de Franceville, Gabon;|University of Mali;|Ministerio da Saude Publica, Bissau, Guine-Bissau;|KEMRI-Wellcome Trust Research Programme;|Infectious Diseases Research Collaboration, Kampala, Uganda;|Liverpool School of Tropical Medicine;|The Broad Institute of Massachusetts Institute of Technology and Harvard;|Imperial College;|Indiana University;|Universidade Nova de Lisboa;|University of Minnesota;|Institut Pasteur;|Liverpool John Moores University;|University of California Riverside
http://dx.doi.org/10.1101/096297 2016-12-22 CC BY-NC-ND Sequence and structural diversity of mouse Y chromosomes Andrew Parker Morgan|Fernando Pardo Manuel de Villena University of North Carolina
http://dx.doi.org/10.1101/096214 2016-12-22 CC BY Associations of coffee genetic risk scores with coffee, tea and other beverages in the UK Biobank Amy E Taylor|Marcus R Munafo University of Bristol
http://dx.doi.org/10.1101/096354 2016-12-22 CC BY The DOE Systems Biology Knowledgebase (KBase) Adam P. Arkin|Rick L Stevens|Robert W Cottingham|Sergei Maslov|Christopher S Henry|Paramvir Dehal|Doreen Ware|Fernando Perez|Nomi L Harris|Shane Canon|Michael W Sneddon|Matthew L Henderson|William J Riehl|Dan Gunter|Dan Murphy-Olson|Stephen Chan|Roy T Kamimura|Thomas S Brettin|Folker Meyer|Dylan Chivian|David J Weston|Elizabeth M Glass|Brian H Davison|Sunita Kumari|Benjamin H Allen|Jason Baumohl|Aaron A Best|Ben Bowen|Steven E Brenner|Christopher C Bun|John-Marc Chandonia|Jer-Ming Chia|Ric Colasanti|Neal Conrad|James J Davis|Matthew DeJongh|Scott Devoid|Emily Dietrich|Meghan M Drake|Inna Dubchak|Janaka N Edirisinghe|Gang Fang|Jose P Faria|Paul M Frybarger|Wolfgang Gerlach|Mark Gerstein|James Gurtowski|Holly L Haun|Fei He|Rashmi Jain|Marcin P Joachimiak|Kevin P Keegan|Shinnosuke Kondo|Vivek Kumar|Miriam L Land|Marissa Mills|Pavel Novichkov|Taeyun Oh|Gary J Olsen|Bob Olson|Bruce Parrello|Shiran Pasternak|Erik Pearson|Sarah S Poon|Gavin Price|Srividya Ramakrishnan|Priya Ranjan|Pamela C Ronald|Michael C Schatz|Samuel M D Seaver|Maulik Shukla|Roman A Sutormin|Mustafa H Syed|James Thomason|Nathan L Tintle|Daifeng Wang|Fangfang Xia|Hyunseung Yoo|Shinjae Yoo University of California;|Argonne National Laboratory;|Oak Ridge National Laboratory;|Brookhaven National Laboratory;|E. O. Lawrence Berkeley National Laboratory;|Cold Spring Harbor Laboratory;|Hope College;|E. O. Lawrence Berkeley National Laboratory, Berkeley;|Yale University;|University of California-Davis
http://dx.doi.org/10.1101/096040 2016-12-22 CC BY-NC-ND Inter-Subject Alignment of MEG Datasets at the Neural Representational Space Qiong Zhang|Jelmer Borst|Robert E. Kass|John R. Anderson Carnegie Mellon University;|University of Groningen
http://dx.doi.org/10.1101/095380 2016-12-22 Drug repurposing for ageing research using model organisms Matthias Ziehm|Satwant Kaur|Dobril K Ivanov|Pedro J Ballester|David Marcus|Linda Partridge|Janet M Thornton EMBL-EBI & UCL;|EMBL-EBI;|UCL & MPI for Biology of Ageing
http://dx.doi.org/10.1101/096198 2016-12-22 Trial-by-trial neural variability is a stable individual trait of adult humans Ayelet Arazi|Gil Gonen-Yaacovi|Ilan Dinstein Ben Gurion University
http://dx.doi.org/10.1101/094565 2016-12-22 CC BY-NC-ND Histone gene expression is regulated by histone H2B ubiquitylation in fission yeast Viviane Page|David Grabowski|C. David Allis|Jason Tanny McGill University;|Rockefeller University
http://dx.doi.org/10.1101/096313 2016-12-22 Closed-loop estimation of retinal network sensitivity reveals signature of efficient coding Ulisse Ferrari|Christophe Gardella|Olivier Marre|Thierry Mora Universite Pierre et Marie Curie;|Ecole normale superieure
http://dx.doi.org/10.1101/090100 2016-12-22 The E3 ubiquitin ligase UBR5 regulates centriolar satellite stability and primary cilia formation via ubiquitylation of CSPP-L. Robert F Shearer|Kari-Anne Myrum Frikstad|Jessie McKenna|Rachael McCloy|Niantao Deng|Andrew Burgess|Trond Stokke|Sebastian Patzke|Darren N Saunders Garvan Institute of Medical Research;|Norwegian Radium Hospital, Institute for Cancer Research;|University of New South Wales
http://dx.doi.org/10.1101/096016 2016-12-22 CC BY Diatom Centromeres Suggest a Novel Mechanism for Nuclear Gene Acquisition Rachel E. Diner|Chari M Noddings|Nathan C. Lian|Anthony K. Kang|Jeffrey B. McQuaid|Jelena Jablanovic|Josh L. Espinoza|Ngocquynh A. Nguyen|Miguel A. Anzelmatti|Jakob Jansson|Vincent A. Bielinski|Bogumil J. Karas|Christopher L. Dupont|Andrew E. Allen|Philip D. Weyman Scripps Institution of Oceanography;|J. Craig Venter Institute;|J Craig Venter Institute
http://dx.doi.org/10.1101/096263 2016-12-22 CC BY-NC-ND The correlation between central and peripheral oxytocin concentrations: a systematic review and meta-analysis Mathias Valstad|Gail A Alvares|Maiken Egknud|Anna Maria Matziorinis|Ole A Andreassen|Lars T Westlye|Daniel S Quintana University of Oslo;|University of Western Australia
http://dx.doi.org/10.1101/094060 2016-12-22 CC BY-ND High-spatial-resolution transcriptome profiling reveals uncharacterized regulatory complexity underlying cambial growth and wood formation in Populus tremula David Sundell|Nathaniel R Street|Manoj Kumar|Ewa J Mellerowicz|Melis Kucukoglu|Christoffer Johnsson|Vikash Kumar|Chanaka Mannapperuma|Ove Nilsson|Hannele Tuominen|Edouard Pesquet|Urs Fischer|Totte Niittyla|Bjoern Sundberg|Torgeir R Hvidsten Umeaa University;|Swedish University of Agricultural Sciences;|Umeaa University and Stockholm University;|Umeaa University and Norwegian University of Life Sciences
http://dx.doi.org/10.1101/096206 2016-12-22 Rampant Reverse Evolution towards Specialization in Commensal Bacteria Colonizing the Gut Ana Sousa|Ricardo Ramiro|Joao Batista|Daniela Guleresi|Marta Lourenco|Isabel Gordo Instituto Gulbenkian de Ciencia;|Institute Pasteur;|Instituo Gulbenkian de Ciencia
http://dx.doi.org/10.1101/096271 2016-12-22 Regulation of eIF4F complex by the peptidyl prolyl isomerase FKBP7 in taxane-resistant prostate cancer Marine Fanny GARRIDO|Nicolas JP MARTIN|Catherine GAUDIN|Frederic Commo|Nader AL NAKOUZI|Ladan FAZLI|Elaine DEL NERY|Jacques Camonis|Franck Perez|Stephanie LERONDEL|Alain LE PAPE|Hussein ABOU-HAMDAN|Martin Gleave|Yohann Loriot|Laurent DESAUBRY|stephan VAGNER|Karim FIZAZI|Anne CHAUCHEREAU Gustave Roussy;|Vancouver Prostate Centre;|Institut Curie;|PHENOMIN-TAAM CIPA;|Strasbourg University
http://dx.doi.org/10.1101/096305 2016-12-22 CC BY-NC-ND Quantification of subclonal selection in cancer from bulk sequencing data Marc J Williams|Benjamin Werner|Christina Curtis|Chris Barnes|Andrea Sottoriva|Trevor A Graham UCL;|Institute of Cancer Research;|Stanford University;|University College London;|The Institute of Cancer Research;|QMUL
http://dx.doi.org/10.1101/096065 2016-12-22 Genomics CC BY Sex matters in Massive Parallel Sequencing: Evidence for biases in genetic parameter estimation and investigation of sex determination systems Laura Benestan|Jean-Sebastien Moore|Ben J. G. Sutherland|Jeremy Le Luyer|Halim Maaroufi|Clement Rougeux|Eric Normandeau|Nathan Rycroft|Jelle Atema|Les N. Harris|Ross F. Tallman|Spencer J. Greenwood|K. Fraser Clark|Louis Bernatchez Institut de Biologie Integrative et des Systemes (IBIS), Universite Laval, Quebec, Quebec, Canada;|Fisheries and Oceans Canada, Freshwater Institute, Winnipeg, Manitoba, Canada;|Department of Biology, Boston University, Boston, MA, USA;|Dept. of Biomedical Sciences & Atlantic Veterinary College Lobster Science Centre, UPEI, Canada
http://dx.doi.org/10.1101/096073 2016-12-22 Animal Behavior and Cognition Looking at my own Face: Visual Processing Strategies in Physical Self-representation Anya Chakraborty|Bhismadev Chakrabarti University of Reading
http://dx.doi.org/10.1101/095919 2016-12-22 Neuroscience Variable penetrance of the 15q11.2 BP1-BP2 microduplication in a family with cognitive and language impairment Antonio Benitez-Burraco|Montserrat Barcos-Martinez|Isabel Espejo-Portero|Maria Salud Jimenez-Romero University of Huelva;|University Hospital Reina Sofia;|University of Cordoba
http://dx.doi.org/10.1101/096248 2016-12-22 Synthetic Biology CC BY-NC-ND Control of Lipid Domain Organization by a Biomimetic Contractile Actomyosin Cortex Sven Kenjiro Vogel|Ferdinand Greiss|Alena Khmelinskaia|Petra Schwille Max Planck Institute;|Ludwig-Maximilians-University
http://dx.doi.org/10.1101/096602 2016-12-23 CC BY-NC-ND Aggregation of biological particles under radial directional guidance. Ion Bica|Thomas Hillen|Kevin J. Painter Grant McEwan University;|University of Alberta;|Heriot-Watt University
http://dx.doi.org/10.1101/096636 2016-12-23 CC BY-NC Cell reprogramming modelled as transitions in a hierarchy of cell cycles Ryan Hannam|Alessia Annibale|Reimer Kuehn King's College London
http://dx.doi.org/10.1101/096578 2016-12-23 CC BY-ND Generation of heritable germline mutations in the jewel wasp Nasonia vitri pennis using CRISPR/Cas9 Ming Li|Lauren Yun Cook|Deema Douglah|Abigail Chong|Bradley J White|Patrick Ferree|Omar S Akbari UCR;|Claremont McKenna, Pitzer and Scripps Colleges
http://dx.doi.org/10.1101/096503 2016-12-23 Genomics When GWAS meets the Connectivity Map: drug repositioning for seven psychiatric disorders Hon-Cheong So|Carlos K.L. Chau|Wan-To Chiu|Kin-Sang Ho|Cho-Pong Lo|Stephanie Ho-Yue Yim|Pak C. Sham Chinese University of Hong Kong;|Univeristy of Exeter;|University of Hong Kong
http://dx.doi.org/10.1101/096479 2016-12-23 Genomics CC BY No evidence for a bovine mastitis Escherichia coli pathotype Andreas Leimbach|Anja Poehlein|John Vollmers|Rolf Daniel|Ulrich Dobrindt Institute of Hygiene, University of Muenster, Muenster, Germany;|Institute of Microbiology and Genetics, Georg-August-University of Goettingen, Goettingen, Germany;|Leibniz Institute DSMZ, German Collection of Microorganisms and Cell Cultures, Braunschweig, Germany
http://dx.doi.org/10.1101/096438 2016-12-23 Evolutionary Biology Genotypic complexity of Fisher's geometric model Sungmin Hwang|Su-Chan Park|Joachim Krug University of Cologne;|The Catholic University of Korea
http://dx.doi.org/10.1101/096537 2016-12-23 Microbiology CC BY OptiClust: Improved method for assigning amplicon-based sequence data to operational taxonomic units Sarah L Westcott|Patrick D Schloss University of Michigan
http://dx.doi.org/10.1101/096487 2016-12-23 Genomics THE GENOMIC CODE: ISOCHORES ENCODE AND MOLD CHROMATIN DOMAINS Giorgio Bernardi Department of Science, Roma Tre University
http://dx.doi.org/10.1101/096230 2016-12-23 Genomics CC BY-NC Human pancreatic β cell lncRNAs control cell-specific regulatory networks Ildem Akerman|Zhidong Tu|Anthony Beucher|Delphine Rolando|Claire Sauty-Colace|Marion Benazra|Nikolina Nakic|Jialiang Yang|Huan Wang|Lorenzo Pasquali|Ignasi Moran|Javier Garcia-Hurtado|Natalia Castro|Roser Gonzalez-Franco|Andrew F. Stewart|Caroline Bonner|Lorenzo Piemonti|Thierry Berney|Leif Groop|Julie Kerr-Conte|Francois Pattou|Carmen Argmann|Eric Schadt|Philippe Ravassard|Jorge Ferrer Imperial College London;|Icahn School of Medicine at Mount Sinai;|Institut du cerveau et de la moelle;|Institut du Cerveau et de la Moelle;|Germans Trias i Pujol University Hospital and Research Institute;|Institut d Investigacions Biomediques August Pi I Sunyer;|European Genomic Institute for Diabetes;|San Raffaele Scientific Institute;|University of Geneva;|Lund University
http://dx.doi.org/10.1101/096453 2016-12-23 Evolutionary Biology Tradeoffs between microbial growth phases lead to frequency-dependent and non-transitive selection Michael Manhart|Bharat V. Adkar|Eugene I. Shakhnovich Harvard University
http://dx.doi.org/10.1101/096420 2016-12-23 Neuroscience Brain connectivity dynamics during social interaction reflect social network structure Ralf Schmaelzle|Matthew Brook O'Donnell|Javier O. Garcia|Christopher N.C. Cascio|Joseph Bayer|Jean Vettel|Emily B. Falk Michigan State University;|University of Pennsylvania;|U.S. Army Research Laboratory;|The Ohio State University
http://dx.doi.org/10.1101/096511 2016-12-23 Molecular Biology CC BY Histone H3K4 and H3K36 methylation promotes recruitment, but not activity, of the NuA3 histone acetyltransferase complex in S. cerevisiae Benjamin JE Martin|Kristina L McBurney|Vicki E Maltby|Kristoffer N Jensen|Julie Brind Amour|LeAnn J Howe Department of Biochemistry and Molecular Biology, University of British Columbia;|School of Biomedical Sciences and Pharmacy, University of Newcastle;|Department of Medical Genetics, University of British Columbia
http://dx.doi.org/10.1101/096172 2016-12-23 Neuroscience CC BY-NC-ND Gene expression patterns associated with neurological disease in HIV infection Pietro Paolo Sanna|Vez Repunte-Canonigo|Eliezer Masliah|Celine Lefebvre The Scripps Research Institute;|National Institute on Aging;|Gustave Roussy Institute
http://dx.doi.org/10.1101/096446 2016-12-23 Microbiology CC BY Gastrointestinal carriage is a major reservoir of K. pneumoniae infection in intensive care patients Claire L Gorrie|Mirjana Mirceta|Ryan R Wick|David J Edwards|Richard A Strugnell|Nigel Pratt|Jill Garlick|Kerrie Watson|David Pilcher|Steven McGloughlin|Denis W Spelman|Adam W J Jenney|Kathryn E Holt Centre for Systems Genomics, The University of Melbourne, Victoria, Australia;|Microbiology Unit, Alfred Health, Melbourne, Victoria, Australia;|Department of Microbiology and Immunology at the Peter Doherty Institute for Infection and Immunity,;|Infectious Diseases Clinical Research Unit, The Alfred Hospital, Melbourne, Victoria, Australia;|Intensive Care Unit, The Alfred Hospital, Melbourne, Victoria, Australia;|Microbiology Unit & Department of Infectious Diseases, The Alfred Hospital, Melbourne, Victoria, Aus
http://dx.doi.org/10.1101/096404 2016-12-23 Neuroscience The primary motor cortex is critical for the retention of implicit sensorimotor adaptation Li-Ann Leow|Welber Marinovic|Lilian Chye|Timothy J Carroll|Stephan Riek The University of Queensland;|Curtin University of Technology
http://dx.doi.org/10.1101/096560 2016-12-23 Genetics CC BY-NC-ND Inference of Multiple-wave Admixtures by Length Distribution of Ancestral Tracks Xumin Ni|Xiong Yang|Kai Yuan|Qidi Feng|Wei Guo|Zhiming Ma|Shuhua Xu Department of Mathematics, School of Science, Beijing Jiaotong University;|CAS-MPG Partner Institute for Computational Biology;|Inst of Applied Mathematics, Academy of Mathematics and Systems Science, Chinese Academy of Sciences
http://dx.doi.org/10.1101/096461 2016-12-23 Neuroscience CC BY-NC From static to temporal network theory - applications to functional brain connectivity William Hedley Hedley Thompson|Per Brantefors|Peter Fransson Karolinska Institutet
http://dx.doi.org/10.1101/096529 2016-12-23 Bioinformatics CC BY-NC GeneSeqToFamily: the Ensembl Compara GeneTrees pipeline as a Galaxy workflow Anil S. Thanki|Nicola Soranzo|Wilfried Haerty|Matthieu Muffato|Robert P. Davey Earlham Institute;|The European Bioinformatics Institute
http://dx.doi.org/10.1101/096396 2016-12-23 Epidemiology CC BY-NC-ND Infectious Disease Dynamics Inferred from Genetic Data via Sequential Monte Carlo Richard A Smith|Edward L Ionides|Aaron A King University of Michigan
http://dx.doi.org/10.1101/096347 2016-12-23 Microbiology CC BY-NC-ND Spatiotemporal Dynamics of the Bacterial Microbiota and Methanotrophic Bacteria on Lotic Cladophora glomerata (Chlorophyta) Michael J Braus|Thea Whitman|Linda Graham University of Wisconsin - Madison
http://dx.doi.org/10.1101/096339 2016-12-23 Neuroscience CC BY-ND Identifying Model-Based and Model-Free Patterns in Behavior on Multi-Step Tasks Kevin J Miller|Matthew Botvinick|Carlos D Brody Princeton University;|Google DeepMind;|HHMI & Princeton University
http://dx.doi.org/10.1101/096362 2016-12-22 Systems Biology CC BY-NC-ND Inferring hidden causal relations between pathway members using reduced Google matrix of directed biological networks Jose Lages|Dima Shepelyansky|Andrei Zinovyev Institut UTINAM - Theoretical Physics and Astrophysics group;|University Paul Sabatier, CNRS 5152;|Insitut Curie
http://dx.doi.org/10.1101/096735 2016-12-24 CC BY-NC K-mer Motif Multinomial Mixtures Brian L Trippe|Sandhya Prabhakaran|Harmen Bussemaker Columbia University
http://dx.doi.org/10.1101/096701 2016-12-24 Systems Biology CC BY A network theory of the origin of life Geoffrey William Hoffmann University British Columbia
http://dx.doi.org/10.1101/092627 2016-12-24 Bioinformatics CC BY-NC-ND RealTime Heart Rate Monitoring Using Photoplethysmographic (PPG) Signals During Intensive Physical Exercises Majid Farhadi|Mahdi Boloursaz Mashhadi|Mahmoud Essalat|Farokh Marvasti Sharif University of Technology
http://dx.doi.org/10.1101/096552 2016-12-24 Genomics CC BY-NC-ND Flexible statistical methods for estimating and testing effects in genomic studies with multiple conditions Sarah Margaret Urbut|Gao Wang|Matthew Stephens Univ. of Chicago
http://dx.doi.org/10.1101/096719 2016-12-24 Bioinformatics CC BY Metagenomic Binning through Multi-resolution Genomic Binary Patterns Samaneh Kouchaki|Avraam Tapinos|David L Robertson University of Manchester
http://dx.doi.org/10.1101/096628 2016-12-24 Genomics rAmpSeq: Using repetitive sequences for robust genotyping Edward S Buckler|Daniel C. Ilut|Xiaoyun Wang|Tobias Kretzschmar|Michael A. Gore|Sharon E. Mitchell US Department of Agriculture, Agricultural Research Service;|Cornell University;|International Rice Research Institute
http://dx.doi.org/10.1101/087338 2016-12-24 Bioinformatics CC BY-NC-ND diffloop: a computational framework for identifying and analyzing differential DNA loops from sequencing data Caleb Lareau|Martin Aryee Harvard University;|Massachusetts General Hospital
http://dx.doi.org/10.1101/093807 2016-12-24 Bioinformatics CC BY-NC Incorporating the Rate of Transcriptional Change Improves Construction of Transcription Factor Regulatory Networks Jigar Desai|Ryan C Sartor|Lovely Mae Lawas|Krishna Jagadish SV|Colleen J Doherty North Carolina State University;|University of California, San Diego;|International Rice Research Institute
http://dx.doi.org/10.1101/094912 2016-12-24 Evolutionary Biology CC BY-NC-ND Two loci contribute epistastically to heterospecific pollen rejection, a postmating isolating barrier between species Jennafer Hamlin|Natasha Sherman|Leonie C Moyle Indiana University
http://dx.doi.org/10.1101/096677 2016-12-24 Bioinformatics CC BY Inferring Weighted Gene Annotations from Expression Dat MIchael P Cary|Cynthia Kenyon University of California, San Francisco;|University of California, San Francisco, and Calico Life Sciences
http://dx.doi.org/10.1101/096594 2016-12-24 Neuroscience CC BY-ND Dorsal hippocampus plays a causal role in model-based planning Kevin J Miller|Matthew M Botvinick|Carlos D Brody Princeton University;|Google DeepMind;|HHMI & Princeton University
http://dx.doi.org/10.1101/096651 2016-12-24 Biophysics Assembly of photoactive Orange Carotenoid Protein from its domains unravels a carotenoid shuttle mechanism Marcus Moldenhauer|Nikolai N. Sluchanko|David Buhrke|Dmitry V. Zlenko|Neslihan N. Tavraz|Franz-Josef Schmitt|Peter Hildebrandt|Eugene G. Maksimov|Thomas Friedrich Technical University of Berlin;|Russian Academy of Sciences;|Lomonosov Moscow State University
http://dx.doi.org/10.1101/096644 2016-12-23 Genetics CC BY-NC Genetic and transgenic reagents for Drosophila simulans, D. mauritiana, D. yakuba, D. santomea and D. virilis David Stern|Justin Crocker|Yun Ding|Nicolas Frankel|Gretchen Kappes|Elizabeth Kim|Ryan Kuzmickas|Andrew Lemire|Serge Picard Janelia Research Campus;|Universidad de Buenos Aires;|Princeton University;|Brigham and Women's Hospital
http://dx.doi.org/10.1101/096586 2016-12-23 Neuroscience CC BY-NC-ND Neuronal gain modulability is determined by dendritic morphology: a computational optogenetic study Sarah Jarvis|Konstantin Nikolic|Simon Schultz Imperial College London
http://dx.doi.org/10.1101/096784 2016-12-26 Bioinformatics CC BY-NC-ND Quantifying variation by the ratio of CSS to UCSS Mohammadhadi Pahlevani Gorgan University of Agricultural Sciences and Natural Resources
http://dx.doi.org/10.1101/096800 2016-12-26 Evolutionary Biology Evolutionary history of the brown rat: out of southern East Asia and selection Lin Zeng|Chen Ming|Yan Li|Ling-Yan Su|Yan-Hua Su|Newton O. Otecko|Ambroise Dalecky|Stephen Donnellan|Ken Aplin|Xiao-Hui Liu|Ying Song|Zhi-Bin Zhang|Ali Esmailizadeh|Saeed S. Sohrabi|Hojjat Asadollahpour Nanaei|He-Qun Liu|Ming-Shan Wang|Solimane Ag Atteynine|Gerard Rocamora|Fabrice Brescia|Serge Morand|David M. Irwin|Ming-sheng Peng|Yong-Gang Yao|Hai-Peng Li|Dong-Dong Wu|Ya-Ping Zhang Kunming Institute of Zoology, Chinese Academy of Sciences;|Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;|Laboratory for Conservation and Utilization of Bio-resource, Yunnan University, China;|College of Animal Science and Technology, Yunnan Agricultural University, China;|Institut de Recherche pour le Developpement (Ird), CBGP, France;|University of Adelaide and the South Australian Museum, Adelaide, Australia;|Division of Mammals, National Museum of Natural History, Smithsonian Institution, Washington D.C,USA;|Institute of Plant Protection, Chinese Academy of Agricultural Sciences;|Institute of Zoology, Chinese Academy of Sciences;|Shahid Bahonar University of Kerman, Kerman, Iran;|Institut de Recherche pour le Developpement (Ird), IMBE, Mali;|Island Biodiversity & Conservation center, University of Seychelles, P.O. Box, Mahe, Seychelles;|Institut Agronomique neo-Caledonien, Port Laguerre, Paita, New Caledonia;|CNRS-CIRAD, Centre d'Infectiologie Christophe Merieux du Laos, Vientiane, Lao PDR;|Department of Laboratory Medicine and Pathobiology, University of Toronto, Toronto, Canada
http://dx.doi.org/10.1101/096768 2016-12-26 Bioinformatics Viral Quasispecies Reconstruction via Correlation Clustering Somsubhra Barik|Shreepriya Das|Haris Vikalo The University of Texas at Austin;|Brigham and Women's Hospital, Harvard Medical School.
http://dx.doi.org/10.1101/096792 2016-12-26 Synthetic Biology A highly parallel strategy for storage of digital information in living cells Azat Akhmetov|Andrew Ellington|Edward Marcotte University of Texas
http://dx.doi.org/10.1101/096610 2016-12-26 Neuroscience CART neuropeptide modulates the extended amygdalar CeA-vBNST circuit to gate expression of innate fear Abhishek Rale|Ninad Shendye|Nishikant Subhedar|Aurnab Ghose Indian Institute of Science Education and Research (IISER)
http://dx.doi.org/10.1101/094557 2016-12-27 CC BY The food web of Potter Cove (Antarctica): complexity, structure and function Tomas I Marina|Vanesa Salinas|Georgina Cordone|Gabriela Campana|Maria Eugenia Moreira|Dolores Deregibus|Luciana Torre|Ricardo Sahade|Marcos Tatian|Esteban Barrera Oro|Marleen De Troch|Santiago Doyle|Maria Liliana Quartino|Leonardo Saravia|Fernando R Momo Instituto de Ciencias, Universidad Nacional de General Sarmiento;|INEDES, Universidad Nacional de Lujan;|Instituto Antartico Argentino;|Instituto de Diversidad y Ecologia Animal, Consejo Nacional de Investigaciones Cientificas y Tecnica;|Marine Biology Laboratory, Ghent University;|Direccion Nacional del Antartico, Instituto Antartico Argentino
http://dx.doi.org/10.1101/097048 2016-12-27 CC BY-NC tensorBF: an R package for Bayesian tensor factorization Suleiman A. Khan|Muhammad Ammad-ud-din Institute for Molecular Medicine Finland FIMM;|Helsinki Institute for Information Technology HIIT, Department of Computer Science, Aalto University
http://dx.doi.org/10.1101/096966 2016-12-27 Super-resolution Imaging of Synaptic and Extra-synaptic Pools of AMPA Receptors with Different- sized Fluorescent Probes Sang Hak Lee|Chaoyi Jin|En Cai|Pinghua Ge|Yuji Ishitsuka|Kai Wen Teng|Andre A. de Thomaz|Duncan L. Nall|Murat Baday|Okunola Jeyifous|Daniel Demonte|Christopher M. Dundas|Sheldon Park|William N. Green|Paul R. Selvin University of Illinois at Urbana-Champaign;|University of Chicago;|State University of New York at Buffalo
http://dx.doi.org/10.1101/097022 2016-12-27 Fenton-type chemistry by a copper enzyme: molecular mechanism of polysaccharide oxidative cleavage Bastien Bissaro|Asmund K Rohr|Morten Skaugen|Zarah Forsberg|Svein J Horn|Gustav Vaaje-Kolstad|Vincent Eijsink INRA, UMR792, Ingenierie des Systemes Biologiques et des Procedes, F-31400 Toulouse, France;|Norwegian University of Life Sciences (NMBU), P.O. Box 5003, N-1432 Aas, Norway
http://dx.doi.org/10.1101/096958 2016-12-27 Canonical and cross-reactive binding of NK cell inhibitory receptors to HLA-C allotypes is dictated by peptides bound to HLA-C Malcolm J. W. Sim|Stacy A. Malaker|Ayesha Khan|Janet M. Stowell|Jeffrey Shabanowitz|Mary E. Peterson|Sumati Rajagopalan|Donald F. Hunt|Daniel M. Altmann|Eric O. Long|Rosemary J. Boyton National Institute of Allergy and Infectious Diseases;|University of Virginia;|Imperial College London
http://dx.doi.org/10.1101/096933 2016-12-27 CC BY DNAlogo: a smart mini application for generating DNA sequence logos Yabin GUO Sun Yat-sen University
http://dx.doi.org/10.1101/096917 2016-12-27 CC BY-NC-ND NATURAL SELECTION ON MHC IIΒ IN PARAPATRIC LAKE AND STREAM STICKLEBACK: BALANCING, DIVERGENT, BOTH, OR NEITHER? William Stutz|Daniel Bolnick Western Michigan University;|University of Texas at Austin
http://dx.doi.org/10.1101/097006 2016-12-27 CC BY-NC-ND Dealing with many correlated covariates in capture-recapture models Olivier Gimenez|Christophe Barbraud CNRS
http://dx.doi.org/10.1101/096982 2016-12-27 CC BY-NC-ND Network based conditional genome wide association analysis of human metabolomics Yakov A. Tsepilov|Sodbo Zh. Sharapov|Olga O. Zaytseva|Jan Krumsiek|Cornelia Prehn|Jerzy Adamski|Gabi Kastenmuller|Rui Wang-Sattler|Konstantin Strauch|Christian Gieger|Yurii S. Aulchenko Institute of Cytology and Genetics SB RAS;|Institute of Computational Biology, Helmholtz Zentrum München;|Institute of Experimental Genetics, Genome Analysis Center, Helmholtz Zentrum München;|Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München;|German Center for Diabetes Research;|Institute of Genetic Epidemiology, Helmholtz Zentrum München
http://dx.doi.org/10.1101/096909 2016-12-27 Environment determines evolutionary trajectory in a constrained phenotypic space David T Fraebel|Harry Mickalide|Diane Schnitkey|Jason Merritt|Thomas E Kuhlman|Seppe Kuehn University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/096875 2016-12-27 Ecology Creating a National Vector Surveillance System: Integrated mosquito trap data and digital epidemiology Samuel S.C. Rund|Micaela E. Martinez University of Edinburgh;|Princeton University
http://dx.doi.org/10.1101/096891 2016-12-27 Microbiology CC BY AmoA-targeted polymerase chain reaction primers for the specific detection and quantification of comammox Nitrospira in the environment Petra Pjevac|Clemens Schauberger|Lianna Poghosyan|Craig W Herbold|Maartje AHJ van Kessel|Anne Daebeler|Michaela Steinberger|Mike SM Jetten|Sebastian Lucker|Michael Wagner|Holger Daims University of Vienna;|Radboud University
http://dx.doi.org/10.1101/096859 2016-12-27 Cell Biology CC BY-NC Opportune cell culture conditions permit transfer of the neurosphere paradigm to cells of the cerebellar granule cell lineage by being permissive to sonic hedgehog signaling Constantin Heil University of Rome
http://dx.doi.org/10.1101/097220 2016-12-28 CC BY-NC Highly-efficient Cpf1-mediated gene targeting in mice following high concentration pronuclear injection Dawn E Watkins-Chow|Gaurav K. K Varshney|Lisa Garrett|Zelin Chen|Erin Jimenez|Cecilia Rivas|Kevin Bishop|Raman Sood|Ursula Harper|William Pavan|Shawn M Burgess NIH;|National Human Genome Research Institute
http://dx.doi.org/10.1101/097162 2016-12-28 CC BY-NC-ND DNA damage in 3D constricted migration or after lamin-A depletion in 2D: shared mechanisms of repair factor mis-localization under nuclear stress Yuntao Xia|Jerome Irianto|Charlotte Pfeifer|Jiazheng Ji|Irena Ivanovska|Manu Tewari|Rachel Bennett|Shane Harding|Andrea Liu|Roger Greenberg|Dennis Discher University of Pennsylvania
http://dx.doi.org/10.1101/093583 2016-12-28 Analysis of copy number variants on chromosome 21 in Down syndrome-associated congenital heart defects Benjamin L. Rambo-Martin|Jennifer G. Mulle|David J. Cutler|Lora J.H. Bean|Tracie C. Rosser|Kenneth J. Dooley|Clifford Cua|George Capone|Cheryl L. Maslen|Roger H. Reeves|Stephanie L. Sherman|Michael E. Zwick Emory University;|Children's Healthcare of Atlanta;|Nationwide Children's Hospital;|Kennedy Krieger Institute;|Oregon Health and Science University;|Johns Hopkins University
http://dx.doi.org/10.1101/097121 2016-12-28 CC BY-NC-ND Delivery of BACE1 siRNA mediated by TARBP-BTP fusion protein reduces β-amyloid deposits in a transgenic mouse model of Alzheimers disease Mohamed M Haroon|Kamal Saba|Venkata H Boddeda|Jerald M Kumar|Anant Bahadur Patel|Vijaya Gopal CSIR-Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/097170 2016-12-28 CC BY-ND The hippocampus as a predictive map Kimberly Lauren Stachenfeld|Matthew M Botvinick|Samuel J Gershman DeepMind;|Harvard University
http://dx.doi.org/10.1101/097204 2016-12-28 Identification of the maize Mediator CDK8 module, and Dissociation insertional mutagenesis of ZmMed12a Tania Nunez-Rios|Kevin R. Ahern|Ana Laura Alonso-Nieves|Daniel Lepe-Soltero|Carol Martinez-Camacho|Marcelina Garcia-Aguilar|Thomas P. Brutnell|C. Stewart Gillmor|Ruairidh James Hay Sawers Langebio-CINVESTAV;|Boyce Thompson Institute;|Donald Danforth Plant Science Center;|CINVESTAV
http://dx.doi.org/10.1101/097196 2016-12-28 CC BY A Data Citation Roadmap for Scholarly Data Repositories Martin Fenner|Merce Crosas|Jeffrey Grethe|David Kennedy|Henning Hermjakob|Philippe Rocca-Serra|Robin Berjon|Sebastian Karcher|Maryann Martone|Timothy Clark DataCite;|Institute for Quantitative Social Science, Harvard University;|Center for Research in Biological Systems (CRBS), University of California, San Diego;|Department of Psychiatry, University of Massachusetts Medical School, Worcester;|European Bioinformatics Institute (EMBL-EBI), European Molecular Biology Laboratory, Wellcome Trust;|Oxford e-Research Centre, University of Oxford;|Standard Analytics;|Qualitative Data Repository, Syracuse University;|Department of Neurosciences, University of California, San Diego;|Massachusetts General Hospital
http://dx.doi.org/10.1101/097139 2016-12-28 CC BY-ND Bio.Ontology - Python tools for enrichment analysis and visualization of ontologies Kamil Koziara|Julia Herman-Izycka|Bartek Wilczynski University of Warsaw
http://dx.doi.org/10.1101/095968 2016-12-28 Bioinformatics CC BY-NC-ND CpG traffic lights are markers of regulatory regions in humans Abdullah M. Khamis|Anna V. Lioznova|Artem V Artemov|Vasily Ramensky|Vladimir B. Bajic|Yulia A. Medvedeva King Abdullah University of Science and Technology (KAUST);|Institute of Bioengineering, Research Center of Biotechnology, Russian Academy of Sciences;|Moscow State University;|University of California Los Angeles
http://dx.doi.org/10.1101/097113 2016-12-28 Biophysics CC BY Label-free high-resolution 3-D imaging of gold nanoparticles inside live cells using optical diffraction tomography Doyeon Kim|Nuri Oh|Kyoohyun Kim|SangYun Lee|Jiho Park|YongKeun Park KAIST
http://dx.doi.org/10.1101/097055 2016-12-28 Genomics CC BY-NC-ND Hnf4a mediates microbial control of intestinal gene expression and inflammation James M Davison|Colin R Lickwar|Lingyun Song|Ghislain Breton|Gregory E Crawford|John F Rawls Duke University;|McGovern Medical School
http://dx.doi.org/10.1101/096925 2016-12-28 Biochemistry HILAQ: A Novel Strategy for Newly Synthesized Protein Quantification Yuanhui Ma|Daniel B. McClatchy|Salim Barkallah|William W. Wood|John R. Yates The Scripps Research Institute;|Cambridge Isotope Laboratories, Inc.
http://dx.doi.org/10.1101/096941 2016-12-28 Neuroscience CC BY-NC-ND Dynamics of Cortical Dendritic Membrane Potential and Spikes in Freely Behaving Rats Jason J Moore|Pascal Ravassard|David Ho|Lavanya Acharya|Ashley Kees|Cliff Vuong|Mayank R Mehta UCLA;|UCLa
http://dx.doi.org/10.1101/097089 2016-12-28 Bioinformatics ECL 2.0: Exhaustively Identifying Cross-Linked Peptides with a Linear Computational Complexity Fengchao Yu|Ning Li|Weichuan Yu The Hong Kong University of Science and Technology
http://dx.doi.org/10.1101/096842 2016-12-28 Evolutionary Biology Ecological speciation within the Phytophthora group Maria F Mideros|David A Turissini|Natalia Guayazan|Giovanna Danies|Martha Cardenas|Kevin Myers|Javier Tabima|Erica M Goss|Adriana Bernal|Luz E Lagos|Alejandro Grajales|Laura N Gonzalez|David E.L Cooke|William E Fry|Niklaus Grunwald|Daniel R Matute|Silvia Restrepo Department of Biological Sciences, Universidad de Los Andes, Bogota, Colombia;|Biology Department, University of North Carolina, Chapel Hill, USA;|School of Integrative Plant Science, Plant Pathology and Plant-Microbe Biology, Cornell University;|USDA ARS, Horticultural Crops Research Laboratory;|Department of Plant Pathology and Emerging Pathogens Institute, University of Florida, Gainesville;|Biology Department, Universidad de Narino, Pasto, Colombia;|Cell and Molecular Sciences, The James Hutton Institute, Invergowrie, Dundee, DD2 5DA Scotland, UK;|Cornell University, School of Integrative Plant Science, Plant Pathology and Plant-Microbe Biology;|University of North Carolina at Chapel Hill, Biology Department
http://dx.doi.org/10.1101/096818 2016-12-28 Cell Biology CC BY-NC-ND Criticality in Cell Differentiation Indrani Bose|Mainak Pal Bose Institute
http://dx.doi.org/10.1101/097352 2016-12-30 grID: A CRISPR-Cas9 guide RNA Database and Resource for Genome-Editing Vinod Jaskula-Ranga|Don J. Zack Johns Hopkins School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/097410 2016-12-30 When Attended and Conscious Perception Deactivates Fronto-Parietal Regions Ausaf A Farooqui|Tom Manly MRC Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/097436 2016-12-30 Environment driven conformational changes modulate H-NS DNA bridging activity Ramon A. van der Valk|Jocelyne Vreede|Geri F. Moolenaar|Andreas Hofmann|Nora Goosen|Remus T. Dame Leiden Institute of Chemistry, Leiden University, Leiden, The Netherlands;|Computational Chemistry, van t Hoff Institute for Molecular Sciences, University of Amsterdam;|Institute for Theoretical Physics, University of Heidelberg, Heidelberg, Germany
http://dx.doi.org/10.1101/097501 2016-12-30 Tandem duplications lead to novel expression patterns through exon shuffling in D. yakuba Rebekah L. Rogers|Ling Shao|Kevin R Thornton UNC Charlotte;|UC Irvine
http://dx.doi.org/10.1101/097402 2016-12-30 CC BY-NC-ND Comparison of linear spatial filters for identifying oscillatory activity in multichannel data Michael X Cohen Radboud University
http://dx.doi.org/10.1101/097485 2016-12-30 CC BY-NC-ND Parallel streams define the temporal dynamics of speech processing across human auditory cortex Liberty S Hamilton|Erik Edwards|Edward F Chang University of California, San Francisco
http://dx.doi.org/10.1101/097469 2016-12-30 CC BY Training Genotype Callers with Neural Networks Remi Torracinta|Fabien Campagne Weill Cornell Medicine;|Campagne Laboratory at Weill Cornell Medicine
http://dx.doi.org/10.1101/097444 2016-12-30 CC BY-NC-ND A new improved and extended version of the multicell bacterial simulator gro Martin Eduardo Gutierrez|Paula Gregorio-Godoy|Guillermo Perez del Pulgar|Luis Enrique Munoz|Sandra Saez|Alfonso Rodriguez-Paton Universidad Politécnica de Madrid;|Universidad Politecnica de Madrid
http://dx.doi.org/10.1101/097519 2016-12-30 CC BY-NC-ND Interspecific plastome recombination reveals ancient reticulate evolution in Picea (Pinaceae) Alexis R. Sullivan|Bastian Schiffthaler|Stacey Lee Thompson|Nathaniel R. Street|Xiao-Ru Wang Umea University;|Dalhousie University
http://dx.doi.org/10.1101/097451 2016-12-30 Convergence of dispersed regulatory mutations predicts driver genes in prostate cancer Richard C Sallari|Nicholas A Sinnott-Armstrong|Juliet D French|Ken J Kron|Jason Ho|Jason H Moore|Vuk Stambolic|Stacey L Edwards|Mathieu Lupien|Manolis Kellis Massachusetts Institute of Technology;|Stanford University;|QIMR Berghofer Medical Research Institute;|University of Toronto;|University of Pennsylvania
http://dx.doi.org/10.1101/097303 2016-12-30 The replisomes remain spatially proximal throughout the cell cycle in bacteria Sarah M. Mangiameli|Brian T. Veit|Houra Merrikh|Paul A. Wiggins University of Washington
http://dx.doi.org/10.1101/064782 2016-12-30 Developmental Biology CC BY-NC-ND FORENSIC POST-MORTEM INTERVAL (PMI) ESTIMATES: VARIATION IN FLY DEVELOPMENTAL TIMES OF INDIVIDUALS Mihaly Foldvari University of Debrecen, MTA-DE Lendület Behavioural Ecology Research Group
http://dx.doi.org/10.1101/097394 2016-12-30 Genetics CC BY-NC Dopamine Negatively Regulates the NCA Ion Channels in C. elegans Irini Topalidou|Kirsten Cooper|Michael Ailion University of Washington
http://dx.doi.org/10.1101/097360 2016-12-30 Cell Biology Bioorthogonal pro-metabolites for profiling short chain fatty acylation Wilson R. Sinclair|Thomas T. Zengeya|Julie M. Garlick|Andrew J. Worth|Ian A. Blair|Nathaniel W. Snyder|Jordan L. Meier Chemical Biology Laboratory, Center for Cancer Research, National Cancer Institute;|Penn SRP Center, Center of Excellence in Environmental Toxicology, University of Pennsylvania;|Drexel University, A.J. Drexel Autism Institute
http://dx.doi.org/10.1101/096826 2016-12-30 Genetics CC BY-ND Choreography of budding yeast chromosomes during the cell cycle Luciana Lazar-Stefanita|Vittore Scolari|Guillaume Mercy|Agnes Thierry|Heloise Muller|Julien Mozziconacci|Romain Koszul Institut Pasteur;|UPMC
http://dx.doi.org/10.1101/097345 2016-12-29 Genomics CC BY-NC MrTADFinder: A network modularity based approach to identify topologically associating domains in multiple resolutions Koon-Kiu Yan|Mark Gerstein Yale University
http://dx.doi.org/10.1101/097311 2016-12-29 Molecular Biology CC BY-NC-ND Microprocessor dynamics shows co- and post-transcriptional processing of pri-miRNAs Annita Louloupi|Evgenia Ntini|Julia Liz|Ulf A Orom Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/097329 2016-12-29 Cell Biology Tracking stem cell differentiation without biomarkers using pattern recognition and phase contrast imaging John Duncan Delaney|Yuhki Nakatake|David Mark Eckley|Nikita V. Orlov|Christopher Edmond Coletta|Chris Chen|Minoru S. Ko|Ilya Gregory Goldberg National Institute on Aging;|Keio University;|University of Maryland School of Medicine;|Keio University School Of Medicine;|Mind Share Medical
http://dx.doi.org/10.1101/096727 2016-12-29 Evolutionary Biology Parallel adaptation to higher temperatures in divergent clades of the nematode Pristionchus pacificus Mark Leaver|Merve Kayhan|Angela McGaughran|Christian Roedelsperger|Anthony A Hyman|Ralf Sommer Max Planck Institute of Molecular Cell Biology and Genetics;|Bilkent University;|Australian National University;|Max Planck Institute for Developmental Biology;|Max Planck Institute of Molecular Cell Biology and genetics
http://dx.doi.org/10.1101/097287 2016-12-29 Neuroscience CC BY-NC-ND Spatial specificity of the functional MRI blood oxygenation response relative to neuronal activity Denis Chaimow|Essa Yacoub|Kamil Ugurbil|Amir Shmuel CMRR, University of Minnesota, Minneapolis, MN, USA;|MNI, McGill University, Montreal, QC, Canada
http://dx.doi.org/10.1101/097154 2016-12-29 Neuroscience CC BY-NC-ND A more accurate account of the effect of k-space sampling and signal decay on the effective spatial resolution in functional MRI Denis Chaimow|Amir Shmuel CMRR, University of Minnesota, Minneapolis, MN, USA;|MNI, McGill University, Montreal, QC, Canada; CMRR, University of Minnesota, Minneapolis, MN, USA;
http://dx.doi.org/10.1101/097246 2016-12-29 Pathology CC BY-NC-ND DeepScope: Nonintrusive Whole Slide Saliency Annotation and Prediction from Pathologists at the Microscope Andrew J Schaumberg|Sahussapont Joseph Sirintrapun|Hikmat A Al-Ahmadie|Peter J Schueffler|Thomas J Fuchs Weill Cornell Medical College;|Memorial Sloan Kettering Cancer Center;|Memorial Sloan Kettering Cancer
http://dx.doi.org/10.1101/097188 2016-12-29 Genomics CC BY-NC-ND An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites Peter J. Skene|Steven Henikoff Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/097063 2016-12-29 Microbiology CC BY-NC-ND Metagenomic Characteristics of Bacterial Response to Petroleum Hydrocarbon Contamination in Diverse Environments as Revealed by Functional Taxonomic Strategies Arghya Mukherjee|Bobby Chettri|James S. Langpoklakpam|Pijush Basak|Aravind Prasad|Ashis K. Mukherjee|Maitree Bhattacharyya|Arvind K. Singh|Dhrubajyoti Chattopadhyay Universty of Calcutta;|North-Eastern Hill University;|University of Calcutta;|Bioinformatics Resources and Applications Facility, Centre for Development of Advance Computing;|Tezpur University;|University of Caclutta
http://dx.doi.org/10.1101/097253 2016-12-29 Neuroscience Fast Assembling of Neuron Fragments in Serial 3D Sections Hanbo Chen|Daniel M. Iascone|Nuno Macarico da Costa|Ed Lein|Tianming Liu|Hanchuan Peng University of Georgia, Athen, GA, USA;|Columbia University, New York, NY, USA;|Allen Institute for Brain Science, Seattle, WA, USA;|University of Georgia, Athens, GA, USA
http://dx.doi.org/10.1101/097279 2016-12-29 Neuroscience Electro-diffusion modulation of synaptic input in dendritic spines using deconvolved voltage sensor time series Jerome Cartailler|TK Kwon|Rafael Yuste|David Holcman ENS;|Columbia
http://dx.doi.org/10.1101/096990 2016-12-29 Neuroscience CC BY-NC-ND Peripheral Htt silencing does not ameliorate central signs of disease in the B6.HttQ111/+ mouse model of Huntington's Disease Sydney Coffey|Robert M Bragg|Shawn Minnig|Seth A Ament|Anne Glickenhaus|Daniel Shelnut|Jose Carrillo|Dominic D Shuttleworth|Julie-Anne Rodier|Kimihiro Noguchi|C. Frank Bennet|Nathan D Price|Holly B Kordasiewicz|Jeffrey B Carroll Western Washington University;|University of Maryland;|Universite Grenoble Alpes;|Ionis Pharmaceuticals;|Institute for Systems Biology
http://dx.doi.org/10.1101/097212 2016-12-29 Developmental Biology CC BY-ND Rab5-mediated Yolk Endocytosis modulates Zebrafish Epiboly Biomechanics and Tissue Movements Maria Marsal|Amayra Hernandez-Vega|Philippe-Alexandre Pouille|Enrique Martin-Blanco IBMB (CSIC)
http://dx.doi.org/10.1101/097600 2016-12-31 Immunology CC BY In vitro reconstitution of T cell receptor-mediated segregation of the CD45 phosphatase Catherine B Carbone|Nadja Kern|Ricardo A Fernandes|Enfu Hui|Xiaolei Su|K. Christopher Garcia|Ron Vale University of California San Francisco, HHMI;|Stanford University, HHMI
http://dx.doi.org/10.1101/097568 2016-12-31 Cell Biology CC BY-NC-ND Arabidopsis HAP2/GCS1 is a gamete fusion protein homologous to somatic and viral fusogens Clari Valansi|David Moi|Evgenia Leikina|Elena Matveev|Martin Grana|Leonid V Chernomordik|Hector Romero|Pablo S Aguilar|Benjamin Podbilewicz Technion- Israel Institute of Technology;|Universidad Nacional de San Martin;|National Institutes of Health;|Institut Pasteur Montevideo;|Universidad de la Republica, Montevideo;|Technion-Israel Institute of Technology
http://dx.doi.org/10.1101/097477 2016-12-31 Genetics CC BY Joint genetic analysis using variant sets reveals polygenic gene-context interactions Francesco Paolo Casale|Danilo Horta|Barbara Rakitsch|Oliver Stegle EMBL-European Bioinformatics Institute
http://dx.doi.org/10.1101/097592 2016-12-31 Neuroscience Density-based clustering: A 'landscape view' of multi-channel neural data for inference and dynamic complexity analysis Gabriel Baglietto|Guido Gigante|Paolo Del Giudice IFLYSIB, Instituto de Fisica de Liquidos y Sistemas Biologicos (UNLP-CONICET), La Plata, Argentina;|Italian Institute of Health, Rome, Italy and Mperience srl, Rome, Italy;|Italian Institute of Health and INFN-Roma1, Rome, Italy
http://dx.doi.org/10.1101/097337 2016-12-31 Epidemiology CC BY-NC-ND Modeling HIV disease progression and transmission at population-level: The potential impact of modifying disease progression in HIV treatment programs Jennifer M Ross|Roger Ying|Connie L. Celum|Jared M. Baeten|Jairam R. Lingappa|Katherine K. Thomas|Pamela M. Murnane|Meighan Krows|Heidi van Rooyen|James P Hughes|Ruanne V. Barnabas University of Washington;|Cornell University;|Human Sciences Research Council
http://dx.doi.org/10.1101/096883 2016-12-31 Epidemiology Surveillance to Establish Elimination of Transmission and Freedom from Dog-mediated Rabies Katie Hampson|Bernadette Abela-Ridder|Kirstyn Brunker|S. Tamara M. Bucheli|Mary Carvalho|Eduardo Caldas|Joel Changalucha|Sarah Cleaveland|Jonathan Dushoff|Veronica Gutierrez|Anthony R Fooks|Karen Hotopp|Daniel T Haydon|Ahmed Lugelo|Kennedy Lushasi|Rebecca Mancy|Denise Marston|Zac Mtema|Malavika Rajeev|Lucia R. Montebello P Dourado|J F Gonzalez Roldan|Kristyna Rysava|Silene M Rocha|Maganga Sambo|Lwitiko Sikana|Marco Vigilato|Victor Del Rio Vilas University of Glasgow;|WHO;|PAHO;|Unidade Tecnica de Vigilancia de Zoonoses -UVZ;|Ifakara Health Institute;|McMaster University;|Ministry of Health, Mexico;|Animal and Plant Health Agency;|Sokoine University of Agriculture, Tanzania;|Princeton University;|University of Warwick;|Ministry of Health, Brazil
http://dx.doi.org/10.1101/097493 2016-12-30 Neuroscience CC BY-NC-ND Contributions of local speech encoding and functional connectivity to audio-visual speech integration Bruno L. Giordano|Robin A. A. Ince|Joachim Gross|Stefano Panzeri|Philippe G. Schyns|Christoph Kayser University of Glasgow;|Istituto Italiano di Tecnologia
http://dx.doi.org/10.1101/097386 2016-12-30 Neuroscience Generating in vivo somatic mouse mosaics with locus-specific, stably-integrated transgenic elements Gi Bum Kim|Marina Dutra-Clarke|Rachelle Levy|Hannah Park|Sara Sabet|Jessica Molina|Aslam Abbasi Akhtar|Serguei Bannykh|Moise Danielpour|Joshua J Breunig Cedars-Sinai MC;|Cedars-Sinai/UCLA
http://dx.doi.org/10.1101/097535 2016-12-30 Ecology CC BY Fusing tree-ring and forest inventory data to infer influences on tree growth Margaret E. K. Evans|Donald A. Falk|Alexis Arizpe|Tyson L. Swetnam|Flurin Babst|Kent E. Holsinger University of Arizona;|Swiss Federal Research Institute WSL;|University of Connecticut
http://dx.doi.org/10.1101/097261 2017-01-01 Zoology CC BY Challenges in identifying and interpreting organizational modules in morphology Borja Esteve-Altava Royal Veterinary College
http://dx.doi.org/10.1101/097584 2017-01-01 Plant Biology CC BY-NC Complex interactions in legume/cereal intercropping system : role of root exudates in root-to-root communication Yinshan Jiao|Entao Wang|Wenfeng Chen|Donald L. Smith China Agricultural University;|Instituto Politecnico Nacional;|McGill University
http://dx.doi.org/10.1101/097626 2017-01-01 Neuroscience Neural precursors of decisions that matter--an ERP study of deliberate and arbitrary choice Uri Maoz|Gideon Yaffe|Christof Koch|Liad Mudrik UCLA;|Yale;|Allen Institute for Brain Science;|Tel Aviv University
http://dx.doi.org/10.1101/097618 2017-01-01 Neuroscience CC BY-NC-ND Theoretical principles of multiscale spatiotemporal control of neuronal networks: a complex systems perspective Nima Dehghani Massachusetts Institute of Technology
http://dx.doi.org/10.1101/097030 2017-01-01 Genetics CC BY-NC-ND TMEM230 is not a gene for Parkinson disease Matthew J Farrer|Austen J Milnerwood|Jordan Follett|Ilaria Guella University of British Columbia
http://dx.doi.org/10.1101/097758 2017-01-02 CC BY Growth is required for perception of water availability to pattern plant root branches Neil E Robbins|Jose R Dinneny Carnegie Institution for Science
http://dx.doi.org/10.1101/097642 2017-01-02 Evolutionary Biology Evolution of genetic variance during adaptive radiation Gregory Matthew Walter|David Aguirre|Mark W Blows|Daniel Ortiz-Barrientos University of Queensland;|Massey University
http://dx.doi.org/10.1101/097667 2017-01-02 Cancer Biology CC BY Chemical composition and the potential for proteomic transformation in cancer, hypoxia, and hyperosmotic stress Jeffrey M. Dick Wattanothaipayap School
http://dx.doi.org/10.1101/097675 2017-01-02 Bioinformatics CC BY-ND Multi-Region Neural Representation: A novel model for decoding visual stimuli in human brains Muhammad Yousefnezhad|Daoqiang Zhang Nanjing University of Aeronautics and Astronautics
http://dx.doi.org/10.1101/097295 2017-01-02 Neuroscience CC BY-NC-ND α7 nicotinic acetylcholine receptor signalling modulates the inflammatory and iron homeostasis in fetal brain microglia Marina Cortes|Mingju Cao|Hai Lun Liu|Craig S Moore|Lucien Daniel Durosier|Patrick Burns|Gilles Fecteau|Andre Desrochers|Luis B Barreiro|Jack Antel|Martin G Frasch CRRA, Universite de Montreal;|Universite de Montreal;|McGill University;|University of Washington
http://dx.doi.org/10.1101/097733 2017-01-02 Genomics Correlated patterns of genetic diversity and differentiation across an avian family Benjamin Mark Van Doren|Leonardo Campagna|Barbara Helm|Juan Carlos Illera|Irby J. Lovette|Miriam Liedvogel University of Oxford;|Cornell University;|University of Glasgow;|Oviedo University;|Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/097725 2017-01-02 Biophysics CC BY-NC Monitoring Microtubule Mechanical Vibrations via Optomechanical Coupling Shabir Barzanjeh|Vahid Salari|J. A Tuszynski|M Cifra|C Simon Institute of Science and technology;|Institute for Research in Fundamental Sciences;|University of Alberta;|The Czech Academy of Sciences;|University of Calgary
http://dx.doi.org/10.1101/097691 2017-01-02 Neuroscience CC BY-NC-ND Beyond modularity: Fine-scale mechanisms and rules for brain network reconfiguration Ankit N Khambhati|Marcelo G Mattar|Danielle S Bassett University of Pennsylvania
http://dx.doi.org/10.1101/091926 2017-01-02 Systems Biology CC BY Composite measurements and molecular compressed sensing for highly efficient transcriptomics Brian Cleary|Le Cong|Eric Lander|Aviv Regev MIT / Broad Institute;|Broad Institute
http://dx.doi.org/10.1101/097683 2017-01-02 Bioinformatics Tumor cell division rate heterogeneity explains in vitro clonal dominance Margriet M Palm|Marjet Elemans|Joost B Beltman Division of Toxicology, Leiden Academic Center for Drug Research, Leiden University, The Netherlands
http://dx.doi.org/10.1101/097659 2017-01-02 Neuroscience CC BY-NC-ND Wiring variations that enable and constrain neural computation in a sensory microcircuit William F. Tobin|Rachel I. Wilson|Wei-Chung Allen Lee Harvard Medical School
http://dx.doi.org/10.1101/097998 2017-01-03 CC BY-NC-ND Tracking the Subtle Mutations Thriving Host Sensing by the Plant Pathogen Streptomyces scabies Samuel Jourdan|Isolde M Francis|Benoit Deflandre|Rosemary Loria|Sebastien Rigali University of Liege;|Californian State University of Bakersfield;|University of Florida
http://dx.doi.org/10.1101/097931 2017-01-03 Genetics CC BY-NC-ND Validated Bayesian differentiation of causative and passenger mutations Frederick R Cross|Michal Breker|Kristi L Lieberman The Rockefeller University, United States
http://dx.doi.org/10.1101/097873 2017-01-03 Neuroscience The contribution of striatal pseudo-reward prediction errors to value-based decision-making Ernest Mas-Herrero|Guillaume Sescousse|Roshan Cools|Josep Marco-Pallares MNI;|Donders Institute for Brain, Cognition and Behavior;|University of Barcelona
http://dx.doi.org/10.1101/097840 2017-01-03 Neuroscience CC BY-NC-ND Common object representations for visual production and recognition Judith E. Fan|Daniel L. K. Yamins|Nicholas B. Turk-Browne Princeton University;|Stanford University
http://dx.doi.org/10.1101/097907 2017-01-03 Ecology Existence and construction of large stable food webs Jan O Haerter|Namiko Mitarai|Kim Sneppen University of Copenhagen;|Niels Bohr Institute
http://dx.doi.org/10.1101/097816 2017-01-03 Cell Biology Deficiency of Voltage-gated Proton Channel Hv1 Leads to hypoinsulinaemia, hyperglycemia and glucose intolerance in mice Xudong Wang|Qing Zhao|Wang Xi|Shangrong Zhang|Jiwei Qin|Jili Lv|Yongzhe Che|Weiyan Zuo|Shu Jie Li Nankai University
http://dx.doi.org/10.1101/097857 2017-01-03 Microbiology CC BY-NC-ND EXTENDING THE UTILITY OF THE WHO RECOMMENDED ASSAY FOR DIRECT DETECTION OF ENTEROVIRUSES FROM CLINICAL SPECIMEN FOR RESOLVING POLIOVIRUS CO-INFECTION Temitope O.C. Faleye|Moses O Adewumi|Naomi P Ozegbe|Oluwaseun E Ogunsakin|Grace Ariyo|Faith W Adeshina|Oluwaseun S Ogunga|Similoluwa D Oluwadare|Johnson A Adeniji Ekiti State University, Nigeria;|University of Ibadan, Nigeria
http://dx.doi.org/10.1101/097923 2017-01-03 Neuroscience Lateral geniculate neurons show robust ocular dominance plasticity Juliane Jaepel|Mark Huebener|Tobias Bonhoeffer|Tobias Rose Max Planck Institute of Neurobiology
http://dx.doi.org/10.1101/097956 2017-01-03 Cell Biology CC BY-NC-ND CENP-A associated lncRNAs influence chromosome segregation in human cells Delphine Quenet|David Sturgill|Marin Olson|Yamini Dalal University of Vermont;|National Cancer Institute
http://dx.doi.org/10.1101/093146 2017-01-03 Plant Biology CC BY Ultradian Oscillation of Growth Reveals Regulatory Mechanism in the Straightening Movement of Wheat Coleoptile Renaud Bastien|Stephane Douady|Bruno Moulia Max Planck Institute;|CNRS;|INRA
http://dx.doi.org/10.1101/097915 2017-01-03 Neuroscience How context alters value: Price information recruits the brain's valuation and affective regulation system for shaping experienced taste pleasantness. Liane Schmidt|Vasilisa Skvortsova|Claus Kullen|Bernd Weber|Hilke Plassmann INSEAD, LNC DEC ENS;|LNC DEC ENS;|Bonn University;|INSEAD
http://dx.doi.org/10.1101/090688 2017-01-03 Microbiology Switching of metabolic programs in response to light availability is an essential function of the cyanobacterial circadian clock Anna M Puszynska|Erin O'Shea Harvard University
http://dx.doi.org/10.1101/097824 2017-01-03 Neuroscience Individual movement variability magnitudes are predicted by cortical neural variability Shlomi Haar|Opher Donchin|Ilan Dinstein Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/097790 2017-01-03 Neuroscience Masking of a circadian behavior in larval zebrafish involves the thalamo-habenula pathway Qian Lin|Suresh J Jesuthasan National University of Singapore;|Lee Kong Chian School of Medicine
http://dx.doi.org/10.1101/097949 2017-01-03 Bioinformatics CC BY-NC Karp: Accurate and fast taxonomic classification using pseudoalignment Mark Reppell|John Novembre University of Chicago
http://dx.doi.org/10.1101/097576 2017-01-03 Neuroscience Envelope-tACS modulates intelligibility of speech in noise Anna Wilsch|Toralf Neuling|Christoph S Herrmann University of Oldenburg;|University of Salzburg
http://dx.doi.org/10.1101/097741 2017-01-03 Neuroscience Your favorite color makes learning more adaptable and precise Shiva Farashahi|Katherine Rowe|Zohra Aslami|Daeyeol Lee|Alireza Soltani Dartmouth College;|Yale University
http://dx.doi.org/10.1101/097717 2017-01-03 Neuroscience Red Bull Gives You Incentive Motivation: Understanding Placebo Effects of Energy Drinks on Human Cognitive Performance Liane Schmidt|Pierre Chandon|Mathias Pessiglione|Hilke Plassmann INSEAD;|ICM, MBB team
http://dx.doi.org/10.1101/098384 2017-01-04 CC BY-NC-ND The relationship between species richness and ecosystem variability is shaped by the mechanism of coexistence Andrew T Tredennick|Peter Adler|Frederick Adler Utah State University;|University of Utah
http://dx.doi.org/10.1101/098335 2017-01-04 CC BY-NC-ND Frequent recombination of pneumococcal capsule highlights future risks of emergence of novel serotypes. Rafal Mostowy|Nicholas Croucher|Nicola De Maio|Claire Chewapreecha|Susannah J. Salter|Paul Turner|David M Aanensen|Stephen D Bentley|Xavier Didelot|Christophe Fraser Imperial College London;|University of Oxford;|University of Cambridge;|Wellcome Trust Genome Campus;|Cambodia-Oxford Medical Research Unit;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/098343 2017-01-04 Network cloning using DNA barcodes Sergey A. Shuvaev|Batuhan Baserdem|Anthony Zador|Alexei A. Koulakov Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/098327 2017-01-04 CC BY-NC-ND CircularLogo: A light weighted web application to visualize intra-motif dependencies Zhenqing Ye|Tao Ma|Michael T Kalmbach|Jean-Pierre A Kocher|Liguo Wang Division of Biomedical Statistics and Informatics, Mayo Clinic;|Mayo Clinic
http://dx.doi.org/10.1101/098186 2017-01-04 CC BY-NC Frequency-dependent response of Chromobacterium violaceum to sonic stimulation, and altered gene expression associated with enhanced violacein production at 300 Hz Chinmayi Joshi|Pooja Patel|Abhishek Singh|Jinal Sukhadiya|Vidhi Shah|Vijay Kothari Nirma University
http://dx.doi.org/10.1101/098046 2017-01-04 Stability and critical transitions in mutualistic ecological systems Wenfeng Feng|Richard M. Bailey University of Oxford
http://dx.doi.org/10.1101/098160 2017-01-04 CC BY-NC-ND A complex multi-locus, multi-allelic genetic architecture underlying the long-term selection-response in the Virginia body weight line of chickens Yanjun Zan|Zheya Sheng|Lars Ronnegard|Christa F Honaker|Paul B Siegel|Orjan Carlborg Uppsala University;|Huazhong Agricultural University;|Dalarna University;|Virginia Polytechnic Institute and State University
http://dx.doi.org/10.1101/098079 2017-01-04 CC BY-NC-ND How does Mg2+ modulate the RNA folding mechanism - a case study of G:C W:W Trans base pair. Antarip Halder|Rohit Roy|Dhananjay Bhattacharyya|Abhijit Mitra International Institute of Information Technology Hyderabad;|Saha Institute of Nuclear Physics
http://dx.doi.org/10.1101/098228 2017-01-04 Patterns of polymorphism at the self-incompatibility locus in 1,083 Arabidopsis thaliana genomes Takashi Tsuchimatsu|Pauline Goubet|Sophie Gallina|Anne-Catherine Holl|Isabelle Fobis-Loisy|Helene Berges|William Marande|Elisa Prat|Dazhe Meng|Quan Long|Alexander Platzer|Magnus Nordborg|Xavier Vekemans|Vincent Castric Department of Biology, Chiba University;|CNRS-Univ Lille;|CNRS-ENS Lyon;|CNRGV-INRA;|USC-GMI;|Univ Calgary;|Univ Vienna;|GMI
http://dx.doi.org/10.1101/098301 2017-01-04 CC BY EEG correlates of working memory performance in females Yuri G. Pavlov|Boris Kotchoubey University of Tuebingen
http://dx.doi.org/10.1101/098210 2017-01-04 CC BY-ND Encoding variable cortical states with short-term spike patterns Bartosz Telenczuk|Richard Kempter|Gabriel Curio|Alain Destexhe UNIC, CNRS;|Institute for Theoretical Biology, Humboldt University of Berlin;|Neurology, Charite - University Medicine Berlin
http://dx.doi.org/10.1101/098103 2017-01-04 CC BY-ND Tracking Real Time Changes in Working Memory Updating and Gating with Event-Based Eye-Blink Rate Rachel Rac-Lubashevsky|Heleen Slagter|Yoav Kessler Ben Gurion University of the Negev;|University of Amsterdam;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/097774 2017-01-04 CC BY-NC-ND Adaptive Cortical Parcellations for Source Reconstructed EEG/MEG Connectomes Seyedeh-Rezvan Farahibozorg|Richard N Henson|Olaf Hauk University of Cambridge;|MRC Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/098202 2017-01-04 Genome-wide mutational diversity in Escherichia coli population evolving in prolonged stationary-phase Savita Chib|Farhan Ali|Aswin Sai Narain Seshasayee National Centre for Biological Sciences
http://dx.doi.org/10.1101/098178 2017-01-04 CC BY Frequent emergence of pathogenic lineages of Klebsiella pneumoniae via mobilisation of yersiniabactin and colibactin Margaret M.C. Lam|Ryan R. Wick|Kelly L. Wyres|Claire Gorrie|Louise M. Judd|Sylvain Brisse|Adam Jenney|Kathryn E. Holt Centre for Systems Genomics, University of Melbourne;|Microbial Evolutionary Genomics, Institut Pasteur;|Department Infectious Diseases and Microbiology Unit, The Alfred Hospital
http://dx.doi.org/10.1101/098038 2017-01-04 Developmental Biology Age-dependence and aging-dependence: The case of neuronal loss and lifespan in a C. elegans model of Parkinson's disease Javier Apfeld|Walter Fontana Northeastern University;|Harvard Medical School
http://dx.doi.org/10.1101/098111 2017-01-04 Microbiology CC BY-NC-ND Methicillin-Resistant Staphylococcus aureus and blaCTX-M positive Enterobacteriaceae from retail beef and pork in Singapore Tse Hsien H Koh|Darris Wong|Nur Khairuddin bin Aron|Choon L Quek|Delphine Cao|Li Yang Hsu Singapore General Hospital;|Ngee Ann Polytechnic;|National University of Singapore
http://dx.doi.org/10.1101/097980 2017-01-04 Evolutionary Biology CC BY-NC-ND High resolution spatio-temporal assessment of simian/human immunodeficiency virus (SHIV) evolution reveals a highly dynamic process within the host Alison F Feder|Christopher Kline|Patricia Polacino|Mackenzie Cottrell|Angela DM Kashuba|Brandon F Keele|Shiu-Lok Hu|Dmitri A Petrov|Pleuni Pennings|Zandrea Ambrose Stanford University;|University of Pittsburgh School of Medicine;|University of Washington;|University of North Carolina Chapel Hill;|Frederick National Laboratory for Cancer Research;|San Francisco State University
http://dx.doi.org/10.1101/098053 2017-01-04 Biophysics CC BY-NC-ND Bacterial Conversations and Pattern Formation Sarangam Majumdar|Sisir Roy|Rodolfo Llinas Department of Mathematics, Universitat Hamburg, Bundesstrae, 55 20146 Hamburg, Germany;|National Institute of Advanced Studies, IISC Campus, Bangalore -560012;|Department of Neuroscience and Physiology, New York University, School of Medicine, NY, USA
http://dx.doi.org/10.1101/098129 2017-01-04 Cancer Biology CC BY Hierarchical tissue organization as a general mechanism to limit the accumulation of somatic mutations Imre Derenyi|Gergely J Szollosi Eotvos University, Budapest
http://dx.doi.org/10.1101/098012 2017-01-04 Developmental Biology Multiple zebrafish atoh1 genes specify a diversity of neuronal types in the zebrafish cerebellum Chelsea U. Kidwell|Chen-Ying Su|Masahiko Hibi|Cecilia B. Moens Fred Hutchinson Cancer Research Center / University of Washington;|Fred Hutchinson Cancer Research Center;|Nagoya University
http://dx.doi.org/10.1101/098624 2017-01-05 CC BY-NC-ND Selectivity matters: rules of thumb for management of plate-sized, sex-changing fish in the live reef food fish trade Holly Kindsvater|John Reynolds|Yvonne Sadovy de Mitcheson|Marc Mangel Rutgers University;|Simon Fraser University;|Hong Kong University;|University of California Santa Cruz
http://dx.doi.org/10.1101/098459 2017-01-05 CC BY When invisible noise obscures the signal: the consequences of nonlinearity in motion detection Ghaith Tarawneh|Vivek Nityananda|Ronny Rosner|Steven Errington|William Herbert|Bruce G. Cumming|Jenny C. A. Read|Ignacio Serrano-Pedraza Newcastle University;|National Eye Institute;|Universidad Complutense de Madrid
http://dx.doi.org/10.1101/098541 2017-01-05 Pharmacogenetic testing through the direct-to-consumer genetic testing company 23andMe Mengfei Lu|Cathryn M Lewis|Matthew Traylor King's College London
http://dx.doi.org/10.1101/098699 2017-01-05 Rps3/uS3 promotes mRNA binding at the 40S ribosome entry channel and stabilizes preinitiation complexes at start codons Jinsheng Dong|Colin Aitken|Anil Thakur|Byung-Sik Shin|Jon Lorsch|Alan G Hinnebusch NIH
http://dx.doi.org/10.1101/098673 2017-01-05 CC BY-NC Decoding sequence-level information to predict membrane protein expression Shyam M Saladi|Axel Muller|Nauman Javed|William M Clemons California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/098681 2017-01-05 CC BY-NC Epistatic networks jointly influence phenotypes related to metabolic disease and gene expression in Diversity Outbred mice Anna L. Tyler|Bo Ji|Daniel M. Gatti|Steven C. Munger|Gary A. Churchill|Karen L. Svenson|Greg W Carter The Jackson Laboratory, United States
http://dx.doi.org/10.1101/098608 2017-01-05 CC BY-NC Nucleotide-dependent stiffness suggests role of interprotofilament bonds in microtubule assembly Katja M Taute|Ernst-Ludwig Florin The Rowland Institute at Harvard;|University of Texas at Austin
http://dx.doi.org/10.1101/098434 2017-01-05 CC BY-NC-ND D-Alanine esterification of teichoic acids contributes to Lactobacillus plantarum mediated intestinal peptidase expression and Drosophila growth promotion upon chronic undernutrition Renata C Matos|Hugo Gervais|Pauline Joncour|Martin Schwarzer|Benjamin Gillet|Maria Elena Martino|Pascal Courtin|Sandrine Hughes|Marie-Pierre Chapot-Chartier|Francois Leulier Universite de Lyon;|Micalis Institute, INRA
http://dx.doi.org/10.1101/098566 2017-01-05 CC BY OrthoFiller: utilising data from multiple species to improve the completeness of genome annotations. Michael P Dunne|Steven Kelly University of Oxford
http://dx.doi.org/10.1101/098517 2017-01-05 CC BY Transcriptome-wide splicing quantification in single cells Yuanhua Huang|Guido Sanguinetti University of Edinburgh
http://dx.doi.org/10.1101/098558 2017-01-05 CC BY-NC-ND An overexpressed Q allele leads to increased spike density and improved processing quality Bin-Jie Xu|Qing Chen|Ting Zheng|Yun-Feng Jiang|Yuan-Yuan Qiao|Zhen-Ru Guo|Yong-Li Cao|Yan Wang|Ya-Zhou Zhang|Lu-Juan Zong|Jing Zhu|Cai-Hong Liu|Qian-Tao Jiang|Xiu-Jin Lan|Jian Ma|Ji-Rui Wang|You-Liang Zheng|Yu-Ming Wei|Peng-Fei Qi Triticeae Research Institute, Sichuan Agricultural University
http://dx.doi.org/10.1101/098525 2017-01-05 Egocentric and Allocentric Representations in Auditory Cortex Stephen Michael Town|W. Owen Brimijoin|Jennifer Kim Bizley University College London;|Medical Research Council/Chief Scientist Office Institute of Hearing Research - Scottish Section
http://dx.doi.org/10.1101/098418 2017-01-05 CC BY Allee dynamics: growth, extinction and range expansion Indrani Bose|Mainak Pal|Chiranjit Karmakar Bose Institute;|Indian Institute of Technology Guwahati
http://dx.doi.org/10.1101/098657 2017-01-05 The Effects of Sex and Diet on Physiology and Liver Gene Expression in Diversity Outbred Mice Daniel M Gatti|Petr Simecek|Lisa Somes|Clifton T Jeffery|Matthew J Vincent|Kwangbom Choi|Xingyao Chen|Gary A Churchill|Karen L Svenson The Jackson Laboratory, United States
http://dx.doi.org/10.1101/098319 2017-01-05 A Two-Process Model for Circadian and Sleep-dependent Modulation of Pain Sensitivity Natalia Toporikova|Megan Hastings Hagenauer|Paige Ferguson|Victoria Booth Washington and Lee University;|University of Michigan;|University of Alabama
http://dx.doi.org/10.1101/098277 2017-01-05 CC BY-NC Metacognitive impairments extend perceptual decision making weaknesses in compulsivity Tobias U. Hauser|Micah Allen|Geraint Rees|Raymond J. Dolan University College London;|Max Planck UCL Centre for Computational Psychiatry and Ageing Research
http://dx.doi.org/10.1101/098236 2017-01-05 CC BY-NC-ND Semaphorin-Plexin signaling influences early ventral telencephalic development and thalamocortical axon guidance Manuela D. Mitsogiannis|Graham E. Little|Kevin J Mitchell Trinity College Dublin
http://dx.doi.org/10.1101/098582 2017-01-05 CC BY Lineage-specific rediploidization is a mechanism to explain time-lags between genome duplication and evolutionary diversification Fiona Robertson|Manu Kumar Gundappa|Fabian Grammes|Torgeir Hvidsten|Anthony Redmond|Sigbjorn Lien|Samuel Martin|Peter Holland|Simen Sandve|Daniel Macqueen University of Aberdeen;|Norwegian University of Life Sciences;|University of Oxford
http://dx.doi.org/10.1101/096321 2017-01-05 CC BY-NC-ND Evidence for Transcriptome-wide RNA Editing Among Sus scrofa PRE-1 SINE Elements Scott A Funkhouser|Juan P Steibel|Ronald O Bates|Nancy E Raney|Darius Schenk|Catherine W Ernst Michigan State University;|Heinrich-Heine University
http://dx.doi.org/10.1101/098285 2017-01-05 CC BY-NC EvoKEN: evolutionary knowledge extraction in networks Benjamin Linard|Ngoc-hoan Nguyen|Odile Lecompte|Olivier Poch|Julie Thompson LIRMM;|IGBMC;|LBGI
http://dx.doi.org/10.1101/098640 2017-01-05 CC BY-NC Noise suppression in cell-size control Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/098467 2017-01-05 CC BY-ND Measuring physiological responses to stressors using a novel Hmox1 reporter mouse Michael McMahon|Shaohong Ding|Lourdes P Acosta-Jimenez|Tania G Frangova|Colin J Henderson|C. Roland Wolf University of Dundee
http://dx.doi.org/10.1101/098376 2017-01-05 Systems Biology CC BY The evolution of p53 network behavior Hari Sivakumar|Joao P Hespanha|Kyoungmin Roh|Stephen R Proulx University of California Santa Barbara
http://dx.doi.org/10.1101/097865 2017-01-05 Systems Biology CC BY-NC-ND Optimal homotopy analysis of a chaotic HIV-1 model incorporating AIDS-related cancer cells Jorge Duarte|Cristina Januario|Nuno Martins|Carlos Correia Ramos|Carla Rodrigues|Josep Sardanyes Instituto Superior de Engenharia de Lisboa - ISEL, Department of Mathematics;|Center for Mathematical Analysis, Geometry and Dynamical Systems, Mathematics Department, Instituto;|Department of Mathematics, University of Évora;|ESTS - Technology Superior School of Setubal, Department of Mathematics;|Centre de Recerca Matematica (CRM)
http://dx.doi.org/10.1101/096107 2017-01-05 Bioinformatics CC BY Glimma: interactive graphics for gene expression analysis Shian Su|Charity W Law|Casey Ah-Cann|Marie-Liesse Asselin-Labat|Marnie Blewitt|Matthew Ritchie The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/095232 2017-01-05 Epidemiology The Impact of Vitamin A and Carotenoids on the Risk of Tuberculosis Progression Omowunmi Aibana|Molly F. Franke|Chuan-Chin Huang|Jerome T. Galea|Roger Calderon|Zibiao Zhang|Mercedes C. Becerra|Emily R. Smith|Alayne G. Ronnenberg|Carmen Contreras|Rosa Yataco|Leonid Lecca|Megan B. Murray University of Texas Health Science Center at Houston, McGovern Medical School;|Harvard Medical School;|Brigham and Women's Hospital;|Partners In Health, Socios En Salud Sucursal;|Harvard T. H. Chan School of Public Health;|University of Massachusetts Amherst
http://dx.doi.org/10.1101/098764 2017-01-06 CC BY-NC-ND A Complete Logical Approach to Resolve the Evolution and Dynamics of Mitochondrial Genome in Bilaterians Laurent Oxusoff|Pascal Prea|Yvan Perez Aix-Marseille University
http://dx.doi.org/10.1101/099028 2017-01-06 CC BY-NC-ND Software solutions for reproducible RNA-seq workflows Trevor Meiss|Ling-Hong Hung|Yuguang Xiong|Eric Sobie|Ka Yee Yeung University of Washington Tacoma;|Ichahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/098798 2017-01-06 CC BY-NC-ND Integration of visual information in auditory cortex promotes auditory scene analysis through multisensory binding Huriye Atilgan|Stephen Town|Katherine Wood|Gareth Jones|Ross Maddox|Adrian Lee|Jennifer K Bizley University College London;|University of Rochester;|University of Washington
http://dx.doi.org/10.1101/098822 2017-01-06 CC BY-NC-ND Individual boldness is life stage-dependent and linked to dispersal in a hermaphrodite land snail Maxime Dahirel|Alexandre Vong|Armelle Ansart|Luc Madec Ghent University and University of Rennes 1;|University of Rennes 1
http://dx.doi.org/10.1101/098806 2017-01-06 CC BY-NC-ND Comparing three types of dietary samples for prey DNA decay in an insect generalist predator Stefaniya Kamenova|Rebecca Mayer|Eric Coissac|Manuel Plantegenest|Michael Traugott University of Guelph;|University of Innsbruck;|CNRS-University of Grenoble-Alpes;|Agrocampus Ouest
http://dx.doi.org/10.1101/098749 2017-01-06 CC BY-ND Cyclic-di-GMP is required for corneal infection by Pseudomonas aeruginosa and modulates host immunity Joey Kuok Hoong Yam|Thet Tun Aung|Song Lin Chua|Yingying Cheng|Gurjeet Singh Kohli|Jianuan Zhou|Florentin Constancias|Yang Liu|Zhao Cai|May Margarette Santillan Salido|Daniela I. Drautz-Moses|Scott A. Rice|Stephan Christoph Schuster|Bin Wu|Staffan Kjelleberg|Tim Tolker-Nielsen|Roger W. Beuerman|Michael Givskov|Liang Yang Nanyang Technological University;|South China Agricultural University;|National University of Singapore;|University of Copenhagen;|Singapore Eye Research Institute
http://dx.doi.org/10.1101/098855 2017-01-06 CC BY Time-resolved dual root-microbe transcriptomics reveals early induced Nicotiana benthamiana genes and conserved infection-promoting Phytophthora palmivora effectors Edouard Evangelisti|Anna Gogleva|Thomas Hainaux|Mehdi Doumane|Frej Tulin|Clement Quan|Temur Yunusov|Kevin Floch|Sebastian Schornack University of Cambridge, Sainsbury Laboratory
http://dx.doi.org/10.1101/098897 2017-01-06 CC BY-NC-ND The Environmental Risks of neonicotinoid pesticides: a review of the evidence post-2013 Thomas James Wood|Dave Goulson The University of Sussex
http://dx.doi.org/10.1101/098723 2017-01-06 CC BY-NC-ND Reverse Watson-Crick purine-purine base pairs : the Sharp-turn motif and other structural consequences in functional RNAs Abhinav Mittal|Antarip Halder|Sohini Bhattacharya|Dhananjay Bhattacharyya|Abhijit Mitra CCNSB, International Institute of Information Technology;|Computational Science Division, Saha Institute of Nuclear Physics(SINP), 1/AF, Bidhannagar, Kolkata
http://dx.doi.org/10.1101/098871 2017-01-06 Structural landscape of base pairs containing post-transcriptional modifications in RNA Preethi S. P.|Purshotam Sharma|Abhijit Mitra International Institute of Information Technology, Hyderabad;|Panjab University, Chandigarh
http://dx.doi.org/10.1101/098939 2017-01-06 CC BY-NC-ND Chunking as a rational strategy for lossy data compression in visual working memory tasks. Matthew R Nassar|Julie C Helmers|Michael J Frank Brown University
http://dx.doi.org/10.1101/099010 2017-01-06 CC BY-NC Building containerized workflows for RNA-seq data using the BioDepot-workflow-Builder (BwB) Ling-Hong Hung|Trevor Meiss|Jayant Keswani|Yuguang Xiong|Eric Sobie|Ka Yee Yeung University of Washington Tacoma;|Ichahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/098921 2017-01-06 CC BY-NC Evolution of the Mineralocorticoid Receptor: Sequence, Structure and Function Michael E. Baker|Yoshinao Katsu University of California, San Deigo;|Hokkaido University
http://dx.doi.org/10.1101/098780 2017-01-06 CC BY-NC-ND Deciphering HLA motifs across HLA peptidomes correctly predicts neo-antigens and identifies allostery in HLA specificity Michal Bassani-Sternberg|Chloe Chong|Philippe Guillaume|Marthe Solleder|HuiSong Pak|Philippe O Gannon|Lana E Kandalaft|George Coukos|David Gfeller University of Lausanne;|University Hospital of Lausanne
http://dx.doi.org/10.1101/098962 2017-01-06 Distinguishing Mechanisms Underlying EMT Tristability Dongya Jia|Mohit Kumar Jolly|Satyendra Chandra Tripathi|Petra Den Hollander|Bin Huang|Mingyang Lu|Muge Celiktas|Esmeralda Ramirez-Pena|Eshel Ben-Jacob|Jose N. Onuchic|Samir M. Hanash|Sendurai A. Mani|Herbert Levine Rice University;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/098905 2017-01-06 CC BY A Comparison of mRNA Sequencing with Random Primed and 3'-Directed Libraries Yuguang Xiong|Magali Soumillon|Jie Wu|Jens Hansen|Bin Hu|Johan G.C. van Hasselt|Gomathi Jayaraman|Ryan Lim|Mehdi Bouhaddou|Loren Ornelas|James Bochicchio|Lindsay Lenaeus|Jennifer Stocksdale|Jaehee Shim|Emilda Gomez|Dhruv Sareen|Clive Svendsen|Leslie M Thompson|Milind Mahajan|Ravi Iyengar|Eric A Sobie|Evren U Azeloglu|Marc R Birtwistle Dept of Pharmacological Sciences and DToxS LINCS Center, Icahn School of Medicine at Mount Sinai;|Broad Institute of MIT and Harvard, Cambridge, MA;|Dept of Biological Chemistry, University of California, Irvine; UCI MIND, UC Irvine;|Board of Governors-Regenerative Medicine Institute, Cedars-Sinai Medical Center, Los Angeles, CA;|UCI MIND, University of California, Irvine, CA;|Department of Biomedical Sciences, Cedars-Sinai Medical Center, Los Angeles, CA;|Dept of Psychiatry and Human Behavior, Neurobiology and Behavior, University of California, Irvine;|Department of Genetics, Icahn School of Medicine at Mount Sinai, New York, NY
http://dx.doi.org/10.1101/098715 2017-01-06 CC BY Dual RNA sequencing (dRNA-Seq) of bacteria and their host cells James W Marsh|Regan Hayward|Amol Shetty|Anup Mahurkar|Michael Humphrys|Garry S. A. Myers University of Technology Sydney;|University of Maryland
http://dx.doi.org/10.1101/098731 2017-01-06 CC BY MinorityReport, software for generalized analysis of causal genetic variants Jeremy Horst|Wesley Wu|Joseph L DeRisi UCSF
http://dx.doi.org/10.1101/098616 2017-01-06 CC BY-NC The early pregnancy human placenta shares hypomethylation patterns characteristic of solid tumors Akpeli V. Nordor|Djamel Nehar-Belaid|Sophie Richon|David Klatzmann|Dominique Bellet|Virginie Dangles-Marie|Thierry Fournier|Martin J. Aryee 1Institut Curie - PSL Research University;|Sorbonne Universités, UPMC University of Paris;|Institut Curie, PSL Research University, CNRS;|Institut Curie, PSL Research University;|INSERM, Université Paris Descartes, Sorbonne-Paris-Cité;|Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/095943 2017-01-06 Molecular and functional variation in iPSC-derived sensory neurons Jeremy Schwartzentruber|Stefanie Foskolou|Helena Kilpinen|Julia Rodrigues|Kaur Alasoo|Andrew J Knights|Minal Patel|Angela Goncalves|Rita Ferreira|Caroline L Benn|Anna Wilbrey|Magda Bictash|Emma Impey|Lishuang Cao|Sergio Lainez|Alexandre J Loucif|Paul J Whiting|Alex Gutteridge|Daniel J Gaffney Wellcome Trust Sanger Institute, Hinxton, Cambridgeshire, CB10 1SA, United Kingdom;|Pfizer Neuroscience and Pain Research Unit, Pfizer Ltd., Great Abington, Cambridge, United Kingdom;|EMBL-EBI, Wellcome Genome Campus, Hinxton, Cambridge, CB10 1SD, United Kingdom;|AR-UK Drug Discovery Institute, University College London, London, WC1E 6BT, United Kingdom
http://dx.doi.org/10.1101/098707 2017-01-06 CC BY-NC-ND Local differentiation in the defensive morphology of an invasive zooplankton species is not genetically based Giuseppe E Fiorino|Andrew G McAdam University of Guelph
http://dx.doi.org/10.1101/098947 2017-01-06 The demographic and adaptive history of the African green monkey Susanne P Pfeifer Ecole Polytechnique Federale de Lausanne
http://dx.doi.org/10.1101/098574 2017-01-06 CC BY-NC-ND Mutation spectrum of NOD2 reveals recessive inheritance as a main driver of Early Onset Crohn′s Disease Julie Horowitz|Neil Warner|Jeffrey Stapes|Eileen Crowley|Ryan Murchie|Cristopher Van Hout|Alejandra Klauer King|Karoline Fiedler|Jeffery Reid|John Overton|Alan Shuldiner|Aris Baras|Anne Griffiths|Frederick Dewey|Omri Gottesman|Aleixo Muise|Claudia Gonzaga-Jauregui Regeneron Genetics Center;|Toronto Hospital for Sick Children
http://dx.doi.org/10.1101/085407 2017-01-06 Epidemiology Exposure to Wood Smoke is Associated with Increased Risk of Asthma and Respiratory Symptoms in a Honduran Population Bo Hyun Cho|Elizabeth Castellanos|Elizabeth Nguyen|Sam Oh|Neeta Thakur|Jaime Tarsi|Tammy Koch|Erika Flores de Boquin|Alberto Valladares|John Balmes|Esteban Burchard|Mario Castro|Joshua Galanter University of California, San Francisco, School of Medicine;|Stritch School of Medicine, Loyola University Chicago;|St. Louis University School of Medicine;|University of California, San Francisco, Department of Medicine;|Washington University School of Medicine, Department of Medicine;|Universidad Catolica de Honduras, School of Medicine;|Hospital Santo Hermano Pedro
http://dx.doi.org/10.1101/098814 2017-01-06 Developmental Biology Myosin II activity is not required for Drosophila tracheal branching morphogenesis Amanda Ochoa-Espinosa|Stefan Harmansa|Emmanuel Caussinus|Markus Affolter Biozentrum, University of Basel;|University of Basel;|Institute of Molecular Life Sciences, University of Zurich
http://dx.doi.org/10.1101/098830 2017-01-06 Developmental Biology CC BY-NC Spacer sequences separating transcription factor binding motifs set enhancer quality and strength Marion Gueroult-Bellone|Kazuhiro R Nitta|Willi Kari|Edwin Jacox|Remy Beule Dauzat|Renaud Vincentelli|Carine Diarra|Ute Rothbacher|Christelle Dantec|Christian CAMBILLAU|Jacques Piette|Patrick Lemaire CRBM, UMR5237 CNRS/U. Montpellier, Montpellier, France;|IBDM, UMR7288 CNRS - Aix-Marseille Univ., Marseille, France;|AFMB - UMR7257 CNRS - Aix-Marseille Univ., Marseille, France
http://dx.doi.org/10.1101/098848 2017-01-06 Cancer Biology CC BY RET Ligands Mediate Endocrine Sensitivity via a Bi-stable Feedback Loop with ERα Sachi Horibata|Edward J Rice|Hui Zheng|Lynne J Anguish|Chinatsu Mukai|Brooke A Marks|Tinyi Chu|Scott Coonrod|Charles G Danko Cornell University
http://dx.doi.org/10.1101/098590 2017-01-06 Biophysics CC BY-NC-ND Active diffusion and advection in the Drosophila ooplasm result from the interplay of the actin and microtubule cytoskeletons Maik Drechsler|Fabio Giavzzi|Roberto Cerbino|Isabel M Palacios University of Cambridge;|University of Milan;|University od Cambridge
http://dx.doi.org/10.1101/098889 2017-01-06 Neuroscience CC BY-NC-ND Potassium channels contribute to activity-dependent scaling of dendritic inhibition Jeremy T Chang|Michael J Higley Yale University;|Yale
http://dx.doi.org/10.1101/094805 2017-01-06 Synthetic Biology CC BY-NC-ND Construction and optimization of a heterologous pathway for protocatechuate catabolism in Escherichia coli enables rapid bioconversion of model lignin monomers Sonya M Clarkson|Donna M Kridelbaugh|James G Elkins|Adam M Guss|Joshua Michener Oak Ridge National Laboratory;|Oak Ridge National Lab
http://dx.doi.org/10.1101/098475 2017-01-06 Zoology CC BY-ND Euthecosomata (Mollusca, Gastropoda, Thecosomata). Taxonomic review Jeannine RAMPAL Aix-Marseille University
http://dx.doi.org/10.1101/099077 2017-01-07 CC BY-NC Accurate alignment between correlated light, cryo-light, and electron cryo-microscopy data using sample support features Karen L Anderson|Christopher Page|Mark F Swift|Dorit Hanein|Niels Volkmann Sanford Burnham Prebys
http://dx.doi.org/10.1101/099036 2017-01-06 Systems Biology CC BY fastBMA: Scalable Network Inference and Transitive Reduction Ling-Hong Hung|Kaiyuan Shi|Migao Wu|William Chad Young|Adrian Raftery|Ka Yee Yeung University of Washington Tacoma;|University of Washington Seattle
http://dx.doi.org/10.1101/099051 2017-01-08 Saccadic suppression as a perceptual consequence of efficient sensorimotor estimation Frederic Crevecoeur|Konrad Paul Kording Universite catholique de Louvain;|Northwestern University
http://dx.doi.org/10.1101/099044 2017-01-08 CC BY-NC Novel insights into karyotype evolution and whole genome duplications in legumes Melissa M.L. Wong|Rene E. Vaillancourt|Jules S. Freeman|Corey J. Hudson|Freek T. Bakker|Charles H. Cannon|Wickneswari Ratnam National University of Malaysia;|University of Tasmania;|Tasmanian Alkaloids;|Wageningen University;|The Morton Arboretum
http://dx.doi.org/10.1101/099143 2017-01-08 CC BY-NC-ND Whole genome sequencing and assembly of a Caenorhabditis elegans genome with complex genomic rearrangements using the MinION sequencing device John R Tyson|Nigel J O'Neil|Miten Jain|Hugh E Olsen|Philip Hieter|Terrance P Snutch University of British Columbia;|University of California Santa Cruz
http://dx.doi.org/10.1101/099333 2017-01-09 CC BY-NC-ND When a foundation crumbles: forecasting forest community dynamics following the decline of the foundation species Tsuga canadensis Bradley S Case|Hannah L Buckley|Audrey A Barker Plotkin|David A Orwig|Aaron M Ellison Auckland University of Technology;|Harvard University
http://dx.doi.org/10.1101/099291 2017-01-09 Comparison of one-stage and two-stage genome-wide association studies Shang Xue|Funda Ogut|Zachary Miller|Janu Verma|Peter Bradbury|James Holland North Carolina State University, United States;|Artvin Coruh University, Turkey;|Cornell University, United States;|USDA-ARS, United States;|USDA-ARS and NC State U., United States
http://dx.doi.org/10.1101/098269 2017-01-09 The Modulation of Pain by Circadian and Sleep-Dependent Processes: A Review of the Experimental Evidence Megan Hastings Hagenauer|Jennifer A. Crodelle|Sofia H. Piltz|Natalia Toporikova|Paige Ferguson|Victoria Booth University of Michigan;|Rensselaer Polytechnic Institute;|Technical University of Denmark;|Washington and Lee University;|University of Alabama
http://dx.doi.org/10.1101/099317 2017-01-09 CC BY-NC-ND Hybrid incompatibility caused by an epiallele Todd Blevins|Jing Wang|David Pflieger|Frederic Pontvianne|Craig S. Pikaard Université de Strasbourg, CNRS, IBMP UPR 2357;|Department of Biology, Indiana University, Bloomington, IN, 47405, USA;|Université de Strasbourg, CNRS, IBMP UPR 2357, F-67000 Strasbourg, France;|CNRS, Laboratoire Génomes et Développement des Plantes, Université de Perpignan;|Howard Hughes Medical Institute, Indiana University, Bloomington, IN, 47405, USA
http://dx.doi.org/10.1101/099325 2017-01-09 CC BY-NC-ND Targeted capture of complete coding regions across divergent species Ryan Schott|Bhawandeep Panesar|Daren C Card|Matthew Preston|Todd A Castoe|Belinda SW Chang University of Toronto;|University of Texas
http://dx.doi.org/10.1101/099309 2017-01-09 CC BY-NC NAPR: a cloud-based framework for neuroanatomical age prediction Heath R Pardoe|Ruben Kuzniecky New York University School of Medicine
http://dx.doi.org/10.1101/098509 2017-01-09 CC BY-NC Familiarity with companions aids recovery from fear in zebrafish Ajay S. Mathuru|Annett Schirmer|Tabitha Phui Yeng Ng|Caroline Kibat|Ruey-Kuang Cheng|Suresh Jesuthasan Yale-NUS College;|National University of Singapore;|Institute of Molecular and Cell Biology;|Lee Kong Chian School of Medicine
http://dx.doi.org/10.1101/099093 2017-01-09 CC BY-NC Using high-throughput barcode sequencing to efficiently map connectomes Ian D Peikon|Justus M Kebschull|Vasily V Vagin|Diana I Ravens|Eric Brouzes|Ivan R Correa|Dario Bressan|Anthony Zador Cold Spring Harbor Lab;|CSHL;|Stony Brook University;|NEB;|CRUK
http://dx.doi.org/10.1101/098095 2017-01-09 Genetics CC BY-NC-ND Fine-scale human population structure in southern Africa reflects ecogeographic boundaries Caitlin Uren|Minju Kim|Alicia R Martin|Dean Bobo|Christopher R Gignoux|Paul D van Helden|Marlo Moller|Eileen G Hoal|Brenna Henn Department of Biomedical Sciences, Stellenbosch University;|Department of Ecology and Evolution, Stony Brook University;|Broad Institute of Harvard and MIT, Department of Genetics, Massachusetts General Hospital;|Department of Genetics, Stanford University
http://dx.doi.org/10.1101/098533 2017-01-09 Evolutionary Biology CC BY-NC-ND Parasite escape through trophic specialization in a species flock Pascal Hablutzel|Maarten PM Vanhove|Pablo Deschepper|Arnout F Gregoir|Anna K Roose|Filip AM Volckaert|Joost AM Raeymaekers University of Leuven;|Royal Belgian Institute of Natural Sciences;|Norwegian University of Science and Technology
http://dx.doi.org/10.1101/099275 2017-01-09 Genomics CC BY-NC-ND Closed-reference metatranscriptomics enables in planta profiling of putative virulence activities in the grapevine trunk-disease complex Abraham Morales-Cruz|Gabrielle Allenbeck|Rosa Figueroa-Balderas|Vanessa E Ashworth|Daniel P Lawrence|Renaud Travadon|Rhonda J Smith|Kendra Baumgartner|Philippe Rolshausen|Dario Cantu University of California Davis;|University of California Riverside;|University of California Cooperative Extension;|USDA-ARS
http://dx.doi.org/10.1101/099150 2017-01-09 Bioinformatics CC BY-NC Utilization of network graph connectivity to evaluate complications of inpatient medical and surgical populations as a method to prioritize quality improvement efforts Kattie Bear-Pfaffendorf Allina Health
http://dx.doi.org/10.1101/099127 2017-01-09 Bioinformatics CC BY Critical Assessment of Metagenome Interpretation − a benchmark of computational metagenomics software Alexander Sczyrba|Peter Hofmann|Peter Belmann|David Koslicki|Stefan Janssen|Johannes Droege|Ivan Gregor|Stephan Majda|Jessika Fiedler|Eik Dahms|Andreas Bremges|Adrian Fritz|Ruben Garrido-Oter|Tue Sparholt Jorgensen|Nicole Shapiro|Philip D Blood|Alexey Gurevich|Yang Bai|Dmitrij Turaev|Matthew Z DeMaere|Rayan Chikhi|Niranjan Nagarajan|Christopher Quince|Lars Hestbjerg Hansen|Soren J Sorensen|Burton K H Chia|Bertrand Denis|Jeff L Froula|Zhong Wang|Robert Egan|Dongwan Don Kang|Jeffrey J Cook|Charles Deltel|Michael Beckstette|Claire Lemaitre|Pierre Peterlongo|Guillaume Rizk|Dominique Lavenier|Yu-Wei Wu|Steven W Singer|Chirag Jain|Marc Strous|Heiner Klingenberg|Peter Meinicke|Michael Barton|Thomas Lingner|Hsin-Hung Lin|Yu-Chieh Liao|Genivaldo Gueiros Z. Silva|Daniel A Cuevas|Robert A Edwards|Surya Saha|Vitor C Piro|Bernhard Y Renard|Mihai Pop|Hans-Peter Klenk|Markus Goeker|Nikos Kyrpides|Tanja Woyke|Julia A Vorholt|Paul Schulze-Lefert|Edward M Rubin|Aaron E Darling|Thomas Rattei|Alice C McHardy Bielefeld University, Germany;|Heinrich Heine University and Helmholtz Centre for Infection Research, Germany;|Bielefeld University and Helmholtz Centre for Infection Research, Germany;|Oregon State University, USA;|Helmholtz Centre for Infection Research, Germany. University of California, USA;|Heinrich Heine University and University of Duisburg and Essen, Germany;|Helmholtz Centre for Infection Research, Germany;|Aarhus University and University of Copenhagen, Denmark;|Joint Genome Institute, USA;|Pittsburgh Supercomputing Center, USA;|Institute of Translational Biomedicine, Russia;|Chinese Academy of Science & John Innes Centre, China;|University of Vienna, Austria;|University of Technology of Sydney, Australia;|Research Center in Computer Science and National Centre of the Scientific Research, France;|Genome Institute of Singapore, Singapore;|University of Warwick, UK;|Aarhus University, Denmark;|University of Copenhagen, Denmark;|Intel Corporation, USA;|National Institute of Research in Informatics and Automatics, France;|Institute of Research in Informatics and Random Systems, France;|National Centre of the Scientific Research, France;|Joint BioEnergy Institute, USA. Taipei Medical University, Taiwan;|Joint BioEnergy Institute and Lawrence Berkeley National Laboratory, USA;|Max Planck Institute for Biology of Ageing, Germany;|University of Calgary, Canada;|University of Goettingen, Germany;|University Medical Center, Germany;|National Health Research Institutes, Taiwan;|San Diego State University, USA;|Boyce Thompson Institute for Plant Research, USA;|Robert Koch Institute, Germany. Ministry of Education of Brazil, Brazil;|Robert Koch Institute, Germany;|University of Maryland, USA;|Newcastle University, UK;|Leibinz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Germany;|Institute of Microbiology, Switzerland;|Max Planck Institute for Plant Breeding Research, Germany
http://dx.doi.org/10.1101/099259 2017-01-09 Genetics CC BY An epigenetic change in a moth is generated by temperature and transmitted to many subsequent generations mediated by RNA Jaroslav Pavelka|Simona Polakova|Vera Pavelkova University of West Bohemia;|Beleco;|Faculty of Science, University of South Bohemia
http://dx.doi.org/10.1101/099184 2017-01-09 Neuroscience CC BY-NC-ND Multivariate cross-frequency coupling via generalized eigendecomposition Michael Cohen Radboud University
http://dx.doi.org/10.1101/098988 2017-01-09 Neuroscience CC BY-NC-ND Spontaneous Neural Encoding of Social Network Position Carolyn Parkinson|Adam M. Kleinbaum|Thalia Wheatley University of California, Los Angeles;|Tuck School of Business, Dartmouth College;|Dartmouth College
http://dx.doi.org/10.1101/099135 2017-01-09 Bioinformatics Automatic classification of diatoms of Merja fouarate Nouzha Chahboune|Mohamed Mehdi|Allal Douira Ibn Tofail University, Faculty of Science;|Tofail University, Faculty of Science
http://dx.doi.org/10.1101/099101 2017-01-09 Neuroscience CC BY-NC-ND Visual motion computation in recurrent neural networks Marius Pachitariu|Maneesh Sahani University College London
http://dx.doi.org/10.1101/099200 2017-01-09 Molecular Biology The 2D-structure of the T. brucei pre-edited RPS12 mRNA is not affected by macromolecular crowding W.-Matthias Leeder|Stephan Voskuhl|H. Ulrich Goringer Darmstadt University of Technology
http://dx.doi.org/10.1101/099192 2017-01-09 Genetics CC BY Watching the clock for 25 years in FlyClockbase: Variability in circadian clocks of Drosophila melanogaster as uncovered by biological model curation Katherine S Scheuer|Bret Hanlon|Jerdon W Dresel|Erik D Nolan|John C Davis|Laurence Loewe University of Wisconsin-Madison
http://dx.doi.org/10.1101/099234 2017-01-09 Systems Biology CC BY-NC-ND JDINAC: joint density-based non-parametric differential interaction network analysis and classification using high-dimensional sparse omics data Jiadong Ji|Di He|Yang Feng|Yong He|Fuzhong Xue|Lei Xie Department of Biostatistics, School of Public Health, Shandong University;|The Graduate Center, The City University of New York;|Department of Statistics, Columbia University;|Department of Statistics, School of Management, Fudan University;|Department of Computer Science, Hunter College, The City University of New York
http://dx.doi.org/10.1101/098913 2017-01-09 Genomics CC BY Multiplex PCR method for MinION and Illumina sequencing of Zika and other virus genomes directly from clinical samples Joshua Quick|Nathan D Grubaugh|Steven T Pullan|Ingra M Claro|Andrew D Smith|Karthik Gangavarapu|Glenn Oliveira|Refugio Robles-Sikisaka|Thomas F Rogers|Nathan A Beutler|Dennis R Burton|Lia Laura Lewis-Ximenez|Jaqueline Goes de Jesus|Marta Giovanetti|Sarah Hill|Allison Black|Trevor Bedford|Miles W Carroll|Marcio Nunes|Luiz Carlos Alcantara|Ester C Sabino|Sally A Baylis|Nuno Faria|Matthew Loose|Jared T Simpson|Oliver G Pybus|Kristian G Andersen|Nicholas J Loman University of Birmingham;|The Scripps Research Institute;|Public Health England, Porton Down;|University of Sao Paulo;|Scripps Translational Science Institute;|Fiocruz Rio de Janeiro;|Fiocruz Bahia;|University of Oxford;|Fred Hutchinson Cancer Research Center;|Instituto Evandro Chagas;|Paul-Ehrlich-Institut, Langen;|University of Nottingham;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/099168 2017-01-09 Genomics CC BY Biocuration as an undergraduate training experience: Improving the annotation of the insect vector of Citrus greening disease Surya Saha|Prashant S Hosmani|Krystal Villalobos-Ayala|Sherry Miller|Teresa Shippy|Andrew Rosendale|Chris Cordola|Tracey Bell|Hannah Mann|Gabe DeAvila|Daniel DeAvila|Zachary Moore|Kyle Buller|Kathryn Ciolkevich|Samantha Nandyal|Robert Mahoney|Joshua Von Voorhis|Megan Dunlevy|David Farrow|David Hunter|Taylar Morgan|Kayla Shore|Victoria Guzman|Allison Izsak|Danielle E Dixon|Liliana Cano|Andrew Cridge|Shannon Johnson|Brandi L Cantarel|Stephen Richardson|Adam English|Nan Leng|Xiaolong Cao|Haobo Jiang|Chris Childers|Mei-Ju Chen|Mirella Flores|Wayne Hunter|Michelle Cilia|Lukas A Mueller|Monica Munoz-Torres|David Nelson|Monica F Poelchau|Josh Benoit|Helen Wiersma-Koch|Tom D'elia|Susan J Brown Boyce Thompson Institute;|Indian River State College;|Kansas State University,;|University of Cincinnati;|Kansas State University;|Cornell University;|University of Puget Sound;|University of Florida / IFAS Indian River Research and Education Center;|University of Otago;|Los Alamos National Laboratory;|University of Tennesse Southwestern Medical Center,;|Baylor College of Medicine, i5K Arthropod Genomics;|Illumina, Inc.;|Oklahoma State University;|USDA Agricultural Research Service, National Agricultural Library;|National Taiwan University;|USDA ARS, U. S. Horticultural Research Laboratory;|USDA ARS, Emerging Pests and Pathogens Research Unit;|Lawrence Berkeley National Laboratory;|The University of Tennessee Health Science Center
http://dx.doi.org/10.1101/099069 2017-01-09 Microbiology CC BY-NC-ND Epidemiological and ecological modelling reveal diversity in microbial population structures from a cross-sectional community swabbing study Abigail L Coughtrie|Denise E Morris|Rebecca Anderson|Nelupha Begum|David W Cleary|Saul N Faust|Johanna M Jefferies|Alex R Kraaijeveld|Michael V Moore|Mark A Mullee|Paul J Roderick|Andrew Tuck|Robert N Whittaker|Ho Ming Yuen|C. Patrick Doncaster|Stuart C Clarke University of Southampton;|University Hospital Southampton Foundation NHS Trust
http://dx.doi.org/10.1101/097881 2017-01-09 Bioinformatics CC BY-NC Snaptron: querying and visualizing splicing across tens of thousands of RNA-seq samples Christopher Wilks|Phani Gaddipati|Abhinav Nellore|Benjamin Langmead Johns Hopkins University
http://dx.doi.org/10.1101/099606 2017-01-10 Structural basis of Mycobacterium tuberculosis transcription and transcription inhibition Wei Lin|Soma Mandal|David Degen|Yu Liu|Yon Ebright|Shengjian Li|Yu Feng|Yu Zhang|Sukhendu Mandal|Yi Jiang|Shuang Liu|Matthew Gigliotti|Meliza Talaue|Nancy Connell|Kalyan Das|Eddy Arnold|Richard H. Ebright Rutgers University;|Waksman Institute
http://dx.doi.org/10.1101/098954 2017-01-10 CC BY-NC-ND Polymer dynamics of Alp7A reveals two ′critical′ concentrations that govern dynamically unstable actin-like proteins Natalie A Petek|Alan I Derman|Jason A Royal|Joe Pogliano|Dyche Mullins University of California, San Francisco;|University of California, San DIego;|University of California, San Diego
http://dx.doi.org/10.1101/098061 2017-01-10 CC BY-NC-ND A combined meta-barcoding and shotgun metagenomic analysis of spontaneous wine fermentation Peter R Sternes|Danna Lee|Dariusz R Kutyna|Anthony R Borneman Institute of Health and Biomedical Innovation, Queensland University of Technology;|Department of Cell and Molecular Biology, Uppsala University, Sweden;|The Australian Wine research Institute
http://dx.doi.org/10.1101/099515 2017-01-10 CC BY-NC Glutamate release is inhibitory and unnecessary for the long-term potentiation of presynaptic function Zahid Padamsey|Rudi Tong|Nigel Emptage University of Oxford
http://dx.doi.org/10.1101/099531 2017-01-10 CC BY Plants resistance to drought relies on early stomata closure Nicolas Martin-StPaul|Sylvain Delzon|Herve Cochard INRA
http://dx.doi.org/10.1101/098970 2017-01-10 CC BY-NC-ND Evidence for a Large-Scale Brain System Supporting Allostasis and Interoception in Humans Ian Kleckner|Jiahe Zhang|Alexandra Touroutoglou|Lorena Chanes|Chenjie Xia|W. Kyle Simmons|Karen Quigley|Bradford Dickerson|Lisa Barrett University of Rochester Medical Center;|Northeastern University;|Massachusetts General Hospital and Harvard Medical School;|Laureate Institute for Brain Research;|Edith Nourse Rogers Memorial
http://dx.doi.org/10.1101/099457 2017-01-10 CC BY Longitudinal differential abundance analysis of microbial marker-gene surveys using smoothing splines Joseph Nathaniel Paulson|Hisham Talukder|Hector Corrada Bravo Dana-Farber Cancer Institute;|University of Maryland, College Park
http://dx.doi.org/10.1101/099564 2017-01-10 CC BY-NC-ND A High Quality Assembly of the Nile Tilapia (Oreochromis niloticus) Genome Reveals the Structure of Two Sex Determination Regions Matthew A Conte|William J Gammerdinger|Kerry L Bartie|David J Penman|Thomas D Kocher University of Maryland, College Park;|University of Stirling
http://dx.doi.org/10.1101/099226 2017-01-10 Overlap among spatial memories triggers divergence of hippocampal representations Avi JH Chanales|Ashima Oza|Serra E Favila|Brice A Kuhl New York University;|University of Oregon
http://dx.doi.org/10.1101/099440 2017-01-10 MmpL3 is the flippase for mycolic acids in mycobacteria Zhujun Xu|Giovanna Poce|Shu Sin Chng National University of Singapore;|Sapienza University of Rome
http://dx.doi.org/10.1101/099499 2017-01-10 CC BY-ND Deconvoluting multiple infections in Plasmodium falciparum from high throughput sequencing data Sha Joe Zhu|Jacob Almagro-Garcia|Gil McVean University of Oxford
http://dx.doi.org/10.1101/099481 2017-01-10 CC BY-NC-ND Taxonomic identification of airborne pollen from complex environmental samples by DNA metabarcoding: a methodological study for optimizing protocols Cleopatra Leontidou|Cristiano Vernesi|Johannes De Groeve|Fabiana Cristofolini|Despoina Vokou|Antonella Cristofori Fondazione Edmund Mach;|Aristotle University Thessaloniki
http://dx.doi.org/10.1101/099473 2017-01-10 Cell fixation and preservation for droplet-based single-cell transcriptomics Jonathan Alles|Samantha Praktiknjo|Nikos Karaiskos|Stefanie Grosswendt|Salah Ayoub|Luisa Schreyer|Anastasiya Boltengagen|Christine Kocks|Nikolaus Rajewsky Max Delbrueck Center for Molecular Medicine
http://dx.doi.org/10.1101/099465 2017-01-10 Laminin α1 orchestrates VEGFA functions in the ecosystem of colorectal carcinoma E. Mammadova-Bach|T. Rupp|C. Spenle|I. Jivkov|P. P. Shankaranarayanan|A. Klein|L. Pisarsky|A. Mechine-Neuville|G. Cremel|M. Kedinger|O. De Wever|N. Ambartsumian|S. Robine|E. Pencreach|D. Guenot|Jacky G. Goetz|P. Simon-Assmann|G. Orend|Olivier Lefebvre INSERM U1109, Strasbourg;|Department of Anatomy and Pathology, CHRU Hautepierre, Strasbourg;|Laboratory of Experimental Cancer Research, Ghent;|Institut for Cancer Biology, Copenhagen;|Institut Curie, Paris;|EA3430, Strasbourg
http://dx.doi.org/10.1101/099358 2017-01-10 Bioinformatics CC BY HLA class I binding prediction via convolutional neural networks Yeeleng Scott Vang|Xiaohui Xie University of California Irvine;|University of California, Irvine
http://dx.doi.org/10.1101/099374 2017-01-10 Microbiology CC BY-NC-ND Biofilms Confer Resistance to Simulated Extra-terrestrial Geochemical Extremes Adam H Stevens|Delma Childers|Mark Fox-Powell|Charles S Cockell UK Centre for Astrobiology;|MRC Centre For Medical Mycology at the University of Aberdeen;|Department of Earth and Environmental Sciences, University of St. Andrews
http://dx.doi.org/10.1101/099382 2017-01-10 Animal Behavior and Cognition CC BY-NC-ND Two sides of the same coin: monetary incentives concurrently improve and bias confidence judgments. Mael Lebreton|Shari Langdon|Matthijs J. Slieker|Jip S Nooitgedacht|Anna E Goudriaan|Damiaan Denys|Judy Luigjes|Ruth J van Holst Universiteit van Amsterdam;|Academic Medical Centre, Amsterdam
http://dx.doi.org/10.1101/098392 2017-01-10 Bioinformatics CC BY BGDMdocker: an workflow base on Docker for analysis and visualization pan-genome and biosynthetic gene clusters of Bacterial Gong Cheng|Zongshan Zhou|Ling Ma|Guocai Zhang|Yilei WU|Chao Chen Research Institute of Pomology, Chinese Academy of Agricultural Sciences;|Northeast Forestry University;|Beijing Hygenoimcs CO., LTD;|TangTangTianxia Biomedical Information Technology CO., LTD
http://dx.doi.org/10.1101/099002 2017-01-10 Neuroscience CC BY-NC-ND A quantitative description of the mouse piriform cortex Shyam Srinivasan|Charles F Stevens Salk Institute and Kavli Institute, UCSD
http://dx.doi.org/10.1101/098863 2017-01-10 Neuroscience Improved Kinect sensor based motion capturing system for gait assessment Bjorn Muller|Winfried Ilg|Martin A. Giese|Nicolas Ludolph CIN, HIH, University of Tübingen;|CIN, HIH, IMPRS, University of Tübingen
http://dx.doi.org/10.1101/099267 2017-01-09 Cell Biology Stability and function of a putative microtubule organizing center in the human parasite Toxoplasma gondii Jacqueline M Leung|Yudou He|Fangliang Zhang|Yu-Chen Hwang|Eiji Nagayasu|Jun Liu|John Murray|Ke Hu Indiana University;|University of Miami;|Nikon Instruments Inc;|University of Miyazaki
http://dx.doi.org/10.1101/098400 2017-01-09 Biochemistry In vitro assembly of the Rous Sarcoma Virus capsid protein into hexamer tubes under physiological conditions. Soumeya A Jaballah|Graham D Bailey|Ambroise Desfosses|Jaekyung Hyun|Alok K Mitra|Richard L Kingston University of Auckland;|University Of Nottingham;|Center for Electron Microscopy Research, Korea Basic Science Institute
http://dx.doi.org/10.1101/099432 2017-01-11 Captive-bred Orangutans voluntarily choose to reward themselves with cabbage containing greater amounts of anthocyanin in a two-alternative decision task. Neil R Mennie|Rachael Symonds|Mazrul Mahadzir University of Nottingham Malaysia Campus;|University of Nottingham Malaysia
http://dx.doi.org/10.1101/099697 2017-01-11 CC BY Glucocorticoids change neural decoding in the middle cingulate cortex accompanied by a reduction of subjective fear in patients with spider phobia Simon Schwab|Andrea Federspiel|Yosuke Morishima|Masahito Nakataki|Werner Strik|Roland Wiest|Markus Heinrichs|Dominique de Quervain|Leila M Soravia University of Warwick, United Kingdom;|University of Bern, Switzerland;|University of Tokushima, Japan;|University of Freiburg, Germany;|University of Basel, Switzerland
http://dx.doi.org/10.1101/099713 2017-01-11 CC BY The leading-edge vortex of swift wings Ignazio Maria Viola|Rowan Eveline Muir Institute for Energy Systems, School of Engineering, University of Edinburgh
http://dx.doi.org/10.1101/099572 2017-01-11 CC BY-ND Small RNAs reflect grandparental environments in apomictic dandelion Lionel Morgado|Veronica Preite|Carla Oplaat|Sarit Anava|Julie Ferreira de Carvalho|Oded Rechavi|Frank Johannes|Koen Verhoeven University of Groningen;|Netherlands Institute of Ecology (NIOO-KNAW);|Tel Aviv University;|Technical University of Munich
http://dx.doi.org/10.1101/099770 2017-01-11 Genomic and Environmental Contributions to Chronic Diseases in Urban Populations Marie-Julie Fave|Fabien Lamaze|Alan Hodgkinson|Heloise Gauvin|Vanessa Bruat|Jean-Christophe Grenier|Elias Gbeha|Kimberly Skead|Audrey Smargiassi|Markey Johnson|Youssef Idaghdour|Philip Awadalla Ontario Institute for Cancer Research and Sainte-Justine Research Center;|Ontario Institute for Cancer Research;|Guy's Hospital, King's college;|Sainte-Justine Research Center and Statistics Canada;|University of Montreal;|Health Canada;|NYU Aby Dhabi;|Ontario Institute for Cancer Research, University of Toronto and University of Montreal
http://dx.doi.org/10.1101/099788 2017-01-11 CC BY-NC-ND Detection and quantification of viral RNA in human tumors using open source pipeline: viGEN Krithika Bhuvaneshwar|Lei Song|Subha Madhavan|Yuriy Gusev Georgetown University
http://dx.doi.org/10.1101/099721 2017-01-11 Locomotor activity modulates associative learning in mouse cerebellum Catarina Albergaria|N. Tatiana Silva|Dominique Pritchett|Megan R. Carey Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/099705 2017-01-11 Surface-driven RNA-refolding by the OB-fold proteins of the Trypanosoma brucei editosome Christin Voigt|Mateusz Dobrychop|Elisabeth Kruse|Anna Czerwoniec|Joanna M. Kasprzak|Patrycia Bytner|Janusz M. Bujnicki|H. Ulrich Goringer Darmstadt University of Technology;|Adam Mickiewicz University
http://dx.doi.org/10.1101/099671 2017-01-11 CC BY Dynamic patterning by the Drosophila pair-rule network reconciles long-germ and short-germ segmentation Erik Clark University of Cambridge
http://dx.doi.org/10.1101/099655 2017-01-11 Soft drug-resistant ovarian cancer cells invade via two distinct mechanisms utilizing myosin IIB Aastha Kapoor|Bhushan Thakur|Melissa Monteiro|Alakesh Das|Sejal Desai|Snehal Gaikwad|Amirali B Bukhari|Pankaj Mogha|Abhijit Majumder|Abhijit De|Pritha Ray|Shamik Sen IIT Bombay;|ACTREC
http://dx.doi.org/10.1101/099762 2017-01-11 An Adaptive Geometric Search Algorithm for Macromolecular Scaffold Selection Tian Jiang|Douglas Renfrew|Kevin Drew|Noah Youngs|Glenn Butterfoss|Dennis Shasha|Richard Bonneau Courant Institute of Mathematical Sciences, Computer Science Department, New York University;|Simons Foundation;|University of Texas at Austin;|NYU;|NYU Abu Dhabi
http://dx.doi.org/10.1101/099663 2017-01-11 CC BY No evidence for the radiation time lag model after whole genome duplications in Teleostei Sacha Laurent|Nicolas Salamin|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/099549 2017-01-11 CC BY-NC-ND Capturing in vivo RNA transcriptional dynamics from the malaria parasite P. falciparum Heather J Painter|Manuela Carrasquilla|Manuel M Llinas Pennsylvania State University;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/099523 2017-01-11 CC BY-NC Direct visualization of transcriptional activation by physical enhancer-promoter proximity Hongtao Chen|Miki Fujioka|Thomas Gregor Princeton University;|Thomas Jeferson University
http://dx.doi.org/10.1101/099424 2017-01-11 Mapping and explaining wolf recolonization in France using dynamic occupancy models and opportunistic data Julie Louvrier|Christophe Duchamp|Eric Marboutin|Sarah Cubaynes|Remi Choquet|Christian Miquel|Olivier Gimenez ONCFS & CNRS;|ONCFS;|EPHE;|CNRS
http://dx.doi.org/10.1101/099812 2017-01-11 Reversibility of chemotherapy-induced senescence is independent of autophagy and a potential model for tumor dormancy and cancer recurrence. Tareq Saleh|Emmanuel K Cudjoe|S. Lauren Kyte|Scott C Henderson|Lynne W Elmore|David Gewirtz Virginia Commonwealth University
http://dx.doi.org/10.1101/098368 2017-01-11 CC BY-NC-ND Persistence of antibiotic resistance plasmids in bacterial biofilms Benjamin Ridenhour|Genevieve Metzger|Michael France|Karol Gliniewicz|Jack Millstein|Larry Forney|Eva Top University of Idaho
http://dx.doi.org/10.1101/099747 2017-01-11 CC BY Targeting the PD-1/PD-L1 pathway potentiates immunoediting to counterbalance neutral evolution in a mouse model of colorectal cancer Zlatko Trajanoski|Mirjana Efremova|Victoria Klepsch|Pornpimol Charoentong|Francesca Finotello|Dietmar Rieder|Hubert Hackl|Natasch Hermann-Kleiter|Gottfried Baier|Anne Krogsdam Medical University of Innsbruck
http://dx.doi.org/10.1101/099739 2017-01-11 CC BY-NC-ND Biowheel: interactive visualization and exploration of biomedical data Chenyue Hu|Alex J Bisberg|Amina A Qutub Rice University
http://dx.doi.org/10.1101/099614 2017-01-11 Animal Behavior and Cognition Group size constraints may mask underlying similarities in social structure: a comparison of female elephant societies Nandini Shetty|P. Keerthipriya|T.N.C. Vidya Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/099556 2017-01-11 Epidemiology CC BY-ND Association between urinary biomarkers of total sugars and sucrose intake and BMI in a cross-sectional study Rachel Campbell|Natasha Tasevska|Kim G Jackson|Virag Sagi-Kiss|Nick di Paolo|Jennifer S Mindell|Susan J Lister|Kay-Tee Khaw|Gunter Georg Christian Kuhnle University of Reading;|Arizona State University;|NatCen;|UCL;|University of Aberystwyth;|University of Cambridge
http://dx.doi.org/10.1101/099598 2017-01-10 Cell Biology Local Control of Intracellular Microtubule Dynamics by End Binding Protein 1 (EB1) Photo-Dissociation Jeffrey van Haren|Andreas Ettinger|Hui Wang|Klaus Hahn|Torsten Wittmann UCSF;|Helmholtz Center Munich;|University of North Carolina Chapel Hill
http://dx.doi.org/10.1101/100032 2017-01-12 Bioinformatics CC BY-NC riboviz: analysis and visualization of ribosome profiling datasets Oana Carja|Tongji Xing|Joshua B. Plotkin|Premal Shah University of Pennsylvania;|Rutgers University
http://dx.doi.org/10.1101/099804 2017-01-12 Molecular Biology Polycomb-Mediated Chromatin Loops Revealed by a Sub-Kilobase Resolution Chromatin Interaction Map Kyle P. Eagen|Erez Lieberman Aiden|Roger D. Kornberg Northwestern University Feinberg School of Medicine;|Baylor College of Medicine;|Stanford University School of Medicine
http://dx.doi.org/10.1101/099895 2017-01-12 Bioinformatics CC BY-NC-ND CRISPR-RT: A web service for designing CRISPR-C2c2 crRNA with improved target specificity Houxiang Zhu|Emily Richmond|Chun Liang Miami University
http://dx.doi.org/10.1101/099937 2017-01-12 Neuroscience Toddlers later diagnosed with autism exhibit multiple structural abnormalities in temporal corpus callosum fibers Noa Fingher|Ilan Dinstein|Michal Ben- Shachar|Shlomi Haar|Anders Dale|Lisa Eyler|Karen Pierce|Eric Courchesne Ben Gurion University;|Bar Ilan University;|University of California San Diego
http://dx.doi.org/10.1101/099945 2017-01-12 Microbiology CC BY-NC-ND Variation in the microbiome of the urogenital tract of koalas (Phascolarctos cinereus) with and without "wet bottom" Alistair Raymond Legione|Jemima Amery-Gale|Michael Lynch|Leesa Haynes|James Gilkerson|Joanne Devlin|Fiona Sansom University of Melbourne;|Zoos Victoria
http://dx.doi.org/10.1101/096032 2017-01-12 Developmental Biology CC BY Bayesian inference of agent-based models: a tool for studying kidney branching morphogenesis Ben Lambert|Adam L MacLean|Alexander G Fletcher|Alexander N Coombes|Melissa H Little|Helen M Byrne University of Oxford;|Department of Mathematics, University of California, Irvine;|Bateson Centre, University of Sheffield;|Department of Anatomy & Neuroscience, University of Melbourne;|Murdoch Childrens Research Institute;|Mathematical Institute, University of Oxford
http://dx.doi.org/10.1101/099879 2017-01-12 Genomics CC BY Predicting Transcriptional Regulatory Activities with Deep Convolutional Networks Joe Paggi|Andrew Lamb|Kevin Tian|Irving Hsu|Pierre-Louis Cedoz|Prasad Kawthekar Stanford University
http://dx.doi.org/10.1101/099960 2017-01-12 Microbiology CC BY-NC-ND Evaluation of Oxford Nanopore MinION Sequencing for 16S rRNA Microbiome Characterization Xiao Ma|Elyse Stachler|Kyle Bibby University of Pittsburgh
http://dx.doi.org/10.1101/096164 2017-01-12 Ecology Multidisciplinary field research in Kabwe, Zambia, towards better understanding of lead contamination of the city - A short report from a field survey Yoshitaka Uchida|Kawawa Banda|Toru Hamamoto|Yui Yoshii|Kabenuka Munthali|Mukuka Mwansa|Moses Mukuka|Mubanga Mutale|Nobuyasu Naruse|Yukihiro Takahashi Faculty of Agriculture, Hokkaido University, Japan;|School of Mines, University of Zambia, Zambia;|School of Agriculture, University of Zambia, Zambia;|Faculty of Medicine, Shiga University of Medical Science;|Space Mission Center (SMC), Creative Research Institution (CRIS), Hokkaido University
http://dx.doi.org/10.1101/099853 2017-01-12 Genomics CC BY-NC Ancient antagonism between CELF and RBFOX families tunes mRNA splicing outcomes Matthew R Gazzara|Michael J Mallory|Renat Roytenberg|John Lindberg|Anupama Jha|Kristen W Lynch|Yoseph Barash University of Pennsylvania
http://dx.doi.org/10.1101/099861 2017-01-12 Genomics Genomic rearrangements near genes leading to upregulation across a diverse subset of human cancers Chad Creighton|Yiqun Zhang|Fengju Chen Baylor College of Medicine
http://dx.doi.org/10.1101/099820 2017-01-12 Neuroscience CC BY-NC-ND Identification of Mechanisms of Functional Signaling Between Human Hippocampus Regions Ruben Sanchez-Romero|Joseph D Ramsey|Jackson C Liang|Clark Glymour Carnegie Mellon University;|University of Toronto
http://dx.doi.org/10.1101/099754 2017-01-12 Bioinformatics CC BY DeeperBind: Enhancing Prediction of Sequence Specificities of DNA Binding Proteins May D Wang|Hamid Reza Hassanzadeh GT
http://dx.doi.org/10.1101/099796 2017-01-12 Pathology CC BY-NC-ND QuPath: Open source software for digital pathology image analysis Peter Bankhead|Maurice B Loughrey|Jose A Fernandez|Yvonne Dombrowski|Darragh G McArt|Philip D Dunne|Stephen McQuaid|Ronan T Gray|Liam J Murray|Helen G Coleman|Jacqueline A James|Manuel Salto-Tellez|Peter W Hamilton Queen's University Belfast;|Belfast Health and Social Care Trust
http://dx.doi.org/10.1101/099903 2017-01-12 Systems Biology Deciphering the dynamical origin of mixed population during neural stem cell developmental lineage commitment DOLA SENGUPTA|Sandip Kar IIT BOMBAY
http://dx.doi.org/10.1101/099986 2017-01-12 Developmental Biology The scaffolding protein Cnk Interacts with Alk to Promote Visceral Founder Cell Specification in Drosophila Georg Wolfstetter|Kathrin Pfeifer|Jesper R. vanDijk|Fredrik Hugosson|Xiangyi Lu|Ruth H. Palmer University of Gothenburg;|Wayne State University School of Medicine
http://dx.doi.org/10.1101/099952 2017-01-12 Animal Behavior and Cognition CC BY-ND Caenorhabditis elegans as an emerging model for studying the basic biology of anorectic effects of nicotine Robert Sobkowiak|Piotr Kaczmarek|Mateusz Kowalski|Rafa Kabacinski|Andrzej Lesicki Adam Mickiewicz University, Poland;|Poznan University of Technology, Poland
http://dx.doi.org/10.1101/099929 2017-01-12 Cancer Biology CC BY-NC-ND Gene expression profiling reveals U1 snRNA regulates cancer gene expression Zhi Cheng|Yu Sun|Xiaoran Niu|YingChun Shang|Zhenfeng Wu|Jinsong Shi|Shan Gao|Tao Zhang Nankai University;|Nanjing University School of Medicine
http://dx.doi.org/10.1101/099648 2017-01-12 Biophysics CC BY-NC-ND Temporal super-resolution in single-molecule experiments Colin D Kinz-Thompson|Ruben L Gonzalez Dept. of Chemistry, Columbia University
http://dx.doi.org/10.1101/099838 2017-01-12 Bioengineering Dissecting limiting factors of the Protein synthesis Using Recombinant Elements (PURE) system Jun Li|Chi Zhang|Poyi Huang|Erkin Kuru|Eliot T. C. Forster Benson|Taibo Li|George M Church Harvard Medical School;|Ravenwood High School;|Massachusetts of Institute of Technology
http://dx.doi.org/10.1101/100081 2017-01-13 CC BY-NC An index of the quality of evidence in meta-analysis of randomized controlled trials Devon D. Brewer Interdisciplinary Scientific Research
http://dx.doi.org/10.1101/100107 2017-01-13 CC BY-NC-ND Estrogen and Soy Isoflavonoids Decrease Sensitivity of Medulloblastoma and Central Nervous System Primitive Neuroectodermal Tumor Cells to Chemotherapeutic Cytotoxicity Scott M Belcher|Caleb C Burton|Clifford J. Cookman|Michelle Kirby|Gabriel L. L. Miranda|Fatima Saeed|Kathleen E. Wray North Carolina State University & University of Cincinnati;|University of Cincinnati, Department of Pharmacology and Cell Biophysics, SURF Program;|University of Cincinnati, Molecular, Cellular and Biochemical Pharmacology PhD Graduate Program;|University of Cincinnati, Department of Pharmacology and Cell Biophysics;|University of Cincinnati, Safety Pharmacology Training Program
http://dx.doi.org/10.1101/100057 2017-01-13 Leveraging biological insight and environmental variation to improve phenotypic prediction: Integrating crop growth models (CGM) with whole genome prediction (WGP) Charlie D Messina|Frank Technow|Tom Tang|Radu Livio Totir|Carla Gho|Mark Cooper DuPont Pioneer
http://dx.doi.org/10.1101/099978 2017-01-13 CC BY-NC-ND Interactions between ecological, evolutionary, and environmental processes unveil complex dynamics of island biodiversity Juliano Sarmento Cabral|Kerstin Wiegand|Holger Kreft University of Wuerzburg;|University of Goettingen
http://dx.doi.org/10.1101/100024 2017-01-13 CC BY Specific T cell factors exist Geoffrey William Hoffmann|Reginald Gorczynski University British Columbia;|University of Toronto
http://dx.doi.org/10.1101/100099 2017-01-13 CC BY-NC-ND Mechanical interactions in bacterial colonies and the surfing probability of beneficial mutations Fred F Farrell|Matti Gralka|Oskar Hallatschek|Bartlomiej Waclaw University of Warwick;|University of California, Berkeley;|The University of Edinburgh
http://dx.doi.org/10.1101/100149 2017-01-13 CC BY-ND It′s okay to be green: Draft genome of the North American Bullfrog (Rana [Lithobates] catesbeiana) S Austin Hammond|Rene L Warren|Benjamin P Vandervalk|Erdi Kucuk|Hamza Khan|Ewan A Gibb|Pawan Pandoh|Heather Kirk|Yongjun Zhao|Martin Jones|Andrew J Mungall|Robin Coope|Stephen Pleasance|Richard A Moore|Robert A Holt|Jessica M Round|Sara Ohora|Nik Veldhoen|Caren C Helbing|Inanc Birol Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency;|Department of Biochemistry and Microbiology, University of Victoria
http://dx.doi.org/10.1101/100354 2017-01-13 CC BY-ND FEMALE CHEMICAL WARFARE DRIVES FITNESS EFFECTS OF GROUP SEX RATIO Imroze Khan|Arun Prakash|Swastika Issar|Mihir Umarani|Rohit Sasidharan|Jagadeesh N M|Prakash Lama|Radhika Venkatesan|Deepa Agashe National Centre for Biological Sciences;|Stony Brook University;|Dongguk University
http://dx.doi.org/10.1101/100222 2017-01-13 CC BY-NC-ND Non-annual seasonality of influenza-like illness in a tropical urban setting Ha Minh Lam|Amy Wesolowski|Ngyuyen Thanh Hung|Tran Dang Nguyen|Nguyen Thi Duy Nhat|Stacy Todd|Dao Nguyen Vinh|Nguyen Ha Thao Vy|Tran Thi Nhu Thao|Nguyen Thi Le Thanh|Phan Tri Tin|Ngo Ngoc Quang Minh|Juliet E Bryant|Caroline O Buckee|Tran Van Ngoc|Nguyen Van Vinh Chau|Guy E Thwaites|Jeremy Farrar|Dong Thi Hoai Tam|Ha Vinh|Maciej F Boni Oxford University Clinical Research Unit;|Harvard T H Chan School of Public Health;|Liverpool School of Tropical Medicine;|Viet My Clinics;|Hospital for Tropical Diseases, Ho Chi Minh City, Vietnam;|The Wellcome Trust;|Center for Infectious Disease Dynamics, Department of Biology, Pennsylvania State University
http://dx.doi.org/10.1101/100123 2017-01-13 CC BY-NC The expected neutral frequency spectrum of linked sites Luca Ferretti|Alex Klassmann|Emanuele Raineri|Thomas Wiehe|Sebastian E. Ramos-Onsins|Guillaume Achaz The Pirbright Institute;|Universitaet zu Koeln;|CNAG-CRG;|Center for Research in AgroGenomics (CRAG);|Universite Pierre et Marie Curie
http://dx.doi.org/10.1101/100297 2017-01-13 Estimating genetic kin relationships in prehistoric populations Jose Manuel Monroy Kuhn|Mattias Jakobsson|Torsten Gunther Uppsala University;|Uppsala Universitet
http://dx.doi.org/10.1101/100255 2017-01-13 Activation of NF-κB by a novel, CDK4-regulated, nucleolar stress response pathway Jingyu Chen|Ian Lobb|Pierre Morin|Sonia Novo|James Simpson|Kathrin Kennerknecht|Fiona Oakley|Lesley Stark University of Edinburgh;|University of Newcastle
http://dx.doi.org/10.1101/100131 2017-01-13 CC BY-ND A high-density linkage map reveals sexually-dimorphic recombination landscapes in red deer (Cervus elaphus) Susan E Johnston|Jisca Huisman|Philip A Ellis|Josephine M Pemberton University of Edinburgh
http://dx.doi.org/10.1101/100230 2017-01-13 Histone 4 acetylation regulates behavioral individuality in zebrafish Angel Carlos Roman|Julian Vicente-Page|Alfonso Perez-Escudero|Jose Maria Carvajal-Gonzalez|Pedro Maria Fernandez-Salguero|Gonzalo Garcia de Polavieja Champalimaud Research;|Massachusetts Institute of Technology;|University of Extremadura
http://dx.doi.org/10.1101/100248 2017-01-13 Repression of YdaS Toxin is Mediated by Transcriptional Repressor RacR in the cryptic rac prophage of Escherichia coli K12 Revathy Krishnamurthi|Swagatha Ghosh|Supriya Khedkar|Aswin Sai Narain Seshasayee NCBS;|www.ncbs.res.in
http://dx.doi.org/10.1101/100305 2017-01-13 CC BY-NC-ND A Network Integration Approach for Drug-Target Interaction Prediction and Computational Drug Repositioning from Heterogeneous Information Yunan Luo|Xinbin Zhao|Jingtian Zhou|Jinling Yang|Yanqing Zhang|Wenhua Kuang|Jian Peng|Ligong Chen|Jianyang Zeng University of Illinois at Urbana-Champaign;|Tsinghua University
http://dx.doi.org/10.1101/100313 2017-01-13 CC BY-NC-ND Computations underlying peoples risk-preferences in social interactions Erdem Pulcu|Masahiko Haruno Center for Information and Neural Networks
http://dx.doi.org/10.1101/100214 2017-01-13 CC BY-NC An Improved Crystal Violet Assay for Biofilm Quantification in 96-Well Microtitre Plate Sudhir K Shukla|Toleti Subba Rao Bhabha Atomic Research Centre, Kalpakkam
http://dx.doi.org/10.1101/100289 2017-01-13 CC BY-NC-ND Effects of time and isolation on plant diversity: testing island biogeography theory with an eco-evolutionary model Juliano Sarmento Cabral|Robert J. Whittaker|Kerstin Wiegand|Holger Kreft University of Wuerzburg;|University of Oxford;|University of Goettingen
http://dx.doi.org/10.1101/100263 2017-01-13 Systems Biology Large-scale rewiring in a yeast hybrid Rebecca Herbst|Dana Bar-Zvi|Sharon Reikhav|Ilya Soifer|Michal Breker|Ghil Jona|Eyal Shimoni|Maya Schuldiner|Avraham Levy|Naama Barkai Weizmann Institute of Science
http://dx.doi.org/10.1101/100065 2017-01-13 Neuroscience CC BY-ND The impact of visual gaze direction on auditory object tracking Ulrich Pomper|Maria Chait UCL Ear Institute
http://dx.doi.org/10.1101/100271 2017-01-13 Neuroscience Molecular pathway underlying bouton stabilization by Semaphorin4D during inhibitory synapse formation Catia P. Frias|Tom Bresser|Lisa Scheefhals|Paul M.P. van Bergen en Henegouwen|Casper C. Hoogenraad|Corette J. Wierenga Utrecht University
http://dx.doi.org/10.1101/100073 2017-01-12 Molecular Biology CC BY-NC-ND Distributed Biotin-Streptavidin Transcription Roadblocks for Mapping Cotranscriptional RNA Folding Eric J Strobel|Kyle E Watters|Julius Lucks Northwestern Universty;|University at California, Berkeley;|Northwestern University
http://dx.doi.org/10.1101/100115 2017-01-12 Systems Biology CC BY Limits of noise for autoregulated gene expression Peter Czuppon|Peter Pfaffelhuber University of Freiburg
http://dx.doi.org/10.1101/100875 2017-01-16 CC BY-NC Excessive ERK-dependent synaptic clustering with enhanced motor learning in the MECP2 duplication syndrome mouse model of autism Ryan Thomas Ash|Shelly Alexandra Buffington|Jiyoung Park|Mauro Costa-Mattioli|Huda Yaya Zoghbi|Stelios Manolis Smirnakis Baylor College of Medicine;|Brigham and Women's Hospital, Harvard Medical School
http://dx.doi.org/10.1101/100453 2017-01-16 Heritability of the Symbiodinium community in vertically- and horizontally-transmitting broadcast spawning corals Kate Quigley|Bette Willis|Line Bay James Cook University;|Australian Institute of Marine Sciences
http://dx.doi.org/10.1101/099580 2017-01-16 Histological and haematological analysis of the ascidian Botrylloides leachii (Savigny, 1816) during whole-body regeneration Simon Blanchoud|Lisa Zondag|Miles K Lamare|Megan J Wilson University of Otago
http://dx.doi.org/10.1101/100347 2017-01-16 CC BY-NC-ND Effects of altered excitation-inhibition balance on decision making in a cortical circuit model Norman H Lam|Thiago Borduqui|Jaime Hallak|Antonio C Roque|Alan Anticevic|John H Krystal|Xiao-Jing Wang|John D Murray Yale University;|University of Sao Paulo;|New York University
http://dx.doi.org/10.1101/100743 2017-01-16 CC BY-NC-ND Maintenance of Polymorphism in Spatially Heterogeneous Environments: An Experimental Test of Hard and Soft Selection Romain Gallet|Remy Froissart|Virginie Ravigne INRA - UMR BGPI;|CNRS - UMR MIVEGEC;|CIRAD
http://dx.doi.org/10.1101/100792 2017-01-16 CC BY-NC-ND Cone-like rhodopsin expressed in the all cone retina of the colubrid pine snake as a potential adaptation to diurnality Belinda Chang|Nihar Bhattacharyya|Benedict Darren|Ryan K. Schott|Vincent Tropepe University of Toronto
http://dx.doi.org/10.1101/100701 2017-01-16 Applying meta-analysis to Genotype-Tissue Expression data from multiple tissues to identify eQTLs and increase the number of eGenes Dat Duong UCLA
http://dx.doi.org/10.1101/094359 2017-01-16 Neuroscience CC BY Rapid cerebrovascular reactivity mapping: Enabling vascular reactivity information to be routinely acquired Nicholas P Blockley|James W Harkin|Daniel P Bulte University of Oxford
http://dx.doi.org/10.1101/100800 2017-01-16 Animal Behavior and Cognition CC BY-NC-ND Associative Learning from Replayed Experience Elliot A. Ludvig|Mahdieh S. Mirian|E. James Kehoe|Richard S. Sutton University of Warwick;|University of Alberta;|University of New South Wales
http://dx.doi.org/10.1101/100735 2017-01-16 CC BY-NC-ND The RAG transposon is active through the deuterostome evolution and domesticated in jawed vertebrates. Jose Ricardo Poole|Sheng Feng Huang|An Long Xu|Pontarotti Pierre CNRS/AMU;|Sun Yat-sen University
http://dx.doi.org/10.1101/090589 2017-01-16 Cancer Biology CC BY-ND Mining human prostate cancer datasets: The "camcAPP" shiny app Mark J Dunning|Sarah L Vowler|Emilie Lalonde|Helen Ross-Adams|Ian G Mills|Andy G Lynch|Alastair D Lamb Cancer Research Uk Cambridge Institute;|Astrazeneca;|Department of Medical Biophysics, University of Toronto, Canada;|Centre for Molecular Oncology, Barts Cancer Institute, Queen Mary University, London;|Centre for Cancer Research and Cell Biology (CCRB), Queen's University of Belfast;|Cancer Research Uk, Cambridge Institute
http://dx.doi.org/10.1101/100487 2017-01-16 Neuroscience CC BY-NC A Change-point Analysis Method for Single-trial Study of Simultaneous EEG-fMRI of Auditory/Visual Oddball Task Aslan S Dizaji|Hamid Soltanian-Zadeh School of Cognitive Sciences, Institute for Research in Fundamental Sciences (IPM), Tehran, Iran
http://dx.doi.org/10.1101/100628 2017-01-15 Microbiology CC BY-NC-ND Transcriptional repression by ApiAP2 factors is central to chronic toxoplasmosis Joshua B Radke|Danielle Worth|Dong-Pyo Hong|Sherri Huang|William J Sullivan|Emma H Wilson|Michael White University of South Florida;|University of California Riverside;|Indiana University School of Medicine
http://dx.doi.org/10.1101/100602 2017-01-15 Bioengineering CC BY-ND Experimental evolution reveals a novel avenue to release catabolite repression via mutations in XylR Christian Sievert|Lizbeth M Nieves|Larry A Panyon|Taylor Loeffler|Chandler Morris|Reed A Cartwright|Xuan Wang Arizona State University
http://dx.doi.org/10.1101/100651 2017-01-15 Systems Biology The design principles of biochemical timers: circuits that discriminate between transient and sustained stimulation Jaline Gerardin|Wendell A Lim UCSF;|UCSF, HHMI
http://dx.doi.org/10.1101/100636 2017-01-15 Bioengineering Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2 Pavel Dvorak|David Bednar|Pavel Vanacek|Lukas Balek|Livia Eiselleova|Veronika Stepankova|Eva Sebestova|Michaela Kunova Bosakova|Zaneta Konecna|Stanislav Mazurenko|Antonin Kunka|Daniel Horak|Radka Chaloupkova|Jan Brezovky|Pavel Krejci|Zbynek Prokop|Petr Dvorak|Jiri Damborsky Masaryk University;|Institute of Macromolecular Chemistry, Academy of Sciences of the Czech Republic
http://dx.doi.org/10.1101/100420 2017-01-15 Neuroscience CC BY-ND A lineage-related reciprocal inhibition circuitry for sensory-motor action selection Benjamin Kottler|Vincenzo G. Fiore|Zoe N Ludlow|Edgar Buhl|Gerald Vinatier|Richard Faville|Danielle C Diaper|Alan Stepto|Jonah Dearlove|Yoshitsugu Adachi|Sheena Brown|Chenghao Chen|Daniel A Solomon|Katherine E White|Dickon M Humphrey|Sean M Buchanan|Stephan J Sigrist|Keita Endo|Kei Ito|Benjamin de Bivort|Ralf Stanewsky|Raymond J Dolan|Jean-Rene Martin|James JL Hodge|Nicholas J Strausfeld|Frank Hirth King's College London;|University College London;|University of Bristol;|CNRS/Universite Paris-Sud;|University of Arizona;|Harvard University;|Free University Berlin;|University of Tokyo
http://dx.doi.org/10.1101/100578 2017-01-15 Genomics CC BY Transposons modulate transcriptomic and phenotypic variation via the formation of circular RNAs in maize Lu Chen|Pei Zhang|Yuan Fan|Juan Huang|Qiong Lu|Qing Li|Jianbing Yan|Gary J. Muehlbauer|Patrick S. Schnable|Mingqiu Dai|Lin Li National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University;|University of Minnesota;|Department of Agronomy, Iowa State University
http://dx.doi.org/10.1101/100685 2017-01-15 Synthetic Biology CC BY A systematic comparison of error correction enzymes by next-generation sequencing Nathan B Lubock|Di Zhang|George M Church|Sriram Kosuri UCLA;|University of Pennsylvania;|Harvard Medical School
http://dx.doi.org/10.1101/100610 2017-01-15 Epidemiology CC BY-NC-ND Long-term sustained malaria control leads to inbreeding and fragmentation of Plasmodium vivax populations Andreea Waltmann|Cristian Koepfli|Natacha Tessier|Stephan Karl|Andrew Darcy|Lyndes Wini|G.L. Abby Harrison|Celine Barnadas|Charlie Jennison|Harin Karunajeewa|Sarah Boyd|Maxine Whittaker|James Kazura|Melanie Bahlo|Ivo Mueller|Alyssa E Barry Walter and Eliza Hall Institute for Medical Research;|The National Health Training and Research Institute, Ministry of Health, Solomon Islands;|National Vector Borne Disease Control Program, Ministry of Health, Solomon Islands;|Walter & Eliza Hall Institute of Medical Research;|The Walter & Eliza Hall Institute of Medical Research;|University of Queensland;|Case Western Reserve University;|Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/100388 2017-01-15 Cell Biology CC BY Senescence associated protein degradation Gerardo Ferbeyre Universite de Montreal
http://dx.doi.org/10.1101/100461 2017-01-15 Genomics CC BY-NC-ND Tunable Genotyping-By-Sequencing (tGBS®) Enables Reliable Genotyping of Heterozygous Loci Alina Ott|Sanzhen Liu|James C. Schnable|Cheng-Ting Yeh|Cassy Wang|Patrick S Schnable Iowa State University;|Kansas State University;|University of Nebraska-Lincoln;|Data2Bio
http://dx.doi.org/10.1101/100446 2017-01-15 Molecular Biology CC BY-NC-ND Telomere elongation and Telomerase activity in Normal and Cancer cell lines: HEK-293, HeLa and A549 Ankur Patel|Grishma Joshi|Yunke Fu|Sherwin Shaju|Angelo Messina Long Island University,C.W.Post Campus;|Long Island University , .C.W.Post College;|Long Island University,C.W.Post College;|Long Island University,C.W.Post college
http://dx.doi.org/10.1101/099911 2017-01-15 Bioinformatics The 3D genome organization of Drosophila melanogaster through data integration Qingjiao Li|Harianto Tjong|Xiao Li|Ke Gong|Xianghong Jasmine Zhou|Irene Chiolo|Frank Alber Molecular and Computational Biology, Dept of Biological Sciences, University of Southern California
http://dx.doi.org/10.1101/100198 2017-01-15 Molecular Biology CC BY-NC-ND Comprehensive characterization of neutrophil genome topology Yina Zhu|Ke Gong|Matthew Denholtz|Vivek Chandra|Mark P. Kamps|Frank Alber|Cornelis Murre University of California, San Diego;|University of Southern California
http://dx.doi.org/10.1101/100545 2017-01-15 Evolutionary Biology Ancient duplication and horizontal transfer of a toxin gene cluster reveals novel mechanisms in the cercosporin biosynthesis pathway Ronnie de Jonge|Malaika K Ebert|Callie R Huitt-Roehl|Paramita Pal|Jeffrey C Suttle|Jonathan D Neubauer|Wayne M Jurick|Gary A Secor|Bart PHJ Thomma|Yves Van de Peer|Craig A Townsend|Melvin D Bolton Plant-Microbe Interactions - Utrecht University. Department of Plant Systems Biology, VIB;|Laboratory of Phytopathology, Wageningen University;|Department of Chemistry, The John Hopkins University;|Northern Crop Science Laboratory, United States Department of Agriculture, Fargo;|Food Quality Laboratory, United States Department of Agriculture, Beltsville;|Department of Plant Pathology, North Dakota State University, Fargo;|Wageningen University;|Department of Plant Systems Biology, VIB, Ghent, Belgium. Department of Plant Biotechnology and Bio.;|Department of Chemistry, The Johns Hopkins University, Baltimore;|Northern Crop Science Laboratory, United States. Department of Agriculture, Fargo, ND, United States
http://dx.doi.org/10.1101/092171 2017-01-15 Genomics CC BY-NC Darwin: A Hardware-acceleration Framework for Genomic Sequence Alignment Yatish Turakhia|Kevin Jie Zheng|Gill Bejerano|William J. Dally Stanford University
http://dx.doi.org/10.1101/100479 2017-01-15 Neuroscience CC BY-NC Altered topology of neural circuits in congenital prosopagnosia Gideon Rosenthal|Michal Tanzer|Erez Simony|Uri Hasson|Marlene Behrmann|Galia Avidan Ben-Gurion University of the Negev;|Princeton University;|Carnegie Mellon University
http://dx.doi.org/10.1101/100511 2017-01-15 Bioinformatics CC BY Characterizing regulatory sequence features that discriminate between overlapping annotation labels Akshay Kakumanu|Silvia Velasco|Esteban O Mazzoni|Shaun Mahony Pennsylvania State University;|New York University
http://dx.doi.org/10.1101/100537 2017-01-15 Neuroscience Spatially periodic activation patterns of retrosplenial cortex encode route sub-spaces and distance travelled Andrew S Alexander|Douglas A Nitz UCSD Cognitive Science
http://dx.doi.org/10.1101/100495 2017-01-15 Systems Biology CC BY-NC-ND Single-cell histories in growing populations: relating physiological variability to population growth Philipp Thomas Imperial College London
http://dx.doi.org/10.1101/101048 2017-01-17 CC BY-NC-ND Stem cell differentiation is a stochastic process with memory Patrick S. Stumpf|Rosanna C. G. Smith|Michael Lenz|Andreas Schuppert|Franz-Josef Muller|Ann Babtie|Thalia E. Chan|Michael P. H. Stumpf|Colin P. Please|Sam D. Howison|Fumio Arai|Ben D. MacArthur University of Southampton;|RWTH Aachen University;|Universitätsklinikum Schleswig-Holstein;|Imperial College London;|University of Oxford;|Kyushu University
http://dx.doi.org/10.1101/101097 2017-01-17 CC BY Demonstration of short-term plasticity in the dorsolateral prefrontal cortex with theta burst stimulation: A TMS-EEG study Sung Wook Chung|Benjamin Lewis|Nigel Rogasch|Takashi Saeki|Richard Thomson|Kate Hoy|Neil Bailey|Paul Fitzgerald Monash Alfred Psychiatry Research Centre, Monash University;|Monash Alfred Psychiatry Research Centre;|Brain and Mental Health Laboratory, Monash University
http://dx.doi.org/10.1101/101055 2017-01-17 CC BY-NC Evolutionary capacitance emerges spontaneously during adaptation to environmental changes Paul G Nelson|Joanna G Masel University of Arizona, United States
http://dx.doi.org/10.1101/100552 2017-01-17 CC BY-NC-ND Early transcriptome response to brown streak virus infection in susceptible and resistant cassava varieties Ravi B Anjanappa|Devang Mehta|Michal J Okoniewski|Alicja Szabelska|Wilhelm Gruissem|Herve Vanderschuren ETH Zurich;|Poznan University of Life Sciences;|University of Liege
http://dx.doi.org/10.1101/100693 2017-01-17 CC BY-NC-ND On the relationship between psychopathy and general intelligence: A meta-analytic review Olga Sanchez de Ribera|Nicholas Kavish|Brian Boutwell Cambridge;|Sam Houston State University;|Saint Louis University
http://dx.doi.org/10.1101/100990 2017-01-17 Genomics CC BY-NC-ND Phylogenomic Synteny Network Analysis Reveals an Ancient MADS-Box Transcription Factor Tandem Duplication and Lineage-Specific Transpositions Tao Zhao|Rens Holmer|Suzanne de Bruijn|Harrold A. van den Burg|Michael Eric Schranz Wageningen University;|University of Amsterdam
http://dx.doi.org/10.1101/100917 2017-01-17 Microbiology CC BY-NC-ND Biochemical, serological and molecular confirmation of Salmonella isolates Prasanna Kumar V.|S.P. Singh|A.K. Upadhyay|Deepak Kumar G.B.Pant University of Agriculture and Technology
http://dx.doi.org/10.1101/101014 2017-01-17 Genetics CC BY Reporting correct p-values in VEGAS analyses Julian Hecker|Dmitry Prokopenko|Heide Fier|Christoph Lange HSPH;|Harvard School of Public Health
http://dx.doi.org/10.1101/100966 2017-01-17 Genomics Signs of host genetic regulation in the microbiome composition in cattle Oscar Gonzalez-Recio|I Zubiria|Aser Garcia-Rodriguez|Ana Hurtado|Raquel Atxaerandio Dpt. Mejora Genetica Animal. Instituto Nacional de Investigacion y Tecnologia Agraria y Alimentaria;|Departamento de Produccion Animal. NEIKER-Tecnalia;|Departamento de Sanidad Animal. NEIKER-Tecnalia
http://dx.doi.org/10.1101/101022 2017-01-17 Biophysics CC BY-NC-ND Structural-mechanical remodelling of GDP-microtubules by kinesin Daniel R. Peet|NIgel J Burroughs|Robert A. Cross Warwick University
http://dx.doi.org/10.1101/100859 2017-01-17 Genetics Transcriptome analysis of genetically matched human induced pluripotent stem cells disomic or trisomic for chromosome 21. Patrick K. Gonzales|Virginia Fonte|Christine M. Roberts|Connor Jacobsen|Gretchen H Stein|Christopher D. Link Linda Crnic Institute for Down Syndrome, University of Colorado, Boulder;|Linda Crnic Institute, University of Colorado, Boulder;|University of Colorado, Boulder;|Linda Crnic Insitute, University of Colorado, Boulder;|Linda Crnic Insitute, Unicversity of Colorado, Boulder
http://dx.doi.org/10.1101/101006 2017-01-17 Biochemistry CC BY-NC-ND Internal modifications in the CENP-A nucleosome modulate centromeric dynamics Minh Bui|Mary Pitman|Arthur Nuccio|Serene Roque|Paul Gregory Donlin-Asp|Aleksandra Nita-Lazar|Garegin A. Papoian|Yamini Dalal National Insitutes of Health;|National Institutes of Health;|Emory University;|University of Maryland;|NIH
http://dx.doi.org/10.1101/100776 2017-01-17 Neuroscience CC BY Pebbles as Dry Ice Replacement for Snap Freezing of Rodents Brains Rene Bernard|Larissa Mosch|Ulrich Dirnagl Charite Universitaetsmedizin
http://dx.doi.org/10.1101/100974 2017-01-17 Genomics MCF-7 breast cancer cell line PacBio generated transcriptome has ~300 novel transcribed regions, un-annotated in both RefSeq and GENCODE, and absent in the liver, heart and brain transcriptomes Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/100933 2017-01-17 Biochemistry Emergence of localized patterns in globally coupled networks of relaxation oscillators with heterogeneous connectivity Randolph J. Leiser|Horacio G. Rotstein New Jersey Institute of Technology
http://dx.doi.org/10.1101/100941 2017-01-17 Microbiology CC BY New kids on the block: Intercontinental dissemination and transmission of newly emerging lineages of multi-drug resistant Escherichia coli with highly dynamic resistance gene acquisition. Zhiyong Zong|Feng Yu|Alan McNally West China Hospital;|University of Birmingham
http://dx.doi.org/10.1101/100750 2017-01-17 Genomics CC BY ARCS: Assembly Roundup by Chromium Scaffolding Sarah Yeo|Lauren Coombe|Justin Chu|Rene L Warren|Inanc Birol BC Cancer Agency, Genome Sciences Centre
http://dx.doi.org/10.1101/100958 2017-01-17 Genomics CC BY Chromosome contacts in activated T cells identify autoimmune disease-candidate genes Oliver S Burren|Arcadio Rubio Garcia|Biola-Maria Javierre|Daniel B Rainbow|Jonathan Cairns|Nicholas J Cooper|John J Lambourne|Ellen Schofield|Xaquin Castro Dopico|Ricardo C Ferreira|Richard Coulson|Frances Burden|Sophia P Rowlston|Kate Downes|Steven W Wingett|Mattia Frontini|Willem H Ouwehand|Peter Fraser|Mikhail Spivakov|John A Todd|Linda S Wicker|Antony J Cutler|Chris Wallace University of Cambridge;|University of Oxford;|Babraham Institute
http://dx.doi.org/10.1101/100412 2017-01-17 Epidemiology CC BY-NC-ND Spatial point pattern analysis of prehospital naloxone administrations Christopher Ryan SUNY Upstate Medical University
http://dx.doi.org/10.1101/100867 2017-01-16 Genomics CC BY-NC-ND Evaluating hybridization capture with RAD probes as a tool for museum genomics with historical bird specimens Ethan B Linck|Zach Hanna|Anna Sellas|John P Dumbacher University of Washington;|University of California Berkeley;|California Academy of Sciences
http://dx.doi.org/10.1101/100891 2017-01-16 Bioinformatics CC BY Simplified Power Calculations for Aggregate-level Association Tests Provide Insights to Challenges for Rare Variant Association Studies Andriy Derkach|Haoyu Zhang|Nilanjan Chatterjee National Cancer Institute;|John Hopkins University
http://dx.doi.org/10.1101/101501 2017-01-18 CC BY A Flow Procedure for the Linearization of Genome Sequence Graphs. David Haussler|Maciej Smuga-Otto|Benedict Paten|Adam M Novak|Sergei Nikitin|Maria Zueva|Dmitrii Miagkov UCSC;|EPAM Systems, Inc.
http://dx.doi.org/10.1101/101386 2017-01-18 CC BY-NC-ND HiCRep: assessing the reproducibility of Hi-C data using a stratum-adjusted correlation coefficient Tao Yang|Feipeng Zhang|Galip Gurkan Yardimci|Ross C Hardison|William Stafford Noble|Feng Yue|Qunhua Li Pennsylvania State University;|University of Washington
http://dx.doi.org/10.1101/101360 2017-01-18 Experience-induced forgetting by WT1 enables learning of sequential tasks. Chiara Mariottini|Leonardo Munari|Ellen Gunzel|Joseph Seco|Nikos Tzavaras|Jens Hansen|Sarah Stern|Virginia Gao|Georgia Hodes|Scott Russo|Vicki Huff|Marc Birtwistle|Cristina Alberini|Robert Blitzer|Ravi Iyengar Icahn School of Medicine at Mount Sinai;|Icahn School of Medicine at Mt Sinai;|New York University;|Virginia Tech;|MD Anderson
http://dx.doi.org/10.1101/101303 2017-01-18 CC BY-NC-ND Behavioral responses of household ants (Hymenoptera) to odor of different coffee species and formulations: Sustainability approach for green pest management strategies Abdul Hafiz Ab Majid|Siti Salbiah Ellias|Hamady Dieng|Tomomitsu Satho Household & Structural Urban Entomology Laboratory,Universiti Sains Malaysia;|Institute of Biodiversity and Environmental Conservation, Universiti Malaysia Sarawak;|Department of Microbiology, Fukuoka University
http://dx.doi.org/10.1101/101402 2017-01-18 Predicted sensory consequences of voluntary actions modulate amplitude and temporal dynamics of preceding readiness potentials Daniel Reznik|Shiri Simon|Roy Mukamel Tel-Aviv University
http://dx.doi.org/10.1101/101410 2017-01-18 CC BY Modern human origins: multiregional evolution of autosomes and East Asia origin of Y and mtDNA Dejian Yuan|Xiaoyun Lei|Yuanyuan Gui|Zuobin Zhu|Dapeng Wang|Jun Yu|Shi Huang Central South University;|Xuzhou Medical University;|Beijing Institute of Genomics
http://dx.doi.org/10.1101/101188 2017-01-18 Non-viral induction of transient cell reprogramming in skeletal muscle to enhance tissue regeneration Irene de Lazaro|Acelya Yilmazer|Yein Nam|Sarah Qubisi|Fazilah Maizatul Abdul Razak|Giulio Cossu|Kostas Kostarelos University of Manchester;|University College London
http://dx.doi.org/10.1101/101436 2017-01-18 The most efficient microbial community dominates during community coalescence Pawel Sierocinski|Kim Milferstedt|Florian Bayer|Tobias Grokopf|Mark Alston|Sarah Bastkowski|David Swarbreck|Phil J Hobbs|Orkun S Soyer|Jerome Hamelin|Angus Buckling University of Exeter;|LBE INRA Narbonne;|University of Warwick;|Earlham Institute;|Anaerobic Analytics Ltd.
http://dx.doi.org/10.1101/101139 2017-01-18 CC BY-NC-ND The stress-inducible peroxidase TSA2 enables Chromosome IV duplication to be conditionally beneficial in Saccharomyces cerevisiae Robert A. Linder|John P. Greco|Fabian Seidl|Takeshi Matsui|Ian M. Ehrenreich Department of Ecology and Evolution, United States;|Molecular and Computational Biology, United States
http://dx.doi.org/10.1101/101279 2017-01-18 CC BY Uniform Resolution of Compact Identifiers for Biomedical Data Sarala Wimalaratne|Nick Juty|John Kunze|Greg Janee|Julie A McMurry|Niall Beard|Rafael Jimenez|Jeffrey Grethe|Henning Hermjakob|Tim Clark European Molecular Biology Laboratory, European Bioinformatics Institute;|California Digital Library, University of California;|Oregon Health and Science University;|University of Manchester;|ELIXIR;|University of California, San Diego;|Massachusetts General Hospital
http://dx.doi.org/10.1101/101493 2017-01-18 CC BY Superbubbles, Ultrabubbles and Cacti Benedict Paten|Adam M Novak|Erik Garrison|Glenn Hickey UCSC;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/101394 2017-01-18 CC BY-NC-ND Structural and functional dissection of the interplay between lipid and Notch binding by human Notch ligands Richard Suckling|Boguslawa Korona|Patricia Whiteman|Chandramouli Chillakuri|Laurie Holt|Penny Handford|Susan Lea University of Oxford
http://dx.doi.org/10.1101/101295 2017-01-18 Visual memories are stored along a compressed timeline Inder Singh|Aude Oliva|Marc Howard Boston University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/101352 2017-01-18 CC BY-NC-ND Targeted gene correction of FKRP by CRISPR/Cas9 restores functional glycosylation of α-dystroglycan in cortical neurons derived from human induced pluripotent stem cells Beatrice Lana|Jihee Kim|David Ryan|Evangelos Konstantinidis|Sandra Louzada|Beiyuan Fu|Fengtang Yang|Derek L. Stemple|Pentao Liu|Francesco Muntoni|Yung-Yao Lin Blizard Institute, Queen Mary University of London;|Wellcome Trust Sanger Institute;|UCL Great Ormond Street Institute of Child Health
http://dx.doi.org/10.1101/101162 2017-01-18 CC BY-NC-ND Fragile dynamics enable diverse genomic determinants to influence arrhythmia propensity Tim J Kamerzell|Eric A Sobie|Kai-Chen Yang|Jeanne M Nerbonne|Calum A MacRae|Ravi Iyengar Washington University in St Louis;|Icahn School of Medicine at Mount Sinai;|National Taiwan University;|Harvard Medical School
http://dx.doi.org/10.1101/101378 2017-01-18 Genome Graphs Adam M Novak|Glenn Hickey|Erik Garrison|Sean Blum|Abram Connelly|Alexander Dilthey|Jordan Eizenga|M. A. Saleh Elmohamed|Sally Guthrie|Andre Kahles|Stephen Keenan|Jerome Kelleher|Deniz Kural|Heng Li|Michael F Lin|Karen Miga|Nancy Ouyang|Goran Rakocevic|Maciek Smuga-Otto|Alexander Wait Zaranek|Richard Durbin|Gil McVean|David Haussler|Benedict Paten UC Santa Cruz Genomics Institute;|Wellcome Trust Sanger Institute;|Curoverse, Inc.;|Cornell University;|MSKCC;|European Bioinformatics Institute;|Seven Bridges Genomics;|Broad Institute;|DNAnexus, Inc.;|Li Ka Shing Center fro Health Information and Discovery, University of Oxford
http://dx.doi.org/10.1101/101113 2017-01-18 CC BY-NC-ND Brain reorganization in anticipation of predictable words Jeremy I Skipper|Jason D Zevin University College London;|University of Southern California
http://dx.doi.org/10.1101/101469 2017-01-18 CC BY-NC-ND Quality Assessment of High-throughput DNA Sequencing Data via Range analysis M. Oguzhan Kulekci|Ali Fotouhi|Mina Majidi Istanbul Technical University;|University of Tehran
http://dx.doi.org/10.1101/101428 2017-01-18 CC BY-NC-ND Integrated time-lapse and single-cell transcription studies highlight the variable and dynamic nature of human hematopoietic cell fate commitment. Alice Moussy|Jeremie Cosette|Romuald Parmentier|Cindy da Silva|Guillaume Corre|Angelique Richard|Olivier Gandrillon|Daniel Stockholm|Andras Paldi Ecole Pratique des Hautes Etudes;|Genethon;|ENS Lyon
http://dx.doi.org/10.1101/100669 2017-01-18 CC BY-NC-ND Non-parametric test for connectivity detection in multivariate autoregressive networks and application to multiunit activity data Matthieu Gilson|Adria Tauste Campo|Alexander Thiele|Gustavo Deco Universitat Pompeu Fabra;|Newcastle University
http://dx.doi.org/10.1101/101170 2017-01-18 Muscle transcriptome analysis reveals molecular pathways and biomarkers involved in extreme ultimate pH and meat defect occurrence in chicken Stephane Beauclercq|Christelle Hennequet-Antier|Christophe Praud|Estelle Godet|Anne Collin|Sophie Tesseraud|Sonia Metayer-Coustard|Marie Bourin|Marco Moroldo|Frederic Martins|Sandrine Lagarrigue|Elisabeth Le Bihan-Duval|Cecile Berri URA, INRA;|ITAVI;|GABI, INRA;|UMR 1048, INSERM;|PEGASE, INRA
http://dx.doi.org/10.1101/101444 2017-01-18 CC BY Tracking multiple genomic elements using correlative CRISPR imaging and sequential DNA FISH Juan Guan|Harrison Liu|Xiaoyu Shi|Siyu Feng|Bo Huang UCSF
http://dx.doi.org/10.1101/101451 2017-01-18 CC BY Warburg-like metabolism coordinates FGF and Wnt signaling in the vertebrate embryo Masayuki Oginuma|Philippe Moncuquet|Fengzhu Xiong|Edward Karoly|Jerome Chal|Karine Guevorkian|Olivier Pourquie Harvard Medical School/Brigham and Women's Hospital;|IGBMC;|Metabolon;|IGBMC; and Harvard Medical School/Brigham and Women's Hospital;|Harvard Medical School
http://dx.doi.org/10.1101/101238 2017-01-18 CC BY-NC-ND Research on Mitochondrial DNA Mutations in Patients with SCA3/MJD Junling Wang|Zhen Liu|Jie Zhou|Xiaomeng Yin|Shuying Shi|Weining Sun|Hong Jiang|Lu Shen|Beisha Tang Department of Neurology, Xiangya Hospital, Central South University, China
http://dx.doi.org/10.1101/101253 2017-01-18 CC BY Systematic analysis of the effects of the DNA damage response network in telomere defective budding yeast Eva-Maria Holstein|Greg H Ngo|Conor Lawless|Andrew P Banks|Matthew Greetham|Darren J Wilkinson|David Lydall Newcastle University, United Kingdom;|Cardiff University, United Kingdom;|University of Cambridge, United Kingdom
http://dx.doi.org/10.1101/101154 2017-01-18 CC BY Evolution of Reduced Co-Activator Dependence Led to Target Expansion of a Starvation Response Pathway Bin Z He|Xu Zhou|Erin O'Shea Harvard University, HHMI;|Yale School of Medicine
http://dx.doi.org/10.1101/101246 2017-01-18 CC BY Automated Detection of Records in Biological Sequence Databases that are Inconsistent with the Literature Mohamed Reda Bouadjenek|Karin Verspoor|Justin Zobel University of Melbourne
http://dx.doi.org/10.1101/101204 2017-01-18 New insight into plant intramembrane proteases Malgorzata Adamiec|Lucyna Honorata Misztal|Robert Lucinski Adam Mickiewicz University, Faculty of Biology, Department of Plant Physiology
http://dx.doi.org/10.1101/101477 2017-01-18 CC BY-NC-ND Multiplexed dynamic imaging of genomic loci in single cells by combined CRISPR imaging and DNA sequential FISH Yodai Takei|Sheel Shah|Sho Harvey|Lei S Qi|Long Cai California Institute of Technology;|Stanford University
http://dx.doi.org/10.1101/101196 2017-01-18 Novel Abundant Oceanic Viruses of Uncultured Marine Group II Euryarchaeota Identified by Genome-Centric Metagenomics Alon Philosof|Natalya Yutin|Jose Flores-Uribe|Itai Sharon|Eugene V Koonin|Oded Beja Technion - Israel Institute of Technology;|NCBI, NLM,NIH;|Migal Galilee Research Institute, Kiryat Shmona, 11016, Israel. Tel Hai College, Upper Galilee 1221;|Faculty of Biology, Technion - Israel Institute of Technology, Haifa, Israel
http://dx.doi.org/10.1101/101220 2017-01-18 CC BY-NC Promoter-Enhancer Interactions Identified from Hi-C Data using Probabilistic Models and Hierarchical Topological Domains Gil Ron|Dror Moran|Tommy Kaplan School of Computer Science and Engineering, The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/100370 2017-01-18 The multiplex network of human diseases Arda Halu|Manlio De Domenico|Alex Arenas|Amitabh Sharma Brigham and Women's Hospital / Harvard Medical School;|Universitat Rovira i Virgili
http://dx.doi.org/10.1101/101147 2017-01-18 CC BY Efficient and flexible strategies for gene cloning and vector construction using overlap PCR Zhongtian Liu|Tingting Zhang|Kun Xu Northwest A&F University, China;|Shanxi University, China
http://dx.doi.org/10.1101/101345 2017-01-18 CC BY-NC-ND Towards a new kind of vaccine Geoffrey W Hoffmann|Reginald M Gorczynski University British Columbia;|University of Toronto
http://dx.doi.org/10.1101/101311 2017-01-18 Developmental Biology CC BY-NC Functional regulatory evolution outside of the minimal even-skipped stripe 2 enhancer Justin Crocker|David L. Stern Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/101535 2017-01-19 Epidemiology CC BY-NC-ND The shape of the contact-density function matters when modelling disease transmission in fluctuating populations Benny Borremans|Jonas Reijniers|Niel Hens|Herwig Leirs University of California Los Angeles;|University of Antwerp;|University of Hasselt
http://dx.doi.org/10.1101/101287 2017-01-19 Epidemiology CC BY-NC-ND DNA methylation differences at regulatory elements are associated with the cancer risk factor age in normal breast tissue Kevin C Johnson|E. Andres Houseman|Jessica E King|Brock C Christensen The Jackson Laboratory for Genomic Medicine;|Oregon State University;|Geisel School of Medicine at Dartmouth
http://dx.doi.org/10.1101/101543 2017-01-19 Genetics CC BY-ND An efficient Bayesian meta-analysis approach for studying cross-phenotype genetic associations Arunabha Majumdar|Tanushree Haldar|Sourabh Bhattacharya|John Witte University of California San Francisco;|Indian Statistical Institute, Kolkata
http://dx.doi.org/10.1101/101782 2017-01-19 Cognitive task information is transferred between brain regions via resting-state network topology Takuya Ito|Kaustubh R Kulkarni|Douglas H Schultz|Ravi D Mill|Richard H Chen|Levi I Solomyak|Michael W Cole Rutgers University
http://dx.doi.org/10.1101/101709 2017-01-19 CC BY-NC-ND A comparison of reference-based algorithms for correcting cell-type heterogeneity in Epigenome-Wide Association Studies Andrew E Teschendorff|Charles E Breeze|Shijie C Zheng|Stephan Beck University College London and Chinese Academy of Sciences;|University College London;|Partner Institute of Computational Biology/Shanghai Institute of Biological Sciences
http://dx.doi.org/10.1101/101550 2017-01-19 CC BY Modeling Hormonal Control of Cambium Proliferation Vladyslav Oles|Alexander Panchenko|Andrei Smertenko Washington State University
http://dx.doi.org/10.1101/101790 2017-01-19 Transmission Bottleneck Size Estimation from Pathogen Deep-Sequencing Data, with an Application to Human Influenza A Virus Ashley Sobel Leonard|Daniel Weissman|Benjamin Greenbaum|Elodie Ghedin|Katia Koelle Duke University;|Emory University;|Mount Sinai;|New York University
http://dx.doi.org/10.1101/101618 2017-01-19 CC BY-NC-ND Mutation of a palmitoyltransferase ZDHHC18-like gene is responsible for the minute wing mutation in the silkworm (Bombyx mori) Ye Yu|Xiaojing Liu|Xiao Ma|Zhongjie Zhang|Na Liu|Chengxiang Hou|Muwang Li School of Biotechology, Jiangsu University of Science and Technology, Zhenjiang, Jiangsu, China;|School of Biotechology, Jiangsu University of Science and Technology, Zhenjiang , Jiangsu, China;|Sericultural Research Institute, Chinese Academy of Agricultural Sciences, Zhenjiang Jiangsu, China;|Jiangsu University of Science and Technology
http://dx.doi.org/10.1101/101725 2017-01-19 CC BY-NC-ND Modern-Day SIV viral diversity generated by extensive recombination and cross-species transmission Sidney M Bell|Trevor Bedford Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/101691 2017-01-19 CC BY-NC-ND A scalable Bayesian method for integrating functional information in genome-wide association studies Jingjing Yang|Lars G. Fritsche|Xiang Zhou|Goncalo Abecasis University of Michigan;|Norwegian University of Science and Technology
http://dx.doi.org/10.1101/101774 2017-01-19 CC BY-NC-ND Spike-based phylogenetically defined clades within the Alphacoronavirus 1 species Gary R. Whittaker|Nicole M. Andre|Jean Kaoru Millet Cornell University
http://dx.doi.org/10.1101/101766 2017-01-19 CC BY-NC-ND Novel insights into the molecular heterogeneity of hepatocellular carcinoma Juan Jovel|Zhen Lin|Sandra O'keefe|Steven Willows|Weiwei Wang|Guangzhi Zhang|Jordan Patterson|David J Kelvin|Gane K Wong|Andrew L Mason University of Alberta;|University Health Network Toronto
http://dx.doi.org/10.1101/101527 2017-01-19 Differential hemispheric and visual stream involvement in ensemble coding of emotion in facial crowds Hee Yeon Im|Daniel N Albohn|Troy G Steiner|Cody Cushing|Reginald B Adams|Kestas Kveraga Massachusetts General Hospital/Harvard Medical School;|Department of Psychology, The Pennsylvania State University;|Massachusetts General Hospital
http://dx.doi.org/10.1101/101519 2017-01-19 CC BY Moving Beyond Clinical Risk Scores with a Mobile App for the Genomic Risk of Coronary Artery Disease Evan D Muse|Nathan E Wineinger|Brian Schrader|Bhuvan Molparia|Emily G Spencer|Dale L Bodian|Ali Torkamani|Eric J Topol Scripps Translational Science Institute;|bhuvan@scripps.edu;|Inova Translational Medicine Institute;|The Scripps Translational Sciences Institute;|Scripps Research Institute
http://dx.doi.org/10.1101/101030 2017-01-19 Real-time spike sorting platform for high-density extracellular probes with ground-truth validation and drift correction James Jaeyoon Jun|Catalin Mitelut|Chongxi Lai|Sergey Gratiy|Costas Anastassiou|Timothy D Harris HHMI-Janelia Research Campus;|University of British Columbia;|Allen Institute for Brain Science
http://dx.doi.org/10.1101/101741 2017-01-19 CC BY Prevailing homozygous deletion of interferon and defensin genes in human cancers Zhenqing Ye|Haidong Dong|Ying Li|Haojie Huang|Han Liang|Jean-Pierre A Kocher|Liguo Wang Division of Biomedical Statistics and Informatics, Mayo Clinic, Rochester, Minnesota;|Department of Immunology, College of Medicine, Mayo Clinic, Rochester, Minnesota;|Department of Biochemistry and Molecular Biology, Mayo Clinic, Rochester, Minnesota;|The University of Texas MD Anderson Cancer Center, Houston, Texas
http://dx.doi.org/10.1101/101576 2017-01-19 Microbiology CC BY-NC-ND Long-term genomic coevolution of host-parasite interaction in natural environment Elina Laanto|Ville Hoikkala|Janne Ravantti|Lotta-Riina Sundberg University of Jyvaskyla;|University of Helsinki
http://dx.doi.org/10.1101/101634 2017-01-19 Genomics CC BY The Drosophila Dosage Compensation Complex activates target genes by chromosome looping within the active compartment Tamas Schauer|Yad Ghavi-Helm|Tom Sexton|Christian Albig|Catherine Regnard|Giacomo Cavalli|Eileen E M Furlong|Peter B Becker Biomedical Center and Center for integrated Protein Science Ludwig- Maximilians-University;|European Molecular Biology Laboratory, Genome Biology Unit, Heidelberg, Germany;|Institute of Genetics and Molecular and Cellular Biology, Illkirch, France;|Institute of Human Genetics, CNRS, Montpellier, France
http://dx.doi.org/10.1101/101584 2017-01-19 Neuroscience CC BY Myosin II activity is required for structural plasticity at the axon initial segment Mark D Evans|Candida Tufo|Adna S Dumitrescu|Matthew S Grubb King's College London
http://dx.doi.org/10.1101/100784 2017-01-19 Scientific Communication and Education CC BY A Data Citation Roadmap for Scientific Publishers Helena Cousijn|Amye Kenall|Emma Ganley|Melissa Harrison|David Kernohan|Fiona Murphy|Patrick Polischuk|Maryann Martone|Timothy Clark Elsevier;|Springer Nature;|Public Library of Science;|eLife Science Publications;|JISC;|University of Reading;|University of California;|Harvard Medical School
http://dx.doi.org/10.1101/101675 2017-01-20 Ecology CC BY-NC-ND Interactive effects of shifting body size and feeding adaptation drive interaction strengths of protist predators under warming Katarina Elisabeth Fussmann|Benjamin Rosenbaum|Ulrich Brose|Bjoern Christian Rall Georg-August-University Goettingen;|German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig
http://dx.doi.org/10.1101/101592 2017-01-20 Genomics CC BY The effect of dietary ginseng polysaccharide supplementation on the immune responses involved in porcine milk-derived esRNAs JIAJIE SUN|Liyuan Yao|Ting Chen|Qianyun Xi|Yongliang Zhang South China Agricultural University, China
http://dx.doi.org/10.1101/101600 2017-01-20 Animal Behavior and Cognition CC BY-NC-ND Reduced foraging investment as an adaptation to patchy food sources: a phasic army ant simulation Serafino Teseo|Francesco Delloro Independent scholar;|Material Research Center (CNRS 7633), MINES ParisTech, Evry, France
http://dx.doi.org/10.1101/101824 2017-01-20 Biophysics CC BY A new and accurate continuum description of moving fronts Stuart T Johnston|Ruth E Baker|Matthew J Simpson Queensland University of Technology;|University of Oxford;|Queensland Univeristy of Technology
http://dx.doi.org/10.1101/101642 2017-01-20 Neuroscience CC BY-NC-ND Symptoms of Depression in a Large Healthy Population Cohort are related to Subjective Memory Complaints and Memory Performance in Negative Contexts Susanne Schweizer|Rogier A. Kievit|Tina Emery|Richard N Henson MRC Cognition and Brain Sciences Unit;|MRC Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/101808 2017-01-20 Evolutionary Biology CC BY asymptoticMK: A web-based tool for the asymptotic McDonald-Kreitman test Benjamin C Haller|Philipp W Messer Cornell University
http://dx.doi.org/10.1101/101659 2017-01-20 Genomics CC BY Modelling haplotypes with respect to reference cohort variation graphs Yohei Rosen|Jordan Eizenga|Benedict Paten UC Santa Cruz Genomics Institute
http://dx.doi.org/10.1101/101733 2017-01-20 Genomics CC BY-ND Comparison and Characterisation of Mutation Calling from Whole Exome and RNA Sequencing Data for Liver and Muscle Tissue in Lactating Holstein Cows Divergent for Fertility Bruce Moran|Stephen T Butler|Christopher J Creevey Teagasc, Ireland;|Institute of Biological, Environmental and Rural Sciences, Ireland
http://dx.doi.org/10.1101/101568 2017-01-20 Neuroscience A Bayesian Perspective on Accumulation in the Magnitude System Benoit Martin|Martin Wiener|Virginie van Wassenhove CEA, DRF/I2BM; INSERM; Université Paris-Sud; Université Paris-Saclay;|Department of Psychology, George Mason University, Fairfax, VA USA
http://dx.doi.org/10.1101/101972 2017-01-20 Epidemiology CC BY-NC-ND Epidemiological and ecological determinants of Zika virus transmission in an urban setting. Jose Lourenco|Maricela Maia de Lima|Nuno Rodrigues Faria|Andrew Walker|Mortiz UG Kraemer|Christian J Villabona-Arenas|Ben Lambert|Erenilde Marques de Cerqueira|Oliver G Pybus|Luiz CJ Alcantara|Mario Recker Department of Zoology, University of Oxford, Oxford OX1 3PS, UK;|FIOCRUZ, Laboratory of Haematology, Genetics and Computational Biology, Salvador, Bahia, Brazil;|Institut de Recherche pour le Developpement (IRD), Universite de Montpellier, Montpellier, France;|Centre for Mathematics and the Environment, University of Exeter, Penryn Campus, Penryn TR10 9FE, UK
http://dx.doi.org/10.1101/102004 2017-01-20 Epidemiology CC BY-NC-ND The high burden of dengue and chikungunya in southern coastal Ecuador: Epidemiology, clinical presentation, and phylogenetics from a prospective study in Machala in 2014 and 2015 Anna M. Stewart-Ibarra|Aileen Kenneson|Christine A King|Mark Abbott|Arturo Barbachano-Guerrero|Efrain Beltran-Ayala|Mercy J. Borbor-Cordova|Washington B. Cardenas|Cinthya Cueva|Julia L. Finkelstein|Christina D. Lupone|Richard G. Jarman|Irina Maljkovic Berry|Saurabh Mehta|Mark Polhemus|Mercy Silva|Sadie J. Ryan|Timothy P. Endy SUNY Upstate Medical University;|SUNY Upstate Medical University;|Universidad Tecnica de Machala;|Escuela Superior Politecnica del Littoral;|Cornell University;|Walter Reed Army Institute of Research;|Ministry of Health of Ecuadodr;|University of Florida
http://dx.doi.org/10.1101/101956 2017-01-20 Bioinformatics CC BY Designing the database for microarray experiments metadata Oleksandr Lykhenko|Alina Frolova|Maria Obolenska Institute of Molecular Biology and Genetics
http://dx.doi.org/10.1101/101857 2017-01-20 Evolutionary Biology Unraveling the population history of Indian Siddis Ranajit Das|Priyanka Upadhyai Manipal University;|Kasturba Medical College, Manipal
http://dx.doi.org/10.1101/101907 2017-01-20 Genomics CC BY-NC-ND Rapid de novo assembly of the European eel genome from nanopore sequencing reads Hans J. Jansen|Michael Liem|Suzanne A. Jong-Raadsen|Sylvie Dufour|Finn-Arne Weltzien|William Swinkels|Alex Koelewijn|Arjan P. Palstra|Bernd Pelster|Herman P. Spaink|Guido E. Van den Thillart|Ron P. Dirks|Christiaan V. Henkel ZF-screens B.V.;|Leiden University;|Museum National de Histoire Naturelle;|Norwegian University of Life Sciences;|DUPAN Foundation;|Wageningen University & Research;|University of Innsbruck
http://dx.doi.org/10.1101/100834 2017-01-20 Evolutionary Biology CC BY-NC-ND Immune receptors with exogenous domain fusions form evolutionary hotspots in grass genomes Paul C Bailey|Gulay Dagdas|Erin Baggs|Wilfried Haerty|Ksenia V Krasileva Earlham Institute;|The Sainsbury Laboratory;|Earlham Institute and The Sainsbury Laboratory
http://dx.doi.org/10.1101/102053 2017-01-20 Genetics CC BY-NC-ND Revisiting suppression of interspecies hybrid male lethality in Caenorhabditis nematodes Lauren E Ryan|Eric S Haag Department of Biology, University of Maryland, United States;|University of Maryland, College Park, United States
http://dx.doi.org/10.1101/101865 2017-01-20 Genomics A portable system for metagenomic analyses using nanopore-based sequencer and laptop computers can realize rapid on-site determination of bacterial compositions Satomi Mitsuhashi|Kirill Kryukov|So Nakagawa|Junko S Takeuchi|Yoshiki Shiraishi|Koichiro Asano|Tadashi Imanishi Tokai University School of Medicine
http://dx.doi.org/10.1101/101980 2017-01-20 Evolutionary Biology CC BY-NC-ND Preserving microsatellites? Conservation genetics of the giant Galápagos tortoise. Etienne Loire|Nicolas Galtier CIRAD;|CNRS
http://dx.doi.org/10.1101/101923 2017-01-20 Biochemistry CC BY-NC-ND DNA-dependent RNA cleavage by the Natronobacterium gregoryi Argonaute Ye Sunghyeok|Bae Taegeun|Kim Kyoungmi|Habib Omer|Lee Seung Hwan|Kim Yoon Young|Lee Kang-In|Kim Seokjoong|Kim Jin-Soo Center for Genome Engineering, Institute for Basic Science, Seoul 08826, South Korea;|ToolGen, Inc., Seoul 08501, South Korea
http://dx.doi.org/10.1101/101329 2017-01-21 CC BY-NC Fitness determinants of vancomycin-resistant Enterococcus faecium during growth in human serum Xinglin Zhang|Ana M. Guzman Prieto|Vincent de Maat|Tomasz K. Prajsnar|Jumamurat R. Bayjanov|Mark de Been|Malbert R.C. Rogers|Marc J.M. Bonten|Stephane Mesnage|Rob J.L. Willems|Willem van Schaik Zhejiang University;|University Medical Center Utrecht;|University of Sheffield
http://dx.doi.org/10.1101/102087 2017-01-21 CC BY Density-dependent selection in evolutionary genetics: a lottery model of Grime's triangle Jason Bertram|Joanna Masel University of Arizona
http://dx.doi.org/10.1101/102160 2017-01-21 Synthetic OCP Heterodimers are Photoactive and Recapitulate the Fusion of Two Primitive Carotenoproteins in the Evolution of Cyanobacterial Photoprotection Sigal Lechno-Yossef|Matthew R. Melnicki|Han Bao|Beronda L Montgomery|Cheryl A Kerfeld Michigan State University;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/102129 2017-01-21 CC BY Bayesian divergence-time estimation with genome-wide SNP data of sea catfishes (Ariidae) supports Miocene closure of the Panamanian Isthmus Madlen Stange|Marcelo R Sanchez-Villagra|Walter Salzburger|Michael Matschiner University of Zurich;|University of Basel
http://dx.doi.org/10.1101/102145 2017-01-21 CC BY-NC-ND Experimental Zika Virus Infection in a New World Monkey Model Reproduces Key Features of the Human Disease Charles Y Chiu|Jerome Bouquet|Tony Li|Shigeo Yagi|Claudia Sanchez San Martin|Manasi Tamhankar|Vida L Hodara|Laura L Parodi|Sneha Somasekar|Guixia Yu|Luis D Giavedoni|Suzette Tardif|Jean Patterson University of California, San Francisco;|California Department of Public Health;|Texas Biomedical Research Institute;|Texas Biomedical Resaerch Institute;|guixia.yu@ucsf.edu
http://dx.doi.org/10.1101/102012 2017-01-21 CC BY Creation of gene expression database on preeclampsia-affected human placenta Oleksandr Lykhenko|Alina Frolova|Maria Obolenska Institute of Molecular Biology and Genetics of NASU
http://dx.doi.org/10.1101/102079 2017-01-21 CC BY-NC-ND Untangling cortical maps in mouse primary visual cortex Luis O Jimenez|Elaine Tring|Joshua T Trachtenberg|Dario L Ringach UCLA Psychology;|UCLA Neurobiology;|UCLA Neurobiology and Psychology
http://dx.doi.org/10.1101/102020 2017-01-21 CC BY-NC-ND A hierarchical Bayesian approach to estimate endosymbiont infection rates Zachary H. Marion|Christopher A. Hamm University of Tennessee, Knoxville;|University of California, Davis
http://dx.doi.org/10.1101/102046 2017-01-21 CC BY WikiGenomes: an open Web application for community consumption and curation of gene annotation data in Wikidata. Tim E Putman|Sebastien Lelong|Sebastian Burgstaller-Muelhbacher|Andra Waagmeester|Colin Diesh|Nathan Dunn|Monica Munoz-Torres|Gregory Stupp|Andrew Su|Benjamin M Good The Scripps Research Institute;|Micelio;|Lawrence Berkeley National Laboratory;|Scripps Research Institute
http://dx.doi.org/10.1101/101964 2017-01-21 Cell Biology Glycolytic reliance promotes anabolism in photoreceptors Yashodhan Chinchore|Tedi Begaj|David Wu|Eugene Drokhlyansky|Constance L Cepko Harvard Medical School;|Harvard Medical School and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/101931 2017-01-21 Biophysics CC BY-NC-ND Convection - Diffusion model of talking bacteria Sarangam Majumdar|Subhoshmita Mondal DISIM, University of L'Aquila;|Department of Chemical Engineering, Jadavpur University, Kolkata 700032, India
http://dx.doi.org/10.1101/102301 2017-01-22 CC BY-NC-ND The role of gene expression in the recent evolution of resistance in a model host parasite system Brian Keith Lohman|Natalie Steinel|Jesse Weber|Daniel Bolnick University of Texas at Austin;|University of Montana
http://dx.doi.org/10.1101/102319 2017-01-22 CC BY-NC-ND A genetic basis for molecular asymmetry at vertebrate electrical synapses Adam C Miller|Alex C Whitebirch|Arish N Shah|Kurt C Marsden|Michael Granato|John O'Brien|Cecilia B Moens University of Oregon;|Fred Hutchinson Cancer Research Center;|University of Pennsylvania Perelman School of Medicine;|University of Texas Health Sciences Center at Houston
http://dx.doi.org/10.1101/102178 2017-01-22 CC BY-NC-ND Adaptive motivational signalling from the anterior cingulate cortex to the ventral tegmental area Thomas W Elston|David K Bilkey University of Otago
http://dx.doi.org/10.1101/102236 2017-01-22 Human microcephaly ASPM protein is a spindle pole-focusing factor Ami Ito|Elsa A. Tungadi|Tomomi Kiyomitsu|Gohta Goshima Nagoya University
http://dx.doi.org/10.1101/101881 2017-01-22 CC BY Heterozygous RFX6 protein truncating variants cause Maturity-Onset Diabetes of the Young (MODY) with reduced penetrance Kashyap A Patel|Markku Laakso|Alena Stancakova|Thomas W Laver|Kevin Colclough|Matthew B Johnson|Jarno Kettunen|Tiinamaija Tuomi|Miriam Cnop|Maggie H Shepherd|Sarah E Flanagan|Sian Ellard|Andrew T Hattersley|Michael N Weedon Institute of Biomedical and Clinical Science, University of Exeter Medical School, Exeter, UK;|Department of Medicine, Kuopio University Hospital, Kuopio, Finland;|Institute of Clinical Medicine, Internal Medicine, University of Eastern Finland, Kuopio, Finland;|Department of Molecular Genetics, Royal Devon and Exeter National Health Service Foundation Trust;|Department of Endocrinology, Abdominal Centre, Helsinki University Hospital; Finland;|Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland;|ULB Center for Diabetes Research, Faculty of Medicine, Universite Libre de Bruxelles, Brussels
http://dx.doi.org/10.1101/102277 2017-01-22 Cortical elasticity determines the geometry of prospective mesoderm constriction in Drosophila melanogaster Konstantin Doubrovinski UT Southwestern
http://dx.doi.org/10.1101/102269 2017-01-22 The idiosyncratic nature of confidence Joaquin Navajas|Chandni Hindocha|Hebah Foda|Mehdi Keramati|Peter E Latham|Bahador Bahrami University College London
http://dx.doi.org/10.1101/102210 2017-01-22 Multi-generational silencing dynamics control cell aging Yang Li|Meng Jin|Richard O'Laughlin|Lev S Tsimring|Lorraine Pillus|Jeff Hasty|Nan Hao University of California San Diego
http://dx.doi.org/10.1101/099994 2017-01-22 CC BY-NC-ND SynEM: Automated synapse detection for connectomics Benedikt Staffler|Manuel Berning|Kevin M. Boergens|Anjali Gour|Patrick van der Smagt|Moritz Helmstaedter Department of Connectomics, Max Planck Institute for Brain Research, D-60438 Frankfurt, Germany;|Data Lab, VW Group, D-80805 Munich, Germany
http://dx.doi.org/10.1101/102251 2017-01-22 CC BY Defects in Meiotic Recombination Delay Progression Through Pachytene in Mouse Spermatocytes James H Crichton|David R Read|Ian R Adams MRC Human Genetics Unit
http://dx.doi.org/10.1101/102293 2017-01-22 CC BY-NC-ND Challenges for Bayesian Model Selection of Dynamic Causal Models Rebecca van den Honert|Sarah Shultz|Marcia K Johnson|Gregory McCarthy Yale University;|Emory University
http://dx.doi.org/10.1101/102194 2017-01-22 CC BY Monod-Wyman-Changeux Analysis of Ligand-Gated Ion Channel Mutants Tal Einav|Rob Phillips California Institute of Technology
http://dx.doi.org/10.1101/101949 2017-01-22 CC BY Proteogenomics of adenosine-to-inosine RNA editing in fruit fly Ksenia G Kuznetsova|Irina Y Ilina|Alexey L Chernobrovkin|Svetlana E Novikova|Tatyana E Farafonova|Dmitry S Karpov|Mark V Ivanov|Olga E Voronko|Ekaterina V Ilgisonis|Anna A Kliuchnikova|Victor G Zgoda|Roman A Zubarev|Mikhail V Gorshkov|Sergei A Moshkovskii Institute of Biomedical Chemistry, Moscow, Russia;|Karolinska Institutet, Stockholm, Sweden;|Engelhardt Institute of Molecular Biology, Russian Academy of Sciences, Moscow, Russia.;|Institute of Energy Problems of Chemical Physics, Russian Academy of Sciences, Moscow, Russia
http://dx.doi.org/10.1101/102244 2017-01-22 A New Hyperprior Distribution for Bayesian Regression Model with Application in Genomics Renato Rodrigues Silva Federal University of Goias
http://dx.doi.org/10.1101/099119 2017-01-22 Genetics CC BY Tex19.1 Regulates Meiotic DNA Double Strand Break Frequency in Mouse Spermatocytes James H Crichton|Christopher J Playfoot|Marie MacLennan|David Read|Howard J Cooke|Ian R Adams MRC Human Genetics Unit
http://dx.doi.org/10.1101/100982 2017-01-22 Synthetic Biology CC BY-NC-ND Tuning of recombinant protein expression in Escherichia coli by manipulating transcription, translation initiation rates and incorporation of non-canonical amino acids Orr Schlesinger|Yonatan Chemla|Mathias Heltberg|Eden Ozer|Ryan Marshall|Vincent Noireaux|Mogens H. Jensen|Lital Alfonta Ben-Gurion University of the Negev;|Niels Bohr Institute, University of Copenhagen;|University of Minnesota
http://dx.doi.org/10.1101/102707 2017-01-23 PEAPOD limits developmental plasticity in Arabidopsis. Derek W. R. White Massey University
http://dx.doi.org/10.1101/101873 2017-01-23 CC BY Literature Consistency of Bioinformatics Sequence Databases is Effective for Assessing Record Quality Mohamed Reda Bouadjenek|Karin Verspoor|Justin Zobel The University of Melbourne
http://dx.doi.org/10.1101/102533 2017-01-23 Bioinformatics CC BY-NC-ND The circadian dynamics of small nucleolar RNA Stuart Aitken|Colin A.M. Semple University Of Edinburgh;|MRC Institute of Genetics and Molecular Medicine
http://dx.doi.org/10.1101/102384 2017-01-23 Microbiology CC BY-NC Staphylococcus aureus Biofilm Removal by Targeting Biofilm-Associated Extracellular Proteins Sudhir K Shukla|Toleti Subba Rao Bhabha Atomic Research Centre;|Bhabha Atomic Reserch Centre, Kalpakkam
http://dx.doi.org/10.1101/102400 2017-01-23 Biophysics CC BY-NC-ND Chemotaxis microsimulation: On the gain in nutrient uptake and bacterial cell division with chemotaxis mechanism Soutick Saha|C. K. Sruthi|Meher Prakash Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/100719 2017-01-23 Biophysics CC BY-NC-ND RNA Gelation in Repeat Expansion Disorders Ankur Jain|Ronald D Vale University of California San Francisco
http://dx.doi.org/10.1101/102541 2017-01-23 Microbiology CC BY A previously established divergent lineage of the hybrid fungal pathogen Verticillium longisporum emerges as stem striping pathogen in British oilseed rape Jasper Depotter|Michael Seidl|Grardy van den berg|Bart Thomma|Tom Wood Wageningen University;|NIAB
http://dx.doi.org/10.1101/102723 2017-01-24 Systems Biology Diverse yet highly selective interorgan crosstalk mechanisms shape the bodywide transcriptome landscape Norio Takada|Madoka Omae|Fumihiko Sagawa|Neil Chi|Satsuki Endo|Satoshi Kozawa|Thomas N Sato ATR;|UCSD
http://dx.doi.org/10.1101/102715 2017-01-24 Plant Biology CC BY-NC-ND The complex origins of strigolactone signalling in land plants Rohan Bythell-Douglas|Carl J. Rothfels|Dennis W.D. Stevenson|Sean W. Graham|Gane Ka-Shu Wong|David C. Nelson|Tom Bennett Imperial College London;|University of California, Berkeley;|The New York Botanical Garden;|University of British Columbia;|University of Alberta;|University of California, Riverside;|University of Leeds
http://dx.doi.org/10.1101/102459 2017-01-24 Ecology CC BY-NC-ND Prolonged exposure does not increase soil microbial community response to warming along geothermal gradients Dajana Radujkovic|Erik Verbruggen|Bjarni D Sigurdsson|Niki IW Leblans|Sara Vica|James T Weedon University of Antwerp;|Agricultural University of Iceland;|University of Antwerp, Agricultural University of Iceland;|University of Antwerp, VU University Amsterdam
http://dx.doi.org/10.1101/102699 2017-01-24 Neuroscience Family history and APOE4 risk for Alzheimer's Disease impact the neural correlates of episodic memory by early midlife Maria Natasha Rajah|Lindsay M. K. Wallace|Elizabeth Ankudowich|Darya Naumova|Jens C. Pruessner|Ridha Joober|Serge Gauthier|Stamatoula Pasvanis Dept. Psychiatry, McGill University;|Dalhousie University;|IPN, McGill University;|Dept of Psychiatry, McGill University;|Dept. of Neurology and Neurosurgery, McGill University;|Douglas Hospital Research Centre
http://dx.doi.org/10.1101/102673 2017-01-24 Neuroscience CC BY-ND Locomotion enhances neural encoding of visual stimuli in mouse V1 Maria C. Dadarlat|Michael P. Stryker UCSF
http://dx.doi.org/10.1101/102517 2017-01-24 Plant Biology CC BY-NC-ND Medicago truncatula MOT1.3 is a plasma membrane molybdenum transporter required for nitrogenase activity in root nodules Manuel Tejada-Jimenez|Patricia Gil-Diez|Javier Leon-Mediavilla|Jiangqi Wen|Kirankumar Mysore|Juan Imperial|Manuel Gonzalez-Guerrero Centro de Biotecnologia y Genomica de Plantas (UPM-INIA);|The Samuel Roberts Noble Foundation;|Consejo Superior de Investigaciones Cientificas
http://dx.doi.org/10.1101/102681 2017-01-24 Systems Biology CC BY-NC-ND Mass-spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiation Bogdan Budnik|Ezra Levy|Nikolai Slavov Harvard University;|Northeastern University
http://dx.doi.org/10.1101/102590 2017-01-24 Neuroscience CC BY-NC-ND The butterfly effect: amplification of local changes along the temporal processing hierarchy Yaara Yeshurun|Mai Nguyen|Uri Hasson Princeton University
http://dx.doi.org/10.1101/102624 2017-01-24 Evolutionary Biology CC BY-NC-ND Invasion fitness for gene-culture co-evolution in the family and an application to cumulative culture under vertical transmission Charles Mullon|Laurent Lehmann University of Lausanne
http://dx.doi.org/10.1101/102665 2017-01-24 Genetics CC BY-NC-ND Genome-wide association mapping of correlated traits in cassava: dry matter and total carotenoid content Ismail Yusuf Rabbi|Lovina I Udoh|Marnin Wolfe|Elizabeth Y Parkes|Melaku A Gedil|Alfred Dixon|Punna Ramu|Jean-Luc Jannink|Peter Kulakow International Institute of Tropical Agriculture;|Cornell University
http://dx.doi.org/10.1101/102608 2017-01-24 Biophysics Elucidating interplay of speed and accuracy in biological error correction Kinshuk Banerjee|Anatoly B. Kolomeisky|Oleg A Igoshin Rice University
http://dx.doi.org/10.1101/102475 2017-01-24 Genomics CC BY-NC-ND An analytic approach for interpretable predictive models in high dimensional data, in the presence of interactions with exposures Sahir R Bhatnagar|Yi Yang|Budhachandra S Khundrakpam|Alan Evans|Mathieu Blanchette|Luigi Bouchard|Celia MT Greenwood Department of Epidemiology, Biostatistics and Occupational Health, McGill University;|Department of Mathematics and Statistics, McGill University;|Montreal Neurological Institute, McGill University;|Department of Computer Science, McGill University;|Department of Biochemistry, University of Sherbrooke;|Lady Davis Institute for Medical Research
http://dx.doi.org/10.1101/102640 2017-01-24 Cell Biology A Molecular Signature for Anastasis, Recovery from the Brink of Apoptotic Cell Death Gongping Sun|Elmer Guzman|Hongjun Robin Zhou|Kenneth Kosik|Denise J Montell University of California
http://dx.doi.org/10.1101/102368 2017-01-24 Neuroscience CC BY-NC From affect to control: Functional specialization of the insula in motivation and regulation Tor D Wager|Lisa Feldman Barrett University of Colorado, Boulder;|Northeastern University
http://dx.doi.org/10.1101/102657 2017-01-24 Cell Biology CC BY Photorelease of Diacylglycerol Increases the Amplitude and Duration of Protein Kinase C-BetaII Relocation in cyto Joachim Goedhart|Theodorus W.J. Gadella University of Amsterdam
http://dx.doi.org/10.1101/102434 2017-01-24 Bioengineering CC BY Production of Multilayer Cell Mass from Olfactory Stem Cell and Its Utilization Potential in Nervous Tissue Regeneration Olga Nehir Nehir Oztel|Adil M. Allahverdiyev|Aysegul Batioglu Karaaltin|Melahat Bagirova|Ercument Ovali Ph.D.;|Prof. Dr.;|M.D.
http://dx.doi.org/10.1101/102582 2017-01-24 Neuroscience Basal forebrain gating by somatostatin neurons drives cortical activity Nelson Espinosa|Alejandra Alonso|Cristian Morales|Pablo Fuentealba Pontificia Universidad Catolica de Chile
http://dx.doi.org/10.1101/102376 2017-01-24 Developmental Biology CC BY-NC-ND A defined platform of human peri-gastrulation-like biological fate patterning reveals coordination between Reaction-Diffusion and Positional-Information Mukul Tewary|Joel E Ostblom|Nika Shakiba|Peter W Zandstra University of Toronto
http://dx.doi.org/10.1101/102426 2017-01-24 Plant Biology CC BY-NC-ND Medicago truncatula Zinc-Iron Permease6 provides zinc to rhizobia-infected nodule cells Isidro Abreu|Angela Saez|Rosario Castro-Rodriguez|Viviana Escudero|Benjamin Rodriguez-Haas|Marta Senovilla|Camille Laure|Daniel Grolimund|Manuel Tejada-Jimenez|Juan Imperial|Manuel Gonzalez-Guerrero Centro de Biotecnologia y Genomica de Plantas (UPM-INIA);|ECOLAB. Universite de Toulouse.;|Paul Scherrer Institute.;|Consejo Superior de Investigaciones Cientificas
http://dx.doi.org/10.1101/102350 2017-01-24 Genomics Machine learning identifies SNPs predictive of advanced coronary artery calcium in ClinSeq® and Framingham Heart Study cohorts Cihan Oguz|Shurjo K Sen|Adam R Davis|Yi-Ping Fu|Christopher J O'Donnell|Gary H Gibbons National Institutes of Health;|VA Healthcare System
http://dx.doi.org/10.1101/102780 2017-01-24 Bioinformatics CC BY-ND Comparison of Principal Component Analysis and t-Stochastic Neighbor Embedding with Distance Metric Modifications for Single-cell RNA-sequencing Data Analysis Haejoon Kwon|Jean Fan|Peter Kharchenko Emory University;|Harvard University
http://dx.doi.org/10.1101/102822 2017-01-24 Biochemistry CC BY Structure of the Full-length VEGFR-1 Extracellular Domain in Complex with VEGF-A Sandra Markovic-Mueller|Edward Stuttfeld|Mayanka Asthana|Tobias Weinert|Spencer Edward Bliven|Kenneth N Goldie|Kaisa Kisko|Guido Capitani|Kurt Ballmer-Hofer Paul Scherrer Institute;|Biozentrum;|National Center for Biotechnology Information;|Center for Cellular Imaging and Nano Analytics
http://dx.doi.org/10.1101/102814 2017-01-24 Ecology Ecological and demographic drivers of jellyfish blooms Josephine Goldstein|Ulrich K Steiner University of Southern Denmark
http://dx.doi.org/10.1101/102491 2017-01-24 Epidemiology Infectious Reactivation of Cytomegalovirus Explaining Age-and Sex-Specific Patterns of Seroprevalence Michiel van Boven|Jan van de Kassteele|Marjolein J Korndewal|Christiaan H van Dorp|Mirjam Kretzschmar|Fiona van der Klis|Hester E de Melker|Ann C Vossen|Debbie van Baarle National Institute for Public Health and the Environment;|Utrecht University;|Leiden University Medical Center
http://dx.doi.org/10.1101/102061 2017-01-24 Epidemiology CC BY Phylodynamics without trees: estimating R0 directly from pathogen sequences Giacomo Plazzotta|Caroline Colijn Imperial College London
http://dx.doi.org/10.1101/101915 2017-01-24 Epidemiology Sex differences in the epidemiology of tattoo skin disease in captive common bottlenose dolphins (Tursiops truncatus): are males more vulnerable than females? Marie-Francoise Van Bressem|Koen Van Waerebeek|Padraig J Duignan Peruvian Centre for Cetacean Research;|The Marine Mammal Center, 2000 Bunker Road, Fort Cronkhite, Sausalito, CA 94965, USA
http://dx.doi.org/10.1101/102798 2017-01-24 Genomics Metagenomic Next-Generation Sequencing Detects Pulmonary Pathogens in Hematopoietic Cellular Transplant Patients with Acute Respiratory Illnesses Charles Langelier|Matt S Zinter|Katrina Kalantar|Gregory A Yank|Stephanie Christenson|Brian Odonovan|Corin White|Michael R Wilson|Anil Sapru|Christopher C Dvorak|Steve Miller|Charles Y Chiu|Joseph L DeRisi University of California San Francisco;|University of Michigan;|University of California Los Angeles
http://dx.doi.org/10.1101/102756 2017-01-25 Cell Biology Mechanical activation of epithelial Na+ channel relies on an interdependent activity of the extracellular matrix and extracellular N-glycans of αENaC Fenja Knoepp|Zoe Ashley|Daniel Barth|Marina Kazantseva|Pawel P Szczesniak|Wolfgang G Clauss|Mike Althaus|Diego Alvarez de la Rosa|Martin Fronius University Giessen;|University of Otago;|University of La Laguna
http://dx.doi.org/10.1101/101998 2017-01-24 Genetics CC BY-NC Gαq Mediates Clozapine Effects in Caenorhabditis elegans Limin Hao|Yongguang Tong|Kristin Harrington|Jessica L. O'Neill|Afsaneh Sheikholeslami|Xin Wang|Jonathan H. Freedman|Bruce M. Cohen|Edgar A. Buttner Program for Neuropsychiatric Research, McLean Hospital, 115 Mill St., Belmont MA 02478;|Laboratory of Toxicology and Pharmacology, National Institute of Environmental Health Sciences;|Dept of Pharmacology and Toxicology, Universilogy, University of Louisville School of Medicine, KY
http://dx.doi.org/10.1101/103036 2017-01-25 CC BY-ND Mitochondrial RNA processing in absence of tRNA punctuations in octocorals Gaurav G. Shimpi|Sergio Vargas|Angelo Poliseno|Gert Woerheide Ludwig-Maximilians-Universitaet Muenchen
http://dx.doi.org/10.1101/103283 2017-01-25 CC BY-NC-ND New Techniques for Ancient Proteins: Direct Coupling Analysis Applied on Proteins involved in Iron Sulfur Cluster Biogenesis Marco Fantini|Duccio Malinverni|Paolo De Los Rios|Annalisa Pastore Scuola normale superiore (SNS), Pisa, Italy;|Ecole Polytechnique Federale de Lausanne;|Ecole Polytechnique Federale de Lausanne (EPFL), Lausanne, Switzerland;|King's College, London, UK & University of Pavia, Pavia, Italy
http://dx.doi.org/10.1101/103119 2017-01-25 Genetic contributions to trail making test performance in UK Biobank Saskia Hagenaars|Simon R Cox|W David Hill|Gail Davies|Dave CM Liewald|Sarah E Harris|Andrew M McIntosh|Catharine R Gale|Ian Deary University of Edinburgh;|University if Edinburgh
http://dx.doi.org/10.1101/102962 2017-01-25 Multiple-trait Bayesian Regression Methods with Mixture Priors for Genomic Prediction HAO CHENG|Kadir Kizilkaya|Jian Zeng|Dorian Garrick|Rohan Fernando Iowa State University, United States;|Adnan Menderes University, Turkey;|The University of Queensland, Australia;|Massey University, New Zealand;|Iowa State Univeristy, United States
http://dx.doi.org/10.1101/102988 2017-01-25 CC BY Translating ceRNA susceptibilities into correlation functions Araks Martirosyan|Matteo Marsili|Andrea De Martino VIB-KU Leuven;|The Abdus Salam ICTP;|CNR NANOTEC & Human Genetics Foundation
http://dx.doi.org/10.1101/103077 2017-01-25 CC BY Severe acute dehydration in a desert rodent elicits a transcriptional response that effectively prevents kidney injury Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/103267 2017-01-25 CC BY-NC-ND UMI-Reducer: Collapsing duplicate sequencing reads via Unique Molecular Identifiers Serghei Mangul|Sarah Van Driesche|Lana S. Martin|Kelsey C. Martin|Eleazar Eskin University of California Los Angeles;|University of California, Los Angeles
http://dx.doi.org/10.1101/102467 2017-01-25 CC BY-NC Gut microbiota and resistome dynamics in intensive care patients receiving selective digestive tract decontamination Elena Buelow|Teresita de Jesus Bello Gonzalez|Susana Fuentes|Wouter A.A. de Steenhuijsen Piters|Leo Lahti|Jumamurat R. Bayjanov|Eline A.M. Majoor|Johanna C. Braat|Maaike S.M. van Mourik|Evelien A.N. Oostdijk|Rob J.L. Willems|Marc J.M. Bonten|Mark W.J. van Passel|Hauke Smidt|Willem van Schaik University Medical Center Utrecht;|Wageningen University;|University of Turku
http://dx.doi.org/10.1101/103069 2017-01-25 CC BY-ND Heritability enrichment of specifically expressed genes identifies disease-relevant tissues and cell types Hilary Finucane|Yakir Reshef|Verneri Anttila|Kamil Slowikowski|Alexander Gusev|Andrea Byrnes|Steven Gazal|Po-Ru Loh|Giulio Genovese|Arpiar Saunders|Evan Macosko|Samuela Pollack|John R.B. Perry|Soumya Raychaudhuri|Steven McCarroll|Benjamin Neale|Alkes Price Massachusetts Institute of Technology;|Harvard School of Engineering and Applied Science;|Harvard Medical School;|Harvard T.H. Chan School of Public Health;|Broad Institute;|University of Cambridge School of Clinical Medicine
http://dx.doi.org/10.1101/103010 2017-01-25 CC BY-ND High density genome scan for selection signatures in French sheep reveals allelic heterogeneity and introgression at adaptive loci Christina Marie Rochus|Flavie Tortereau|Florence Plisson-Petit|Gwendal Restoux|Carole Moreno-Romieux|Gwenola Tosser-Klopp|Bertrand Servin Swedish University of Animal Science;|INRA;|AgroParisTech
http://dx.doi.org/10.1101/103002 2017-01-25 Disambiguating brain functional connectivity Eugene Duff|Tamar Makin|Stephen M. Smith|Mark W. Woolrich University of Oxford;|University College London, UK
http://dx.doi.org/10.1101/103168 2017-01-25 CC BY-NC Early frameshift alleles of zebrafish tbx5a that fail to develop the heartstrings phenotype Elena Chiavacci|Lucia Kirchgeorg|Anastasia Felker|Alexa Burger|Christian Mosimann Institute of Molecular Life Sciences, University of Zurich
http://dx.doi.org/10.1101/103259 2017-01-25 CC BY-ND Cell-to-cell Modeling of the interface between Atrial and Sinoatrial Anisotropic Heterogeneous Nets II: Mechanisms Underlying Nets Dynamics Gabriel Lopez|Norma Pilar Abrego|Rafael Godinez Universidad Autonoma Metropolitana
http://dx.doi.org/10.1101/102970 2017-01-25 Resolution of conflict between parental genomes in a hybrid species Fabrice Eroukhmanoff|Richard I Bailey|Tore O Elgvin|Jo S Hermansen|Anna Runemark|Cassandra N Trier|Glenn-Peter Saetre University of Oslo;|Charles University in Prague
http://dx.doi.org/10.1101/102905 2017-01-25 CC BY Interactive analysis of Long-read RNA isoforms with Iso-Seq Browser Jingyuan Hu|Prech Uapinyoying|Jeremy Goecks George Washington University;|Oregon Health and Science University
http://dx.doi.org/10.1101/103135 2017-01-25 CC BY Pure Correlates of Exploration and Exploitation in the Human Brain Tommy C Blanchard|Samuel J Gershman Harvard University
http://dx.doi.org/10.1101/103044 2017-01-25 CC BY Decoding the categorization of visual motion with magnetoencephalography Yousra Bekhti|Alexandre Gramfort|Nicolas Zilber|Virginie van Wassenhove LTCI, Telecom ParisTech, Universite Paris-Saclay, 75013, Paris, France;|CEA, DRF/I2BM, NeuroSpin Center, Universite Paris-Saclay, F-91191 Gif-sur-Yvette, France
http://dx.doi.org/10.1101/103093 2017-01-25 CC BY-ND Documenting and Evaluating Data Science Contributions in Academic Promotion in Departments of Statistics and Biostatistics Lance A. Waller Emory University
http://dx.doi.org/10.1101/102830 2017-01-25 CC BY The genomic basis of adaptation to the deep water 'twilight zone' in Lake Malawi cichlid fishes Christoph Hahn|Martin J. Genner|George T. Turner|Domino A. Joyce Institute of Zoology, University of Graz;|School of Biological Sciences, University of Bristol;|School of Biological Sciences, Bangor University;|Evolutionary and Environmental Genomics Group (@EvoHull), University of Hull
http://dx.doi.org/10.1101/103101 2017-01-25 CC BY-NC-ND A Parallel Multiobjective Metaheuristic for Multiple Sequence Alignment Alvaro Rubio-Largo|Miguel A. Vega-Rodriguez Universidade NOVA de Lisboa;|University of Extremadura
http://dx.doi.org/10.1101/102939 2017-01-25 CC BY Estimating correlated rates of trait evolution with uncertainty Daniel S. Caetano|Luke J. Harmon University of Idaho
http://dx.doi.org/10.1101/103192 2017-01-25 CC BY-NC-ND The Nucleosome Remodelling and Deacetylation complex restricts Mediator access to enhancers to control transcription Maria Xenophontos|Nicola Reynolds|Sarah Gharbi|Ewan Johnstone|Jason Signolet|Robin Floyd|Meryem Ralser|Susanne Borneloev|Sabine Dietmann|Remco Loos|Paul Bertone|Brian Hendrich University of Cambridge
http://dx.doi.org/10.1101/102848 2017-01-25 CrosstalkNet: mining large-scale bipartite co-expression networks to characterize epi-stroma crosstalk Venkata SK Manem|George Adam|Tina Gruosso|Mathieu Gigoux|Nicholas Bertos|Morag Park|Benjamin Haibe-Kains University Health Network;|McGill University
http://dx.doi.org/10.1101/102806 2017-01-25 Initiation of DNA replication requires actin dynamics and formin activity Parisis Nikolaos|Liliana Krasinska|Bethany Harker|Serge Urbach|Michel Rossignol|Alain Camasses|James Dewar|Nathalie Morin|Daniel Fisher CNRS;|INRA;|Vanderbilt University
http://dx.doi.org/10.1101/102871 2017-01-25 DepEst: an R package of important dependency estimators for gene network inference algorithms Gokmen Altay|Zeyneb Kurt|Nejla Altay|Nizamettin Aydin La Jolla Institute for Allergy and Immunology;|Computer Engineering, Yildiz Technical University, Istanbul, Turkey;|NA
http://dx.doi.org/10.1101/102889 2017-01-25 Neural correlates of perceptual constancy in Auditory Cortex Stephen Town|Katherine C Wood|Jennifer Kim Bizley University College London;|University of Pennsylvania;|University College london
http://dx.doi.org/10.1101/103176 2017-01-25 CC BY-NC A systematic screen for morphological abnormalities during fission yeast sexual reproduction identifies a mechanism of actin aster formation for cell fusion Omaya Dudin|Laura Merlini|Felipe O Bendezu|Raphael Groux|Vincent Vincenzetti|Sophie G Martin University of Lausanne
http://dx.doi.org/10.1101/103218 2017-01-25 CC BY-NC-ND Calculating the statistical significance of rare variants causal for Mendelian and complex disorders Aliz R. Rao|Stanley F. Nelson UCLA
http://dx.doi.org/10.1101/103184 2017-01-25 Drivers of diversification in individual life courses Raisa Hernandez-Pacheco|Ulrich K Steiner University of Puerto Rico;|University of Southern Denmark
http://dx.doi.org/10.1101/103275 2017-01-25 CC BY Inferring the Joint Demographic History of Multiple Populations: Beyond the Diffusion Approximation Julien Jouganous|Will Long|Simon Gravel McGill University, Canada;|Duke University, United States
http://dx.doi.org/10.1101/103143 2017-01-25 CC BY DATS: the data tag suite to enable discoverability of datasets Susanna-Assunta Sansone|Alejandra Gonzalez-Beltran|Philippe Rocca-Serra|George Alter|Jeffrey S Grethe|Hua Xu|Ian Fore|Jared Lyle|Anupama E Gururaj|Xiaoling Chen|Hyeoneui Kim|Nansu Zong|Yueling Li|Ruiling Liu|Ibrahim Burak Ozyurt|Lucila Ohno-Machado|bioCADDIE Working Groups Members University of Oxford, Oxford e-Research Centre, 7 Keble Road, OX1 3QG, Oxford, UK;|Inter-university Consortium for Political and Social Research, University of Michigan, PO Box 124;|University of California San Diego, 9500 Gilman Dr, La Jolla CA 92093, USA;|The University of Texas Health Science Center at Houston, 7000 Fannin St, Houston, TX 77030, USA;|National Cancer Institute, National Institutes of Health, 2115 E Jefferson St, Bethesda, MD 20892;|bioCADDIE Consortium
http://dx.doi.org/10.1101/102921 2017-01-25 kpLogo: positional k-mer analysis reveals hidden specificity in biological sequences Xuebing Wu|David Bartel Whitehead Institute/HHMI/MIT;|MIT
http://dx.doi.org/10.1101/102913 2017-01-25 CC BY-NC-ND Alternative Methods for Mitochondrial Transplantation: Efficiency of Unpackaged and Lipid-Packaged Preparations Donna L McPhie|Laura W Sargent|Suzann M. Babb|Dorit Ben-Shachar|Anne M Cataldo|Bruce M. Cohen Program for Neuropsychiatric Research, McLean Hospital, Belmont, MA 02478;|Laboratory of Psychobiology, Dept of Psychiatry,Technion-IIT, Haifa Israel
http://dx.doi.org/10.1101/102731 2017-01-25 CC BY-NC-ND Spatial Attention Enhances the Neural Representation of Invisible Signals Embedded in Noise Cooper A Smout|Jason B Mattingley Queensland Brain Institute, The University of Queensland;|The University of Queensland
http://dx.doi.org/10.1101/103051 2017-01-25 CC BY Context-Aware Prediction of Pathogenicity of Missense Mutations Involved in Human Disease Christoph Feinauer|Martin Weigt University Pierre and Marie Curie
http://dx.doi.org/10.1101/103333 2017-01-26 Biochemistry Cell proliferation depends on the direct binding between PKM2 and AKAP-Lbc Xinping Chen|Graeme K Carnegie Purdue University;|University of Illinois at Chicago
http://dx.doi.org/10.1101/103549 2017-01-26 CC BY-ND LRSim: a Linked Reads Simulator generating insights for better genome partitioning Ruibang Luo|Fritz J Sedlazeck|Charlotte A Darby|Stephen M Kelly|Michael C Schatz The Johns Hopkins University;|Cold Spring Harbor Laboratory;|New York University School of Medicine
http://dx.doi.org/10.1101/103408 2017-01-26 Heterogeneity of hypothalamic Pro-opiomelanocortin-expressing neurons revealed by single-cell RNA sequencing Brian Y. H. Lam|Irene Cimino|Joseph Polex-Wolf|Sara N. Kohnke|Debra Rimmington|Valentine Iyemere|Nicholas Heeley|Chiara Cossetti|Reiner Schulte|Luis R. Saraiva|Darren W Logan|Clemence Blouet|Stephen O'Rahilly|Anthony Coll|Giles S. H. Yeo MRC Metabolic Diseases Unit, University of Cambridge Metabolic Research Laboratories;|MRC Metabolic Diseases Unit, University of Cambridge Metabolic Research Laboratories, Wellcome Trust;|Flow Cytometry Core, Cambridge Institute of Medical Research, University of Cambridge;|Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton, Cambridge CB10 1SA, UK
http://dx.doi.org/10.1101/103358 2017-01-26 PGS: a dynamic and automated population-based genome structure software Nan Hua|Harianto Tjong|Hanjun Shin|Ke Gong|Xianghong Jasmine Zhou|Frank Alber University of Southern California
http://dx.doi.org/10.1101/103374 2017-01-26 CC BY-NC TIDE: predicting translation initiation sites by deep learning Sai Zhang|Hailin Hu|Tao Jiang|Lei Zhang|Jianyang Zeng Institute for Interdisciplinary Information Sciences, Tsinghua University;|School of Medicine, Tsinghua University;|Department of Computer Science and Engineering, University of California, Riverside
http://dx.doi.org/10.1101/103572 2017-01-26 Mapping load-bearing in the mammalian spindle reveals local kinetochore-fiber anchorage that provides mechanical isolation and redundancy Mary Williard Elting|Manu Prakash|Dylan B. Udy|Sophie Dumont UCSF;|Stanford
http://dx.doi.org/10.1101/103390 2017-01-26 CC BY-NC-ND Sexual reproduction as bet-hedging Xiang-Yi Li|Jussi Lehtonen|Hanna Kokko University of Zurich;|University of New South Wales
http://dx.doi.org/10.1101/103416 2017-01-26 Array-based sequencing of filaggrin gene for comprehensive detection of disease-associated variants X. F. Colin C Wong|Simon L. I. J. Denil|Jia Nee Foo|Huijia Chen|Angeline S. L. Tay|Rebecca L. Haines|Mark B. Y. Tang|W. H. Irwin McLean|E. Birgitte Lane|Jianjun Liu|John E. Common Institute of Medical Biology;|Nanyang Technological University;|National Skin Centre;|University of Dundee;|Genome Institute of Singapore;|Institute of Medical Biology, A*STAR
http://dx.doi.org/10.1101/102392 2017-01-26 CC BY Genetic effects on chromatin accessibility foreshadow gene expression changes in macrophage immune response Kaur Alasoo|Julia Rodrigues|Subhankar Mukhopadhyay|Andrew J. Knights|Alice L. Mann|Kousik Kundu|HIPSCI Consortium|Christine Hale|Gordon Dougan|Daniel J. Gaffney Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/103556 2017-01-26 CC BY-NC-ND The mitochondrial genomes of the acoelomorph worms Paratomella rubra and Isodiametra pulchra Helen Robertson|Francois Lapraz|Maximilian Telford|Philipp H. Schiffer Department of Genetics, Evolution and Environment, University College London;|CNRS/UMR 7277, Institut de Biologie Valrose, iBV, Universite de Nice Sophia Antipolis
http://dx.doi.org/10.1101/103127 2017-01-26 CC BY-ND The evolution of central dogma of molecular biology: a logic-based dynamic approach Mohieddin Jafari|Mehdi Mirzaie Pasteur Institute of Iran;|Tarbiat Modares University
http://dx.doi.org/10.1101/103382 2017-01-26 Contemporary evolution of a Lepidopteran species, Heliothis virescens, in response to modern agricultural practices Megan L Fritz|Alexandra M Deyonke|Alexie Papanicolaou|Stephen Micinski|John Westbrook|Fred Gould University of Maryland;|North Carolina State University;|Hawkesbury Institute for the Environment;|LSU AgCenter;|USDA Agricultural Research Service
http://dx.doi.org/10.1101/103341 2017-01-26 CC BY Unifying Population and Landscape Ecology with Spatial Capture-recapture J. Andrew Royle|Angela K Fuller|Chris Sutherland USGS Patuxent Wildlife Research Center;|USGS, Dept. of Natural Resources, Cornell University;|University of Massachussetts - Amherst
http://dx.doi.org/10.1101/102897 2017-01-26 CC BY Inferential Learning of Serial Order of Perceptual Categories by Rhesus Monkeys (Macaca mulatta) Natalie Tanner|Greg Jensen|Vincent P Ferrera|Herbert S Terrace Columbia University
http://dx.doi.org/10.1101/103424 2017-01-26 Cryo-Electron Microscopy Structure of the Macrobrachium Rosenbergii Nodavirus Capsid at 7 Angstroms Resolution Kok Lian Ho|Chare Li Kueh|Poay Ling Beh|Wen Siang Tan|David Bhella Universiti Putra Malaysia;|University of Glasgow
http://dx.doi.org/10.1101/103432 2017-01-26 CC BY-ND Neural noise in the age-varying human brain predicts perceptual decisions Leonhard Waschke|Malte Woestmann|Jonas Obleser University of Luebeck
http://dx.doi.org/10.1101/103325 2017-01-26 CC BY-NC Ultra-fast Identity by Descent Detection in Biobank-Scale Cohorts using Positional Burrows-Wheeler Transform Ardalan Naseri|Xiaoming Liu|Shaojie Zhang|Degui Zhi University of Central Florida;|University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/103366 2017-01-26 CC BY-NC-ND Heterogeneity in the tumour size dynamics differentiates Vemurafenib, Dabrafenib and Trametinib in metastatic melanoma Hitesh Mistry|David Orrell|Raluca Eftimie The University Of Manchester;|SystemsForecasting;|University of Dundee
http://dx.doi.org/10.1101/103499 2017-01-26 CC BY-NC-ND The 4D Nucleome Project Job Dekker|Andrew S Belmont|Mitchell Guttman|Victor O Leshyk|John T Lis|Stavros Lomvardas|Leonid A Mirny|Clodagh C O'Shea|Peter J Park|Bing Ren|Joan C Ritland|Jay Shendure|Sheng Zhong University of Massachusetts;|University of Illinois, Urbana-Champaign;|California Institute of Technology;|University of California San Diego;|Cornell University;|Columbia University;|Massachusetts Institute of Technology;|Salk Institute;|Harvard Medical School;|Ludwig Institute for Cancer Research, University of California San Diego;|Fred Hutchinson Cancer Research Center;|University of Washington
http://dx.doi.org/10.1101/103481 2017-01-26 In vivo translatome profiling reveals early defects in ribosome biology underlying SMA pathogenesis Paola Bernabo|Toma Tebaldi|Ewout JN Groen|Fiona M Lane|Elena Perenthaler|Francesca Mattedi|Helen J Newbery|Haiyan Zhou|Paola Zuccotti|Valentina Potrich|Francesco Muntoni|Alessandro Quattrone|Thomas H Gillingwater|Gabriella Viero Institute of Biophysics - CNR;|Centre for Integrative Biology, University of Trento;|Euan MacDonald Centre for Motor Neurone Disease Research, University of Edinburgh;|Dubowitz Neuromuscular Centre, UCL Institute of Child Health
http://dx.doi.org/10.1101/103507 2017-01-26 CC BY-NC-ND Trait correlates of climatic niche tracking in British birds Giovanni Rapacciuolo|Robert A Robinson|Simon Gillings|Andy Purvis Stony Brook University;|British Trust for Ornithology;|Natural History Museum
http://dx.doi.org/10.1101/103457 2017-01-26 CC BY-NC-ND Remodeling Pathway Control of Oxidative Phosphorylation by Temperature in the Heart Helene Lemieux|Pierre U. Blier|Erich Gnaiger University of Alberta, Edmonton;|Universite du Quebec, Rimouski;|Medical University Innsbruck
http://dx.doi.org/10.1101/103473 2017-01-26 CC BY Tomato immune receptor Ve1 recognizes surface-exposed co-localized N- and C-termini of Verticillium dahliae effector Ave1 Yin Song|Zhao Zhang|Jordi Boshoven|Hanna Rovenich|Michael Seidl|Jernej Jakse|Karunakaran Maruthachalam|Chun-Ming Liu|Krishna Subbarao|Branka Javornik|Bart Thomma Wageningen University;|University of Ljubljana;|UC Davis;|Chinese Academy of Sciences, Beijing
http://dx.doi.org/10.1101/103630 2017-01-27 Bioinformatics aBayesQR: A Bayesian method for reconstruction of viral populations characterized by low diversity Soyeon Ahn|Haris Vikalo The University of Texas at Austin
http://dx.doi.org/10.1101/103820 2017-01-27 Bioinformatics CC BY-NC Escape Excel: a tool for preventing gene symbol and accession conversion errors Eric A Welsh|Paul A Stewart|Brent M Kuenzi Moffitt Cancer Center
http://dx.doi.org/10.1101/103515 2017-01-27 Bioinformatics CC BY-ND Health Information Needs and Health Seeking Behavior during the 2014-2016 Ebola Outbreak: A Twitter Content Analysis Michelle Odlum|Sunmoo Yoon Columbia University School of Nursing
http://dx.doi.org/10.1101/103713 2017-01-27 Genetics Applying polygenic risk scoring for psychiatric disorders within a family context Simone de Jong|Mateus Jose Abdalla Diniz|Andiara C Saloma Rodrigues|Ary Gadelha|Marcos L Santoro|Vanessa K Ota|Cristiano Noto|Charles Curtis|Hamel Patel|Lynsey S Hall|Paul F O'Reilly|Sintia I Belangero|Rodrigo Bressan|Gerome Breen King's College London, UK;|Universidade Federal de Sao Paulo, Brazil;|Newcastle University, UK;|King's College London
http://dx.doi.org/10.1101/103754 2017-01-27 Animal Behavior and Cognition CC BY-NC-ND Colour vision models: a practical guide, some simulations, and colourvision R package. Felipe M. Gawryszewski Universidade Federal de Goias
http://dx.doi.org/10.1101/103812 2017-01-27 Bioinformatics CC BY A fast approximate algorithm for mapping long reads to large reference databases Chirag Jain|Alexander Dilthey|Sergey Koren|Srinivas Aluru|Adam M. Phillippy Georgia Institute of Technology;|National Human Genome Research Institute
http://dx.doi.org/10.1101/103531 2017-01-27 Clinical Trials Rapid antidepressant effects of the psychedelic ayahuasca in treatment-resistant depression: a randomised placebo-controlled trial Fernanda Palhano-Fontes|Dayanna Barreto|Heloisa Onias|Katia C Andrade|Morgana Novaes|Jessica Pessoa|Sergio Mota-Rolim|Flavia L Osorio|Rafael Sanches|Rafael dos Santos|Luis Tofoli|Gabriela Silveira|Mauricio Yonamine|Jordi Riba|Francisco RR Santos|Antonio A Silva-Junior|Joao Alchieri|Nicole Galvao-Coelho|Brunoj Lobao-Soares|Jaime Hallak|Emerson Arcoverde|Joao Maia-de-Oliveira|Draulio B de Araujo Federal University of Rio Grande do Norte (UFRN);|University of Sao Paulo;|University of Campinas;|8Sant Pau Institute of Biomedical Research
http://dx.doi.org/10.1101/103762 2017-01-27 Cancer Biology CC BY Comprehensive annotation of BRCA1 and BRCA2 missense variants by functionally validated sequence-based computational prediction models Steven N Hart|Tanya Hoskin|Hermela Shimelis|Raymond Moore|Bingjian Feng|Abigail Thomas|Noralane Lindor|Alvaro Montiero|David Goldgar|Edwin Iversen|Vera Suman|Fergus N Couch Mayo Clinic;|Huntsman Cancer Institute, University of Utah School of Medicine;|Moffit Cancer Center;|Duke University
http://dx.doi.org/10.1101/103747 2017-01-27 Genomics CC BY-ND European Flint reference sequences complement the maize pan-genome Sandra Unterseer|Michael A. Seidel|Eva Bauer|Georg Haberer|Frank Hochholdinger|Nina Opitz|Caroline Marcon|Kobi Baruch|Manuel Spannagl|Klaus F.X. Mayer|Chris-Carolin Schon Plant Breeding, Technical University of Munich, Freising, Germany, 85354;|Plant Genome and System Biology, Helmholtz Center Munich GmbH; Neuherberg, Germany, 85764;|Crop Functional Genomics, Rheinische Friedrich-Wilhelms-Universität Bonn, Bonn, Germany, 53113;|Energin .R Technologies 2009 Ltd (NRGENE), Ness Ziona, Israel, 7403648
http://dx.doi.org/10.1101/102343 2017-01-27 Biophysics CC BY-NC-ND Computing Osmotic Permeabilities of Aquaporins AQP4, AQP5, and GlpF from Near-Equilibrium Simulations Thierry Oscar Wambo|Roberto Alexis Rodriguez|Liao Y Chen University of Texas San Antonio
http://dx.doi.org/10.1101/103770 2017-01-27 Epidemiology The Negev hospital-university-based (HUB) autism database Gal Meiri|Ilan Dinstein|Analya Michaelowski|Hagit Flusser|Michal Ilan|Michal Faroy|Asif Bar-Sinai|Liora Manelis|Dana Stolowicz|Lili Yosef|Nadav Davidovitch|Hava Golan|Shosh Arbelle|Idan Menashe Soroka University Medical Center;|Ben Gurion University
http://dx.doi.org/10.1101/103622 2017-01-27 Genetics Higher genetic risk of schizophrenia is associated with lower cognitive performance in healthy individuals Rebecca Shafee|Pranav Nanda|Jaya L Padmanabhan|Neeraj Tandon|Ney Alliey-Rodriguez|Richard S.E. Keefe|Scot K Hill|Jeffrey R Bishop|Brett A Clementz|Carol A Tamminga|Elliot S Gershon|Godfrey D Pearlson|Matcheri S Keshavan|John A Sweeney|Elise B Robinson|Steven A McCarroll Harvard Medical School;|Columbia University Medical Center;|Beth Israel Deaconess Medical Center;|Baylor College of Medicine, Texas Medical Center;|University of Chicago;|Duke University Medical Center;|Rosalind Franklin University of Medicine and Science;|University of Minnesota;|University of Georgia;|University of Texas Southwestern Medical Center;|Yale University;|Harvard Medical School and Beth Israel Deaconess Medical Center;|University of Cincinnati;|Massachusetts Genereal Hospital, Harvard Medical School and Broad Institute of MIT and Harvard;|Harvard Medical School, Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/103671 2017-01-27 Animal Behavior and Cognition Colour Preferences of UK Garden Birds at Supplementary Seed Feeders Luke Rothery|Graham W Scott|Lesley Morrell University of Hull;|University of Hill
http://dx.doi.org/10.1101/101899 2017-01-27 Neuroscience CC BY Grid cells show field-to-field variability and this explains the aperiodic response of inhibitory interneurons Benjamin Dunn|Daniel Wennberg|Ziwei Huang|Yasser Roudi Kavli Institute for Systems Neuroscience / Centre for Neural Computation, NTNU;|Department of Applied Physics, Stanford University;|Werner Reichardt Centre for Integrative Neuroscience, University of Tubingen
http://dx.doi.org/10.1101/103788 2017-01-27 Neuroscience No evidence of early head circumference enlargements in children later diagnosed with autism in Israel Ilan Dinstein|Shlomi Haar|Shir Atsmon|Hen Schtaerman Ben Gurion University;|Maccabi Health Services
http://dx.doi.org/10.1101/103309 2017-01-27 Neuroscience CC BY-NC-ND Spontaneous development of cerebrovascular pathology and microinfarcts in a mouse model of sickle cell disease. Hyacinth Idu Hyacinth|Cortney L Sugihara|Thomas L Spencer|David R Archer|Andy Y Shih Emory University;|Georgia Institute of Technology;|Medical University of South Carolina
http://dx.doi.org/10.1101/103739 2017-01-27 Evolutionary Biology CC BY High GC Content Causes De Novo Created Proteins to be Intrinsically Disordered Walter Basile|Oxana Sachenkova|Sara Light|Arne Elofsson Stockholm University;|Arne Elofsson
http://dx.doi.org/10.1101/103085 2017-01-27 Bioinformatics CC BY-NC Accessible, curated metagenomic data through ExperimentHub Edoardo Pasolli|Lucas Schiffer|Audrey Renson|Valerie Obenchain|Paolo Manghi|Duy Tin Truong|Francesco Beghini|Faizan Malik|Marcel Ramos|Jennifer B Dowd|Curtis Huttenhower|Martin Morgan|Nicola Segata|Levi Waldron Centre for Integrative Biology, University of Trento, Trento, Italy;|Institute for Implementation Science and Population Health, CUNY, New York, United States of America;|Roswell Park Cancer Institute, University of Buffalo, Buffalo, United States of America;|Biostatistics Department, Harvard School of Public Health, Boston, United States of America
http://dx.doi.org/10.1101/103721 2017-01-27 Ecology CC BY-NC-ND Decreasing before increasing: Evolution of nitrogen availability conditions in French forest ecosystems over the last century according to forest herbs Gabriela Riofrio-Dillon|Jean-Claude Gegout|Romain Bertrand AgroParisTech;|CNRS
http://dx.doi.org/10.1101/103028 2017-01-27 Microbiology Efficacy of the β-lactam\β-lactamase inhibitor combination is linked to WhiB4 mediated changes in redox physiology of Mycobacterium tuberculosis Amit Singh|Saurabh Mishra|Prashant Shukla|Ashima Bhaskar|Kushi Anand|Priyanka Baloni|Rajeev Kumar Jha|Abhilash Mohan|Raju S Rajmani|V Nagaraja|Nagasuma Chandra Indian Institute of Science;|Indian Institute of Science and International Centre for Genetic Engineering and Biotechnology;|National Institute of Immunology;|IISc;|IIsc
http://dx.doi.org/10.1101/103614 2017-01-27 Bioinformatics CC BY-NC Nucleotide sequence and DNaseI sensitivity are predictive of 3D chromatin architecture Jacob Schreiber|Maxwell Libbrecht|Jeffrey Bilmes|William Noble University of Washington
http://dx.doi.org/10.1101/103705 2017-01-27 Ecology CC BY-NC-ND Radiative energy budgets of phototrophic surface-associated microbial communities and their photosynthetic efficiency under diffuse and collimated light Mads Lichtenberg|Kasper Elgetti Brodersen|Michael Kuhl University of Copenhagen, Marine Biological Section, Department of Biology
http://dx.doi.org/10.1101/103689 2017-01-27 Molecular Biology Ribosome reinitiation can explain length-dependent translation of messenger RNA David W. Rogers|Marvin A. Boettcher|Arne Traulsen|Duncan Greig MPI for Evolutionary Biology;|MPI Evolutionary Biology
http://dx.doi.org/10.1101/103606 2017-01-27 Evolutionary Biology CC BY Experimental evidence that thermal selection has shaped the latitudinal distribution of mitochondrial haplotypes in Australian fruit flies Florencia Camus|Jonci N Wolff|Carla M Sgro|Damian K Dowling University College London;|Monash University
http://dx.doi.org/10.1101/103796 2017-01-27 Genomics Spontaneous mutations and transmission distortions of genic copy number variants shape the standing genetic variation in Picea glauca Atef Sahli|Isabelle Giguere|Jean Bousquet|John MacKay University of Oxford, United Kingdom;|Laval University, Canada
http://dx.doi.org/10.1101/103697 2017-01-27 Genomics A miRNA catalogue and ncRNA annotation of the short-living fish Nothobranchius furzeri Mario Baumgart|Emanuel Barth|Aurora Savino|Marco Groth|Philipp Koch|Andreas Petzold|Ivan Arisi|Matthias Platzer|Manja Marz|Alessandro Cellerino Leibniz Institute for Age Research - Fritz Lipmann Institute (FLI);|Friedrich Schiller University Jena;|Babraham Institute;|Dresden University of Technology;|European Brain Research Institute (EBRI);|Scuola Normale Superiore
http://dx.doi.org/10.1101/103655 2017-01-27 Genomics CC BY-NC-ND Revealing the causative variant in Mendelian patient genomes without revealing patient genomes Karthik A Jagadeesh|David J Wu|Johannes A Birgmeier|Dan Boneh|Gill Bejerano Stanford University
http://dx.doi.org/10.1101/103598 2017-01-27 Ecology CC BY Fine-scale landscape genomics of Aedes aegypti reveals loss of Wolbachia transinfection, dispersal barrier and potential for occasional long distance movement Thomas L Schmidt|Igor Filipovic|Ary A Hoffmann|Gordana Rasic University of Melbourne
http://dx.doi.org/10.1101/103663 2017-01-27 Bioinformatics Reverse-complement parameter sharing improves deep learning models for genomics Avanti Shrikumar|Peyton Greenside|Anshul Kundaje Stanford University
http://dx.doi.org/10.1101/103853 2017-01-28 CC BY-NC-ND No evidence for avoidance of black rat scent by the presumably less competitive Natal multimammate mouse in a choice experiment Laura N Cuypers|Wim L Cuypers|Amelie Gildemyn-Blomme|Laura Abraham|Senne Aertbelien|Apia Massawe|Benny Borremans|Sophie Gryseels|Herwig Leirs University of Antwerp;|Sokoine University of Angriculture;|University of California Los Angeles;|University of Antwerp / University of Arizona, Tucson
http://dx.doi.org/10.1101/103465 2017-01-28 Longitudinal samples of bacterial genomes potentially bias evolutionary analyses Brian John Arnold|William P Hanage Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/103994 2017-01-28 Deep Recurrent Neural Network for Protein Function Prediction from Sequence Xueliang (Leon) Liu Harvard University
http://dx.doi.org/10.1101/103648 2017-01-28 A novel Word2vec based tool to estimate semantic similarity of genes by using Gene Ontology terms Dat Duong|Eleazar Eskin|Jessica Li UCLA
http://dx.doi.org/10.1101/103895 2017-01-28 CC BY Is Democracy the Right System? Collaborative Approaches to Building an Engaged RDM Community Marta Teperek|Rosie Higman|Danny Kingsley University of Cambridge
http://dx.doi.org/10.1101/103903 2017-01-28 CC BY-NC-ND Joint estimation of relatedness coefficients and allele frequencies from ancient samples Christoph Theunert|Fernando Racimo|Montgomery Slatkin University of California, United States;|New York Genome Center, United States
http://dx.doi.org/10.1101/103838 2017-01-28 Microbiology CC BY-NC-ND Model communities hint to promiscuous metabolic linkages between ubiquitous free-living freshwater bacteria Sarahi L Garcia|Moritz Buck|Joshua J Hamilton|Christian Wurzbacher|Magnus Alm Alm Rosenblad|Katherine D. D McMahon|Hans-Peter Grossart|Falk Warnecke|Alexander Eiler Uppsala University;|University of Wisconsin-Madison;|University of Gothenburg;|Potsdam University;|Friedrich Schiller University Jena
http://dx.doi.org/10.1101/103929 2017-01-28 Bioinformatics Understanding sequence conservation with deep learning Yi Li|Daniel Quang|Xiaohui Xie University of California, Irvine;|UC Irvine
http://dx.doi.org/10.1101/103861 2017-01-28 Microbiology CC BY Marchantia liverworts as a proxy to plants basal microbiomes. Luis David Alcaraz|Mariana Peimbert|Ana E. Dorantes-Acosta|John L. Bowman|Mario A. Arteaga-Vazquez LANCIS, Instituto de Ecologia, Universidad Nacional Autonoma de Mexico;|Departamento de Ciencias Naturales. Universidad Autonoma Metropolitana, Unidad Cuajimalpa;|University of Veracruz, Institute for Biotechnology and Applied Ecology (INBIOTECA);|Monash University
http://dx.doi.org/10.1101/103911 2017-01-28 Genomics CC BY-ND De Novo PacBio long-read and phased avian genome assemblies correct and add to genes important in neuroscience research Jonas Korlach|Gregory Gedman|Sarah King|Jason Chin|Jason Howard|Lindsey Cantin|Erich D. Jarvis Pacific Biosciences;|Rockefeller University;|Duke University
http://dx.doi.org/10.1101/103937 2017-01-28 Biophysics Astral microtubule dynamics regulate anaphase oscillation onset and set a robust final position of the C. elegans zygote spindle. Helene Bouvrais|Laurent Chesneau|Sylvain Pastezeur|Marie Delattre|Jacques Pecreaux UMR 6290 CNRS / Univ. Rennes 1;|LMBC ENS Lyon / CNRS;|IGDR UMR 6290 CNRS / Univ. Rennes 1
http://dx.doi.org/10.1101/103242 2017-01-28 Microbiology CC BY-NC-ND The ultrastructure of Shewanella oneidensis MR-1 nanowires revealed by electron cryo-tomography Poorna Subramanian|Sahand Pirbadian|Mohamed Y El-Naggar|Grant J Jensen California Institute of Technology;|University of Southern California
http://dx.doi.org/10.1101/103879 2017-01-28 Neuroscience CC BY-NC-ND A computational toolbox and step-by-step tutorial for the analysis of neuronal population dynamics in calcium imaging data Sebastian A. Romano|Veronica Perez-Schuster|Adrien Jouary|Alessia Candeo|Jonathan Boulanger-Weill|German Sumbre IBIOBA - CONICET - Partner Institute of the Max Planck Society, Buenos Aires, Argentina.;|Facultad de Ciencias Exactas y Naturales, UBA, IFIBYNE-CONICET, Buenos Aires, Argentina.;|IBENS, 75005 Paris, France
http://dx.doi.org/10.1101/104091 2017-01-29 CC BY Information seeking and simulation: Roles of attention in guiding a goal-directed behavior Rei Akaishi|Eiji Hoshi Department of Brain and Cognitive Sciences and Center for Visual Science, University of Rochester;|Tokyo Metropolitan Institute of Medical Science
http://dx.doi.org/10.1101/103564 2017-01-29 CC BY-NC-ND Transcriptional response to West Nile virus infection in the zebra finch (Taeniopygia guttata), a songbird model for immune function Daniel Newhouse|Erik K Hofmeister|Christopher N Balakrishnan East Carolina University;|USGS National Wildlife Health Center
http://dx.doi.org/10.1101/104109 2017-01-29 CC BY-NC-ND THiCweed: fast, sensitive motif finding by clustering big data sets Ankit Agrawal|Leelavati Narlikar|Rahul Siddharthan The Institute of Mathematical Sciences, Chennai, India;|CSIR National Chemical Laboratory, Pune, India
http://dx.doi.org/10.1101/102103 2017-01-29 Plant Biology Arabidopsis JASMONATE-INDUCED OXYGENASES down-regulate plant immunity by hydroxylation and inactivation of the hormone jasmonic acid Lotte Caarls|Joyce Elberse|Mo Awwanah|Nora R. Ludwig|Michel de Vries|Tieme Zeilmaker|Saskia C.M. Van Wees|Robert C. Schuurink|Guido Van den Ackerveken Utrecht University;|University of Amsterdam
http://dx.doi.org/10.1101/104075 2017-01-29 Bioinformatics CC BY Improving the performance of minimizers and winnowing schemes Guillaume Marcais|David Pellow|Daniel Bork|Yaron Orenstein|Ron Shamir|Carl Kingsford Carnegie Mellon University;|Blavatnik School of Computer Science, Tel-Aviv University;|Computational Biology Department, Carnegie Mellon University;|Computer Science and Artificial Intelligence Laboratory, MIT
http://dx.doi.org/10.1101/103986 2017-01-29 Genetics CC BY-ND Semiparametric methods for estimation of a non-linear exposure-outcome relationship using instrumental variables with application to Mendelian randomization James R Staley|Stephen Burgess University of Cambridge
http://dx.doi.org/10.1101/104059 2017-01-29 Bioinformatics CC BY-NC Outlier detection for improved differential splicing quantification from RNA-Seq experiments with replicates Scott Norton|Jorge Vaquero-Garcia|Yoseph Barash University of Pennsylvania;|University of Pennsylvania
http://dx.doi.org/10.1101/104067 2017-01-29 Bioinformatics CC BY-NC Genome-wide Search for Zelda-like Chromatin Signatures Identifies GAF as a Pioneer Factor in Early Fly Development Arbel Moshe|Tommy Kaplan The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/104034 2017-01-29 Bioinformatics CC BY-NC-ND Linclust: clustering protein sequences in linear time Martin Steinegger|Johannes Soding Max-Planck Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/104083 2017-01-29 Molecular Biology CC BY DNA topology in chromatin is defined by nucleosome spacing Tatiana Nikitina|Davood Norouzi|Sergei A. Grigoryev|Victor B. Zhurkin Laboratory of Cell Biology, CCR, National Cancer Institute, NIH, Bethesda, MD, USA;|Department of Biochemistry and Molecular Biology, Pennsylvania State University College of Medicine,
http://dx.doi.org/10.1101/104570 2017-01-31 Genomics CC BY-NC Co-adaption of tRNA Gene Copy Number and Amino Acid Usage Influences Translation Rates in Three Life Domains Meng-Ze Du|Wen Wei|Lei Qin|Liu Shuo|An-Ying Zhang|Yong Zhang|Hong Zhou|Feng-Biao Guo School of Life Science and Technology, University of Electronic Science and Technology of China
http://dx.doi.org/10.1101/104463 2017-01-31 Neuroscience CC BY-NC-ND Ultrasound elicits behavioral responses through mechanical effects on neurons and ion channels in a simple nervous system Jan Kubanek|Poojan Shukla|Alkananda Das|Stephen Baccus|Miriam B. B Goodman Stanford University
http://dx.doi.org/10.1101/104562 2017-01-31 Neuroscience CC BY-NC A spiral attractor network drives locomotion in Aplysia Angela M Bruno|William N Frost|Mark D Humphries Rosalind Franklin University of Medicine and Science;|University of Manchester
http://dx.doi.org/10.1101/104588 2017-01-31 Neuroscience CC BY-NC-ND NMDAR hypofunction increases top-down influence on sensory processing Adam Ranson|Eluned Broom|Anna Powell|Jeremy Hall Cardiff University Neurosciences & Mental Health Research Institute;|Cardiff University
http://dx.doi.org/10.1101/104539 2017-01-31 Developmental Biology CC BY Gastruloids develop the three body axes in the absence of extraembryonic tissues and spatially localised signalling David Turner|Luz Alonso-Crisostomo|Mehmet Girgin|Peter Baillie-Johnson|Cherise R Glodowski|Penelope C Hayward|Jerome Collignon|Carsten Gustavsen|Palle Serup|Benjamin Steventon|Matthias Lutolf|Alfonso Martinez Arias Department of Genetics, University of Cambridge;|Institute of Bioengineering, Ecole Polytechnique Fédérale;|Université Paris-Diderot, CNRS, Institut Jacques Monod, Development & Neurobiology Program;|Danish Stem Cell Center, University of Copenhagen, DK-2200 Copenhagen, Denmark
http://dx.doi.org/10.1101/104547 2017-01-31 Neuroscience Auditory prediction errors as individual biomarkers of schizophrenia Jeremy A Taylor|Natasha Matthews|Patricia T Michie|Maria J Rosa|Marta I Garrido University of Queensland;|University of Newcastle;|University College London
http://dx.doi.org/10.1101/104513 2017-01-31 Ecology Adaptation to warming increases the strength of an algal-grazer interaction in naturally heated streams C.Elisa Schaum|Richard Ffrench-Constant|Chris Lowe|Jon S Olafsson|Daniel Padfield|Gabriel Yvon-Durocher University of Exeter;|Marine and Freshwater Research Institute Reykjavik
http://dx.doi.org/10.1101/104554 2017-01-31 Plant Biology CC BY-NC-ND Medicago truncatula copper transporter1 (MtCOPT1) delivers copper for symbiotic nitrogen fixation Marta Senovilla|Rosario Castro-Rodriguez|Isidro Abreu|Viviana Escudero|Igor S Kryvoruchko|Michael Udvardi|Juan Imperial|Manuel Gonzalez-Guerrero Centro de Biotecnologia y Genomica de Plantas (UPM-INIA);|The Samuel Roberts Noble Foundation;|Consejo Superior de Investigaciones Cientificas
http://dx.doi.org/10.1101/104471 2017-01-31 Cell Biology Multiple kinesin-14 family members drive microtubule minus-end-directed transport in plant cells Moe Yamada|Yohko Tanaka-Takiguchi|Masahito Hayashi|Momoko Nishina|Gohta Goshima Nagoya University
http://dx.doi.org/10.1101/104216 2017-01-31 Evolutionary Biology CC BY-NC-ND Selection at the pathway level drives the evolution of gene-specific transcriptional noise Gustavo V. Barroso|Natasa Puzovic|Julien Y. Dutheil Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/104356 2017-01-31 Developmental Biology Macrophages are required to coordinate mouse digit tip regeneration Ken Muneoka|Jennifer Simkin|Mimi Sammarco|Luis Marrero|Lindsay Dawson|Mingquan Yan|Catherine Tucker|Alex Cammack Texas A&M University;|University of Kentucky;|Tulane University School of Medicine;|LSU Health Sciences Center;|Tulane University
http://dx.doi.org/10.1101/104372 2017-01-31 Plant Biology T-DNA integration is rapid and influenced by the chromatin state of the host genome. Shay Shilo|Pooja Tripathi|Cathy Melamed-Bessudo|Oren Tzfadia|Theodore R Muth|Avraham Albert Levy Weizmann Institute of Science
http://dx.doi.org/10.1101/104430 2017-01-31 Neuroscience Distinct contributions by frontal and parietal cortices support working memory Wayne Mackey|Clayton E Curtis New York University
http://dx.doi.org/10.1101/104422 2017-01-30 Bioinformatics CC BY Parallel power posterior analyses for fast computation of marginal likelihoods in phylogenetics Sebastian Hoehna|Michael L Landis|John P Huelsenbeck UC Berkeley;|Yale University
http://dx.doi.org/10.1101/104455 2017-01-30 Bioengineering CC BY-NC-ND Expressing Biologically Active Membrane Proteins in a Cell-Free Transcription-Translation Platform Shaobin Guo|Amit Vaish|Qing Chen|Richard M Murray California Institute of Technology;|Amgen Inc.
http://dx.doi.org/10.1101/104364 2017-01-30 Genomics CC BY Universal correction of enzymatic sequence bias Andre L Martins|Ninad M Walavalkar|Warren D Anderson|Chongzhi Zang|Michael J Guertin University of Virginia
http://dx.doi.org/10.1101/104398 2017-01-30 Developmental Biology A toolkit for tissue-specific protein degradation in C. elegans Shaohe Wang|Ngang Heok Tang|Pablo Lara-Gonzalez|Bram Prevo|Dhanya K Cheerambathur|Andrew D Chisholm|Arshad Desai|Karen Oegema National Institutes of Health;|University of California, San Diego;|Ludwig Institute for Cancer Research/UCSD
http://dx.doi.org/10.1101/104000 2017-01-30 Epidemiology CC BY Probabilistic forecasting in infectious disease epidemiology: The thirteenth Armitage lecture Leonhard Held|Sebastian Meyer|Johannes Bracher University of Zurich;|Friedrich-Alexander-Universität Erlangen-Nürnberg
http://dx.doi.org/10.1101/104232 2017-01-30 Neuroscience Consistent local dynamics in the brain across sessions are revealed by whole brain modeling of resting state activity Patricio A Donnelly-Kehoe|Victor M Saenger|Nina Lisofsky|Simone Kuhn|Morten L Kringelbach|Jens Schwarzbach|Gustavo Deco CIFASIS-CONICET;|Universitat Pompeu Fabra;|Center for Lifespan Psychology, Max Planck Institute for Human Development;|Department of Psychiatry, University of Oxford, Oxford, UK;|Department of Psychiatry and Psychotherapy, University of Regensburg, Germany;|Center for Brain and Cognition, Computational Neuroscience Group
http://dx.doi.org/10.1101/104133 2017-01-30 Ecology CC BY Fighting over food unites the birds of North America in a continental dominance hierarchy Eliot T Miller|David N Bonter|Charles Eldermire|Benjamin G Freeman|Emma I Greig|Luke J Harmon|Curtis Lisle|Wesley M Hochachka Cornell Lab of Ornithology, University of Idaho;|Cornell Lab of Ornithology;|University of British Columbia;|University of Idaho;|KnowledgeVis
http://dx.doi.org/10.1101/104158 2017-01-30 Cancer Biology Allele Frequency Spectrum in a Cancer Cell Population Hisashi Ohtsuki|Hideki Innan SOKENDAI, Japan
http://dx.doi.org/10.1101/104349 2017-01-30 Biochemistry CC BY-NC-ND Cannabinoid glycosides: In vitro production of a new class of cannabinoids with improved physicochemical properties Janee' M. Hardman|Robert T. Brooke|Brandon J. Zipp Vitality Biopharma Inc.;|Vitality Biopharma, Inc.
http://dx.doi.org/10.1101/104323 2017-01-30 Genomics CC BY-NC-ND Regulatory DNA in A. thaliana can tolerate high levels of sequence divergence Cristina M Alexandre|James R Urton|Ken Jean-Baptiste|Michael W Dorrity|Joshua C Cuperus|Alessandra M Sullivan|Felix Bemm|Dino Jolic|Andrej A Arsovski|Agnieszka Thompson|Jennifer L Nemhauser|Stanley Fields|Detlef Weigel|Kerry L Bubb|Christine Queitsch University of Washington;|Altius Institute for Biomedical Sciences;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/102996 2017-01-30 Plant Biology CC BY Host autophagosomes are diverted to a plant-pathogen interface Yasin Dagdas|Pooja Pandey|Nattapong Sanguankiattichai|Yasin Tumtas|Khaoula Belhaj|Cian Duggan|Maria Segretin|Sophien Kamoun|Tolga Osman Bozkurt The Gregor Mendel Institute;|Imperial College London;|The Sainsbury Laboratory;|INGEBI-CONICET, Ciudad Auto ́noma de Buenos Aires
http://dx.doi.org/10.1101/104166 2017-01-30 Neuroscience Gender-specific brain activation during visual art perception Beatrice de Gelder|Rebecca Watson|Minye Zhan|Matteo Diano|Marco Tamietto|Maarten Vaessen Maastricht University;|University of Torino
http://dx.doi.org/10.1101/104281 2017-01-30 Pharmacology and Toxicology CC BY Approaches for calculating solvation free energies and enthalpies demonstrated with an update of the FreeSolv database Guilherme Duarte Ramos Matos|Daisy Y. Kyu|Hannes H. Loeffler|John D. Chodera|Michael R. Shirts|David Mobley University of California, Irvine;|STFC Daresbury;|Memorial Sloan Kettering Cancer Center;|University of Colorado, Boulder;|Departments of Pharmaceutical Sciences and Chemistry
http://dx.doi.org/10.1101/103952 2017-01-30 Bioinformatics CC BY-NC A tandem simulation framework for predicting mapping quality Ben Langmead Johns Hopkins University
http://dx.doi.org/10.1101/104257 2017-01-30 Genomics Shorter unreported sequences in a RACE-Seq study involving seven tissues confirms ~150 novel transcripts identified in MCF-7 cell line PacBio transcriptome, leaving ~100 non-redundant transcripts exclusive to the cancer cell line Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/104182 2017-01-30 Systems Biology CC BY WIDE-SCALE COMPARATIVE ANALYSIS OF LONGEVITY GENES AND GENETIC INTERVENTIONS Hagai Yanai|Arie Budovsky|Thomer Barzilay|Robi Tacutu|Vadim E Fraifeld Ben-Gurion University of the Negev;|Technological Center, Biotechnology Unit;|Computational Biology of Aging Group, Institute of Biochemistry, Romanian Academy
http://dx.doi.org/10.1101/102509 2017-01-30 Microbiology A non-catalytic role of RecBCD in Homology Directed Gap Repair and Translesion Synthesis Luisa Laureti|Lara Lee|GAELLE PHILIPPIN|Vincent Pages CNRS, UMR7258
http://dx.doi.org/10.1101/104315 2017-01-30 Microbiology T3SS effector VopL inhibits the host ROS response, promoting the intracellular survival of Vibrio parahaemolyticus Marcela de Souza Santos|Dor Salomon|Kim Orth University of Texas Southwestern Medical Center;|Howard Hughes Medical Institute, University of Texas Southwestern Medical Center,
http://dx.doi.org/10.1101/104224 2017-01-30 Microbiology CC BY-NC-ND In-Depth Resistome Analysis by Targeted Metagenomics Val F Lanza|Fernando Baquero|Jose Luis Martinez|Ricardo Ramos-Ruiz|Bruno Gonzalez-Zorn|Antoine Andremont|Antonio Sanchez-Valenzuela|Dusko Ehrlich|Sean Kennedy|Etienne Ruppe|Willem van Schaik|Rob J Willems|Fernando de la Cruz|Teresa M Coque Servicio de Microbiologia, Hospital Universitario Ramon y Cajal University Hospital, Ramon y Cajal;|Centro Nacional de Biotecnologia. CSIC. Darwin 3. 28049-Madrid. Spain;|Genomics Unit, Science Park, Madrid;|Facultad de Veterinaria Universidad Complutense de Madrid, Spain;|IAME, UMR 1137, INSERM, Paris Diderot University, Sorbonne Paris Cite, Bacteriologie Laboratory;|MGP MetaGenoPolis, INRA, Universite Paris-Saclay, 78350 Jouy-en-Josas, France;|Department of Medical Microbiology, University Medical Center Utrecht, The Netherlands;|Departamento de Biologia Molecular, Universidad de Cantabria and IBBTEC
http://dx.doi.org/10.1101/104208 2017-01-30 Microbiology Toxoplasma gondii AP2IX-4 regulates gene expression during bradyzoite development Sherri Huang|Michael J Holmes|Joshua B Radke|Dong-Pyo Hong|Ting-Kai Liu|Michael W White|William J Sullivan Indiana University School of Medicine;|University of South Florida
http://dx.doi.org/10.1101/104299 2017-01-30 Developmental Biology The differential spatiotemporal expression pattern of shelterin genes throughout lifespan Kay-Dietrich Wanger|Yilin Ying|Waiian Leong|Jie Jiang|Xuefei Hu|Yi Chen|Jean-Francois Michiels|Yiming Lu|Eric Gilson|Nicole Wagner|Jing Ye Institut for Research on Cancer and Aging, Nice;|Shanghai Ruijin Hospital
http://dx.doi.org/10.1101/104190 2017-01-30 Neuroscience Fiber tractography using machine learning Peter Florian Neher|Marc-Alexandre Cote|Jean-Christophe Houde|Maxime Descoteaux|Klaus H. Maier-Hein Medical Image Computing (MIC), German Cancer Research Center (DKFZ), Heidelberg, Germany;|Sherbrooke Connectivity Imaging Laboratory (SCIL), Universite de Sherbrooke, Sherbrooke, Canada
http://dx.doi.org/10.1101/104026 2017-01-30 Microbiology The immunomodulatory CEA cell adhesion molecule 6 (CEACAM6/CD66c) is a candidate receptor for the influenza A virus Shah Kamranur Rahman|Mairaj Ahmed Ansari|Pratibha Gaur|Imtiyaz Ahmad|Chandrani Chakravarty|Dileep Kumar Verma|Sanjay Chhibber|Naila Nehal|Shanmugaapriya Sellathanby|Dagmar Wirth|Gulam Waris|Sunil K. Lal London School of Hygiene and Tropical Medicine;|Rosalind Franklin University of Medicine and Science, Chicago Medical School, North Chicago;|Helmholtz Centre for Infection Research, Braunschweig, Germany;|Virology Group, International Centre for Genetic Engineering & Biotechnology, New Delhi, India;|Department of Biomedical Science, Bharathidasan University, Trichy, India;|Microbiology Department, Panjab University, Chandigarh, India;|Career Institute of Medical & Dental Sciences and Hospital, Lucknow, India;|School of Science, Monash University, Selangor DE, Malaysia
http://dx.doi.org/10.1101/104307 2017-01-30 Developmental Biology CC BY Olig2 and Hes regulatory dynamics during motor neuron differentiation revealed by single cell transcriptomics Andreas Sagner|Zachary Gaber|Julien Delile|Jennifer H Kong|David L Rousso|Caroline A Pearson|Steven E Weicksel|Neda Mousavy Gharavy|James Briscoe|Bennett Novitch The Francis Crick Institute;|University of California, Los Angeles
http://dx.doi.org/10.1101/104885 2017-01-31 Explicit Modeling of RNA Stability Improves Large-Scale Inference of Transcription Regulation Konstantine Tchourine|Christine Vogel|Richard Bonneau New York University;|NYU & Simons
http://dx.doi.org/10.1101/104901 2017-01-31 CC BY-NC A Multi-Parameter Analysis of Cellular Coordination of Multiple Transcriptome Regulation Mechanisms Wendy Jiang|Zhanyong Guo|Nuno Lages|Wenjin J. Zheng|Denis Feliers|Fangyuan Zhang|Degeng Wang Texas Tech University;|Henan Agricultural University;|Universidade de Lisboa;|University of Texas Health Science Center at Houston;|University of Texas Health Science Center at San Antonio
http://dx.doi.org/10.1101/104737 2017-01-31 CC BY Using computational theory to constrain statistical models of neural data Scott W Linderman|Samuel J Gershman Columbia University;|Harvard University
http://dx.doi.org/10.1101/104869 2017-01-31 CC BY-NC Integrative Deep Models for Alternative Splicing Anupama Jha|Matthew R Gazzara|Yoseph Barash University of Pennsylvania
http://dx.doi.org/10.1101/104752 2017-01-31 CC BY-ND Exploration and recency as the main proximate causes of probability matching: a reinforcement learning analysis Carolina Feher da Silva|Camila Gomes Victorino|Nestor Caticha|Marcus Vinicius Chrysostomo Baldo University of São Paulo;|University of Surrey;|University of Oxford
http://dx.doi.org/10.1101/104810 2017-01-31 CC BY-NC-ND scRNASeqDB: a database for gene expression profiling in human single cell by RNA-seq Yuan Cao|Junjie Zhu|Guangchun Han|Peilin Jia|Zhongming Zhao School of Biomedical Informatics, he University of Texas Health Science Center at Houston;|Department of Electrical Engineering, Stanford University
http://dx.doi.org/10.1101/104786 2017-01-31 CC BY Statistical Correction of the Winner's Curse Explains Replication Variability in Quantitative Trait Genome-Wide Association Studies Cameron Palmer|Itsik Pe'er Columbia University Medical Center;|Columbia University
http://dx.doi.org/10.1101/104778 2017-01-31 CC BY Engaging narratives evoke similar neural activity and lead to similar time perception Samantha S Cohen|Simon Henin|Lucas C Parra The Graduate Center of the City University of New York;|The City College of the City University of New York
http://dx.doi.org/10.1101/104695 2017-01-31 CC BY Meta-analysis of the variance ratio Nicolas Traut Institut Pasteur
http://dx.doi.org/10.1101/104711 2017-01-31 Pharmacology and Toxicology CC BY-NC-ND Progress Towards a Public Chemogenomic Set for Protein Kinases and a Call for Contributions David H Drewry|Carrow I Wells|David M Andrews|Richard Angell|Hassan Al-Ali|Alison D Axtman|Stephen J Capuzzi|Jonathan M Elkins|Peter Ettmayer|Mathias Frederiksen|Opher Gileadi|Nathanael Gray|Alice Hooper|Stefan Knapp|Stefan Laufer|Ulrich Luecking|Susanne Muller|Eugene Muratov|R. Aldrin Denny|Kumar S Saikatendu|Daniel K Treiber|William J Zuercher|Timothy M Willson Structural Genomics Consortium, UNC Eshelman School of Pharmacy, UNC Chapel Hill;|Astra Zeneca;|Drug Discovery Group, Translational Research Office, University College London School of Pharmacy;|University of Miami Miller School of Medicine;|Laboratory for Molecular Modeling, UNC Eshelman School of Pharmacy, UNC at Chapel Hill;|Structural Genomics Consortium, Universidade Estadual de Campinas - UNICAMP;|Boehringer Ingelheim RCV GmbH & Co KG;|Novartis Institutes for BioMedical Research;|Structural Genomics Consortium and Target Discovery Institute, U. of Oxford;|Harvard Department of Biological Chemistry and Molecular Pharmacology;|Buchmann Inst for Molecular Life Sciences, Institute of Pharmaceutical Chemistry, Goethe University;|Department of Pharmaceutical Chemistry,Eberhard Karls Universitat Tubingen;|Bayer Pharma AG, Drug Discovery;|Worldwide Medicinal Chemistry, Pfizer Inc;|Global Research Externalization, Takeda California, Inc.;|DiscoverX Corporation
http://dx.doi.org/10.1101/104331 2017-01-31 Microbiology CC BY-NC Functional Genes That Distinguish Maize Phyllosphere Metagenomes in Drought and Well-Watered Conditions Barbara A Methe|Kelvin Li|Stephen P Talley|Neha Gupta|Bryan Frank|Wenwei Xu|Stuart G Gordon|Brad W Goodner|Ann E Stapleton JCVI;|UNCW;|Texas A&M Agrilife Reserach;|Presbyterian College;|Hiram University;|University of North Carolina Wilmington
http://dx.doi.org/10.1101/104679 2017-01-31 Biophysics Asymmetric adhesion of rod-shaped bacteria controls microcolony morphogenesis Marie-Cecilia Duvernoy|Thierry Mora|Maxime Ardre|Vincent Croquette|David Bensimon|Catherine Quilliet|Jean-Marc Ghigo|Martial Balland|Christophe Beloin|Sigolene Lecuyer|Nicolas Desprat LPS, ENS/LIPHY, UGA;|LPS, ENS;|LIPHY, UGA;|Institut Pasteur
http://dx.doi.org/10.1101/104612 2017-01-31 Ecology CC BY-NC-ND Phylogenetic analyses reveal an increase in the speciation rate of raphid pennate diatoms in the Cretaceous Alexandra Castro-Bugallo|Danny Rojas|Sara Rocha|Pedro Cermeno Institute of Marine Sciences;|Department of Biology and Centre for Environmental and Marine Studies;|Department of Biochemistry, Genetics and Immunology
http://dx.doi.org/10.1101/104521 2017-01-31 Neuroscience CC BY-NC-ND Boredom begets creativity: a solution to the exploitation-exploration trade-off in predictive coding Jaime Gomez-Ramirez|Tommaso Costa The Hospital fo Sick Children;|University of Turin
http://dx.doi.org/10.1101/104620 2017-01-31 Microbiology CC BY Identifying the abundant and active microorganisms common to full scale anaerobic digesters Rasmus Hansen Kirkegaard|Simon Jon McIlroy|Jannie Munk Kristensen|Marta Nierychlo|Soeren Michael Karst|Morten Simonsen Dueholm|Mads Albertsen|Per Halkjaer Nielsen Aalborg University
http://dx.doi.org/10.1101/104687 2017-01-31 Neuroscience CC BY-NC-ND Process reveals structure: How a network is traversed mediates expectations about its architecture Elisabeth A. Karuza|Ari E. Kahn|Sharon L. Thompson-Schill|Danielle S. Bassett University of Pennsylvania
http://dx.doi.org/10.1101/104604 2017-01-31 Evolutionary Biology Genome-wide signatures of genetic variation within and between populations - a comparative perspective Nagarjun Vijay|Matthias Weissensteiner|Reto Burri|Takeshi Kawakami|Hans Ellegren|Jochen B. W Wolf Department of Evolutionary Biology and SciLifeLab, Uppsala University, Norbyvagen 18D, 75236 Uppsala
http://dx.doi.org/10.1101/104497 2017-01-31 Bioinformatics CC BY Bootstrap Distillation: Non-parametric Internal Validation of GWAS Results by Subgroup Resampling David A Eccles|Rodney A Lea|Geoffrey K Chambers Malaghan Institute of Medical Research;|Institute of Health and Biomedical Innovation, Queensland University of Technology;|Victoria University of Wellington
http://dx.doi.org/10.1101/104646 2017-01-31 Cell Biology CC BY-NC-ND A checkpoint roadmap for the complex cell division of Apicomplexa parasites Carmelo A Alvarez|Elena S Suvorova University of South Florida
http://dx.doi.org/10.1101/104703 2017-01-31 Neuroscience Generalized Leaky Integrate-And-Fire Models Classify Multiple Neuron Types Corinne Teeter|Ramakrishnan Iyer|Vilas Menon|Nathan Gouwens|David Feng|Jim Berg|Nicholas Cain|Christof Koch|Stefan Mihalas Allen Institute for Brain Science;|Jenelia Research Campus
http://dx.doi.org/10.1101/104406 2017-01-31 Epidemiology CC BY-NC-ND A general goodness-of-fit test for survival analysis Michael Holton Price|James Holland Jones Pennsylvania State University;|Stanford Univeristy
http://dx.doi.org/10.1101/105064 2017-02-01 CC BY High-throughput annotation of full-length long noncoding RNAs with Capture Long-Read Sequencing (CLS) Julien Lagarde|Barbara Uszczynska-Ratajczak|Silvia Carbonell|Carrie Davis|Thomas R Gingeras|Adam Frankish|Jennifer Harrow|Roderic Guigo|Rory Johnson Center for Genomic Regulation, Spain;|qGenomics, Spain;|Cold Spring Harbor Laboratory, USA;|Wellcome Trust Sanger Institute, UK
http://dx.doi.org/10.1101/105114 2017-02-01 CC BY-NC Effects of Historical Coinfection on Host Shift Abilities of Exploitative and Competitive Viruses Sonia Singhal|Paul Turner University of Washington, Seattle;|Yale University
http://dx.doi.org/10.1101/104984 2017-02-01 CC BY Cerebellar volume in autism: Meta-analysis and analysis of the ABIDE cohort Nicolas Traut|Anita Beggiato|Thomas Bourgeron|Richard Delorme|Laure Rondi-Reig|Anne-Lise Paradis|Roberto Toro Institut Pasteur;|Hôpital Robert Debré;|Sorbonne Universités
http://dx.doi.org/10.1101/105122 2017-02-01 CC BY-NC-ND Bayesian analysis of genetic association across tree-structured routine healthcare data in the UK Biobank Adrian Cortes|Calliope Dendrou|Allan Motyer|Luke Jostins|Damjan Vukcevic|Alexander Dilthey|Peter Donnelly|Stephen Leslie|Lars Fugger|Gil McVean Wellcome Trust Centre for Human Genetics, University of Oxford;|Oxford Centre for Neuroinflammation, University of Oxford;|Centre for Systems Genomics, University of Melbourne
http://dx.doi.org/10.1101/105049 2017-02-01 CC BY Compaction of Duplex Nucleic Acids upon Native Electrospray Mass Spectrometry Massimiliano Porrini|Frederic Rosu|Clemence Rabin|Leonardo Darre|Hansel Gomez|Modesto Orozco|Valerie Gabelica Inserm;|CNRS;|Institute for Research in Biomedicine (IRB) Barcelona
http://dx.doi.org/10.1101/104976 2017-02-01 CC BY-ND Insights into the genetic determinism and evolution of recombination rates from combining multiple genome-wide datasets in Sheep Morgane Petit|Jean-Michel Astruc|Julien Sarry|Laurence Drouilhet|Stephane Fabre|Carole Moreno|Bertrand Servin INRA GenPhySE;|Institut de l'Elevage
http://dx.doi.org/10.1101/080614 2017-02-01 SkinnerTrax: high-throughput behavior-dependent optogenetic stimulation of Drosophila Ulrich Stern|Chung-Hui Yang Independent Researcher;|Dept. of Neurobiology, Duke University
http://dx.doi.org/10.1101/105080 2017-02-01 Genome-wide detection of structural variants and indels by local assembly Jeremiah Wala|Pratiti Bandopadhayay|Noah Greenwald|Ryan O'Rourke|Ted Sharpe|Chip Stewart|Steven E Schumacher|Yilong Li|Joachim Weischenfeldt|Xiaotong Yao|Chad Nusbaum|Peter Campbell|Matthew Meyerson|Cheng-Zhong Zhang|Marcin Imielinski|Rameen Beroukhim Broad Institute;|Dana Farber Cancer Institute;|Brigham and Women's Hospital;|University of Cambridge;|Rigshospitalet;|Cornell University;|Harvard Medical School;|NY Genome Center
http://dx.doi.org/10.1101/104505 2017-02-01 Partitioning the effects of eco-evolutionary feedbacks on community stability Swati Patel|Michael H Cortez|Sebastian J Schreiber University of California Davis;|Utah State University
http://dx.doi.org/10.1101/104851 2017-02-01 Microbiology CC BY-NC Antibiotic resistance genes in agriculture and urban influenced watersheds in southwestern British Columbia Miguel Ignacio Uyaguari|Matthew A Croxen|Zhiyao Luo|Kirby Cronin|Michael Chan|Waren N Baticados|Matthew J Nesbitt|Shaorong Li|Kristi Miller|Damion Dooley|William Hsiao|Judith L Isaac-Renton|Patrick Tang|Natalie Prystajecky Department of Pathology and Laboratory Medicine, The University of British Columbia;|British Columbia Centre for Disease Control Public Health Laboratory;|Public Health Ontario Laboratories;|Coastal Genomics;|Pacific Biological Station;|Department of Pathology, Sidra Medical and Research Center
http://dx.doi.org/10.1101/104935 2017-02-01 Bioinformatics CC BY propr: An R-package for Identifying Proportionally Abundant Features Using Compositional Data Analysis Thomas Quinn|Mark F Richardson|David Lovell|Tamsyn Crowley Bioinformatics Core Research Group, Deakin University, Geelong, Victoria, Australia;|Queensland University of Technology, Brisbane, Queensland, Australia
http://dx.doi.org/10.1101/105023 2017-02-01 Genetics CC BY-NC-ND CRISPR-Cas9 targeted disruption of the yellow ortholog in the housefly identifies the brown body locus Svenia D Heinze|Tea Kohlbrenner|Domenica Ippolito|Angela Meccariello|Alexa Burger|Christian Mosimann|Giuseppe Saccone|Daniel Bopp University of Zurich;|University of Fribourg;|University of Naples Federico II
http://dx.doi.org/10.1101/104893 2017-02-01 Neuroscience CC BY-NC-ND Conserved properties of Drosophila Insomniac link sleep regulation and synaptic function Qiuling Li|David A Kellner|Hayden A M Hatch|Tomohiro Yumita|Sandrine Sanchez|Robert P Machold|C Andrew Frank|Nicholas Stavropoulos New York University School of Medicine;|University of Iowa Carver College of Medicine
http://dx.doi.org/10.1101/104596 2017-02-01 Molecular Biology Polysome-profiling in small tissue samples Shuo Liang|Hermano Bellato|Julie Lorent|Fernanda Lupinacci|Vincent Van Hoef|Laia Masvidal|Glaucia Hajj|Ola Larsson Karolinska Institutet;|A.C. Camargo Cancer Center
http://dx.doi.org/10.1101/102764 2017-02-01 Genomics CC BY-ND Rapid Automated Large Structural Variation Detection in a Diploid Genome by NanoChannel Based Next-Generation Mapping Alex R Hastie|Ernest T Lam|Andy Wing Chun Pang|Luna Xinyue Zhang|Warren Andrews|Joyce Lee|Tiffany Y Liang|Jian Wang|Xiang Zhou|Zhanyang Zhu|Thomas Anantharaman|Zeljko Zdzakula|Sven Bocklandt|Urvashi Surti|Michael Saghbini|Mike Austin|Mark Borodkin|R. Erik Holmlin|Han Cao Bionano Genomics;|University of Pittsburg;|Bionanogenomics.com;|Bionanogenomics
http://dx.doi.org/10.1101/104927 2017-02-01 Developmental Biology CC BY BMP signaling orchestrates a transcriptional network to control the fate of mesenchymal stem cells (MSCs) Jifan Feng|Junjun Jing|Jingyuan Li|Hu Zhao|Vasu Punj|Tingwei Zhang|Jian Xu|Yang Chai University of Southern California
http://dx.doi.org/10.1101/104745 2017-02-01 Developmental Biology Morphogen signalling patterns calcium waves in the Drosophila wing disc Qinfeng Wu|Pavel Brodskiy|Cody Narciso|Megan Levis|Ninfamaria Arredondo-Walsh|Jeremiah James Zartman University of Notre Dame
http://dx.doi.org/10.1101/105338 2017-02-02 CC BY Mendelian randomization: a novel approach for the prediction of adverse drug events and drug repurposing opportunities Venexia M Walker|George Davey Smith|Neil M Davies|Richard M Martin University of Bristol
http://dx.doi.org/10.1101/105478 2017-02-02 Cancer Cell Line Profiler (CCLP): a webserver for the prediction of compound activity across the NCI60 panel Isidro Cortes-Ciriano|Daniel Murrell|Bernard Chetrit|Andreas Bender|Therese Malliavin|Pedro Ballester Harvard Medical School, USA;|University of Cambridge, UK;|INSERM, France;|Institut Pasteur and CNRS UMR 3528, France
http://dx.doi.org/10.1101/105395 2017-02-02 CC BY-NC Dynamic species classification of microorganisms across time, abiotic and biotic environments - a sliding window approach Frank Pennekamp|Jason I. Griffiths|Emanuel A. Fronhofer|Mathew Seymour|Aurelie Garnier|Florian Altermatt|Owen L. Petchey University of Zurich;|University of Sheffield;|Eawag: Swiss Federal Institute of Aquatic Science and Technology;|Bangor University
http://dx.doi.org/10.1101/105486 2017-02-02 CC BY-NC-ND Riparian vegetation limits oxidation of thermodynamically unfavorable bound-carbon stocks along an aquatic interface Emily B. Graham|Malak Tfaily|Alex R. Crump|Amy E. Goldman|Evan Arntzen|Elvira Romero|C. Tom Resch|David W. Kennedy|James C. Stegen Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/105411 2017-02-02 CC BY Sex chromosome evolution, heterochiasmy and physiological QTL in the salmonid Brook Charr Salvelinus fontinalis Ben J. G. Sutherland|Ciro Rico|Celine Audet|Louis Bernatchez Institut de Biologie Integrative et des Systemes (IBIS), Universite Laval, Quebec, QC, Canada;|School of Marine Studies, Molecular Diagnostics Laboratory, University of the South Pacific, Fiji;|Institut des Sciences de la Mer de Rimouski, Universite du Quebec a Rimouski, Rimouski, QC, Canada
http://dx.doi.org/10.1101/105403 2017-02-02 CC BY Data-Driven Extraction of a Nested Structure of Human Cognition Taylor Bolt|Jason Nomi|Thomas Yeo|Lucina Uddin University of Miami;|National University of Singapore
http://dx.doi.org/10.1101/105197 2017-02-02 CC BY-NC-ND Efficient Detection of Communities in Biological Bipartite Networks Paola Pesantez-Cabrera|Ananth Kalyanaraman Washington State University
http://dx.doi.org/10.1101/105346 2017-02-02 CC BY-NC ATLAS: Analysis Tools for Low-depth and Ancient Samples Vivian Link|Athanasios Kousathanas|Krishna Veeramah|Christian Sell|Amelie Scheu|Daniel Wegmann Department of Biology, University of Fribourg, Fribourg, Switzerland;|Department of Ecology and Evolution, Stony Brook University;|Institute of Anthropology, Johannes Gutenberg-University, Mainz, Germany
http://dx.doi.org/10.1101/105320 2017-02-02 Unifying concepts of biological function from molecules to ecosystems. Keith D Farnsworth|Larissa Albantakis|Tancredi Caruso Queen's University Belfast;|University of Wisconsin
http://dx.doi.org/10.1101/105387 2017-02-02 Two stochastic processes shape diverse senescence patterns in a single-cell organism Ulrich K Steiner|Adam Lenart|Ming Ni|Peipei Chen|Xiaohu Song|Francois Taddei|Ariel Lindner|James Vaupel University of Southern Denmark;|Max-Planck Odense Centre on the Biodemography of Aging, Campusvej 55, 5230 Odense, Denmark;|INSERM U1001, 75014 Paris, France;|Center for Research and Interdisciplinarity, Paris Descartes University, 75014, Paris, France
http://dx.doi.org/10.1101/105353 2017-02-02 Demographic variability and heterogeneity among individuals within and among clonal bacteria strains Lionel Jouvet|Alexandro Rodriguez-Rojas|Ulrich K Steiner Max-Planck Odense Centre on the Biodemography of Aging, Campusvej 55, 5230 Odense, Denmark;|Institute of Biology, Freie Universitaet Berlin, Koenigin-Luise-Strasse 1-3, 14195 Berlin, Germany;|University of Southern Denmark
http://dx.doi.org/10.1101/105296 2017-02-02 Systems Biology CC BY Gene length as a regulator for ribosome recruitment and protein synthesis: theoretical insights Lucas D. Fernandes|Alessandro de Moura|Luca Ciandrini Universidade de Sao Paulo;|University of Aberdeen;|University of Montpellier
http://dx.doi.org/10.1101/105171 2017-02-02 Genomics CC BY Epidemic establishment and cryptic transmission of Zika virus in Brazil and the Americas Nuno R. Faria|Josh Quick|Ingra Morales|Julien Theze|Jacqueline G. de Jesus|Marta Giovanetti|Moritz U. G. Kraemer|Sarah C. Hill|Allison Black|Antonio C. da Costa|Luciano C. Franco|Sandro P. Silva|Chiej-Hsi Wu|Jayna Ragwhani|Simon Cauchemez|Louis du Plessis|Mariana P. Verotti|Wanderson K. Oliveira|Eduardo H. Carmo|Giovanini Evelim Coelho|Ana Carolina Faria E. Silva Santelli|Livia C. Vinhal|Claudio Maierovitch Pessanha Henriques|Jared Simpson|Matt Loose|Kristian G. Andersen|Nathan Grubaugh|Sneha Somasekar|Charles Y. Chiu|Lia Laura Lewis-Ximenez|Sally A. Baylis|Alexandre Otavio Chieppe|Shirlei Ferreira Aguiar|Carlos Augusto Fernandes|Poliana da Silva Lemos|Bruna L. S. Nascimento|Hamilton Antonio de Oliveira Monteiro|Isadora Cristina Siqueira|Maria Goretti Lins de Queiroz|Themis Rocha Souza|Joao Filipe Bezerra|Marta Rejane Lemos|Gilberto Fernandes Pereira|Dalane Loudal Florentino Teixeira|Lucia C. A. C. Moura|Rafael Dhalia|Rafel F. Franca|Tereza Magalhaes|Ernesto Torres de Azevedo Marques|Gabriel da Luz Wallau|Magliones Carneiro de Lima|Valeria Nascimento|Erenilde Marques de Cerqueira|Maricelia Maia de Lima|Denise Lima Mascarenhas|Jose Pereira de Moura Neto|Anna Sara Shafferman Levin|Tania Regina Tozetto Mendoza|Silvia Fonseca|Maria Cassia Mendes-Correa|Flavio Padua Milagres|Aluisio Segurado|Edward C. Holmes|Andrew Rambaut|Trevor Bedford|Marcio Nunes Roberto Teixeira|Ester Cerdeira Sabino|Luiz Carlos Junior Alcantara|Nicholas Loman|Oliver G. Pybus Department of Zoology, University of Oxford, Oxford OX1 3PS, UK;|Institute of Microbiology and Infection, University of Birmingham, UK;|Department of Infectious Disease, Institute of Tropical Medicine, University of Sao Paulo, Brazil;|Fundacao Oswaldo Cruz (FIOCRUZ), Salvador, Bahia, Brazil;|Fred Hutchinson Cancer Research Center, USA;|Evandro Chagas Institute, Ministry of Health, Ananindeua, Brazil;|Department of Statistics, University of Oxford, UK;|Mathematical Modelling of Infectious Diseases and Center of Bioinformatics and Biostatistics;|Coordenacao dos Laboratorios de Saude Publica, Ministry of Health, Brasilia, Brazil;|Coordenacao Geral Vigilancia e Resposta as Emergencias em Saude Publica, Ministry of Health, Brazil;|Departamento de Vigilancia das Doencas Transmissiveis, Ministry of Health, Brasilia, Brazil;|Coordenacao Geral Controle e Prevencao, Ministry of Health, Brazil;|Programa Nacional de Controle da Dengue Zika Chikungunya Malaria, Ministry of Health, Brazil;|Ontario Institute for Cancer Research, Toronto, Canada;|University of Nottingham, Nottingham, United Kingdom;|Department of Immunology and Microbial Science, The Scripps Research Institute, USA;|Departments of Laboratory Medicine and Medicine & Infectious Diseases, University of California, USA;|Fundacao Oswaldo Cruz (FIOCRUZ), Rio de Janeiro, Brazil;|Paul-Ehrlich-Institut, Langen, Germany;|Laboratorio Central de Saude Publica Noel Nutels, Rio de Janeiro, Brazil;|Laboratorio Central de Saude Publica do Estado do Rio Grande do Norte, Natal, Brazil;|Laboratorio Central de Saude Publica do Estado da Paraiba, Joao Pessoa, Brazil;|Fundacao Oswaldo Cruz (FIOCRUZ), Recife, Pernambuco, Brazil;|Laboratorio Central de Saude Publica do Estado de Alagoas, Maceio, Brazil;|Universidade Estadual de Feira de Santana, Feira de Santana, Bahia, Brazil;|Secretaria de Saude de Feira de Santana, Feira de Santana, Bahia, Brazil;|Universidade Federal do Amazonas, Manaus;|Hospital Sao Francisco, Ribeirao Preto, Brazil;|Universidade Federal do Tocantins, Palmas, Brazil;|University of Sydney, Australia;|University of Edinburgh, United Kingdom;|Fred Hutchinson Cancer Research Center, United States
http://dx.doi.org/10.1101/105288 2017-02-02 Genomics CC BY-NC-ND Integrative genomics study of microglial transcriptome reveals effect of DLG4 (PSD95) on white matter in preterm infants. Michelle L Krishnan|Juliette Van Steenwinckel|Anne-Laure Schang|Jun Yan|Johanna Arnadottir|Tifenn Le Charpentier|Zsolt Csaba|Pascal Dournaud|Sara Cipriani|Constance Auvynet|Luigi Titomanlio|Julien Pansiot|Gareth Ball|James P Boardman|Andrew J Walley|Alka Saxena|Ghazala Mirza|Bobbi Fleiss|A David Edwards|Enrico G. Petretto|Pierre Gressens Centre for the Developing Brain, Department of Perinatal Imaging and Health, Kings College London;|PremUP, PROTECT, INSERM, Universite Paris Diderot, Sorbonne Paris Cite, Paris, France;|Medical Research Council/University of Edinburgh Centre for Reproductive Health, Edinburgh;|Cell Biology and Genetics Research Centre, St. Georges University of London;|Genomics Core Facility, NIHR Biomedical Research Centre, Guys and St Thomas NHS Foundation Trust;|Department of Clinical and Experimental Epilepsy, UCL Institute of Neurology;|Centre for the Developing Brain, Kings College London, PremUP, PROTECT, INSERM;|Duke-NUS Graduate Medical School Singapore
http://dx.doi.org/10.1101/105155 2017-02-02 Molecular Biology CC BY-NC-ND Cinnamon hydro alcoholic extract increased expression level of UCP3 gene in skeletal muscle of obese male Wistar Rats Elham Golmohammadi|Sanaz Mahmazi|Mehdi Rahnema Department of genetics, Faculty of basic Sciences, Islamic Azad University, Zanjan Branch, zanjan, I;|Department of physiology, Faculty of basic Sciences, Islamic Azad University, Zanjan Branch, zanjan,
http://dx.doi.org/10.1101/105148 2017-02-02 Neuroscience CC BY-NC Music-induced analgesia in chronic pain conditions: a systematic review and meta-analysis Eduardo A. Garza-Villarreal|Victor Pando|Christine Parsons|Peter Vuust Instituto Nacional de Psiquiatria;|Universidad Nacional Autonoma de Mexico;|University of Aarhus
http://dx.doi.org/10.1101/104919 2017-02-02 Bioinformatics CC BY-NC-ND Comparative analysis of protein abundance studies to quantify the Saccharomyces cerevisiae proteome Brandon Ho|Anastasia Baryshnikova|Grant W Brown University of Toronto;|Princeton University
http://dx.doi.org/10.1101/105270 2017-02-02 Neuroscience CC BY Progressive alterations in brain connectivity patterns revealed by diffusion-tensor brain networks across severity stages in Alzheimer ′s disease Javier Rasero|Carmen Alonso-Montes|Ibai Diez|Laiene Olabarrieta-Landa|Lakhdar Remaki|Inaki Escudero|Beatriz Mateos Goni|Paolo Bonifazi|Manuel Fernandez Martinez|Juan Carlos Arango-Lasprilla|Sebastiano Stramaglia|Jesus M Cortes BioCruces Health Research Institute;|BCAM - Basque Center for Applied Mathematics;|Dipartimento di Fisica e INFN, Sezione di Bari
http://dx.doi.org/10.1101/105262 2017-02-02 Genomics CC BY-NC Analysis and prediction of super-enhancers using sequence and chromatin signatures Aziz Khan|Xuegong Zhang Tsinghua University, Beijing, China
http://dx.doi.org/10.1101/105312 2017-02-02 Neuroscience Inhibitory neuron diversity originates from cardinal classes shared across germinal zones. Christian Mayer|Christoph Hafemeister|Rachel C Bandler|Robert Machold|Gord Fishell|Rahul Satija NYU Neuroscience Institute, Langone Medical Center, New York, NY, USA; New York Genome Center, NY;|New York Genome Center, New York, NY, USA;|NYU Neuroscience Institute, Langone Medical Center, New York, NY, USA;|New York Genome Center; New York University, Center for Genomics and Systems Biology
http://dx.doi.org/10.1101/105163 2017-02-02 Genomics Scaling single cell transcriptomics through split pool barcoding Alexander B Rosenberg|Charles Roco|Richard A Muscat|Anna Kuchina|Sumit Mukherjee|Wei Chen|David J Peeler|Zizhen Yao|Bosiljka Tasic|Drew L Sellers|Suzie H Pun|Georg Seelig University of Washington;|Allen Institute for Brain Science
http://dx.doi.org/10.1101/101717 2017-02-02 Genetics CC BY Phenoplasm: a database of disruption phenotypes for malaria parasite genes Theo Sanderson|Julian C. Rayner Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/105239 2017-02-02 Neuroscience CC BY-NC-ND The rhythm of attentional stimulus selection during visual competition Sebastien M Crouzet|Rufin VanRullen Centre de Recherche Cerveau et Cognition
http://dx.doi.org/10.1101/105072 2017-02-02 Evolutionary Biology CC BY-NC Genetic equidistance at the nucleotide level Dejian Yuan|Shi Huang Central South University
http://dx.doi.org/10.1101/105205 2017-02-02 Bioinformatics CC BY Metaviz: interactive statistical and visual analysis of metagenomic data Justin Wagner|Florin Chelaru|Jayaram Kancherla|Joseph N Paulson|Victor Felix|Anup Mahurkar|Hector Corrada Bravo University of Maryland;|Dana-Farber Cancer Institute;|University of Maryland, Baltimore
http://dx.doi.org/10.1101/105221 2017-02-02 Genomics p53 binding sites in normal and cancer cells are characterized by distinct chromatin context Feifei Bao|Peter R LoVerso|Jeffrey N Fisk|Victor B Zhurkin|Feng Cui Rochester Institute of Technology;|NIH
http://dx.doi.org/10.1101/104844 2017-02-02 Genomics CC BY-NC-ND Comprehensive single cell transcriptional profiling of a multicellular organism by combinatorial indexing Junyue Cao|Jonathan S. Packer|Vijay Ramani|Darren A. Cusanovich|Chau Huynh|Riza Daza|Xiaojie Qiu|Choli Lee|Scott N. Furlan|Frank J. Steemers|Andrew Adey|Robert H. Waterston|Cole Trapnell|Jay Shendure University of Washington, Seattle, WA, USA;|Illumina Inc., Advanced Research Group, San Diego, CA, USA;|Oregon Health & Science University, Portland, OR, USA
http://dx.doi.org/10.1101/105007 2017-02-02 Evolutionary Biology CC BY-NC-ND Network analysis of the hominin origin of Herpes Simplex virus 2 from fossil data Simon Underdown|Krishna Kumar|Charlotte Houldcroft Oxford Brookes University;|University of Cambridge
http://dx.doi.org/10.1101/105957 2017-02-03 CC BY-NC Maximum Entropy Methods for Extracting the Learned Features of Deep Neural Networks Alex I Finnegan|Jun S Song University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/105940 2017-02-03 The Potential Role of Genetic Assimilation during Maize Domestication Anne Lorant|Sarah Perdersen|Irene Holst|Matthew B. Hufford|Klaus Winter|Dolores Piperno|Jeffrey Ross-Ibarra University of California Davis;|Iowa State University;|Smithsonian Tropical Research Institute
http://dx.doi.org/10.1101/105916 2017-02-03 The mammalian kinetochore independently regulates its passive and active force-generating interfaces with microtubules Alexandra F Long|Dylan B Udy|Sophie Dumont University of California San Francisco
http://dx.doi.org/10.1101/105965 2017-02-03 Lipid order degradation in autoimmune demyelination probed by polarization resolved coherent Raman microscopy Paulina Gasecka|Alexandre Jaouen|Fatma-Zohra Bioud|Hilton B. De Aguiar|Julien Duboisset|Patrick Ferrand|Herve Rigneault|Naveen K. Balla|Franck Debarbieux|Sophie Brasselet Institut Fresnel;|Institut des Neurosciences de la Timone
http://dx.doi.org/10.1101/105866 2017-02-03 Structure of a AAA+ unfoldase in the process of unfolding substrate Zev A Ripstein|Rui Huang|Rafal Augustyniak|Lewis E Kay|John L Rubinstein The Hospital for Sick Children, The University of Toronto;|The University of Toronto;|The University of Toronto, The Hospital for Sick Children;|The Hospital for SIck Children, The University of Toronto
http://dx.doi.org/10.1101/105783 2017-02-03 Normalization of Mass Spectrometry Data (NOMAD) Carl Murie|Brian Sandri|Timothy J Griffin|Christine Wendt|Ola Larsson Karolinska Institutet, Stockholm, Sweden;|University of Minnesota Medical School, Minneapolis, MN, USA
http://dx.doi.org/10.1101/105551 2017-02-03 CC BY-NC-ND Imputation aware tag SNP selection to improve power for multi-ethnic association studies Genevieve L Wojcik|Christian Fuchsberger|Daniel Taliun|Ryan Welch|Alicia R Martin|Suyash Shringarpure|Christopher S Carlson|Goncalo Abecasis|Hyun Min Kang|Michael Boehnke|Carlos D Bustamante|Christopher R Gignoux|Eimear E Kenny Stanford University;|University of Michigan;|University of Washington;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/105908 2017-02-03 CC BY-NC-ND Immune Loss as a Driver of Coexistence During Host-Phage Coevolution Jake L Weissman|Rayshawn Holmes|Rodolphe Barrangou|Sylvain Moineau|William F Fagan|Bruce Levin|Philip LF Johnson University of Maryland College Park;|Emory University;|North Carolina State University;|Universite Laval
http://dx.doi.org/10.1101/105700 2017-02-03 CC BY-NC-ND First indication of acetylcholine-based communication in honeybee haemocytes and its modulation by a neonicotinoid insecticide Tobias Pamminger|Kate Basley|Dave Goulson|William OH Hughes University of Sussex
http://dx.doi.org/10.1101/105841 2017-02-03 CC BY-ND A conserved signaling network monitors delivery of sphingolipids to the plasma membrane in budding yeast Jesse C Clarke|Noah Dephoure|Ira Horecka|Steven Gygi|Douglas Kellogg University of California, Santa Cruz;|Weill Cornell Medical College;|Harvard Medical School
http://dx.doi.org/10.1101/105676 2017-02-03 Free energy based high-resolution modeling of CTCF-mediated chromatin loops for human genome Wayne Dawson|Dariusz Plewczynski Centre of New Technologies, University of Warsaw
http://dx.doi.org/10.1101/105767 2017-02-03 CC BY Impact of hypoxia induced VEGF and its signaling during caudal fin regeneration in Zebrafish vivek sagayaraj|Malathi Ragunathan University of Madras, Dr ALM PGIBMS;|University of Madras
http://dx.doi.org/10.1101/105494 2017-02-03 Hybridization affects life-history traits and host specificity in Diorhabda spp. Ellyn Bitume|Dan Bean|Amanda Stahlke|Ruth Hufbauer United States Department of Agriculture;|Colorado Department of Agriculture;|University of Idaho - Moscow;|Colorado State University
http://dx.doi.org/10.1101/104489 2017-02-03 CC BY-NC-ND Bounds to Parapatric Speciation: A Dobzhansky-Muller incompatibility model involving autosomes, X chromosomes and mitochondria Ilse Hoellinger|Joachim Hermisson University of Vienna
http://dx.doi.org/10.1101/105858 2017-02-03 CC BY VREX: An Open-Source Toolbox for Creating 3D Virtual Reality Experiments Madis Vasser|Markus Kangsepp|Murad Magomedkerimov|Kalver Kilvits|Vladislav Stafinjak|Taavi Kivisik|Raul Vicente Zafra|Jaan Aru University of Tartu
http://dx.doi.org/10.1101/105759 2017-02-03 CC BY-NC-ND Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica Zhemin Zhou|Inge Lundstrm|Alicia Tran-Dien|Sebastian Duchene|Nabil-Fareed Alikhan|Martin J. Sergeant|Gemma Langridge|Anna K. Fotakis|Satheesh Nair|Hans K. Stenien|Stian S. Hamre|Sherwood Casjens|Axel Christophersen|Christopher Quince|Nicholas R. Thomson|Francois-Xavier Weill|Simon Y. W. Ho|M. Thomas P. Gilbert|Mark Achtman University of Warwick;|Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen;|Unité des Bactéries Pathogènes Entériques, Institut Pasteur;|School of Life and Environmental Sciences; University of Sydney;|Warwick Medical School, University of Warwick;|Wellcome Trust Sanger Institute;|NTNU University Museum;|Department of Archaeology, History, Cultural Studies and Religion, University of Bergen;|Pathology Department, University of Utah School of Medicine
http://dx.doi.org/10.1101/105627 2017-02-03 CC BY-NC-ND QuASAR-MPRA: Accurate allele-specific analysis for massively parallel reporter assays Cynthia A Kalita|Gregory A Moyerbrailean|Christopher Brown|Xiaoquan Wen|Francesca Luca|Roger Pique-Regi Wayne State University;|University of Pennsylvania;|Univ. Michigan
http://dx.doi.org/10.1101/105528 2017-02-03 CC BY-NC-ND An Evaluation of Machine-learning for Predicting Phenotype: studies in yeast and wheat Nastasiya F Grinberg|Ross D King University of Cambridge;|University of Manchester
http://dx.doi.org/10.1101/105874 2017-02-03 CC BY-ND A population MRI brain template and analysis tools for the macaque Jakob Seidlitz|Caleb Sponheim|Daniel Glen|Frank Q. Ye|Kadharbatcha S. Saleem|David A. Leopold|Leslie Ungerleider|Adam Messinger National Institute of Mental Health
http://dx.doi.org/10.1101/105577 2017-02-03 CC BY CAFE MOCHA: An Integrated Platform for Discovering Clinically Relevant Molecular Changes in Cancer; an Example of Distant Metastasis and Recurrence-linked Classifiers in Head and Neck Squamous Cell Carcinoma Neeraja M Krishnan|Mohanraj I|Janani Hariharan|Binay Panda Ganit Labs, Bio-IT Centre
http://dx.doi.org/10.1101/105833 2017-02-03 Efficiency of genome-wide association study in random cross populations Jose Marcelo Soriano Viana|Gabriel Borges Mundim|Helcio Duarte Pereira|Andrea Carla Bastos Andrade|Fabyano Fonseca Silva Federal University of Vicosa
http://dx.doi.org/10.1101/105429 2017-02-03 CC BY-ND Interactions between genetic variation and cellular environment in skeletal muscle gene expression D Leland Taylor|David A Knowles|Laura J Scott|Andrea H Ramirez|Francesco Paolo Casale|Brooke N Wolford|Li Guan|Arushi Varshney|Ricardo D'Oliveira Albanus|Stephen C.J. Parker|Narisu Narisu|Peter S Chines|Michael R Erdos|Ryan P Welch|Leena Kinnunen|Jouko Saramies|Jouko Sundvall|Timo A Lakka|Markku Laakso|Jaakko Tuomilehto|Heikki A Koistinen|Oliver Stegle|Michael Boehnke|Ewan Birney|Francis S Collins National Institutes of Health;|Stanford;|School of Public Health, Univ. of Michigan;|Vanderbilt University;|European Molecular Biology Laboratory;|University of Michigan;|National Institute for Health and Welfare;|South Karelia Social and Health Care District;|University of Eastern Finland;|European Bioinformatics Institute
http://dx.doi.org/10.1101/105668 2017-02-03 CC BY-NC The Dense-Core Vesicle Maturation Protein CCCP-1 Binds both RAB-2 and Membranes through a Conserved C-terminal Coiled-coil Domain Jerome Cattin-Ortola|Irini Topalidou|Annie Dosey|Alexey J Merz|Michael Ailion University of Washington
http://dx.doi.org/10.1101/105544 2017-02-03 The systematic conservation planning for intraspecific genetic diversity. Ivan Paz-Vinas|Geraldine Loot|Virgilio Hermoso|Charlotte Veyssiere|Nicolas Poulet|Gael Grenouillet|Simon Blanchet University Claude Bernard Lyon 1 - LEHNA;|University Paul Sabatier Toulouse - EDB laboratory;|Centre Tecnologic Forestal de Catalunya;|ONEMA France;|SETE CNRS
http://dx.doi.org/10.1101/105502 2017-02-03 CC BY-NC-ND Extensive Copy Number Variation in Fermentation-Related Genes among Saccharomyces cerevisiae Wine Strains Jacob Steenwyk|Antonis Rokas Vanderbilt University
http://dx.doi.org/10.1101/105718 2017-02-03 CC BY-NC-ND Reliable CRISPR/Cas9 genome engineering in Caenorhabiditis elegans using a single efficient sgRNA and an easily selectable phenotype Sonia El Mouridi|Claire Lecroisey|Phlippe Tardy|Marine Mercier|Alice Leclercq-Blondel|Nora Zariohi|Thomas Boulin Institut NeuroMyoGene, France
http://dx.doi.org/10.1101/105791 2017-02-03 CC BY-NC-ND Patterns of genomic variation in the opportunistic pathogen Candida glabrata suggest the existence of mating and a secondary association to the human host Laia Carrete|Ewa Ksiezopolska|Cinta Pequeroles|Emilia Gomez-Molero|Ester Saus|Susana Iraola-Guzman|Damian Loska|Oliver Bader|Cecile Fairhead|Toni Gabaldon CRG;|University Medical Center Góttingen;|CRG-CNAG;|Medical University Centre G??ttingen;|Institut de Genetique et Microbiologie
http://dx.doi.org/10.1101/104141 2017-02-03 CC BY-NC-ND Persistent homology: a tool to universally measure plant morphologies across organs and scales Mao Li|Margaret H Frank|Viktoriya Coneva|Washington Mio|Christopher N Topp|Daniel H Chitwood Donald Danforth Plant Science Center;|Florida State University;|Independent Researcher
http://dx.doi.org/10.1101/105817 2017-02-03 CC BY-NC-ND VaPoR: a high-speed validation approach for structural variation using long-read sequencing technology. Ryan Mills|Xuefang Zhao|Alexandra M Weber Univ. of Michigan
http://dx.doi.org/10.1101/105890 2017-02-03 CC BY Cocaine place conditioning strengthens location-specific hippocampal inputs to the nucleus accumbens Lucas Sjulson|Adrien Peyrache|Andrea Cumpelik|Daniela Cassataro|Gyorgy Buzsaki NYU School of Medicine;|Montreal Neurological Institute, McGill University
http://dx.doi.org/10.1101/104729 2017-02-03 CC BY Predicting susceptibility to tuberculosis based on gene expression profiling in dendritic cells John D Blischak|Ludovic Tailleux|Marsha Myrthil|Cecile Charlois|Emmanuel Bergot|Aurelien Dinh|Gloria Morizot|Olivia Cheny|Cassandre Von Platen|Jean-Louis Herrmann|Roland Brosch|Luis B Barreiro|Yoav Gilad University of Chicago;|Institut Pasteur;|DASES Mairie de Paris;|CHU Côte de Nacre;|Hôpital Universitaire Raymond-Poincaré;|Université de Versailles Saint Quentin;|University of Montreal
http://dx.doi.org/10.1101/105882 2017-02-03 CC BY-NC-ND North Andean origin and diversification of the largest ithomiine butterfly genus Donna Lisa De-Silva|Luisa L. Mota|Nicolas Chazot|Ricardo Mallarino|Karina L. Silva-Brandao|Luz Miryam Gomez Pinerez|Andre V.L. Freitas|Gerardo Lamas|Mathieu Joron|James Mallet|Carlos E. Giraldo|Sandra Uribe|Tiina Sarkinen|Sandra Knapp|Chris D. Jiggins|Keith R. Willmott|Marianne Elias CNRS-ISYEB;|Universidade Estadual de Campinas;|Lund University;|Harvard University;|Universidad Nacional de Colombia;|Universidad Nacional Mayor de San Marcos;|Centre d'Ecologie Fonctionnelle et Evolutive;|Royal Botanic Garden Edinburgh;|Natural History Museum;|University of Cambridge;|Florida Museum of Natural History;|CNRS
http://dx.doi.org/10.1101/105361 2017-02-03 Epidemiology CC BY-ND A risk assessment framework for seed degeneration: Informing an integrated seed health strategy for vegetatively-propagated crops Sara Thomas-Sharma|Jorge Andrade-Piedra|Monica Carvajal Yepes|John Hernandez Nopsa|Michael Jeger|Roger Jones|Peter Kromann|James Legg|Jonathan Yuen|Gregory Forbes|Karen A Garrett University of Wisconsin;|International Potato Center;|International Center for Tropical Agriculture;|University of Florida;|Imperial College London;|University of Western Australia;|International Institute of Tropical Agriculture;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/105619 2017-02-03 CC BY-NC-ND Assessment of the World Largest Afforestation Program: Success, Failure, and Future Directions J. J. Zhu|X. Zheng|G. G. Wang|B. F. Wu|S. R. Liu|C. Z. Yan|Y. Li|Y. R. Sun|Q. L. Yan|Y. Zeng|S. L. Lu|X. F. Li|L. N. Song|Z. B. Hu|K. Yang|N. N. Yan|X. S. Li|T. Gao|J. X. Zhang|Aaron Ellison Institute of Applied Ecology, Chinese Academy of Sciences;|Institute of Remote Sensing Applications, Chinese Academy of Sciences;|Institute of Forest Ecology, Environment and Protection, Chinese Academy of Forestry Sciences;|Cold and Arid Regions Environmental and Engineering Research Institute, Chinese Academy of Sciences;|Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences;|Shenyang Agricultural University, Shenyang, China;|Harvard University
http://dx.doi.org/10.1101/105809 2017-02-03 Epidemiology CC BY-NC-ND Asian lineage of Zika virus RNA pseudoknot may induce ribosomal frameshift and produce a new neuroinvasive protein ZIKV-NS1' Tiago Tambonis|Vinicius Contessoto|Cintia Bittar|Marilia F Calmon|Mauricio L Nogueira|Paula Rahal|Vitor B. P. Leite UNESP;|FAMERP
http://dx.doi.org/10.1101/105726 2017-02-03 Acetazolamide reduces exercise capacity following a five-day ascent to 4559 m on Monte Rosa Arthur Bradwell|Kimberly Ashdown|Carla Gallagher|John Delamere|Owen Thomas|Samuel Lucas|Alex Wright|Stephen Harris|Stephen Myers Institute of Clinical Sciences, College of Medical and Dental Sciences, University of Birmingham;|Department of Sport and Exercise Sciences, University of Chichester, Chichester, UK;|3School of Sport, Exercise and Rehabilitation Sciences, University of Birmingham;|1Institute of Clinical Sciences, College of Medical and Dental Sciences, University of Birmingham;|QinetiQ, Farnborough, UK.
http://dx.doi.org/10.1101/105650 2017-02-03 Filter-banks and artificial intelligence in seizure detection using electroencephalograms Marco Pinto Orellana|Fabio Ribeiro Cerqueira Universidade Federal de Vicosa
http://dx.doi.org/10.1101/105510 2017-02-03 CC BY Effective synaptic interactions in subsampled nonlinear networks with strong coupling Braden A. W. Brinkman|Fred Rieke|Eric Shea-Brown|Michael Buice University of Washington;|Allen Institute for Brain Science
http://dx.doi.org/10.1101/105452 2017-02-03 CC BY-NC-ND Focus: The interface between data collection and data processing in cryo-EM Nikhil Biyani|Ricardo D. Righetto|Robert McLeod|Daniel Caujolle-Bert|Daniel Castano-Diez|Kenneth N. Goldie|Henning Stahlberg University of Basel
http://dx.doi.org/10.1101/105692 2017-02-03 Systems Biology CC BY Microvessel Chaste: An Open Library for Spatial Modelling of Vascularized Tissues James Grogan|Anthony J Connor|Bostjan Markelc|Ruth J Muschel|Philip K Maini|Helen M Byrne|Joe M Pitt-Francis University of Oxford
http://dx.doi.org/10.1101/105585 2017-02-03 Evolutionary Biology CC BY Takeover times for a simple model of network infection Bertrand Ottino-Loffler|Jacob G Scott|Steven H Strogatz Cornell;|Cleveland Clinic
http://dx.doi.org/10.1101/105593 2017-02-03 Cell Biology Chromatin tethering to the nuclear envelope by nuclear actin filaments: a novel role of the actin cytoskeleton in the Xenopus blastula Haruka Oda|Natsuki Shirai|Naoko Ura|Keita Ohsumi|Mari Iwabuchi Nagoya University
http://dx.doi.org/10.1101/105460 2017-02-03 Cell Biology Spindle assembly checkpoint satisfaction occurs through end-on but not lateral kinetochore-microtubule interactions under tension Jonathan A Kuhn|Sophie Dumont University of California, San Francisco
http://dx.doi.org/10.1101/104794 2017-02-03 Epidemiology CC BY-NC-ND Multiple introductions of Zika virus into the United States revealed through genomic epidemiology Nathan D Grubaugh|Jason T Ladner|Moritz UG Kraemer|Gytis Dudas|Amanda L Tan|Karthik Gangavarapu|Michael R Wiley|Stephen White|Julien Theze|Diogo M Magnani|Karla Prieto|Daniel Reyes|Andrea Bingham|Lauren M Paul|Refugio Robles-Sikisaka|Glenn Oliveira|Darryl Pronty|Hayden C Metsky|Mary Lynn Baniecki|Kayla G Barnes|Bridget Chak|Catherine A Freije|Adrianne Gladden-Young|Andreas Gnirke|Cynthia Luo|Bronwyn MacInnis|Christian B Matranga|Daniel J Park|James Qu|Stephen F Schaffner|Christopher Tomkins-Tinch|Kendra L West|Sarah M Winnicki|Shirlee Wohl|Nathan L Yozwiak|Joshua Quick|Joseph R Fauver|Kamran Khan|Shannon E Brent|Robert C Reiner|Paola N Lichtenberger|Michael Ricciardi|Varian K Bailey|David I Watkins|Marshall R Cone|Edgar W Kopp|Kelly N Hogan|Andrew C Cannons|Reynald Jean|Robert F Garry|Nicholas J Loman|Nuno R Faria|Mario C Porcelli|Chalmers Vasquez|Elyse R Nagle|Derek AT Cummings|Danielle Stanek|Andrew Rambaut|Mariano Sanchez-Lockhart|Pardis C Sabeti|Leah D Gillis|Scott F Michael|Trevor Bedford|Oliver G Pybus|Sharon Isern|Gustavo Palacios|Kristian G Andersen The Scripps Research Institute;|U.S. Army Medical Research Institute of Infectious Diseases;|University of Oxford;|Fred Hutchinson Cancer Research Center;|Florida Gulf Coast University;|Florida Department of Health;|University of Miami;|Scripps Translational Science Institute;|The Broad Institute of MIT and Harvard;|University of Birmingham;|Colorado State University;|St Michaels Hospital;|University of Washington;|Tulane University School of Medicine;|Miami-Dade County Mosquito Control;|University of Florida;|University of Edinburgh
http://dx.doi.org/10.1101/085159 2017-02-04 CC BY-NC-ND Nutrition Outweighs Defense: Myzus persicae (Green Peach Aphid) Prefers and Performs Better on Young Leaves of Cabbage He-He Cao|Zhan-Feng Zhang|Xiao-Feng Wang|Tong-Xian Liu Northwest A&F University
http://dx.doi.org/10.1101/105825 2017-02-04 Evolutionary Biology CC BY-NC-ND Genetic analysis reveals efficient sexual spore dispersal at a fine spatial scale in Armillaria ostoyae, the causal agent of root-rot disease in conifers Cyril Dutech|Frederic Labbe|Xavier Capedevielle|Brigitte Lung Inra;|GELIFES
http://dx.doi.org/10.1101/106039 2017-02-04 Cancer Biology CC BY Genome-Wide Association Analysis Identifies Genetic Correlates of Immune Infiltrates in Solid Tumors. Nathan Siemers|James L Holloway|Han Chang|Scott D Chasalow|Petra B Ross-MacDonald|Charles F Voliva|Joseph D Szustakowski Bristol-Myers Squibb
http://dx.doi.org/10.1101/106005 2017-02-04 Neuroscience How activity dependent feedback inhibition may maintain head direction signals in mouse presubiculum Jean Simonnet|Merie Nassar|Federico Stella|Ivan Cohen|Bertrand Mathon|Charlotte N Boccara|Richard Miles|Desdemona Fricker Humboldt University Berlin;|ICM / INSERM U1127 / CNRS UMR7225 / UPMC;|IST Austria;|UPMC;|CNRS - Paris Descartes University
http://dx.doi.org/10.1101/106021 2017-02-04 CC BY-NC-ND Mindfulness and dynamic functional neural connectivity in children and adolescents Hilary A Marusak|Moriah E Thomason|Farrah Elrahal|Craig A Peters|Prantik Kundu|Michael V Lombardo|Vince D Calhoun|Elimelech K Goldberg|Cindy Cohen|Jeffrey W Taub|Christine A Rabinak Wayne State University;|Icahn School of Medicine at Mount Sinai;|University of Cyprus and University of Cambridge;|University of New Mexico;|Wayne State University and Kids Kicking Cancer;|Kids Kicking Cancer
http://dx.doi.org/10.1101/106013 2017-02-04 Genetics CC BY A performance assessment of relatedness inference methods using genome-wide data from thousands of relatives Monica Ramstetter|Thomas D Dyer|Donna M Lehman|Joanne E Curran|Ravindranath Duggirala|John Blangero|Jason G Mezey|Amy L Williams Cornell University;|South Texas Diabetes and Obesity Institute, University of Texas Rio Grande Valley;|Weill Cornell Medicine
http://dx.doi.org/10.1101/106088 2017-02-05 CC BY-NC-ND Real-time changepoint detection for noisy biological time series Nathan Gold|Christophe Herry|Bryan S Richardson|Andrew J E Seely|Xiaogang Wang York University;|Ottawa Hospital Research Institute;|London Health Sciences Centre Victoria Hospital
http://dx.doi.org/10.1101/106120 2017-02-05 Hallmarks of early sex-chromosome evolution in the dioecious plant Mercurialis annua revealed by de novo genome assembly, genetic mapping and transcriptome analysis Kate E Ridout|Paris Veltsos|Aline Muyle|Olivier Emery|Pasi Rastas|Gabriel AB Marais|Dmitry A Filatov|John R Pannell University of Lausanne;|Université Lyon;|University of Cambridge;|University of Oxford
http://dx.doi.org/10.1101/106062 2017-02-05 CC BY-NC-ND Heterogeneity in polygenic scores for common human traits Erin B Ware|Lauren L Schmitz|Jessica D Faul|Arianna Gard|Colter Mitchell|Jennifer A Smith|Wei Zhao|David Weir|Sharon LR Kardia University of Michigan
http://dx.doi.org/10.1101/106153 2017-02-05 Preprint: Environmentally-Friendly Workflow Based on Supercritical Fluid Chromatography and Tandem Mass Spectrometry Molecular Networking For the Discovery of Potent Anti-Viral Leads From Plants Louis-Felix Nothias|Stephanie Boutet-Mercey|Xavier Cachet|Erick De La Torre|Laurent Laboureur|Jean-Francois Gallard|Pascal Retailleau|Alain Brunelle|Pieter C. Dorrestein|Jean Costa|Luis M. Bedoya|Fanny Roussi|Pieter Leyssen|Jose Alcami|Julien Paolini|Marc Litaudon|David Touboul Centre National de la Recherche Scientifique;|Institut de Chimie des Substances Naturelles, Université Paris-Saclay;|Laboratoire de Pharmacognosie, Faculté de Pharmacie, Université Paris Descartes;|Centro Nacional de Microbiología, Instituto de Salud Carlos III;|Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California, San Diego;|Laboratoire de Chimie de Produits Naturels, Université de Corse;|Laboratory for Virology and Experimental Chemotherapy, Rega Inst for Medical Research, KU Leuven
http://dx.doi.org/10.1101/106112 2017-02-05 Cell Biology CC BY-NC-ND An inducible CRISPR-ON system for controllable gene activation in human pluripotent stem cells Jianying Guo|Dacheng Ma|Rujin Huang|Jia Ming|Min Ye|Kehkooi Kee|Zhen Xie|Jie Na Department of Basic Medical Sciences, School of Medicine,Tsinghua University;|TNLIST/Department of AutomationTNLIST/Department of Automation, Tsinghua University
http://dx.doi.org/10.1101/106070 2017-02-05 Neuroscience Multiple roles of PIWIL1 in mouse neocorticogenesis Barbara Viljetic|Liyang Diao|Jixia Liu|Zeljka Krsnik|Sagara H. R. Wijeratne|Ryan Kristopovich|Marina Dutre-Clarke|Matthew L. Kraushar|Jimin Song|Jinchuan Xing|Kevin Chen|Mladen-Roko Rasin Rutgers University;|University of Zagreb;|Rutgers
http://dx.doi.org/10.1101/104802 2017-02-06 Working memory and decision making in a fronto-parietal circuit model John D Murray|Jorge H Jaramillo|Xiao-Jing Wang Yale University;|New York University
http://dx.doi.org/10.1101/106237 2017-02-06 CC BY Education and coronary heart disease: a Mendelian randomization study Taavi Tillmann|Julien Vaucher|Aysu Okbay|Hynek Pikhart|Anne Peasey|Ruzena Kubinova|Andrzej Pajak|Abdonas Tamosiunas|Sofia Malyutina|Krista Fischer|Giovanni Veronesi|Tom Palmer|Jack Bowden|George Davey Smith|Martin Bobak|Michael V Holmes University College London;|Lausanne University Hospital;|Erasmus University Rotterdam;|National Institute of Public Health, Czech Republic;|Jagiellonian University, Poland;|Lithuanian University of Health Sciences;|Novosibirsk State Medical University, Russia;|Estonian Genome Center, University of Tartu;|University of Insubria, Italy;|Lancaster University, UK;|MRC Integrative Epidemiology Unit at the University of Bristol;|MRC Population Health Research Unit at the University of Oxford
http://dx.doi.org/10.1101/106443 2017-02-06 CC BY Visibility graphs for fMRI data: multiplex temporal graphs and their modulations across resting state networks Speranza Sannino|sebastiano stramaglia|Lucas Lacasa|Daniele Marinazzo Ghent University;|University of Bari;|Queen Mary University of London;|University of Ghent
http://dx.doi.org/10.1101/105098 2017-02-06 CC BY WheatNet: A genome-scale functional network for hexaploid bread wheat, Triticum aestivum Tak Lee|Sohyun Hwang|Chan Yeong Kim|Hongseok Shim|Hyojin Kim|Pam Ronald|Edward Marcotte|Insuk Lee Yonsei University;|Univ. of California at Davis;|University of Texas at Austin, Texas
http://dx.doi.org/10.1101/104877 2017-02-06 CC BY Daisyfield gene drive systems harness repeated genomic elements as a generational clock to limit spread John Min|Charleston Noble|Devora Najjar|Kevin M Esvelt Massachusetts Institute of Technology;|Harvard University
http://dx.doi.org/10.1101/106393 2017-02-06 The improbable journeys of epiphytic plants across the Andes: Historical biogeography of Cycnoches (Catasetinae, Orchidaceae) Oscar Alejandro Perez-Escobar|Marc Gottschling|Guillaume Chomicki|Fabien L. Condamine|Bente Klitgaard|Emerson Pansarin|Guenter Gerlach Royal Botanic Gardens Kew;|Ludwig-Maximilians Universitaet;|Institut de Sciences de l'Evolution (Universite de Montpellier);|Royal Botanic Garden Kew;|Universidade de Sao Paulo;|Botanischer Garten Muenchen
http://dx.doi.org/10.1101/106377 2017-02-06 Reward and punishment enhance motor adaptation in stroke Graziella Quattrocchi|Richard Greenwood|John C Rothwell|Joseph M Galea|Sven Bestmann Sobell Department, Institute of Neurology, UCL;|National Hospital for Neurology and Neurosurgery, UCLH NHS Trust, London, UK;|School of Psychology, University of Birmingham, Edgbaston, Birmingham, UK
http://dx.doi.org/10.1101/106047 2017-02-06 Neuroscience Very Early Responses to Colour Stimuli Detected in Prestriate Visual Cortex by Magnetoencephalography (MEG) Yoshihito Shigihara|Hideyuki Hoshi|Semir Zeki University College London
http://dx.doi.org/10.1101/106229 2017-02-06 Synthetic Biology CC BY-NC-ND Promoter and transcription factor dynamics tune protein mean and noise strength in a quorum sensing-based feedback synthetic circuit Yadira Boada|Alejandro Vignoni|Jesus Pico Universitat Politecnica de Valencia;|Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/105999 2017-02-06 Genomics CC BY-NC-ND Clusterization in head and neck squamous carcinomas based on lncRNA expression: molecular and clinical correlates Pelayo Gonzalez de Lena|Abel Paz-Gallardo|Jesus M Paramio|Ramon Garcia-Escudero CIEMAT;|CETA-CIEMAT
http://dx.doi.org/10.1101/106138 2017-02-06 Bioinformatics CC BY Iroki: automatic customization for phylogenetic trees Ryan M Moore|Amelia O Harrison|Sean M McAllister|Rachel Marine|Clara Chan|K. Eric Wommack Center for Bioinformatics & Computational Biology, University of Delaware, Newark, DE, USA;|School of Marine Science and Policy, University of Delaware, Newark, DE, USA;|Centers for Disease Control, Atlanta, Georgia, USA;|Department of Geological Sciences, University of Delaware, Newark, USA;|Department of Plant & Soil Sciences, University of Delaware, Newark, DE, USA
http://dx.doi.org/10.1101/106302 2017-02-06 Evolutionary Biology Recent origin of Neotropical orchids in the world's richest plant biodiversity hotspot Oscar Alejandro Perez-Escobar|Guillaume Chomicki|Fabien L. Condamine|Adam P. Karremans|Diego Bogarin|Nicholas Matzke|Daniele Silvestro|Alexandre Antonelli Royal Botanic Gardens Kew;|Ludwig-Maximilians Universitaet;|Institut des Sciences de l'Evolution;|Lankester Botanical Garden, University of Costa Rica;|Research School of Biology, The Australian National University;|Department of Biological and Environmental Sciences, University of Gothenburg
http://dx.doi.org/10.1101/106310 2017-02-06 Evolutionary Biology CC BY-NC-ND Bayesian molecular dating as a “doubly intractable” problem Stephane Guindon CNRS
http://dx.doi.org/10.1101/106260 2017-02-06 Genetics CC BY-NC Whole genome linkage analysis in a large Brazilian multigenerational family reveals distinct linkage signals for Bipolar Disorder and Depression. Mateus Jose Abdalla Diniz|Andiara Calado Saloma Rodrigues|Ary Gadelha|Shaza Alsabban|Camila Guindalini|Jose Paya-Cano|Simone de Jong|Peter McGuffin|Rodrigo Affonseca Bressan|Gerome Breen UNIFESP;|King's College London
http://dx.doi.org/10.1101/106187 2017-02-06 Bioinformatics Unsupervised idealization of ion channel recordings by Minimum Description Length: Application to human PIEZO1-channels Radhakrishnan Gnanasambandam|Morten Schak Nielsen|Christopher Nicolai|Frederick Sachs|Johannes Pauli Hofgaard|Jakob Dreyer Department of Physiology and Biophysics, State University of New York, Buffalo, NY, USA;|Department of Biomedical Sciences, University of Copenhagen;|Department of Biomedical Sciences, University of Copenhagen, Copenhagen, Denmark;|University of Copenhagen
http://dx.doi.org/10.1101/106336 2017-02-06 Genetics CC BY-NC-ND A pooled sequencing approach identifies a candidate meiotic driver in Drosophila Kevin Wei|Hemakumar Reddy|Chandramouli Rathnam|Jimin Lee|Deanna Lin|Shuqing Ji|James M Mason|Andrew G Clark|Daniel A Barbash Cornell Univ.;|National Institute of Environmental Health Sciences;|Cornell;|National Institute of Environmental Health Sciences (NIEHS)/NIH;|Cornell University
http://dx.doi.org/10.1101/106179 2017-02-06 Cancer Biology CC BY-NC-ND Prediction of Molecular Mechanisms of Breast Cancer Metastasis Geoffrey Henry Siwo|Gustavo A Stolovitzky|Solomon Assefa IBM Research Africa;|IBM T.J. Watson Research Center;|IBM Resaerch Africa
http://dx.doi.org/10.1101/106252 2017-02-06 Bioinformatics Non Hybrid Long Read Consensus Using Local De Bruijn Graph Assembly German Tischler|Eugene W. Myers Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/106328 2017-02-06 Cell Biology CC BY Refractive index as an intrinsic imaging contrast for 3-D label-free live cell imaging Doyeon Kim|SangYun Lee|Moosung Lee|JunTaek Oh|Su-A Yang|YongKeun Park KAIST;|Korea Advanced Institute of Science and Technology
http://dx.doi.org/10.1101/106286 2017-02-06 Animal Behavior and Cognition CC BY-NC-ND Mapping the unknown: The spatially correlated multi-armed bandit Charley M. Wu|Eric Schulz|Maarten Speekenbrink|Jonathan D. Nelson|Bjorn Meder Max Planck Institute for Human Development;|University College London
http://dx.doi.org/10.1101/106096 2017-02-06 Neuroscience CC BY The GridCAT: A toolbox for automated analysis of human grid cell codes in fMRI Matthias Stangl|Jonathan Shine|Thomas Wolbers German Center for Neurodegenerative Diseases (DZNE)
http://dx.doi.org/10.1101/106245 2017-02-06 Molecular Biology CC BY-NC-ND Histone H3 threonine 11 phosphorylation is catalyzed directly by the meiosis-specific kinase Mek1 and provides a molecular readout of Mek1 activity in vivo Ryan Kniewel|Hajime Murakami|Yan Liu|Nancy M Hollingsworth|Scott Keeney Molecular Biology Program, Memorial Sloan Kettering Cancer Center, New York, New York, USA;|Department of Biochemistry and Cell Biology, Stony Brook University, Stony Brook, New York, USA
http://dx.doi.org/10.1101/105437 2017-02-06 Systems Biology CC BY Linking circadian time to growth rate quantitatively via carbon metabolism Yin Hoon Chew|Daniel D. Seaton|Virginie Mengin|Anna Flis|Sam T. Mugford|Alison M. Smith|Mark Stitt|Andrew J Millar SynthSys and School of Biological Sciences, University of Edinburgh;|Max Planck Institute for Molecular Plant Physiology;|John Innes Centre;|University of Edinburgh
http://dx.doi.org/10.1101/106195 2017-02-06 Bioengineering CC BY-NC Advanced Protection Against Marine Biofouling Using Solar Light Gabriele Scandura|Rosaria Ciriminna|Lutfiye Yildiz Ozer|Francesco Meneguzzo|Giovanni Palmisano|Mario Pagliaro Masdar Institute of Science and Technology;|CNR, ISMN;|CNR, IBIMET
http://dx.doi.org/10.1101/105106 2017-02-06 Bioinformatics Morphologically Constrained and Data Informed Cell Segmentation of Budding Yeast Elco Bakker|Peter S. Swain|Matthew Crane University of Edinburgh
http://dx.doi.org/10.1101/106203 2017-02-06 Genetics Genomic analysis of family data reveals additional genetic effects on intelligence and personality William David Hill|Ruben C Arslan|Charley Xia|Michelle Luciano|Carmen Amador|Pau Navarro|Caroline Hayward|Reka Nagy|David Porteous|Andrew M McIntosh|Ian J Deary|Chris S Haley|Lars Penke The University of Edinburgh;|Georg August University
http://dx.doi.org/10.1101/105742 2017-02-06 Ecology CC BY Evaluating Bayesian spatial methods for modelling species distributions with clumped and restricted occurrence data David W Redding|Tim Lucas|Tim Blackburn|Kate E Jones University College London
http://dx.doi.org/10.1101/106765 2017-02-07 CC BY-NC-ND Age-based partitioning of individual genomic inbreeding using an exponential mixture model Tom Druet|Mathieu Gautier Unit of Animal Genomics, University of Liège;|CBGP - INRA
http://dx.doi.org/10.1101/106427 2017-02-07 CC BY-NC Quantitative analysis of population-scale family trees using millions of relatives Joanna Kaplanis|Assaf Gordon|Mary Wahl|Michael Gershovits|Barak Markus|Mona Sheikh|Melissa Gymrek|Gaurav Bhatia|Daniel G MacArthur|Alkes Price|Yaniv Erlich Whitehead Institute for Biomedical Research;|New York Genome Center;|Department of Epidemiology, Harvard School of Public Health;|Analytic and Translational Genetics Unit, Massachusetts General Hospital;|Columbia University
http://dx.doi.org/10.1101/106583 2017-02-07 A simple centrifugation protocol leads to a 55-fold mitochondrial DNA enrichment and paves the way for future mitogenomic research Jan Niklas Macher|Vera Zizka|Alexander Martin Weigand|Florian Leese University of Duisburg-Essen
http://dx.doi.org/10.1101/106708 2017-02-07 CC BY-NC-ND Measuring changes in transmission of neglected tropical diseases, malaria, and enteric pathogens from quantitative antibody levels Benjamin Arnold|Mark J van der Laan|Alan E Hubbard|Cathy Steel|Joseph Kubofcik|Katy L Hamlin|Delynn M Moss|Thomas B Nutman|Jeffrey W Priest|Patrick J Lammie University of California, Berkeley;|Laboratory of Parasitic Diseases, National Institute of Allergy and Infectious Diseases;|Division of Parasitic Diseases and Malaria, United States Centers for Disease Control and Prevention;|Division of Foodborne, Waterborne, and Environmental Diseases, United States Centers for Disease Con
http://dx.doi.org/10.1101/106633 2017-02-07 CC BY Disease implications of animal social organization and network structure - a quantitative analysis Pratha Sah|Jose David Mendez|Shweta Bansal Georgetown University
http://dx.doi.org/10.1101/106732 2017-02-07 Evolutionary Biology Hitchhiking and epistasis give rise to cohort dynamics in adapting populations Sean W Buskirk|Ryan Emily Peace|Gregory I Lang Lehigh University
http://dx.doi.org/10.1101/106682 2017-02-07 Zoology Neotrygon vali (Myliobatoidei: Dasyatidae), a new blue-spotted maskray from the Solomon archipelago described from its DNA barcode Philippe Borsa Institut de recherche pour le developpement
http://dx.doi.org/10.1101/106559 2017-02-07 Systems Biology CC BY COBRAme: A Computational Framework for Building and Manipulating Models of Metabolism and Gene Expression Colton J Lloyd|Ali Ebrahim|Laurence Yang|Zachary Andrew King|Edward Catoiu|Edward J O'Brien|Joanne K Liu|Bernhard O Palsson UC San Diego
http://dx.doi.org/10.1101/106476 2017-02-07 Evolutionary Biology CC BY Strong purifying selection on codon usage bias Heather E Machado|David S Lawrie|Dmitri A Petrov Stanford University;|University of Southern California;|dpetrov@stanford.edu
http://dx.doi.org/10.1101/106625 2017-02-07 Neuroscience BRAPH: A Graph Theory Software for the Analysis of Brain Connectivity Mite Mijalkov|Ehsan Kakaei|Joana B Pereira|Eric Westman|Giovanni Volpe UNAM - National Nanotechnology Research Center, Bilkent University, Ankara, Turkey;|Department of Physics, Bilkent University, Ankara, Turkey;|Department of Neurobiology, Care Sciences and Society, Karolinska Institutet, Stockholm, Sweden;|Department of Physics, Goteborg University, Goteborg, Sweden
http://dx.doi.org/10.1101/106211 2017-02-07 Ecology CC BY Disproportional distribution of radioactive elements in the marine ecosystems surrounding the accident site of the Fukushima Daiichi Nuclear Power Plant Shigeharu Moriya|Hideaki Otsu|Kumiko Kihara|Yukari Kato|Misao Itouga|Kenji Sakata|Jun Kikuchi|Hiroshi Yamakawa|Jiro Suga RIKEN Center for Sustainable Resource Science;|RIKEN Nishina Center for Accelerator-Based Science;|Department of Biological and Chemical Systems Engineering, National Institute of Technology, Kumamot;|Tokyo University of Marine Science and Technology;|Japan Academy of Underwater Sciences
http://dx.doi.org/10.1101/106724 2017-02-07 Biophysics Free energy calculations suggest a mechanism for Na+/K+-ATPase ion selectivity Asghar M Razavi|Lucie Delemotte|Joshua R Berlin|Vincenzo Carnevale|Vincent A Voelz Temple University;|KTH;|Physiology and Neuroscience; New Jersey Medical School; Rutgers University
http://dx.doi.org/10.1101/106500 2017-02-07 Animal Behavior and Cognition CC BY Optimal Response Vigor and Choice Under Non-stationary Outcome Values Amir Dezfouli|Bernard W Balleine|Richard Nock UNSW;|CSIRO
http://dx.doi.org/10.1101/106054 2017-02-07 Biophysics CC BY-NC The Rosetta all-atom energy function for macromolecular modeling and design Rebecca F Alford|Andrew Leaver-Fay|Jeliazko R Jeliazkov|Matthew J O'Meara|Frank P DiMaio|Hahnbeom Park|Maxim V Shapovalov|P. Douglas Renfrew|Vikram K Mulligan|Kalli Kappel|Jason W Labonte|Michael S Pacella|Richard Bonneau|Philip Bradley|Roland L Dunbrack|Rhiju Das|David Baker|Brian Kuhlman|Tanja Kortemme|Jeffrey J Gray Johns Hopkins University;|University of Chapel Hill at North Carolina;|University of California at San Francisco;|University of Washington;|Fox Chase Cancer Research Center;|Simons Foundation;|Stanford University;|Fred Hutchinson Cancer Center;|Fox Chase Cancer Center;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/102632 2017-02-07 Genetics Genetic basis of melanin pigmentation in butterfly wings Linlin Zhang|Arnaud Martin|Michael W. Perry|Karin R.L. van der Burg|Yuji Matsuoka|Antonia Monteiro|Robert D Reed Cornell University;|George Washington University;|New York University;|National University of Singapore
http://dx.doi.org/10.1101/106690 2017-02-07 Neuroscience CC BY-ND A probabilistic approach to discovering dynamic full-brain functional connectivity patterns Jeremy Manning|Xia Zhu|Theodore Willke|Rajesh Ranganath|Kimberly Stachenfeld|Uri Hasson|David M Blei|Kenneth A Norman Dartmouth College;|Intel Corporation;|Princeton University;|Columbia University
http://dx.doi.org/10.1101/106492 2017-02-07 Genetics CC BY-NC Composite Likelihood Method for Inferring Local Pedigrees Amy Ko|Rasmus Nielsen University of California, Berkeley
http://dx.doi.org/10.1101/106575 2017-02-07 Microbiology CC BY-NC High rates of human faecal carriage of mcr-1-positive multi-drug resistant isolates emerge in China in association with successful plasmid families Lan-Lan Zhong|Hang TT Phan|Xi Huang|Karina-Doris Vihta|Anna E Sheppard|Kun-Jiao Zheng|Hong-Yu Li|Xue-Fei Zhang|Sandip Patil|Yan-Fen Zhang|Cong Shen|Derrick W Crook|A Sarah Walker|Yong Xing|Qian-yi Chen|Jia-lin Lin|Lian-Qiang Feng|Yohei Doi|Nicole Stoesser|Guo-Bao Tian Sun Yat-sen University;|University of Oxford;|University of Pittsburgh
http://dx.doi.org/10.1101/106484 2017-02-07 Genetics CC BY-NC-ND Resistance genes in global crop breeding networks Karen Garrett|Kelsey Andersen|Robert Bowden|Gregory Forbes|Peter Kulakow|Bo Zhou University of Florida;|Kansas State University;|International Potato Center;|International Institute of Tropical Agriculture;|International Rice Research Institute
http://dx.doi.org/10.1101/106716 2017-02-07 Synthetic Biology CC BY-NC-ND Engineered shell proteins confer improved encapsulated pathway behavior in a bacterial microcompartment Marilyn F Slininger Lee|Christopher M Jakobson|Danielle Tullman-Ercek University of California Berkeley;|Northwestern University
http://dx.doi.org/10.1101/106617 2017-02-07 Neuroscience CC BY-ND Neural Encoding of Auditory Features during Music Perception and Imagery: Insight into the Brain of a Piano Player Stephanie Martin|Christian Mikutta|Matthew K Leonard|Dylan Hungate|Stefan Koelsch|Edward F Chang|Jose del R. Millan|Robert T Knight|Brian N Pasley EPFL;|University Hospital, Bern;|UC San Francisco;|Freie Universitat, Berlin;|UC Berkeley
http://dx.doi.org/10.1101/106666 2017-02-07 Microbiology CC BY-NC RNPP-type quorum sensing regulates solvent formation and sporulation in Clostridium acetobutylicum Ann-Kathrin Kotte|Oliver Severn|Zak Bean|Katrin Schwarz|Nigel P Minton|Klaus Winzer ICIS;|University of Nottingham;|Azotic Technologies
http://dx.doi.org/10.1101/106641 2017-02-07 Biophysics Deconvolution of membrane currents for low-crosstalk high-resolution membrane capacitance measurements Matej Hotka|Ivan Zahradnik Center of Biosciences, Institute of Molecular Physiology and Genetics, Slovak Academy of Sciences
http://dx.doi.org/10.1101/106526 2017-02-07 Evolutionary Biology CC BY-NC-ND Evolution of the α2-adrenoreceptors in vertebrates: ADRA2D is absent in mammals and crocodiles Hector A. Cespedes|Kattina Zavala|Juan Opazo Universidad Austral de Chile
http://dx.doi.org/10.1101/106567 2017-02-07 Neuroscience CC BY-NC Synaptic input sequence discrimination on behavioral time-scales mediated by reaction-diffusion chemistry in dendrites Upinder S Bhalla National Centre for Biological Sciences, Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/106468 2017-02-07 Genomics Determining the impact of putative loss-of-function variants in protein-coding genes Suganthi Balasubramanian|Yao Fu|Mayur Pawashe|Patrick McGillivray|Mike Jin|Jeremy Liu|Konrad J. Karczewski|Daniel G. MacArthur|Mark Gerstein Yale University;|Massachusetts General Hospital;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/102285 2017-02-07 Genetics CC BY Tex19.1 Regulates Acetylated SMC3 Cohesin and Prevents Aneuploidy in Mouse Oocytes Judith Reichmann|Karen Dobie|Lisa M Lister|Diana Best|James H Crichton|Marie MacLennan|David Read|Eleanor S Raymond|Chao-Chun Hung|Shelagh Boyle|Katsuhiko Shirahige|Howard J Cooke|Wendy A Bickmore|Mary Herbert|Ian R Adams MRC Human Genetics Unit;|Institute for Genetic Medicine, Newcastle University;|Research Center for Epigenetic Disease, University of Tokyo
http://dx.doi.org/10.1101/106369 2017-02-07 Bioinformatics CC BY Phenotype and gene ontology enrichment as guides for disease modeling in C. elegans David Angeles-Albores|Raymond Y Lee|Juancarlos Chan|Paul W Sternberg Caltech
http://dx.doi.org/10.1101/106450 2017-02-07 Evolutionary Biology CC BY-NC-ND Approximate Bayesian Computation Algorithms for Estimating Network Model Parameters Ye Zheng|Stephane Aris-Brosou Renmin University of China;|University of Ottawa
http://dx.doi.org/10.1101/106773 2017-02-07 Genetics CC BY How much research is spurred when a gene is associated with a complex disease? Travis J Struck|Brian K Mannakee|Ryan Gutenkunst University of Arizona
http://dx.doi.org/10.1101/106781 2017-02-07 Bioinformatics CC BY-ND MEACA: efficient gene-set interpretation of expression data using mixed models Duo Jiang|Bin Zhuo Oregon State University
http://dx.doi.org/10.1101/106807 2017-02-07 Developmental Biology The depletion of MARVELD1 leads to placenta accreta via integrin β4-dependent trophoblast cell invasion Yue Chen|Hui Zhang|Fang Han|Lei Yue|Chunxiao Qiao|Yao Zhang|Peng Dou|Weizhe Liu|Yu Li Harbin Institute of Technology
http://dx.doi.org/10.1101/106799 2017-02-07 Systems Biology CC BY-NC-ND Reduced protein expression in a virus attenuated by codon deoptimization Benjamin R Jack|Daniel R Boutz|Matthew L Paff|Bartram L Smith|James J Bull|Claus O Wilke University of Texas at Austin
http://dx.doi.org/10.1101/107169 2017-02-08 Genomic analysis of P elements in natural populations of Drosophila melanogaster Casey M. Bergman|Michael G. Nelson|Vladyslav Bondarenko|Iryna Kozeretska University of Manchester;|Taras Shevcheko National University of Kyiv;|Taras Shevchenko National University of Kyiv
http://dx.doi.org/10.1101/107128 2017-02-08 CC BY-NC Oropharyngeal mucosal transmission of Zika virus in rhesus macaques Christina M Newman|Dawn M Dudley|Matthew T Aliota|Andrea M Weiler|Gabrielle L Barry|Mariel S Mohns|Meghan E Breitbach|Laurel M Stewart|Connor R Buechler|Michael E Graham|Jennifer Post|Nancy Schultz-Darken|Eric Peterson|Wendy Newton|Emma L Mohr|Saverio Capuano|David H O'Connor|Thomas C Friedrich University of Wisconsin-Madison;|Wisconsin National Primate Research Center
http://dx.doi.org/10.1101/107102 2017-02-08 CC BY Division of labor, bet hedging, and the evolution of mixed biofilm investment strategies Nick Vallespir Lowery|Luke McNally|William C Ratcliff|Sam P Brown University of Oregon;|University of Edinburgh;|Georgia Institute of Technology
http://dx.doi.org/10.1101/107136 2017-02-08 CC BY rxncon 2.0: a language for executable molecular systems biology Jesper C. Romers|Marcus Krantz HU Berlin
http://dx.doi.org/10.1101/107110 2017-02-08 CC BY The Integrative Role of Frontopolar Cortex in Rule-Based Category Learning Dmitrii Paniukov|Tyler Davis Texas Tech University
http://dx.doi.org/10.1101/107144 2017-02-08 CC BY-NC-ND Chromosome Number of the Monarch Butterfly, Danaus plexippus (Linnaeus 1758) and the Danainae Christopher A. Hamm University of California, Davis
http://dx.doi.org/10.1101/106955 2017-02-08 Recent Regulatory Changes Shaped the Human Facial and Vocal Anatomy David Gokhman|Lily Agranat Tamir|Genevieve Housman|Malka Nissim Rafinia|Maria Nieves Colon|Hongcang Gu|Manuel Ferrando|Pere Gelabert|Iddi Lipende|Ellen E. Quillen|Alexander Meissner|Anne C. Stone|Anne E. Pusey|Deus Mjungu|Leonid Kandel|Meir Liebergall|Maria E. Prada|Julio M. Vidal|Johannes Krause|Benjamin Yakir|Svante Paabo|David Reich|Carles Lalueza Fox|Tomas Marques-Bonet|Eran Meshorer|Liran Carmel The Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem;|School of Human Evolution and Social Change, Arizona State University, Tempe, AZ, USA;|Department of Genetics, Texas Biomedical Research Institute, San Antonio, Texas, USA;|Broad Institute, Cambridge MA, USA;|Institute of Evolutionary Biology (UPF-CSIC), Barcelona, Spain;|Gombe Stream Research Center, Jane Goodall Institute, Kigoma, Tanzania;|Department of Evolutionary Anthropology, Duke University, Durham, NC, USA;|Orthopaedic Department, Hadassah - Hebrew University Medical Center, Jerusalem, Israel;|I.E.S.O. Los Salados. Junta de Castilla y Leon, Spain;|Junta de Castilla y Leon, Servicio de Cultura de Leon, Spain;|Max Planck Institute for the Science of Human History, Jena, Germany;|Department of Statistics, The Hebrew University of Jerusalem, Jerusalem, Israel;|Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany
http://dx.doi.org/10.1101/106740 2017-02-08 CC BY Salmonella enterica genomes recovered from victims of a major 16th century epidemic in Mexico Ashild J. Vagene|Michael G. Campana|Nelly M. Robles Garcia|Christina Warinner|Maria A. Spyrou|Aida Andrades Valtuena|Daniel Huson|Noreen Tuross|Alexander Herbig|Kirsten I. Bos|Johannes Krause Max Planck Institute for the Science of Human History, Jena, Germany;|Department of Human Evolutionary Biology, Harvard University, Cambridge, MA, USA;|INAH, National Institute of Anthropology and History, Mexico;|Center for Bioinformatics Tübingen (ZBIT), University of Tübingen, Tübingen, Germany
http://dx.doi.org/10.1101/107003 2017-02-08 Microbiology CC BY Validation and Implementation of CLIA-Compliant Whole Genome Sequencing (WGS) in Public Health Laboratory Varvara K Kozyreva|Chau-Linda Truong|Alexander L Greninger|John Crandall|Rituparna Mukhopadhyay|Vishnu Chaturvedi California Department of Public Health
http://dx.doi.org/10.1101/106971 2017-02-08 Cell Biology CC BY-NC-ND FAM83G/PAWS1 controls cytoskeletal dynamics and cell migration through association with the SH3 adaptor CD2AP Gopal P Sapkota|Timothy D Cummins|Kevin Z. L. Wu|Polyxeni Bozatzi|Kevin S Dingwell|Thomas J Macartney|Nicola T Wood|Joby Varghese|Robert Gourlay|David G Campbell|Alan Prescott|Eric Griffis|James C Smith University of Dundee;|CRICK Institute
http://dx.doi.org/10.1101/106922 2017-02-08 Bioinformatics Genome-wide analysis of differential translation and differential translational buffering using anota2seq Christian Oertlin|Julie Lorent|Valentina Gandin|Carl Murie|Laia Masvidal|Marie Cargnello|Luc Furic|Ivan Topisirovic|Ola Larsson Karolinska Institutet;|Lady Davis Institute;|Biomedicine Discovery Institute and Peter MacCallum Cancer Centre
http://dx.doi.org/10.1101/107060 2017-02-08 Neuroscience CC BY Robust and efficient coding with grid cells Lajos Vago|Balazs B Ujfalussy MTA Wigner Research Centre for Physics;|Wigner Research Centre for Physics
http://dx.doi.org/10.1101/107052 2017-02-08 Plant Biology CC BY-NC-ND Broad-spectrum inhibition of Phytophthora infestans by root endophytes Sophie de Vries|Janina K. von Dahlen|Anika Schnake|Sarah Ginschel|Barbara Schulz|Laura E. Rose Dalhousie University;|Heinrich-Heine University Duesseldorf;|Technische Universitaet Braunschweig
http://dx.doi.org/10.1101/106864 2017-02-08 Cancer Biology CC BY-NC Collective effects of common SNPs and improved risk prediction in lung cancer Xiaoyun Lei|Dejian Yuan|Zuobin Zhu|Shi Huang Central South University
http://dx.doi.org/10.1101/106658 2017-02-08 Biophysics Small teams of myosin Vc coordinate their stepping for efficient cargo transport on actin bundles Elena B Krementsova|Ken'ya Furuta|Kazuhiro Oiwa|Kathleen M Trybus|M. Yusuf Ali University of Vermont;|National Institute of Information and Communications Technology
http://dx.doi.org/10.1101/106948 2017-02-08 Bioinformatics CC BY Gene ORGANizer: Linking Genes to the Organs They Affect David Gokhman|Guy Kelman|Adir Amartely|Guy Gershon|Shira Tsur|Liran Carmel The Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/106930 2017-02-08 Developmental Biology A nanobody-based toolset to investigate the role of protein localization and dispersal in Drosophila Stefan Harmansa|Ilaria Alborelli|Emmanuel Caussinus|Markus Affolter University of Basel;|Biozentrum, University of Basel;|Institute of Molecular Life Sciences, University of Zurich
http://dx.doi.org/10.1101/106856 2017-02-08 Microbiology CC BY High-Throughput Metabolic Network Analysis and Metatranscriptomics of a Cosmopolitan and Streamlined Freshwater Lineage Joshua J Hamilton|Sarahi L Garcia|Brittany S Brown|Ben O Oyserman|Francisco Moya-Flores|Stefan Bertilsson|Rex R Malmstrom|Katrina T Forest|Katherine D McMahon University of Wisconsin-Madison;|Uppsala University;|United States Department of Energy Joint Genome Institutee
http://dx.doi.org/10.1101/106815 2017-02-08 Pathology CC BY-NC Accumulation of Minor Alleles of Common SNPs in Schizophrenia Pei He|Xiaoyun Lei|Dejian Yuan|Zuobin Zhu|Shi Huang Central South University;|Xuzhou Medical University
http://dx.doi.org/10.1101/107037 2017-02-08 Genetics CC BY Cigarette smoking increases coffee consumption: findings from a Mendelian randomisation analysis Johan Bjorngaard|Ask Nordestgaard|Amy Taylor|Jorien Treur|Maiken Gabrielsen|Marcus R Munafo|Borge Nordestgaard|Bjorn Asvold|Pal Romundstad|George Davey Smith NTNU;|University of Copenhagen;|University of Bristol;|Radboud University
http://dx.doi.org/10.1101/106898 2017-02-08 Immunology Quantitative characterization of CTLA4 trafficking and turnover using a combined in vitro and in silico approach Sahamoddin Khailaie|Behzad Rowshanravan|Philippe A. Robert|Lucy S. K. Walker|David M. Sansom|Michael Meyer-Hermann Department of Systems Immunology and Braunschweig Integrated Centre of Systems Biology (BRICS);|Institute of Immunity and Transplantation, University College London (UCL)
http://dx.doi.org/10.1101/106914 2017-02-08 Evolutionary Biology Re-evaluating inheritance in genome evolution: widespread transfer of LINEs between species Atma Ivancevic|Daniel Kortschak|Terry Bertozzi|David Adelson The University of Adelaide;|South Australian Museum
http://dx.doi.org/10.1101/107029 2017-02-08 Genetics CC BY-NC An efficient FLP-based toolkit for spatiotemporal control of gene expression in Caenorhabditis elegans Celia Maria Munoz-Jimenez|Cristina Ayuso|Agnieszka Dobrzynska|Antonio Torres|Patricia de la Cruz-Ruiz|Peter Askjaer Andalusian Center for Developmental Biology
http://dx.doi.org/10.1101/106872 2017-02-08 Genomics CpG methylation accounts for genome-wide C>T mutation variation and cancer driver formation across cancer types Rebecca C. Poulos|Jake Olivier|Jason W. H. Wong UNSW Australia
http://dx.doi.org/10.1101/106989 2017-02-08 Microbiology CC BY-NC-ND Habitat generalists or specialists, insights from comparative genomic analyses of Thermosipho lineages Thomas H.A. Haverkamp|Claire Geslin|Julien Lossouarn|Olga A. Podosokorskaya|Ilya Kublanov|Camilla L. Nesbo Centre for Ecological and Evolutionary Synthesis, University of Oslo;|Universite de Bretagne Occidentale, Institut Universitaire Europeen de la Mer UMR 61;|Winogradsky Institute of Microbiology, Research Center of Biotechnology, Russian Academy of Science
http://dx.doi.org/10.1101/106997 2017-02-08 Molecular Biology CC BY-NC-ND Taenia solium TAF6 and TAF9 binds to a putative Downstream Promoter Element present in TsTBP1 gene core promoter Oscar Rodriguez Lima|Ponciano Garcia-Gutierrez|Lucia Jimenez|Angel Zarain-Herzberg|Roberto Lazarini|Abraham Landa University of Lausanne;|UAM;|UNAM
http://dx.doi.org/10.1101/107086 2017-02-08 Genomics CC BY-ND Genome-wide identification of lineage and locus specific variation associated with pneumococcal carriage duration John A Lees|Nicholas J Croucher|David Goldblatt|Francois Nosten|Julian Parkhill|Claudia Turner|Paul Turner|Stephen D Bentley Wellcome Trust Sanger Institute;|Imperial College London;|University College London;|Oxford Mahidol University Tropical Medicine Research Unit;|University of Oxford
http://dx.doi.org/10.1101/106385 2017-02-08 Genomics CC BY-NC The house spider genome reveals an ancient whole-genome duplication during arachnid evolution Evelyn E Schwager|Prashant P Sharma|Thomas Clarke|Daniel J Leite|Torsten Wierschin|Matthias Pechmann|Yasuko Akiyama-Oda|Lauren Esposito|Jesper Bechsgaard|Trine Bilde|Alexandra D Buffry|Hsu Chao|Huyen Dinh|HarshaVardhan Doddapaneni|Shannon Dugan|Cornelius Eibner|Cassandra G Extavour|Peter Funch|Jessica Garb|Vanessa L Gonzalez|Sam Griffiths-Jones|Yi Han|Cheryl Hayashi|Maarten Hilbrant|Daniel S T Hughes|Ralf Janssen|Sandra L Lee|Ignacio Maeso|Shwetha C Murali|Donna M Muzny|Rodrigo Nunes da Fonseca|Jiaxin Qu|Matthew Ronshaugen|Christoph Schomburg|Anna Schoenauer|Angelika Stollewerk|Montserrat Torres-Oliva|Natascha Turetzek|Bram Vanthournout|Jack Werren|Carsten Wolff|Kim C Worley|Gregor Bucher|Richard A Gibbs|Jonathan Coddington|Hiroki Oda|Mario Stanke|Nadia A Ayoub|Nikola-Michael Prpic|Jean-Francois Flot|Nico Posnien|Stephen Richards|Alistair P McGregor Oxford Brookes University;|University of Wisconsin-Madison;|Washington and Lee University;|Ernst Moritz Arndt University Greifswald;|University of Cologne;|Osaka Medical College;|California Academy of Sciences;|Aarhus University;|Baylor College of Medicine;|Friedrich-Schiller-University Jena;|Harvard University;|University of Massachusetts Lowell;|Smithsonian National Museum of Natural History;|University of Manchester;|University of California, Riverside;|Uppsala University;|Universidad Pablo de Olavide, Sevilla;|Universidade Federal do Rio de Janeiro;|Georg-August-University Goettingen;|Queen Mary University of London;|University of Rochester;|Humboldt-Universitaet Berlin;|Osaka University;|Universite libre de Bruxelles
http://dx.doi.org/10.1101/106906 2017-02-08 Molecular Biology Antibacterial nucleoside-analog inhibitor of bacterial RNA polymerase: pseudouridimycin Sonia Maffioli|Yu Zhang|David Degen|Thomas Carzaniga|Giancarlo Del Gatto|Stefania Serina|Paolo Monciardini|Carlo Mazzetti|Paola Guglierame|Gianpaolo Candiani|Alina Iulia Chiriac|Giuseppe Facchetti|Petra Kaltofen|Hans-Georg Sahl|Gianni Deho|Stefano Donadio|Richard H. Ebright NAICONS Srl;|Rutgers University;|University of Milan;|NeED Pharma Srl;|Vicuron Pharmaceiticals;|University of Bonn;|Vicuron Pharmaceuticals
http://dx.doi.org/10.1101/107011 2017-02-08 Evolutionary Biology What shapes the continuum of reproductive isolation? Lessons from Heliconius butterflies. Claire Merot|Camilo Salazar|Richard M Merrill|Chris D Jiggins|Mathieu Joron ISYEB UMR 7205, Museum National Histoire Naturelle --- Universite Laval;|Biology Program, Faculty of Natural Sciences and Mathematics. Universidad del Rosario.;|Department of Zoology, University of Cambridge;|CEFE, UMR 5175 CNRS - Universite de Montpellier
http://dx.doi.org/10.1101/107193 2017-02-09 Genomics Evolutionary and functional data power search for obsessive-compulsive disorder genes Hyun Ji Noh|Ruqi Tang|Jason Flannick|Colm O Dushlaine|Ross Swofford|Daniel Howrigan|Diane P Genereux|Jeremy Johnson|Gerard van Grootheest|Edna Grunblatt|Erik Andersson|Diana R Djurfeldt|Paresh D Patel|Michele Koltookian|Christina Hultman|Michele T Pato|Carlos N Pato|Steven A Rasmussen|Michael A Jenike|Gregory L Hanna|S. Evelyn Stewart|James A Knowles|Stephan Ruhrmann|Hans-Jorgen Grabe|Michael Wagner|Christian Ruck|Carol A Mathews|Susanne Walitza|Danielle C Cath|Guoping Feng|Elinor K Karlsson|Kerstin Lindblad-Toh Broad Institute;|Renji Hospital;|GGZ inGeest;|University of Zurich;|Karolinska Institutet;|University of Michigan;|USC;|Brown Medical School;|Harvard Medical School;|UBC;|University of Cologne;|University of Medicine Greifswald;|University of Bonn;|University of Florida;|Utrecht University;|McGovern Institute
http://dx.doi.org/10.1101/107201 2017-02-09 Cancer Biology MEF2C phosphorylation is required for chemotherapy resistance in acute myeloid leukemia Fiona Brown|Eric Still|Paolo Cifani|Sumiko Takao|Casie Reed|Scott Ficarro|Richard Koche|Peter Romanienko|Willie Mark|Conor O'Donnell|Barbara Spitzer|Crystal Stutzke|Andrei Krivtsov|Gayle Pouliot|Jarrod Marto|Scott Armstrong|Alex Kentsis MSKCC;|DFCI;|PhosphoSolutions;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/105213 2017-02-09 Microbiology CC BY-ND A target-specific assay for rapid and quantitative detection of Mycobacterium chimaera DNA in environmental and clinical specimens Enrique Zozaya-Valdes|Jessica L. Porter|John Coventry|Janet A.M. Fyfe|Glen P. Carter|Anders Goncalves da Silva|Torsten Seemann|Paul D.R. Johnson|Andrew J. Stewardson|Ivan Bastian|Sally A. Roberts|Benjamin P. Howden|Deborah A. Williamson|Timothy Stinear University of Melbourne;|VIDRL;|Austin Health;|SA Pathology;|LabPlus Auckl
http://dx.doi.org/10.1101/106534 2017-02-09 Bioinformatics Integrative analysis and refined design of CRISPR knockout screens Chen-Hao Chen|Wei Li|Tengfei Xiao|Han Xu|Peng Jiang|Clifford A. Meyer|Myles Brown|Xiaole Shirley Liu Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/107094 2017-02-09 Molecular Biology CC BY-NC-ND Symmetry broken and rebroken during the ATP hydrolysis cycle of the mitochondrial Hsp90 TRAP1 Daniel Elnatan|Miguel Betegon|Yanxin Liu|Theresa Ramelot|Michael A Kennedy|David Agard HHMI/UCSF;|Miami University;|University of California, San Francisco
http://dx.doi.org/10.1101/107425 2017-02-09 CC BY Topological and Kinetic Determinants of the Modal Matrices of Dynamic Models of Metabolism Bin Du|Daniel Craig Zielinski|Bernhard O. Palsson University of California, San Diego
http://dx.doi.org/10.1101/107458 2017-02-09 Sorting of molecular shuttles by designing electrical and mechanical properties of microtubules Naoto Isozaki|Hirofumi Shintaku|Hidetoshi Kotera|Taviare L. Hawkins|Jennifer L. Ross|Ryuji Yokokawa Kyoto University;|University of Wisconsin - La Crosse;|University of Massachusetts - Amherst
http://dx.doi.org/10.1101/102442 2017-02-09 CC BY Tex19.1 Restricts LINE-1 Mobilisation in Mouse Embryonic Stem Cells Marie MacLennan|Marta Garcia-Canadas|Judith Reichmann|Elena Khazina|Carmen Salvador-Palomeque|Abigail Mann|Paula Peressini|Laura Sanchez|Christopher J Playfoot|David Read|Chao-Chun Hung|Ragnhild Eskeland|Richard R Meehan|Oliver Weichenrieder|Jose Luis Garcia- Perez|Ian R Adams MRC Human Genetics Unit;|GENYO. Centro de Genomica e Investigacion Oncologica;|Max Planck Institute for Developmental Biology;|University of Oslo; Norwegian Center for Stem Cell Research;|MRC Human Genetics Unit; GENYO. Centro de Genomica e Investigacion Oncologica
http://dx.doi.org/10.1101/107185 2017-02-09 Evidence for time division multiplexing of multiple simultaneous items in a sensory coding bottleneck Valeria C Caruso|Jeffrey T Mohl|Chris Glynn|JungAh Lee|Shawn M Willett|Azeem Zaman|Rolando Estrada|Surya Tokdar|Jennifer M Groh Duke University;|University of Washington and University of New Hampshire
http://dx.doi.org/10.1101/107417 2017-02-09 CC BY-NC-ND Computational Analysis of Lifespan Experiment Reproducibility Michael Petrascheck|Dana Miller The Scripps Research Institute;|University of Washington School of Medicine
http://dx.doi.org/10.1101/107045 2017-02-09 CC BY-NC-ND Analysis of genetic similarity among friends and schoolmates in the National Longitudinal Study of Adolescent to Adult Health (Add Health) Benjamin W Domingue|Daniel Belsky|Jason Fletcher|Dalton Conley|Jason D. Boardman|Kathleen Mullan Harris Stanford University;|Duke University;|University of Wisconsin;|Princeton University;|University of Colorado;|University of North Carolina
http://dx.doi.org/10.1101/107276 2017-02-09 PhyD3: a phylogenetic tree viewer with extended phyloXML support for functional genomics data visualization Lukasz Kreft|Alexander Botzki|Frederik Coppens|Klaas Vandepoele|Michiel Van Bel VIB BITS;|VIB UGent;|Ghent University
http://dx.doi.org/10.1101/107375 2017-02-09 CC BY-NC-ND Investigating circadian rhythmicity in pain sensitivity using a neural circuit model for spinal cord processing of pain Jennifer A Crodelle|Sofia H. Piltz|Victoria Booth|Megan H. Hagenauer Rensselaer Polytechnic Institute;|University of Michigan
http://dx.doi.org/10.1101/107177 2017-02-09 CC BY-NC-ND Pairwise comparisons are problematic when analyzing functional genomic data across species Casey W Dunn|Felipe Zapata|Catriona Munro|Stefan Siebert|Andreas Hejnol Brown University;|University of California Los Angeles;|University of California Davis;|Sars International Centre for Marine Molecular Biology
http://dx.doi.org/10.1101/107383 2017-02-09 CC BY-NC-ND Inhibition of DNA2 nuclease as a therapeutic strategy targeting replication stress in cancer cells. Grzegorz Ira|Sandeep Kumar|Xiangdong Peng|James Daley|Lin Yang|Jianfeng Shen|Nghi Nguyen|Goeun Bae|Hengyao Niu|Yang Peng|Hui-Ju Hsieh|Lulu Wang|Chinthalapally Rao|Clifford Stephan|Patrick Sung|Guang Peng Baylor College of Medicine;|University of Texas MD Anderson Cancer Center;|Yale University School of Medicine;|Texas A&M Health Science Center;|University of Oklahoma
http://dx.doi.org/10.1101/107284 2017-02-09 CC BY On the relationship between indenation hardness and modulus, and the damage resistance of biological materials. David Labonte|Anne-Kristin Lenz|Michelle L Oyen University of Cambridge;|University of Applied Sciences Bremen
http://dx.doi.org/10.1101/107268 2017-02-09 CC BY-NC-ND Between semelparity and iteroparity: empirical evidence for a continuum of modes of parity P. William Hughes Max Planck Institute for Plant Breeding Research/University of Cologne
http://dx.doi.org/10.1101/107250 2017-02-09 CC BY-NC-ND SBpipe: a collection of pipelines for automating repetitive simulation and analysis tasks Piero Dalle Pezze|Nicolas Le Novere Babraham Institute, CB22 3AT, Cambridge, UK
http://dx.doi.org/10.1101/107243 2017-02-09 CC BY-NC-ND Functional Connectivity Dynamics of the Resting State across the Human Adult Lifespan Demian Battaglia|Boudou Thomas|Enrique CA Hansen|Sabrina Chettouf|Andreas Daffertshofer|Anthony R McIntosh|Joelle Zimmermann|Petra Ritter|Viktor Jirsa INS, Aix-Marseille University;|Aix-Marseille University / ENSTA ParisTech;|FIAS, Frankfurt;|Vrije Universiteit Amsterdam;|Rotman Research Institute, Baycrest Centre, Toronto;|Charite Universitatsmedizin, Berlin
http://dx.doi.org/10.1101/107235 2017-02-09 CC BY Bipartite Boolean modelling - a method for mechanistic simulation and validation of large-scale signal transduction networks Sebastian Thieme|Jesper C. Romers|Ulrike Muenzner|Marcus Krantz HU Berlin
http://dx.doi.org/10.1101/107326 2017-02-09 CC BY-NC-ND Functional Bias and Demographic History Obscure Patterns of Selection among Single-Copy Genes in a Fungal Species Complex Santiago Sanchez-Ramirez|Jean-Marc Moncalvo University of Toronto;|Royal Ontario Museum
http://dx.doi.org/10.1101/107409 2017-02-09 CC BY-ND A machine-learning heuristic to improve gene score prediction of polygenic traits Short title: Machine-learning boosted gene scores Guillaume Pare|Shihong Mao|Wei Q Deng Population Health Research Institute, Hamilton Health Sciences and McMaster University;|Population Health Research Institute;|Department of Statistical Sciences, University of Toronto, Toronto, Canada
http://dx.doi.org/10.1101/107334 2017-02-09 Biophysics CC BY-NC Polarity sensitive probes for super resolution STED microscopy Erdinc Sezgin|Falk Schneider|Victoria Zilles|Esther Garcia|Dominic Waithe|Andrey S Klymchenko|Christian Eggeling University of Oxford;|University of Strasbourg
http://dx.doi.org/10.1101/107342 2017-02-10 CC BY Single-Neuron Gene Expression Analysis Using the Maxwell 16 LEV System in the Neural Systems and Behavior Course Rayna M Harris|Adriane G Otopalik|Colin J Smith|Dirk Bucher|Jorge Golowasch|Hans A Hofmann The University of Texas at Austin;|Brandeis University;|University of Pennsylvania School of Medicine;|New Jersey Institute of Technology
http://dx.doi.org/10.1101/107672 2017-02-10 CC BY-NC Targeted sequencing of venom genes from cone snail genomes reveals coupling between dietary breadth and conotoxin diversity Mark Anthony Phuong|Gusti N Mahardika University of California, Los Angeles;|Udayana University
http://dx.doi.org/10.1101/107508 2017-02-10 Evolutionary Biology Variation and constraints in hybrid genome formation Anna Runemark|Cassandra N Trier|Fabrice Eroukhmanoff|Jo S Hermansen|Michael Matschiner|Mark Ravinet|Tore O Elgvin|Glenn-Peter Saetre University of Oslo
http://dx.doi.org/10.1101/107565 2017-02-10 Genomics Wild tobacco genomes reveal the evolution of nicotine biosynthesis Shuqing Xu|Thomas Brockmoeller|Aura Navarro-Quezada|Heiner Kuhl|Klaus Gase|Zhihao Ling|Wenwu Zhou|Christoph Kreitzer|Mario Stanke|Haibao Tang|Eric Lyons|Priyanka Pandey|Shree P. Pandey|Bernd Timmermann|Emmanuel Gaquerel|Ian T. Baldwin Max Planck Institute for Chemical Ecology;|University of Heidelberg;|Max-Planck-Institute for Molecular Genetics;|University of Vienna;|University of Greifswald;|Fujian Agriculture and Forestry University;|University of Arizona;|National Institute of Biomedical Genomics;|Indian Institute of Science Education and Research - Kolkata;|Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/106963 2017-02-10 Genetics CC BY-NC-ND The maternal genetic make-up of the Iberian Peninsula between the Neolithic and the Early Bronze Age Anna Szecsenyi-Nagy|Christina Roth|Brandt Guido|Cristina Rihuete-Herrada|Cristina Tejedor-Rodriguez|Petra Held|Inigo Garcia-Martinez-de-Lagran|Hector Arcusa Magallon|Stephanie Zesch|Corina Knipper|Eszter Banffy|Susanne Friedrich|Harald Meller|Primitiva Bueno-Ramirez|Rosa Barroso Bermejo|Rodrigo de Balbin Behrmann|Ana M. Herrero-Coral|Raul Flores Fernandez|Carmen Alonso Fernandez|Javier Jimenez Echevarria|Laura Rindlisbacher|Camila Oliart|Maria-Ines Fregeiro|Ignacio Soriano|Oriol Vincente|Rafael Mico|Vincente Lull|Jorge Soler Diaz|Juan Antonio Lopez Padilla|Consuelo Roca de Togores Munoz|Mauro S. Hernandez Perez|Francisco Javier Jover Maestre|Joaquin Lomba Maurandi|Azucena Aviles Fernandez|Katina T. Lillios|Ana Maria Silva|Miguel Magalhaes Ramalho|Luiz Miguel Oosterbeek|Claudia Cunha|Anna J Waterman|Jordi Roig Buxo|Andres Martinez|Juana Ponce Martinez|Mark Hunt Ortiz|Juan Carlos Mejias-Gracia|Juan Carlos Pecero Espin|Rosario Cruz-Aunon Briones|Tiago Tome|Eduardo Carmona Ballestero|Joao Luis Cardoso|Ana Cristina Araujo|Corina Liesau von Lettow-Vorbeck|Conception Blasco Bosqued|Patricia Rios Mendoza|Ana Pujante|Jose I. Royo-Guillen|Marco Aurelio Esquembre Bevia|Victor Manuel Dos Santos Goncalves|Rui Parreira|Elena Moran Hernandez|Elena Mendez Izquierdo|Jorge Vega de Miguel|Roberto Menduina Garcia|Victoria Martinez Calvo|Oscar Lopez Jimenez|Johannes Krause|Sandra L. Pichler|Rafael Garrido-Pena|Michael Kunst|Roberto Risch|Manuel A. Rojo-Guerra|Wolfgang Haak|Kurt W. Alt HAS, Research Centre for the Humanities;|Johannes Gutenberg University;|Max Planck Institute for the Science of Human History;|Universitat Autonoma de Barcelona;|Arcadia-General Foundation of Valladolid University;|German Mummy Project, Reiss-Engelhorn-Museen;|Curt-Engelhorn-Zentrum Archaeometrie gGmbH;|Romano-Germanic Commission;|State Office for Heritage Management and Archaeology Saxony-Anhalt and State Museum of Prehistory;|Universidad de Alcala de Henares;|Universidad Complutense de Madrid;|Professional Archaeologist;|Cronos SC Arqueologia y Patrimonio;|University of Basel;|Museo Arqeologico de Alicante-MARQ;|Universidad de Alicante;|Universidad de Murcia;|University of Iowa;|University of Coimbra;|Museu Geologico;|Instituto Politecnico de Tomar;|Museu Paraense Emilio Goeldi;|Mount Mercy University;|Arrago Ltd.;|Museo Arqueologico de Lorca;|Universidad de Sevilla;|Universidade Federal do Para;|Servicio Territorial de Cultura de Valladolid;|Universidade Aberta;|Research Centre in Biodiversity and Genetic Resources (CIBIO-InBIO);|Universidad Autonoma de Madrid;|Arqueologia Estudos;|Gobierno de Aragon;|Arpa Patrimonio Ltd.;|Centro de Arqueologia da Universidade de Lisboa (Uniarq);|ARGEA Ltd.;|GIPSIA Ltd;|Deutsches Archaeologisches Institut Madrid;|Universidad de Valladolid;|Danube Private University
http://dx.doi.org/10.1101/107359 2017-02-10 Ecology Analyzing Key Nodes and Epidemic Risk in Seed Networks: Sweetpotato in Northern Uganda Kelsey Andersen|Christopher Buddenhagen|Paul Rachkara|Richard Gibson|Stephen Kalule|David Phillips|Karen Garrett University of Florida;|Gulu University;|University of Greenwich
http://dx.doi.org/10.1101/107367 2017-02-10 Ecology Pathogen mitigation in an Ecuadorian potato seed system: Insights from network analysis John Hernandez Nopsa|Christopher Buddenhagen|Kelsey Andersen|Jorge Andrade-Piedra|Gregory Forbes|Peter Kromann|Sara Thomas-Sharma|Pilar Useche|Karen Garrett University of Florida;|International Potato Center;|Kansas State University
http://dx.doi.org/10.1101/105015 2017-02-10 Genomics CC BY Single-cell transcriptomics of malaria parasites Adam James Reid|Arthur M. Talman|Hayley M. Bennett|Ana R. Gomes|Mandy J. Sanders|Christopher J.R. Illingworth|Oliver Billker|Matthew Berriman|Mara K. N. Lawniczak Wellcome Trust Sanger Insititute;|Wellcome Trust Sanger Institute;|University of Cambridge
http://dx.doi.org/10.1101/107466 2017-02-10 Microbiology CC BY-NC-ND An Organelle-like Structure Correlated with the Quiescent State of Bacterial Cells Jiayu Yu|Yang Liu|Zengyi Chang Peking University
http://dx.doi.org/10.1101/107607 2017-02-10 Neuroscience Multidimensional encoding of brain connectomes Cesar F Caiafa|Franco Pestilli Indiana University / CONICET;|Indiana University
http://dx.doi.org/10.1101/107649 2017-02-10 Neuroscience CC BY-NC-ND Inhibition of histone deacetylase 1 or 2 reduces microglia activation through a gene expression independent mechanism. Benjamin S Durham|Ronald Grigg|Ian C Wood University of Leeds
http://dx.doi.org/10.1101/107623 2017-02-10 Genetics Multi-tissue polygenic models for transcriptome-wide association studies Yongjin Park|Abhishek K Sarkar|Kunal Bhutani|Manolis Kellis MIT;|UCSD
http://dx.doi.org/10.1101/106542 2017-02-10 Ecology Global cropland connectivity: A risk factor for invasion and saturation by emerging pathogens and pests Yanru Xing|John Hernandez Nopsa|Jorge Andrade-Piedra|Fen Beed|Guy Blomme|Monica Carvajal Yepes|Danny Coyne|Gregory Forbes|Jan Kreuze|Jurgen Kroschel|Lava Kumar|James Legg|Monica Parker|Elmar Schulte-Geldermann|Karen Garrett University of Florida;|International Potato Center;|World Vegetable Center;|Bioversity International;|International Center for Tropical Agriculture;|International institute of Tropical Agriculture;|International Institute of Tropical Agriculture
http://dx.doi.org/10.1101/107490 2017-02-10 Evolutionary Biology Genomic contingencies and beak shape variation in a hybrid species Anna Runemark|Laura Pineiro Fernandez|Fabrice Eroukhmanoff|Glenn-Peter Saetre University of Oslo;|University of Zurich
http://dx.doi.org/10.1101/107631 2017-02-10 Developmental Biology CC BY A high-resolution mRNA expression time course of embryonic development in zebrafish Richard J White|John E Collins|Ian M Sealy|Neha Wali|Christopher M Dooley|Zsofia Digby|Daniel N Murphy|Thibaut Hourlier|Anja Fullgrabe|Matthew P Davis|Anton J Enright|Elisabeth M Busch-Nentwich Wellcome Trust Sanger Institute;|University of Cambridge, Department of Veterinary Medicine;|EMBL-European Bioinformatics Institute
http://dx.doi.org/10.1101/107482 2017-02-10 Genomics CC BY-NC-ND Stratified Linkage Disequilibrium Score Regression reveals enrichment of eQTL effects on complex traits is not tissue specific Hill Ip|Rick Jansen|Abdel Abdellaoui|Meike Bartels|Dorret I Boomsma|Michel G Nivard Vrije Universiteit Amsterdam;|VU Medical Centre Amsterdam
http://dx.doi.org/10.1101/107656 2017-02-10 Evolutionary Biology CC BY-ND Field-based species identification in eukaryotes using single molecule, real-time sequencing. Joe Parker|Andrew J. Helmstetter|Dion S. Devey|Alexander S. T. Papadopulos Royal Botanic Gardens, Kew
http://dx.doi.org/10.1101/107524 2017-02-10 Neuroscience A memory of recent oxygen experience switches pheromone valence in C. elegans Lorenz A Fenk|Mario de Bono MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/107532 2017-02-10 Neuroscience CC BY-NC Stochastic satisficing account of choice and confidence in uncertain value-based decisions Uri Hertz|Bahador Bahrami|Mehdi Keramati School of Advanced Study, University of London, 2Institute of Cognitive Neuroscience, UCL;|Institute of Cognitive Neuroscience, University College London;|The Gatsby Computational Neuroscience Unit, University College London
http://dx.doi.org/10.1101/107557 2017-02-10 Developmental Biology Viscoelastic dissipation stabilizes cell shape changes during tissue morphogenesis Raphael Clement|Claudio Collinet|Benoit Dehapiot|Thomas Lecuit|Pierre-Francois Lenne Aix-Marseille Université / CNRS
http://dx.doi.org/10.1101/107318 2017-02-10 Bioengineering CC BY-NC-ND High-Throughput Controlled Mechanical Stimulation and Functional Imaging In Vivo Yongmin Cho|Daniel A Porto|Hyundoo Hwang|Laura J Grundy|William R Schafer|Hang Lu School of Chemical & Biomolecular Engineering, Georgia Institute of Technology, USA;|Interdisciplinary Bioengineering Program, Georgia Institute of Technology, USA;|Medical Research Council Laboratory of Molecular Biology, Cambridge, UK
http://dx.doi.org/10.1101/107599 2017-02-10 Cell Biology CC BY-NC Enzymatic production of single molecule FISH and RNA capture probes Imre Gaspar|Frank Wippich|Anne Ephrussi European Molecular Biology Laboratory
http://dx.doi.org/10.1101/107730 2017-02-10 Systems Biology CC BY Inferring intracellular signal transduction circuitry from molecular perturbation experiments Michelle L. Wynn|Megan Egber|Nikita Consul|Jungsoo Chang|Zhi-Fen Wu|Sofia D. Meravjer|Santiago Schnell University of Michigan Medical School;|Columbia University Medical School
http://dx.doi.org/10.1101/107797 2017-02-10 Genomics CC BY-NC-ND Contextual diversity of the human cell-essential proteome Thierry Bertomeu|Jasmin Coulombe-Huntington|Andrew Chatr-Aryamontri|Karine Bourdages|Yu Xia|Mike Tyers University of Montreal;|McGill University
http://dx.doi.org/10.1101/107722 2017-02-10 Developmental Biology CC BY-NC-ND SUPERMAN prevents stamen formation and promotes stem cell termination in the fourth whorl of the Arabidopsis flower Nathanael Prunet|Weibing Yang|Pradeep Das|Elliot M Meyerowitz|Thomas P Jack California Institute of Technology;|University of Cambridge;|Ecole Normale Superieure de Lyon;|Dartmouth College
http://dx.doi.org/10.1101/107714 2017-02-11 Rubin-vase percept is predicted by prestimulus coupling of category-sensitive occipital regions with frontal cortex Nicholas Peatfield|Nadia Muller|Phillipp Ruhnau|Nathan Weisz Simon Fraser University;|University Hospital Erlangen;|Otto-von-Guericke University, Magdeburg;|Centre for Cognitive Neuroscience (CCNS), University of Salzburg
http://dx.doi.org/10.1101/107771 2017-02-11 CC BY-NC-ND The effect of smoking on the brain revealed by using electronic cigarettes with concurrent fMRI Matthew B Wall|Alexander Mentink|Georgina Lyons|Oliwia S Kowalczyk|Lysia Demetriou|Rexford D Newbould Imanova Centre for Imaging Sciences;|Leiden University;|Royal Holloway, University of London
http://dx.doi.org/10.1101/107698 2017-02-11 Neuroscience CC BY-ND Model-free reinforcement learning operates over information stored in working-memory to drive human choices Carolina Feher da Silva|Yuan-Wei Yao|Todd A Hare University of São Paulo;|Beijing Normal University;|University of Zurich
http://dx.doi.org/10.1101/107847 2017-02-11 Evolutionary Biology CC BY-NC-ND Variability in fitness effects and the limitations of lineage selection Christopher J Graves|Daniel M Weinreich Brown University
http://dx.doi.org/10.1101/106674 2017-02-11 Pathology CC BY-NC Highly efficient maternal-fetal Zika virus transmission in pregnant rhesus macaques Sydney M Nguyen|Kathleen M Antony|Dawn M Dudley|Sarah Kohn|Heather Simmons|Bryce Wolfe|M Shahriar Salamat|Leandro BC Teixeira|Gregory J Wiepz|Troy H Thoong|Matthew T Aliota|Andrea M Weiler|Gabrielle L Barry|Kim L Weisgrau|Logan J Vosler|Mariel S Mohns|Meghan E Breitbach|Laurel M Stewart|Mustafa N Rasheed|Christina M Newman|Michael E Graham|Oliver E Wieben|Patrick A Turski|Kevin M Johnson|Jennifer Post|Jennifer M Hayes|Nancy Schultz-Darken|Michele L Schotzko|Josh A Eudailey|Sallie R Permar|Eva G Rakasz|Emma L Mohr|Saverio Capuano|Alice F Tarantal|Jorge E Osorio|Shelby L O'Connor|Thomas C Friedrich|David H O'Connor|Thaddeus G Golos University of Wisconsin-Madison;|Duke University Medical Center;|University of California-Davis
http://dx.doi.org/10.1101/107706 2017-02-11 Neuroscience CC BY-NC-ND Pattern separation of spiketrains by individual granule cells of the dentate gyrus Antoine D Madar|Laura A Ewell|Mathew V Jones University of Wisconsin-Madison;|University of California San Diego
http://dx.doi.org/10.1101/107763 2017-02-11 Ecology CC BY-NC-ND Rapid evolution slows extinctions in food webs Peter C. Zee|Casey P. terHorst|Sebastian J. Schreiber California State University, Northridge;|University of California, Davis
http://dx.doi.org/10.1101/107862 2017-02-11 CC BY-ND VICTOR: Genome-based Phylogeny and Classification of Prokaryotic Viruses Jan P. Meier-Kolthoff|Markus Goeker Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures
http://dx.doi.org/10.1101/107805 2017-02-11 Immunology CC BY Label-free identification of non-activated lymphocytes using three-dimensional refractive index tomography and machine learning Jonghee Yoon|YoungJu Jo|Min-hyeok Kim|Kyoohyun Kim|SangYun Lee|Suk-Jo Kang|YongKeun Park KAIST
http://dx.doi.org/10.1101/107789 2017-02-11 CC BY-NC-ND Recovery of genomes from metagenomes via a dereplication, aggregation, and scoring strategy Christian M.K. Sieber|Alexander J Probst|Allison Sharrar|Brian C Thomas|Matthias Hess|Susannah G Tringe|Jillian F Banfield Department of Energy Joint Genome Institute, Walnut Creek, CA 94598, USA;|Department of Earth and Planetary Science, University of California, Berkeley, CA 94720, USA;|Department of Animal Science, University of California, Davis, CA, 95616, USA
http://dx.doi.org/10.1101/107821 2017-02-11 Bioinformatics CC BY-NC-ND HTSvis: A web app for exploratory data analysis and visualization of arrayed high-throughput screens Christian Scheeder|Florian Heigwer|Michael Boutros German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/107813 2017-02-11 Cell Biology CC BY SIRT3-dependent mitochondrial oxidative stress in sodium fluoride-induced hepatotoxicity and salvage by melatonin Chao Song|Jiamin Zhao|Jingcheng Zhang|Tingchao Mao|Beibei Fu|Haibo Wu|Yong Zhang Northwest A&F University
http://dx.doi.org/10.1101/107888 2017-02-12 Neural decoding of visual stimuli varies with fluctuations in global network efficiency Luca Cocchi|Zhengyi Yang|Andrew Zalesky|Johannes Stelzer|Luke Hearne|Leonardo L Gollo|Jason B Mattingley QIMR Berghofer Medical Research Institute, Brisbane, Australia;|Brainnetome Center, Institute of Automation, Chinese Academy of Sciences, Beijing, China;|Melbourne Neuropsychiatry Centre, The University of Melbourne, Melbourne, Australia;|Magnetic Resonance Centre, Max-Planck-Institute for Biological Cybernetics, Tuebingen, Germany;|Queensland Brain Institute, The University of Queensland, Brisbane, Australia
http://dx.doi.org/10.1101/107961 2017-02-12 CC BY-NC-ND Response to nitrogen addition reveals metabolic and ecological strategies of soil bacteria Md Sainur Samad|Charlotte Johns|Karl G. Richards|Gary J. Lanigan|Cecile A. M. de Klein|Timothy J. Clough|Sergio E. Morales University of Otago, New Zealand;|Lincoln University, New Zealand;|Teagasc, Ireland;|AgResearch, New Zealand
http://dx.doi.org/10.1101/107953 2017-02-12 CC BY-NC Eye-Movement Reinstatement and Neural Reactivation: Testing the Hebbian Theory of Mental Imagery Michael B Bone|Marie St-Laurent|Christa Dang|Douglas A McQuiggan|Jennifer D Ryan|Bradley R Buchsbaum Rotman Research Institute Baycrest
http://dx.doi.org/10.1101/107904 2017-02-12 CC BY-NC-ND Denitrification of water in a microbial fuel cell (MFC) using seawater bacteria Naga Samrat Maruvada V.V.|Kesava Rao Kaza|Bernaardo Ruggeri|Tonia Tommasi Indian Institute of Science;|Politecnico di Torino
http://dx.doi.org/10.1101/107474 2017-02-12 Epidemiology CC BY-ND Inferring a qualitative contact rate index of uncertain epidemics Marco Tulio Angulo|Jorge X. Velasco-Hernandez National Autonomous University of Mexico;|Institute of Mathematics, National Autonomous University of Mexico
http://dx.doi.org/10.1101/107300 2017-02-12 Epidemiology CC BY-NC Response Adjusted for Days of Antibiotic Risk (RADAR): evaluation of a novel method to analyze antibiotic stewardship interventions Valentijn A. Schweitzer|Maarten van Smeden|Douwe F. Postma|Jan Jelrik Oosterheert|Marc J.M. Bonten|Cornelis H. van Werkhoven University Medical Center Utrecht, Julius Center for Health Sciences and Primary Care;|University Medical Center Utrecht, Internal Medicine and Infectious Diseases;|University Medical Center Utrecht, Medical Microbiology
http://dx.doi.org/10.1101/107573 2017-02-12 Genomics Duplication events downstream of IRX1 cause North Carolina macular dystrophy at the MCDR3 locus Valentina Cipriani|Raquel S Silva|Gavin Arno|Nikolas Pontikos|Ambreen Kalhoro|Sandra Valeina|Inna Inashkina|Mareta Audere|Katrina Rutka|Bernard Puech|Michel Michaelides|Veronica van Heyningen|Baiba Lace|Andrew R R Webster|Anthony T Moore UCL Institute of Ophthalmology; Moorfields Eye Hospital, London, UK; UCL Genetics Institute, London;|UCL Institute of Ophthalmology; Moorfields Eye Hospital, London, UK;|UCL Institute of Ophthalmology; UCL Genetics Institute, London;|Children's Clinical University Hospital, Riga, Latvia;|Latvian Biomedical Research and Study Centre, Riga, Latvia;|Latvian Biomedical Research and Study Centre, Riga, Latvia; Riga Stradins University, Riga, Latvia;|Exploration de la Vision et Neuro-Ophtalmologie, Centre Hospitalier Universitaire, Lille, France;|UCL Institute of Ophthalmology, London, UK; Moorfields Eye Hospital, London, UK,;|UCL Institute of Ophthalmology, London;|Latvian Biomedical Research and Study Centre, Riga; Centre Hospitalier de l'Université Laval;|UCL Institute of Ophthalmology, London, UK; Moorfields Eye Hospital, London, UK;|UCL Institute of Ophthalmology, London, UK; Ophthalmology Department, UCSF School of Medicine, SF,CA
http://dx.doi.org/10.1101/107896 2017-02-12 Microbiology Neutral and niche dynamics in a synthetic microbial community Nate J Cira|Michael T Pearce|Stephen R Quake Stanford University Department of Bioengineering;|Stanford University Department of Physics
http://dx.doi.org/10.1101/107979 2017-02-13 Bursting on a two states stochastic model for gene transcription in Drosophila embryos Romain Yvinec|Luiz Guilherme S. da Silva|Guilherme N. Prata|John Reinitz|Alexandre Ferreira Ramos Institut National de la Recherche Agronomique;|University of Sao Paulo;|University of Chicago
http://dx.doi.org/10.1101/108068 2017-02-13 The Deubiquitylating Enzyme Ubp12 Regulates Rad23-Dependent Substrate Delivery at the Proteasome Daniela Godderz|Nico P Dantuma Karolinska Institutet
http://dx.doi.org/10.1101/107995 2017-02-13 Genomics CC BY-NC Intron Length and Recursive Sites are Major Determinants of Splicing Efficiency in Flies Athma A Pai|Telmo Henriques|Joseph Paggi|Adam Burkholder|Karen Adelman|Christopher B Burge MIT;|NIEHS;|NIEHS, Harvard
http://dx.doi.org/10.1101/108241 2017-02-13 CC BY HIC1 links retinoic acid signalling to group 3 innate lymphoid cell-dependent regulation of intestinal immunity and homeostasis Kyle Burrows|Frann Antignano|Alistair Chenery|Vladimir Korinek|T. Michael Underhill|Colby Zaph University of British Columbia;|Institute of Molecular Genetics;|Monash University
http://dx.doi.org/10.1101/108217 2017-02-13 CC BY-NC-ND Exploring the Complex Dynamics of an Ion Channel Voltage Sensor Domain via Computation Lucie Delemotte|Marina Kasimova|Daniel Sigg|MIchael L. Klein|Vincenzo Carnevale|MOUNIR TAREK Temple University & U. Lorraine;|dPET;|Temple University;|CNRS
http://dx.doi.org/10.1101/108191 2017-02-13 Uncharacterized bacterial structures revealed by electron cryotomography Megan J Dobro|Catherine M Oikonomou|Aidan Piper|John Cohen|Kylie Guo|Taylor Jensen|Jahan Tadayon|Joseph Donermeyer|Yeram Park|Benjamin A Solis|Andreas Kjaer|Andrew I Jewett|Alasdair W McDowall|Songye Chen|Yi-Wei Chang|Jian Shi|Poorna Subramanian|Cristina V Iancu|Zhuo Li|Ariane Briegel|Elitza I Tocheva|Martin Pilhofer|Grant J Jensen Hampshire College;|California Institute of Technology;|University at Albany SUNY;|University of Southern Denmark;|National University of Singapore;|Rosalind Franklin University of Medicine and Science;|City of Hope;|Leiden University, Sylvius Laboratories;|University of Montreal;|ETH Zurich
http://dx.doi.org/10.1101/108225 2017-02-13 Caenorhabditis elegans BMP Transcriptional Program Implicates Collagen Genes in Body Size Regulation Uday Madaan|Edlira Yzeiraj|Michael Meade|Christine A. Rushlow|Cathy Savage-Dunn Queens College and the Graduate Center, CUNY;|Queens College, CUNY;|New York University
http://dx.doi.org/10.1101/108076 2017-02-13 Spodoptera exigua caterpillar feeding induces rapid defense responses in maize leaves Vered Tzin|Yuko Hojo|Susan R Strickler|Lee J Bartsch|Cairo M Archer|Kevin R Ahern|Shawn A Christensen|Ivan Galis|Lukas A Mueller|Georg Jander Boyce Thompson Institute for Plant Research, Ithaca, NY, USA;|Institute of Plant Science and Resources, Okayama University, 2-20-1, Chuo, Kurashiki, Okayama;|USDA-ARS Chemistry Unit, Center for Medical, Agricultural, and Veterinary Entomology, Gainesville;|Boyce Thompson Institute for Plant Research
http://dx.doi.org/10.1101/108159 2017-02-13 CC BY-NC-ND Short term changes in the proteome of human cerebral organoids induced by 5-methoxy-N,N-dimethyltryptamine Vanja Dakic|Juliana M Nascimento|Rafaela C Sartore|Renata de Moraes Maciel|Draulio B de Araujo|Sidarta Ribeiro|Daniel Martins-de-Souza|Stevens K Rehen D'Or Institute for Research and Education (IDOR), Rio de Janeiro - RJ, Brazil;|University of Campinas (UNICAMP), Lab of Neuroproteomics, Campinas - SP, Brazil;|Brain Institute, Federal University of Rio Grande do Norte, Natal - RN, Brazil
http://dx.doi.org/10.1101/108209 2017-02-13 CC BY-NC-ND Structure of the archaellar motor and associated cytoplasmic cone in Thermococcus kodakaraensis Ariane Briegel|Catherine M. Oikonomou|Yi-Wei Chang|Andreas Kjaer|Audrey N. Huang|Ki Woo Kim|Debnath Ghosal|Robert P. Gunsalus|Grant J. Jensen Leiden University;|California Institute of Technology;|University of Southern Denmark;|Kyungpook National University;|University of California, Los Angeles
http://dx.doi.org/10.1101/108175 2017-02-13 Ecology CC BY-NC Population dynamics of mutualism and intraspecific density dependence: how θ-logistic-like density dependence affects mutualistic positive feedback Christopher M Moore|Sam A Catella|Karen C Abbott Case Western Reserve University
http://dx.doi.org/10.1101/108043 2017-02-13 Genomics Single cell transcriptome analysis of human pancreas reveals transcriptional signatures of aging and somatic mutation patterns. Martin Enge|Hatice Efsun Arda|Marco Mignardi|John Beausang|Rita Bottino|Seung K Kim|Stephen R Quake Department of Bioengineering, Stanford University, Stanford, California 94305, United States.;|Department of Developmental Biology, Stanford University School of Medicine, California 94305, Unite;|Department of Bioengineering, Stanford University, Stanford, California 94305, United States;|Institute of Cellular Therapeutics, Allegheny Health Network, 320 East North Avenue, Pittsburgh PA 1
http://dx.doi.org/10.1101/108035 2017-02-13 Neuroscience Ciliomotor circuitry underlying whole-body coordination of ciliary activity in the Platynereis larva Csaba Veraszto|Nobuo Ueda|Luis A Bezares-Calderon|Aurora Panzera|Elizabeth A Williams|Reza Shahidi|Gaspar Jekely Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/108092 2017-02-13 Microbiology CC BY-NC-ND Plaques formed by mutagenized viral populations have elevated co-infection frequencies Elizabeth R. Aguilera|Andrea K. Erickson|Palmy R. Jesudhasan|Christopher M. Robinson|Julie K. Pfeiffer University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/108019 2017-02-13 Neuroscience CC BY Inferring decoding strategies for multiple correlated neural populations Kaushik Lakshminarasimhan|Alexandre Pouget|Gregory DeAngelis|Dora Angelaki|Xaq Pitkow Baylor College of Medicine;|University of Geneva;|University of Rochester;|Baylor College of Medicine, Rice University
http://dx.doi.org/10.1101/108134 2017-02-13 Genetics CC BY Integrative cross tissue analysis of gene expression identifies novel type 2 diabetes genes Jason M Torres|Alvaro N Barbeira|Rodrigo Bonazzola|Andrew P Morris|Kaanan P Shah|Heather E Wheeler|Graeme Bell|Nancy J Cox|Hae Kyung Im The University of Chicago;|University of Liverpool;|Loyola University Chicago;|Vanderbilt University
http://dx.doi.org/10.1101/107870 2017-02-13 Cell Biology CC BY-NC-ND Function of the Arabidopsis kinesin-4, FRA1, requires abundant processive motility Anindya Ganguly|Logan DeMott|Ram Dixit Washington University in St. Louis;|University of California Davis
http://dx.doi.org/10.1101/108142 2017-02-13 Bioinformatics CC BY dRep: A tool for fast and accurate genome de-replication that enables tracking of microbial genotypes and improved genome recovery from metagenomes Matthew R Olm|Christopher T Brown|Brandon Brooks|Jillian F Banfield UC Berkeley
http://dx.doi.org/10.1101/107938 2017-02-13 Plant Biology The rapid evolution of alternative splicing in plants Zhihao Ling|Thomas Brockmoeller|Ian T. Baldwin|Shuqing Xu Max Planck Institute for Chemical Ecology
http://dx.doi.org/10.1101/108290 2017-02-14 Genomics CC BY-ND Extremely rare variants reveal patterns of germline mutation rate heterogeneity in humans Jedidiah Carlson|Laura J Scott|Adam E Locke|Matthew Flickinger|Shawn Levy|Richard M Myers|Michael Boehnke|Hyun Min Kang|Jun Z Li|Sebastian Zollner University of Michigan;|Washington University School of Medicine;|HudsonAlpha Institute for Biotechnology
http://dx.doi.org/10.1101/108332 2017-02-14 Genetics CC BY-NC-ND MITE-based drives to transcriptional control of genome host Luis M Vaschetto CONICET
http://dx.doi.org/10.1101/105569 2017-02-14 Genetics microCT-Based Skeletal Phenomics in Zebrafish Reveals Virtues of Deep Phenotyping at the Whole-Organism Scale Matthew Hur|Charlotte A Gistelinck|Philippe Huber|Jane Lee|Marjorie H Thompson|Adrian T Monstad-Rios|Claire J Watson|Sarah K McMenamin|Andy Willaert|David M Parichy|Paul Coucke|Ronald Y Kwon University of Washington;|Ghent University;|Boston College
http://dx.doi.org/10.1101/108233 2017-02-14 Microbiology CC BY-NC-ND In vivo structures of an intact type VI secretion system revealed by electron cryotomography Yi-Wei Chang|Lee A Rettberg|Grant J Jensen California Institute of Technology;|Howard Hughes Medical Institute
http://dx.doi.org/10.1101/108316 2017-02-14 Genetics CC BY-NC-ND Modeling prediction error improves power of transcriptome-wide association studies Kunal Bhutani|Abhishek Sarkar|Yongjin Park|Manolis Kellis|Nicholas J Schork University of California, San Diego;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/108357 2017-02-14 Scientific Communication and Education CC BY-NC-ND The Rise of the Middle Author: Investigating Collaboration and Division of Labor in Biomedical Research using Partial Alphabetical Authorship Philippe Mongeon|Elise Smith|Bruno Joyal|Vincent Lariviere Universite de Montreal;|McGill University
http://dx.doi.org/10.1101/108266 2017-02-14 Genetics CC BY-NC The transcriptional basis of quantitative behavioral variation Kyle M Benowitz|Elizabeth C McKinney|Christopher B Cunningham|Allen J Moore University of Georgia;|Swansea University
http://dx.doi.org/10.1101/108308 2017-02-14 Genetics CC BY-NC-ND The power of a multivariate approach to genome-wide association studies: an example with Drosophila melanogaster wing shape William R Pitchers|Jessica Nye|Eladio J. Marquez|Alycia Kowalski|Ian Dworkin|David Houle Michigan State University;|CSIC-Universitat Pompeu Fabra;|The Jackson Laboratory for Genomic Medicine;|McMaster University;|Florida State University
http://dx.doi.org/10.1101/108274 2017-02-14 Physiology Oestrogenic vascular effects are diminished by ageing Christopher J Nicholson|Michele Sweeney|Stephen C Robson|Michael J Taggart Newcastle University
http://dx.doi.org/10.1101/108118 2017-02-14 CC BY-NC-ND Individual nucleotide resolution UV cross-linking and immunoprecipitation (iCLIP) to determine protein-RNA interactions. Christopher R Sibley Imperial College London
http://dx.doi.org/10.1101/108704 2017-02-14 An oscillopathic approach to developmental dyslexia: from genes to speech processing Miguel Jimenez-Bravo|Victoria Marrero|Antonio Benitez-Burraco UNED;|University of Huelva
http://dx.doi.org/10.1101/108688 2017-02-14 CC BY Inferring demographic history using two-locus statistics Aaron P Ragsdale|Ryan N Gutenkunst University of Arizona
http://dx.doi.org/10.1101/108662 2017-02-14 CC BY-ND Prospects for genomic selection in cassava breeding Marnin D. Wolfe|Dunia Pino Del Carpio|Olumide Alabi|Chiedozie Egesi|Lydia C Ezenwaka|Ugochukwu N Ikeogu|Robert S Kawuki|Ismail S Kayondo|Peter Kulakow|Roberto Lozano|Ismail Y Rabbi|Esuma Williams|Alfred A Ozimati|Jean-Luc Jannink Section on Plant Breeding and Genetics, Cornell University, Ithaca, NY, USA;|International Institute for Tropical Agriculture (IITA), Ibadan, Oyo, Nigeria;|National Root Crops Research Institute (NRCRI), Umudike, Umuahia, Nigeria;|Cornell University, Ithaca, NY, USA; National Root Crops Research Institute (NRCRI);|National Crops Resources Research Institute (NaCRRI), Namulonge, Uganda;|Cornell University, Ithaca, NY, USA; National Crops Resources Research Institute (NaCRRI)
http://dx.doi.org/10.1101/108639 2017-02-14 CC BY-NC-ND Systematic changes in temporal summation across human visual cortex Jingyang Zhou|Noah C Benson|Kendrick Kay|Jonathan Winawer New York University;|U Minnesota
http://dx.doi.org/10.1101/108555 2017-02-14 CC BY Unmet Needs for Analyzing Biological Big Data: A Survey of 704 NSF Principal Investigators Lindsay Barone|Jason Williams|David Micklos Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/108480 2017-02-14 CC BY-NC Biomedical Text Mining for Research Rigor and Integrity: Tasks, Challenges, Directions Halil Kilicoglu U.S. National Library of Medicine
http://dx.doi.org/10.1101/108647 2017-02-14 CC BY-NC-ND Distinct DNA-binding surfaces in the ATPase and linker domains of MutLγ determine its substrate specificities and exert separable functions in meiotic recombination and mismatch repair Corentin Claeys Bouuaert|Scott Keeney Memorial Sloan Kettering Cancer Center;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/108472 2017-02-14 Molecular Biology CC BY The regulation of tDNA transcription during the directed differentiation of stem cells. Jessica L Woolnough|David A Schneider|Keith E Giles Harvard Medical School;|The University of Alabama at Birmingham;|University of Alabama at Birmingham
http://dx.doi.org/10.1101/104653 2017-02-14 Genomics CC BY-NC-ND Repli-seq: genome-wide analysis of replication timing by next-generation sequencing Claire Marchal|Takayo Sasaki|Daniel Vera|Korey Wilson|Jiao Sima|Juan-Carlos Rivera-Mulia|Claudia Trevilla Garcia|Coralin Nogues|Ebtesam Nafie|David M Gilbert Florida State University;|Benha University
http://dx.doi.org/10.1101/108589 2017-02-14 Evolutionary Biology Can Ebola Virus evolve to be less virulent in humans? Mircea T Sofonea|Lafi Aldakak|Luis F.V.V. Boullosa|Samuel Alizon University of Montpellier;|Erasmus Mundus Master Programme in Evolutionary Biology;|CNRS
http://dx.doi.org/10.1101/108613 2017-02-14 Developmental Biology CC BY-NC-ND Synthetic DNA templates for the production of in situ hybridization probes B. Rodney Jarvis|Brian G Condie University of Georgia
http://dx.doi.org/10.1101/108654 2017-02-14 Cancer Biology Evaluation of anticancer and anti-mitotic properties of quinazoline and quinazolino-benzothiadiazine derivatives Thokhir Basha Shaik|Mohammed Shaheer Malik|Zaki S Seddigi|Sunitha Rani|Ahmed Kamal Indian Institute of Chemical Technology;|Umm Al-Qura University
http://dx.doi.org/10.1101/108605 2017-02-14 Cell Biology Knock down of Calcineurin-B2, a calcium binding regulatory subunit of Calcineurin, gives rise to hypercontraction myopathy in indirect flight muscles of Drosophila through dysregulation of calcium homeostasis Ruchi Jhonsa|Upendra Nongthomba Indian Institute of Science
http://dx.doi.org/10.1101/108597 2017-02-14 Bioinformatics CC BY-NC-ND mixOmics: an R package for 'omics feature selection and multiple data integration Florian Rohart|Benoit Gautier|Amrit Singh|Kim-Anh Le Cao University of Queensland Diamantina Institute;|The University of Queensland Diamantina Institute;|Prevention of Organ Failure (PROOF) Centre of Excellence
http://dx.doi.org/10.1101/108530 2017-02-14 Systems Biology CC BY-NC-ND A generator of morphological clones for plant species Ilya Potapov|Marko Jarvenpaa|Markku Akerblom|Pasi Raumonen|Mikko Kaasalainen Tampere University of Technology;|Aalto University, Finland;|Tampere University of Technology, Finland
http://dx.doi.org/10.1101/108563 2017-02-14 Neuroscience Identification of the primary peptide inhibitor contaminant of fibrillation and toxicity in synthetic Amyloid-β42 Daniel J Adams|Travis G Nemkov|John P Mayer|William M Old|Michael H. B. Stowell University of Colorado;|Novo Nordisk Research Center
http://dx.doi.org/10.1101/108407 2017-02-14 Epidemiology CC BY-NC Cardiac events after macrolides or fluoroquinolones in patients hospitalized for community-acquired pneumonia: post-hoc analysis of a cluster-randomized trial Douwe F. Postma|Cristian Spitoni|Cornelis H. van Werkhoven|Leontine J.R. van Elden|Jan Jelrik Oosterheert|Marc J.M. Bonten UMC Utrecht;|Diakonessenhuis Utrecht
http://dx.doi.org/10.1101/102111 2017-02-14 Clinical Trials CC BY-NC-ND A Sign of Disparity: Racial/Ethnic Composition of Treatment Centers is an Independent Risk Factor in SPRINT Trial Mathew Matlock|Na Le Dang|David Brown|S. Joshua Swamidass Washington University in Saint Louis;|Wash
http://dx.doi.org/10.1101/108431 2017-02-14 Neuroscience CC BY Sparse synaptic connectivity is required for decorrelation and pattern separation in feedforward networks Alex Cayco-Gajic|Claudia Clopath|Robin Angus Silver University College London;|Imperial College London
http://dx.doi.org/10.1101/108381 2017-02-14 Cancer Biology CC BY A minimal set of internal control genes for gene expression studies in head and neck squamous cell carcinoma Vinayak Palve|Manisha Pareek|Neeraja M Krishnan|Gangotri Siddappa|Amritha Suresh|Moni A Kuriakose|Binay Panda Ganit Labs, Bio-IT Centre;|Mazumdar Shaw Centre for Translational Research
http://dx.doi.org/10.1101/108498 2017-02-14 Genetics CC BY-NC-ND mlh3 separation of function and endonuclease defective mutants display an unexpected effect on meiotic recombination outcomes Najla Al-Sweel|Vandana Raghavan|Abhishek Dutta|VP Ajith|Luigi Di Vietro|Nabila Khondakar|Carol Manhart|Jennifer Surtees|KT Nishant|Eric Alani Cornell University;|India Institute of Science, Education, Research, Thiruvananthapuram;|University of Turin;|University at Buffalo
http://dx.doi.org/10.1101/108126 2017-02-14 Genetics CC BY-ND A rare IL2RA haplotype identifies SNP rs61839660 as causal for autoimmunity Daniel B Rainbow|Marcin Lukasz Pekalski|Antony Cutler|Oliver S Burren|Neil Walker|John Todd|Chris Wallace|Linda Wicker University of Oxford;|University of Cambridge;|Cambridge University Hospitals NHS Foundation Trust
http://dx.doi.org/10.1101/108282 2017-02-14 Neuroscience CC BY-NC-ND Resting-state network dysfunction in Alzheimer′s disease: a systematic review and meta-analysis AmanPreet Badhwar|Angela Tam|Christian Dansereau|Pierre Orban|Felix Hoffstaedter|Pierre Bellec Centre de Recherche, Institut Universitaire de Gèriatrie de Montrèal;|Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich
http://dx.doi.org/10.1101/108464 2017-02-14 Pharmacology and Toxicology CC BY Neutrophil elastase inhibitor sivelestat ameliorates gefitinib-naphthalene-induced acute pneumonitis in mice Hironori Mikumo|Toyoshi Yanagihara|Naoki Hamada|Eiji Harada|Saiko Ogata Suetsugu|Chika Ikeda Harada|Masako Arimura Omori|Kunihiro Suziki|Tetsuya Yokoyama|Yoichi Nakanishi Research Institute for Diseases of the Chest, Graduate School of Medical Sciences, Kyushu University
http://dx.doi.org/10.1101/108423 2017-02-14 Ecology CC BY-NC-ND Biological invasions in rodent communities: from ecological interactions to zoonotic bacterial infection issues Christophe Amidi Diagne|Maxime Galan|Lucie Tamisier|Jonathan d'Ambrosio|Ambroise Dalecky|Khalilou Ba|Mamadou Kane|Youssoupha Niang|Mamoudou Diallo|Aliou Sow|Anne Loiseau|Caroline Tatard|Odile Fossati-Gaschignard|Mbacke Sembene|Jean-Francois Cosson|Nathalie Charbonnel|Carine Brouat IRD, CBGP-BIOPASS;|INRA, CBGP;|IRD, CBGP;|IRd, CBGP-BIOPASS;|UCAD;|INRA
http://dx.doi.org/10.1101/108514 2017-02-14 Neuroscience CC BY-NC-ND NoRMCorre: An online algorithm for piecewise rigid motion correction of calcium imaging data Eftychios A Pnevmatikakis|Andrea Giovannucci Flatiron Institute, Simons Foundation;|Simons Foundation
http://dx.doi.org/10.1101/108365 2017-02-14 Genomics CC BY Ongoing human chromosome end extension driven by a primate ancestral genomic region revealed by analysis of BioNano genomics data Haojing Shao|Chenxi Zhou|Minh Duc Cao|Lachlan Coin Institute for Molecular Bioscience, The University of Queensland
http://dx.doi.org/10.1101/109009 2017-02-15 CC BY-NC-ND Impacts of Bisphenol A and Ethinyl Estradiol on Male and Female CD-1 Mouse Spleen Robin B Gear|Scott Belcher University of Cincinnati, Department of Pharmacology and Cell Biophysics;|North Carolina State University
http://dx.doi.org/10.1101/108928 2017-02-15 Estimation of Pairwise Genetic Distances Under Independent Sampling of Segregating Sites vs. Haplotype Sampling Max Shpak|Yang Ni|Jie Lu|Peter Mueller Sarah Cannon Research Institute, United States;|University of Texas at Austin, United States;|Fisher Scientific, United States
http://dx.doi.org/10.1101/107748 2017-02-15 On the heritability of criminal justice processing Brian B Boutwell|Eric Connolly Saint Louis University;|Pennsylvania State University, Abington
http://dx.doi.org/10.1101/108993 2017-02-15 CC BY-NC-ND Broadband spectral responses in visual cortex revealed by a new MEG denoising algorithm Eline R Kupers|Helena X Wang|Kaoru Amano|Kendrick N Kay|David J Heeger|Jonathan Winawer Department of Psychology, New York University;|Center for Neural Science, New York University;|Center for Information and Neural Networks, National Institute of Information and Communication Tech;|Center for Magnetic Resonance Research, University of Minnesota;|Department of Psychology and Center for Neural Science, New York University
http://dx.doi.org/10.1101/108936 2017-02-15 CC BY-NC-ND A SUPERNOVA AT 50 PC: EFFECTS ON THE EARTHS ATMOSPHERE AND BIOTA Adrian Melott|Brian Thomas|Michael Kachelriess|Dimitry Semikoz|Andrew Overholt University of Kansas;|Washburn University;|NTNU, Norway;|Sorbonne Paris;|MidAmerica Nazarene University
http://dx.doi.org/10.1101/108985 2017-02-15 An encoding model of temporal processing in human visual cortex Anthony Stigliani|Brianna Jeska|Kalanit Grill-Spector Stanford University
http://dx.doi.org/10.1101/108852 2017-02-15 Neuroscience Infants' neural oscillatory processing of theta-rate speech patterns exceeds adults' Victoria Leong|Elizabeth Byrne|Kaili Clackson|Naomi Harte|Sarah Lam|Kaya de Barbaro|Sam Wass University of Cambridge; Nanyang Technological University;|MRC CBU;|University of Cambridge;|University of East London;|Georgia Institute of Technology
http://dx.doi.org/10.1101/108571 2017-02-15 Developmental Biology CC BY-NC-ND Novel methods of isolation and amplification of progenitor cells applied to avian primordial germ cells Mariacruz Lopez Diaz INIA
http://dx.doi.org/10.1101/108779 2017-02-15 Developmental Biology CC BY-NC-ND Glycerophosphodiesterase GDE2 affects pancreas differentiation in zebrafish Michiel van Veen|Jason van Pelt|Laurie A. Mans|Wouter H. Moolenaar|Anna-Pavlina Haramis Netherlands Cancer Institute;|Institute of Biology, Leiden University;|The Netherlands Cancer Institute;|Leiden University
http://dx.doi.org/10.1101/108100 2017-02-15 Microbiology CC BY-NC PhageTerm: a Fast and User-friendly Software to Determine Bacteriophage Termini and Packaging Mode using randomly fragmented NGS data Julian R Garneau|Florence Depardieu|Louis-Charles Fortier|David Bikard|Marc Monot Universite de Sherbrooke;|Institut Pasteur
http://dx.doi.org/10.1101/108712 2017-02-15 Ecology CC BY-ND Health quality of seed potato and yield losses in Ecuador Israel Navarrete|Nancy Panchi|Peter Kromann|Gregory Forbes|Jorge Andrade-Piedra International Potato Center
http://dx.doi.org/10.1101/108738 2017-02-15 Neuroscience CC BY-NC-ND A computational model of shared fine-scale structure in the human connectome J. Swaroop Guntupalli|James V Haxby Dartmouth College
http://dx.doi.org/10.1101/108795 2017-02-15 Neuroscience CC BY [Re] Optimization of a free water elimination two-compartment model for diffusion tensor imaging. Rafael Neto Henriques|Ariel Rokem|Eleftherios Garyfallidis|Samuel St-Jean|Eric Thomas Peterson|Marta Correia MRC Cognition and Brain Sciences Unit, Cambridge, Cambridgeshire, UK;|The University of Washington eScience Institute, Seattle, WA, USA;|Intelligent Systems Engineering, Indiana University, IA, USA;|University Medical Center Utrecht, Utrecht, NL;|Biosciences, SRI International, Menlo Park, CA, USA
http://dx.doi.org/10.1101/108845 2017-02-15 Developmental Biology Integrated growth factor signaling promotes lung epithelial progenitor cell expansion and maintenance in mice and humans Alyssa Miller|Briana Dye|Melinda Nagy|Yu-Hwai Tsai|Sha Huang|Michael Ferguson|Jason Spence University of Michigan
http://dx.doi.org/10.1101/108902 2017-02-15 Plant Biology RNA polymerases IV and V influence the 3′ boundaries of Polymerase II transcription units in Arabidopsis Anastasia McKinlay|Ram Podicheti|Ross Cocklin|Craig S Pikaard|Douglas B Rusch Indiana University;|Howard Hughes Medical Institute, Indiana University
http://dx.doi.org/10.1101/108720 2017-02-15 Biochemistry CC BY-NC-ND Versatile Multicolor Nanodiamond Probes for Intracellular Imaging and Targeted Labeling Olga Shimoni|Kerem Bray|Leonard Cheung|Igor Aharanovich|Stella Valenzuela University of Technology, Sydney;|University of Technology Sydney
http://dx.doi.org/10.1101/108753 2017-02-15 Neuroscience Frequency-specific directed interactions in the human brain network for language Jan Mathijs Schoffelen|Annika Hulten|Nietzsche Lam|Andre Marquand|Julia Udden|Peter Hagoort Radboud University, Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/108910 2017-02-15 Microbiology A first-in-class inhibitor of parasite FtsH disrupts plastid biogenesis in human pathogens Katherine Amberg-Johnson|Suresh M Ganesan|Hernan A Lorenzi|Jacquin C Niles|Ellen Yeh Stanford University;|Massachusetts Institute of Technology;|J. Craig Venter Institute
http://dx.doi.org/10.1101/108746 2017-02-15 Immunology CC BY-NC-ND Multivalency drives the neutralizing activity of antibodies against the Plasmodium falciparum circumsporozoite protein Camilla R Fisher|Joe A Kaczmarski|Henry J Sutton|Ben Clifton|Joshua Mitchell|Yeping Cai|Johanna N Dumps|Nicholas J Darcy|Mandeep Singh|Hayley A McNamara|Aaron Chug|Tom Peat|Colin J. Jackson|Ian A Cockburn Australian National University;|CSIRO
http://dx.doi.org/10.1101/108696 2017-02-15 Ecology CC BY Thermal adaptation constrains the temperature dependence of ecosystem metabolism Daniel Padfield|Chris Lowe|Angus Buckling|Richard Ffrench-Constant|Elisa Schaum|Simon Jennings|Felicity Shelley|Jon Olafsson|Gabriel Yvon-Durocher University of Exeter;|Centre for Environment, Fisheries and Aquaculture Science;|Queen Mary University of London;|Marine and Freshwater Institute, Iceland
http://dx.doi.org/10.1101/108761 2017-02-15 Genetics CC BY-NC-ND Genome-scale genetic interactions position the Mitotic Exit Network as a major antagonist of transient Topoisomerase II deficiency. Cristina Ramos-Perez|Jessel Ayra-Plasencia|Emiliano Matos-Perdomo|Michael Lisby|Grant W Brown|Felix Machin Hospital Universitario Ntra Sra de Candelaria;|University of Copenhagen;|University of Toronto
http://dx.doi.org/10.1101/108878 2017-02-15 Neuroscience Speaker gaze changes information coupling between infant and adult brains Victoria Leong|Elizabeth Byrne|Kaili Clackson|Sarah Lam|Sam Wass University of Cambridge; Nanyang Technological University;|MRC CBU;|University of Cambridge;|University of East London
http://dx.doi.org/10.1101/108977 2017-02-16 CC BY "Opposite-of"-information improves similarity calculations in phenotype ontologies Sebastian Koehler|Peter N. Robinson|Christopher J Mungall NeuroCure Cluster of Excellence;|The Jackson Laboratory for Genomic Medicine;|LBNL
http://dx.doi.org/10.1101/086835 2017-02-16 CC BY Modelling Competition for Nutrients between Microbial Populations Growing on a Solid Agar Surface Daniel Boocock|Conor Lawless Currently Unaffiliated;|Newcastle University
http://dx.doi.org/10.1101/109256 2017-02-16 CC BY-NC-ND Parametrically scalable memory reactivation using multiple object tracking Jordan Poppenk|Kenneth A Norman Queen's University;|Princeton University
http://dx.doi.org/10.1101/109025 2017-02-16 CC BY-NC Spatial Variation of Soil Moisture and its Effect on Lint Yield in a Deficit Irrigated Cotton Field Yujin Wen Texas A&M University
http://dx.doi.org/10.1101/109157 2017-02-16 Cyanophage-encoded lipid-desaturases: oceanic distribution, diversity and function Sheila Roitman|Ellen Hornung|Jose Flores-Uribe|Itai Sharon|Ivo Feussner|Oded Beja Faculty of Biology, Technion - Israel Institute of Technology, Haifa, Israel;|University of Gottingen, Albrecht-von-Haller-Institute for Plant Sciences, Gottingen, Germany;|Migal Galilee Research Institute, Kiryat Shmona, Tel Hai College, Upper Galilee, Israel
http://dx.doi.org/10.1101/073866 2017-02-16 CC BY-NC mTORC1 controls cytoplasmic crowding by regulating ribosome concentration Morgan Delarue|Gregory Brittingham|Ivan Surovtsev|Kristopher John Kennedy|Ignacio Gutierrez|Jean Chung|Jay T. Groves|Christine Jacobs-Wagner|Liam J Holt New York University Langone Medical Center;|Yale University;|University of California, Berkeley
http://dx.doi.org/10.1101/109264 2017-02-16 CC BY-NC Translation efficiency is maintained at elevated temperature in E. coli Gareth J Morgan|David H Burkhardt|Jeffery W Kelly|Evan T Powers The Scripps Research Institute;|University of California, San Francisco
http://dx.doi.org/10.1101/109082 2017-02-16 CC BY A general and powerful stage-wise testing procedure for differential expression and differential transcript usage Koen Van den Berge|Charlotte Soneson|Mark D. Robinson|Lieven Clement Ghent University;|University of Zurich
http://dx.doi.org/10.1101/109041 2017-02-16 Ecology CC BY Estimating environmental suitability John Drake|Robert Richards University of Georgia
http://dx.doi.org/10.1101/109140 2017-02-16 Genomics CC BY A new model for ancient DNA decay based on paleogenomic meta-analysis Logan Kistler|Roselyn Ware|Oliver Smith|Matthew Collins|Robin G Allaby Smithsonian Institution, National Museum of Natural History;|University of Warwick;|University of York
http://dx.doi.org/10.1101/109066 2017-02-16 Animal Behavior and Cognition CC BY-NC-ND Hypoxia has lasting effects on fast startle behavior of a tropical fish, (Haemulon plumieri) Mayra A Sanchez-Garcia|Steven J Zottoli|Loretta M Roberson University of Puerto Rico;|Marine Biological Laboratory 7 MBL Street Woods Hole, MA 02543;|Marine Biological Laboratories
http://dx.doi.org/10.1101/109033 2017-02-16 Neuroscience CC BY-NC-ND Harnessing sleep/wake state tracking by olfactory bulb oscillations to perform fully brain-based sleep scoring in mice Sophie Bagur|Marie Masako Lacroix|Gaetan de Lavilleon|Julie M Lefort|Helene Geoffroy|Karim Benchenane ESPCI Paris, PSL Research University
http://dx.doi.org/10.1101/108951 2017-02-16 Immunology Treatment of Graft-versus-Host Disease by Echinomycin in a New Humanized Mouse Model Yan Liu|Christopher Bailey|Christopher Lazarski|Chun-Shu Wong|Pan Zheng|Yang Liu|Yin Wang Children's National Medical Center
http://dx.doi.org/10.1101/108944 2017-02-16 Neuroscience CC BY Uncertainty in perceptual representations Dobromir Rahnev Georgia Institute of Technology
http://dx.doi.org/10.1101/106591 2017-02-16 Cell Biology Small molecule-mediated reprogramming of epithelial-mesenchymal transition thereby blocking fibrosis Han-Soo Kim|Jun-Hwan Kim|Ji Yong Lee|Young-Min Yoon|Ik-Hwan Kim|Ho-Sup Yoon|Byung-Soo Youn OsteoNeuroGen Inc.;|Institute for BioMedical Convergence Catholic Kwandong University-International St. Marys Hospital;|School of Biological Sciences Nanyang Technological University, Singapore;|School of Biological Sciences, Nanyang Technological University, Singapore
http://dx.doi.org/10.1101/109132 2017-02-16 Neuroscience CC BY-NC Developmental Downregulation of LIS1 Expression Limits Axonal Extension and Allows Axon Pruning Hirotsune Tagawa|Kanako Kumamoto|Tokuichi Iguchi|Makoto Sato|Takuya Uemura Osaka City University Graduate School of Medicine;|Graduate School of Medicine, Osaka University
http://dx.doi.org/10.1101/109199 2017-02-16 Scientific Communication and Education CC BY Maintaining the provenance of microscopy metadata using OMERO.forms software Douglas PW Russell|Peter K Sorger Harvard Medical School
http://dx.doi.org/10.1101/109215 2017-02-16 Developmental Biology Assessment of asymmetric cell divisions in the early development of Caenorhabditis elegans Rolf Fickentscher|Matthias Weiss University of Bayreuth
http://dx.doi.org/10.1101/109173 2017-02-17 Bioinformatics CC BY-ND gene-cocite: a web application for extracting, visualising and assessing the cocitations of a list of genes Richard Newton|Lorenz Wernisch University of Cambridge
http://dx.doi.org/10.1101/108324 2017-02-17 Ecology CC BY Parsing propagule pressure: Simulated and experimental disentanglement of introduction size and number of introductions for colonizing individuals Michael J Koontz|Meagan F Oldfather|Brett A Melbourne|Ruth A Hufbauer University of California, Davis;|University of California, Berkeley;|University of Colorado, Boulder;|Colorado State University
http://dx.doi.org/10.1101/109223 2017-02-17 Evolutionary Biology CC BY-NC Darker eggs resist more to desiccation: the case of melanin in Aedes, Anopheles and Culex mosquito vectors Luana C Farnesi|Helena C M Vargas|Denise Valle|Gustavo L Rezende FIOCRUZ;|UENF
http://dx.doi.org/10.1101/109090 2017-02-17 Neuroscience The Stochastic Early Reaction, Inhibition, and Late Action (SERIA) Model for Antisaccades SERIA - A model for errors and reaction times in the antisaccade task Eduardo A Aponte Perez|Dario Schobi|Klaas E Stephan|Jakob Heinzle Translational Neuromodeling Unit Univeristy of Zurich/ETHZ
http://dx.doi.org/10.1101/109355 2017-02-17 Neuroscience CC BY Commentary on Sanborn and Chater: Posterior Modes are Attractor Basins Phillip Alday|Matthias Schlesewsky|Ina Bornkessel-Schlesewsky University of South Australia
http://dx.doi.org/10.1101/109181 2017-02-17 Neuroscience CC BY-NC-ND Age-related changes in spatial and temporal features of resting state fMRI Shruti Gopal Vij|Jason Nomi|Dina R Dajani|Lucina Q Uddin University of Miami
http://dx.doi.org/10.1101/103150 2017-02-17 Microbiology Laboratory cultivation of acidophilic nanoorganisms. Physiological and bioinformatic dissection of a stable laboratory co-culture. Susanne Krause|Andreas Bremges|Philipp C. Muench|Alice C. McHardy|Johannes Gescher Karlsruhe Institute of Technology;|Helmholtz Centre for Infection Research;|Karlsruhe Institue of Technology
http://dx.doi.org/10.1101/102525 2017-02-17 Neuroscience CC BY-ND Learning place cells, grid cells and invariances: A unifying model Simon N Weber|Henning Sprekeler Technical University Berlin
http://dx.doi.org/10.1101/109017 2017-02-16 Scientific Communication and Education CC BY-ND Reproducibility2020: Progress and Priorities Leonard Freedman|Gautham Venugopalan|Rosann Wisman Global Biological Standards Institute;|Gryphon Scientific, LLC
http://dx.doi.org/10.1101/109108 2017-02-16 Microbiology CC BY Holographic deep learning for rapid optical screening of anthrax spores YoungJu Jo|Sangjin Park|JaeHwang Jung|Jonghee Yoon|Hosung Joo|Min-hyeok Kim|Suk-Jo Jo|Myung Chul Choi|Sang Yup Lee|YongKeun Park KAIST
http://dx.doi.org/10.1101/107441 2017-02-17 Distinct neural systems for the production of communicative vocal behaviors Zarinah K Agnew|Liliya Ward|Carolyn McGettigan|Oliver Josephs|Sophie Kertu Scott UCSF;|UCL;|Royal Holloway
http://dx.doi.org/10.1101/109538 2017-02-17 CC BY Using remote camera traps to assess mammal and bird assemblages across a complex environmental landscape Carl S Cloyed|Laura R Cappelli|David A Tilson|John A Crawford|Anthony I Dell National Great Rivers Research and Education Center
http://dx.doi.org/10.1101/109124 2017-02-17 Whole exome sequencing reveals a mutation in ARMC9 as a cause of mental retardation, ptosis and polydactyly Anjana Kar|Shubha R Phadke|Aneek Das Bhowmik|Ashwin Dalal Diagnostics Division, Center for DNA Fingerprinting and Diagnostics;|Department of Medical Genetics, Sanjay Gandhi Postgraduate Institute of Medical Sciences, Lucknow;|Diagnostics Division, Centre for DNA Fingerprinting and Diagnostics, Hyderabad, India
http://dx.doi.org/10.1101/094581 2017-02-17 CC BY Mass spectrometrists should search for all peptides, but assess only the ones they care about Adriaan Sticker|Lieven Clement|Lennart Martens University Ghent
http://dx.doi.org/10.1101/109512 2017-02-17 CC BY-NC-ND Strategies for analyzing bisulfite sequencing data Katarzyna Wreczycka|Alexander Gosdschan|Dilmurat Yusuf|Bjoern Gruening|Yassen Assenov|Altuna Akalin Max Delbrueck Center for Molecular Medicine - Berlin;|University of Freiburg;|DKFZ
http://dx.doi.org/10.1101/109488 2017-02-17 Toxicity and applications of internalised magnetite nanoparticles within live Paramecium caudatum cells Richard Mayne|James Whiting|Chris Melhuish|Andrew Adamatzky University of the West of England;|Bristol Robotics Laboratory
http://dx.doi.org/10.1101/109405 2017-02-17 CC BY Simulating retinal encoding: factors influencing Vernier acuity Haomiao Jiang|Nicolas Cottaris|James Golden|David Brainard|Joyce Farrell|Brian Wandell Google Inc;|University of Pennsylvania;|Stanford University
http://dx.doi.org/10.1101/109447 2017-02-17 CC BY Molecular evidence for the early evolution of photosynthetic water oxidation Tanai Cardona|Patricia Sanchez-Baracaldo|A. William Rutherford|Anthony Larkum Imperial College London;|University of Bristol;|University of Technology Sydney
http://dx.doi.org/10.1101/108894 2017-02-17 CC BY Individual differences in responsivity to social rewards: Insights from two eye-tracking tasks Bhismadev Chakrabarti|Anthony Haffey|Loredana Canzano|Christopher Taylor|Eugene McSorley University of Reading;|Sapienza University of Rome;|New England College of Optometry
http://dx.doi.org/10.1101/107664 2017-02-17 CC BY-NC The erratic and contingent progression of research on territoriality: a case study. Ambika Kamath|Jonathan Losos Harvard University
http://dx.doi.org/10.1101/109470 2017-02-17 Studies in Particle Sorting by Paramecium Cilia Arrays Richard Mayne|James Whiting|Gabrielle Wheway|Chris Melhuish|Andrew Adamatzky University of the West of England;|Bristol Robotics Laboratory
http://dx.doi.org/10.1101/109504 2017-02-17 CC BY-NC-ND HistMapR: Rapid digitization of historical land-use maps in R Alistair G Auffret|Adam Kimberley|Jan Plue|Helle Skanes|Simon Jakobsson|Emelie Walden|Marika Wennbom|Heather Wood|James M Bullock|Sara A O Cousins|Mira Gartz|Danny A P Hooftman|Louise Trank Stockhom University;|Stockholm University;|NERC Centre for Ecology & Hydrology
http://dx.doi.org/10.1101/108456 2017-02-17 Analysis of the Quality of Macromolecular Structures Dinakar M. Salunke International Centre for Genetic Engineering and Biotechnology
http://dx.doi.org/10.1101/109306 2017-02-17 CC BY-NC-ND A Fluorescent Split Aptamer for Visualizing RNA-RNA Assembly In Vivo Khalid K Alam|Kwaku D Tawiah|Matthew F Lichte|David Porciani|Donald H Burke Northwestern University;|University of Missouri
http://dx.doi.org/10.1101/109637 2017-02-17 CC BY-NC MinE recruits, stabilizes, releases, and inhibits MinD interactions with membrane to drive oscillation Anthony G Vecchiarelli|Min Li|Michiyo Mizuuchi|Vassili Ivanov|Kiyoshi Mizuuchi University of Michigan;|National Institute of Diabetes, and Digestive and Kidney Diseases, National Institutes of Health
http://dx.doi.org/10.1101/109207 2017-02-17 Systematic analysis of cell phenotypes and cellular social networks in tissues using the multiplexed image cytometry analysis toolbox (miCAT) Denis Schapiro|Hartland Warren Jackson|Swetha Raghuraman|Vito Riccardo Tomaso Zanotelli|Jana R R Fischer|Daniel Schulz|Charlotte Giesen|Raul Catena|Zsuzsanna Varga|Bernd Bodenmiller Institute of Molecular Life Sciences, University of Zurich, Switzerland;|Institute of Surgical Pathology, University Hospital Zurich, Switzerland
http://dx.doi.org/10.1101/109330 2017-02-17 CC BY-NC-ND Linking soil biology and chemistry using bacterial isolate exometabolite profiles Tami L Swenson|Ulas Karaoz|Joel M Swenson|Benjamin P Bowen|Trent R Northen Lawrence Berkeley National Lab
http://dx.doi.org/10.1101/078527 2017-02-17 Activation of the hypothalamic feeding centre upon visual prey detection Akira Muto|Pradeep Lal|Deepak Ailani|Gembu Abe|Mari Itoh|Koichi Kawakami National Institute of Genetics (NIG);|The Kavli Institute for Systems Neuroscience;|Tohoku University
http://dx.doi.org/10.1101/109595 2017-02-17 CC BY-NC-ND Harnessing optogenetics to probe sub-cellular mechanics Patrick W Oakes|Elizabeth Wagner|Christoph A Brand|Dimitri Probst|Marco Linke|Ulrich S Schwarz|Michael Glotzer|Margaret L Gardel University of Chicago;|Heidelberg University
http://dx.doi.org/10.1101/109587 2017-02-17 CC BY Emergent community agglomeration from data set geometry Chenchao Zhao|Jun S. Song University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/109629 2017-02-17 CC BY-NC-ND Modeling allele-specific gene expression by single-cell RNA sequencing Yuchao Jiang|Nancy R Zhang|Mingyao Li University of Pennsylvania
http://dx.doi.org/10.1101/109439 2017-02-17 A novel mitochondrial enriched antioxidant protects neurons against acute oxidative stress Nicola J Drummond|Nick O Davies|Janet E Lovett|Mark R Miller|Graeme Cook|Thomas Becker|Catherina G Becker|Donald B McPhail|Tilo Kunath University of Edinburgh;|University of St Andrews;|Antoxis Limited
http://dx.doi.org/10.1101/109520 2017-02-17 CC BY Verification of Arabidopsis stock collections using SNPmatch - an algorithm for genotyping high-plexed samples Rahul Pisupati|Ilka Reichardt|Uemit Seren|Pamela Korte|Viktoria Nizhynska|Envel Kerdaffrec|Kristina Uzunova|Fernando Rabanal|Daniele L Filiault|Magnus Nordborg Gregor Mendel Institute;|Institute of Molecular Pathology
http://dx.doi.org/10.1101/109579 2017-02-17 CC BY-NC The third moments of the site frequency spectrum Alexander Klassmann|Luca Ferretti University of Cologne;|The Pirbright Institute
http://dx.doi.org/10.1101/109280 2017-02-17 Proper experimental design requires randomization/balancing of molecular ecology experiments Miklos Balint|Orsolya Marton|Marlene Schatz|Rolf-Alexander Duering|Hans-Peter Grossart Senckenberg Biodiversity and Climate Research Centre;|Centre for Agricultural Research, Hungarian Academy of Sciences;|Institut fuer Bodenkunde und Bodenerhaltung, Heinrich-Buff-Ring 26, 35392 Giessen, Germany;|Leibniz Institute for Freshwater Ecology and Inland Fisheries, Alte Fischerhuette 2, 16775 Stechlin,
http://dx.doi.org/10.1101/109389 2017-02-17 Bioinformatics CC BY-NC Significance estimation for large scale untargeted metabolomics annotations Kerstin Scheubert|Franziska Hufsky|Daniel Petras|Mingxun Wang|Louis-Felix Nothias|Kai Duehrkop|Nuno Bandeira|Pieter Dorrestein|Sebastian Boecker Friedrich Schiller University Jena, Germany;|University of California, San Diego, USA
http://dx.doi.org/10.1101/109363 2017-02-17 Bioinformatics CC BY-NC-ND High-confidence Coding and Noncoding Transcriptome Maps Bo-Hyun You|Sang-Ho Yoon|Jin-Wu Nam Hanyang University
http://dx.doi.org/10.1101/109397 2017-02-17 Bioinformatics From Sequence to Function: Coevolving Amino Acids Encode Structural and Functional Domains Daniele Granata|Luca Ponzoni|Cristian Micheletti|Vincenzo Carnevale Temple University;|Scuola Internazionale Superiore di Studi Avanzati (SISSA)
http://dx.doi.org/10.1101/109371 2017-02-17 Genetics CC BY-NC-ND Patterns of shared signatures of recent positive selection across human populations Kelsey Elizabeth Johnson|Benjamin Franklin Voight University of Pennsylvania
http://dx.doi.org/10.1101/109553 2017-02-17 Genetics Zebrafish models for human ALA-dehydratase-deficient porphyria (ADP) and hereditary coproporphyria (HCP) generated with TALEN and CRISPR-Cas9 Shuqing Zhang|Jiao Meng|Zhijie Niu|Yikai Huang|Jingjing Wang|Xiong Su|Yi Zhou|Han Wang Soochow University;|Harvard Medical School;|Soochow Unversity
http://dx.doi.org/10.1101/109686 2017-02-18 Genomics Metagenomic DNA sequencing for the diagnosis of intraocular infections Thuy Doan|Nisha Acharya|Benjamin Pinsky|Malaya Sahoo|Eric Chow|Niaz Banaei|Indre Budvytiene|Vicky Cevallos|Lina Zhong|Zhaoxia Zhou|Thomas Lietman|Joseph L DeRisi Proctor Foundation/University of California San Francisco;|Stanford University;|University of California San Francisco;|Stanford Health Care;|Proctor Foundation
http://dx.doi.org/10.1101/109736 2017-02-18 Neuroscience CC BY-NC Feedforward inhibition allows input summation to vary in recurrent cortical networks Mark H Histed National Institutes of Health
http://dx.doi.org/10.1101/109710 2017-02-18 Neuroscience Monitoring large populations of locus coeruleus neurons reveals the non-global nature of the norepinephrine neuromodulatory system Nelson K Totah|Ricardo M Neves|Stefano Panzeri|Nikos K Logothetis|Oxana Eschenko Max Planck Institute for Biological Cybernetics;|Istituto Italiano di Tecnologia
http://dx.doi.org/10.1101/109728 2017-02-18 Bioinformatics CC BY-NC Intervene: a tool for intersection and visualization of multiple gene or genomic region sets Aziz Khan|Anthony Mathelier Centre for Molecular Medicine Norway (NCMM), University of Oslo
http://dx.doi.org/10.1101/109645 2017-02-18 Genomics Long-term taxonomic and functional divergence from donor bacterial strains following fecal microbiota transplantation in immunocompromised patients Eli Moss|Shannon Falconer|Ekaterina Tkachenko|Mingjie Wang|Hannah Systrom|Jasmin Mahabamunuge|David Relman|Elizabeth Hohmann|Ami Bhatt Stanford University;|Harvard Medical School
http://dx.doi.org/10.1101/109652 2017-02-18 Genetics CC BY-NC-ND Comprehensive Analysis of Constraint on the Spatial Distribution of Missense Variants in Human Protein Structures Robert Michael Sivley|Jonathan Kropski|Jonathan Sheehan|Joy Cogan|Xiaoyi Dou|Timothy S Blackwell|John A Phillips|Jens Meiler|William S Bush|John A Capra Vanderbilt University;|Case Western Reserve University
http://dx.doi.org/10.1101/109603 2017-02-18 Systems Biology CC BY-ND Bayesian inference of transcription dynamics from population snapshots of single-molecule RNA FISH in single cells Mariana Gomez-Schiavon|Liang-Fu Chen|Anne E West|Nicolas E Buchler Duke University
http://dx.doi.org/10.1101/109348 2017-02-18 Genomics CC BY-NC-ND Genome sequencing reveals Zika virus diversity and spread in the Americas Hayden C Metsky|Christian B Matranga|Shirlee Wohl|Stephen F Schaffner|Catherine A Freije|Sarah M Winnicki|Kendra West|James Qu|Mary Lynn Baniecki|Adrianne Gladden-Young|Aaron E Lin|Christopher H Tomkins-Tinch|Daniel J Park|Cynthia Y Luo|Kayla G Barnes|Bridget Chak|Giselle Barbosa-Lima|Edson Delatorre|Yasmine R Vieira|Lauren M Paul|Amanda L Tan|Mario C Porcelli|Chalmers Vasquez|Andrew C Cannons|Marshall R Cone|Kelly N Hogan|Edgar W Kopp|Joshua J Anzinger|Kimberly F Garcia|Leda A Parham|Rosa Margarita Gelvez Ramirez|Maria Conseulo Miranda Montoya|Diana P Rojas|Catherine M Brown|Scott Hennigan|Brandon Sabina|Sarah Scotland|Karthik Gangavarapu|Nathan D Grubaugh|Glenn Oliveira|Refugio Robles-Sikisaka|Andrew Rambaut|Lee Gehrke|Sandra Smole|M. Elizabeth Halloran|Luis Angel Villar Centeno|Salim Mattar|Ivette Lorenzana|Jose Cerbino-Neto|Wim Degrave|Patricia T Bozza|Andreas Gnirke|Kristian G Andersen|Sharon Isern|Scott Michael|Fernando Bozza|Thiago ML Souza|Irene Bosch|Nathan L Yozwiak|Bronwyn L MacInnis|Pardis C Sabeti Broad Institute of MIT and Harvard, USA;|National Institute of Infectious Diseases Evandro Chagas, Fundacao Oswaldo Cruz (FIOCRUZ), Brazil;|Laboratorio de AIDS e Imunologia Molecular, Instituto Oswaldo Cruz, FIOCRUZ, Brazil;|Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, USA;|Miami-Dade County Mosquito Control, USA;|Bureau of Public Health Laboratories, Florida Department of Health, USA;|Department of Microbiology, The University of the West Indies, Jamaica;|Instituto de Investigacion en Microbiologia, Universidad Nacional Autonoma de Honduras, Honduras;|Grupo de Epidemiologia Clinica, Universidad Industrial de Santander, Colombia;|Department of Epidemiology, University of Florida, USA;|Massachusetts Department of Public Health, USA;|Department of Immunology and Microbial Science, The Scripps Research Institute, USA;|Scripps Translational Science Institute, USA;|University of Edinburgh, UK;|Institute for Medical Engineering and Science, Massachusetts Institute of Technology, USA;|Vaccine and Infectious Disease Division, Fred Hutchinson Cancer Research Center, USA;|Institute for Tropical Biology Research, Universidad de Cordoba, Colombia;|Fiocruz, Instituto Oswaldo Cruz, Laboratorio de Genomica Funcional e Bioinformatica, Brazil;|Laboratorio de Imunofarmacologia, Instituto Oswaldo Cruz, Fundacao Oswaldo Cruz (FIOCRUZ), Brazil;|The Scripps Research Institute, USA;|National Institute for Science and Technology on Innovation on Neglected Diseases, Fiocruz, Brazil
http://dx.doi.org/10.1101/109801 2017-02-19 Simulation Framework for Generating Intratumor Heterogeneity Patterns in a Cancer Cell Population Watal M. Iwasaki|Hideki Innan SOKENDAI (Graduate University for Advanced Studies)
http://dx.doi.org/10.1101/109777 2017-02-19 Genomics CC BY-NC-ND Stroke-associated pattern of gene expression previously identified by machine-learning is diagnostically robust in an independent patient population. Grant O'Connell|Paul D Chantler|Taura L Barr West Virginia University;|Valtari Bio Incorporated
http://dx.doi.org/10.1101/109793 2017-02-19 Evolutionary Biology Niche construction in evolutionary theory: the construction of an academic niche? Manan Gupta|N.G. Prasad|Sutirth Dey|Amitabh Joshi|T.N.C. Vidya Jawaharlal Nehru Centre for Advanced Scientific Research;|Indian Institute of Science Education and Research Mohali;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/109769 2017-02-19 Immunology CC BY Gene knockout shows that PML (TRIM19) does not restrict the early stages of HIV-1 infection in human cell lines Nasser Masroori|Pearl Cherry|Natacha Merindol|Jian-xin Li|Lina Poulain|Melodie B. Plourde|Lionel Berthoux Universite du Quebec a Trois-Rivieres
http://dx.doi.org/10.1101/109785 2017-02-19 Immunology Constraining CD45 exclusion at close-contacts provides a mechanism for discriminatory T-cell receptor signalling Ricardo A Fernandes|Kristina A Ganzinger|Justin Tzou|Peter Jonsson|Steven F Lee|Matthieu Palayret|Ana Mafalda Santos|Veronica T Chang|Charlotte Macleod|B Christoffer Lagerholm|Alan E Lindsay|Omer Dushek|Andreas Tilevik|Simon J Davis|David Klenerman Stanford University;|Max-Planck-Institut fur Biochemie;|University of Notre Dame;|Lund University;|University of Cambridge;|University of Oxford;|University of Skovde
http://dx.doi.org/10.1101/109751 2017-02-18 Developmental Biology CC BY Heterogeneity of normal human breast stem and progenitor cells as revealed by transcriptional profiling Justin Colacino|Ebrahim Azizi|Michael Brooks|Shamileh Fouladdel|Sean P McDermott|Michael Lee|David Hill|Maureen Sartor|Laura Rozek|Max Wicha University of Michigan
http://dx.doi.org/10.1101/109843 2017-02-21 CC BY-NC-ND Single-cell epigenomics maps the continuous regulatory landscape of human hematopoietic differentiation Jason Daniel Buenrostro|William Greenleaf|Ryan Corces|Beijing Wu|Alicia N Schep|Caleb Lareau|Ravindra Majeti|Howard Chang Broad Institute;|Stanford University
http://dx.doi.org/10.1101/110338 2017-02-21 MiR-126 impairs the intestinal barrier function via inhibiting S1PR2 mediated activation of PI3K/AKT signaling pathway Tanzhou Chen|Haibo Xue|Ruoyang Lin|Zhiming Huang The First Affiliated Hospital of Wenzhou Medical University, China
http://dx.doi.org/10.1101/109678 2017-02-21 Genomics CC BY-NC-ND Holocene selection for variants associated with cognitive ability: Comparing ancient and modern genomes. Michael A Woodley of Menie|Shameem Younuskunja|Bipin Balan|Davide Piffer Vrije Universiteit Brussel;|Cornell University;|University of Palermo;|University of the Negev
http://dx.doi.org/10.1101/110270 2017-02-21 Neuroscience CC BY-NC Multiple Demand system′s activity predicts individual differences in working memory and fluid intelligence Moataz Assem|Idan A Blank|Zach Mineroff|Ahmet Ademoglu|Evelina Fedorenko MRC Cognition and Brain Sciences Unit, University of Cambridge;|Brain & Cognitive Sciences Department, McGovern Institute for Brain Research, MIT;|Institute of Biomedical Engineering, Bogazici University;|Department of Psychiatry, Harvard Medical School
http://dx.doi.org/10.1101/110304 2017-02-21 Microbiology Global Proteomic Analyses of Macrophage Response to Mycobacterium tuberculosis Infection Valerie Poirier|Gal Av-Gay|Yossef Av-Gay University of British Columbia
http://dx.doi.org/10.1101/110353 2017-02-21 Genetics CC BY A novel method for single whitefly (Bemisia tabaci) transcriptomes reveals an eleven amino acid deletion in the NusG protein in the bacterial endosymbiont Portiera aleyrodidarum Peter Sseruwagi|James Wainaina|Joseph Ndunguru|Robooni Tumuhimbise|Fred Tairo|Jianyang Guo|Alice Vrielink|Amanda Blythe|Tonny Kinene|Bruno De Marchi|Monica A Kehoe|Sandra K Tanz|Laura M Boykin Mikocheni Agriculture Research Institute (MARI), P.O. Box 6226, Dar es Salaam, Tanzania;|School of Molecular Sciences, University of Western Australia, Crawley, Perth, WA 6009, Australia;|National Agricultural Research Laboratories, Kawanda, P.O. Box 7065, Kampala, Uganda;|Ministry of Agriculture Key Laboratory of Agricultural Entomology, Institute of Insect Sciences, Zhe;|Crop Protection Branch, Departments of Agriculture and Food Western Australia, South Perth, WA 6151,;|ARC Centre of Excellence in Plant Energy Biology, The University of Western Australia, Perth, 6009,
http://dx.doi.org/10.1101/110171 2017-02-20 Bioinformatics CC BY Genome-wide regulatory model from MPRA data predicts functional regions, eQTLs, and GWAS hits Yue Li|Alvin Shi|Ryan Tewhey|Pardis Sabeti|Jason Ernst|Manolis Kellis MIT;|Harvard University;|UCLA
http://dx.doi.org/10.1101/110130 2017-02-20 Bioinformatics CC BY-NC-ND Similarity identification in gene expression patterns as a new approach in phenotype classification Seyed Ali Madani Tonekaboni|Venkata Satya Kumar Manem|Nehme El-Hachem|Benjamin Haibe-Kains University of Toronto;|University of Montreal;|University Health Network
http://dx.doi.org/10.1101/110148 2017-02-20 Bioinformatics CC BY-NC-ND Evolinc: a comparative transcriptomics and genomics pipeline for quickly identifying sequence conserved lincRNAs for functional analysis. Andrew D. L. Nelson|Upendra K Devisetty|Kyle Palos|Asher K Haug-Baltzell|Eric Lyons|Mark A Beilstein University of Arizona
http://dx.doi.org/10.1101/110163 2017-02-20 Genomics CC BY-NC-ND Cas9-Assisted Targeting of CHromosome segments (CATCH) for targeted nanopore sequencing and optical genome mapping Tslil Gabrieli|Hila Sharim|Yael Michaeli|Yuval Ebenstein Tel Aviv University
http://dx.doi.org/10.1101/108027 2017-02-20 Scientific Communication and Education The impact factor fallacy Frieder Michel Paulus|Nicole Cruz|Soeren Krach Luebeck University;|Birkbeck, University of London
http://dx.doi.org/10.1101/110023 2017-02-20 Bioinformatics CC BY-NC-ND FUMA: Functional mapping and annotation of genetic associations Kyoko Watanabe|Erdogan Taskesen|Arjen van Bochoven|Danielle Posthuma VU University Amsterdam;|VU University Medical Center
http://dx.doi.org/10.1101/109942 2017-02-20 Neuroscience CC BY-NC Real-time decoding of bladder pressure from pelvic nerve activity Carl Lubba|Elie Mitrani|Jim Hokanson|Warren Grill|Simon R Schultz Imperial College London;|McLaren Applied Technology;|Duke University
http://dx.doi.org/10.1101/110098 2017-02-20 Cell Biology NIMA-related kinase 1 (NEK1) regulates the localization and phosphorylation of α-Adducin (ADD1) and Myosin X (MYO10) during meiosis Miguel Angel Brieno-Enriquez|Stefannie L Moak|J Kim Holloway|Paula Elaine Cohen Cornell University
http://dx.doi.org/10.1101/109561 2017-02-20 Epidemiology CC BY-NC-ND Estimation of the dispersal distances of an aphid-borne virus in a patchy landscape David R. J. Pleydell|Samuel Soubeyrand|Sylvie Dallot|Gerard Labonne|Joel Chadoeuf|Emmanuel Jacquot|Gael Thebaud INRA
http://dx.doi.org/10.1101/110064 2017-02-20 Genetics CC BY-NC-ND Meiotic recombination modulates the structure and dynamics of the synaptonemal complex during C. elegans meiosis Divya Pattabiraman|Baptiste Roelens|Alexander Woglar|Anne M. Villeneuve Stanford University
http://dx.doi.org/10.1101/110031 2017-02-20 Evolutionary Biology Complete mitochondrial genome of golden silk producer Antheraea assamensis and its comparative analysis with other lepidopteran insects Deepika Singh|Debajyoti Kabiraj|Hasnahana Chetia|Pragya Sharma|Kartik Neog|Utpal Bora Indian Institute of Technology Guwahati;|Gauhati University Institute of Science and Technology (GUIST), Gauhati University;|Central Muga Eri Research & Training Institute (CMER&TI), Lahdoigarh
http://dx.doi.org/10.1101/109991 2017-02-20 Microbiology CC BY Local interactions lead to spatially correlated gene expression levels in bacterial groups. Simon van Vliet|Alma Dal Co|Annina R Winkler|Stefanie Spriewald|Barbel Stecher|Martin Ackermann Eawag & ETH Zurich;|Max-von-Pettenkofer Institute, LMU Munich
http://dx.doi.org/10.1101/110056 2017-02-20 Cell Biology A cell based, high throughput assay for quantitative analysis of Hedgehog pathway activation using a Smoothened phosphorylation sensor Evgenii A Albert|Christian Boekel CRTD, TU Dresden
http://dx.doi.org/10.1101/109876 2017-02-20 Genomics CC BY A fast and accurate algorithm to test for binary phenotypes and its application to PheWAS Rounak Dey|Ellen M. Schmidt|Goncalo R. Abecasis|Seunggeun Lee Univesity of Michigan;|University of Michigan
http://dx.doi.org/10.1101/109983 2017-02-20 Plant Biology CC BY-NC-ND Precise insertion and guided editing of higher plant genomes using Cpf1 CRISPR nucleases Matthew B Begemann|Benjamin N Gray|Emma January|Gina C Gordon|Yonghua He|Haijun Liu|Xingrong Wu|Thomas P Brutnell|Todd C Mockler|Mohammed Oufattole Benson Hill Biosystems;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/110015 2017-02-20 Neuroscience CC BY-NC-ND Effective connectivity inferred from fMRI transition dynamics during movie viewing points to a balanced reconfiguration of cortical interactions Matthieu Gilson|Gustavo Deco|Karl Friston|Patric Hagmann|Dante Mantini|Viviana Betti|Gian Luca Romani|Maurizio Corbetta Universitat Pompeu Fabra;|University College London;|Lausanne University Hospital and University of Lausanne;|KU Leuven;|G. d'Annunzio University;|Washington University
http://dx.doi.org/10.1101/109967 2017-02-20 Bioinformatics CC BY-NC-ND CRISPRAnalyzeR: Interactive analysis, annotation and documentation of pooled CRISPR screens Jan Winter|Marc Schwering|Oliver Pelz|Benedikt Rauscher|Tianzuo Zhan|Florian Heigwer|Michael Boutros DKFZ;|German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/110007 2017-02-20 Cancer Biology CC BY-NC-ND Stochastic model of contact inhibition and the proliferation of melanoma in situ Mauro Cesar C Morais|Izabella Stuhl|Alan U Sabino|Willian W Lautenschlager|Alexandre S Queiroga|Tharcisio C Tortelli|Roger Chammas|Yuri Suhov|Alexandre F Ramos Faculty of Medicine, University of Sao Paulo;|Math Department, University of Denver;|School of Arts Sciences and Humanities, University of Sao Paulo;|DPPMS, University of Cambridge, UK
http://dx.doi.org/10.1101/109934 2017-02-20 Cancer Biology CC BY-NC-ND A cautionary tale on using tumour growth rate to predict survival Hitesh Mistry|Fernando Ortega The University Of Manchester
http://dx.doi.org/10.1101/109926 2017-02-20 Ecology CC BY-NC-ND Bird interactions with drones, from individuals to large colonies Mitchell Lyons|Kate Brandis|Corey Callaghan|Justin McCann|Charlotte Mills|Sharon Ryall|Richard Kingsford University of New South Wales
http://dx.doi.org/10.1101/109298 2017-02-20 Developmental Biology CC BY Can the location of a trophectoderm biopsy contribute to human blastocyst development ? Tomoe Takano|Miyako Funabiki|Sagiri Taguchi|Fumie Saji|Namiko Amano|Kate Louise Young|Yoshitaka Nakamura Oak Clinic
http://dx.doi.org/10.1101/109827 2017-02-20 Genomics CC BY-NC-ND New insights on the pharmacogenomics of antidepressant response from the GENDEP and STAR*D studies: rare variant analysis and high-density imputation Chiara Fabbri|Katherine Tansey|Roy Perlis|Joanna Hauser|Neven Henigsberg|Wolfgang Maier|Ole Mors|Anna Placentino|Marcella Rietschel|Daniel Souery|Gerome Breen|Charles Curtis|Lee Sang-Hyuk|Stephen Newhouse|Hamel Patel|Michel Guipponi|Nader Perroud|Guido Bondolfi|Micheal O'Donovan|Glyn Lewis|Joanna Biernacka|Richard Weinshilboum|Anne Farmer|Katherine Aitchison|Ian Craig|Peter McGuffin|Rudolf Uher|Cathryn Lewis Department of Biomedical and Neuromotor Sciences, University of Bologna;|College of Biomedical and Life Sciences, Cardiff University;|Department of Psychiatry, Center for Experimental Drugs and Diagnostics, Boston;|Laboratory of Psychiatric Genetics, Department of Psychiatry, Poznan University of Medical Sciences;|Croatian Institute for Brain Research, Medical School, University of Zagreb;|Department of Psychiatry, University of Bonn;|Centre for Psychiatric Research, Aarhus University Hospital, Risskov;|Biological Psychiatry Unit and Dual Diagnosis Ward, Fatebenefratelli, Brescia;|Division of Genetic Epidemiology in Psychiatry, Central Institute of Mental Health, Mannheim,;|Laboratoire de Psychologie Medicale, Universite Libre de Bruxelles and Psy Pluriel,Brussels;|Institute of Psychiatry, Psychology and Neuroscience, King's College London;|Department of Genetic Medicine and Development, University of Geneva Medical School;|Department of Psychiatry, University of Geneva;|MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University;|School of Clinical Sciences, University of Bristol, Bristol;|Department of Psychiatry & Psychology, Mayo Clinic, Rochester;|Department of Molecular Pharmacology and Experimental Therapeutics, Mayo Clinic, Rochester;|Department of Psychiatry, University of Alberta, Edmonton;|Department of Psychiatry, Dalhousie University, Halifax
http://dx.doi.org/10.1101/109892 2017-02-20 Neuroscience CC BY-ND Automated 3D Neuron Tracing with Precise Branch Erasing and Confidence Controlled Back-Tracking Siqi Liu|Donghao Zhang|Yang Song|Hanchuan Peng|Weidong Cai University of Sydney;|Allen Institute for Brain Science
http://dx.doi.org/10.1101/109868 2017-02-20 Microbiology CC BY-NC-ND Are oceanic fronts ecotones? Seasonal changes along the Subtropical Front show fronts as bacterioplankton transition zones but not diversity hotspots Sergio E Morales|Moana Meyer|Kim Currie|Federico Baltar University of Otago
http://dx.doi.org/10.1101/107987 2017-02-20 Neuroscience CC BY-ND Do Candidate Genes Affect the Brain's White Matter Microstructure? Large-Scale Evaluation of 6,165 Diffusion MRI Scans Neda Jahanshad|Habib Ganjgahi|Janita Bralten|Anouk den Braber|Joshua Faskowitz|Annchen Knodt|Herve Lemaitre|Talia Nir|Binish Patel|Stuart Richie|Emma Sprooten|Kimm van Hulzen|Artemis Zavaliangos-Petropulu|Marcel Zwiers|Laura Almasy|Mark Bastin|Matt Bernstein|John Blangero|Joanne Curran|Ian J Deary|Greig de Zubicary|Ravi Duggirala|Simon Fisher|Barbara Franke|Peter Fox|David Goldman|Asta Haberg|Ahmad Hariri|L Elliot Hong|Martine Hoogman|Matt Huentelman|Nicholas Martin|Jean-Luc Martinot|Andrew McIntosh|Katie McMahon|Sarah Medland|Braxton Mitchell|Susana Munoz-Maniega|Rene Olvera|Jaap Oosterlaan|Charles Peterson|Natalie Royle|Andrew Saykin|Gunter Schumann|John Starr|Elliot A Stein|Jessika Sussmann|Maria Valdez-Hernan|Dennis van't Ent|Joanna Wardlaw|Michael Weiner|Douglas E Williamson|Anderson Winkler|Margaret J Wright|Yihong Yang|Paul M Thompson|David C Glahn|Thomas E Nichols|Peter Kochunov Imaging Genetics Center, Stevens Neuroimaging and Informatics Institute, Keck School of Medicine USC;|Department of Statistics, The University of Warwick;|Radboud University Medical Center, Donders Institute for Brain, Cognition and Behaviour;|VU University;|Duke University;|INSERM-Faculte de Medecine Paris-Sud;|Maryland Psychiatric Research Center, University of Maryland School of Medicine;|University of Edinburgh;|Mount Sinai School of Medicine;|Radboud University, Donders Centre for Cognitive Neuroimaging;|University of Texas Rio Grande;|Mayo Clinic;|Institute of Health and Biomedical Innovation, Queensland University of Technology (QUT);|Max Planck Institute for Psycholinguistics;|University of Texas Health Science Center San Antonio;|National Institute on Alcohol Abuse and Alcoholism;|Norwegian University of Science and Technology and St. Olav's Universty Hospital;|Radboud University Medical Center;|TGen;|QIMR Berghofer;|University of Queensland;|University of Maryland;|Clinical Neuropsychology Section, Vrije Universiteit Amsterdam;|Texas Biomedical Research Institute;|Indiana University School of Medicine;|King's College London;|National Institute on Drug Abuse-Intramural Research Program;|University of California, San Francisco;|Duke University & Durham VA Medical Center;|FMRIB Centre, University of Oxford;|National Institute of Drug Abuse;|Yale University;|Department of Statistics & WMG, University of Warwick
http://dx.doi.org/10.1101/109850 2017-02-20 Neuroscience Model-based spike sorting with a mixture of drifting t-distributions Kevin Q Shan|Evgueniy V Lubenov|Athanassios G Siapas California Institute of Technology
http://dx.doi.org/10.1101/109884 2017-02-20 Microbiology Bacterial outer membrane homeostasis via retrograde phospholipid transport Rahul Shrivastava|Xiang'Er Jiang|Shu-Sin Chng National University of Singapore
http://dx.doi.org/10.1101/109074 2017-02-20 Ecology Using eDNA to Detect the Distribution and Density of Invasive Crayfish in the Honghe-Hani Rice Terrace World Heritage Site Wang Cai|Zhuxin Ma|Chunyan Yang|Lin Wang|Wenzhi Wang|Guigang Zhao|Yupeng Geng|Douglas W. Yu Kunming Institute of Zoology, University of the Chinese Academy of Sciences;|Yunnan University;|Public Technical Service Center, Kunming Institute of Zoology, Chinese Academy of Science;|University of East Anglia
http://dx.doi.org/10.1101/104661 2017-02-20 Scientific Communication and Education CC BY Creating a Community of Data Champions Rosie Higman|Marta Teperek|Danny Kingsley University of Cambridge
http://dx.doi.org/10.1101/109819 2017-02-20 Neuroscience CC BY Reason's Enemy Is Not Emotion: Engagement of Cognitive Control Networks Explains Biases in Gain/Loss Framing Rosa Li|David V. Smith|John A. Clithero|Vinod Venkatraman|R. McKell Carter|Scott A. Huettel Duke University;|Temple University;|Pomona College;|University of Colorado
http://dx.doi.org/10.1101/109231 2017-02-20 Bioengineering CC BY-NC Open Design 3D-Printable Adjustable Micropipette that meets ISO Standard for Accuracy Martin Brennan|Fahad Bokhari|David Eddington University of Illinois at Chicago
http://dx.doi.org/10.1101/110668 2017-02-21 CC BY Reversed graph embedding resolves complex single-cell developmental trajectories Xiaojie Qiu|Qi Mao|Ying Tang|Li Wang|Raghav Chawla|Hannah Pliner|Cole Trapnell University of Washington;|HERE Company;|Shanghai Jiao Tong University;|University of Illinois at Chicago
http://dx.doi.org/10.1101/110700 2017-02-21 CC BY-NC-ND COPII-coated membranes function as transport carriers of intracellular procollagen-1 Amita Gorur|Lin Yuan|Samuel J Kenny|Satoshi Baba|Ke Xu|Randy Schekman UC Berkeley;|University of California, Berkeley;|Daiichi Sankyo Co. Ltd.
http://dx.doi.org/10.1101/110643 2017-02-21 CC BY-NC-ND Structural covariance networks in children with autism or ADHD Richard A.I. Bethlehem|Rafael Romero-Garcia|Elijah Mak|Edward Bullmore|Simon Baron-Cohen University of Cambridge
http://dx.doi.org/10.1101/110601 2017-02-21 CC BY-ND Understanding Tissue-specific Gene Regulation Abhijeet R. Sonawane|John Platig|Maud Fagny|Cho-Yi Chen|Joseph N. Paulson|Camila M. Lopes-Ramos|Dawn L. DeMeo|John Quackenbush|Kimberly Glass|Marieke L. Kuijjer Channing Division of Network Medicine, Department of Medicine, Brigham and Women's Hospital, Harvard;|Dana-Farber Cancer Institute, Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/110676 2017-02-21 CC BY-NC-ND Sequence properties underlying gene regulatory enhancers are conserved across mammals Ling Chen|Alexandra E Fish|John Anthony Capra Vanderbilt University
http://dx.doi.org/10.1101/110189 2017-02-21 Environmental cholera (Vibrio cholerae) dynamics in an estuarine system in southern coastal Ecuador Sadie J. Ryan|Anna M. Stewart-Ibarra|Eunice Ordonez|Winnie Chu|Julia L. Finkelstein|Christine A. King|Luis E. Escobar|Christina Lupone|Froilan Heras|Erica Tauzer|Egan Wagonner|Tyler G. James|Washington Cardenas|Mark Polhemus University of Florida;|SUNY Upstate Medical University;|Esceula Superior Politecnica del Litoral;|Cornell University;|University of Minnesota;|Universidad Technica Machala
http://dx.doi.org/10.1101/110569 2017-02-21 Variability of quantal NMDA to AMPA current ratio in nucleus tractus solitarii neurons Caroline Strube|Florian Gackiere|Layal Saliba|Fabien Tell|Jean-Pierre KESSLER Aix Marseille Universite, CNRS, CRN2M UMR 7286, Marseille, France;|CNRS
http://dx.doi.org/10.1101/110262 2017-02-21 CC BY-NC SAVE: A secure cloud-based pipeline for CRISPR pooled screen deconvolution Hyun-hwan Jeong|Seon Young Kim|Maxime WC Rosseaux|Huda Y Zoghbi|Zhandong Liu Baylor College of Medicine
http://dx.doi.org/10.1101/110221 2017-02-21 CC BY-NC-ND Payoff-biased social learning underlies the diffusion of novel extractive foraging traditions in a wild primate Brendan J Barrett|Richard McElreath|Susan Perry University of California, Davis;|Max Planck Institute for Evolutionary Anthropology;|University of California, Los Angeles
http://dx.doi.org/10.1101/110254 2017-02-21 Synthetic Biology CC BY-ND Repressing Integrase attachment site operation with CRISPR-Cas9 in E. coli Andrey Shur|Richard M Murray California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/110361 2017-02-21 CC BY-NC-ND Atomic resolution structure of serine protease proteinase K at ambient temperature Tetsuya Masuda|Mamoru Suzuki|Shigeyuki Inoue|Changyong Song|Takanori Nakane|Eriko Nango|Rie Tanaka|Kensuke Tono|Yasumasa Joti|Takashi Kameshima|Takaki Hatsui|Makina Yabashi|Bunzo Mikami|Osamu Nureki|Keiji Numata|So Iwata|Michihiro Sugahara Division of Food Science and Biotechnology, Graduate School of Agriculture, Kyoto University;|Institute for Protein Research, Osaka University;|Department of Cell Biology and Anatomy, Graduate School of Medicine, The University of Tokyo;|Department of Physics, POSTECH;|Department of Biological Sciences, Graduate School of Science, The University of Tokyo;|RIKEN SPring-8 Center;|Japan Synchrotron Radiation Research Institute;|Division of Applied Life Sciences, Graduate School of Agriculture, Kyoto University;|Enzyme Research Team, Biomass Engineering Research Division, RIKEN Center for Sustainable Resource S;|Department of Cell Biology, Graduate School of Medicine, Kyoto University
http://dx.doi.org/10.1101/110452 2017-02-21 Genomics CC BY-NC-ND Large scale variation in the rate of de novo mutation in humans and its relationship to divergence and diversity. Thomas Smith|Adam Eyre-Walker School of Life Sciences;|University of Sussex
http://dx.doi.org/10.1101/110197 2017-02-21 Microbiology The mutation rates and mutational bias of influenza A virus Matt D. Pauly|Megan Procario|Adam S. Lauring University of Michigan
http://dx.doi.org/10.1101/110395 2017-02-21 Genetics CC BY-NC-ND Replication and characterization of CADM2 and MSRA genes on human behavior Brian Boutwell|David Hinds|Jorim Tielbeek|Ken Ong|Felix Day|John Perry Saint Louis University;|23andMe;|VU University Medical Center;|University of Cambridge
http://dx.doi.org/10.1101/110346 2017-02-21 Bioinformatics CC BY chromVAR: Inferring transcription factor variation from single-cell epigenomic data Alicia N Schep|Beijing Wu|Jason Daniel Buenrostro|William J. Greenleaf Stanford University;|Broad Institute
http://dx.doi.org/10.1101/110403 2017-02-21 Plant Biology CC BY-NC-ND Boron Hyperaccumulation Mechanisms in Puccinellia distans as Revealed by Transcriptomic Analysis Saniye Elvan Ozturk|Mehmet Goktay|Canan Has|Mehmet Babaoglu|Jens Allmer|Sami Doganlar|Anne Frary Izmir institute of Technology;|Selcuk University;|Izmir Institute of Technology
http://dx.doi.org/10.1101/110528 2017-02-21 Bioinformatics CC BY Sweep Dynamics (SD) plots: Computational identification of selective sweeps to monitor the adaptation of influenza A viruses Thorsten Ralf Klingen|Susanne Reimering|Jens Loers|Kyra Mooren|Frank Klawonn|Thomas Krey|Guelsah Gabriel|Alice McHardy Helmholtz Centre for Infection Research;|Hannover Medical School;|Heinrich Pette Institute
http://dx.doi.org/10.1101/110213 2017-02-21 Bioinformatics CC BY IcyTree: Rapid browser-based visualization for phylogenetic trees and networks Timothy Glenn Vaughan University of Auckland
http://dx.doi.org/10.1101/110510 2017-02-21 Genomics CC BY-NC Genome-wide protein phylogenies for four African cichlid species Ajay Ramakrishnan Varadarajan|Rohini Mopuri|J. Todd Streelman|Patrick T McGrath Georgia Institute of Technology
http://dx.doi.org/10.1101/110619 2017-02-21 Developmental Biology Micromanagment of stem cell proliferation by the Drosophila testis stem cell niche Olga A Puretskaia|Evgenii A Albert|Nadezhda V Terekhanova|Christian Boekel CRTD, TU Dresden;|Sector for Molecular Evolution, Institute for Information Transmission Problems of the RAS (Kharkevi
http://dx.doi.org/10.1101/110239 2017-02-21 Genomics CC BY-NC Histone H3 Lysine 4 methyltransferases MLL3 and MLL4 Modulate Long-range Chromatin Interactions at Enhancers Jian Yan|Shi-An A. Chen|Andrea Local|Tristin Liu|Yunjiang Qiu|Ah-Young Lee|Inkyung Jung|Sebastian Preissl|Chloe M Rivera|Chaocheng Wang|Haruhiko Ishii|Rongxin Fang|Zhen Ye|Kai Ge|Ming Hu|Bing Ren Ludwig Institute for Cancer Research;|National Institute of Diabetes and Digestive and Kidney Diseases;|New York University
http://dx.doi.org/10.1101/109900 2017-02-22 CC BY-NC Low Dimensional Activity in Spiking Neuronal Networks Emil Waernberg|Arvind Kumar KTH Royal Inst of Technology
http://dx.doi.org/10.1101/110544 2017-02-22 Neuroscience CC BY-NC-ND mTORC1 in AGRP neurons integrates exteroceptive and interoceptive food-related cues in the modulation of adaptive energy expenditure in mice Clemence Blouet|Luke Burke|Tamana Darwish|Althea Cavanaugh|Sam Virtue|Emma Roth|Joanna Moro|Shun-Mei Liu|Jing Xia|Jeff Dalley|Keith Burling|Streamson Chua|Toni Vidal-Puig|Gary Schwartz University of Cambridge;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/110437 2017-02-22 Pharmacology and Toxicology CC BY Consensus rank orderings of molecular fingerprints illustrate the most genuine similarities between marketed drugs and small endogenous human metabolites, but highlight exogenous natural products as the most important natural drug transporter substrates. bioRxiv version. Stephen O'Hagan|Douglas B Kell The University of Manchester
http://dx.doi.org/10.1101/110429 2017-02-22 Neuroscience CC BY Developmental cognitive neuroscience using Latent Change Score models: A tutorial and applications Rogier Kievit|Andreas Brandmaier|Gabriel Ziegler|Anne-Laura van Harmelen|Susanne de Mooij|Michael Moutoussis|Ian Goodyer|Ed Bullmore|Peter Jones|Peter Fonagy|Ulman Lindenberger|Raymon Dolan MRC-CBSU;|Max Planck Institute for Human Development, Berlin, Germany;|German Center for Neurodegenerative Diseases (DZNE), Magdeburg, Germany;|University of Cambridge;|University of Amsterdam;|University College London;|Max Planck UCL Centre for Computational Psychiatry and Ageing Research, University College London
http://dx.doi.org/10.1101/110577 2017-02-22 Evolutionary Biology Evolution and manipulation of vector host choice Sylvain Gandon CNRS
http://dx.doi.org/10.1101/110387 2017-02-21 Bioinformatics CC BY GRIDSS: sensitive and specific genomic rearrangement detection using positional de Bruijn graph assembly Daniel L Cameron|Jan Schroeder|Jocelyn Sietsma Penington|Hongdo Do|Ramyar Molania|Alexander Dobrovic|Terence P Speed|Anthony Troy Papenfuss Walter and Eliza Hall Institute of Medical Research;|Olivia Newton-John Cancer Research Institute
http://dx.doi.org/10.1101/110072 2017-02-21 Neuroscience CC BY-NC Recurrent inhibition in striatum enables transfer of time-flexible skills to basal ganglia James M Murray|G. Sean Escola Columbia University
http://dx.doi.org/10.1101/110742 2017-02-21 Synthetic Biology CC BY-NC-ND Modeling mechanical interactions in growing populations of rod-shaped bacteria James J. Winkle|Oleg A Igoshin|Matthew R. Bennett|Kresimir Josic|William Ott University of Houston;|Rice University
http://dx.doi.org/10.1101/110593 2017-02-21 Plant Biology CC BY The Sorghum bicolor reference genome: improved assembly and annotations, a transcriptome atlas, and signatures of genome organization Ryan F. McCormick|Sandra K. Truong|Avinash Sreedasyam|Jerry Jenkins|Shengqiang Shu|David Sims|Megan Kennedy|Mojgan Amirebrahimi|Brock Weers|Brian McKinley|Ashley Mattison|Daryl Morishige|Jane Grimwood|Jeremy Schmutz|John Mullet Texas A&M University;|HudsonAlpha Institute for Biotechnology;|Department of Energy Joint Genome Institute;|Texas A&M Univeristy
http://dx.doi.org/10.1101/110718 2017-02-21 Plant Biology CC BY Heritability of the structures and 13C fractionation in tomato leaf wax alkanes: a genetic model system to inform paleoenvironmental reconstructions Amanda Lorraine Dorothy Bender|Daniel H Chitwood|Alexander S Bradley Washington University in St. Louis;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/110726 2017-02-21 Microbiology CC BY-ND Soil classification predicts differences in prokaryotic communities across a range of geographically distant soils once pH is accounted for Rachel Kaminsky|Blandine Trouche|Sergio E. Morales University of Otago
http://dx.doi.org/10.1101/110296 2017-02-21 Plant Biology Resolving Rapid Radiations Within Families Using Anchored Phylogenomics Etienne Leveille-Bourret|Julian R. Starr|Bruce A. Ford|Emily Moriarty Lemmon|Alan R. Lemmon University of Ottawa;|University of Manitoba;|Florida State University
http://dx.doi.org/10.1101/111013 2017-02-22 CC BY An allosteric theory of transcription factor induction Manuel Razo-Mejia|Stephanie L. Barnes|Nathan M. Belliveau|Griffin Chure|Tal Einav|Rob Phillips Caltech
http://dx.doi.org/10.1101/110973 2017-02-22 CC BY The evolution of queen control over worker reproduction in the social Hymenoptera Jason Olejarz|Carl Veller|Martin A. Nowak Harvard University
http://dx.doi.org/10.1101/110767 2017-02-22 CC BY-NC-ND Fitting mechanistic epidemic models to data: a comparison of simple Markov chain Monte Carlo approaches Michael Li|Jonathan Dushoff|Benjamin M Bolker McMaster University
http://dx.doi.org/10.1101/110791 2017-02-22 Neuroscience CC BY-NC-ND An attempt to replicate a dissociation between syntax and semantics during sentence comprehension reported by Dapretto & Bookheimer (1999, Neuron) Matthew Siegelman|Zachary Mineroff|Idan Blank|Evelina Fedorenko MIT;|HMS, MGH
http://dx.doi.org/10.1101/110494 2017-02-22 Animal Behavior and Cognition CC BY-NC GCalignR: An R package for aligning Gas-Chromatography data Meinolf Ottensmann|Martin A Stoffel|Joseph I Hoffman Bielefeld University
http://dx.doi.org/10.1101/110288 2017-02-22 Bioinformatics CC BY-NC A Mixture Copula Bayesian Network Model for Multimodal Genomic Data Qingyang Zhang|Xuan Shi University of Arkansas
http://dx.doi.org/10.1101/110809 2017-02-22 Bioinformatics Comparative insights to the transportome of Nosema: a genus of parasitic microsporidians Hasnahana Chetia|Debajyoti Kabiraj|Swagata Sharma|Utpal Bora Indian Institute of Technology Guwahati
http://dx.doi.org/10.1101/110924 2017-02-22 Neuroscience CC BY-ND Functional Connectivity Between Somatosensory and Motor Brain Areas Predicts Individual Differences in Motor Learning by Observing Heather R McGregor|Paul L Gribble University of Western Ontario
http://dx.doi.org/10.1101/110833 2017-02-22 Genomics CC BY-NC-ND Novel blood pressure locus and gene discovery using GWAS and expression datasets from blood and the kidney Georg Ehret|Louise Wain Johns Hopkins University US and Geneva University Switzerland;|Leicester University UK
http://dx.doi.org/10.1101/110908 2017-02-22 Cell Biology CC BY-ND Anoxia-Induced VEGF-Release from Rat Cardiomyocites Promotes Vascular Differentiation of Human Mesenchymal Stem Cells. Raquel Gutierrez_Lanza|Victor M Campa Inst. Biomed. Biotec. Cantabria
http://dx.doi.org/10.1101/110841 2017-02-22 Developmental Biology Decoding temporal interpretation of the morphogen Bicoid in the early Drosophila embryo Anqi Huang|Christopher Amourda|Shaobo Zhang|Nicholas S Tolwinski|Timothy Edward Saunders Mechanobiology Institute;|Division of Science, Yale-NUS college
http://dx.doi.org/10.1101/110486 2017-02-22 Animal Behavior and Cognition CC BY-NC-ND Strategic exploration in human adaptive control Eric Schulz|Edgar Klenske|Neil Bramley|Maarten Speekenbrink University College London;|MPI Tubingen
http://dx.doi.org/10.1101/110775 2017-02-22 Biophysics Dynactin has two antagonistic regulatory domains and exerts opposing effects on dynein motility Takuya Kobayashi|Takuya Miyashita|Takashi Murayama|Yoko Y. Toyoshima The University of Tokyo;|Juntendo University School of Medicine
http://dx.doi.org/10.1101/110890 2017-02-22 Neuroscience CC BY-NC-ND Mitochondrial impairment and rescue in riboflavin responsive neuropathy Andreea Manole|Zane Jaunmuktane|Iain Hargreaves|Amelie Pandraud|Vincenzo Salpietro|Simon Pope|Marthe H. R. Ludtmann|Alejandro Horga|Renata S. Renata|Abi Li|Balasubramaniem Ashokkumar|Charles M. Lourenco|Simon Heales|Rita Horvath|Patrick F. Chinnery|Camilo Toro|Andrew B. Singleton|Thomas S. Jacques|Andrey Y. Abramov|Francesco Muntoni|Michael G. Hanna|Mary M. Reilly|Tamas Revesz|Dimitri M. Kullmann|James E.C. Jepson|Henry Houlden UCL Institute of Neurology, Queen Square, London, WC1N 3BG, UK;|Neurometabolic Unit, National Hospital for Neurology and Neurosurgery, London, WC1N 3BG,UK;|Reta Lila Weston Institute of Neurological Studies, Queen Square, London WC1N 3BG, UK;|Universidade de Sao Paulo (USP), Ribeirao Preto, SP, Brazil;|Chemical Pathology, Great Ormond Street Children's Hospital, London, UK;|Institute of Genetic Medicine, Newcastle University, Central Parkway, Newcastle upon Tyne, UK;|Department of Clinical Neurosciences, School of Clinical Medicine, University of Cambridge, UK;|NIH Undiagnosed Diseases Program, Common Fund, Office of the Director, Bethesda, MD, USA;|Laboratory of Neurogenetics, NIA/NIH, Bethesda, MD, USA;|UCL Great Ormond Street Institute of Child Health, 30 Guilford Street, London WC1N 1EH, UK;|UCL Great Ormond Street Institute of Child Health, 30 Guildford Street, London, WC1N 1EH, UK
http://dx.doi.org/10.1101/110759 2017-02-22 Bioinformatics Granatum: a graphical single-cell RNA-seq analysis pipeline for genomics scientists Xun Zhu|Thomas Wolfgruber|Austin Tasato|Lana Garmire University of Hawaii;|University of Hawaii Cancer Center
http://dx.doi.org/10.1101/109660 2017-02-22 Neuroscience CC BY-NC Locomotion induces stimulus-specific response enhancement in adult visual cortex Megumi Kaneko|Yu Fu|Michael P Stryker University of California - San Francisco;|Singapore Bioimaging Consortium, Agency for Science Technology and Research (A*STAR), Singapore
http://dx.doi.org/10.1101/110817 2017-02-22 Systems Biology CC BY Modeling heterogeneous populations using Boolean networks Brian C Ross|Mayla Boguslav|Holly Weeks|James Costello University of Colorado, Denver at Anschutz
http://dx.doi.org/10.1101/110882 2017-02-22 Molecular Biology CC BY Gal4 activation domain 9aaTAD could be inactivated by adjacent mini-inhibitory domain and reactivated by distal re-activation domain Martin Piskacek|Marek Havelka|Martina Rezacova|Andrea Knight MU Brno, Czech Republic
http://dx.doi.org/10.1101/110783 2017-02-22 Evolutionary Biology CC BY-NC-ND HIV population-level adaptation can rapidly diminish the impact of a partially effective vaccine Joshua Herbeck|Kathryn Peebles|Paul Edlefsen|Morgane Rolland|James Murphy|Geoffrey Gottlieb|Neil Abernethy|James Mullins|John Mittler|Steven Goodreau University of Washington;|Fred Hutchinson Cancer Research Center;|US Military HIV Research Program
http://dx.doi.org/10.1101/110692 2017-02-22 Developmental Biology CC BY The Pax9/Wnt pathway regulates secondary palate formation in mice Shihai Jia|Jing Zhou|Christopher Fanelli|Yinshen Wee|John Bonds|Pascal Schneider|Gabriele Mues|Rena N. D'Souza University of Utah;|Texas A&M University College of Dentistry;|University of Lausanne
http://dx.doi.org/10.1101/111054 2017-02-23 Bioinformatics CC BY-NC-ND TeachEnG: a Teaching Engine for Genomics Minji Kim|Yeonsung Kim|Lei Qian|Jun Song University of Illinois, Urbana-Champaign;|Fisk University
http://dx.doi.org/10.1101/104117 2017-02-23 Neuroscience CC BY Sensitivity of Neurons in the Middle Temporal Area of Marmoset Monkeys to Random Dot Motion Tristan A. Chaplin|Benjamin J. Allitt|Maureen A. Hagan|Nicholas S.C. Price|Ramesh Rajan|Marcello G.P. Rosa|Leo L. Lui Monash University
http://dx.doi.org/10.1101/110981 2017-02-22 Immunology Do maternal antibodies facilitate hemagglutinin imprinting to influenza A viruses encountered early in childhood? Katelyn M Gostic|Monique Ambrose|Michael Worobey|James O Lloyd-Smith University of California, Los Angeles;|The University of Arizona
http://dx.doi.org/10.1101/111039 2017-02-22 Genetics CC BY-NC-ND Evaluating the clinical validity of gene-disease associations: an evidence-based framework developed by the Clinical Genome Resource Natasha T Strande|Erin Rooney Riggs|Adam H. Buchanan|Ozge Ceyhan-Birsoy|Selina T. Dwight|Selina S. Dwight|Jennifer L. Goldstein|Rajarshi Ghosh|Bryce A. Seifert|Tam P Sneddon|Matt W. Wright|Laura V. Milko|Monica A. Giovanni|Michael F. Murray|Julianne M. O'Daniel|Erin M. Ramos|Avni B. Santani|Alan F. Scott|J. Michael Cherry|Sharon E. Plon|Heidi L. Rehm|Christa Lese Martin|Jonathan S. Berg University of North Carolina at Chapel Hill;|Geisinger Health System;|Partners Healthcare Personalized Medicine;|Stanford University, School of Medicine;|Baylor College of Medicine;|National Institutes of Health;|The Children's Hospital of Philadelphia and University of Pennsylvania;|Johns Hopkins University;|Brigham & Women's Hospital and Harvard Medical School
http://dx.doi.org/10.1101/110999 2017-02-22 Bioinformatics CC BY W2RAP: a pipeline for high quality, robust assemblies of large complex genomes from short read data Bernardo Clavijo|Gonzalo Garcia Accinelli|Jonathan Wright|Darren Heavens|Katie Barr|Luis Yanes|Federica Di Palma Earlham Institute
http://dx.doi.org/10.1101/111005 2017-02-22 Plant Biology CC BY-NC-ND Genetic Architecture and Molecular Networks Underlying Leaf Thickness in Desert-Adapted Tomato Solanum pennellii Viktoriya Coneva|Margaret H. Frank|Maria A. de Luis Balaguer|Mao Li|Rosangela Sozzani|Daniel H. Chitwood Donald Danforth Plant Science Center;|North Carolina State University
http://dx.doi.org/10.1101/111021 2017-02-22 Neuroscience CC BY-NC-ND Correspondence of Resting State and Task Brain Networks: Reproducibility and New Insights Lisa D Nickerson McLean Hospital/Harvard Medical School
http://dx.doi.org/10.1101/111237 2017-02-23 Plant Biology CC BY-NC-ND The Sequence of 1504 Mutants in the Model Rice Variety Kitaake Facilitates Rapid Functional Genomic Studies Guotian Li|Rashmi Jain|Mawsheng Chern|Nikki T Pham|Joel A Martin|Tong Wei|Wendy S Schackwitz|Anna M Lipzen|Phat Q Duong|Kyle C Jones|Liangrong Jiang|Deling Ruan|Diane Bauer|Yi Peng|Kerrie W Barry|Jeremy Schmutz|Pamela C Ronald University of California, Davis;|U.S. Department of Energy Joint Genome Institute;|Xiamen University;|HudsonAlpha Institute for Biotechnology
http://dx.doi.org/10.1101/110965 2017-02-23 Synthetic Biology CC BY-NC-ND A Spatially Localized Architecture for Fast and Modular Computation at the Molecular Scale Gourab Chatterjee|Neil Dalchau|Richard A. Muscat|Andrew Phillips|Georg Seelig University of Washington, Seattle, USA;|Microsoft Research, Cambridge, UK
http://dx.doi.org/10.1101/110858 2017-02-23 Microbiology CC BY Preprinting Microbiology Patrick D Schloss University of Michigan
http://dx.doi.org/10.1101/111229 2017-02-23 Genomics CC BY-NC-ND Adaptation of the FADS gene family in Europe: Variation across time, geography and subsistence Kaixiong Ye|Feng Gao|David Wang|Ofer Bar-Yosef|Alon Keinan Cornell University;|Harvard University
http://dx.doi.org/10.1101/110825 2017-02-23 Scientific Communication and Education CC BY TOWARDS A GLOBAL SUPPORT OF CORE DATA RESOURCES FOR THE LIFE SCIENCES Warwick Anderson|Rolf Apweiler|Alex Bateman|Guntram A Bauer|Helen Berman|Judith A Blake|Niklas Blomberg|Stephen K Burley|Guy Cochrane|Valentina Di Francesco|Tim Donohue|Christine Durinx|Alfred Game|Eric Green|Takashi Gojobori|Peter Goodhand|Ada Hamosh|Henning Hermjakob|Minoru Kanehisa|Robert Kiley|Johanna McEntyre|Rowan McKibbin|Satoru Miyano|Barbara Pauly|Norbert Perrimon|Mark A Ragan|Geoffrey Richards|Yik-Ying Teo|Monte Westerfield|Eric Westhof|Paul F Lasko Human Frontier Science Program Organization;|European Bioinformatics Institute;|Human Frontier Science Program;|Rutgers University;|Jackson Laboratory;|ELIXIR;|National Human Genome Research Institute;|University of Wisconsin-Madison;|Swiss Institute of Bioinformatics;|Marlborough;|King Abdullah University of Science and Technology;|Global Alliance for Genomics and Health;|Johns Hopkins University;|Kyoto University;|Wellcome Library;|Biotechnology & Biological Sciences Research Council;|University of Tokyo;|Harvard Medical School;|The University of Queensland;|National University of Singapore;|University of Oregon;|Universite de Strasbourg;|McGill University
http://dx.doi.org/10.1101/111203 2017-02-23 Genomics CC BY-NC-ND The genomic architecture of flowering time varies across space and time in Mimulus guttatus Patrick Monnahan|John K Kelly John Innes Centre, United Kingdom;|University of Kansas, United States
http://dx.doi.org/10.1101/111161 2017-02-23 Systems Biology CC BY Profiling metabolic flux modes by enzyme cost reveals variable trade-offs between growth and yield in Escherichia coli. Meike T. Wortel|Elad Noor|Michael Ferris|Frank J. Bruggeman|Wolfram Liebermeister University of Oslo;|Eidgenoessische Technische Hochschule Zuerich;|University of Wisconsin;|Vrije Universiteit Amsterdam;|Charite - Universitaetsmedizin Berlin
http://dx.doi.org/10.1101/111138 2017-02-23 Cancer Biology Human PGBD5 DNA transposase promotes site-specific oncogenic mutations in rhabdoid tumors Anton Henssen|Richard Koche|Jiali Zhuang|Eileen Jiang|Casie Reed|Amy Eisenberg|Eric Still|Ian MacArthur|Elias Rodriguez-Fos|Santiago Gonzalez|Montserrat Puiggros|Andrew Blackford|Christopher Mason|Elisa De Stanchina|Mithat Gonen|Anne-Katrin Emde|Minita Shah|Kanika Arora|Catherine Reeves|Nicholas Socci|Elizabeth Perlman|Cristina Antonescu|Charles Roberts|Hanno Steen|Elizabeth Mullen|Stephen Jackson|David Torrents|Zhiping Weng|Scott Armstrong|Alex Kentsis MSKCC;|University of Massachusetts;|Barcelona Supercomputing Center;|University of Cambridge;|Weill Cornell Medical College;|New York Genome Center;|Northwestern University Feinberg School of Medicine;|St. Jude Children Research Hospital;|Harvard Medical School;|Institucio Catalana de Recerca i Estudis Avancats;|Dana-Farber Cancer Institute;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/111153 2017-02-23 Ecology The spatial and metabolic basis of colony size variation Jeremy Chacon|Wolfram Moebius|William Harcombe University of Minnesota;|University of Exeter
http://dx.doi.org/10.1101/111179 2017-02-23 Cell Biology Real-time chromatin dynamics at the single gene level during transcription activation Thomas Germier|Silvia Kocanova|Nike Walther|Aurelien Bancaud|Haitham Ahmed Shaban|Hafida Sellou|Antonio Politi|Jan Ellenberg|Franck Gallardo|Kerstin Bystricky Center for Integrative Biology of Toulouse;|EMBL;|Laboratoire de Automatismes et Architecture des Systemes (LAAS), Toulouse;|NeoVirTech SAS
http://dx.doi.org/10.1101/109496 2017-02-23 Neuroscience Foreground Enhancement and Background Suppression in Human Early Visual System During Passive Perception of Natural Images Paolo Papale|Andrea Leo|Luca Cecchetti|Giacomo Handjaras|Kendrick Kay|Pietro Pietrini|Emiliano Ricciardi IMT Lucca;|Research Center E. Piaggio;|University of Minnesota
http://dx.doi.org/10.1101/111146 2017-02-23 Animal Behavior and Cognition CC BY-NC-ND A practical guide for inferring reliable dominance hierarchies and estimating their uncertainty Alfredo Sanchez-Tojar|Julia Schroeder|Damien R Farine Max Planck Institute for Ornithology;|Imperial College London
http://dx.doi.org/10.1101/111070 2017-02-23 Animal Behavior and Cognition CC BY-NC-ND Dissociable effects of surprising rewards on learning and memory Nina Rouhani|Kenneth A. Norman|Yael Niv Princeton University
http://dx.doi.org/10.1101/111096 2017-02-23 Molecular Biology CC BY-NC-ND Observation of histone nuclear import in living cells: implications in the processing of newly synthesised H3.1 & H4 Andrew James Bowman|Michael James Smith University of Warwick
http://dx.doi.org/10.1101/110932 2017-02-23 Neuroscience CC BY Mobility as the purpose of postural control Charlotte Le Mouel|Romain Brette Sorbonne Universites, UPMC, Univ Paris 06, INSERM, CNRS, Institut de la Vision
http://dx.doi.org/10.1101/111088 2017-02-23 Bioinformatics CC BY EXTRACT 2.0: text-mining-assisted interactive annotation of biomedical named entities and ontology terms Evangelos Pafilis|Rudolfs Berzins|Lars Juhl Jensen Institute of Marine Biology, Biotechnology and Aquaculture, Hellenic Centre for Marine Research;|Novo Nordisk Foundation Center for Protein Research, University of Copenhagen
http://dx.doi.org/10.1101/106161 2017-02-23 Bioinformatics CC BY-NC-ND MetaCherchant - an algorithm for analyzing genomic environment of antibiotic resistance gene in gut microbiota Evgenii I Olekhnovich|Artem T Vasilyev|Vladimir I Ulyantsev|Alexander V Tyakht Federal Research and Clinical Centre of Physical-Chemical Medicine;|ITMO University, Saint-Petersburg, Russian Federation; JetBrains Research, Russian Federation;|ITMO University, Saint-Petersburg, Russian Federation;|Federal Research and Clinical Centre of Physical and Chemical Medicine, Federal Medical and Biologic
http://dx.doi.org/10.1101/111104 2017-02-23 Biophysics The recombinase protein is a torque sensitive molecular switch. Scott X. Atwell|Aurelie Dupont|Daniel Migliozzi|Jean-Louis Viovy|Giovanni Cappello Institut Curie;|CNRS
http://dx.doi.org/10.1101/111583 2017-02-24 High-throughput live-imaging of embryos in microwell arrays using a modular, inexpensive specimen mounting system Seth Donoughe|Chiyoung Kim|Cassandra Extavour Harvard University
http://dx.doi.org/10.1101/111526 2017-02-24 Microbiology CC BY How to name and classify your phage: an informal guide Evelien M Adriaenssens|J. Rodney Brister University of Liverpool;|National Center for Biotechnology Information, NLM, NIH
http://dx.doi.org/10.1101/111559 2017-02-24 Microbiology CC BY Eelgrass leaf surface microbiomes are locally variable and highly correlated with epibiotic eukaryotes Mia M Bengtsson|Anton Buhler|Anne Brauer|Sven Dahlke|Hendrik Schubert|Irmgard Blindow University of Greifswald;|University of Rostock
http://dx.doi.org/10.1101/111393 2017-02-24 Bioinformatics CC BY-NC-ND 16GT: a fast and sensitive variant caller using a 16-genotype probabilistic model Ruibang Luo|Michael C Schatz|Steven Salzberg The Johns Hopkins University;|Cold Spring Harbor Laboratory;|Johns Hopkins University
http://dx.doi.org/10.1101/109272 2017-02-24 Molecular Biology CC BY-NC-ND Poly(A)-ClickSeq: click-chemistry for next-generation 3′-end sequencing without RNA enrichment or fragmentation Andrew Routh|Ping Ji|Elizabeth Jaworski|Zheng Xia|Wei Li|Eric J Wagner University of Texas Medical Branch, Galveston;|Oregon Health and Science University, Portland;|Baylor College of Medicine
http://dx.doi.org/10.1101/111435 2017-02-24 Scientific Communication and Education CC BY-NC Beyond the limitation of randomized controlled trials (RCTs)-current drug repositioning by using human induced pluripotent stem (iPS) cells technology- Midori Okabe Reproductive Medicine Institute Japan
http://dx.doi.org/10.1101/111443 2017-02-24 Bioinformatics Conserved changes in secondary structure and aggregation properties of in vitro evolved proteins for thermo stability Satyamurthy Kundharapu NISER
http://dx.doi.org/10.1101/111302 2017-02-24 Cancer Biology CC BY-ND Widespread impact of DNA replication on mutational mechanisms in cancer Marketa Tomkova|Jakub Tomek|Skirmantas Kriaucionis|Benjamin Schuster-Boeckler Oxford University;|University of Oxford
http://dx.doi.org/10.1101/111567 2017-02-24 Biochemistry CC BY PGC-1α coordinates with Bcl-2 to control cell cycle in U251 cells through reducing ROS Kun Yao|Xufeng Fu|Xing Du|Yan Li|Bing Han|Zexi Chen|Shanshan Yang|Ran Wei|Jiaqi Zhou|Qinghua Cui Yunnan University, China
http://dx.doi.org/10.1101/111476 2017-02-24 Bioinformatics CC BY Improved LC-MS chromatographic alignment increases the accuracy of label-free quantitative proteomics: Comparison of spectral counting versus ion intensity-based proteomic quantification strategies. Daniel H J Ng|Jonathan D Humphries|Julian N Selley|Stacey Warwood|David Knight|Adam Byron|Martin J Humphries The University of Manchester;|The University of Edinburgh
http://dx.doi.org/10.1101/111377 2017-02-24 Evolutionary Biology CC BY Evolutionary dynamics of male reproductive genes in the Drosophila virilis subgroup Yasir H Ahmed-Braimah|Robert L Unckless|Andrew G Clark Cornell University;|University of Kansas
http://dx.doi.org/10.1101/111294 2017-02-24 Bioinformatics CC BY MRIQC: Predicting Quality in Manual MRI Assessment Protocols Using No-Reference Image Quality Measures Oscar Esteban|Daniel Birman|Marie Schaer|Oluwasanmi O Koyejo|Russell A Poldrack|Krzysztof J Gorgolewski Stanford University;|University of Geneva School of Medicine;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/111492 2017-02-24 Microbiology CC BY-NC-ND Stable association of a Drosophila-derived microbiota with its animal partner and the nutritional environment upon transfer between populations and generations Melisandre Tefit|Benjamin Gillet|Pauline Joncour|Sandrine Hughes|Francois Leulier Ecole Normale Superieure de Lyon;|Ecole Normale Superieure de Lyonn
http://dx.doi.org/10.1101/111112 2017-02-24 Zoology CC BY-NC-ND Oxygen consumption rate in Gasterosteus aculeatus-Schistocephalus solidus system from a non-migratory naturally infected population. Andrea Tarallo|Giuseppe D'Onofrio|Claudio Agnisola Dept. of Biology and Evolution of Marine Organisms, Stazione Zoologica Anton Dohrn;|Dept. of Biology, University of Naples Federico II
http://dx.doi.org/10.1101/111385 2017-02-24 Genomics CC BY A genome-wide interactome of DNA-associated proteins in the human liver Ryne C Ramaker|Daniel Savic|Andrew A Hardigan|Kimberly Newberry|Gregory M Cooper|Richard M. Myers|Sara J Cooper HudsonAlpha Institute for Biotechnology;|St. Jude's Childrens Research Hospital;|HudsonAlpha Institute for Biotechology
http://dx.doi.org/10.1101/111278 2017-02-24 Neuroscience CC BY-NC-ND Accumulation of sensory evidence is impaired in Parkinson's disease with visual hallucinations Claire O'Callaghan|Julie Hall|Alessandro Tomassini|Alana Muller|Ishan Walpola|Ahmed Moustafa|James Shine|Simon Lewis University of Cambridge;|University of Sydney;|University of Western Sydney
http://dx.doi.org/10.1101/107078 2017-02-24 Animal Behavior and Cognition CC BY-NC-ND Flexibility to contingency changes distinguishes habitual and goal-directed strategies in humans Julie Lee|Mehdi Keramati Institute of Ophthalmology;|Max Planck University College London Centre for Computational Psychiatry and Ageing Research
http://dx.doi.org/10.1101/111450 2017-02-24 Neuroscience CC BY-NC-ND Modern machine learning far outperforms GLMs at predicting spikes Ari S. Benjamin|Hugo L. Fernandes|Tucker Tomlinson|Pavan Ramkumar|Chris VerSteeg|Lee Miller|Konrad Paul Kording Northwestern University
http://dx.doi.org/10.1101/111245 2017-02-24 Biophysics RNA Stores Tau Reversibly in Complex Coacervates Xuemei Zhang|Neil E. Eschmann|Yanxian Lin|Hongjun Zhou|Jennifer Rauch|Israel Hernandez|Elmer Guzman|Kenneth S. Kosik|Songi Han University of California Santa Barbara
http://dx.doi.org/10.1101/111484 2017-02-24 Plant Biology α-tubulin acetylation and detyrosination correlate with starvation-induced autophagy in tobacco cells Dmytro Lytvyn|Alla Yemets|Yaroslav Blume Institute of Food Biotechnology and Genomics
http://dx.doi.org/10.1101/111831 2017-02-25 CC BY-NC-ND Subdomains of the Pol V largest subunit CTD mediate locus-specific RNA-directed DNA methylation Jered Wendte|Jeremy Haag|Jasleen Singh|Anastasia McKinlay|Olga Pontes|Craig Pikaard Indiana University;|Washington University in St. Louis
http://dx.doi.org/10.1101/111625 2017-02-25 Multiplexed confocal and super-resolution fluorescence imaging of cytoskeletal and neuronal synapse proteins Syuan-Ming Guo|Remi Veneziano|Simon Gordonov|Li Li|Demian Park|Anthony B Kulesa|Paul C Blainey|Jeffrey R Cottrell|Edward S Boyden|Mark Bathe Massachusetts Institute of Technology;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/110684 2017-02-25 CC BY-NC Laminar organization of encoding and memory reactivation in the parietal cortex Aaron Wilber|Ivan Skelin|Bruce L McNaughton Florida State University;|University of California, Irvine; Canadian Centre for Behavioral Neuroscience
http://dx.doi.org/10.1101/111732 2017-02-25 CC BY-ND Comparing arenavirus infection patterns in experimentally and naturally infected rodent hosts Joachim Marien|Benny Borremans|Sophie Gryseels|Bram Vanden Broecke|Beate Becker-Ziaja|Rhodes Makundi|Apia Massawe|Jonas Reijniers|Herwig Leirs Universiteit Antwerpen;|Bernhard Nocht Institute for Tropical Medicine;|Sokoine University of Agriculture Tanzania
http://dx.doi.org/10.1101/111666 2017-02-25 Distorted Biologic Mechanisms in Evolution and Model Extrapolation Juan G. Diaz Ochoa PMQD GmbH
http://dx.doi.org/10.1101/111807 2017-02-25 CC BY-NC-ND Limits on prediction in language comprehension: A multi-lab failure to replicate evidence for probabilistic pre-activation of phonology Mante Nieuwland|Stephen Politzer-Ahles|Evelien Heyselaar|Katrien Segaert|Emily Darley|Nina Kazanina|Sarah Von Grebmer Zu Wolfsthurn|Federica Bartolozzi|Vita Kogan|Aine Ito|Diane Meziere|Dale J. Barr|Guillaume Rousselet|Heather J. Ferguson|Simon Busch-Moreno|Xiao Fu|Jyrki Tuomainen|Eugenia Kulakova|E. Matthew Husband|David L. Donaldson|Zdenko Kohut|Shirley-Ann Rueschemeyer|Falk Huettig Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands;|Dept of Chinese and Bilingual Studies, The Hong Kong Polytechnic University, Kowloon, Hong Kong;|School of Psychology, University of Birmingham, Birmingham, United Kingdom;|School of Experimental Psychology, University of Bristol, Bristol, United Kingdom;|School of Philosophy, Psychology and Language Sciences, University of Edinburgh, Edinburgh, UK;|Institute of Neuroscience and Psychology, University of Glasgow, Glasgow, United Kingdom;|School of Psychology, University of Kent, Canterbury, United Kingdom;|Division of Psychology and Language Sciences, University College London, London, United Kingdom;|Institute of Cognitive Neuroscience, University College London, London, United Kingdom;|Faculty of Linguistics, Philology & Phonetics; University of Oxford, Oxford, United Kingdom;|Department of Psychology, University of Stirling, Stirling, United Kingdom;|Department of Psychology, University of York, York, United Kingdom
http://dx.doi.org/10.1101/111724 2017-02-25 Neuroscience CC BY-ND Thermal transients excite neurons through universal intramembrane mechano-electrical effects Michael Plaksin|Eitan Kimmel|Shy Shoham Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/110940 2017-02-25 Immunology CC BY-NC An alternative STAT signaling pathway acts in antiviral immunity in Caenorhabditis elegans Melanie Tanguy|Louise Veron|Przemyslaw Stempor|Julie Ahringer|Peter Sarkies|Eric Alexander Miska Gurdon Institute and Department of Genetics, University of Cambridge, United Kingdom;|Ecole normale superieure de Cachan, Universite Paris-Saclay, Saclay, France;|MRC London Institute of Medical Sciences and Institute for Clinical Sciences, London, United Kingdom
http://dx.doi.org/10.1101/111765 2017-02-25 Systems Biology CC BY-NC Constraint-based modeling identifies new putative targets to fight colistin-resistant A. baumannii infections. Luana Presta|Emanuele Bosi|Leila Mansouri|Lenie Dijkshoorn|Renato Fani|Marco Fondi University of Florence;|Leiden University Medical Center
http://dx.doi.org/10.1101/105247 2017-02-25 Biochemistry Releasing potential power of terpene synthases by a robust precursor supply platform Guangkai Bian|Yichao Han|Anwei Hou|Yujie Yuan|Xinhua Liu|Zixin Deng|Tiangang Liu Ministry of Education and Wuhan University School of Pharmaceutical Sciences;|J1 Biotech Co., Ltd.;|Wuhan University
http://dx.doi.org/10.1101/111716 2017-02-25 Evolutionary Biology Bacterial tail anchors can target to the mitochondrial outer membrane Guleycan Lutfullahoglu Bal|Abdurrahman Keskin|Ayse Bengisu Seferoglu|Cory D. Dunn Koc University
http://dx.doi.org/10.1101/111708 2017-02-25 Developmental Biology CC BY-ND The reactivation of reprogramming factors within human blastocysts by using ATP contribute to human blastocyst development Takashi Takemura|Midori Okabe Reproductive Medicine Institute Japan
http://dx.doi.org/10.1101/111781 2017-02-25 Microbiology A unifying mechanism for the biogenesis of prokaryotic membrane proteins co-operatively integrated by the Sec and Tat pathways Tracy Palmer|Fiona J Tooke|Marion Babot|Govind Chandra|Grant Buchanan University of Dundee;|John Innes Centre
http://dx.doi.org/10.1101/111575 2017-02-25 Evolutionary Biology CC BY-NC-ND Inferring individual-level processes from population-level patterns in cultural evolution Anne Kandler|Bryan Wilder|Laura Fortunato Max Planck Institute;|University of Southern California;|University of Oxford
http://dx.doi.org/10.1101/111617 2017-02-25 Ecology CC BY-NC-ND Community selection increases biodiversity effects Sofia J. van Moorsel|Terhi Hahl|Cameron Wagg|Gerlinde B. De Deyn|Dan F.B. Flynn|Varuna Yadav|Debra Zuppinger-Dingley|Bernhard Schmid University of Zurich;|Wageningen University
http://dx.doi.org/10.1101/111120 2017-02-25 Bioinformatics CC BY-ND Evidence-based gene models for structural and functional annotations of the oil palm genome Chan Kuang Lim|Tatiana V Tatarinova|Rozana Rosli|Nadzirah Amiruddin|Norazah Azizi|Mohd Amin Ab Halim|Nik Shazana|Nik Mohd Sanusi|Jayanth Nagappan|Petr Ponomarenko|Martin Triska|Victor Solovyev|Mohd Firdaus-Raih|Ravigadevi Sambanthamurthi|Denis Murphy|Leslie Low Eng Ti MPOB;|USC;|Softberry;|University of South Wales
http://dx.doi.org/10.1101/111591 2017-02-25 Bioinformatics CC BY-NC-ND MAGIC: A diffusion-based imputation method reveals gene-gene interactions in single-cell RNA-sequencing data David van Dijk|Juozas Nainys|Roshan Sharma|Pooja Kathail|Ambrose J Carr|Kevin R Moon|Linas Mazutis|Guy Wolf|Smita Krishnaswamy|Dana Pe'er Memorial Sloan Kettering Cancer Center;|Vilnius University;|Columbia University;|Yale University
http://dx.doi.org/10.1101/111534 2017-02-25 Evolutionary Biology CC BY Clay-induced DNA double-strand breaks underlay genetic diversity, antibiotic resistance and molecular basis of asbestosis Alexandro Rodriguez-Rojas|Renate Radek|Jeronimo Rodriguez-Beltran|Jesus Blazquez|Jens Rolff Freie Universitaet Berlin;|Centro Nacional de Biotecnologia (CNB-CSIC)
http://dx.doi.org/10.1101/111609 2017-02-25 Genetics CC BY BECon: A tool for interpreting DNA methylation findings from blood in the context of brain Rachel D Edgar|Meaghan J Jones|Michael J Meaney|Gustavo Turecki|Michael S Kobor University of British Columbia;|McGill University
http://dx.doi.org/10.1101/111195 2017-02-24 Bioengineering Controlling cell shape on hydrogels using lift-off patterning Jens Moeller|Aleksandra K. Denisin|Joo Yong Sim|Robin E. Wilson|Alexandre J.S. Ribeiro|Beth L. Pruitt Stanford University
http://dx.doi.org/10.1101/111922 2017-02-26 CC BY The emerging British Verticillium longisporum population consists of aggressive Brassica pathogens Jasper Depotter|Luis Rodriguez-Moreno|Bart Thomma|Tom Wood Wageningen University;|NIAB Cambridge
http://dx.doi.org/10.1101/110957 2017-02-26 CC BY-NC A common haplotype lowers SPI1 (PU.1) expression in myeloid cells and delays age at onset for Alzheimer's disease Kuan-lin Huang|Edoardo Marcora|Anna Pimenova|Antonio Di Narzo|Manav Kapoor|Sheng Chih Jin|Oscar Harari|Sarah Bertelsen|Benjamin Fairfax|Jake Czajkowski|Vincent Chouraki|Benjamin Grenier-Boley|Celine Bellenguez|Yuetiva Deming|Andrew McKenzie|Towfique Raj|Alan Renton|John Budde|Albert Smith|Annette Fitzpatrick|Joshua Bis|Anita DeStefano|Hieab Adams|M Arfan Ikram|Sven van der Lee|Jorge Del-Aguila|Maria Fernandez|Laura Ibanez|Rebecca Sims|Valentina Escott-Price|Richard Mayeux|Jonathan Haines|Lindsay Farrer|Margaret Pericak-Vance|Jean Charles Lambert|Cornelia van Duijn|Lenore Launer|Sudha Seshadri|Julie Williams|Philippe Amouyel|Gerard Schellenberg|Bin Zhang|Ingrid Borecki|John Kauwe|Carlos Cruchaga|Ke Hao|Alison Goate Washington University in St. Louis;|Icahn School of Medicine at Mount Sinai;|Yale University School of Medicine;|University of Oxford;|Boston University School of Medicine;|Institut Pasteur de Lille;|University of Iceland;|University of Washington;|Boston University School of Public Health;|Erasmus University Medical Center;|Cardiff University;|Columbia University;|Case Western Reserve University;|University of Miami;|National Institute on Aging;|University of Pennsylvania Perelman School of Medicine;|Regeneron Pharmaceuticals;|Brigham Young University
http://dx.doi.org/10.1101/111955 2017-02-26 CC BY-NC-ND Short DNA sequence patterns accurately identify broadly active human enhancers Laura L Colbran|Ling Chen|John Anthony Capra Vanderbilt University
http://dx.doi.org/10.1101/111898 2017-02-26 CC BY-NC-ND No effect of hippocampal lesions on stimulus-response bindings Richard Henson|Aidan Horner|Andrea Greve|Elisa Cooper|Mariella Gregori|Jon Simons|Sharon Erzinclioglu|Georgina Browne|Narinder Kapur MRC Cognition & Brain Sciences Unit;|Department of Psychology, University of York, UK;|Neuropsychology Dept, Addenbrookes Hospital, Cambridge University Hospitals NHS Foundation Tr;|Department of Psychology, University of Cambridge, UK;|Research Department of Clinical, Educational and Health Psychology, University College London
http://dx.doi.org/10.1101/111906 2017-02-26 CC BY-ND Engineering pulsatile communication in bacterial consortia James Parkin|Victoria Hsiao|Richard M Murray California Institute of Technology;|Amyris Inc;|Caltech
http://dx.doi.org/10.1101/111930 2017-02-26 Evolutionary Biology CC BY-NC-ND Costs and benefits of sub-lethal Drosophila C virus infection Pedro F Vale|Vanika Gupta|Charlotte O Stewart|Samuel S.C. Rund|Katy M Monteith University of Edinburgh
http://dx.doi.org/10.1101/111260 2017-02-26 Synthetic Biology CAR T Cells Secreting IL18 Augment Antitumor Immunity and Increase T Cell Proliferation and Costimulation Biliang Hu|Jiangtao Ren|Yanping Luo|Brian Keith|Regina M. Young|John Scholler|Yangbing Zhao|Carl H. June UPENN
http://dx.doi.org/10.1101/111500 2017-02-26 Epidemiology CC BY PHESANT: a tool for performing automated phenome scans in UK Biobank Louise Millard|Neil M Davies|Tom Gaunt|George Davey Smith|Kate Tilling University of Bristol
http://dx.doi.org/10.1101/101832 2017-02-27 CC BY Genome-wide phenotypic analysis of growth, cell morphogenesis and cell cycle events in Escherichia coli. Manuel Campos|Genevieve S Dobihal|Christine Jacobs-Wagner Yale University
http://dx.doi.org/10.1101/111914 2017-02-27 Microbiology CC BY Genomic epidemiology of global Klebsiella pneumoniae carbapenemase (KPC)-producing E. coli Nicole Stoesser|Anna E Sheppard|Gisele Peirano|Luke W Anson|Louise Pankhurst|Robert Sebra|Hang TT Phan|Andrew Kasarskis|Amy J Mathers|Tim EA Peto|Patricia Bradford|Mary Motyl|Ann S Walker|Derrick W Crook|Johann Pitout University of Oxford;|Calgary Laboratory Services;|Icahn Institute and Department of Genetics and Genomic Sciences;|University of Virginia;|AstraZeneca Pharmaceuticals LP;|Merck and Co Inc;|University of Calgary
http://dx.doi.org/10.1101/111658 2017-02-27 Immunology Free ISG15 as a dimer generates IL-1β-producing CD8α+ dendritic cells at the site of infection Anna Napolitano|Annemarthe G van der Veen|Monique Bunyan|Annabel Borg|Svend Kjaer|Antje Beling|Klaus-Peter Knobeloch|Eva Frickel The Francis Crick Institute;|Charite Berlin;|University of Freiburg
http://dx.doi.org/10.1101/112011 2017-02-27 Genetics CC BY-NC Novel CRISPR/Cas9 gene drive constructs in Drosophila reveal insights into mechanisms of resistance allele formation and drive efficiency in genetically diverse populations Jackson Champer|Riona Reeves|Suh Yeon Oh|Chen Liu|Jingxian Liu|Andrew G Clark|Philipp W Messer Cornell University
http://dx.doi.org/10.1101/111690 2017-02-27 Biophysics CC BY-NC-ND A fluorogenic nanobody array tag for prolonged single molecule imaging in live cells Rajarshi Ghosh|Will Draper|J. Matthew Franklin|Quanming Shi|Jan Liphardt Stanford University
http://dx.doi.org/10.1101/112367 2017-02-28 Genomics CC BY-NC-ND Pan-cancer scale landscape of simple somatic mutations Nan Zhou|Blanca Gallego|Jinku Bao|Guy Tsafnat Macquarie University;|Sichuan University
http://dx.doi.org/10.1101/112375 2017-02-28 Evolutionary Biology CC BY-NC Allopatric divergence, local adaptation, and multiple Quaternary refugia in a long-lived tree (Quercus spinosa) from subtropical China Li Feng|Yan-Ping Zhang|Xiao-Dan Chen|Jia Yang|Tao Zhou|Guo-Qing Bai|Jiao Yang|Zhong-Hu Li|Ching-I Peng|Gui-Fang Zhao Northwest University;|Biodiversity Research Center, Academia Sinica
http://dx.doi.org/10.1101/112334 2017-02-28 Cell Biology High quality frozen extracts of Xenopus laevis eggs reveal size-dependent control of metaphase spindle micromechanics Jun Takagi|Yuta Shimamoto National Institute of Genetics
http://dx.doi.org/10.1101/098996 2017-02-27 Scientific Communication and Education CC BY A global perspective on bioinformatics training needs Michelle D Brazas|Cath Brooksbank|Rafael C Jimenez|Sarah Blackford|Patricia M Palagi|Javier De Las Rivas|B.F. Francis Ouellette|Judit Kumuthini|Eija Korpelainen|Fran Lewitter|Celia W.G. van Gelder|Nicola Mulder|Manuel Corpas|Maria Victoria Schneider|Tin Wee Tan|Dave Clements|Angela Davies|Teresa K Attwood Ontario Institute for Cancer Research;|EMBL-EBI;|University of Lancaster;|Swiss Institute of Bioinformatics;|Centro de Investigacion del Cancer, Universidad de Salamanca-CSIC;|Centre for Proteomic and Genomic Research;|CSC - IT Centre for Science;|International Society for Computational Biology;|Dutch Techcentre for Life Sciences;|Computational Biology Division, IDM, University of Cape Town;|The Genome Analysis Centre;|National University of Singapore;|John Hopkins University;|University of Manchester
http://dx.doi.org/10.1101/112250 2017-02-27 Ecology CC BY Tracing the influence of land-use change on water quality and coral reefs using a Bayesian model Christopher J Brown|Stacy D Jupiter|Simon Albert|Carissa J Klein|Sangeeta Mangubhai|Maina Mbui|Peter Mumby|Jon Olley|Ben Stewart-Koster|Vivitskaia Tulloch|Amelia Wenger Griffith University;|Wildlife Conservation Society;|The University of Queensland;|Macquarie University
http://dx.doi.org/10.1101/112029 2017-02-27 Molecular Biology The mechanism of sphingolipid processing revealed by a GALC-SapA complex structure Chris H Hill|Georgia M Cook|Samantha J Spratley|Stephen C Graham|Janet E Deane University of Cambridge
http://dx.doi.org/10.1101/112318 2017-02-27 Bioinformatics Comparative genomics approaches accurately predict deleterious variants in plants Thomas John Y Kono|Li Lei|Ching-Hua Shih|Paul J Hoffman|Peter L Morrell|Justin C. Fay University of Minnesota;|Washington University;|Washington University in St. Louis
http://dx.doi.org/10.1101/112284 2017-02-27 Neuroscience Particle Tracking facilitates real time Motion Compensation in 2D or 3D two-photon imaging of neuronal activity Samira Aghayee|Zachary Bowen|Dan E Winkowski|Matthew Harrington|Patrick Kanold|Wolfgang Losert University of Maryland, College Park;|University of Pennsylvania
http://dx.doi.org/10.1101/110460 2017-02-27 Neuroscience CC BY-ND Improving data availability for brain image biobanking in healthy subjects: practice-based suggestions from an international multidisciplinary working group Susan D Shenkin|Cyril Pernet|Thomas E Nichols|Jean-Baptiste Poline|Paul M Matthews|Aad van der Lugt|Clare Mackay|Lanyon Linda|Bernard Mazoyer|James P Boardman|Paul M Thompson|Nick Fox|Daniel S Marcus|Aziz Sheikh|Simon R Cox|Devasuda Anblagan|Dominic E Job|David Alexander Dickie|David Rodriguez|Joanna M Wardlaw University of Edinburgh;|University of Warwick;|University of California;|Imperial College, London;|University Medical Centre, Rotterdam;|University of Oxford;|Karolinska Instutet, Stockhom;|Universite de Bordeaux;|Keck USC School of Medicine;|University College London;|Washington University
http://dx.doi.org/10.1101/112268 2017-02-27 Bioinformatics CC BY-NC-ND The 3D Genome Browser: a web-based browser for visualizing 3D genome organization and long-range chromatin interactions Yanli Wang|Bo Zhang|Lijun Zhang|Lin An|Jie Xu|Daofeng Li|Mayank NK Choudhary|Yun Li|Ming Hu|Ross Hardison|Ting Wang|Feng Yue Pennsylvania State University;|Penn State College of Medicine;|Washington University School of Medicine;|University of North Carolina;|Lerner Research Institute
http://dx.doi.org/10.1101/106757 2017-02-27 Scientific Communication and Education CC BY Concern noted: A descriptive study of editorial expressions of concern in PubMed and PubMed Central. Melissa Vaught|Diana C Jordan|Hilda Bastian National Center for Biotechnology Information (NCBI), U.S. National Library of Medicine (NLM), NIH
http://dx.doi.org/10.1101/110734 2017-02-27 Bioinformatics CC BY Enabling cross-study analysis of RNA-Sequencing data Qingguo Wang|Joshua Armenia|Chao Zhang|Alexander V Penson|Ed Reznik|Liguo Zhang|Angelica Ochoa|Benjamin E Gross|Christine A Iacobuzio-Donahue|Doron Betel|Barry S Taylor|Jianjiong Gao|Nikolaus Schultz Lipscomb University;|Memorial Sloan Kettering Cancer Center;|Weill Cornell Medicine
http://dx.doi.org/10.1101/112243 2017-02-27 Cell Biology CC BY-NC dMARCH8, a Drosophila ubiquitin ligase, regulates polymodifications of tubulin in the spermiogenic pathway Ujwala Gosavi|Utsav Nyachhyon|Nabanita Chatterjee|Brian Pearce|Robert Harvey|Christopher W Bazinet St. John's University;|University of London;|University College London
http://dx.doi.org/10.1101/112276 2017-02-27 Developmental Biology Gene editing in rat embryonic stem cells to produce in vitro models and in vivo reporters Yaoyao Chen|Sonia Spitzer|Sylvia Agathou|Ragnhildur Thora Karadottir|Austin Smith Wellcome Trust-Medical Research Council Cambridge Stem Cell Institute, University of Cambridge;|2Department of Veterinary Medicine, University of Cambridge
http://dx.doi.org/10.1101/112235 2017-02-27 Genomics CC BY-NC-ND Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome Henry R Johnston|Yi-Juan Hu|Jingjing Gao|Timoty D O'Connor|Goncalo Abecasis|Genevieve L Wojcik|Christopher R Gignoux|Pierre-Antoine Gourraud|Antoine Lizee|Mark Hansen|Rob Genuario|Dave Bullis|Cindy Lawley|Eimear E Kenny|Carlos Bustamante|Terri H Beaty|Rasika A Mathias|Kathleen C Barnes|Zhaohui S Qin Department of Biostatistics and Bioinformatics, Emory University, Atlanta, GA;|Data and Statistical Sciences, AbbVie, North Chicago, IL;|Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD;|Department of Biostatistics, SPH II, University of Michigan, Ann Arbor, MI;|Department of Genetics, Stanford University School of Medicine, Stanford, CA;|Department of Neurology, University of California, San Francisco, San Francisco, CA;|Illumina, Inc., San Diego, CA;|Department of Genetics and Genomics, Icahn School of Medicine at Mount Sinai, New York, NY;|Department of Epidemiology, Bloomberg School of Public Health, JHU, Baltimore, MD
http://dx.doi.org/10.1101/112169 2017-02-27 Molecular Biology CC BY-NC BRD4 inhibitors block telomere elongation Steven Wang|Alexandra Pike|Stella Lee|Carla Connelly|Carol W. Greider Johns Hopkins University School of Medicine;|John Hopkins University
http://dx.doi.org/10.1101/111948 2017-02-27 Epidemiology CC BY-NC-ND Emergence and persistence of the Chikungunya virus East-Central-South-African genotype in Northeast Brazil Antonio Charlys da Costa|Julien Theze|Shirley Cavalcante Vasconcelos Komninakis|Rodrigo Lopes Sanz-Duro|Marta Rejane Lemos Felinto|Lucia Cristina Correa Moura|Ivoneide Moreira de Oliveira Barroso|Lucineide Eliziario Correia Santos|Mardjane Alves de Lemos Nunes|Adriana Avila Moura|Jose Lourenco|Xutao Deng|Eric L Delwart|Maria Raquel dos Anjos Silva Guimaraes|Oliver G Pybus|Ester C Sabino|Nuno R Faria School of Medicine and Institute of Tropical Medicine, University of Sao Paulo, Brazil;|Department of Zoology, University of Oxford, Oxford, UK;|Retrovirology Laboratory, Federal University of Sao Paulo, Sao Paulo, Brazil;|Laboratorio Central de Saude Publica, Secretaria de Estado da Saude da Paraiba, Brazil;|Hospital Unimed Maceio, Alagoas, Brazil;|Hospital Escola Dr. Helvio Auto, Alagoas, Brazil;|Department of Laboratory Medicine, University of California, San Francisco, CA, USA
http://dx.doi.org/10.1101/112185 2017-02-27 Epidemiology The social and spatial ecology of dengue presence and burden during an outbreak in Guayaquil, Ecuador, 2012 Catherine A. Lippi|Anna M Stewart-Ibarra|Angel G Munoz|Mercy J Borbor-Cordova|Raul Mejia|Keytia Rivero|Katty Castillo|Washington B. Cardenas|Sadie J. Ryan University of Florida;|SUNY Upstate Medical University;|Princeton University;|Escuela Superior Politécnica del Litoral;|National Institute of Meteorology and Hydrology, Guayaquil, Ecuador;|Institute of Biometrics and Epidemiology, Dusseldorf, Germany
http://dx.doi.org/10.1101/112052 2017-02-27 Systems Biology CC BY Rule-based modeling using wildcards Steven S Andrews Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/112045 2017-02-27 Genomics CC BY-NC Functional genomic analysis of corals from natural CO2-seeps reveal core molecular responses involved in acclimatization to ocean acidification Carly Kenkel|Aurelie Moya|Julia Strahl|Craig Humphrey|Line Bay Australian Institute of Marine Science, PMB No 3, Townsville MC, Queensland 4810, Australia;|ARC Centre of Excellence for Coral Reefs Studies, James Cook University, Townsville, Australia;|Carl von Ossietzky University of Oldenburg, Oldenburg, Germany
http://dx.doi.org/10.1101/111187 2017-02-27 Neuroscience CC BY Reverse inference via connectivity fingerprinting: task sensitivity, task specificity, and task potency Roselyne Chauvin|Maarten Mennes|Jan Buitelaar|Christian Beckmann Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen, The Netherlands
http://dx.doi.org/10.1101/112128 2017-02-27 Systems Biology CC BY-NC-ND Revealing Age-Related Changes of Adult Hippocampal Neurogenesis Frederik Ziebell|Sascha Dehler|Ana Martin-Villalba|Anna Marciniak-Czochra German Cancer Reseach Center;|DKFZ;|Heidelberg University
http://dx.doi.org/10.1101/111989 2017-02-27 Genetics CC BY STPGA: Selection of training populations with a genetic algorithm Deniz Akdemir Michigan State University
http://dx.doi.org/10.1101/112110 2017-02-27 Synthetic Biology CC BY A microfluidic biodisplay Francesca Volpetti|Ekaterina Petrova|Sebastian Josef Maerkl Ecole polytechnique federale de Lausanne EPFL
http://dx.doi.org/10.1101/112086 2017-02-27 Biochemistry CC BY-NC-ND Understanding inhibitor resistance in Mps1 kinase through novel biophysical assays and structures Yoshitaka Hiruma|Andre Koch|Nazila Hazraty|Robbie Joosten|Rene Medema|Anastassis Perrakis Netherlands Cancer Institute
http://dx.doi.org/10.1101/111971 2017-02-27 Biophysics CC BY-NC-ND Signaling architectures that transmit unidirectional information despite retroactivity Rushina Shah|Domitilla Del Vecchio Massachusetts Institute of Technology
http://dx.doi.org/10.1101/112094 2017-02-27 Evolutionary Biology CC BY-NC-ND The recombination landscape in wild house mice inferred using population genomic data Tom R Booker|Rob W Ness|Peter D. Keightley University of Edinburgh, United Kingdom;|University of Toronto Mississauga, Canada
http://dx.doi.org/10.1101/112060 2017-02-27 Evolutionary Biology CC BY-NC Demographic inference through approximate-Bayesian-computation skyline plots Miguel Navascues|Raphael Leblois|Concetta Burgarella INRA;|IRD
http://dx.doi.org/10.1101/111542 2017-02-27 Immunology CC BY-NC-ND Dynamics of ASC speck formation during skin inflammatory responses in vivo Paola Sofia Kuri Rodriguez|Nicole Schieber|Thomas Thumberger|Joachim Wittbrodt|Yannick Schwab|Maria Leptin EMBL;|Heidelberg University;|University of Cologne
http://dx.doi.org/10.1101/112599 2017-02-28 Super-resolution microscopy reveals the three-dimensional organization of meiotic chromosome axes in intact C. elegans tissue Simone Kohler|Michal Wojcik|Ke Xu|Abby F Dernburg University of California, Berkeley
http://dx.doi.org/10.1101/112623 2017-02-28 Reconstruction of cell lineages and behaviors underlying arthropod limb outgrowth with multi-view light-sheet imaging and tracking Carsten Wolff|Jean-Yves Tinevez|Tobias Pietzsch|Evangelia Stamataki|Benjamin Harich|Stephan Preibisch|Spencer Shorte|Philipp J Keller|Pavel Tomancak|Anastasios Pavlopoulos Institute for Biology, Humboldt-University, 10115 Berlin, Germany;|Imagopole, Citech, Institut Pasteur, 75015 Paris, France;|Max Planck Institute of Molecular Cell Biology and Genetics, 01307 Dresden, Germany;|Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147, USA;|Berlin Institute for Medical Systems Biology, Max Delbruck Center for Molecular Medicine
http://dx.doi.org/10.1101/112383 2017-02-28 CC BY-NC-ND The human brain views selfish behaviour towards genetic vs. non-genetic sibling differently Mareike Bacha-Trams|Enrico Glerean|Juha Lahnakoski|Elisa Ryyppo|Mikko Sams|Iiro Jaaskelainen Aalto University, Espoo, Finland
http://dx.doi.org/10.1101/112532 2017-02-28 Evolutionary Biology orco mutagenesis causes loss of antennal lobe glomeruli and impaired social behavior in ants Waring Trible|Ni-Chen Chang|Benjamin J Matthews|Sean K McKenzie|Leonora Olivos-Cisneros|Peter R Oxley|Jonathan Saragosti|Daniel JC Kronauer The Rockefeller University
http://dx.doi.org/10.1101/112516 2017-02-28 Animal Behavior and Cognition CC BY-NC-ND Good tutors are not Dear Enemies in Song Sparrows Caglar Akcay|S. Elizabeth Campbell|Michael D. Beecher Virginia Tech;|University of Washington
http://dx.doi.org/10.1101/112581 2017-02-28 Evolutionary Biology CC BY-NC Conflicting evolutionary histories of the mitochondrial and nuclear genomes in New World Myotis Roy N Platt|Brant C Faircloth|Kevin A.M. Sullivan|Troy Kieran|Travis C Glenn|Michael W Vandewege|Tom E Lee|Robert J Baker|Richard D Stevens|David A Ray Texas Tech University;|Louisiana State University;|University of Georgia;|Abilene Christian University
http://dx.doi.org/10.1101/112144 2017-02-28 Developmental Biology CC BY-NC-ND Tbx1 represses Mef2c gene expression by inducing histone 3 deacetylation of the anterior heart field enhancer Luna Simona Pane|Filomena Gabriella Fulcoli|Rosa Ferrentino|Marchesa Bilio|Antonio Baldini CNR Institute of Genetics and Biophysics
http://dx.doi.org/10.1101/112433 2017-02-28 Neuroscience CC BY-NC-ND Face inversion reveals holistic processing of peripheral faces Petra Kovacs|Balazs Knakker|Petra Hermann|Gyula Kovacs|Zoltan Vidnyanszky Brain Imaging Centre, Research Centre for Natural Sciences, Hungarian Academy of Sciences;|Institute of Psychology, Friedrich-Schiller-University of Jena
http://dx.doi.org/10.1101/112391 2017-02-28 Microbiology CC BY-NC-ND Cohesion: A method for quantifying the connectivity of microbial communities Cristina Herren|Katherine McMahon University of Wisconsin Madison
http://dx.doi.org/10.1101/112565 2017-02-28 Bioinformatics CC BY-NC GMPR: A novel normalization method for microbiome sequencing data Jun Chen|Li Chen Mayo Clinic;|Emory University
http://dx.doi.org/10.1101/112417 2017-02-28 Bioinformatics CC BY A Bayesian Framework for Estimating Cell Type Composition from DNA Methylation Without the Need for Methylation Reference Elior Rahmani|Regev Schweiger|Liat Shenhav|Eleazar Eskin|Eran Halperin Tel Aviv University;|University of California Los Angeles
http://dx.doi.org/10.1101/112524 2017-02-28 Evolutionary Biology CC BY-NC-ND A maternal-effect genetic incompatibility in Caenorhabditis elegans Eyal Ben-David|Alejandro Burga|Leonid Kruglyak UCLA
http://dx.doi.org/10.1101/111773 2017-02-28 Systems Biology CC BY-NC-ND Active and poised promoter states drive folding of the extended HoxB locus in mouse embryonic stem cells Mariano Barbieri|Sheila Q Xie|Elena Torlai Triglia|Ines de Santiago|Miguel R Branco|David Rueda|Mario Nicodemi|Ana Pombo Max-Delbrück Centre for Molecular Medicine & Università di Napoli Federico II;|MRC Clinical Sciences Centre;|Max-Delbrück Centre for Molecular Medicine;|Università di Napoli Federico II;|Max Delbrueck Center for Molecular Medicine
http://dx.doi.org/10.1101/112557 2017-02-28 Systems Biology CC BY-NC-ND Functional Annotation of Chemical Libraries across Diverse Biological Processes Jeff S Piotrowski|Sheena C Li|Raamesh Deshpande|Scott W Simpkins|Justin Nelson|Yoko Yashiroda|Jacqueline Barber|Hamid Safizadeh|Erin Wilson|Hiroki Okada|Abraham Gebre|Karen Kubo|Nikko Torres|Marissa LeBlanc|Kerry Andrusiak|Reika Okamoto|Mami Yoshimura|Eva DeRango-Adem|Jolanda van Leeuwen|Katsuhiko Shirahige|Anastasia Baryshnikova|Grant W Brown|Hiroyuki Hirano|Michael Costanzo|Brenda Andrews|Yoshikazu Ohya|Hiroyuki Osada|Minoru Yoshida|Chad L Myers|Charles Boone Yumanity Theraputics;|RIKEN Center for Sustainable Resource Science;|University of Minnesota-Twin Cities, Department of Computer Science and Engineering;|University of Minnesota-Twin Cities, Bioinformatics and Computational Biology Program;|University of Tokyo, Department of Integrated Biosciences;|University of Toronto, Donnelly Centre;|University of Toronto, Donnelly Centre, Toronto;|The University of Tokyo, Institute of Molecular and Cellular Biosciences;|Princeton University, Lewis-Sigler Institute for Integrative Genomics
http://dx.doi.org/10.1101/112540 2017-02-28 Ecology CC BY Analyzing ecological networks of species interactions Eva Delmas|Mathilde Besson|Marie-Helene Brice|Laura Burkle|Giulio V Dalla Riva|Marie-Josee Fortin|Dominique Gravel|Paulo Guimaraes|David Hembry|Erica Newman|Jens M Olesen|Matias Pires|Justin D Yeakel|Timothee Poisot Universite de Montreal;|Montana State University;|University of British Columbia;|University of Toronto;|Universite de Sherbrooke;|Unversidade de Sao Paulo;|University of Arizona;|Aarhus University;|UC Merced
http://dx.doi.org/10.1101/112409 2017-02-28 Epidemiology CC BY-NC-ND A data-driven model for the assessment of age-dependent patterns of Tuberculosis burden and impact evaluation of novel vaccines. Sergio Arregui|Joaquin Sanz|Dessislava Marinova|Maria Jose Iglesias|Sofia Samper|Carlos Martin|Yamir Moreno University of Zaragoza, Zaragoza, Spain;|Sainte-Justine Hospital Research Centre, Montreal, Canada.
http://dx.doi.org/10.1101/112649 2017-03-01 Microbiology Phylogenetic Diversity and Anti-MRSA Activity of Halotolerant Actinobacteria from sediments in Great Salt Plains, Oklahoma. Ahmed H. Gad The University of Tulsa- Tulsa Community College
http://dx.doi.org/10.1101/111252 2017-03-01 CC BY-NC-ND Large-scale interpretation of chemical-genetic interaction profiles using a genetic interaction network Scott W Simpkins|Justin Nelson|Raamesh Deshpande|Sheena C Li|Jeff S Piotrowski|Erin H Wilson|Abraham A Gebre|Reika Okamoto|Yoshikazu Ohya|Hiroyuki Osada|Minoru Yoshida|Charles Boone|Chad L Myers University of Minnesota - Twin Cities;|RIKEN Center for Sustainable Resource Science;|Yumanity Therapeutics;|University of Tokyo;|University of Toronto
http://dx.doi.org/10.1101/112870 2017-03-01 CC BY-ND Detecting Long-term Balancing Selection using Allele Frequency Correlation Katherine M Siewert|Benjamin Franklin Voight University of Pennsylvania
http://dx.doi.org/10.1101/112631 2017-03-01 Bioinformatics CC BY-NC-ND HiCPlus: Resolution Enhancement of Hi-C interaction heatmap Yan Zhang|Lin An|Ming Hu|Jijun Tang|Feng Yue Department of Computer Science and Engineering, University of South Carolina, Columbia, SC, USA;|Bioinformatics and Genomics Program, Huck Institutes of the Life Sciences, Penn State University;|Department of Quantitative Health Sciences, Lerner Research Institute, Cleveland Clinic Foundation;|Department of Biochemistry and Molecular Biology, Penn State School of Medicine, Hershey, PA 17033
http://dx.doi.org/10.1101/112698 2017-03-01 Systems Biology CC BY-NC-ND Improving prediction of compound function from chemical structure using chemical-genetic networks Hamid Safizadeh|Scott William Simpkins|Justin Nelson|Chad L Myers University of Minnesota
http://dx.doi.org/10.1101/112797 2017-03-01 Molecular Biology CC BY-NC-ND Evolution of ribosomal internal transcribed spacers in Deuterostomia Alexandr Dyomin|Valeria Volodkina|Elena Koshel|Svetlana Galkina|Alsu Saifitdinova|Elena Gaginskaya Saint-Petersburg State University
http://dx.doi.org/10.1101/112755 2017-03-01 Immunology Population dynamics of immune repertoires Jonathan Desponds|Andreas Mayer|Thierry Mora|Aleksandra M Walczak UCSD;|ENS
http://dx.doi.org/10.1101/112300 2017-03-01 Microbiology Altering lipid droplet homeostasis affects Coxiella burnetii intracellular growth Minal Mulye|Brianne Zapata|Stacey Gilk Indiana University School of Medicine
http://dx.doi.org/10.1101/112672 2017-03-01 Genomics CC BY-NC-ND Discovery and reporting of clinically-relevant germline variants in advanced cancer patients assessed using whole-exome sequencing Tuo Zhang|Alessandro Romanel|Kenneth W Eng|Hanna Rennert|Adrian Y Tan|Yaohua Xue|Joanna Cyrta|Juan Miguel Mosquera|Andrea Sboner|Ivan Iossifov|Steven M Lipkin|Jenny Xiang|Xiaojun Feng|Peter Nelson|Himisha Beltran|Colin C Pritchard|Mark A Rubin|Francesca Demichelis|Olivier Elemento Weill Cornell Medicine;|University of Trento;|Cold Spring Harbor Laboratory;|University of Washington
http://dx.doi.org/10.1101/112730 2017-03-01 Ecology CC BY-ND Time-delayed biodiversity feedbacks and the sustainability of social-ecological systems. Anne-Sophie Lafuite|Michel Loreau Ctr for Biodiversity Theory & Modelling, Theoretical & Exp Ecol Stn, CNRS & Paul Sabatier University
http://dx.doi.org/10.1101/112854 2017-03-01 Bioinformatics CC BY-NC-ND MOSAIC: a chemical-genetic interaction data repository and web resource for exploring chemical modes of action Justin Nelson|Scott William Simpkins|Chad L Myers University of Minnesota - Twin Cities;|University of Minnesota
http://dx.doi.org/10.1101/112664 2017-03-01 Genomics CC BY-ND Comparative genomics of the tardigrades Hypsibius dujardini and Ramazzottius varieornatus Yuki Yoshida|Georgios Koutsovoulos|Dominik R Laetsch|Lewis Stevens|Sujai Kumar|Daiki D Horikawa|Kyoko Ishino|Shiori Komine|Takekazu Kunieda|Masaru Tomita|Mark Blaxter|Kazuharu Arakawa Institute for Advanced Biosciences, Keio University;|Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh;|Department of Biological Sciences, Graduate School of Science, University of Tokyo
http://dx.doi.org/10.1101/112326 2017-03-01 Genomics CC BY-NC-ND Systematic identification of pleiotropic genes from genetic interactions Elizabeth N Koch|Michael Costanzo|Raamesh Deshpande|Brenda Andrews|Charles Boone|Chad L. Myers University of Minnesota;|University of Toronto
http://dx.doi.org/10.1101/112656 2017-03-01 Immunology CC BY Mice lacking NF-κB1 exhibit marked DNA damage responses and more severe gastric pathology in response to parenteral tamoxifen administration. Michael Burkitt|Jonathan M Williams|Tristan Townsend|Rachael Hough|Carrie A Duckworth|D Mark Pritchard University of Liverpool;|Royal Veterinary College
http://dx.doi.org/10.1101/112748 2017-03-01 Systems Biology CC BY Quantifying the entropic cost of cellular growth control Daniele De Martino|Fabrizio Capuani|Andrea De Martino IST Austria;|INFN, Sez. di Roma 1;|CNR-NANOTEC & Human Genetics Foundation
http://dx.doi.org/10.1101/112813 2017-03-01 Neuroscience CC BY Learning Complex Representations from Spatial Phase Statistics of Natural Scenes HaDi MaBouDi|Hideaki Shimazaki|Hamid Soltanian-Zadeh|Shun-ichi Amari School of Biological and Chemical Sciences, Queen Mary University of London;|RIKEN Brain Science Institute;|School of Cognitive Sciences, Institute for Research in Fundamental Sciences (IPM)
http://dx.doi.org/10.1101/112201 2017-03-02 An extensible ontology for inference of emergent whole cell function from relationships between subcellular processes Jens Hansen|David Meretzky|Simeneh Woldesenbet|Gustavo Stolovitzky|Ravi Iyengar Icahn School of Medicine at Mount Sinai;|Thomas J. Watson Research Center, IBM, Yorktown Heights, NY
http://dx.doi.org/10.1101/112920 2017-03-02 CC BY Genetic Analysis of a Metazoan Pathway using Transcriptomic Phenotypes David Angeles Albores|Carmie Puckett Robinson|Brian A. Williams|Barbara J Wold|Paul W Sternberg Caltech;|University of Southern California
http://dx.doi.org/10.1101/113225 2017-03-02 CC BY Simple rules for an efficient use of Geographic Information Systems in molecular ecology Kevin Leempoel|Solange Duruz|Estelle Rochat|Ivo Widmer|Pablo Orozco-terWengel|Stephane Joost EPFL;|Cardiff University
http://dx.doi.org/10.1101/113167 2017-03-02 Microbiology CC BY Fungal derived 15-keto-prostaglandin E2 and host proliferator-activated receptor gamma (PPAR-γ) promote C. neoformans growth during infection. Robert J Evans|Sarah Needs|Ewa Bielska|Robin C May|Stephen Renshaw|Simon Johnston University of Sheffield;|University of Birmingham
http://dx.doi.org/10.1101/113183 2017-03-02 CC BY A yield-cost tradeoff governs Escherichia coli's decision between fermentation and respiration in carbon-limited growth Matteo Mori|Enzo Marinari|Andrea De Martino Department of Physics, University of California, San Diego, CA, USA;|Dipartimento di Fisica, Sapienza Università di Roma, Rome, Italy;|CNR-NANOTEC & Human Genetics Foundation
http://dx.doi.org/10.1101/113191 2017-03-02 Cooperative nucleotide binding in Hsp90 and the underlying mechanisms Philipp Wortmann|Markus Gotz|Thorsten Hugel University of Freiburg
http://dx.doi.org/10.1101/113175 2017-03-02 Genetics CC BY-NC-ND Human-specific methylated regions are enriched in schizophrenia Niladri Banerjee|Tatiana Polushina|Francesco Bettella|Sudheer Giddaluru|Vidar M. Steen|Ole A. Andreassen|Stephanie Le Hellard University of Bergen;|University of Oslo
http://dx.doi.org/10.1101/113134 2017-03-02 Neuroscience CC BY-NC-ND Distinct projection patterns of different classes of layer 2 principal neurons in the olfactory cortex Camille Mazo|Julien Grimaud|Venkatesh N Murthy|C. Geoffrey Lau ENS de Cachan, Universite Paris-Saclay;|Harvard University;|City University of Hong Kong
http://dx.doi.org/10.1101/113142 2017-03-02 Biochemistry CC BY-NC Recombinant expression in E. coli of human FGFR2 with its transmembrane and extracellular domains Adam Bajinting|Ho Leung Ng University of Hawaii
http://dx.doi.org/10.1101/112979 2017-03-02 Genomics CC BY-NC Development of a high-density, 2M SNP genotyping array and 670k SNP imputation array for the domestic horse Robert J Schaefer|Mikkel Schubert|Ernest Bailey|Danika L. Bannasch|Eric Barrey|Gila Kahila Bar-Gal|Gottfried Brem|Samantha A. Brooks|Ottmar Distl|Ruedi Fries|Carrie J. Finno|Vinzenz Gerber|Bianca Haase|Vidhya Jagannathan|Ted Kalbfleisch|Tosso Leeb|Gabriella Lindgren|Maria Susana Lopes|Nuria Mach|Artur da Camara Machado|James N. MacLeod|Annette McCoy|Julia Metzger|Cecilia Penedo|Sagi Polani|Stefan Rieder|Imke Tammen|Jens Tetens|Georg Thaller|Andrea Verini-Supplizi|Claire M. Wade|Barbara Wallner|Ludovic Orlando|James R. Mickelson|Molly E. McCue University of Minnesota;|University of Copenhagen;|University of Kentucky;|University of California-Davis;|Université Paris-Saclay;|The Koret School of Veterinary Medicine;|University of Veterinary Medicine Vienna;|University of Florida;|University of Veterinary Medicine, Hannover;|Universität München;|University of Bern and Agroscope;|University of Sydney;|University of Bern;|University of Louisville;|Swedish University of Agricultural Sciences;|University of Azores;|INRA, AgroParis Tech, University of Paris-Saclay;|University of Illinois at Urbana-Champaign;|University of California Davis;|Agroscope, Swiss National Stud Farm;|Georg-August University;|Christian-Albrechts-University Kiel;|University of Perugia
http://dx.doi.org/10.1101/112466 2017-03-02 Biochemistry The stoichiometric signature of Rhodopsin-family G protein coupled receptors James H Felce|Sarah L Latty|Rachel G Knox|Susan R Mattick|Yuan Lui|Steven F Lee|David Klenerman|Simon J Davis University of Oxford;|University of Cambridge
http://dx.doi.org/10.1101/112714 2017-03-02 Evolutionary Biology CC BY-NC-ND Extensive farming in Estonia started through a sex-biased migration from the Steppe Lehti Saag|Liivi Varul|Christiana Lyn Scheib|Jesper Stenderup|Morten E Allentoft|Lauri Saag|Luca Pagani|Maere Reidla|Kristiina Tambets|Ene Metspalu|Aivar Kriiska|Eske Willerslev|Toomas Kivisild|Mait Metspalu University of Tartu; Estonian Biocentre;|Tallinn University;|University of Cambridge;|University of Copenhagen;|Estonian Biocentre;|University of Tartu;|University of Tartu; Estonian Biocentre; University of Cambridge
http://dx.doi.org/10.1101/113126 2017-03-02 Neuroscience CC BY-NC-ND The Neural Basis of Motivational Influences on Cognitive Control: An ALE Meta-Analysis Cameron Parro|Matt L Dixon|Kalina Christoff University of British Columbia
http://dx.doi.org/10.1101/112763 2017-03-02 Biochemistry CC BY-NC-ND Structural characterization of human Vaccinia-Related Kinases (VRK) bound to small-molecule inhibitors identifies different P-loop conformations Rafael Miguez Counago|Charles K Allerston|Pavel Savitsky|Hatylas Azevedo|Paulo H Godoi|Carrow I Wells|Alessandra Mascarello|Fernando H. de Souza Gama|Katlin B. Massirer|William J. Zuercher|Cristiano R.W. Guimaraes|Opher Gileadi Structural Genomics Consortium, Universidade Estadual de Campinas; UNICAMP, Campinas, SP, Brazil;|Nuffield Department of Clinical Medicine, University of Oxford;|Ache Laboratorios Farmaceuticos SA, Guarulhos, SP, Brazil;|Structural Genomics Consortium, UNC Eshelman School of Pharmacy, University of North Carolina;|Centro de Biologia Molecular e Engenharia Genetica, Universidade Estadual de Campinas, Campinas, SP
http://dx.doi.org/10.1101/112847 2017-03-02 Genomics CC BY A team of heterochromatin factors collaborates with small RNA pathways to combat repetitive elements and germline stress Alicia N. McMurchy|Przemyslaw Stempor|Tessa Gaarenstroom|Brian Wysolmerski|Yan Dong|Darya Aussianikava|Alex Appert|Ni Huang|Paulina Kolasinska-Zweirz|Alexandra Sapetschnig|Eric Miska|Julie Ahringer University of Cambridge
http://dx.doi.org/10.1101/113035 2017-03-02 Evolutionary Biology CC BY-NC-ND Seasonal influenza circulation patterns and projections for 2017-2018 Trevor Bedford|Richard A Neher Fred Hutchinson Cancer Research Center;|University of Basel
http://dx.doi.org/10.1101/112904 2017-03-02 Microbiology CC BY The translational landscape of Zika virus during infection of mammalian and insect cells Nerea Irigoyen|Adam M. Dinan|Luke W. Meredith|Ian G. Goodfellow|Ian Brierley|Andrew E. Firth University of Cambridge
http://dx.doi.org/10.1101/112862 2017-03-02 Pharmacology and Toxicology Transcriptome profiling reveals bisphenol A alternatives activate estrogen receptor alpha in human breast cancer cells Robin Mesnage|Alexia Phedonos|Matthew Arno|Sucharitha Balu|J. Christopher Corton|Michael N Antoniou King's College London;|US Environmental Protection Agency
http://dx.doi.org/10.1101/112987 2017-03-02 Microbiology CC BY-NC-ND Bacterial Microtubules Exhibit Polarized Growth, Mixed-Polarity Bundling, and Destabilization by GTP Hydrolysis Cesar D Diaz Celis|Viviana I Risca|Felipe Hurtado|Jessica K Polka|Scott D Hansen|Daniel Maturana|Rosalba Lagos|R. Dyche Mullins|Octavio Monasterio Facultad de Ciencias, Universidad de Chile;|Biophysics Graduate Group, University of California, Berkeley;|University of California, San Francisco
http://dx.doi.org/10.1101/111856 2017-03-02 Genetics CC BY Gene fusion between CDKN1A and RAB44 caused by exon skipping like mechanism due to disruption of a splice site Han Sun|Jingyan Wu|Chenchen Zhu|Raeka Aiyar|Petra Jakob|William Mueller|Wu Wei|Lars Steinmetz Department of Genetics, School of Medicine, Stanford University;|European Molecular Biology Laboratory (EMBL);|Stanford Genome Technology Center, Stanford University;|Stanford University, European Molecular Biology Laboratory (EMBL)
http://dx.doi.org/10.1101/113027 2017-03-02 Evolutionary Biology CC BY-NC-ND How to get the most bang for your buck: the evolution and physiology of nutrition-dependent resource allocation strategies Enoch Ng'oma|Anna M Perinchery|Elizabeth G. King University of Missouri
http://dx.doi.org/10.1101/113001 2017-03-02 Systems Biology CC BY-NC-ND Genome-wide analysis of cell-gene interactions Stefano Cardinale Technical University of Denmark
http://dx.doi.org/10.1101/112946 2017-03-02 Bioinformatics CC BY-ND RecBlast: Cloud-Based Large Scale Orthology Detection Efrat Rapoport|Moran Neuhof Tel Aviv University
http://dx.doi.org/10.1101/112953 2017-03-02 Bioinformatics CC BY-NC-ND Genome-wide association study of asthma in individuals of African ancestry reveals novel asthma susceptibility loci Michelle Daya|Nicholas Rafaels|Sameer Chavan|Henry Richard Johnston|Aniket Shetty|Christopher R Gignoux|Meher Preethi Boorgula|Monica Campbell|Pissamai Maul|Trevor Maul|Candelaria Vergara|Albert M Levin|Genevieve Wojcik|Dara G Torgerson|Victor E Ortega|Ayo Doumatey|Maria Ilma Araujo|Pedro C Avila|Eugene Bleecker|Carlos Bustamante|Luis Caraballo|Georgia M Dunston|Mezbah U Faruque|Trevor Ferguson|Camila Figueiredo|Jean G Ford|Pierre-Antoine Gourraud|Nadia N Hansel|Ryan D Hernandez|Edwin Francisco Herrera-Paz|Eimear E Kenny|Jennifer Knight-Madden|Rajesh Kumar|Lesli A Lange|Ethan M Lange|Antoine Lizee|Alvaro Mayorga|Deborah Meyers|Dan L Nicolae|Timothy D O'Connor|Ricardo Riccio Oliveira|Christopher O Olopade|Olufunmilayo Olopade|Zhaohui S Qin|Charles Rotimi|Harold Watson|Rainford J Wilks|Keoki L Williams|James G Wilson|Carole Ober|Esteban G Burchard|Terri H Beaty|Margaret A Taub|Ingo Ruczinski|Rasika Ann Mathias|Kathleen C Barnes University of Colorado Denver;|Emory University;|Stanford University School of Medicine;|The University of the West Indies, Chronic Disease Research Centre;|Johns Hopkins University;|Henry Ford Health System;|University of California, San Francisco;|Wake Forest School of Medicine;|National Institutes of Health;|Universidade Federal da Bahia;|Northwestern University;|University of Arizona College of Medicine;|Universidad de Cartagena;|Howard University College of Medicine;|The University of the West Indies;|Einstein Medical Center;|Universidad Catolica de Honduras;|Icahn School of Medicine at Mount Sinai;|Centro de Neumologia y Alergias;|University of Chicago;|University of Maryland School of Medicine;|Centro de Pesquisas Goncalo Moniz;|The University of the West Indies, Queen Elizabeth Hospital;|University of Mississippi Medical Center;|Bloomberg School of Public Health, JHU
http://dx.doi.org/10.1101/106344 2017-03-02 Systems Biology Heterogeneous chromatin mobility derived from chromatin states is a determinant of genome organisation in S. cerevisiae Sven A Sewitz|Zahra Fahmi|Latifa Aljebali|Jeremy Bancroft|Otavio J. B. Brustolini|Hicham Saad|Isabelle Goiffon|Csilla Varnai|Steven Wingett|Hua Wong|Biola-Maria Javierre|Stefan Schoenfelder|Simon Andrews|Stephen G. Oliver|Peter Fraser|Kerstin Bystricky|Karen Lipkow Nuclear Dynamics Programme, Babraham Institute, Cambridge, UK;|Department of Biochemistry, University of Cambridge, Cambridge, UK;|Cambridge Systems Biology Centre, University of Cambridge, Cambridge, UK;|Agricultural Biotechnology Institute, Federal University of Vicosa-MG, Brazil;|LBME, Centre de Biologie Integrative (CBI), Universite de Toulouse, France;|Institut Pasteur, Paris, France;|Bioinformatics Group, The Babraham Institute, Cambridge, CB22 3AT, UK
http://dx.doi.org/10.1101/113068 2017-03-02 Genomics Large-scale simultaneous measurement of epitopes and transcriptomes in single cells. Marlon Stoeckius|Christoph Hafemeister|William Stephenson|Brian Houck-Loomis|Harold Swerdlow|Rahul Satija|Peter Smibert New York Genome Center
http://dx.doi.org/10.1101/112995 2017-03-02 Neuroscience Task-specific sensory coding strategies matched to detection and discrimination behaviors in Apteronotus leptorhynchus Kathryne M Allen|Gary Marsat West Virginia University
http://dx.doi.org/10.1101/112680 2017-03-03 Epidemiology CC BY-NC-ND Socio-environmental and measurement factors drive spatial variation in influenza-like illness Elizabeth C Lee|Ali Arab|Sandra Goldlust|Cecile Viboud|Shweta Bansal Georgetown University;|Fogarty International Center, National Institutes of Health
http://dx.doi.org/10.1101/113043 2017-03-03 Epidemiology CC BY Assessing the distribution and determinants of vaccine underutilization in the United States Sandra Goldlust|Elizabeth C Lee|Murali Haran|Pejman Rohani|Shweta Bansal Georgetown University;|Penn State University;|University of Georgia
http://dx.doi.org/10.1101/113100 2017-03-03 Epidemiology CC BY-NC-ND Genetic characterization of the Zika virus epidemic in the US Virgin Islands Allison Black|Barney Potter|Gytis Dudas|Leora Feldstein|Nathan D Grubaugh|Kristian G Andersen|Brett R Ellis|Esther M Ellis|Trevor Bedford Fred Hutchinson Cancer Research Center;|Scripps Research Institute;|United States Virgin Islands Department of Health
http://dx.doi.org/10.1101/113282 2017-03-03 Developmental Biology CC BY-NC-ND Contractility, Differential Tension and Membrane Removal direct zebrafish Epiboly Biomechanics Maria Marsal|Enrique Martin-Blanco IBMB (CSIC)
http://dx.doi.org/10.1101/113456 2017-03-03 Cell Biology Cartilage microRNA dysregulation during the onset and progression of mouse osteoarthritis overlaps with patient disease candidates Louise H.W. Kung|Varshini Ravi|Lynn Rowley|Constanza Angelucci|Amanda J Fosang|Katrina M Bell|Christopher B Little|John Bateman Murdoch Childrens Research Institute;|University of Sydney
http://dx.doi.org/10.1101/113480 2017-03-03 Cancer Biology Genetic Diversity in Circulating Tumor Cell Clusters Zafarali Ahmed|Simon Gravel McGill University
http://dx.doi.org/10.1101/113415 2017-03-03 Biophysics CC BY-NC Image processing techniques for high-resolution structure determination from badly ordered 2D crystals Nikhil Biyani|Sebastian Scherer|Ricardo D. Righetto|Julia Kowal|Mohamed Chami|Henning Stahlberg University of Basel
http://dx.doi.org/10.1101/113209 2017-03-03 Cell Biology DHX15 regulates CMTR1-dependent gene expression and cell proliferation Francisco Inesta-Vaquera|Alison Galloway|Laurel Chandler|Alejandro Rojas-Fernandez|Viduth K Chaugule|Simone Weidlich|Mark Peggie|Victoria H Cowling University of Dundee
http://dx.doi.org/10.1101/113522 2017-03-03 CC BY-NC Reduced representation optical methylation mapping (R2OM2). Assaf Grunwald|Hila Sharim|Tslil Gabrieli|Yael Michaeli|Dmitry Torchinsky|Matyas Juhasz|Kathryn R Wagner|Jonathan Pevsner|Jeff Reifenberger|Alex R Hastie|Han Cao|Elmar Weinhold|Yuval Ebenstein Tel Aviv University, Israel;|RWTH Aachen University, Germany;|The Johns Hopkins School of Medicine, United States;|Bionano Genomics, Inc., United States
http://dx.doi.org/10.1101/113563 2017-03-03 CC BY-NC-ND Representing Genetic Determinants in Bacterial GWAS with Compacted De Bruijn Graphs Magali Jaillard|Maud Tournoud|Leandro Lima|Vincent Lacroix|Jean-Baptiste Veyrieras|Laurent Jacob bioMérieux; Université Lyon 1 UMR5558;|bioMérieux;|Université Lyon 1 UMR5558
http://dx.doi.org/10.1101/113530 2017-03-03 REPARATION: Ribosome Profiling Assisted (Re-)Annotation of Bacterial genomes. Elvis Ndah|Veronique Jonckheere|Adam Giess|Eivind Valen|Gerben Menschaert|Petra Van Damme University of Gent;|University of Bergen
http://dx.doi.org/10.1101/113845 2017-03-03 Rational design of proteins that exchange on functional timescales James A Davey|Adam M Damry|Natalie K Goto|Roberto A Chica University of Ottawa
http://dx.doi.org/10.1101/113837 2017-03-03 Development of a Novel CD4+ TCR Transgenic Line that Reveals a Dominant Role for CD8+ DC and CD40-Signaling in the Generation of Helper and CTL Responses to Blood Stage Malaria Daniel Fernandez-Ruiz|Lei Shong Lau|Nazanin Ghazanfari|Claerwen M Jones|Wei Yi Ng|Gayle M Davey|Dorothee Berthold|Lauren Holz|Yu Kato|Ganchimeg Bayarsaikhan|Sanne H Hendriks|Kylie R James|Anton Cozijnsen|Vanessa Mollard|Tania De Koning-Ward|Paul Gilson|Tsuneyasu Kaisho|Ashraful Haque|Brendan S Crabb|Francis R Carbone|Geoffrey I McFadden|William Heath The University of Melbourne;|University of Melbourne;|Nagasaki University;|QIMR Berghofer Medical Research Institute;|Deakin University;|Macfarlane Burnet Institute for Medical Research & Public Health,;|Wakayama Medical University;|Macfarlane Burnet Institute for Medical Research & Public Health
http://dx.doi.org/10.1101/113365 2017-03-03 Microbiology CC BY-NC-ND The exported chaperone PfHsp70x is dispensable for the Plasmodium falciparum intraerythrocytic lifecycle David W Cobb|Anat Florentin|Michelle Krakowiak|Vasant Muralidharan University of Georgia
http://dx.doi.org/10.1101/113449 2017-03-03 Neuroscience CC BY-NC 1/f neural noise is a better predictor of schizophrenia than neural oscillations Erik J Peterson|Burke Q Rosen|Alana M Campbell|Aysenil Belger|Bradley Voytek U.C. San Diego;|University of North Carolina at Chapel Hill;|University of California, San Diego
http://dx.doi.org/10.1101/113514 2017-03-03 Evolutionary Biology Signatures of natural selection in the drug metabolizing enzyme genes: Opportunity for developing personalized and precision medicine Sheikh Nizamuddin|Kumarasamy Thangaraj CSIR-Centre for Cellular and Molecular Biology;|Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/113316 2017-03-03 Genetics CC BY-NC Targeted genomic screen reveals focal long non-coding RNA copy number alterations in cancer Pieter-Jan Volders|Jo Vandesompele|Steve Lefever|Shalina Baute|Justine Nuytens|Katrien Vanderheyden|Bjorn Menten|Pieter Mestdagh Ghent University
http://dx.doi.org/10.1101/113423 2017-03-03 Genomics CC BY-NC Myeloablation-associated deletion of ORF4 in a human coronavirus 229E infection Alexander Greninger|Gregory Pepper|Ryan C Shean|Anne Cent|Isabel Palileo|Jane M. Kuypers|Joshua T. Schiffer|Keith R Jerome UW
http://dx.doi.org/10.1101/113357 2017-03-03 Systems Biology An indicator cell assay for blood-based diagnostics Samuel A Danziger|Leslie R. Miller|Karanbir Singh|G Adam Whitney|Elaine R Peskind|Ge Li|Robert J Lipshutz|John D Aitchison|Jennifer Smith Institute for Systems Biology;|PreCyte Inc;|VA Puget Sound;|University of Washington;|PreCyte
http://dx.doi.org/10.1101/112177 2017-03-03 Evolutionary Biology Key Issues Review: Evolution on rugged adaptive landscapes Uri Obolski|Yoav Ram|Lilach Hadany University of Oxford;|StanfordUniversity;|Tel Aviv University
http://dx.doi.org/10.1101/113241 2017-03-03 Genetics CC BY-NC-ND The Genetic History of Northern Europe Alissa Mittnik|Chuan-Chao Wang|Saskia Pfrengle|Mantas Daubaras|Gunita Zarina|Fredrik Hallgren|Raili Allmae|Valery Khartanovich|Vyacheslav Moiseyev|Anja Furtwangler|Aida Andrades Valtuena|Michal Feldman|Christos Economou|Markku Oinonen|Andrejs Vasks|Mari Torv|Oleg Balanovsky|David Reich|Rimantas Jankauskas|Wolfgang Haak|Stephan Schiffels|Johannes Krause Max Planck Institute for the Science of Human History, Jena, Germany;|Institute for Archaeological Sciences, Archaeo- and Palaeogenetics, University of Tübingen;|Department of Archaeology, Lithuanian Institute of History, Vilnius;|Institute of Latvian History, University of Latvia, Riga, Latvia;|The Cultural Heritage Foundation, Västerås, Sweden;|Archaeological Research Collection, Tallinn University, Tallinn, Estonia;|Peter the Great Museum of Anthropology and Ethnography (Kunstkamera) RAS, St. Petersburg, Russia;|Archaeological Research Laboratory, Stockholm University, Stockholm, Sweden;|Finnish Museum of Natural History - LUOMUS, University of Helsinki, Finland;|Independent researcher;|Research Centre for Medical Genetics, Moscow, Russia;|Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA;|Department of Anatomy, Histology and Anthropology, Vilnius University, Vilnius, Lithuania
http://dx.doi.org/10.1101/113274 2017-03-03 Ecology Despite reproductive interference, the net outcome of reproductive interactions among spider mite species is not necessarily costly Salome H Clemente|Ines Santos|Ana R Ponce|Leonor R Rodrigues|Susana A.M. Varela|Sara Magalhaes ce3c;|cE3c
http://dx.doi.org/10.1101/113373 2017-03-03 Neuroscience CC BY-NC-ND Individual differences in frequency and topography of slow and fast sleep spindles Roy Cox|Anna C Schapiro|Dara S Manoach|Robert Stickgold Beth Israel Deaconess Medical Center / Harvard Medical School;|Massachusetts General Hospital / Athinoula A. Martinos Center for Biomedical Imaging
http://dx.doi.org/10.1101/113498 2017-03-03 Bioinformatics CC BY-NC-ND SV2: Accurate Structural Variation Genotyping and De Novo Mutation Detection Danny Antaki|William M Brandler|Jonathan Sebat UCSD
http://dx.doi.org/10.1101/113340 2017-03-03 Systems Biology CC BY-NC-ND Finding analytic stationary solutions to the chemical master equation by gluing state spaces at one or two states recursively X. Flora Meng|Ania-Ariadna Baetica|Vipul Singhal|Richard M. Murray Massachusetts Institute of Technology;|California Institute of Technology
http://dx.doi.org/10.1101/112607 2017-03-03 Microbiology CC BY-NC-ND Activity of Sulfa Drugs and Their Combinations against Stationary Phase B. burgdorferi in vitro Jie Feng|Shuo ZHANG|Wanliang Shi|YING ZHANG JOHNS HOPKINS UNIVERSITY;|Johns Hopkins University
http://dx.doi.org/10.1101/113472 2017-03-03 Ecology CC BY-NC Quantitative monitoring of multispecies fish environmental DNA using high-throughput sequencing Masayuki Ushio|Hiroaki Murakami|Reiji Masuda|Tetsuya Sado|Masaki Miya|Sho Sakurai|Hiroki Yamanaka|Toshifumi Minamoto|Michio Kondoh Kyoto University;|Natural History Museum and Institute;|Ryukoku University;|Kobe University
http://dx.doi.org/10.1101/113217 2017-03-03 Microbiology CC BY-NC-ND Non-linear disease tolerance curves reveal distinct components of host responses to viral infection Vanika Gupta|Pedro F Vale University of Edinburgh
http://dx.doi.org/10.1101/113308 2017-03-03 Ecology CC BY-NC-ND A climosequence of chronosequences in southwestern Australia Benjamin L Turner|Etienne Laliberte|Patrick E Hayes Smithsonian Tropical Research Institute;|Université de Montréal;|University of Western Australia
http://dx.doi.org/10.1101/113324 2017-03-03 Evolutionary Biology CC BY-NC-ND Negative frequency-dependent selection is frequently confounding Dustin Brisson University of Pennsylvania
http://dx.doi.org/10.1101/113852 2017-03-04 Developmental Biology CC BY-NC-ND The Protein Phosphatase 4 complex promotes the Notch 1 pathway and wg transcription Eric T. Hall|Tirthadipa Pradhan-Sundd|Faaria Samnani|Esther M. Verheyen Simon Fraser University, Canada
http://dx.doi.org/10.1101/113605 2017-03-04 CC BY-NC-ND Evolution of the sex ratio and effective number under gynodioecy and androdioecy Marcy Uyenoyama|Naoki Takebayashi Duke University;|University of Alaska
http://dx.doi.org/10.1101/113944 2017-03-04 CC BY-NC-ND Combining molecular gut content analysis and functional response models shows how body size affects prey choice in soil predators Bernhard Eitzinger|Bjorn Rall|Michael Traugott|Stefan Scheu Department of Agricultural Sciences, University of Helsinki;|German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig;|Mountain Agriculture Research Unit, Institute of Ecology, University of Innsbruck;|J.F. Blumenbach Institute of Zoology and Anthropology, Georg August University Göttingen
http://dx.doi.org/10.1101/113936 2017-03-04 CC BY-NC Abnormally high levels of serum α-klotho result in a poor outcome for clinical pregnancy-A prospective cohort study- Miyako Funabiki|Sagiri Taguchi|Yoshitaka Nakamura Oak Clinic
http://dx.doi.org/10.1101/113985 2017-03-04 Substrate-triggered position-switching of TatA and TatB is an essential step in the Escherichia coli Tat protein export pathway. Johann Habersetzer|Kristoffer Moore|Jon Cherry|Grant Buchanan|Phillip Stansfeld|Tracy Palmer University of Dundee;|University of Oxford
http://dx.doi.org/10.1101/113951 2017-03-04 CC BY-NC-ND Multi-scale Bayesian modeling of cryo-electron microscopy density maps Samuel Hanot|Massimiliano Bonomi|Charles H Greenberg|Andrej Sali|Michael Nilges|Michele Vendruscolo|Riccardo Pellarin Institut Pasteur;|University of Cambridge;|University of California San Francisco
http://dx.doi.org/10.1101/113571 2017-03-04 Ecology Nests of red wood ants (Formica rufa-group) are positively associated with tectonic faults: a double-blind test Israel Del Toro|Gabriele Berberich|Relena R Ribbons|Martin B Berberich|Nathan J. Sanders|Aaron M Ellison Lawrence University;|University Duisburg-Essen;|IT-Consulting Berberich;|University of Copenhagen;|Harvard University
http://dx.doi.org/10.1101/113720 2017-03-04 Evolutionary Biology CC BY-NC The Past Sure Is Tense: On Interpreting Phylogenetic Divergence Time Estimates Joseph W. Brown|Stephen A. Smith University of Michigan
http://dx.doi.org/10.1101/113621 2017-03-04 Bioinformatics CC BY Salt-bridge Networks within Globular and Disordered Proteins - Characterizing Trends for Designable Interactions SANKAR CHANDRA BASU|DEBASISH MUKHARJEE University of Calcutta;|Saha Institute of Nuclear Physics
http://dx.doi.org/10.1101/113688 2017-03-04 Genetics CC BY-NC-ND Genetic variability in the promoter region of TNF-α gene in the reservoir of Junin virus, Calomys musculinus (Rodentia, Cricetidae) Marina B Chiappero|Imanol Cabana|Gladys E Calderon|Cristina N Gardenal Instituto de Diversidad y Ecologia Animal;|Instituto Nacional de Enfermedades Virales Humanas “Dr. Julio I. Maiztegui”
http://dx.doi.org/10.1101/113746 2017-03-04 Microbiology Humans are colonized by many uncharacterized and highly divergent microbes Mark Alec Kowarsky|Joan Camunas-Soler|Michael Kertesz|Iwijn De Vlaminck|Lian Chye Winston Koh|Wenying Pan|Lance Martin|Norma Neff|Jennifer Okamoto|Ronald J Wong|Sandhya Kharbanda|Yasser El-Sayed|Yair Blumenfeld|David K Stevenson|Gary M Shaw|Nathan D Wolfe|Stephen R. Quake Stanford University;|Stanford Unversity;|Cornell University;|Stanford;|Metabiota Inc and Global Viral
http://dx.doi.org/10.1101/111823 2017-03-04 Neuroscience High variability impairs motor learning regardless of whether it affects task performance Marco Cardis|Maura Casadio|Rajiv Ranganathan University of Genova;|Michigan State University
http://dx.doi.org/10.1101/113795 2017-03-04 Paleontology Coral reefs in crisis: The reliability of deep-time food web reconstructions as analogs for the present Peter D Roopnarine|Ashley Dineen California Academy of Sciences
http://dx.doi.org/10.1101/108886 2017-03-04 Ecology CC BY-NC-ND Experimental duration and predator satiation levels systematically affect functional response parameters Yuanheng Li|Bjoern C Rall|Gregor Kalinkat German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB) Berlin
http://dx.doi.org/10.1101/113613 2017-03-04 Evolutionary Biology CC BY-NC Novelty by Furcation and Fusion: How tree-like is evolution? Todd H Oakley University of California Santa Barbara
http://dx.doi.org/10.1101/113696 2017-03-04 Microbiology Microbial glycoside hydrolases as antibiofilm agents with cross-kingdom activity Brendan D Snarr|Perrin Baker|Natalie C Bamford|Yukiko Sato|Hong Liu|Melanie Lehoux|Fabrice N Gravelat|Hanna Ostapska|Shane R Baistrocchi|Robert P Cerone|Elan E Filler|Matthew R Parsek|Scott G Filler|P Lynne Howell|Donald C Sheppard McGill University;|Hospital for Sick Children;|LABioMed;|University of Washington
http://dx.doi.org/10.1101/113704 2017-03-04 Microbiology CC BY-NC-ND Identification of drug candidates that enhance pyrazinamide activity from a clinical drug library Hongxia Niu|Chao Ma|Peng Cui|Wanliang Shi|Shuo Zhang|Jie Feng|David Sullivan|Bingdong Zhu|Wenhong Zhang|Ying Zhang JOHNS HOPKINS UNIVERSITY;|Beijing Forestry University;|Fudan University;|Johns Hopkins University;|Lanzhou University
http://dx.doi.org/10.1101/113670 2017-03-04 Neuroscience CC BY-NC-ND A Statistical Model of Shared Variability in the Songbird Auditory System Lars Buesing|Ana Calabrese|John Cunningham|Sarah Woolley|Liam Paninski Columbia University
http://dx.doi.org/10.1101/113803 2017-03-04 Neuroscience Biases in multivariate neural population codes Sander Keemink|Mark van Rossum University of Edinburgh
http://dx.doi.org/10.1101/113779 2017-03-04 Evolutionary Biology CC BY-NC-ND Assessing the relationship of ancient and modern populations Joshua Schraiber Temple University
http://dx.doi.org/10.1101/113969 2017-03-05 Evolutionary Biology Maintaining their genetic distance; limited gene flow between widely hybridising species of Geum with contrasting mating systems Crispin Y Jordan|Konrad Lohse|Frances Turner|Marian Thomson|Karim Gharbi|Richard A. Ennos University of Edinburgh;|Edinburgh Genomics
http://dx.doi.org/10.1101/114132 2017-03-05 CC BY-NC-ND Evolution and Functional Information Matthew Matlock|S. Joshua Swamidass Washington University in Saint Louis
http://dx.doi.org/10.1101/114116 2017-03-05 CC BY-NC-ND Identification of novel mutations associated with cycloserine resistance in Mycobacterium tuberculosis Shuo Zhang|Jiazhen Chen|Peng Cui|Wanliang Shi|Wenhong Zhang|Ying Zhnag JOHNS HOPKINS UNIVERSITY;|Fudan University;|Johns Hopkins University
http://dx.doi.org/10.1101/114058 2017-03-05 NLR1-V, a CC-NBS-LRR encoding gene, is a potential candidate gene of the wheat powdery mildew resistance gene Pm21 Liping Xing|Ping Hu|Jiaqian Liu|Chaofan Cui|Hui Wang|Zhaocan Di|Shuang Zhou|Jiefei Xu|Li Gao|Zhenpu Huang|Aizhong Cao Nanjing Agricultural University
http://dx.doi.org/10.1101/113993 2017-03-05 Genetic polymorphism of Cytochrome-P450-2C9 (CYP2C9) in Indian populations Sheikh Nizamuddin|Shivendra Dubey|Sakshi Singh|Saurav Sharma|Anshuman Mishra|Harish K|Harsh Joshi|Kumarasamy Thangaraj CSIR-Centre for Cellular and Molecular Biology;|Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/114033 2017-03-05 The language oscillogenome Elliot Murphy|Antonio Benitez-Burraco University College London;|University of Huelva
http://dx.doi.org/10.1101/107680 2017-03-05 CC BY-NC-ND HOT or not: Examining the basis of high-occupancy target regions Katarzyna Wreczycka|Vedran Franke|Bora Uyar|Ricardo Wurmus|ALTUNA AKALIN Berlin Institute for Medical Systems Biology, Max Delbrueck Center For Molecular Medicine;|Max Delbruck Center for Molecular Medicine
http://dx.doi.org/10.1101/113787 2017-03-05 CC BY Micro-Scale Transport Processes for Advanced Healthcare and Point of Care Diagnostics Aashish Priye Texas A&M University
http://dx.doi.org/10.1101/113548 2017-03-05 Impulse model-based differential expression analysis of time course sequencing data David Sebastian Fischer|Fabian J Theis|Nir Yosef Institute of Computational Biology, Helmholtz Centre Munich;|Dept of Elec Engineering & Computer Sci and Ctr for Computational Biology, UC Berkley
http://dx.doi.org/10.1101/114074 2017-03-05 CC BY-NC C. elegans exhibits coordinated oscillation in gene expression during development Luke A. D. Hutchison|Bonnie Berger|Isaac Kohane Massachusetts Institute of Technology;|Harvard Medical School
http://dx.doi.org/10.1101/114090 2017-03-05 Stem cell niche signals Wnt, Hedgehog, and Notch distinctively regulate Drosophila follicle precursor cell differentiation Wei Dai|Amy Peterson|Thomas Kenney|Denise J Montell University of California, Santa Barbara
http://dx.doi.org/10.1101/112573 2017-03-05 Microbiology CC BY-NC-ND Varying Effects of Common Tuberculosis Drugs on Enhancing Clofazimine Activity in vitro Shuo Zhang|Wanliang Shi|Jie Feng|Wenhong Zhang|Ying Zhang Johns Hopkins University;|Fudan University
http://dx.doi.org/10.1101/108084 2017-03-06 Genetics CC BY-NC Reduced representation optical methylation mapping (R2OM2). Assaf Grunwald|Hila Sharim|Tslil Gabrieli|Yael Michaeli|Dmitry Torchinsky|Matyas Juhasz|Jeff Reifenberger|Alex R Hastie|Han Cao|Elmar Weinhold|Yuval Ebenstein Tel Aviv University;|RWTH Aachen University;|Bionano Genomics, Inc
http://dx.doi.org/10.1101/114173 2017-03-06 CC BY-NC-ND Adaptive pathways of coral populations on the Great Barrier Reef Mikhail V Matz|Eric A Treml|Galina V Aglyamova|Madeleine J H van Oppen|Line K Bay University of Texas at Austin;|University of Melbourne;|University of Melbourne, Australian Institute of Marine Science;|Australian Institute of Marine Science
http://dx.doi.org/10.1101/114488 2017-03-06 CC BY-NC Parallel ancient genomic transects reveal complex population history of early European farmers Mark Lipson|Anna Szecsenyi-Nagy|Swapan Mallick|Annamaria Posa|Balazs Stegmar|Victoria Keerl|Nadin Rohland|Kristin Stewardson|Matthew Ferry|Megan Michel|Jonas Oppenheimer|Nasreen Broomandkhoshbacht|Eadaoin Harney|Susanne Nordenfelt|Bastien Llamas|Balazs Gusztav Mende|Kitti Kohler|Krisztian Oross|Maria Bondar|Tibor Marton|Anett Osztas|Janos Jakucs|Tibor Paluch|Ferenc Horvath|Piroska Csengeri|Judit Koos|Katalin Sebok|Alexandra Anders|Pal Raczky|Judit Regenye|Judit P. Barna|Szilvia Fabian|Gabor Serlegi|Zoltan Toldi|Emese Gyongyver Nagy|Janos Dani|Erika Molnar|Gyorgy Palfi|Laszlo Mark|Bela Melegh|Zsolt Banfai|Javier Fernandez-Eraso|Jose Antonio Mujika-Alustiza|Carmen Alonso Fernandez|Javier Jimenez Echevarria|Ruth Bollongino|Jorg Orschiedt|Kerstin Schierhold|Harald Meller|Alan Cooper|Joachim Burger|Eszter Banffy|Kurt W. Alt|Carles Lalueza-Fox|Wolfgang Haak|David Reich Harvard Medical School;|Hungarian Academy of Sciences;|Johannes Gutenberg University Mainz;|University of Adelaide;|Móra Ferenc Museum;|Herman Ottó Museum;|Eötvös Loránd University;|Laczkó Dezso Museum;|Balaton Museum;|Hungarian National Museum;|Jósa András Museum;|Déri Museum;|Szeged University;|University of Pécs;|University of the Basque Country;|CRONOS SC;|Free University of Berlin;|Westphalia-Lippe Regional Association;|State Office for Heritage Management and Archaeology Saxony-Anhalt and State Heritage Museum;|Danube Private University;|Institute of Evolutionary Biology (CSIC-UPF);|Max Planck Institute for the Science of Human History
http://dx.doi.org/10.1101/114397 2017-03-06 CC BY-NC-ND MultiDCoX: Multi-factor Analysis of Differential Co-expression Herty Liany|Jagath C Rajapakse|R. Krishna Murthy Karuturi National University of Singapore;|Nanyang Technological University;|The Jackson Laboratory
http://dx.doi.org/10.1101/114504 2017-03-06 CC BY Cell cycle entry triggers a switch between two modes of Cdc42 activation during yeast polarization Kristen Witte|Devin Strickland|Michael Glotzer The University of Chicago
http://dx.doi.org/10.1101/114470 2017-03-06 CC BY-ND ARSDA: A new approach for storing, transmitting and analyzing high-throughput sequencing data Xuhua Xia University of Ottawa, Canada
http://dx.doi.org/10.1101/114454 2017-03-06 CC BY-NC-ND Overlapping representation of primary tastes in a defined region of the gustatory cortex Max L Fletcher|Cameron Ogg|Lianyi Lu|Robert J Ogg|John D Boughter University of Tennessee Health Science Center;|St Jude Childrens Research Hospital
http://dx.doi.org/10.1101/114439 2017-03-06 Characterizing the influence of 'internal states' on sensory activity Richard D Lange|Ralf M Haefner University of Rochester
http://dx.doi.org/10.1101/114462 2017-03-06 Metabolic coupling in bacteria Shraddha Shitut|Tobias Ahsendorf|Samay Pande|Matthew Egbert|Christian Kost Max Planck Institute for Chemical Ecology;|Deutsches Krebsforschungszentrum;|University of Auckland
http://dx.doi.org/10.1101/114330 2017-03-06 CC BY Evolution of density-dependent movement during replicated experimental range expansions Emanuel A. A. Fronhofer|Sereina Gut|Florian Altermatt Eawag: Swiss Federal Institute of Aquatic Science and Technology;|Eawag: Swiss Federal Institute of Aquatic Science and Technology, Department of Aquatic Ecology
http://dx.doi.org/10.1101/114298 2017-03-06 CC BY Whole genome methylation analysis of non-dysplastic Barretts oesophagus that progresses to invasive cancer Mark P Dilworth|Tom Nieto|Joanne D Stockton|Celina M Whalley|Louise Tee|Jonathan D James|Mike T Hallissey|Rahul Hejmadi|Nigel Trugdill|Olga Tucker|Andrew D Beggs University of Birmingham;|Queen Elizabeth Hospital Birmingham;|Sandwell and West Birmingham NHS Trust
http://dx.doi.org/10.1101/114306 2017-03-06 CC BY-NC Effects of Social Organization, Trap Arrangement and Density, Sampling Scale, and Population Density on Bias in Population Size Estimation Using Some Common Mark-Recapture Estimators Manan Gupta|Amitabh Joshi|T.N.C. Vidya Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/114322 2017-03-06 Mutation supply and the repeatability of selection for antibiotic resistance Thomas van Dijk|Sungmin Hwang|Joachim Krug|J. Arjan G.M. de Visser|Mark P. Zwart Laboratory of Genetics, Wageningen University, Wageningen, The Netherlands;|Institute of Theoretical Physics, University of Cologne, Cologne, Germany
http://dx.doi.org/10.1101/114207 2017-03-06 CC BY Demonstration of de novo chemotaxis in E. coli using a real-time, quantitative, and digital-like approach Tzila Davidov|Naor Granik|Sharbel Zahran|Inbal Adir|Ofek Elul|Tal Fried|Asif Gil|Bar Mayo|Shilo Ohayon|Shiran Sarig|Nofar Shasha|Shirane Tsedef|Shani Weiner|Michal Brunwasser-Meirom|Alexandra Ereskovsky|Noa Katz|Beate Kaufmann|Yuri Haimov|Heidi Leonard|Ester Segal|Roee Amit Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/114371 2017-03-06 Connexin43 controls N-cadherin transcription during collective cell migration Maria Kotini|Elias Barriga|Jonathan Leslie|Marc Gentzel|Alexandra Schambony|Roberto Mayor UCL;|Max Planck Institut for Molecular Cell Biology and Genetics;|Friedrich-Alexander University Erlangen-Nuremberg
http://dx.doi.org/10.1101/114199 2017-03-06 Direct visualization of how Actin Depolymerizing Factor's filament severing and depolymerization synergizes with Capping Protein's monomer funneling to promote rapid polarized growth of actin filaments Shashank Shekhar|Marie-France Carlier I2BC-CNRS
http://dx.doi.org/10.1101/114447 2017-03-06 CC BY-NC-ND Differences in the spatial and temporal patterns of head motion during MRI of adults and infants Rhodri Cusack|Annika Linke|Leire Zubiaurre-Elorza|Hester Duffy|Charlotte Herzmann|Bobby Stojanoski|Victor Han|David SC Lee|Conor Wild University of Western Ontario;|San DIego State University;|University of Deusto;|University of Leicester;|Washington University at St Louis;|London Health Sciences Centre
http://dx.doi.org/10.1101/114249 2017-03-06 Court and spark in the wild: communication at the limits of sensation Jorg Henninger|Frank Kirschbaum|Jan Grewe|Ruediger Krahe|Jan Benda Institut für Neurobiologie, Eberhard Karls Universität, Tuebingen;|McGill University, Department of Biology, Montreal
http://dx.doi.org/10.1101/114314 2017-03-06 CC BY-NC-ND Natural Colonization of Laboratory Mice with Staphylococcus aureus Primes a Systemic Immune Response Daniel Schulz|Dorothee Grumann|Patricia Truebe|Kathleen Pritchett-Corning|Sarah Johnson|Kevin Reppschlaeger|Janine Gumz|Nandakumar Sundaramoorthy|Stephan Michalik|Sabine Berg|Jens van den Brandt|Richard Fister|Stefan Monecke|Benedict Uy|Frank Schmidt|Barbara M. Broeker|Siouxsie Wiles|Silva Holtfreter University Medicine Greifswald;|Charles River, USA;|University of Auckland;|University of Greifswald;|University Greifswald;|Charles River, US;|Alere Technologies
http://dx.doi.org/10.1101/114355 2017-03-06 CRISPR/Cas9 screening using unique molecular identifiers Bernhard Schmierer|Sandeep Kumar Botla|Jilin Zhang|Mikko Turunen|Teemu Kivioja|Jussi Taipale Karolinska Institutet;|University of Helsinki
http://dx.doi.org/10.1101/114165 2017-03-06 CC BY-NC xCell: Digitally portraying the tissue cellular heterogeneity landscape Dvir Aran|Zicheng Hu|Atul J Butte University of California San Francisco
http://dx.doi.org/10.1101/114215 2017-03-06 CC BY-ND The fitness cost of mis-splicing is the main determinant of alternative splicing patterns Baptiste Saudemont|Alexandra Popa|Joanna L. Parmley|Vincent Rocher|Corinne Blugeon|Anamaria Necsulea|Eric Meyer|Laurent Duret Institut de Biologie de l'Ecole Normale Supérieure (IBENS);|Université de Lyon, Université Claude Bernard, CNRS
http://dx.doi.org/10.1101/114348 2017-03-06 CC BY-NC Modeling of a negative feedback mechanism explains age-dependent genetic architecture in reproduction in domesticated C. elegans strains Edward E Large|Raghavendra Padmanabhan|Kathie L. Watkins|Richard F. Campbell|Wen Xu|Patrick McGrath Georgia Institute of Technology
http://dx.doi.org/10.1101/114256 2017-03-06 CC BY-NC Sublethal effects of the neonicotinoid insecticide thiamethoxam on the transcriptome of the honeybee (Apis mellifera) Teng-Fei Shi|Yu-Fei Wang|Lei Qi|Fang Liu|Lin-Sheng Yu Anhui Agricultural University, China
http://dx.doi.org/10.1101/110502 2017-03-06 Epidemiology CC BY Title Survey on Prevalence of Canine Cutaneous Myiasis in Some Selected Kebeles of Dire Dawa City Administration Henok Tegegne Abebe Hirna Regional Veterinary Laboratory
http://dx.doi.org/10.1101/113654 2017-03-06 Evolutionary Biology CC BY Adaptation to chronic malnutrition leads to reduced dependence on microbiota in Drosophila Berra Erkosar|Sylvain Kolly|Jan R. van der Meer|Tadeusz J. Kawecki University of Lausanne
http://dx.doi.org/10.1101/114082 2017-03-06 Cancer Biology H3K27me3-mediated silencing of Wilms Tumor 1 supports the proliferation of brain tumor cells harboring the H3.3K27M mutation Dong Fang|Haiyun Gan|Liang Cheng|Jeong-Heon Lee|Hui Zhou|Jann N Sarkaria|David J Daniels|Zhiguo Zhang Institute for Cancer Genetics, Department of Pediatrics and Department of Genetics and Development;|Department of Biochemistry and Molecular Biology, Mayo Clinic;|Department of Radiation Oncology, Mayo Clinic;|Department of Neurosurgery, Mayo Clinic
http://dx.doi.org/10.1101/114157 2017-03-06 Immunology CC BY Innovative beer-brewing of typical, old and healthy wheat varieties to boost their spreading Lorenzo Albanese|Rosaria Ciriminna|Francesco Meneguzzo|Mario Pagliaro Institute of Biometeorology, National Research Council;|Institute for the Study of Nanostructured Materials, National Research Council
http://dx.doi.org/10.1101/113878 2017-03-06 Epidemiology Association between Mitochondrial DNA Copy Number and Sudden Cardiac Death: Findings from the Atherosclerosis Risk in Communities Study (ARIC) Yiyi Zhang|Eliseo Guallar|Foram Ashar|Ryan Longchamps|Christina Castellani|John Lane|Megan Grove|Josef Coresh|Nona Sotoodehnia|Leonard Ilkhanoff|Eric Boerwinkle|Nathan Pankratz|Dan Arking Johns Hopkins University;|University of Minnesota;|University of Texas Health Science Center at Houston;|University of Washington;|Northwestern University
http://dx.doi.org/10.1101/113019 2017-03-06 Neuroscience Visually driven neuropil activity and information encoding in mouse area V1 Sangkyun Lee|Jochen Meyer|Stelios Smirnakis Brigham & Women's Hospital;|Baylor College of Medicine
http://dx.doi.org/10.1101/113829 2017-03-06 Epidemiology Dengue fever and Aedes aegypti risk in the Galápagos Islands, Ecuador Ryan Nightingale|Catherine A. Lippi|Sadie J. Ryan|Mercy J. Borbor-Cordova|Marilyn Cruz B|Fernando Ortega|Renato Leon|Egan Waggoner|Anna M Stewart Ibarra SUNY Upstate Medical University;|University of Florida;|Escuela Superior Politécnica del Litoral;|Agencia de Regulación y Control de la Bioseguridad y Cuarentena para Galápagos (ABG);|Universidad San Francisco de Quito
http://dx.doi.org/10.1101/113506 2017-03-06 Epidemiology CC BY Vaccination of health care workers to control Ebola virus disease Alexis Robert|Anton Camacho|W John Edmunds|Marc Baguelin|Jean-Jacques Muyembe Tamfum|Alicia Rosello|Sakoba Keita|Rosalind M Eggo London School of Hygiene & Tropical Medicine;|Public Health England;|Institut National de Recherche Biomédicale, Democratic Republic of the Congo;|University College London;|Ebola Response, Ministry of Health, Conakry, Guinea
http://dx.doi.org/10.1101/109918 2017-03-06 Neuroscience CC BY Dipolar extracellular potentials generated by axonal projections Thomas McColgan|Ji Liu|Paula T Kuokkanen|Catherine E Carr|Wagner Hermann|Richard Kempter Humboldt-Universitaet zu Berlin;|University of Maryland;|Humboldt-Universitaet zu Berlin, University of Maryland;|RWTH Aachen
http://dx.doi.org/10.1101/114496 2017-03-07 Microbiology Microfluidic-based mini-metagenomics enables discovery of novel microbial lineages from complex environmental samples Feiqiao Yu|Paul C Blainey|Frederik Schulz|Tanja Woyke|Mark A Horowitz|Stephen R Quake Stanford University;|Massachusetts Institute of Technology;|Joint Genome Inst.
http://dx.doi.org/10.1101/114512 2017-03-07 Ecology CC BY-NC-ND Dramatic differences in gut bacterial densities help to explain the relationship between diet and habitat in rainforest ants Jon G Sanders|Piotr ukasik|Megan Frederickson|Jacob Russell|Ryuichi Koga|Rob Knight|Naomi Pierce University of California San Diego;|University of Montana;|University of Toronto;|Drexel University;|Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology;|Harvard University
http://dx.doi.org/10.1101/114546 2017-03-06 Biophysics TRPV1 activation relies on hydration/dehydration of nonpolar cavities Marina Kasimova|Aysenur Yazici|Daniele Granata|Michael L. Klein|Tibor Rohacs|Vincenzo Carnevale Temple University;|Rutgers New Jersey Medical School
http://dx.doi.org/10.1101/076950 2017-03-07 CC BY-NC-ND X-chromosome inactivation and its implications for human disease Joost Gribnau|Tahsin Stefan Barakat Department of Developmental Biology, Erasmus MC, University Medical Centre, Rotterdam;|MRC Centre for Regenerative Medicine, University of Edinburgh
http://dx.doi.org/10.1101/114645 2017-03-07 CC BY-ND A novel method for large-scale identification of polymorphic microsatellites through comparative transcriptome analysis Wei Luo|Hongyue Qu|Xin Wang|Qin Zhan|Qiang Lin South China Sea Institute of Oceanology, Chinese Academy of Sciences, China
http://dx.doi.org/10.1101/114850 2017-03-07 CC BY-NC-ND Position Effects Influencing Intrachromosomal Repair of a Double-Strand Break in Budding Yeast Ruoxi W. Wang|Cheng-Sheng Lee|James E. Haber Brandeis University
http://dx.doi.org/10.1101/114835 2017-03-07 CC BY-NC-ND Estrogen receptor alpha is required in GABAergic, but not glutamatergic, neurons to masculinize the brain Melody V Wu|Jessica Tollkuhn Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/114538 2017-03-07 CC BY-NC A randomized comparison of different hormone replacement protocols for thawed blastocyst transfer Sagiri Taguchi|Miyako Funabiki|Yoshihiro Tada|Masako Karita|Terumi Hayashi|Yoshitaka Nakamura Oak Clinic
http://dx.doi.org/10.1101/114694 2017-03-07 CC BY Mutational biases influence parallel adaptation Arlin Stoltzfus|David M McCandlish IBBR;|Simons Center for Quantitative Biology
http://dx.doi.org/10.1101/113712 2017-03-07 On the genetic and environmental reasons why intelligence correlates with criminal victimization Brian Boutwell|Eric Connolly|Nicole Barbaro|Todd Shackelford|Melissa Petkovsek|Kevin Beaver Saint Louis University;|Penn State Abington;|Oakland University;|University of Central Missouri;|Florida State University
http://dx.doi.org/10.1101/114561 2017-03-07 CC BY-NC-ND A powerful approach to estimating annotation-stratified genetic covariance using GWAS summary statistics Qiongshi Lu|Boyang Li|Derek Ou|Margret Erlendsdottir|Ryan L Powles|Tony Jiang|Yiming Hu|David Chang|Chentian Jin|Wei Dai|Qidu He|Zefeng Liu|Shubhabrata Mukherjee|Paul K Crane|Hongyu Zhao Yale University;|Yale School of Medicine;|Yale College;|Shanghai Jiao Tong University;|University of Washington
http://dx.doi.org/10.1101/114801 2017-03-07 Developmental Biology Genome-Wide Analysis of Facial Regionalization in Zebrafish Amjad Askary|Pengfei Xu|Lindsey Barske|Maxwell Bay|Paul Bump|Bartosz Balczerski|Michael A Bonaguidi|Gage Crump University of Southern California Keck School of Medicine
http://dx.doi.org/10.1101/114827 2017-03-07 CC BY-NC-ND Identification of a Novel Gene argJ involved in Arginine Biosynthesis Critical for Persister Formation in Staphylococcus aureus Rebecca Yee|Peng Cui|Tao Xu|Wanliang Shi|Jie Feng|Wenhong Zhang|Ying Zhang Johns Hopkins University;|Fudan University
http://dx.doi.org/10.1101/114686 2017-03-07 Developmental Biology Coupling optogenetics and light-sheet microscopy to study signal transduction in vivo Prameet Kaur|Timothy E. Saunders|Nicholas Stanislaw Tolwinski Yale-NUS College;|Mechanobiology Institute, National University of Singapore
http://dx.doi.org/10.1101/114413 2017-03-07 Epidemiology Association of pre-pregnancy body mass index with future offspring metabolic profile: findings from three independent European birth cohorts Diana Lucia Santos Ferreira|Dylan M. Williams|Antti J. Kangas|Pasi Soininen|Mika Ala-Korpela|George Davey Smith|Marjo-Riitta Jarvelin|Debbie A. Lawlor MRC Integrative Epidemiology Unit at the University of Bristol, Bristol, UK;|Department of Medical Epidemiology & Biostatistics, Karolinska Institutet, Stockholm, Sweeden;|Computational Medicine, Faculty of Medicine, University of Oulu, Oulu, Finland;|Department of Epidemiology and Biostatistics, MRC PHE Centre for Environment and Health, School of P
http://dx.doi.org/10.1101/114660 2017-03-07 Evolutionary Biology CC BY The genome sizes of ostracod crustaceans correlate with body size and phylogeny Nicholas W Jeffery|Emily A Ellis|Todd H Oakley|T. Ryan Gregory University of Guelph;|University of California Santa Barbara
http://dx.doi.org/10.1101/114553 2017-03-07 Bioengineering Scaling up DNA data storage and random access retrieval Lee Organick|Siena Dumas Ang|Yuan-Jyue Chen|Randolph Lopez|Sergey Yekhanin|Konstantin Makarychev|Miklos Z. Racz|Govinda Kamath|Parikshit Gopalan|Bichlien Nguyen|Christopher Takahashi|Sharon Newman|Hsing-Yeh Parker|Cyrus Rashtchian|Kendall Stewart|Gagan Gupta|Robert Carlson|John Mulligan|Douglas Carmean|Georg Seelig|Luis Ceze|Karin Strauss University of Washington;|Microsoft
http://dx.doi.org/10.1101/114629 2017-03-07 Neuroscience INCLUSION CRITERIA UPDATE OF THE INTRALUMINAL ISCHEMIC MODEL IN RAT FOR PRECLINICAL STUDIES Hector Fernandez-Susavila|Ramon Iglesias Rey|Antonio Dopico-Lopez|Maria Perez-Mato|Tomas Sobrino|Jose Castillo|Francisco Campos Health Research Institute of Santiago de Compostela (IDIS)
http://dx.doi.org/10.1101/114637 2017-03-07 Genetics An epigenome-wide association study of educational attainment (n = 10,767) Richard Karlsson Linner|Riccardo E Marioni|Cornelius A Rietveld|Andrew Simpkin|Neil M Davies|Kyoko Watanabe|Nicola J Armstrong|Kirsi Auro|Clemens Baumbach|Marc Jan Bonder|Jadwiga Buchwald|Giovanni Fiorito|Khadeeja Ismail|Stella Iurato|Anni Joensuu|Pauliina Karell|Silva Kasela|Jari Lahti|Allan F McRae|Pooja R Mandaviya|Ilkka Seppala|Yunzhang Wang|Laura Baglietto|Elisabeth B Binder|Sarah E Harris|Allison M Hodge|Steve Horvath|Mikko Hurme|Magnus Johannesson|Antti Latvala|Karen A Mather|Sarah E Medland|Andres Metspalu|Lili Milani|Roger L Milne|Alison Pattie|Nancy L Pedersen|Annette Peters|Silvia Polidoro|Katri Raikkonen|Gianluca Severi|John M Starr|Lisette Stolk|Melanie Waldenberger|Johan G Eriksson|Tonu Esko|Lude Franke|Christian Gieger|Graham G Giles|Sara Hagg|Pekka Jousilahti|Jaakko Kaprio|Mika Kahonen|Terho Lehtimaki|Nicholas G Martin|Joyce B. C van Meurs|Miina Ollikainen|Markus Perola|Danielle Posthuma|Olli T Raitakari|Perminder S Sachdev|Erdogan Taskesen|Andre G Uitterlinden|Paolo Vineis|Cisca Wijmenga|Margaret J Wright|Caroline Relton|George Davey Smith|Ian J Deary|Philipp D Koellinger|Daniel J Benjamin Department of Complex Trait Genetics, Vrije Universiteit Amsterdam;|Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh;|Department of Applied Economics, Erasmus School of Economics, Erasmus University Rotterdam;|MRC Intergrative Epidemiology Unit, School of Social and Community Medicine, University of Bristol;|Mathematics and Statistics, Murdoch University;|Institute for Molecular Medicine Finland (FIMM), University of Helsinki;|Research Unit of Molecular Epidemiology (AME), Helmholtz Zentrum München;|Department of Genetics, University Medical Center Groningen, University of Groningen;|Molecular and Genetic Epidemiology Unit, Human Genetics Foundation Torino;|Research Unit of Molecular Epidemiology (AME), Helmholtz Zentrum Munchen;|Estonian Genome Center, University of Tartu;|Institute of Behavioural Studies, University of Helsinki;|Institute for Molecular Bioscience, The University of Queensland;|Department of Clinical Chemistry, Erasmus University Medical Center;|Department of Clinical Chemistry, Fimlab Laboratories;|Medical Epidemiology and Biostatistics, Karolinska Institutet;|Centre for Research in Epidemiology and Population Health;|Cancer Epidemiology Centre, Cancer Council Victoria;|Human Genetics and Biostatistics, University of California Los Angeles;|Department of Microbiology and Immunology, University of Tampere;|Department of Economics, Stockholm School of Economics;|Department of Public Health, University of Helsinki;|Centre for Healthy Brain Ageing, Psychiatry, UNSW Australia;|Psychiatric Genetics, QIMR Berghofer Medical Research Institute;|Department of Psychology, University of Edinburgh;|Molecular and genetic epidemiology unit, Human Genetics Foundation Torino;|Department of General Practice and Primary Health Care, University of Helsinki & Helsinki University;|National Institute for Health and Welfare, Genomics and Biomarkers;|Department of Clinical Physiology, Tampere University Hospital;|Genetic Epidemiology, QIMR Berghofer Medical Research Institute;|Department of Internal Medicine, Erasmus University Medical Center;|Department of Clinical Physiology and Nuclear Medicine, Turku University Hospital;|Queensland Brain Institute and Centre for Advanced Imaging, The University of Queensland;|Center for Economic and Social Research, University of Southern California
http://dx.doi.org/10.1101/114744 2017-03-07 Biophysics CC BY-NC The molecular weight of NaYF4:RE photonic up-conversion nanoparticles Lewis Edward MacKenzie|Jack A Goode|Alexandre Vakurov|Padmaja P Nampi|Sikha Saha|Gin Jose|Paul A Millner University of Leeds
http://dx.doi.org/10.1101/114652 2017-03-07 Plant Biology A DNA demethylase overexpression promotes early apical bud maturation in poplar through the biosynthesis and accumulation of flavonoids Daniel Conde|Alicia Moreno-Cortes|Christopher Dervinis|Jose Manuel Ramos-Sanchez|Matias Kirst|Mariano Perales|Pablo Gonzalez-Melendi|Isabel Allona CBGP-UPM;|School of Forest Resources and Conservation, University of Florida
http://dx.doi.org/10.1101/114603 2017-03-07 Genomics CC BY-NC Incorporation of unique molecular identifiers in TruSeq adapters improves the accuracy of quantitative sequencing Jungeui Hong|David Gresham MSKCC;|NYU
http://dx.doi.org/10.1101/114587 2017-03-07 Evolutionary Biology CC BY-NC Soft sweeps and beyond: Understanding the patterns and probabilities of selection footprints under rapid adaptation Joachim Hermisson|Pleuni S Pennings University of Vienna;|San Francisco State University
http://dx.doi.org/10.1101/114819 2017-03-07 Biochemistry CC BY Prophage genomics reveals patterns in phage genome organization and replication Han Suh Kang|Katelyn McNair|Daniel Cuevas|Barbara Bailey|Anca Segall|Robert A Edwards San Diego State University
http://dx.doi.org/10.1101/114769 2017-03-07 Bioinformatics CC BY-NC-ND BRANE Clust: Cluster-Assisted Gene Regulatory Network Inference Refinement Aurelie Pirayre|Camille Couprie|Laurent Duval|Jean-Christophe Pesquet IFP Energies nouvelles;|Facebook AI Research;|IFP ENERGIES NOUVELLES;|CentralSupelec
http://dx.doi.org/10.1101/114579 2017-03-07 Evolutionary Biology CC BY The interplay of demography and selection during maize domestication and expansion Li Wang|Timothy Mathes Beissinger|Anne Lorant|Claudia Ross-Ibarra|Jeffrey Ross-Ibarra|Matthew Hufford Department of Ecology, Evolution, and Organismal Biology, Iowa State University;|USDA-ARS, University of Missouri;|Department of Plant Sciences, University of California Davis
http://dx.doi.org/10.1101/114793 2017-03-07 Evolutionary Biology CC BY-NC Missing the point (estimate): Bayesian and likelihood phylogenetic reconstructions of morphological characters produce generally concordant inferences. A comment on Puttick et al. Joseph W. Brown|Caroline Parins-Fukuchi|Gregory W. Stull|Oscar M. Vargas|Stephen A. Smith University of Michigan
http://dx.doi.org/10.1101/114777 2017-03-07 Neuroscience Classification of brain pericytes based on cell structure, location, and α-smooth muscle actin content Roger Ian Grant|David A. Hartmann|Robert G. Underly|Andy Y. Shih Medical University of South Carolina
http://dx.doi.org/10.1101/114272 2017-03-07 Evolutionary Biology Can malaria parasites manipulate the odour-mediated host preference of their mosquito vectors? Phuong L. Nguyen|Amelie Vantaux|Domonbabele FdS Hien|Kounbobr R Dabire|Bienvenue Yameogo|Louis-Clement Gouagna|Didier Fontenille|Francois Renaud|Frederic Simard|Carlo Constantini|Frederic Thomas|Anna Cohuet|Thierry Lefevre École Normale Supérieur;|Institut Pasteur du Cambodge;|Institut de Recherches en Sciences de la Santé;|Maladies Infectieuses et Vecteurs: Ecologie, Genetique, Evolution et Controle
http://dx.doi.org/10.1101/114108 2017-03-07 Evolutionary Biology CC BY-NC-ND Alzheimer related genes show accelerated evolution Anne Nitsche|Kristin Reiche|Uwe Ueberham|Christian Arnold|Joerg Hackermueller|Friedemann Horn|Peter F Stadler|Thomas Arendt University of Leipzig;|Fraunhofer Institute for Cell Therapy and Immunology;|Paul Flechsig Institute for Brain Research;|Helmholtz Centre for Environmental Research
http://dx.doi.org/10.1101/112458 2017-03-07 Evolutionary Biology CC BY-NC-ND Effective purifying selection in ancient asexual oribatid mites Alexander Brandt|Ina Schaefer|Julien Glanz|Tanja Schwander|Mark Maraun|Stefan Scheu|Jens Bast University of Goettingen;|University of Lausanne;|University of Goettignen
http://dx.doi.org/10.1101/114785 2017-03-07 Bioinformatics CC BY WTFgenes: What's The Function of these genes? Static sites for model-based gene set analysis Christopher Mungall|Ian Holmes Lawrence Berkeley National Laboratory;|University of California at Berkeley
http://dx.doi.org/10.1101/114520 2017-03-07 Neuroscience CC BY-NC-ND Odor concentration change detectors in the Olfactory Bulb Ana Parabucki|Alexander Bizer|Genela Morris|Matthew C Smear|Roman Shusterman Weizmann Institute;|University of Haifa;|University of Oregon
http://dx.doi.org/10.1101/113597 2017-03-07 Microbiology CC BY Exact sequence variants should replace operational taxonomic units in marker gene data analysis Benjamin J Callahan|Paul J McMurdie|Susan P Holmes North Carolina State University;|Whole Biome Inc.;|Stanford University
http://dx.doi.org/10.1101/114884 2017-03-08 Genetics CC BY-NC-ND Application of t-SNE to Human Genetic Data Wentian Li|Jane E Cerise|Yaning Yang|Henry Han Feinstein Institute for Medical Research;|University of Science and Technology of China;|Fordham University
http://dx.doi.org/10.1101/114967 2017-03-08 Genomics CC BY-NC-ND Extensive hidden genetic variation shapes the structure of functional elements in Drosophila Mahul Chakraborty|Roy Zhao|Xinwen Zhang|Shannon Kalsow|J.J. Emerson University of California Irvine
http://dx.doi.org/10.1101/114892 2017-03-08 Bioinformatics Deep Learning based multi-omics integration robustly predicts survival in liver cancer Kumardeep Chaudhary|Olivier B. Poirion|Liangqun Lu|Lana Garmire University of Hawaii Cancer Center
http://dx.doi.org/10.1101/114918 2017-03-07 Microbiology CC BY Alphaproteobacteria fix nitrogen in a Sphagnum-dominated peat bog using molybdenum-dependent nitrogenase Melissa J Warren|Xueju Lin|John Christian Gaby|Cecilia B Kretz|Peter L Morton|Jennifer Pett-Ridge|David J Weston|Christopher W Schadt|Joel E Kostka|Jennifer B Glass Georgia Institute of Technology;|Florida State University;|Lawrence Livermore National Laboratory;|Oak Ridge National Laboratory
http://dx.doi.org/10.1101/114611 2017-03-07 Biochemistry Early biomarker discovery in urine of Walker 256 subcutaneous rat model Jianqiang Wu|Zhengguang Guo|Youhe Gao Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences;|School of Life Sciences,Beijing Normal University
http://dx.doi.org/10.1101/114868 2017-03-07 Developmental Biology Polymorphic Dynamics of Ribosomal Proteins' Gene Expression during Induced Pluripotency Prashanth Kumar Guthikonda|Sumitha Prameela Bharathan|Janakiram Rayabaram|Sailu Yellaboina|Shaji R Velayudhan|Sreenivasulu Kurukuti Department of Animal Biology, School of Life Sciences, University of Hyderabad, India;|Centre for Stem Cell Research, Christian Medical College, Vellore-632002, India;|CR Rao Advanced Institute of Mathematics, Statistics and Computer Sciences, UOH campus, India
http://dx.doi.org/10.1101/114900 2017-03-07 Microbiology CC BY-NC-ND Improper Localization of the OmcS Cytochrome May Explain the Inability of the xapD-Deficient Mutant of Geobacter sulfurreducens to Reduce Fe(III) Oxide Kelly A Flanagan|Ching Leang|Joy Ward|Derek R Lovley Mount Holyoke College;|Lanza Tech;|University of Massachusetts Amherst
http://dx.doi.org/10.1101/114876 2017-03-07 Plant Biology Spot dynamics in a reaction-diffusion model of plant root hair initiation Daniele Avitabile|Victor F Brena-Medina|Micheal J Ward University of Nottingham;|Centro de Ciencias Matem ́aticas, UNAM, Morelia, Michoaca ́n, M ́exico,;|Department of Mathematics, UBC, Vancouver, Canada
http://dx.doi.org/10.1101/115170 2017-03-08 CC BY-NC Predicting metabolic adaptation from networks of mutational paths Christos Josephides|Peter S Swain University of Edinburgh
http://dx.doi.org/10.1101/113860 2017-03-08 Microbiology Plasmid DNA analysis of pristine groundwater microbial communities reveal extensive presence of metal resistance genes Ankita Kothari|Yu-Wei Wu|Marimikel Charrier|Lara Rajeev|Andrea M Rocha|Charles J Paradis|Terry C. Hazen|Steven W Singer|Aindrila Mukhopadhyay Lawrence Berkeley National Laboratory;|University of Tennessee
http://dx.doi.org/10.1101/115048 2017-03-08 Ecology How ecosystems recover from pulse perturbations: A theory of short- to long-term responses Jean-Francois Arnoldi|Azenor Bideault|Michel Loreau|Bart Haegeman CNRS
http://dx.doi.org/10.1101/114991 2017-03-08 Neuroscience CC BY-NC-ND Characterising and Engaging a Computationally Defined Treatment Target for Depression Erdem Pulcu|Michael Browning University of Oxford
http://dx.doi.org/10.1101/115055 2017-03-08 Evolutionary Biology CC BY Adaptive introgression from distant Caribbean islands contributed to the diversification of a microendemic radiation of trophic specialist pupfishes Emilie Jean Richards|Christopher Herbert Martin University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/114678 2017-03-08 Cell Biology CC BY-ND ES cell derived neural progenitors improves visual functions in retinal ganglion cells - depleted mouse models Divya Mundackal Sivaraman|Rasheed Vazhanthodi Abdul|Tiffany Schmidt|Lalitha Soundararajan|Samer Hattar|Jackson James Neuro-Stem Cell Biology Laboratory, Rajiv Gandhi Centre for Biotechnology;|Department of Biology, Johns Hopkins University
http://dx.doi.org/10.1101/115022 2017-03-08 Bioinformatics CC BY Tagger: BeCalm API for rapid named entity recognition Lars Juhl Jensen University of Copenhagen
http://dx.doi.org/10.1101/114983 2017-03-08 Microbiology CC BY-NC-ND Transcriptomic profiling of high-density Giardia foci encysting in the murine proximal intestine Jonathan K Pham|Christopher Nosala|Erica Y Scott|Kristofer F Nguyen|Kari D Hagen|Hannah N Starcevich|Scott C Dawson UC Davis
http://dx.doi.org/10.1101/114959 2017-03-08 Microbiology CC BY Ankyrin-1 gene exhibits allelic heterogeneity in conferring protection against malaria Hong Ming Huang|Denis Bauer|Patrick Lelliott|Matthew Dixon|Leann Tilley|Brendan McMorran|Simon Foote|Gaetan Burgio John Curtin School of Medical Research, the Australian National University;|CSIRO, Sydney, NSW, Australia.;|IFReC Research Building, Osaka University;|Department of Biochemistry and Molecular Biology, Bio21 Institute, Melbourne;|The Australian National University
http://dx.doi.org/10.1101/114975 2017-03-08 Evolutionary Biology CC BY-NC So many genes, so little time: comments on divergence-time estimation in the genomic era Stephen Smith|Joseph W. Brown|Joseph F. Walker University of Michigan
http://dx.doi.org/10.1101/114363 2017-03-08 Developmental Biology CC BY-NC-ND Dynamic genome wide expression profiling of Drosophila head development reveals a novel role of Hunchback in retinal glia cell development and blood-brain barrier integrity Montserrat Torres-Oliva|Julia Schneider|Gordon Wiegleb|Felix Kaufholz|Nico Posnien University Goettingen, Abteilung fuer Entwicklungsbiologie, GZMB, Justus-von-Liebig-Weg 11
http://dx.doi.org/10.1101/113753 2017-03-08 Ecology CC BY No general relationship between mass and temperature in endotherm species Kristina Riemer|Robert Guralnick|Ethan White University of Florida
http://dx.doi.org/10.1101/115121 2017-03-08 Bioinformatics CC BY A study of the structural properties of sites modified by the O-linked 6-N-acetylglucosamine transferase Thiago Britto-Borges|Geoffrey J Barton University of Dundee
http://dx.doi.org/10.1101/115063 2017-03-08 Genomics CC BY-NC-ND High-resolution TADs reveal DNA sequences underlying genome organization in flies Fidel Ramirez|Vivek Bhardwaj|Jose Villaveces|Laura Arrigoni|Bjoern A Gruening|Kin Chung Lam|Bianca Habermann|Asifa Akhtar|Thomas Manke Max Planck Institute of Immunobiology and Epigenetics;|Max Planck Institute of Biochemistry;|University of Freiburg
http://dx.doi.org/10.1101/114405 2017-03-08 Genetics CC BY-NC-ND Genetics of educational attainment aid in identifying biological subcategories of schizophrenia Vikas Bansal|Marina Mitjans|Casper A.P. Burik|Richard Karlsson Linner|Aysu Okbay|Cornelius A. Rietveld|Martin Begemann|Stefan Bonn|Stephan Ripke|Michel G. Nivard|Hannelore Ehrenreich|Philipp D. Koellinger German Center for Neurodegenerative Diseases (DZNE);|Max Planck Institute of Experimental Medicine;|Vrije Universiteit Amsterdam;|Erasmus University Rotterdam;|Analytic and Translational Genetics Unit, Massachusetts General Hospital
http://dx.doi.org/10.1101/115014 2017-03-08 Evolutionary Biology CC BY-NC Social interactions within the family enhance the capacity for evolutionary change Benjamin J M Jarrett|Matthew Schrader|Darren Rebar|Thomas M Houslay|Rebecca M Kilner University of Cambridge;|The University of the South;|University of Exeter
http://dx.doi.org/10.1101/115105 2017-03-08 Developmental Biology CC BY Wnt Signalling Controls the Response to Mechanical Loading during Zebrafish Joint Development Lucy H Brunt|Katie Begg|Erika Kague|Stephen Cross|Chrissy L Hammond University of Bristol
http://dx.doi.org/10.1101/115089 2017-03-08 Evolutionary Biology POUMM: An R-package for Bayesian Inference of Phylogenetic Heritability Venelin Mitov|Tanja Stadler ETH Zurich, Swiss Institute of Bioinformatics
http://dx.doi.org/10.1101/114025 2017-03-08 Cancer Biology CC BY-NC-ND Epigenetic Regulation of Gene Expression in Cancer: Techniques, Resources, and Analysis Luciane Kagohara|Genevieve Stein-O'Brien|Dylan Kelley|Emily Flam|Heather Wick|Ludmila Danilova|Hariharan Easwaran|Alexander Favorov|Jiang Qian|Daria Gaykalova|Elana Fertig Johns Hopkins University Sidney Kimmel Comprehensive Cancer Center;|Johns Hopkins University;|Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/114751 2017-03-08 Molecular Biology CC BY-NC Affinity-mass spectrometric technologies for quantitative proteomics in biological fluids Huiyan Li|Robert Popp|Christoph H Borchers University of Victoria-Genome BC Proteomics Centre
http://dx.doi.org/10.1101/115527 2017-03-09 CC BY-NC-ND Comparison of methods that use whole genome data to estimate the heritability and genetic architecture of complex traits. Luke Evans|Rasool Tahmasbi|Scott Vrieze|Goncalo Abecasis|Sayantan Das|Doug Bjelland|Teresa deCandia|Mike Goddard|Benjamin Nealie|Jian Yang|Peter Visscher|Matthew Keller University of Colorado;|University of Colorado Boulder;|University of Michigan;|University of Melbourne;|Broad Institute;|University of Queensland
http://dx.doi.org/10.1101/115592 2017-03-09 CC BY-NC-ND Dissection of MAPK signaling specificity through protein engineering in a developmental context Diego L Wengier|Gregory R Lampard|Dominique C Bergmann CONICET;|HHMI/Stanford University
http://dx.doi.org/10.1101/115493 2017-03-09 Synthetic Biology Rapid genome recoding by iterative recombineering of synthetic DNA Yu Heng Lau|Finn Stirling|James Kuo|Michiel AP Karrenbelt|Yujia A Chan|Adam Riesselman|Connor A Horton|Elena Schaefer|David Lips|Matthew T Weinstock|Daniel G Gibson|Jeffrey C Way|Pamela A. Silver Harvard Medical School;|Wageningen University;|Synthetic Genomics Inc;|Wyss Institute for Biologically Inspired Engineering
http://dx.doi.org/10.1101/115238 2017-03-09 Epidemiology CC BY-NC-ND Depression Linked to Frequent Emergency Department Use in Large 10-year Retrospective Analysis of an Integrated Health Care System Wendy Marie Ingram|Cody Weston|Marylyn D Ritchie|Sharon Larson Geisinger Health System;|Penn State Milton S. Hershey Medical Center
http://dx.doi.org/10.1101/115568 2017-03-09 Evolutionary Biology The mutational decay of male and hermaphrodite competitive fitness in the androdioecious nematode C. elegans, in which males are naturally rare Shu-Dan Yeh|Ayush Saxena|Timothy Crombie|Dorian Feistel|Lindsay M Johnson|Isabel Lam|Jennifer Lam|Sayran Saber|Charles F Baer National Central University, Taiwan;|University of Florida;|Emory University
http://dx.doi.org/10.1101/115543 2017-03-09 Bioinformatics CC BY-NC-ND Improving pairwise comparison of protein sequences with domain co-occurrence Christophe Menichelli|Olivier Gascuel|Laurent Brehelin IBC - LIRMM - Univ Montpellier - CNRS;|IBC - LIRMM - Univ Montpellier - CNRS - C3BI - Pasteur;|LIRMM
http://dx.doi.org/10.1101/115519 2017-03-09 Genetics Dissecting the genetic architecture of shoot growth in carrot (Daucus carota L.) using a diallel mating design Philipp Simon|Sarah Turner|Paul Maurizio|William Valdar|Brian Yandell USDA, ARS, United States;|University of Wisconsin, United States;|University of North Carolina, United States;|University of North Carolina at Chapel Hill, United States
http://dx.doi.org/10.1101/115576 2017-03-09 Bioinformatics CC BY-NC Genoppi: A web application for interactive integration of experimental proteomics results with genetic datasets April Kim|Edyta Malolepsza|Justin Lim|Kasper Lage Broad Institute of MIT and Harvard, Massachusetts General Hospital;|Massachusetts Institute of Technology, Broad Institute of MIT and Harvard;|Harvard, Broad Institute, Mass General Hospital
http://dx.doi.org/10.1101/115501 2017-03-09 Molecular Biology CC BY-ND DNA sequence homology induces cytosine-to-thymine mutation by a heterochromatin-related pathway Eugene Gladyshev|Nancy Kleckner Harvard University
http://dx.doi.org/10.1101/115535 2017-03-09 Neuroscience Decoding across sensory modalities reveals common supramodal signatures of conscious perception Gaetan Sanchez|Julia Natascha Frey|Marco Fusca|Nathan Weisz Paris-Lodron Universität Salzburg, Centre for Cognitive Neuroscience;|Center for Mind/Brain Sciences (CIMeC), University of Trento
http://dx.doi.org/10.1101/115386 2017-03-09 Evolutionary Biology Master manipulation continued: feminizing Wolbachia endosymbiont distorts sex chromosome inheritance Daisuke Kageyama|Mizuki Ohno|Tatsushi Sasaki|Atsuo Yoshido|Tatsuro Konagaya|Akiya Jouraku|Seigo Kuwazaki|Hiroyuki Kanamori|Yuichi Katayose|Satoko Narita|Mai Miyata|Markus Riegler|Ken Sahara NARO;|Iwate University;|Kyoto University;|NIBIOHN;|Chiba University;|Western Sydney University
http://dx.doi.org/10.1101/115444 2017-03-09 Evolutionary Biology Segregation lift: A general mechanism for the maintenance of polygenic variation under seasonally fluctuating selection. Meike J. Wittmann|Alan O. Bergland|Marcus W. Feldman|Paul S. Schmidt|Dmitri A. Petrov University of Vienna;|University of Virginia;|Stanford University;|University of Pennsylvania
http://dx.doi.org/10.1101/115378 2017-03-09 Microbiology CC BY Is the 25 year hepatitis C marathon coming to an end to declare victory? Khulood T Ahmed|Ashraf Almashhrawi|Jamal A Ibdah|Veysel Tahan University of Missouri, Division of Gastroenterology and Hepatology
http://dx.doi.org/10.1101/115436 2017-03-09 Bioinformatics CC BY-NC-ND ChromoTrace: Reconstruction of 3D Chromosome Configurations by Super-Resolution Microscopy Sandro Morganella|Oeyvind Oedegaard|Stephanie Alexander|Jonas Ries|Tomas Fitzgerald|Jan Ellenberg|Ewan Birney European Bioinformatics Institute (EMBL-EBI);|European Molecular Biology Laboratory (EMBL)
http://dx.doi.org/10.1101/115246 2017-03-09 Plant Biology CC BY Life and death of proteins after protease cleavage: protein degradation by the N-end rule pathway Nico Dissmeyer|Susana Rivas|Emmanuelle Graciet Leibniz Institute of Plant Biochemistry (IPB);|INRA Toulouse;|Maynooth University
http://dx.doi.org/10.1101/115477 2017-03-09 Systems Biology CC BY-ND LASSIM - a network inference toolbox for genome-wide mechanistic modeling Rasmus Magnusson|Guido Pio Mariotti|Mattias Kopsen|William Lovfors|Danuta R Gawel|Rebecka Jornsten|Jorg Linde|Torbjorn Nordling|Elin Nyman|Sylvie Schulze|Colm E Nestor|Huan Zhang|Gunnar Cedersund|Mikael Benson|Andreas Tjarnberg|Mika Gustafsson Linkoping University;|University of Gothenburg;|Hans-Knoell-Institute;|National Cheng Kung University
http://dx.doi.org/10.1101/115428 2017-03-09 Systems Biology CC BY-NC-ND Maintaining maximal metabolic flux by gene expression control Robert Planque|Josephus Hulshof|Bas Teusink|Johan Hendriks|Frank J Bruggeman Vrije Universiteit Amsterdam;|Dept of Mathematics, Vrije Universiteit Amsterdam;|Systems Bioinformatics, Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/115410 2017-03-09 Plant Biology CC BY-ND Multiple reference genome sequences of hot pepper reveal the massive evolution of plant disease resistance genes by retroduplication Seungill Kim|Jieun Park|Seon-In Yeom|Yong-Min Kim|Eunyoung Seo|Ki-Tae Kim|Myung-Shin Kim|Je Min Lee|Kyeongchae Cheong|Ho-Sub Shin|Saet-Byul Kim|Koeun Han|Jundae Lee|Minkyu Park|Hyun-Ah Lee|Hye-Young Lee|Youngsill Lee|Soohyun Oh|Joo Hyun Lee|Eunhye Choi|Eunbi Choi|So Eui Lee|Jongbum Jeon|Hyunbin Kim|Gobong Choi|Hyeunjeong Song|JunKi Lee|Sang-Choon Lee|Jin-Kyung Kwon|Hea-Young Lee|Namjin Koo|Yunji Hong|Ryan W Kim|Won-Hee Kang|Jin Hoe Huh|Byoung-Cheorl Kang|Tae-Jin Yang|Yong-Hwan Lee|Jeffrey L Bennetzen|Doil Choi Seoul National University, Seoul 08826, Korea;|Gyeongsang National University, Jinju 52828, Korea;|Korea Research Institute of Bioscience and Biotechnology, Daejon 34141, Korea;|Kyungpook National University, Daegu 41566, Korea;|Chonbuk National University, Jeonju 54896, Korea;|University of Georgia, Athens, GA 30602-7223, USA
http://dx.doi.org/10.1101/115402 2017-03-09 Neuroscience CC BY-NC-ND From the statistics of connectivity to the statistics of spike times in neuronal networks Gabriel Koch Ocker|Yu Hu|Michael A. Buice|Brent Doiron|Kresimir Josic|Robert Rosenbaum|Eric Shea-Brown Allen Institute for Brain Science;|Harvard University;|University of Pittsburgh;|University of Houston;|University of Notre Dame;|University of Washington
http://dx.doi.org/10.1101/115030 2017-03-09 Genomics First landscape of binding to chromosomes for a domesticated mariner transposase in the human genome: diversity of genomic targets of SETMAR isoforms in two colorectal cell lines Aymeric Antoine-Lorquin|Ahmed Arnoaty|Sassan Asgari|Martine Batailler|Linda Beauclair|Solenne Bire|Nicolas Buisine|Vincent Coustham|Alban Girault|Serge Guyetant|Thierry Lecomte|Benoit Piegu|Bruno Pitard|Isabelle Stevant|Catherine Belleannee|Yves Bigot INRIA;|University of Tours;|University of Brisbane;|CNRS;|INRA;|University of Lausanne;|Museum National d'Histoire Naturelle;|CHRU of Tours;|University of Geneva;|University of Rennes
http://dx.doi.org/10.1101/115188 2017-03-09 Neuroscience CC BY-NC Learning to see again: Biological constraints on cortical plasticity and the implications for sight restoration technologies Michael Beyeler|Ariel Rokem|Geoffrey M Boynton|Ione Fine University of Washington
http://dx.doi.org/10.1101/115345 2017-03-09 Bioinformatics CC BY-NC-ND A modified GC-specific MAKER gene annotation method reveals improved and novel gene predictions of high and low GC content in Oryza sativa Megan J Bowman|Jane A Pulman|Tiffany L Liu|Kevin L Childs Michigan State University
http://dx.doi.org/10.1101/115154 2017-03-09 Plant Biology Managed woodlot revealed a trade-off between edible leaves and timber production in Vitex doniana Sweet (Lamiaceae) Sognigbe N'Danikou|Dedeou A. Tchokponhoue|Aristide C. Houdegbe|Aboegnonhou O.C. Agossou|Enoch G. Achigan-Dako|Francoise Assogba Komlan|Raymond S. Vodouhe|Adam Ahanchede Laboratory of Genetics, Biotechnology and Seed Sciences; Bioversity International;|Laboratory of Genetics, Biotechnology and Seed Sciences;|National Agricultural Research Institute of Benin (INRAB);|Bioversity International, West and Central Africa office
http://dx.doi.org/10.1101/115451 2017-03-09 Genomics CC BY-ND Population-specific imputation of gene expression improves prediction of pharmacogenomic traits for African Americans Assaf Gottlieb|Roxana Daneshjou|Marianne DeGorter|Stephen Montgomery|Russ Altman University of Texas Health Science center in Houston;|Stanford University
http://dx.doi.org/10.1101/115287 2017-03-09 Plant Biology Water and temperature stress define the optimal flowering period for wheat in south-eastern Australia Bonnie M Flohr|James R Hunt|John A Kirkegaard|John R Evans CSIRO;|La Trobe University;|The Australian National University
http://dx.doi.org/10.1101/105684 2017-03-09 Evolutionary Biology CC BY-ND Environmental correlates of internal coloration in anurans vary throughout space and lineages Lilian Franco-Belussi|Diogo Borges Provete|Classius de Oliveira UNESP;|UFSCar
http://dx.doi.org/10.1101/115261 2017-03-09 Bioinformatics Combining Bayesian Approaches and Evolutionary Techniques for the Inference of Breast Cancer Networks Stefano Beretta|Mauro Castelli|Ivo Goncalves|Ivan Merelli|Daniele Ramazzotti DISCo, Universita' degli Studi di Milano Bicocca. 20126 Milano, Italy;|NOVA IMS, Universidade Nova de Lisboa. 1070-312 Lisboa, Portugal;|Ist. di Tecnologie Biomediche, Consiglio Nazionale delle Ricerche, Segrate, Italy;|Department of Pathology, Stanford University, Stanford, USA
http://dx.doi.org/10.1101/115329 2017-03-09 Bioinformatics OncoScore: a novel, Internet-based tool to assess the oncogenic potential of genes Rocco Piazza|Daniele Ramazzotti|Roberta Spinelli|Alessandra Pirola|Luca De Sano|Pierangelo Ferrari|Vera Magistroni|Nicoletta Cordani|Nitesh Sharma|Carlo Gambacorti-Passerini University of Milano-Bicocca, Dept. of Medicine and Surgery, Monza, 20900, Italy;|Stanford University;|GalSeq s.r.l., viale Italia 46, Monza, 20900, Italy;|University of Milano-Bicocca, Dept. of Informatics, 20125, Milano;|University of New Mexico, Department of Pediatrics, Albuquerque
http://dx.doi.org/10.1101/115253 2017-03-09 Neuroscience Beyond Reward Prediction Errors: Human Striatum Updates Rule Values During Learning Ian Ballard|Eric Miller|Steven Piantadosi|Noah Goodman|Samuel McClure Stanford University;|University of Rochester;|Arizona State University
http://dx.doi.org/10.1101/115196 2017-03-09 Genomics DroNc-Seq: Deciphering cell types in human archived brain tissues by massively-parallel single nucleus RNA-seq Naomi Habib|Anindita Basu|Inbal Avraham-Davidi|Tyler Burks|Sourav R Choudhury|Francois Aguet|Ellen Gelfand|Kristin Ardlie|David A Weitz|Orit Rozenblatt-Rosen|Feng Zhang|Aviv Regev Broad Institute of MIT and Harvard;|Harvard University
http://dx.doi.org/10.1101/115139 2017-03-09 Physiology Phosphatidylserine Exposure after Vascular Injury-Platelet or Endothelial Ejaife O Agbani|Jenna Cash|Christopher Williams|Alastair Poole University of Bristol;|The University of Edinburgh
http://dx.doi.org/10.1101/115097 2017-03-09 Neuroscience CC BY Clinically Useful Brain Imaging for Neuropsychiatry: How Can We Get There? Michael P. Milham|Cameron Craddock|Arno Klein Child Mind Institute;|Nathan Kline Institute
http://dx.doi.org/10.1101/115360 2017-03-09 Microbiology CC BY-NC-ND A Comprehensive Assessment of the Genetic Determinants in Salmonella Typhimurium for Resistance to Hydrogen Peroxide Sardar Karash|Rohana Liyanage|Abdullah Qassab|Jackson Lay|Young Min Kwon Cell and Molecular Biology Program, University of Arkansas, Fayetteville;|Department of Chemistry, University of Arkansas, Fayetteville
http://dx.doi.org/10.1101/114926 2017-03-08 Molecular Biology CC BY-NC Histone gene replacement reveals a post-transcriptional role for H3K36 in maintaining metazoan transcriptome fidelity Michael P. Meers|Telmo Henriques|Christopher A. Lavender|Daniel J. McKay|Brian D. Strahl|Robert J. Duronio|Karen Adelman|A. Gregory Matera University of North Carolina;|NIEHS, Research Triangle Park;|NIEHS/NIH
http://dx.doi.org/10.1101/115295 2017-03-08 Scientific Communication and Education CC BY The Effects of Practice-based Training on Graduate Teaching Assistants' Classroom Practices Erin A Becker|Erin J Easlon|Sarah C Potter|Alberto Guzman-Alvarez|Jensen M Spear|Marc T Facciotti|Michele M Igo|Mitchell Singer|Christopher Pagliarulo University of California, Davis
http://dx.doi.org/10.1101/115212 2017-03-08 Physiology CC BY-ND Ribosome biogenesis adaptation and mTORC1 signalling in human skeletal muscle following concurrent training compared with resistance training alone Jackson J Fyfe|David J Bishop|Jonathan D Bartlett|Erik D Hanson|Mitchell J Anderson|Andrew P Garnham|Nigel K Stepto Deakin University;|Victoria University;|University of North Carolina Chapel Hill
http://dx.doi.org/10.1101/115204 2017-03-08 Neuroscience Synaptic and peptidergic connectome of a neurosecretory centre in the annelid brain Elizabeth A Williams|Csaba Veraszto|Sanja Jasek|Markus Conzelmann|Reza Shahidi|Philipp Bauknecht|Gaspar Jekely Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/115683 2017-03-10 CC BY-NC-ND MODELING SIGNALING-DEPENDENT PLURIPOTENT CELL STATES WITH BOOLEAN LOGIC CAN PREDICT CELL FATE TRANSITIONS Ayako Yachie-Kinoshita|Kento Onishi|Joel Ostblom|Eszter Posfai|Janet Rossant|Peter W Zandstra Institute of Biomaterials and Biomedical Engineering, University of Toronto;|Program in Developmental and Stem Cell Biology, Hospital for Sick Children Research Institute
http://dx.doi.org/10.1101/115881 2017-03-10 CC BY-NC Morphological Alternations of Intraepithelial and Stromal Telocytes in Response to Salinity Challenges Soha Soliman|Walaa Emeish South Valley University
http://dx.doi.org/10.1101/115899 2017-03-10 Identification and characterization of m6A circular RNA epitranscriptomes Chan Zhou|Benoit Molinie|Kaveh Daneshvar|Joshua V. Pondick|Jinkai Wang|Nicholas O. Van Wittenberghe|Yi Xing|Cosmas C. Giallourakis|Alan C. Mullen Massachusetts General Hospital, Harvard Medical School;|University of California, Los Angeles
http://dx.doi.org/10.1101/115857 2017-03-10 Asymmetric evolution of the transcription profiles and cis-regulatory sites contributes to the retention of transcription factor duplicates Nicholas L Panchy|Christina B Azodi|Eamon F Winship|Ronan C O'Malley|Shin-Han Shiu Michigan State University;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/115816 2017-03-10 CC BY The Co-regulation Data Harvester for Tetrahymena thermophila: automated high-throughput gene annotation and functional inference in a microbial eukaryote Lev M Tsypin|Aaron P Turkewitz University of Chicago
http://dx.doi.org/10.1101/115808 2017-03-10 CC BY-NC-ND Linking the chemistry and reactivity of dissolved organic matter from low-latitude glaciers and rock glaciers Tim Fegel|Claudia Boot|Jill Baron|Ed Hall Colorado State University;|USGS
http://dx.doi.org/10.1101/115865 2017-03-10 CC BY-NC-ND Uncovering Robust Patterns of MicroRNA Co-Expression across Cancers using Bayesian Relevance Networks Parameswaran Ramachandran|Daniel Sanchez-Taltavull|Theodore J. Perkins Ottawa Hospital Research Institute
http://dx.doi.org/10.1101/115832 2017-03-10 A mechanistic model for the evolution of multicellularity Andre Amado|Carlos Batista|Paulo R. A. Campos Universidade Federal de Pernambuco
http://dx.doi.org/10.1101/115790 2017-03-10 CC BY A homozygous missense mutation in ERAL1, encoding a mitochondrial rRNA chaperone, causes Perrault syndrome Iliana A. Chatzispyrou|Marielle Alders|Sergio Guerrero-Castillo|Ruben Zapata Perez|Martin A. Haagmans|Laurent Mouchiroud|Janet Koster|Rob Ofman|Frank Baas|Hans R. Waterham|Johannes N. Spelbrink|Johan Auwerx|Marcel M. Mannens|Riekelt Houtkooper|Astrid S. Plomp Laboratory Genetic Metabolic Diseases, Academic Medical Center, University of Amsterdam;|Department of Clinical Genetics, Academic Medical Center, University of Amsterdam;|Department of Pediatrics, Radboud Center for Mitochondrial Medicine, Radboud University Medical Ctr;|Laboratory for Integrative and Systems Physiology, Ecole Polytechnique Federale de Lausanne;|Academic Medical Center
http://dx.doi.org/10.1101/115824 2017-03-10 CC BY-NC-ND Whole genome sequences of the raspberry and strawberry pathogens Phytophthora rubi and P. fragariae Javier Tabima|Brent Kronmiller|Caroline Press|Brett Tyler|Inga Zasada|Niklaus Grunwald Oregon State University;|USDA ARS
http://dx.doi.org/10.1101/115717 2017-03-10 Bioinformatics CC BY-ND The Sentieon Genomics Tools - A fast and accurate solution to variant calling from next-generation sequence data Donald N Freed|Rafael Aldana|Jessica A Weber|Jeremy S Edwards Sentieon Inc.;|University of New Mexico
http://dx.doi.org/10.1101/115709 2017-03-10 Microbiology CC BY-NC-ND Gut microbiota analysis in rats with methamphetamine-induced conditioned place preference Tingting Ning|Xiaokang Gong|Lingling Xie|Baomiao Ma Jianghan University;|Wuhan University
http://dx.doi.org/10.1101/115675 2017-03-10 Neuroscience Compensating for intersegmental dynamics across the shoulder, elbow and wrist joints during feedforward and feedback control Rodrigo S. Maeda|Tyler Cluff|Paul L. Gribble|J. Andrew Pruszynski Western University;|University of Calgary
http://dx.doi.org/10.1101/115659 2017-03-10 Neuroscience Quantitative evaluation of two-photon calcium imaging modalities for high-speed volumetric calcium imaging in scattering brain tissue Siegfried Weisenburger|Robert Prevedel|Alipasha Vaziri Rockefeller University;|IMP/EMBL
http://dx.doi.org/10.1101/115774 2017-03-10 Evolutionary Biology CC BY-NC Site and gene-wise likelihoods unmask influential outliers in phylogenomic analyses Joseph F. Walker|Joseph W. Brown|Stephen A. Smith University of Michigan
http://dx.doi.org/10.1101/115758 2017-03-10 Neuroscience CC BY-NC-ND Neurons define non-myelinated axon segments by the regulation of galectin-4-containing axon membrane domains Natalia Diez-Revuelta|Alonso M Higuero|Silvia Velasco|Maria Penas-de-la-Iglesia|Hans-Joachim Gabius|Jose Abad-Rodriguez Membrane Biology and Axonal Repair Lab, Hospital Nacional de Paraplejicos (SESCAM);|Institut fur Physiologische Chemie, Tierarztliche Fakultat, Ludwig-Maximilians-Universitat
http://dx.doi.org/10.1101/115741 2017-03-10 Evolutionary Biology CC BY-NC Widespread paleopolyploidy, gene tree conflict, and recalcitrant relationships among the carnivorous Caryophyllales Joseph F. Walker|Ya Yang|Michael J. Moore|Jessica Mikenas|Alfonso Timoneda|Samuel F. Brockington|Stephen A. Smith University of Michigan;|University of Minnesota;|Oberlin College;|University of Cambridge
http://dx.doi.org/10.1101/115618 2017-03-10 Synthetic Biology CC BY Daisy quorum drives for the genetic restoration of wild populations John Min|Charleston Noble|Devora Najjar|Kevin Esvelt Massachusetts Institute of Technology;|Harvard University
http://dx.doi.org/10.1101/115667 2017-03-10 Plant Biology CC BY-NC Synthetic analysis of natural variants yields insights into the evolution and function of auxin signaling F-box proteins in Arabidopsis thaliana R. Clay Wright|Mollye L. Zahler|Stacey R. Gerben|Jennifer L. Nemhauser University of Washington, United States
http://dx.doi.org/10.1101/115600 2017-03-10 Genetics Psychiatric Genomics: An Update and an Agenda Patrick F Sullivan|Arpana Agrawal|Cynthia Bulik|Ole A. Andreassen|Anders Borglum|Gerome Breen|Sven Cichon|Howard Edenberg|Stephen V Faraone|Joel Gelernter|Carol A Mathews|Caroline M Nievergelt|Jordan Smoller|Michael O'Donovan University of North Carolina;|WUSTL;|UNC;|U Oslo;|Aarhus University;|Kings College London;|University of Basel;|Indiana University;|SUNY;|Yale University;|University of Florida;|UCSD;|Harvard University;|Cardiff University
http://dx.doi.org/10.1101/115691 2017-03-10 Epidemiology Do early life non-cognitive skills matter? A systematic review and meta-analysis of early life effects on academic achievement, psychosocial, language and cognitive, and health outcomes Lisa Smithers|Alyssa Sawyer|Catherine Chittleborough|Neil Davies|George Davey Smith|John Lynch University of Adelaide;|University of Bristol
http://dx.doi.org/10.1101/115279 2017-03-10 Epidemiology CC BY-ND The Case for Pyriproxyfen as a Potential Cause for Microcephaly; From Biology to Epidemiology Yaneer Bar-Yam|H. Frederik Nijhout|Raphael Parens|Felipe Costa|Alfredo J. Morales New England Complex Systems Institute;|Duke University, Department of Biology
http://dx.doi.org/10.1101/100164 2017-03-10 Neuroscience CC BY-NC-ND Network component analysis reveals developmental trajectories of structural connectivity and specific alterations in autism spectrum disorder Gareth Ball|Richard Beare|Marc Seal Developmental Imaging, Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/115485 2017-03-10 Neuroscience CC BY Dynamical networks: finding, measuring, and tracking neural population activity using network theory Mark D Humphries University of Manchester
http://dx.doi.org/10.1101/115972 2017-03-10 Animal Behavior and Cognition CaMK (CMK-1) and O-GlcNAc transferase (OGT-1) modulate mechanosensory responding and habituation in an interstimulus interval-dependent manner in Caenorhabditis elegans Tiffany A Timbers|Evan L Ardiel|Troy A McDiarmid|Kirsten Lee|Javad Safaei|Steven L Pelech|Catharine H Rankin University of British Columbia, Canada
http://dx.doi.org/10.1101/115931 2017-03-10 Evolutionary Biology CC BY Evolution of age-specific decline in stress phenotypes is driven by both antagonistic pleiotropy and mutation accumulation Elizabeth R Everman|Theodore J Morgan Kansas State University
http://dx.doi.org/10.1101/115956 2017-03-10 Bioinformatics CC BY DEVELOPING GENE-SPECIFIC META-PREDICTOR OF VARIANT PATHOGENICITY Anna Rychkova|MyMy C Buu|Curt Scharfe|Martina I Lefterova|Justin I Odegaard|Iris Schrijver|Carlos Milla|Carlos D Bustamante Department of Genetics, Stanford University School of Medicine, Stanford, CA 94305, USA;|Department of Pediatrics, Stanford University School of Medicine, Stanford, CA 94305, USA;|Department of Genetics, Yale University School of Medicine, New Haven, CT 06519, USA;|Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA, Personalis;|Department of Pathology, Stanford University School of Medicine, Stanford, CA 94305, USA;|Department of Pediatrics, Stanford University School of Medicine, Stanford, CA 94305, USA, Departmen
http://dx.doi.org/10.1101/112037 2017-03-10 Neuroscience CC BY-NC-ND The most informative neural code accounts for population heterogeneity Elizabeth Zavitz|Hsin-Hao Yu|Marcello G.P. Rosa|Nicholas S.C. Price Monash University
http://dx.doi.org/10.1101/115907 2017-03-10 Neuroscience CC BY-NC-ND Presynaptic LRP4 Promotes Synapse Number and Function of Excitatory CNS Neurons Timothy J Mosca|David J. Luginbuhl|Irving E. Wang|Liqun Luo Thomas Jefferson University;|Stanford University
http://dx.doi.org/10.1101/115733 2017-03-10 Genomics CC BY-NC-ND High fidelity hypothermic preservation of primary tissues in organ transplant preservative for single cell transcriptome analysis Wanxin Wang|Lolita Penland|Ozgun Gokce|Derek Croote|Stephen R. Quake Stanford University
http://dx.doi.org/10.1101/116046 2017-03-11 CC BY-NC-ND Classification of RNA-Seq Data via Gaussian Copulas Qingyang Zhang University of Arkansas
http://dx.doi.org/10.1101/116004 2017-03-11 CC BY-ND Preponderance of Enterovirus Species C in RD-L20B Cell Culture Negative Stool Samples from Children Diagnosed with Acute Flaccid Paralysis in Nigeria. Johnson Adekunle Adeniji|Arthur Obinna Oragwa|Uwem Etop George|Ukeme Ibanga Ibok|Temitope Oluwasegun Cephas Faleye|Olubusuyi Moses Adewumi University of Ibadan;|University of Jos;|Ekiti State University
http://dx.doi.org/10.1101/116038 2017-03-11 Structural basis for EarP-mediated arginine glycosylation of translation elongation factor EF-P Ralph Krafczyk|Jakub Macosek|Daniel Gast|Swetlana Wunder|Pravin Kumar Ankush Jagtap|Prithiba Mitra|Amit Kumar Jha|Juergen Rohr|Anja Hoffmann-Roeder|Kirsten Jung|Janosch Hennig|Juergen Lassak LMU Munich / Dept. of Biology I;|SCB Unit / EMBL Heidelberg;|LMU Munich / Dept. of Chemistry;|University of Kentucky
http://dx.doi.org/10.1101/116061 2017-03-11 CC BY-NC-ND Pathway-Level Information ExtractoR (PLIER): a generative model for gene expression data Weiguang Mao|Maria Chikina University of Pittsburgh
http://dx.doi.org/10.1101/116053 2017-03-11 CC BY-NC-ND Quantitative PCR assays for detection of five Alaskan fish species: Lota lota, Salvelinus alpinus, Salvelinus malma, Thymallus arcticus, and Cottus cognatus from environmental DNA Torrey W Rodgers|John R Olson|Stephen L Klobucar|Karen E Mock Utah State Universtiy;|Desert Research Institute;|Utah State University
http://dx.doi.org/10.1101/115998 2017-03-11 Genetics Common Variant Associations with Fragile X Syndrome James Crowley|Jin Szatkiewicz|Anna Kahler|Paola Giusti-Rodriguez|NaEshia Ancalade|Jessica Booker|Jennifer Carr|Greg Crawford|Molly Losh|Craig Stockmeier|Annette Taylor|Joseph Piven|Patrick F Sullivan UNC;|KI;|Duke University;|Northwestern University;|University of Mississippi Medical Center;|Kimball Genetics;|University of North Carolina
http://dx.doi.org/10.1101/115980 2017-03-11 Molecular Biology CC BY-NC-ND Discovering the Interactions between Circular RNAs and RNA-binding Proteins from CLIP-seq Data using circScan Bin Li|Xiao-Qin Zhang|Shu-Rong Liu|Shun Liu|Wen-Ju Sun|Qiao Lin|Yu-Xia Luo|Ke-Ren Zhou|Chen-Min Zhang|Ye-Ya Tan|Jian-Hua Yang|Liang-Hu Qu Sun Yat-sen University;|University of Hong Kong
http://dx.doi.org/10.1101/116012 2017-03-11 Plant Biology CC BY Gene expression polymorphism underpins evasion of host immunity in an asexual lineage of the Irish potato famine pathogen Marina Pais|Kentaro Yoshida|Artemis Giannakopoulou|Mathieu A. Pel|Liliana M. Cano|Ricardo F. Oliva|Kamil Witek|Hannele Lindqvist-Kreuze|Vivianne G.A.A. Vleeshouwers|Sophien Kamoun The Sainsbury Laboratory;|The Sainsbury Laboratory and Kobe University;|Wageningen University;|The Sainsbury Laboratory and University of Florida;|The Sainsbury Laboratory and International Rice Research Institute;|International Potato Center
http://dx.doi.org/10.1101/115923 2017-03-11 Cancer Biology CC BY Temporal and Clonal Progression in a Pediatric Ependymoma Patient Through Multiple Treatments Christopher A Miller|Sonika Dahiya|Tiandao Li|Robert Fulton|Matthew D Smyth|Gavin P Dunn|Joshua B Rubin|Elaine R Mardis Washington University in St Louis;|Washington University School of Medicine;|Institute for Genomic Medicine, Nationwide Children's Hospital
http://dx.doi.org/10.1101/115071 2017-03-11 Plant Biology Decoys reveal the genetic and biochemical roles of redundant plant E3 ubiquitin ligases Chin-Mei Lee|Ann Feke|Christopher Adamchek|Kristofor Webb|Jose Pruneda-Paz|Eric J Bennett|Steve A Kay|Joshua M Gendron Yale University;|University of California, San Diego;|University of Southern California
http://dx.doi.org/10.1101/115915 2017-03-11 Genetics CC BY-NC-ND Multivariate Genome-Wide and Integrated Transcriptome and Epigenome-Wide Analyses of the Well-being Spectrum. Bart ML Baselmans|Rick Jansen|Jenny van Dongen|Yanchun Bao|Melissa Smart|Meena Kumari|Abdel Abdellaoui|Margot P van de Weijer|Gonneke Willemsen|Jouke J Hottenga|Eco JC de Geus|Dorret I Boomsma|Michel G Nivard|Meike Bartels Vrije Universiteit Amsterdam;|VU Medical Center;|Vrije Universiteit;|University of Essex
http://dx.doi.org/10.1101/115949 2017-03-11 Neuroscience CC BY-NC Combining theory, model and experiment to understand how theta rhythms are generated in the hippocampus Katie Ferguson|Alexandra Chatzikalymniou|Frances Skinner Yale University;|Krembil Research Institute
http://dx.doi.org/10.1101/116152 2017-03-12 LARGE-SCALE GENOMIC REORGANIZATIONS OF TOPOLOGICAL DOMAINS (TADs) AT THE HoxD LOCUS Pierre J Fabre|Marion Leleu|Benjamin H Mormann|Lucille Delisle|Daan Noordermeer|Leonardo Beccari|Denis Duboule Ecole Polytechnique Federale, Lausanne (EPFL);|CNRS, University Paris-Saclay;|University of Geneva
http://dx.doi.org/10.1101/116095 2017-03-12 Biochemistry CC BY-ND Long-term dysbiosis promotes insulin resistance during obesity despite rapid diet-induced changes in the gut microbiome of mice Kevin Patrick Foley|Emmanuel Denou|Britanny M Duggan|Rebecca Chan|Jennifer C Stearns|Jonathan D Schertzer McMaster University
http://dx.doi.org/10.1101/116145 2017-03-12 Immunology T-bet+ CD11c+ B Cells Are Critical For Anti-Chromatin IgG Production In The Development Of Lupus Ya Liu|Shiyu Zhou|Jie Qian|Yan Wang|Xiang Yu|Dai Dai|Min Dai|Lingling Wu|Zhuojun Liao|Zhixin Xue|Jiehua Wang|Guojun Hou|Jianyang Ma|John B. Harley|Yuanjia Tang|Nan Shen Shanghai Institute of Rheumatology, Renji Hospital, School of Med., Shanghai JiaoTong Univ.;|Institute of Health Sciences, Shanghai Institutes for Biological Sciences;|Renji Hospital, School of Medicine, Shanghai Jiao Tong University;|Cincinnati Children Hospital Medical Center, University of Cincinnati College of Medicine;|Renji Hospital, School of Medicine, Shanghai Jiao Tong Unive
http://dx.doi.org/10.1101/116020 2017-03-12 Evolutionary Biology Gut microbiota of the pine weevil degrades conifer diterpenes and increases insect fitness Aileen Berasategui|Hassan Salem|Christian Paetz|Maricel Santoro|Jonathan Gershenzon|Martin Kaltenpoth|Axel Schmidt Max Planck Institute for Chemical Ecology;|Emory University;|Johannes Gutenberg University
http://dx.doi.org/10.1101/116087 2017-03-12 Evolutionary Biology CC BY-ND Functional Characterization of the Morpheus Gene Family Cemalettin Bekpen|Carl Baker|Michael D. Hebert|H. Bahar Sahin|Matthew E. Johnson|Arzu Celik|James C. Mullikin|NISC Comparative Sequencing Program|Evan E. Eichler Max-Planck Institute for Evolutionary Biology;|Department of Genome Sciences, University of Washington School of Medicine,;|Department of Biochemistry, The University of Mississippi Medical Center;|Department of Molecular Biology and Genetics, Bogazici University;|Division of Human Genetics, The Children's Hospital of Philadelphia;|NIH Intramural Sequencing Center, National Human Genome Research Institute,;|NIH Intramural Sequencing Center, National Human Genome Research Institute
http://dx.doi.org/10.1101/115964 2017-03-12 Genetics CC BY-NC-ND New mutations, old statistical challenges Jeffrey C Barrett|Joseph Buxbaum|David Cutler|Mark Daly|Bernie Devlin|Jacob Gratten|Matthew E. Hurles|Jack A Kosmicki|Eric S Lander|Daniel G MacArthur|Benjamin M Neale|Kathryn Roeder|Peter M Visscher|Naomi R Wray Wellcome Trust Sanger Institute;|Icahn School of Medicine at Mount Sinai;|Emory University School of Medicine;|Broad Institute;|University of Pittsburgh School of Medicine;|University of Queensland;|Carnegie Mellon University;|The University of Queensland
http://dx.doi.org/10.1101/115550 2017-03-12 Genomics CC BY A simulation study investigating power estimates in Phenome-Wide Association Studies Anurag Verma|Yuki Bradford|Scott Dudek|Shefali S Verma|Sarah A Pendergrass|Marylyn D Ritchie Geisinger Health System
http://dx.doi.org/10.1101/116129 2017-03-12 Neuroscience CC BY Intrinsic Hippocampal-Caudate Interaction Correlates with Human Navigation Xiang-Zhen Kong|Yi Pu|Xu Wang|Shan Xu|Xin Hao|Zonglei Zhen|Jia Liu State Key Laboratory of Cognitive Neuroscience and Learning, Beijing Normal University;|Department of Cognitive Science, Macquarie University;|School of Psychology, Beijing Normal University
http://dx.doi.org/10.1101/116111 2017-03-12 Neuroscience CC BY-NC Imaging Object-Scene Integration in Visible and Invisible Natural Scenes Nathan Faivre|Julien Dubois|Naama Schwartz|Liad Mudrik CNRS;|Cedars-Sinai Medical Center;|Tel Aviv University
http://dx.doi.org/10.1101/116277 2017-03-13 Cell Biology CC BY-NC Compositionally distinct nuclear pore complexes of functionally distinct dimorphic nuclei in ciliate Tetrahymena Masaaki Iwamoto|Hiroko Osakada|Chie Mori|Yasuhiro Fukuda|Koji Nagao|Chikashi Obuse|Yasushi Hiraoka|Tokuko Haraguchi Advanced ICT Res. Cnt., NICT;|Tohoku University;|Hokkaido University;|Osaka University
http://dx.doi.org/10.1101/116244 2017-03-13 Neuroscience 3D Mapping Reveals Network-specific Amyloid Progression and Subcortical Susceptibility. Rebecca G Canter|Heejin Choi|Jun Wang|Lauren Ashley Watson|Christine G Yao|Fatema Abdurrob|Stephanie M Bousleiman|Ivana Delalle|Kwanghun Chung|Li-Huei Tsai Massachusetts Institute of Technology;|Boston University School of Medicine
http://dx.doi.org/10.1101/116178 2017-03-13 Neuroscience Feeding Schedule And Proteolysis Regulate Autophagic Clearance Of Mutant Huntingtin Dagmar Elisabeth Ehrnhoefer|Dale DO Martin|Xiaofan Qiu|Safia Ladha|Nicholas S Caron|Niels H Skotte|Yen TN Nguyen|Sabine Engemann|Sonia Franciosi|Michael R Hayden BioMed X Innovation Center;|CMMT, UBC
http://dx.doi.org/10.1101/100677 2017-03-13 Biophysics CC BY Sinusoidal Voltage Protocols For Rapid Characterization Of Ion Channel Kinetics Kylie A Beattie|Adam P Hill|Remi Bardenet|Yi Cui|Jamie I Vandenberg|David J Gavaghan|Teun P de Boer|Gary R Mirams Food & Drug Administration;|Victor Chang Cardiac Research Institute;|University of Lille;|GlaxoSmithKline;|University of Oxford;|University Medical Center Utrecht;|University of Nottingham
http://dx.doi.org/10.1101/116186 2017-03-13 Biophysics CC BY-NC-ND Stochastic Protein Labeling Enables Long-term Single Molecule Observation In Vivo Hui Liu|Peng Dong|Maria S. Ioannou|Li Li|Jamien Shea|Amalia Pasolli|Jonathan Grimm|Pat Rivlin|Luke D. Lavis|Minoru Koyama|Zhe Liu Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/116319 2017-03-13 Microbiology CC BY An Efficient Moments-Based Inference Method for Within-Host Bacterial Infection Dynamics David Price|Alexandre Breuze|Richard Dybowski|Olivier Restif University of Cambridge;|ENSTA-ParisTech
http://dx.doi.org/10.1101/116418 2017-03-13 CC BY Automated assembly of a reference taxonomy for phylogenetic data synthesis Jonathan Rees|Karen Ann Cranston Duke University
http://dx.doi.org/10.1101/113266 2017-03-13 CC BY Distinct Blood DNA Methylation Profiles In Subtypes Of Orofacial Cleft Gemma C Sharp|Karen Ho|Amy Davies|Evie Stergiakouli|Kerry Humphries|Wendy McArdle|Jonathan Sandy|George Davey Smith|Sarah J Lewis|Caroline L Relton University of Bristol
http://dx.doi.org/10.1101/116491 2017-03-13 Deletion of the short N-terminal extension in OCP reveals the main site for the FRP binding Nikolai N. Sluchanko|Yury B. Slonimskiy|Marcus Moldenhauer|Thomas Friedrich|Eugene G. Maksimov A.N.Bach Institute of Biochemistry, FRC of Biotechnology of RAS;|Lomonosov Moscow State University, Department of Biochemistry, Faculty of Biology;|Technical University of Berlin, Institute of Chemistry PC 14;|Technical University of Berlin;|Lomonosov Moscow State University
http://dx.doi.org/10.1101/116327 2017-03-13 Epidemiology CC BY-NC-ND Heterosubtypic Cross-Reactivity Of HA1 Antibodies To Influenza A, With Emphasis On Nonhuman Subtypes (H5N1, H7N7, H9N2) Dennis te Beest|Erwin de Bruin|Sandra Imholz|Marion Koopmans|Michiel van Boven VUMC;|Erasmus Medical Center;|National Institute for Public Health and the Environment
http://dx.doi.org/10.1101/116376 2017-03-13 Genetics CC BY-NC-ND Genetic regulatory effects modified by immune activation contribute to autoimmune disease associations Sarah Kim-Hellmuth|Matthias Bechheim|Benno Puetz|Pejman Mohammadi|Yohann Nedelec|Nicholas Giangreco|Jessica Becker|Vera Kaiser|Nadine Fricker|Esther Beier|Peter Boor|Stephane Castel|Markus M. Noethen|Luis B. Barreiro|Joseph K. Pickrell|Bertram Mueller-Myhsok|Tuuli Lappalainen|Johannes Schumacher|Veit Hornung New York Genome Center, and Columbia University;|University of Bonn;|Max Planck Institute of Psychiatry;|CHU Sainte-Justine Research Center;|Columbia University;|University Clinic of RWTH Aachen;|New York Genome Center;|hornung@genzentrum.lmu.de
http://dx.doi.org/10.1101/116426 2017-03-13 Biophysics CC BY-NC-ND Calcium oscillations in wounded fibroblast monolayers are spatially regulated through substrate mechanics Josephine Lembong|Benedikt Sabass|Howard A. Stone Princeton University;|Forschungszentrum Jülich
http://dx.doi.org/10.1101/116194 2017-03-13 Microbiology CC BY-NC Inferring Within-Host Bottleneck Size: A Bayesian Approach Richard Dybowski|Olivier Restif|David J Price|Piero Mastroeni University of Cambridge
http://dx.doi.org/10.1101/116392 2017-03-13 Neuroscience CC BY-NC-ND Neural Correlates of Multisensory Reliability and Perceptual Weights Emerge at Early Latencies during Audio-visual Integration Stephanie C Boyle|Stephanie J Kayser|Christoph Kayser University of Glasgow;|School of Life Sciences, Institute of Neuroscience & Psychology, University of Glasgow;|Institute of Neuroscience & Psychology, University of Glasgow
http://dx.doi.org/10.1101/116350 2017-03-13 Neuroscience CC BY Deep brain fluorescence imaging with minimally invasive ultra-thin optical fibers Shay Ohayon|Antonio Miguel Caravaca Aguirre|Rafael Piestun|Jim J. DiCarlo MIT;|UC Boulder
http://dx.doi.org/10.1101/116269 2017-03-13 Biochemistry Pyroxasulfone Resistance in Lolium rigidum Conferred by Enhanced Metabolic Capacity Roberto Busi|Aimone Porri|Todd Gaines|Stephen Powles The University of Western Australia;|University of Western Australia;|Colorado State University
http://dx.doi.org/10.1101/116384 2017-03-13 Cancer Biology CC BY Pediatric Sarcoma Data Forms a Unique Cluster Measured via the Earth Mover's Distance Yongxin Chen|Filemon Dela Cruz|Romeil Sandhu|Andrew Kung|Prabhjot Mundi|Joseph Deasy|Allen Tannenbaum Memorial Sloan Kettering Cancer Center;|Stony Brook University;|Columbia University
http://dx.doi.org/10.1101/112896 2017-03-13 Genetics CC BY-ND De novo mutations in regulatory elements cause neurodevelopmental disorders Patrick J Short|Jeremy F McRae|Giuseppe Gallone|Alejandro Sifrim|Hyejung Won|Daniel H Geschwind|Caroline F Wright|Helen V Firth|David R FitzPatrick|Jeffrey C Barrett|Matthew E Hurles Wellcome Trust Sanger Institute;|Center for Autism Research & Treatment, Semel Institute, David Geffen School of Medicine, UCLA;|East Anglian Medical Genetics Service; Wellcome Trust Sanger Institute;|MRC Human Genetics Unit, MRC IGMM, University of Edinburgh; Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/116665 2017-03-14 Immunology CC BY The Protective Association Of Endogenous Immunoglobulins Against Sepsis Mortality Is Restricted To Patients With Moderate Organ Failure. Ignacio Martin-Loeches|Arturo Muriel-Bombin|Ricard Ferrer|Antonio Artigas|Jordi Sole-Violan|Leonardo Lorente|David Andaluz-Ojeda|Adriele Prina-Mello|Ruben Herran-Monge|Borja Suberviola|Ana Rodriguez-Fernandez|Pedro Merino|Ana M Loza|Pablo Garcia-Olivares|Eduardo Anton|Eduardo Tamayo|Wysali Trapiello|Jesus Blanco|Jesus F Bermejo-Martin St. James's University Hospitals Dublin;|Hospital Universitario Rio Hortega, Valladolid, Spain;|Vall d'Hebron University Hospital, Barcelona, Spain;|Corporacion Sanitaria Universitaria Parc Tauli, Sabadell, Spain;|Hospital Dr Negrin, Las Palmas de Gran Canaria, Spain;|Hospital Universitario de Canarias, Sta Cruz de Tenerife, Spain;|Hospital Clinico Universitario de Valladolid, Spain;|Trinity Translational Medicine Institute, Dublin, Ireland;|Hospital Universitario Marques de Valdecilla, Santander, Spain;|Hospital Nuestra Senora de Valme, Sevilla, Spain;|Hospital General Universitario Gregorio Maranon, Madrid, Spain;|Hospital de Manacor, Manacor, Spain;|Hospital Clinico Universitario de Valladolid, Valladolid, Spain;|Hospital Clinico Universitario de Valladolid / IECSCYL
http://dx.doi.org/10.1101/116517 2017-03-14 Plant Biology The Molecular Link Between Auxin And ROS-Mediated Polar Growth Silvina Mangano|Silvina Paola Denita-Juarez|Hee-Seung Choi|Eliana Marzol|Youra Hwang|Philippe Ranocha|Silvia M Velasquez|Jorge P Muschietti|Christophe Dunand|Hyung-Taeg Cho|Jose M Estevez Fundacion Instituto Leloir and IIBBA-CONICET. Buenos Aires-Argentina;|Department of Biological Sciences, Seoul National University;|Universite de Toulouse;|INGEBI
http://dx.doi.org/10.1101/116467 2017-03-14 Neuroscience Exact firing time statistics of neurons driven by discrete inhibitory noise Simona Olmi|David Angulo-Garcia|Alberto Imparato|Alessandro Torcini WIAS Institute;|Aix Marseille Universite;|University of Aarhus;|Aix-Marseille Universite
http://dx.doi.org/10.1101/116459 2017-03-14 Genetics CC BY Management of Mendelian Traits in Breeding Programs by Gene Editing: A Simulation Study John B. Cole Animal Genomics and Improvement Laboratory, ARS, USDA
http://dx.doi.org/10.1101/116285 2017-03-14 Plant Biology CC BY-NC Live Tracking Of Moving Samples In Confocal Microscopy For Vertically Grown Plant Roots Daniel von Wangenheim|Robert Hauschild|Matyas Fendrych|Vanessa Barone|Jiri Friml Institute of Science and Technology Austria
http://dx.doi.org/10.1101/116681 2017-03-14 Genomics CC BY Severe infections emerge from the microbiome by adaptive evolution Bernadette C Young|Chieh-Hsi Wu|N Claire Gordon|Kevin Cole|James R Price|Elian Liu|Anna Sheppard|Sanuki Perera|Jane Charlesworth|Tanya Golubchik|Zamin Iqbal|Rory Bowden|Ruth Massey|John Paul|Derrick W Crook|Timothy EA Peto|A Sarah Walker|Martin Llewelyn|David H Wyllie|Daniel Wilson University of Oxford;|Royal Sussex County Hospital;|Brighton and Sussex Medical School;|Oxford University Hospitals NHS Foundation Trust;|University of Bath;|Public Health England
http://dx.doi.org/10.1101/116590 2017-03-14 Developmental Biology CC BY-NC Dynamic response to initial stage blindness in visual system development Erping Long|Xiayin Zhang|Zhenzhen Liu|Xiaohang Wu|Xuhua Tan|Duoru Lin|Qianzhong Cao|Jingjing Chen|Zhuoling Lin|Dongni Wang|Xiaoyan Li|Jing Li|Jinghui Wang|Wangting Li|Haotian Lin|Weirong Chen|Yizhi Liu Zhongshan Ophthalmic Center，Sun Yat-Sen University
http://dx.doi.org/10.1101/116509 2017-03-14 Evolutionary Biology CC BY-NC-ND Why concatenation fails in the anomaly zone Fabio K Mendes|Matthew W Hahn Indiana University
http://dx.doi.org/10.1101/116434 2017-03-14 Genetics Maternal and fetal genetic contribution to gestational weight gain Nicole Warrington|Rebecca Richmond|Bjarke Fenstra|Ronny Myhre|Romy Gaillard|Lavinia Paternoster|Carol Wang|Robert Beaumont|Shikta Das|Mario Murcia|Sheila Barton|Ana Espinosa|Elizabeth Thiering|Mustafa Atalay|Niina Pitkinen|Ioanna Ntalla|Anna Jonsson|Rachel Freathy|Ville Karhunen|Carla Tiesler|Catherine Allard|Andrew Crawford|Sue Ring|Mads Melbye|Per Magnus|Fernando Rivadeneira|Line Skott|Torben Hansen|Julie Marsh|Monica Guxens|John Holloway|Harald Grallert|Vincent Jaddoe|William Lowe|Theano Roumeliotaki|Andrew Hattersley|Virpi Lindi|Katja Pahkala|Kalliope Panoutsopoulou|Marie Standl|Claudia Flexeder|Luigi Bouchard|Ellen Aagard Nohr|Loreto Santa Marina|Manolis Kogevinas|Harri Niinikoski|George Dedoussis|Joachim Heinrich|Rebecca Reynolds|Timo Lakka|Eleftheria Zeggini|Olli Raitakari|Leda Chatzi|Hazel Inskip|Mariona Bustamante Pineda|Marie France Hivert|Marjo Riitta Jarvelin|Thorkild Sorensen|Craig Pennell|Janine Felix|Bo Jacobsson|Frank Geller|David Evans|Deborah A Lawlor University of Queensland;|University of Bristol;|Statens Serum Institute;|Norwegian Institute of Public Health;|Erasmus Medical Centre;|University of Western Australia;|University of Exeter;|Imperial College London;|FISABIO Universitat Jaume I. Universitat de Valencia;|University of Southampton;|CREAL Barcelona;|German Research Centre for Environmental Health;|University of Eastern Finland;|University of Turku;|Queen Mary University of London;|University of Copenhagen;|University of Oulu;|Universitaire de Sherbrooke;|University of Edinburgh;|German Centre for Research in Environmental Health;|North Western University;|University of Crete;|Sanger Institute;|Universite de Sherbrooke;|University of Southern Denmark;|Spanish Consortium for Research on Epidemiology and Public Health (CIBERESP);|Turko University Hospital;|Harokopio University of Athens;|Koupio University;|Sanger Institure;|Harvard University;|Gothenburg University
http://dx.doi.org/10.1101/116368 2017-03-14 Biochemistry Solution Structure Of Human STARD1 Protein And Its Interaction With Fluorescently-Labeled Cholesterol Analogues With Different Position Of The NBD-Group Kristina Tugaeva|Yaroslav Faletrov|Elvin Allakhverdiev|Eugene Maksimov|Nikolai Sluchanko A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the RAS;|Research Institute for Physical Chemical Problems, Belarusian State University, Minsk, Belarus;|Faculty of Fundamental Medicine, M.V. Lomonosov Moscow State University, Moscow, Russia;|Dept. of Biophysics, School of Biology, M.V. Lomonosov Moscow State University;|A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of RAS
http://dx.doi.org/10.1101/116400 2017-03-14 Neuroscience CC BY The temporal paradox of Hebbian learning and homeostatic plasticity Friedemann Zenke|Wulfram Gerstner|Surya Ganguli Stanford University;|Ecole polytechnique federale de Lausanne EPFL
http://dx.doi.org/10.1101/116632 2017-03-14 Evolutionary Biology CC BY-NC-ND Random Drift With A Determined Outcome: A Parsimonious Null Model Of Neanderthal Replacement By Modern Humans Via Neutral Species Drift Oren Kolodny|Marcus W Feldman Stanford University
http://dx.doi.org/10.1101/116558 2017-03-14 Biochemistry CC BY Gene-centric constraint of metabolic models Nick Fyson|Min Kyung Kim|Desmond Lun|Caroline Colijn Imperial College London;|Rutgers University
http://dx.doi.org/10.1101/116475 2017-03-14 Microbiology CC BY-NC-ND Tracking electron uptake from a cathode into Shewanella cells: implications for generating maintenance energy from solid substrates. Annette R Rowe|Pournami Rajeev|Abhiney Jain|Sahand Pirbadian|Akihiro Okamotao|Jeffrey A Gralnick|Mohamed Y El-Naggar|Kenneth Nealson University of Southern California;|University of Minnesota;|National Institute for Materials Science, Japan
http://dx.doi.org/10.1101/116566 2017-03-13 Bioinformatics CC BY-NC Scalable Multi-Sample Single-Cell Data Analysis by Partition-Assisted Clustering and Multiple Alignments of Networks Ye Henry Li|Dangna Li|Nikolay Samusik|Xiaowei Wang|Leying Guan|Garry P Nolan|Wing H Wong Stanford University
http://dx.doi.org/10.1101/116574 2017-03-13 Microbiology CC BY-NC Cross reactivity of antibodies against microbial proteins to human tissues as basis of Crohns disease and other autoimmune diseases Peilin Zhang|Lawrence M Minardi|J. Todd Kuenstner|Stephen M Zekan|Feng Zhu|Yinling Hu|Rusty Kruzelock PZM Diagnostics, LLC;|Center for Cancer Research, National Cancer Institute, Frederick, MD 21702;|West Virginia Regional Technology Park, South Charleston, WV 25303
http://dx.doi.org/10.1101/116582 2017-03-13 Genetics CC BY-NC-ND Private haplotype barcoding facilitates inexpensive high-resolution genotyping of multiparent crosses Daniel A Skelly|John H McCusker|Eric A Stone|Paul M Magwene The Jackson Laboratory, United States;|Duke University, United States;|Australian National University, Australia
http://dx.doi.org/10.1101/116533 2017-03-13 Bioinformatics CC BY MRCZ - A proposed fast compressed MRC file format and direct detector normalization strategies Robert A McLeod|Ricardo Diogo Righetto|Andy Stewart|Henning Stahlberg University of Basel;|University of Limerick
http://dx.doi.org/10.1101/116756 2017-03-14 CC BY Sustaining Scholarly Infrastructures through Collective Action: The lessons that Olson can teach us Cameron Neylon Centre for Culture and Technology, Curtin University
http://dx.doi.org/10.1101/116202 2017-03-14 CC BY-NC Effect size and statistical power in the rodent fear conditioning literature - a systematic review Clarissa F. D. Carneiro|Thiago C. Moulin|Malcolm R. Macleod|Olavo B. Amaral Universidade Federal do Rio de Janeiro;|University of Edinburgh
http://dx.doi.org/10.1101/116806 2017-03-14 CC BY-NC-ND The physics of osmotic pressure Michael Bowler University of Oxford
http://dx.doi.org/10.1101/115840 2017-03-14 Stacks off tracks: A role for the golgin AtCASP in plant endoplasmic reticulum – Golgi apparatus tethering Anne Osterrieder|Chris Hawes|Imogen A Sparkes|Stanley Botchway|Andy Ward|Tijs Ketelaar|Norbert De Ruijter Oxford Brookes University;|University of Exeter;|STFC;|Wageningen University
http://dx.doi.org/10.1101/114124 2017-03-14 CC BY-NC-ND Failure to Replicate a Genetic Signal for Sex Bias in the Steppe Migration into Central Europe Iosif Lazaridis|David Reich Department of Genetics, Harvard Medical School, Boston, Massachusetts 02115, USA
http://dx.doi.org/10.1101/116913 2017-03-14 Quantitating Translational Control: mRNA Abundance-Dependent and Independent Contributions Jingyi Jessica Li|Guo-Liang Chew|Mark D. Biggin University of California, Los Angeles;|Fred Hutchinson Cancer Research Center;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/115220 2017-03-14 CC BY-NC-ND Control of Hox transcription factor concentration and cell-to-cell variability by an auto-regulatory switch Dimitrios K Papadopoulos|Kassiani Skouloudaki|Ylva Engstrom|Lars Terenius|Rudolf Rigler|Vladana Vukojevic|Pavel Tomancak Max-Planck Institute of Molecular Cell Biology and Genetics;|Stockholm University;|Karolinska Institutet
http://dx.doi.org/10.1101/116897 2017-03-14 A microbially derived tyrosine sulfated peptide mimics a plant peptide hormone Rory N Pruitt|Anna Joe|Weiguo Zhang|Wei Feng|Valley Stewart|Benjamin Schwessinger|Jose R Dinneny|Pamela C Ronald University of California Davis;|Carnegie Institution for Science
http://dx.doi.org/10.1101/116442 2017-03-14 CC BY-NC-ND A toolbox of immunoprecipitation-grade monoclonal antibodies against human transcription factors. Anand Venkataraman|Kun Yang|Jose Irrizary|Mark Mackiewicz|Palo Mita|Zheng Kuang|Lin Xue|Devlina Ghosh|Shuang Liu|Pedro Ramos|Shaohui Hu|Diane Bayron|Sarah Keegan|Richard Saul|Simona Colantonio|Hongyan Zhang|Florencia Pauli Behn|Guang Song|Edisa Albino|Lillyan Asencio|Leonardo Ramos|Luvir Lugo|Gloriner Morell|Javier Rivera|Kimberly Ruiz|Ruth Almodovar|Luis Nazario|Keven Murphy|Ivan Vargas|Zully Rivera-Pacheco|Christian Rosa|Moises Vargas|Jessica McDade|Brian Clark|Sooyeon Yoo|Seva Khambadkone|Jimmy de Melo|Milanka Stevanovic|Lizhi Jiang|Yana Li|Wendy Yap|Brittany Jones|Atul Tandon|Elliot Campbell|Stephen Anderson|Richard Myers|Jef Boeke|David Fenyo|Gordon Whiteley|Joel Bader|Daniel Eichinger|Ignacio Pino|Heng Zhu|Seth Blackshaw Johns Hopkins University School of Medicine;|CDI Laboratories;|HudsonAlpha Institute for Biotechnology;|New York University Langone Medical Centre;|Johns Hopkins Unvier;|Johns Hopkins University School of Medi;|CDI Labs;|Leidos Biomedical Research;|NeoBiotechnologies, Inc.;|Rutgers University
http://dx.doi.org/10.1101/116814 2017-03-14 CC BY-NC-ND Base composition, speciation, and why the mitochondrial barcode precisely classifies Donald R Forsdyke Queen's University, Canada
http://dx.doi.org/10.1101/116863 2017-03-14 The Junction Usage Model (JUM): A method for comprehensive annotation-free differential analysis of tissue-specific global alternative pre-mRNA splicing patterns Qingqing Wang|Donald Rio University of California, Berkeley
http://dx.doi.org/10.1101/116905 2017-03-14 CC BY-NC-ND A review of diagnostic approaches to medullary thyroid carcinoma Soheila Borhani|Mehdi Hedayati Shahid Beheshti University of Medical Sciences
http://dx.doi.org/10.1101/116798 2017-03-14 Reconciling Conflicting Models for Global Control of Cell-Cycle Transcription Chun-Yi Cho|Francis C. Motta|Christina M. Kelliher|Anastasia Deckard|Steven B. Haase Duke University
http://dx.doi.org/10.1101/116780 2017-03-14 CC BY-NC-ND Optimal construction of army ant living bridges Jason M Graham|Albert B Kao|Dylana A Wilhelm|Simon Garnier University of Scranton;|Harvard University;|James Madison University;|New Jersey Institute of Technology
http://dx.doi.org/10.1101/116749 2017-03-14 CC BY-NC-ND Reconstructing regulatory pathways by systematically mapping protein localization interdependency networks James Dodgson|Anatole Chessel|Federico Vaggi|Marco Giordan|Miki Yamamoto|Kunio Arai|Marisa Madrid|Marco Geymonat|Juan Francisco Abenza|Jose Cansado|Masamitsu Sato|Attila Csikasz-Nagy|Rafael E Carazo-Salas University of Cambridge;|Fondazione Edmund Mach;|University of Tokyo;|Universidad de Murcia;|Waseda University;|King's College London;|University of Bristol
http://dx.doi.org/10.1101/116707 2017-03-14 Genome-wide association study of alcohol consumption and genetic overlap with other health-related traits in UK Biobank (N=112,117). Toni-Kim Clarke|Mark J Adams|Gail Davies|David M Howard|Lynsey S Hall|Sandosh Padmanabhan|Alison D Murray|Blair H Smith|Archie Campbell|Caroline Hayward|David J Porteous|Ian J Deary|Andrew M McIntosh University of Edinburgh;|Newcastle University;|University of Glasgow;|University of Aberdeen;|University of Dundee
http://dx.doi.org/10.1101/116715 2017-03-14 CC BY-NC-ND Evolution of Animal Neural Systems Benjamin J Liebeskind|Hans A Hofmann|David M Hillis|Harold H Zakon University of Texas at Austin
http://dx.doi.org/10.1101/101816 2017-03-14 CC BY Genome Graphs and the Evolution of Genome Inference Benedict Paten|Adam M Novak|Jordan M Eizenga|Erik Garrison UC Santa Cruz Genomics Institute;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/116293 2017-03-14 CC BY-NC-ND Habitat Fragmentation Causes Coevolutionary Burning Spots Hanne De Kort|Michel Baguette|Jerome Prunier|Marc Tessier|Jeremy Monsimet|Camille Turlure|Virginie Stevens CNRS;|None;|UCL
http://dx.doi.org/10.1101/116673 2017-03-14 CC BY-NC-ND Information Theory and Stem Cell Biology Rosanna C G Smith|Ben D MacArthur University of Southampton
http://dx.doi.org/10.1101/116624 2017-03-14 CC BY Genotype-phenotype association mining in bipolar disorder: market research meets complex genetics Rene Breuer|Manuel Mattheisen|Josef Frank|Bertram Krumm|Jens Treutlein|Layla Kassem|Jana Strohmaier|Stefan Herms|Thomas W Muhleisen|Franziska Degenhardt|Sven Cichon|Markus Nothen|George Karypis|Francis J McMahon|Marcella Rietschel|Thomas G. Schulze Department of Genetic Epidemiology in Psychiatry, Central Institute of Mental Health;|Center for Integrative Sequencing, iSEQ, Department of Biomedicine, Aarhus University;|Central Institute of Mental Health;|NIMH, NIH;|Department of Genomics, Life & Brain Center, University of Bonn;|Department of Genomics, Life & Brain Center, University of Bonn, Bonn;|Department of Biomedicine, University of Basel, Basel, Switzerland;|Department of Computer Science & Engineering, University of Minnesota, Minneapolis, Minnesota;|IPPG
http://dx.doi.org/10.1101/116699 2017-03-14 CC BY-ND DLPFC Transcriptome Defines Two Molecular Subtypes of Schizophrenia C. Harker Rhodes|Elijah F. W. Bowen|Caitlyn I. Lee|Jack L. Burgess|Richard Granger Retired;|Dartmouth College
http://dx.doi.org/10.1101/116731 2017-03-14 CC BY-NC Postmating sexual selection and the enigmatic jawed genitalia of Callosobruchus subinnotatus Merel van Haren|Johanna Liljestrand Ronn|Menno Schilthuizen|Goran Arnqvist Uppsala University;|Naturalis Biodiversity Center
http://dx.doi.org/10.1101/116541 2017-03-15 Neuroscience CC BY-NC-ND Harmonization Of Multi-Site Diffusion Tensor Imaging Data Jean-Philippe Fortin|Drew Parker|Birkan Tunc|Takanori Watanabe|Mark A Elliott|Kosha Ruparel|David R Roalf|Theodore D Satterthwaite|Ruben C Gur|Raquel E Gur|Robert T Schultz|Ragini Verma|Russell T Shinohara University of Pennsylvania;|The Children's Hospital of Philadelphia
http://dx.doi.org/10.1101/116657 2017-03-15 Evolutionary Biology Destructive Disinfection Of Infected Brood Prevents Systemic Disease Spread In Ant Colonies Christopher D Pull|Line V Ugelvig|Florian Wiesenhofer|Simon Tragust|Thomas Schmitt|Mark JF Brown|Sylvia Cremer IST Austria (Institute of Science and Technology Austria), 3400 Klosterneuburg, Austria;|Evolution, Genetics and Behaviour, University of Regensburg, 93040 Regensburg, Germany;|Department of Animal Ecology and Tropical Biology, University of Wurzburg, Germany;|School of Biological Sciences, Royal Holloway University of London, Egham, Surrey, UK
http://dx.doi.org/10.1101/116954 2017-03-15 CC BY cAMP-Independent Control Of Twitching Motility In Pseudomonas aeruginosa Ryan N.C. Buensuceso|Martin Daniel-Ivad|Sara L.N. Kilmury|Hanjeong Harvey|P. Lynne Howell|Lori L. Burrows McMaster University;|University of Toronto;|The Hospital for Sick Children
http://dx.doi.org/10.1101/117101 2017-03-15 CC BY-NC-ND Orienting The Causal Relationship Between Imprecisely Measured Traits Using Genetic Instruments Gibran Hemani|Kate Tilling|George Davey Smith MRC Integrative Epidemiology Unit, University of Bristol
http://dx.doi.org/10.1101/117200 2017-03-15 CC BY GenomicDataCommons: a Bioconductor Interface to the NCI Genomic Data Commons Martin Morgan|Sean R. Davis Roswell Park Cancer Institute;|National Institutes of Health
http://dx.doi.org/10.1101/116251 2017-03-15 CC BY-NC-ND A marker-free co-selection strategy for high efficiency human genome engineering Daniel Agudelo|Lusine Bozoyan|Alexis Duringer|Caroline C. Huard|Sophie Carter|Jeremy Loehr|Dafni Synodinou|Mathieu Drouin|Jayme Salsman|Graham Dellaire|Josee Laganiere|Yannick Doyon Centre de recherche du CHU de Quebec, Universite Laval;|Research and Development, Hema-Quebec;|Department of Pathology, Dalhousie University
http://dx.doi.org/10.1101/117218 2017-03-15 CC BY Single molecule, full-length transcript sequencing provides insight into the extreme metabolism of ruby-throated hummingbird Archilochus colubris Rachael E. Workman|Alexander M. Myrka|Elizabeth Tseng|G. William Wong|Kenneth C. Welch|Winston Timp Johns Hopkins University;|University of Toronto Scarborough;|Pacific Biosciences;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/116822 2017-03-15 CC BY-NC-ND Genotoxin-induced transcriptional repression regulates selective protein aggregation Veena Mathew|Annie S Tam|Karissa L Milbury|Analise K Hofmann|Christopher S Hughes|Gregg B Morin|Christopher JR Loewen|Peter Stirling BC Cancer Agency;|University of British Columbia
http://dx.doi.org/10.1101/117184 2017-03-15 CC BY-NC-ND Catalytic properties of RNA polymerases IV and V: accuracy, nucleotide incorporation and rNTP/dNTP discrimination Michelle Marasco|Weiyi Li|Michael Lynch|Craig Pikaard Indiana University
http://dx.doi.org/10.1101/117010 2017-03-15 Neuroscience CC BY-NC Human Episodic Memory Retrieval Is Accompanied By A Neural Jump Back In Time Sarah Folkerts|Ueli Rutishauser|Marc Howard School of Medicine, University of Warwick;|Cedars-Sinai and Cal Tech;|Boston University
http://dx.doi.org/10.1101/117176 2017-03-15 Evolutionary Biology CC BY-NC-ND Sexual antagonism exerts evolutionarily persistent genomic constraints on sexual differentiation in Drosophila melanogaster Mark S. Hill|Filip Ruzicka|Sara Fuentes|Julie M. Collet|Edward H. Morrow|Kevin Fowler|Max Reuter University College London;|Institut National de la Recherche Agronomique;|University of Sussex
http://dx.doi.org/10.1101/116988 2017-03-15 Pathology Comparative Transcriptome Profiling Conferring Of Resistance To Fusarium Oxysporum Infection Between Resistant And Susceptible Tomato Min Zhao|Hui-Min Ji|Yin Gao|Xin-Xin Cao|Hui-Yin Mao|Shou-Qiang Ouyang|Peng Liu Yangzhou University
http://dx.doi.org/10.1101/116996 2017-03-15 Molecular Biology CC BY-NC-ND Molecular Basis Underlying Male Sterility In bHLH142 Overexpressing Rice Swee-Suak Ko|Min-Jeng Li|Yi-Jyun Lin|Hong-Xian Hsing|Ting-Ting Yang|Tien-Kuan Chen|Chung-Min Jhong|Maurice Sun-Ben Ku Academia Sinica, Agricultural Biotechnology Research Center/ BCST;|Academia Sinica Biotechnology Center in Southern Taiwan;|National Chiayi University/Washington State University
http://dx.doi.org/10.1101/116970 2017-03-15 Genetics CC BY-NC Heritable Small RNAs Regulate Nematode Benzimidazole Resistance Mostafa Zamanian|Daniel E Cook|Daehan Lee|Junho Lee|Erik Andersen University of Wisconsin-Madison;|Northwestern University;|Seoul National University
http://dx.doi.org/10.1101/116301 2017-03-15 Genetics CC BY Accuracies Of Univariate And Multivariate Genomic Prediction Models In African Cassava. Uche Godfrey Okeke|Deniz Akdemir|Ismail Rabbi|Peter Kulakow|Jean-Luc Jannink Cornell University;|Michigan State University;|International Institute of Tropical Agriculture (IITA), Ibadan
http://dx.doi.org/10.1101/117150 2017-03-15 Bioinformatics CC BY-NC powsim: Power analysis for bulk and single cell RNA-seq experiments Beate Vieth|Christoph Ziegenhain|Swati Parekh|Wolfgang Enard|Ines Hellmann Ludwig-Maximilians University Munich
http://dx.doi.org/10.1101/117069 2017-03-15 Evolutionary Biology CC BY-NC Dual RNA-seq Reveals No Plastic Transcriptional Response Of The Coccidian Parasite Eimeria falciformis To Host Immune Defences Totta Ehret|Simone Spork|Christoph Dieterich|Richard Lucius|Emanuel G Heitlinger Institute of Biology, Molecular Parasitology, Humboldt-University at Berlin;|University Hospital Heidelberg - German Center for Cardiovascular Research (DZHK)
http://dx.doi.org/10.1101/117135 2017-03-15 Neuroscience CC BY-NC-ND Category-Selective Human Brain Processes Elicited In Fast Periodic Visual Stimulation Streams Are Immune To Temporal Predictability Genevieve L Quek|Bruno Rossion University of Louvain
http://dx.doi.org/10.1101/117192 2017-03-15 Evolutionary Biology CC BY-NC-ND Geographically structured genetic variation in the Medicago lupulina-Ensifer mutualism Tia Harrison|Corlett Wood|Katy Heath|John Stinchcombe University of Toronto;|University of Illinois
http://dx.doi.org/10.1101/116962 2017-03-15 Bioinformatics Bio-Docklets: Virtualization Containers for Single-Step Execution of NGS Pipelines. Baekdoo Kim|Thahmina A Ali|Carlos Lijeron|Enis Afgan|Konstantinos Krampis Hunter College;|Johns Hopkins University
http://dx.doi.org/10.1101/117044 2017-03-15 Animal Behavior and Cognition CC BY-NC-ND Association Indices For Quantifying Social Relationships: How To Deal With Missing Observations Of Individuals Or Groups William Hoppitt|Damien Farine School of Biology, University of Leeds, LS2 9JT Leeds, UK;|Max Planck Institute for Ornithology
http://dx.doi.org/10.1101/116939 2017-03-15 Bioinformatics Accounting For Technical Noise In Single-Cell RNA Sequencing Analysis Cheng Jia|Derek Kelly|Junhyong Kim|Mingyao Li|Nancy Zhang Department of Biostatistics Epidemiology and Informatics, University of Pennsylvania;|Graduate Group in Genomics and Computational Biology, University of Pennsylvania;|Department of Biology, University of Pennsylvania School of Arts and Science;|Department of Statistics, University of Pennsylvania Wharton School
http://dx.doi.org/10.1101/116764 2017-03-15 Pharmacology and Toxicology CC BY-NC-ND Applying Mondrian Cross-Conformal Prediction to Estimate Prediction Confidence on Large Imbalanced Bioactivity Datasets Jiangming Sun|Lars Carlsson|Ernst Ahlberg|Ulf Norinder|Ola Engkvist|Hongming Chen AstraZeneca R&D Gothenburg;|Swetox, Karolinska Institutet
http://dx.doi.org/10.1101/117143 2017-03-15 Microbiology CC BY-NC-ND Multi-Locus And Ultra-Long Amplicon Sequencing Approach To Study Microbial Diversity At Species Level Using The MinION™ Portable Nanopore Sequencer Alfonso Benitez-Paez|Yolanda Sanz Institute of Agrochemistry & Food Technology (IATA-CSIC)
http://dx.doi.org/10.1101/116160 2017-03-15 Genetics CC BY-NC Optimizing Pedigrees: Using a Biasing System to Determine Likely Inheritance Systems Justin Y Ang University of California, San Diego
http://dx.doi.org/10.1101/117051 2017-03-15 Neuroscience Neuron Density Is A Fundamental Determinant Of Structural Connectivity In The Primate Cerebral Cortex Sarah F. Beul|Claus C. Hilgetag University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/117093 2017-03-15 Bioinformatics CC BY-NC-ND Reconstructing Promoter Activity From Lux Bioluminescent Reporters Mudassar Iqbal|Neil Doherty|Anna M L Page|Saara N A Qazi|Ishan Ajmera|Peter A Lund|Theodore Kypraios|David J Scott|Philip J Hill|Dov J Stekel University of Manchester;|University of Nottingham;|University of Southampton;|University of Birmingham
http://dx.doi.org/10.1101/117085 2017-03-15 Neuroscience CC BY-NC-ND Inhibitory Engrams In Perception And Memory. Helen Barron|Tim P Vogels|Timothy E Behrens|Mani Ramaswami University of Oxford, Oxford. U.K.;|University of Oxford, Oxford, U.K.;|Trinity College Dublin, Dublin, Ireland
http://dx.doi.org/10.1101/117416 2017-03-16 Neuroscience CC BY Periaqueductal Efferents To Dopamine And GABA Neurons Of The VTA Niels R Ntamati|Meaghan Creed|Christian Luscher University of Geneva;|University of Maryland School of Medicine
http://dx.doi.org/10.1101/117333 2017-03-16 Biochemistry Early Candidate Biomarkers Found From Urine Of Astrocytoma Rat Before Changes In MRI Yanying Ni|Fanshuang Zhang|Manxia An|Wei Yin|Youhe Gao Inst. of Basic Medical Sciences, Chinese Acad. of Medical Sciences, School of Basic Medicine;|Dept. of Biochemistry and Molecular Biology, Beijing Normal University
http://dx.doi.org/10.1101/117424 2017-03-16 Evolutionary Biology CC BY-NC-ND Colonization History Of The Western Corn Rootworm (Diabrotica virgifera virgifera) In North America: Insights From Random Forest ABC Using Microsatellite Data Eric Lombaert|Marc Ciosi|Nicholas J. Miller|Thomas W. Sappington|Aurelie Blin|Thomas Guillemaud INRA;|University of Glasgow;|Illinois Institute of Technology;|Iowa State University
http://dx.doi.org/10.1101/117291 2017-03-16 Cancer Biology Evolution and clinical impact of genetic epistasis within EGFR-mutant lung cancers Collin M. Blakely|Thomas B.K. Watkins|Wei Wu|Beatrice Gini|Jacob J. Chabon|Caroline E. McCoach|Nicholas McGranahan|Gareth A. Wilson|Nicolai J. Birkbak|Victor Olivas|Julia Rotow|Ashley Maynard|Victoria Wang|Matthew Gubens|Kimberly Banks|Richard Lanman|Aleah Caulin|John St. John|Anibal Cordero|Petros Giannikopoulos|Philip Mack|David Gandara|Hatim Husain|Robert Doebele|Jonathan Riess|Maximilian Diehn|Charles Swanton|Trever G. Bivona UCSF;|Francis Crick Institute;|Stanford University;|University of Colorado;|Guardant Health;|Driver Inc.;|UC Davis;|UC San Diego
http://dx.doi.org/10.1101/117374 2017-03-16 Plant Biology CC BY-NC-ND Transcription Through The Eye Of A Needle: Daily And Annual Cycles Of Gene Expression Variation In Douglas-Fir Needles Richard Cronn|Peter C. Dolan|Sanjuro Jogdeo|Jill L. Wegrzyn|David B. Neale|J. B. St. Clair|Dee R. Denver USDA Forest Service;|University of Minnesota - Morris;|Oregon State University;|University of Connecticut;|University of California
http://dx.doi.org/10.1101/117341 2017-03-16 Systems Biology CC BY-NC-ND Evaluation and Design of Genome-wide CRISPR/Cas9 Knockout Screens Traver Hart|Amy Tong|Katie Chan|Jolanda van Leeuwen|Ashwin Seetharaman|Michael Aregger|Megha Chandrashekhar|Nicole Hustedt|Sahil Seth|Avery Noonan|Andrea Habsid|Olga Sizova|Lyudmilla Nedyalkova|Ryan Climie|Keith Lawson|Maria Augusta Sartori|Sabriyeh Alibai|David Tieu|Sanna Masud|Patricia Mero|Alexander Weiss|Kevin R. Brown|Matej Usaj|Maximilian Billmann|Mahfuzur Rahman|Michael Costanzo|Chad L. Myers|Brenda Andrews|Charlie Boone|Daniel Durocher|Jason Moffat Dept. of Bioinformatics and Computational Biology, Univ. of Texas MD Anderson Cancer Ctr;|Donnelly Centre, University of Toronto;|University of Toronto;|Department of Molecular Genetics, University of Toronto;|Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital;|Department of Genomic Sciences, University of Texas MD Anderson Cancer Center;|Donnelly Centre, University of Torotno;|Department of Computer Science and Engineering, University of Minnesota
http://dx.doi.org/10.1101/117267 2017-03-16 Genomics CC BY-ND Flipping between Polycomb repressed and active transcriptional states introduces noise in gene expression Gozde Kar|Jong Kyoung Kim|Aleksandra A. Kolodziejczyk|Kedar Nath Natarajan|Elena Torlai Triglia|Borbala Mifsud|Sarah Elderkin|John C. Marioni|Ana Pombo|Sarah A. Teichmann EMBL-EBI;|European Molecular Biology Laboratory-European Bioinformatics Institute (EMBL-EBI), UK;|Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA, UK;|Epigenetic Regulation and Chromatin Architecture Group, Berlin Institute for Medical Systems Biology;|William Harvey Research Institute, Queen Mary University London, UK;|Nuclear Dynamics Programme, The Abraham Institute, UK;|Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, UK
http://dx.doi.org/10.1101/117325 2017-03-16 Evolutionary Biology CC BY-NC-ND Contrasting determinants of mutation rates in germline and soma Chen Chen|Hongjian Qi|Yufeng Shen|Joseph Pickrell|Molly Przeworski Columbia University;|New York Genome Center
http://dx.doi.org/10.1101/117614 2017-03-16 CC BY-NC Vast population genetic diversity underlies the treatment dynamics of ETV6-RUNX1 ALL Veronica Gonzalez|Matthew MacKay|Iwijn De Vlaminck|John Easton|Charles Gawad St. Jude Children's Research Hospital;|Cornell University
http://dx.doi.org/10.1101/117663 2017-03-16 CC BY-NC Genome-wide Segregation of Single Nucleotide and Structural Variants into Single Leukemia Cells John Easton|Veronica Gonzalez-Pena|Donald Yergeau|Xiaotu Ma|Charles Gawad St. Jude Children's Research Hospital
http://dx.doi.org/10.1101/117689 2017-03-16 CC BY-NC-ND Nascent RNA sequencing reveals a dynamic global transcriptional response at genes and enhancers to the natural medicinal compound celastrol Noah Dukler|Gregory Thomas Booth|Yi-Fei Huang|Nathaniel Tippens|Charles G. Danko|John Lis|Adam Siepel CSHL;|Cornell University
http://dx.doi.org/10.1101/116947 2017-03-16 Guiding the design of bacterial signaling interactions using a coevolutionary landscape Ryan R. Cheng|Ellinor Haglund|Nicholas Tiee|Faruck Morcos|Herbert Levine|Joseph A. Adams|Patricia A. Jennings|Jose N. Onuchic Rice University;|University of California, San Diego;|University of Texas at Dallas
http://dx.doi.org/10.1101/117465 2017-03-16 CC BY Identification of Candidate Drugs for Heart Failure using Tensor Decomposition-Based Unsupervised Feature Extraction Applied to Integrated Analysis of Gene Expression between Heart Failure and Drug Matrix Datasets Y-h. Taguchi Chuo University
http://dx.doi.org/10.1101/117630 2017-03-16 CC BY-NC-ND Identification and Optimization of 4-Anilinoquinolines as Inhibitors of Cyclin G Associated Kinase Christopher R.M. Asquith|Tuomo Laitinen|James M. Bennett|Paulo H. Godoi|Graham J. Tizzard|Jonathan M. Elkins|Timothy M. Willson|William J Zuercher UNC Eshelman School of Pharmacy;|University of Eastern Finland;|University of Oxford;|Universidade Estadual de Campinas;|University of Southampton
http://dx.doi.org/10.1101/117440 2017-03-16 CC BY Aggressiveness As A Latent Personality Trait Of Domestic Dogs: Testing Local Independence And Measurement Invariance Conor Goold|Ruth Newberry Norwegian University of Life Sciences
http://dx.doi.org/10.1101/117432 2017-03-16 CC BY-ND Transformation From Independent To Integrative Coding Of Multi-Object Arrangements In Human Visual Cortex Daniel Kaiser|Marius V Peelen Freie Universitaet Berlin;|University of Trento
http://dx.doi.org/10.1101/117580 2017-03-16 Adult sex ratio bias in snowy plovers is driven by sex-specific early survival: implications for mating systems and population growth Luke J. Eberhart-Phillips|Clemens Kuepper|Tom E. X. Miller|Medardo Cruz-Lopez|Kathryn H. Maher|Natalie dos Remedios|Martin A. Stoffel|Joseph I. Hoffman|Oliver Krueger|Tamas Szekely Department of Animal Behaviour, Bielefeld University;|Max Planck Institute for Ornithology;|Department of BioSciences, Program in Ecology and Evolutionary Biology, Rice University;|Posgrado de Ciencias del Mar y Limnologia, Unidad Academica Mazatlan, Universidad Nacional Autonoma;|Milner Centre for Evolution, Department of Biology and Biochemistry, University of Bath;|Department of Animal and Plant Sciences, University of Sheffield
http://dx.doi.org/10.1101/117572 2017-03-16 Intracellular production of hydrogels and synthetic RNA granules by multivalent enhancers Hideki Nakamura|Albert A Lee|Ali Sobhi Afshar|Shigeki Watanabe|Elmer Rho|Shiva Razavi|Allison Suarez|Yu-Chun Lin|Makoto Tanigawa|Brian Huang|Robert DeRose|Diana Bobb|William Hong|Sandra B Gabelli|John Goutsias|Takanari Inoue Johns Hopkins University
http://dx.doi.org/10.1101/117531 2017-03-16 Genetics CC BY-ND HUGIn: Hi-C Unifying Genomic Interrogator Joshua S. Martin|Zheng Xu|Alex P. Reiner|Karen L. Mohlke|Patrick Sullivan|Bing Ren|Ming Hu|Yun Li Department of Genetics, University of North Carolina;|Department of Statistics, University of Nebraska;|Public Health Sciences Division, Fred Hutchinson Cancer Research Center;|Deartment of Genetics, University of North Carolina & Department of Medical Epidemiology and Biostat;|Department of Cellular and Molecular Medicine, Institute of Genomic Medicine, UCSD;|Department of Quantitative Health Sciences, Lerner Research Institute, Cleveland Clinic Foundation;|University of North Carolina
http://dx.doi.org/10.1101/117564 2017-03-16 Bioinformatics Drug Target Ontology to Classify and Integrate Drug Discovery Data Yu Lin|Saurabh Mehta|Hande Kucuk McGinty|John Paul Turner|Dusica Vidovic|Michele Forlin|Amar Koleti|Dac-Trung Nguyen|Lars Juhl Jensen|Rajarshi Guha|Stephen L. Mathias|Oleg Ursu|Vasileios Stathias|Jianbin Duan|Nooshin Nabizadeh|Caty Chung|Christopher Mader|Ubbo Visser|Jeremy J. Yang|Cristian G. Bologa|Tudor Oprea|Stephan C. Schurer University of Miami;|Delhi Technological University;|National Center for Advancing Translational Science;|University of Copenhagen;|University of New Mexico School of Medicine
http://dx.doi.org/10.1101/117507 2017-03-16 Developmental Biology CC BY-NC-ND The Golgi matrix protein giantin is required for normal cilia function in zebrafish Dylan JM Bergen|Nicola L Stevenson|Roderick J Skinner|David John Stephens|Chrissy L Hammond University of Bristol
http://dx.doi.org/10.1101/117515 2017-03-16 Developmental Biology CC BY-ND Cadherin Fat2 directs cellular mechanics to promote epithelial rotation Ivana Viktorinova|Ian Henry|Pavel Tomancak Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/117499 2017-03-16 Bioinformatics CC BY-NC-ND Gene nucleotide composition accurately predicts expression and is linked to topological chromatin domains Chloe Bessiere|May Taha|Forent Petitprez|Jimmy Vandel|Jean-Michel Marin|Laurent Brehelin|Sophie Lebre|Charles-Henri Lecellier CNRS;|UM3
http://dx.doi.org/10.1101/115873 2017-03-16 Genomics CC BY-NC-ND Reference-free deconvolution of DNA methylation signatures identifies common differentially methylated gene regions on 1p36 across breast cancer subtypes Alexander J Titus|Gregory P Way|Kevin C Johnson|Brock C Christensen Dartmouth College;|University of Pennsylvania;|Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/117952 2017-03-17 Intracellular Sodium Regulates Opioid Signalling in Peripheral Sensory Neurons Alexandros H Kannelopoulos|Jing Zhao|Edward C Emery|John N Wood UCL
http://dx.doi.org/10.1101/117879 2017-03-17 Plant Biology CC BY-ND The Maternal Environment Interacts With Genetic Variation In Regulating Seed Dormancy In Arabidopsis thaliana Envel Kerdaffrec|Magnus Nordborg Gregor Mendel Institute
http://dx.doi.org/10.1101/117804 2017-03-17 Neuroscience A Theta Rhythm In Awake Macaque V1 And V4 And Its Attentional Modulation Georgios Spyropoulos|Conrado Arturo Bosman|Pascal Fries Ernst Struengmann Institute in Cooperation with Max Plack Society;|University of Amsterdam
http://dx.doi.org/10.1101/117903 2017-03-17 Genomics mRNA And Long Non-Coding RNA Expression Profiles In Rats Reveal Inflammatory Features In Sepsis-Associated Encephalopathy WenChong Sun|Ling Pei|Zuodi Liang The First Affiliated Hospital of China Medical University
http://dx.doi.org/10.1101/117788 2017-03-17 Cancer Biology CC BY-NC-ND Simultaneous Enumeration Of Cancer And Immune Cell Types From Bulk Tumor Gene Expression Data Julien Racle|Kaat de Jonge|Petra Baumgaertner|Daniel E Speiser|David Gfeller University of Lausanne;|Lausanne University Hospital
http://dx.doi.org/10.1101/117929 2017-03-17 Microbiology CC BY Deciphering the combinatorial influence of diet and the microbiota on experimental colitis Sean R Llewellyn|Graham J Britton|Eduardo J Contijoch|Arthur Mortha|Jean-Frederic Colombel|Ari Grinspan|Jose C Clemente|Miriam Merad|Jeremiah J Faith Icahn School of Medicine at Mount Sinai;|University of Toronto
http://dx.doi.org/10.1101/117911 2017-03-17 Genomics CC BY Trait specificity mediated by alternative DNA-binding preferences of a single transcription factor in yeast. Michael W Dorrity|Josh T Cuperus|Jolie A Carlisle|Stanley Fields|Christine Queitsch University of Washington, United States
http://dx.doi.org/10.1101/117895 2017-03-17 Genomics CC BY-NC Variation Of The Meiotic Recombination Landscape And Properties Over A Broad Evolutionary Distance In Yeasts Christian Brion|Sylvain Legrand|Jackson Peter|Claudia Caradec|David Pflieger|Jing Hou|Anne Friedrich|Bertrand Llorente|Joseph Schacherer Universite de Strasbourg, CNRS, GMGM UMR 7156, F-67000, Strasbourg;|CNRS UMR7258, INSERM U1068, Aix Marseille Universite, Institut Paoli-Calmettes, Marseille;|CNRS UMR7258, INSERM U1068, Aix Marseille Universite Institut Paoli-Calmettes, Marseille
http://dx.doi.org/10.1101/117713 2017-03-17 Neuroscience CC BY-ND Communicability Systematically Explains Transmission Speed In A Cortical Macro-Connectome Masanori Shimono|Naomichi Hatano Osaka University / Riken BSI;|The University of Tokyo
http://dx.doi.org/10.1101/117473 2017-03-17 Bioinformatics CC BY-NC-ND A Novel And Efficient Algorithm For De Novo Discovery Of Mutated Driver Pathways In Cancer Binghui Liu|Chong Wu|Xiaotong Shen|Wei Pan Northeast Normal University;|University of Minnesota
http://dx.doi.org/10.1101/117937 2017-03-17 Plant Biology CC BY-NC Increased pericarp cell length underlies a major QTL for grain weight in hexaploid wheat Jemima Brinton|James Simmonds|Francesca Minter|Michelle Leverington-Waite|John Snape|Cristobal Uauy John Innes Centre, Norwich Research Park, Norwich NR4 7UH, United Kingdom
http://dx.doi.org/10.1101/117853 2017-03-17 Epidemiology CC BY-NC-ND Validation Of A Novel Molecular Host Response Assay To Diagnose Infection In Hospitalized Patients Admitted To The ICU With Acute Respiratory Failure Maria Koster-Brouwer|Diana Verboom|Brendon Scicluna|Kirsten van de Groep|Jos Frencken|Davy Janssen|Rob Schuurman|Marcus Schultz|Tom van der Poll|Marc Bonten|Olaf Cremer University Medical Center Utrecht;|Academic Medical Center Amsterdam
http://dx.doi.org/10.1101/117481 2017-03-17 Genetics CC BY-NC-ND Comprehensive Pathway Analyses Of Schizophrenia Risk Loci Point To Dysfunctional Postsynaptic Signaling Dick Schijven|Daniel Kofink|Vinicius Tragante|Marloes Verkerke|Sara L. Pulit|Rene S. Kahn|Jan H. Veldink|Christiaan H. Vinkers|Marco P. Boks|Jurjen J. Luykx Brain Center Rudolf Magnus, University Medical Center Utrecht, Utrecht, the Netherlands;|University Medical Center Utrecht, Utrecht, the Netherlands;|Icahn School of Medicine at Mount Sinai, New York, NY, USA
http://dx.doi.org/10.1101/117838 2017-03-17 Bioinformatics CC BY Probabilistic Recovery Of Cryptic Haplotypes From Metagenomic Data Samuel M Nicholls|Wayne Aubrey|Kurt de Grave|Leander Schietgat|Christopher J Creevey|Amanda Clare Aberystwyth University;|Katholieke Universiteit Leuven
http://dx.doi.org/10.1101/117770 2017-03-17 Bioinformatics CC BY Comparison Of Multi-locus Sequence Typing Software For Next Generation Sequencing Data Andrew J Page|Nabil-Fareed Alikhan|Heather A. Carleton|Torsten Seemann|Jacqueline A. Keane|Lee S. Katz Wellcome Trust Sanger Institute;|University of Warwick;|Centers for Disease Control and Prevention;|University of Melbourne
http://dx.doi.org/10.1101/117796 2017-03-17 Neuroscience Genome-Wide Analysis Of 113,968 Individuals In UK Biobank Identifies Four Loci Associated With Mood Instability. Joey Ward|Rona Strawbridge|Nicholas Graham|Mark Bailey|Amy Freguson|Donald Lyall|Breda Cullen|Laura Pidegon|Jonathan Cavanagh|Daniel Mackay|Jill Pell|Michael O'Donovan|Valentina Escott-Price|Daniel J Smith University of Glasgow;|Cardiff University
http://dx.doi.org/10.1101/117556 2017-03-17 Ecology CC BY Methods to Reduce Sea Turtle Interactions in the Atlantic Canadian Pelagic Long Line Fleet Zachary Thomas Sherker St. Francis Xavier University
http://dx.doi.org/10.1101/117762 2017-03-17 Cell Biology Force-Dependent Binding Of Vinculin To α-Catenin Regulates Cell-Cell Contacts Stability And Collective Cell Behavior Rima Seddiki|Pierre-Olivier Strale|Gregoire Peyret|Mingxi Yao|Jie Yan|Benoit Ladoux|Rene-Marc Mege Institut Jacques Monod;|National University of Singapore
http://dx.doi.org/10.1101/117119 2017-03-17 Ecology Autonomous Bird Sound Recording Outperforms Direct Human Observation: Synthesis And New Evidence Kevin Felix Arno Darras|Peter Batary|Brett Furnas|Irfan Fitriawan|Yeni Mulyani|Teja Tscharntke Georg-August University Goettingen;|California Department of Fish and Wildlife;|PT Henrison Inti Persada;|Bogor Agricultural University
http://dx.doi.org/10.1101/117606 2017-03-17 Ecology CC BY-NC-ND Demographic compensation does not rescue populations at a trailing range edge Seema Nayan Sheth|Amy Lauren Angert University of California, Berkeley;|University of British Columbia
http://dx.doi.org/10.1101/117382 2017-03-17 Genomics The Drosophila Embryo at Single Cell Transcriptome Resolution Nikos Karaiskos|Philipp Wahle|Jonathan Alles|Anastasiya Boltengagen|Salah Ayoub|Claudia Kipar|Christine Kocks|Nikolaus Rajewsky|Robert P Zinzen Max Delbrueck Center for Molecular Medicine in the Helmholtz Association (MDC)
http://dx.doi.org/10.1101/116921 2017-03-17 Bioinformatics CC BY-NC-ND Cysteine Proteases Of Hookworm Necator Americanus As Virulence Factors And Implications For Future Drug Design: A Bioinformatics-Based Study Arpita Banerjee University of California, San Diego
http://dx.doi.org/10.1101/116608 2017-03-17 Neuroscience CC BY-NC-ND A Neural Network Framework For The Orbitofrontal Cortex During Model-Based Reinforcement Learning Zhewei Zhang|Zhenbo Cheng|Zhongqiao Lin|Chechang Nie|Tianming Yang Institute of Neuroscience;|Zhejiang University of Technology
http://dx.doi.org/10.1101/117622 2017-03-17 Ecology Efficacy of land use designation in protecting habitat in the miombo woodlands: Insights from Tanzania Alex L Lobora|Cuthbert L Nahonyo|Linus K Munishi|Tim Caro|Charles Foley|Colin Beale TAWIRI;|University of Dar es salaam;|Nelson Mandela African Institution of Science and Technology (NM-AIST), Tanzania;|University of California, Davis, USA;|WCS;|University of York, United Kingdom
http://dx.doi.org/10.1101/117846 2017-03-17 Evolutionary Biology CC BY Complex Coding And Regulatory Polymorphisms In A Restriction Factor Determine The Susceptibility Of Drosophila To Viral Infection Chuan Cao|Rodrigo Cogni|Vincent Barbier|Francis M Jiggins Wellcome Trust Sanger Institute;|University of São Paulo;|Institute for Immunology and Informatics;|University of Cambridge
http://dx.doi.org/10.1101/117598 2017-03-17 Animal Behavior and Cognition CC BY-NC-ND Bridging Computational Neuroscience and Machine Learning on Non-Stationary Multi-Armed Bandits George Velentzas|Costas Tzafestas|Mehdi Khamassi School of Electerical and Computer Engineering, National Technical University of Athens, Greece;|School of Electrical and Computer Engineering, National Technical University of Athens, Greece;|Centre National de la Recherche Scientifique / Universite Pierre et Marie Curie
http://dx.doi.org/10.1101/117887 2017-03-18 Microbiology CC BY-NC Bacterial physiological adaptations to contrasting edaphic conditions identified using landscape scale metagenomics Ashish A Malik|Bruce C Thomson|Andrew S Whiteley|Mark Bailey|Rob I Griffiths Centre for Ecology & Hydrology, Wallingford, UK;|The University of Western Australia, Crawley, Australia
http://dx.doi.org/10.1101/118026 2017-03-18 Microbiology CC BY-NC Molecular diagnosis of orthopaedic device infection direct from sonication fluid by metagenomic sequencing Teresa L Street|Nicholas D Sanderson|Bridget L Atkins|Andrew J Brent|Kevin Cole|Dona Foster|Martin A McNally|Sarah Oakley|Leon Peto|Adrian Taylor|Tim E A Peto|Derrick W Crook|David W Eyre University of Oxford;|Oxford University Hospitals NHS Foundation Trust;|Royal Sussex County Hospital
http://dx.doi.org/10.1101/117705 2017-03-18 Microbiology CC BY Comprehensive mapping of HIV-1 escape from a broadly neutralizing antibody Adam S Dingens|Hugh K Haddox|Julie Overbaugh|Jesse D Bloom Fred Hutch Cancer Research Center;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/117994 2017-03-18 Bioinformatics CC BY GROOLS: reactive graph reasoning for genome annotation through biological processes Jonathan Mercier|Adrien Josso|Claudine Medigue|David Vallenet CEA Genoscope
http://dx.doi.org/10.1101/118000 2017-03-18 Bioinformatics CC BY-NC ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads Martin Hunt|Alison E Mather|Leonor Sanchez-Buso|Andrew J Page|Julian Parkhill|Jacqueline A Keane|Simon R Harris Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/117945 2017-03-18 Neuroscience CC BY-NC-ND Brain connectivity-informed regularization methods for regression Marta Karas|Damian Brzyski|Mario Dzemidzic|Joaquin Goni|David A Kareken|Timothy W Randolph|Jaroslaw Harezlak Indiana University Bloomington;|Indiana University School of Medicine;|Purdue University;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/117978 2017-03-18 Genetics CC BY A framework to identify modifier genes in patients with Phelan-McDermid syndrome Anne-Claude Tabet|Thomas Rolland|Marie Ducloy|Jonathan Levy|Julien Buratti|Alexandre Mathieu|Damien Haye|Laurence Perrin|Celine Dupont|Sandrine Passemard|Yline Capri|Alain Verloes|Severine Drunat|Boris Keren|Cyril Mignot|Isabelle Marey|Aurelia Jacquette|Sandra Whalen|Eva Pipiras|Brigitte Benzacken|Sandra Chantot-Bastaraud|Alexandra Afenjar|Delphine Heron|Cedric Le Caignec|Claire Beneteau|Olivier Pichon|Bertrand Isidor|Albert David|Jean-Michel Dupont|Stephan Kemeny|Laetitia Gouas|Philippe Vago|Anne-Laure Mosca-Boidron|Laurence Faivre|Chantal Missirian|Nicole Philip|Damien Sanlaville|Patrick Edery|Veronique Satre|Charles Coutton|Francoise Devillard|Klaus Dieterich|Marie-Laure Vuillaume|Caroline Rooryck|Didier Lacombe|Lucile Pinson|Vincent Gatinois|Jacques Puechberty|Jean Chiesa|James Lespinasse|Christele Dubourg|Chloe Quelin|Melanie Fradin|Hubert Journel|Annick Toutain|Dominique Martin|Abdelamdjid Benmansour|Roberto Toro|Frederique Amsellem|Richard Delorme|Thomas Bourgeron APHP;|Institut Pasteur;|Nantes Hospital;|CHU Estaing;|Dijon Hospital;|La Timone Hospital;|Lyon Civil Hospital;|Grenoble Hospital;|Bordeaux Hospital;|Montpellier Hospital;|CHRU Nimes;|Chambery-Hotel-Dieu Hospital;|CHU Rennes;|Chubert Hospital;|Bretonneau Hospital;|CH du Mans
http://dx.doi.org/10.1101/117960 2017-03-18 Cell Biology Single-cell RNA-Sequencing uncovers transcriptional states and fate decisions in haematopoiesis Emmanouil I Athanasiadis|Helena Andres|Jan G Botthof|Lauren Ferreira|Pietro Lio|Ana Cvejic University of Cambridge
http://dx.doi.org/10.1101/118067 2017-03-18 Evolutionary Biology CC BY-NC-ND Genomic basis and evolutionary potential for extreme drought adaptation in Arabidopsis thaliana Moises Exposito-Alonso|Francois Vasseur|Wei Ding|George Wang|Hernan A. A. Burbano|Detlef Weigel Department of Molecular Biology, Max Planck Institute for Developmental Biology, Tuebingen
http://dx.doi.org/10.1101/118091 2017-03-18 Neuroscience CNN-based Encoding and Decoding of Visual Object Recognition in Space and Time K. Seeliger|M. Fritsche|U. Guclu|S. Schoenmakers|J.-M. Schoffelen|S. E. Bosch|M. A. J. van Gerven Donders Institute for Brain, Cognition and Behaviour;|Radboud University, Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/117523 2017-03-18 Bioinformatics CC BY-NC-ND deStruct: Accurate Rearrangement Detection using Breakpoint Specific Realignment Andrew McPherson|Sohrab P Shah|S Cenk Sahinalp University of British Columbia;|BC Cancer Agency;|Indiana University Bloomington
http://dx.doi.org/10.1101/118083 2017-03-18 Bioinformatics SQANTI: extensive characterization of long read transcript sequences for quality control in full-length transcriptome identification and quantification Manuel Tardaguila|Lorena de la Fuente|Cristina Marti|Cecile Pereira|Hector del Risco|Marc Ferrell|Maravillas Mellado|Marissa Macchietto|Kenneth Verheggen|Mariola Edelmann|Iakes Ezkurdia|Jesus Vazquez|Michael Tress|Ali Mortazavi|Lennart Martens|Susana Rodriguez-Navarro|Victoria Moreno|Ana Conesa University of Florida;|Centro de Investigaciones Principe Felipe;|University of California;|Ghent University;|Centro Nacional de Investigaciones Cardiovasculares CNIC;|Centro Nacional de Investigaciones Oncologicas CNIO
http://dx.doi.org/10.1101/118018 2017-03-18 Genetics CC BY-NC Estimating the proportion of disease heritability mediated by gene expression levels Luke J O'Connor|Alexander Gusev|Xuanyao Liu|Po-Ru Loh|Hilary K Finucane|Alkes L Price Harvard University;|Dana Farber Cancer Institute
http://dx.doi.org/10.1101/118216 2017-03-18 CC BY-NC-ND A library of structurally homogeneous human N-glycans synthesized from microbial oligosaccharide precursors Brian S. Hamilton|Joshua D. Wilson|Marina A. Shumakovich|Adam C. Fisher|James C. Brooks|Alyssa Pontes|Radnaa Naran|Christian Heiss|Chao Gao|Robert Kurdish|Jamie Heimburg-Molinaro|Parastoo Azadi|Richard D. Cummings|Judith H. Merritt|Matthew P DeLisa Glycobia;|Complex Carbohydrate Research Center, The University of Georgia;|Department of Surgery, Beth Israel Deaconess Medical Center, Harvard Medical School,;|Department of Surgery, Beth Israel Deaconess Medical Center, Harvard Medical School;|Cornell University
http://dx.doi.org/10.1101/118034 2017-03-18 CC BY Identification, Isolation, and Characterization of Human LGR5-positive Colon Adenoma Cells Michael K Dame|Durga Attili|Shannon D McClintock|Priya H Dedhia|Peter Ouilette|Olaf Hardt|Alana M Chin|Xiang Xue|Julie Laliberte|Erica L Katz|Gina M Newsome|David Hill|Alyssa Miller|David Agorku|Christopher H Altheim|Andreas Bosio|Becky Simon|Linda C Samuelson|Jay A Stoerker|Henry D Appelman|James Varani|Max S Wicha|Dean E Brenner|Yatrik M Shah|Jason R Spence|Justin A Colacino University of Michigan;|Miltenyi Biotec GmbH;|Progenity, Inc.;|University of Michigan School of Public Health
http://dx.doi.org/10.1101/118182 2017-03-18 CC BY-NC-ND Synthesis And Modification Of A Mesoporous Material Type MCM-41 By An Amine For The Adsorption Of Organic Pollutants: Anionic And Cationic Dyes. Benyoub Nassima|Benhamou Abdallah|Debab Abdelkader University of Science and Technology of Oran Mohamed Boudiaf
http://dx.doi.org/10.1101/118257 2017-03-18 CC BY-NC-ND Mapping pollution in a megalopolis: the case for atmospheric biomonitors of nitrogen deposition Edison A. Diaz-Alvarez|Erick de la Barrera Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/118281 2017-03-18 CC BY ChIPSeqFPro, a pipeline for sequential processing of ChIP-Seq fastq to bigwig files Milos Pjanic Stanford University Cardiovascular Medicine
http://dx.doi.org/10.1101/118224 2017-03-18 CC BY-NC-ND Bacterial glycoengineering as a biosynthetic route to customized glycomolecules Laura E. Yates|Dominic C. Mills|Matthew P DeLisa Cornell University
http://dx.doi.org/10.1101/118232 2017-03-18 CC BY-NC-ND Conserved processes of metazoan whole-body regeneration identified in sea star larvae Veronica Hinman|Greg Cary Carnegie Mellon University
http://dx.doi.org/10.1101/118141 2017-03-18 A Species-Specific Nematocide that Results in Terminal Embryogenesis Ray L Hong|Tess Renahan California State University Northridge;|Max-Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/118166 2017-03-18 Positive interactions support the formation of complex spatial networks Gianalberto Losapio|Marcelino de la Cruz|Adrian Escudero|Bernhard Schmid|Christian Schob University of Zurich;|University King Juan Carlos
http://dx.doi.org/10.1101/118059 2017-03-18 CC BY Electrically Conductive Pili from Pilin Genes of Phylogenetically Diverse Microorganisms David J.F. Walker|Ramesh Y Adhikari|Dawn E Holmes|Joy E Ward|Trevor L Woodard|Kelly P Nevin|Derek R Lovley University of Massachusetts, Amherst;|Jacksonville University
http://dx.doi.org/10.1101/118174 2017-03-18 CC BY-NC-ND Eyes closed or Eyes open? Exploring the alpha desynchronization hypothesis in resting state functional connectivity networks with intracranial EEG Jaime Gomez-Ramirez|Shelagh Freedman|Diego Mateos|Jose Luis Perez Velazquez|Taufik Valiante The Hospital fo Sick Children;|{Concordia University, Canada;|Toronto Western Hospital
http://dx.doi.org/10.1101/118125 2017-03-18 CC BY Lysinibacillus fusiformis M5 induces increased complexity in Bacillus subtilis 168 colony biofilms via hypoxanthine Ramses Gallegos Monterrosa|Stefanie Kankel|Sebastian Goetze|Robert Barnett|Pierre Stallforth|Akos T Kovacs Terrestrial Biofilms Group, Institute of Microbiology, Friedrich Schiller University Jena;|Leibniz Institute for Natural Product Research and Infection Biology, Hans Knoell Institute, HKI;|Terrestrial Biofilms Group, Institute of Microbiology, Friedrich Schiller University Jena, Jena
http://dx.doi.org/10.1101/118117 2017-03-18 CC BY A Genome-wide Survey of Mutations in the Jurkat Cell Line Louis Gioia|Azeem Siddique|Steven R Head|Daniel R Salomon|Andrew I Su The Scripps Research Institute
http://dx.doi.org/10.1101/118190 2017-03-18 CC BY-NC-ND The genomic footprint of climate adaptation in Chironomus riparius Ann-Marie Oppold|Andreas Wieser|Tilman Schell|Simit Patel|Hanno Schmidt|Thomas Hankeln|Barbara Feldmeyer|Markus Pfenninger Senckenberg BIK-F, Goethe University Frankfurt am Main, Germany;|Senckenberg BIK-F, Frankfurt am Main, , Germany;|Senckenberg BIK-F, Frankfurt am Main, Germany;|Johannes Gutenberg University Mainz, Germany
http://dx.doi.org/10.1101/118315 2017-03-19 Genetics P53 is not necessary for DUX4 pathology Darko Bosnakovski|Erik A. Toso|Olivia O. Recht|Anja Cucak|Abhinav K. Jain|Michelle C. Barton|Michael Kyba University of Minnesota;|MD Anderson Cancer Center
http://dx.doi.org/10.1101/118307 2017-03-19 Biochemistry CC BY-NC-ND Resveratrol Induces Mitochondrial Dysfunction And Decreases Chronological Life Span Of Saccharomyces cerevisiae In A Glucose-Dependent Manner Minerva Ramos-Gomez|Ivanna Karina Olivares-Marin|Melina Canizal-Garcia|Juan Carlos Gonzalez-Hernandez|Gerardo M. Nava|Luis Alberto Madrigal-Perez Universidad Autonoma de Queretaro;|Instituto Tecnologico Superior de Ciudad Hidalgo;|Instituto Tecnologico de Morelia;|Instituo Tecnologico Superior de Ciudad Hidalgo
http://dx.doi.org/10.1101/118133 2017-03-19 Epidemiology The role of glycaemic and lipid risk factors in mediating the effect of BMI on coronary heart disease: A two-step, two-sample Mendelian randomization study Lin XU|Maria Carolina Borges|Gibran Hemani|Deborah A Lawlor Sun Yat-sen University;|University of Bristol
http://dx.doi.org/10.1101/118265 2017-03-19 Epidemiology Sex-associated autosomal DNA methylation differences are wide-spread and stable throughout childhood Matthew Suderman|Andrew Simpkin|Gemma C Sharp|Tom Gaunt|Oliver Lyttleton|Wendy McArdle|Susan Ring|George Davey Smith|Caroline L Relton University of Bristol
http://dx.doi.org/10.1101/118273 2017-03-19 CC BY-NC-ND Are The Neural Correlates Of Consciousness In The Front Or In The Back Of The Cerebral Cortex? Clinical And Neuroimaging Evidence Melanie Boly|Marcello Massimini|Naotsugu Tsychiya|Bradley R Postle|Christof Koch|Giulio Tononi University of Wisconsin, Madison;|University of Milan, Italy;|Monash University, Australia;|Allen Institue, Seattle
http://dx.doi.org/10.1101/118331 2017-03-19 CC BY-NC-ND Genotyping Of Zebrafish Embryos Fixed By Paraformaldehyde Qilin Gu|Xiaojie Yang Houston Methodist Research Institute
http://dx.doi.org/10.1101/118240 2017-03-19 CC BY Cheating on orthogonal social traits prevents the tragedy of the commons in Pseudomonas aeruginosa Ozhan Ozkaya|Roberto Balbontin|Isabel Gordo|Karina B. Xavier Instituto Gulbenkian de Ciência
http://dx.doi.org/10.1101/118323 2017-03-19 CC BY Population Genomics And The Evolution Of Virulence In The Fungal Pathogen Cryptococcus neoformans Christopher Desjardins|Charles Giamberardino|Sean Sykes|Chen-Hsin Yu|Jennifer Tenor|Yuan Chen|Timothy Yang|Alexander Jones|Sheng Sun|Miriam Haverkamp|Joseph Heitman|Anastasia Litvintseva|John Perfect|Christina Cuomo Broad Institute;|Duke University Medical Center;|University of Pennsylvania;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/118513 2017-03-20 CC BY MELODI - Mining Enriched Literature Objects to Derive Intermediates Benjamin L Elsworth|Karen Dawe|Emma E Vincent|Ryan Langdon|Brigid M Lynch|Richard M Martin|Caroline Relton|Julian P T Higgins|Tom R Gaunt University of Bristol;|Cancer Council Victoria
http://dx.doi.org/10.1101/118612 2017-03-20 Evolutionary Biology Neuronal Patterning Of The Tubular Collar Cord Is Highly Conserved Among Enteropneusts But Dissimilar To The Chordate Neural Tube Sabrina Kaul|Makoto Urata|Daniela Praher|Andreas Wanninger University of Vienna;|Kanazawa University
http://dx.doi.org/10.1101/118471 2017-03-20 Neuroscience CC BY On The Structure Of Cortical Micro-Circuits Inferred From Small Sample Sizes Marina Vegue|Rodrigo Perin|Alex Roxin Centre de Recerca Matematica;|Laboratory of Neural Microcircuitry, Ecole Polytechnique Federale de Lausanne
http://dx.doi.org/10.1101/118380 2017-03-20 Neuroscience Functional Asymmetry In The Central Brain Regions In Boys With Attention Deficit Hyperactivity Disorder Detected By Event Related Potentials During Performance Of The Attentional Network Test Dimitri M. Abramov|Carla Q. C. Rodrigues|Monique C. Pontes|Paulo R. Galhanone|Leonardo C. deAzevedo|Vladimir V. Lazarev National Institute of Women, Children and Adolescents Health Fernandes Figueira
http://dx.doi.org/10.1101/118448 2017-03-20 Cell Biology CC BY-NC-ND Trabecular Meshwork Failure In A Model Of Pigmentary Glaucoma Yalong Dang|Susannah Waxman|Chao Wang|Ralista T Loewen|Ming Sun|Nils Loewen Department of Ophthalmology, School of Medicine, University of Pittsburgh;|Department of Cell Biology, School of Medicine, University of Pittsburgh
http://dx.doi.org/10.1101/118489 2017-03-20 Neuroscience CC BY A Model Of Plasticity-Dependent Network Activity In Rodent Hippocampus During Exploration Of Novel Environments Panagiota Theodoni|Bernat Rovira|Alex Roxin New York University, NY and Shanghai;|Centre de Recerca Matematica
http://dx.doi.org/10.1101/118398 2017-03-20 Neuroscience CC BY-NC-ND Decision-Related Signals In The Presence Of Nonzero Signal Stimuli, Internal Bias, And Feedback Daniel Chicharro|Stefano Panzeri|Ralf M Haefner Harvard Medical School, Istituto Italiano di Tecnologia;|Istituto Italiano di Tecnologia;|University of Rochester
http://dx.doi.org/10.1101/112227 2017-03-20 Bioengineering Rapid Sequential In Situ Multiplexing With DNA-Exchange-Imaging Yu Wang|Johannes B Woehrstein|Noah Donoghue|Mingjie Dai|Maier S Avendano|Ron C.J. Schackmann|Shan Shan Wang|Paul W Tillberg|Demian Park|Sylvain W Lapan|Edward S Boyden|Joan S Brugge|Pascal S Kaeser|George M Church|Sarit S Agasti|Ralf Jungmann|Peng Yin Harvard Wyss Institute;|Harvard Medical School;|MIT
http://dx.doi.org/10.1101/118364 2017-03-20 Neuroscience CC BY-NC-ND A Transformation From Latency To Ensemble Coding In A Model Of Piriform Cortex Merav Stern|Kevin Bolding|LF Abbott|Kevin Franks Hebrew University of Jerusalem;|Duke University;|Columbia University
http://dx.doi.org/10.1101/118463 2017-03-20 Neuroscience CC BY Mean-Field Equations For Neuronal Networks With Arbitrary Degree Distributions Duane Nykamp|Daniel Friedman|Sammy Shaker|Maxwell Shinn|Michael Vella|Albert Compte|Alex Roxin University of Minnesota;|Institut d'Investigacions Biomediques August Pi i Sunyer;|Centre de Recerca Matematica
http://dx.doi.org/10.1101/118455 2017-03-20 Evolutionary Biology CC BY-NC-ND Adaptive Evolution Of Transcription Factor Binding Affinities Jungeui Hong|Nathan Brandt|Ally Yang|Tim Hughes|David Gresham NYU;|University of Toronto
http://dx.doi.org/10.1101/118349 2017-03-20 Bioinformatics CC BY Cross-Platform Normalization Enables Machine Learning Model Training On Microarray And RNA-Seq Data Simultaneously Jaclyn N Taroni|Casey S Greene University of Pennsylvania
http://dx.doi.org/10.1101/118356 2017-03-20 CC BY Amending Published Articles: Time To Rethink Retractions And Corrections? Virginia Barbour|Theodora Bloom|Jennifer Lin|Elizabeth Moylan Queensland University of Technology (QUT);|BMA House;|Crossref;|BioMed Central (part of Springer Nature)
http://dx.doi.org/10.1101/118661 2017-03-20 CC BY Structural insights into the light-driven auto-assembly process of the water-oxidizing Mn4CaO5-cluster in photosystem II Miao Zhang|Martin Bommer|Ruchira Chatterjee|Rana Hussein|Junko Yano|Holger Dau|Jan Kern|Holger Dobbek|Athina Zouni Humboldt-Universität zu Berlin;|Lawrence Berkeley National Laboratory;|Freie Universität Berlin;|Humboldt University
http://dx.doi.org/10.1101/118711 2017-03-20 CC BY-NC-ND Causes and consequences of nuclear gene positioning Sigal Shachar|Tom Misteli NIH
http://dx.doi.org/10.1101/118737 2017-03-20 Preservation of Chromatin Organization after Acute Loss of CTCF in Mouse Embryonic Stem Cells Naoki Kubo|Haruhiko Ishii|David Gorkin|Franz Meitinger|Xiong Xiong|Rongxin Fang|Tristin Liu|Zhen Ye|Bin Li|Jesse Dixon|Arshad Desai|Huimin Zhao|Bing Ren Ludwig Institute for Cancer Research;|University of Illinois at Urbana-Champaign;|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/118703 2017-03-20 Identification of drug eQTL interactions from repeat transcriptional and environmental measurements in a lupus clinical trial Emma Elisabeth Davenport|Tiffany Amariuta|Maria Gutierrez-Arcelus|Kamil Slowikowski|Harm-Jan Westra|Ying Zhang|Stephen Pearson|David von Schack|Jean S. Beebe|Nan Bing|Michael S. Vincent|Baohong Zhang|Soumya Raychaudhuri Brigham and Women's Hospital, Harvard Medical School;|Pfizer Inc.;|Pfizer New Haven Clinical Research Unit
http://dx.doi.org/10.1101/118547 2017-03-20 CC BY Correcting for Dependent P-values in Rhythm Detection Alan L Hutchison|Aaron R Dinner University of Chicago
http://dx.doi.org/10.1101/118687 2017-03-20 Insect behavioral evidence of spatial memories during environmental reconfiguration Diogo Santos-Pata|Alex Escuredo|Zenon Mathews|Paul FMJ Verschure Universitat Pompeu Fabra
http://dx.doi.org/10.1101/118752 2017-03-20 CC BY-NC-ND Accurate and Reproducible Functional Maps in 127 Human Cell Types via 2D Genome Segmentation Yu Zhang|Ross C. Hardison Pennsylvania State University
http://dx.doi.org/10.1101/118638 2017-03-20 Mercury and water level fluctuations in lakes of northern Minnesota James H Larson|Ryan P. Maki|Victoria G. Christensen|Mark B. Sandheinrich|Jaime F. LeDuc|Claire Kissane|Brent C Knights U.S. Geological Survey;|National Park Service;|University of Wisconsin-La Crosse
http://dx.doi.org/10.1101/118539 2017-03-20 CC BY-NC On the feasibility of mining CD8+ T-cell receptor patterns underlying immunogenic peptide recognition. Nicolas De Neuter|Wout Bittremieux|Charlie Beirnaert|Bart Cuypers|Aida Mrzic|Pieter Moris|Arvid Suls|Viggo Van Tendeloo|Benson Ogunjimi|Kris Laukens|Pieter Meysman University of Antwerp
http://dx.doi.org/10.1101/114710 2017-03-20 CC BY GAMtools: an automated pipeline for analysis of Genome Architecture Mapping data Robert A Beagrie|Markus Schueler Max-Delbrueck Centre for Molecular Medicine
http://dx.doi.org/10.1101/117127 2017-03-20 CC BY-NC RegCyanoDB: a database of cyanobacterial regulatory interactions Ajay Nair|Madhu Chetty|Nguyen Xuan Vinh Indian Institute of Technology Bombay;|Federation University;|The University of Melbourne
http://dx.doi.org/10.1101/118521 2017-03-20 CC BY-NC Bootstrapping and Empirical Bayes Methods Improve Rhythm Detection in Sparsely Sampled Data Alan L Hutchison|Ravi Allada|Aaron R Dinner University of Chicago;|Northwestern
http://dx.doi.org/10.1101/118646 2017-03-20 CC BY A new organotypic model of synaptic competition reveals activity-dependent localization of C1q Ryuta Koyama|Yuwen Wu|Allison R Bialas|Andrew Thompson|Christina A Welsh|Arnaud Frouin|Chinfei Chen|Beth Stevens University of Tokyo, Japan;|Children's Hospital Boston, United States;|Boston Children's Hospital, Harvard Medical School, United States
http://dx.doi.org/10.1101/118729 2017-03-20 CC BY Preexisting heterogeneities in gene dosage sensitivity shaped sex chromosome evolution in mammals and birds Sahin Naqvi|Daniel W Bellott|David C Page Whitehead Institute, United States
http://dx.doi.org/10.1101/118760 2017-03-20 CC BY Intra- and Inter-individual genetic variation in human ribosomal RNAs Artem Babaian University of British Columbia
http://dx.doi.org/10.1101/118745 2017-03-20 CC BY-NC-ND Temporal fitness fluctuations in experimental Arabidopsis thaliana populations Jinyong Hu|Li Lei|Juliette de Meaux Chinese Academy of Science;|University of Minnesota;|University of Cologne
http://dx.doi.org/10.1101/118372 2017-03-20 Genetics CC BY Genomic inferences of domestication events are corroborated by written records in Brassica rapa XInshuai Qi|Hong An|Aaron Ragsdale|Tara Hall|Ryan N Gutenkunst|J Chris Pires|Michael S. Barker University of Arizona;|University of Missouri
http://dx.doi.org/10.1101/118497 2017-03-20 Neuroscience Mapping protein interactions of sodium channel NaV1.7 using epitope-tagged gene targeted mice Alexandros H Kanellopoulos|Jennifer Koenig|Honglei Huang|Martina Pyrski|Queensta Millet|Stephane Lolignier|Toru Morohashi|Samuel J Gossage|Maude Jay|John Linley|Georgios Baskozos|Benedikt Kessler|James J Cox|Frank Zufall|John N Wood|Jing Zhao University College London;|University of Oxford;|Saarland University;|UCL
http://dx.doi.org/10.1101/118554 2017-03-20 Biophysics CC BY Long-Term Imaging of Cellular Forces with High Precision by Elastic Resonator Interference Stress Microscopy Nils M Kronenberg|Philipp Liehm|Anja Steude|Johanna A Knipper|Jessica G Borger|Giuliano Scarcelli|Kristian Franze|Simon J Powis|Malte C Gather University of St Andrews;|University of Edinburgh;|University of Maryland;|University of Cambridge
http://dx.doi.org/10.1101/117812 2017-03-20 Bioinformatics CC BY-NC Identifiers for the 21st century: How to design, provision, and reuse persistent identifiers to maximize utility and impact of life science data Julie McMurry|Navtej Juty|Niklas Blomberg|Anthony Burdett|Tom Conlin|Nathalie Conte|Melanie Courtot|John Deck|Michel Dumontier|Donal Fellows|Alejandra Gonzalez-Beltran|Philipp Gormanns|Jeffrey Grethe|Janna Hastings|Henning Hermjakob|Jean-Karim Heriche|Jon Ison|Rafael Jimenez|Simon Jupp|John Kunze|Camille Laibe|Nicolas Le Novere|James Robert Malone|Maria-Jesus Martin|Jo McEntyre|Chris Morris|Juha Muilu|Wolfgang Mueller|Philippe Rocca-Serra|Susanna-Assunta Sansone|Murat Sariyar|Jacky Snoep|Natalie J Stanford|Stian Soiland-Reyes|Neil Swainston|Nicole Washington|Alan Williams|Sarala Wimalaratne|Lilly Winfree|Katy Wolstencroft|Carole Goble|Christopher Mungall|Melissa Haendel|Helen Parkinson Dept of Medical Informatics and Epidemiology and OHSU Library, Oregon Health & Science University;|EMBL-EBI, European Molecular Biology Laboratory, Wellcome Trust Genome Campus;|ELIXIR Hub, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom;|Berkeley Natural History Museums, University of California at Berkeley;|Center for Biomedical Informatics Research, Stanford University, Stanford, California, USA;|School of Computer Science, The University of Manchester, Manchester, United Kingdom;|Oxford e-Research Centre, University of Oxford, Oxford, United Kingdom;|Helmholtz Centre Munich-German Research Center for Environmental Health;|Center for Research in Biological Systems, University of California San Diego, La Jolla, California,;|Babraham Institute, Cambridge, United Kingdom;|European Molecular Biology Laboratory, Heidelberg, Germany;|Center for Biological Sequence Analysis, Dept of Systems Biology, Technical University of Denmark;|California Digital Library (CDL);|STFC, Daresbury Laboratory, Warrington, United Kingdom;|University Medical Center Groningen and Groningen Bioinformatics Center, U of Groningen;|SDBV, HITS, Heidelberg, Germany;|Institute of Pathology, Charite University Medicine Berlin, Berlin, Germany;|MIB, University of Manchester, Manchester, UK; Department of Biochemistry, Stellenbosch University;|Manchester Centre for SYNBIOCHEM, University of Manchester;|Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA, USA;|Leiden Institute of Advanced Computer Science, Leiden University, Leiden, Netherlands
http://dx.doi.org/10.1101/118778 2017-03-20 Bioinformatics Multiplexing droplet-based single cell RNA-sequencing using natural genetic barcodes Hyun Min Kang|Meena Subramaniam|Sasha Targ|Michelle Nguyen|Lenka Maliskova|Eunice Wan|Simon Wong|Lauren Byrnes|Cristina Lanata|Rachel Gate|Sara Mostafavi|Alexander Marson|Noah Zaitlen|Lindsey A Criswell|Jimmie Ye University of Michigan;|UCSF;|University of British Columbia
http://dx.doi.org/10.1101/118810 2017-03-20 Genomics CC BY MTAG: Multi-Trait Analysis of GWAS Patrick Turley|Raymond K. Walters|Omeed Maghzian|Aysu Okbay|James J. Lee|Mark Alan Fontana|Tuan Anh Nguyen-Viet|Nicholas A. Furlotte|Patrik Magnusson|Sven Oskarsson|Magnus Johannesson|Peter M. Visscher|David Laibson|David Cesarini|Benjamin Neale|Daniel J. Benjamin Massachusetts General Hospital;|Harvard University;|Vrije Universiteit Amsterdam;|University of Minnesota;|Hospital for Special Surgery;|University of Southern California;|23andMe, Inc.;|Karolinska Institutet;|Uppsala Universitet;|Stockholm School of Economics;|University of Queensland;|New York University
http://dx.doi.org/10.1101/118786 2017-03-20 Genomics CC BY-NC-ND Chromatin-associated RNA sequencing (ChAR-seq) maps genome-wide RNA-to-DNA contacts Jason C. Bell|David Jukam|Nicole A Teran|Viviana I Risca|Owen K Smith|Whitney L Johnson|Jan Skotheim|William J Greenleaf|Aaron Straight Stanford University
http://dx.doi.org/10.1101/118802 2017-03-21 CC BY-NC CoGe LoadExp+: A web-based suite that integrates next-gen sequencing data analysis workflows and visualization Jeffrey W. Grover|Matthew Bomhoff|Sean Davey|Brian D. Gregory|Rebecca A. Mosher|Eric Lyons University of Arizona;|University of Pennsylvania
http://dx.doi.org/10.1101/119115 2017-03-21 Reversing the Thyroid Hormone Mediated Repression of a HSV-1 Promoter through Computationally Guided Site Directed Mutagenesis Robert William Figliozzi|Feng Chen|Victor Hsia Univ. Maryland Eastern Shore
http://dx.doi.org/10.1101/118109 2017-03-21 CC BY-NC-ND Divergent In vitro MIC Characteristics and underlying isogenic mutations in host-specialized Pseudomonas aeruginosa Xuan Qin|Alexander L Greninger|Chuan Zhou|Amanda Adler|Shuhua Yuan|Danielle M Zerr Seattle Children's Hospital, University of Washington;|University of Washington;|Seattle Children's Hospital;|Shanghai Children's Medical Center
http://dx.doi.org/10.1101/118695 2017-03-21 CC BY-NC-ND Identifying drivers of parallel evolution: A regression model approach Susan F Bailey|Qianyun Guo|Thomas Bataillon Clarkson University;|Aarhus University
http://dx.doi.org/10.1101/119016 2017-03-21 CC BY Preexisting heterogeneities in gene dosage sensitivity shaped sex chromosome evolution in mammals and birds Sahin Naqvi|Daniel W Bellott|David C Page Whitehead Institute, United States
http://dx.doi.org/10.1101/119081 2017-03-21 CC BY-NC-ND Unaware processing of tools in the neural system for object-directed action representation Marco Tettamanti|Francesca Conca|Andrea Falini|Daniela Perani IRCCS Scientific Institute San Raffaele, Milano, Italy;|Vita-Salute San Raffaele University, Milano, Italy
http://dx.doi.org/10.1101/119073 2017-03-21 Neuroscience CC BY-NC Prior expectations induce pre-stimulus sensory templates Peter Kok|Pim Mostert|Floris P De Lange Princeton University;|Radboud University
http://dx.doi.org/10.1101/118968 2017-03-21 Neuroscience CC BY Assessing dynamic functional connectivity in heterogeneous samples Brieuc C L Lehmann|Simon R White|Richard N Henson|Linda Geerligs MRC Biostatistics Unit, University of Cambridge;|MRC Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/092593 2017-03-21 Ecology CC BY-NC-ND Exploring The Role Of Competition Induced By Non-Vaccine Serotypes For Herd Protection Giovanni Masala|Marc Lipsitch|Christian Bottomley|Stefan Flasche LSHTM;|Harvard
http://dx.doi.org/10.1101/118901 2017-03-21 Bioinformatics SIMLR: A Tool For Large-Scale Single-Cell Analysis By Multi-Kernel Learning Bo Wang|Daniele Ramazzotti|Luca De Sano|Junjie Zhu|Emma Pierson|Serafim Batzoglou Department of Computer Science, Stanford University, Stanford, CA, USA;|Stanford University;|University of Milan-Bicocca;|Department of Electrical Engineering, Stanford University, Stanford, CA, USA
http://dx.doi.org/10.1101/118919 2017-03-21 Bioinformatics CC BY-ND BEARscc: Robustness Of Single-Cell Clusters Determined Using Simulated Technical Replicates David T Severson|Richard P Owen|Michael J White|Xin Lu|Benjamin Schuster-Boeckler University of Oxford
http://dx.doi.org/10.1101/118836 2017-03-21 Evolutionary Biology MSAP In Tiger Snakes: Island Populations Are Epigenetically More Divergent Carlos M Rodriguez Lopez|Moumouni Konate|Vicki A Thomson University of Adelaide
http://dx.doi.org/10.1101/118794 2017-03-21 Evolutionary Biology CC BY Selective sweep analysis using village dogs highlights the pivotal role of the neural crest in dog domestication Amanda L. Pendleton|Feichen Shen|Angela M. Taravella|Sarah Emery|Krishna R. Veeramah|Adam R. Boyko|Jeffrey M. Kidd University of Michigan;|Cornell University
http://dx.doi.org/10.1101/118943 2017-03-21 Physiology CC BY-NC-ND DBD-RCO: Derivative Based Detection And Reverse Combinatorial Optimization To Improve Heart Beat Detection For Wearable Devices Andrea Bizzego|Cesare Furlanello University of Trento;|FBK
http://dx.doi.org/10.1101/118950 2017-03-21 Genomics Investigating The Genetic Regulation Of The Expression Of 63 Lipid Metabolism Genes In The Pig Skeletal Muscle Rayner Gonzalez-Prendes|Raquel Quintanilla|Marcel Amills Center for Research in Agricultural Genomics;|Institut de Recerca i Tecnologia Agroalimentaries
http://dx.doi.org/10.1101/118604 2017-03-21 Biophysics Dynamics Of Dynein At Microtubule Plus-Ends And The Cortex During The Division Of The C. elegans Zygote Ruddi Rodriguez Garcia|Laurent Chesneau|Sylvain Pastezeur|Julien Roul|Marc Tramier|Jacques Pecreaux UMR6290 CNRS / University Rennes 1, France;|IGDR UMR 6290 CNRS / Univ. Rennes 1
http://dx.doi.org/10.1101/118935 2017-03-21 Developmental Biology CC BY-NC-ND Normal Spindle Positioning In The Absence Of EBPs And Dynein Plus-End Tracking In C. elegans Ruben Schmidt|Anna A.A. Akhmanova|Sander S.J.L. van den Heuvel Universiteit Utrecht
http://dx.doi.org/10.1101/118927 2017-03-21 Bioinformatics CC BY-ND SmartScope2: Simultaneous Imaging and Reconstruction of Neuronal Morphology Brian Long|Zhi Zhou|Ali Cetin|Jonathan Ting|Ryder Gwinn|Bosiljka Tasic|Tanya Daigle|Ed Lein|Hongkui Zeng|Peter Saggau|Mike Hawrylycz|Hanchuan Peng Allen Institute for Brain Science;|Swedish Neuroscience Institute
http://dx.doi.org/10.1101/119131 2017-03-22 Bioinformatics CC BY-NC-ND CRISPulator: A Discrete Simulation Tool For Pooled Genetic Screens Tamas Nagy|Martin Kampmann University of California, San Francisco
http://dx.doi.org/10.1101/119214 2017-03-22 Bioinformatics CC BY-NC-ND clusterTools: Proximity Searches For Functional Elements To Identify Putative Biosynthetic Gene Clusters Emmanuel LC de los Santos|Gregory L Challis University of Warwick
http://dx.doi.org/10.1101/119156 2017-03-22 Molecular Biology CC BY-NC-ND Genetic And Epigenetic Insight Into Morphospecies In A Reef Coral James Dimond|Sanoosh Gamblewood|Steven Roberts University of Washington;|Western Washington University
http://dx.doi.org/10.1101/119206 2017-03-22 Genomics CC BY-NC Multi-Tissue DNA Methylation Age Predictor In Mouse Thomas M Stubbs|Marc Jan Bonder|Anne-Katrien Stark|Felix Krueger|Ferdinand von Meyenn|Oliver Stegle|Wolf Reik Epigenetics Programme, The Babraham Institute;|European Bioinformatics Institute, European Molecular Biology Laboratory;|Immunology Programme, The Babraham Institute;|Bioinformatics Group, The Babraham Institute
http://dx.doi.org/10.1101/119313 2017-03-22 Bioengineering CC BY-NC-ND Protein Fingerprinting With A Binary Alphabet G Sampath Unaffiliated
http://dx.doi.org/10.1101/118976 2017-03-22 Epidemiology CC BY-NC-ND Assessing The Efficiency Of Catch-Up Campaigns For Introduction Of Pneumococcal Conjugate Vaccine; A Modelling Study Based On Data From Kilifi, Kenya Stefan Flasche|John Ojal|Olivier Le Polain De Waroux|Mark Otiende|Katherine O'Brien|Moses Kiti|D. James Nokes|W John Edmunds|J Anthony G Scott LSHTM;|Kenya Medical Research Institute (KEMRI)-Wellcome Trust Research Programme;|London School of Hygiene and Tropical Medicine;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/119396 2017-03-22 Synthetic Biology Data-Driven Prediction of CRISPR-Based Transcription Regulation for Programmable Control of Metabolic Flux Jiayuan Sheng|Weihua Guo|Christine Ash|Brendan Freitas|Mitchell Paoletti|Xueyang Feng Virginia Tech
http://dx.doi.org/10.1101/119305 2017-03-22 Genomics Antibody-Mediated Depletion Of Protein Variant Expression In Living Cells (Protein Interference) Vijay Kumar Ulaganathan|Axel Ullrich Max Planck Institute of Biochemistry
http://dx.doi.org/10.1101/119248 2017-03-22 Pharmacology and Toxicology CC BY-NC-ND Toxicity Of Chlordane At Early Developmental Stage Of Zebrafish Jingxuan Xiong Jianghan University
http://dx.doi.org/10.1101/119354 2017-03-22 Microbiology Expanding Gene Families Helps Generate The Metabolic Robustness Required For Antibiotic Biosynthesis Jana K Schniete|Pablo Cruz-Morales|Nelly Selem|Lorena T Fernandez-Martinez|Iain S Hunter|Francisco Barona-Gomez|Paul Hoskisson University of Strathclyde;|Langebio;|Edgehill University
http://dx.doi.org/10.1101/119123 2017-03-22 Biochemistry Thermal Decomposition Of The Amino Acids Glycine, Cysteine, Aspartic Acid, Asparagine, Glutamic Acid, Glutamine, Arginine And Histidine Ingrid M Weiss|Christina Muth|Robert Drumm|Helmut O K Kirchner University of Stuttgart;|INM - Leibniz Institute for New Materials
http://dx.doi.org/10.1101/119230 2017-03-22 Zoology CC BY-NC-ND Approach To Insect Wing Shape And Deformation Field Measurement Duo Yin|Zhen Wei|Zeyu Wang Chongqing University
http://dx.doi.org/10.1101/119362 2017-03-22 Neuroscience CC BY-NC The Cross-Frequency Mediation Mechanism Of Intracortical Information Transactions Roberto D Pascual-Marqui|Pascal Faber|Patricia Milz|Kieko Kochi|Toshihiko Kinoshita|Keiichiro Nishida|Masafumi Yoshimura|Yuichi Kitaura|Shunichiro Ikeda|Ryouhei Ishii KEY Institute for Brain-Mind Research, Univ Zurich; Neuropsychiatry, Kansai Medical Univ;|The KEY Institute for Brain-Mind Research;|Department of Neuropsychiatry, Kansai Medical University, Osaka, Japan;|Department of Psychiatry, Osaka University Graduate School of Medicine, Osaka, Japan
http://dx.doi.org/10.1101/119289 2017-03-22 Neuroscience CC BY-NC-ND Light Sheet Theta Microscopy for High-resolution Quantitative Imaging of Large Biological Systems Bianca Migliori|Malika S Datta|Mehmet C Apak|Raju Tomer Columbia University
http://dx.doi.org/10.1101/119388 2017-03-22 Physiology Marine Fish Intestine Responds To Ocean Acidification Producing More Carbonate Aggregates Silvia F Gregorio|Ignacio Ruiz-Jarabo|Edison SM Carvalho|Juan Fuentes Centre of Marine Sciences (CCMar), Universidade do Algarve, Campus de Gambelas
http://dx.doi.org/10.1101/119297 2017-03-22 Immunology Polymersomes Targeting Mononuclear Phagocytes Loris Rizzello|James D. Robertson|Philip M Elks|Alessandro Poma|Nooshin Daneshpour|Tomasz K Prajsnar|Dimitrios Evangelopoulos|Julio Ortiz Canseco|Simon Yona|Helen M Marriott|David H Dockrell|Simon Foster|Bruno De Geest|Stefaan De Koker|Timothy McHugh|Stephen A Renshaw|Giuseppe Battaglia University College London;|University of Sheffield;|University of Ghent
http://dx.doi.org/10.1101/119271 2017-03-22 Bioinformatics CC BY Assembly Of Whole-Chromosome Pseudomolecules For Polyploid Plant Genomes Using Outcrossed Mapping Populations Chenxi Zhou|Bode Olukolu|Dorcus Gemenet|Shan Wu|Wolfgang Gruneberg|Minh Duc Cao|Zhangjun Fei|Zhao-Bang Zeng|Andrew George|Awais Khan|Craig Yencho|Lachlan Coin Institute for Molecular Bioscience, University of Queensland;|Department of Horticulture, North Carolina State University;|International Potato Center;|Boyce Thompson Institute, Cornell University;|Department of Statistics and Bioinformatics Research Center, North Carolina State University;|Data61, CSIRO;|Department of Plant Pathology and Plant-microbe Biology, Cornell University
http://dx.doi.org/10.1101/119032 2017-03-22 Evolutionary Biology CC BY-NC-ND The physical boundaries of public goods cooperation between surface-attached bacterial cells Michael Weigert|Rolf Kummerli University of Zurich
http://dx.doi.org/10.1101/119164 2017-03-22 Genetics CC BY Estimation Of Genomic Prediction Accuracy From Reference Populations With Varying Degrees Of Relationship Sang Hong Lee|Sam Clark|Julius van der Werf University of New England;|UNE
http://dx.doi.org/10.1101/118992 2017-03-22 Bioinformatics CC BY-NC UBiT2: a client-side web-application for gene expression data analysis Jean Fan|David Fan|Kamil Slowikowski|Nils Gehlenborg|Peter Kharchenko Harvard Medical School;|Princeton University
http://dx.doi.org/10.1101/119255 2017-03-22 Genomics CC BY Single-Cell Transcriptome Sequencing Of 18,787 Human Induced Pluripotent Stem Cells Identifies Differentially Primed Subpopulations Quan Nguyen|Samuel Lukowski|Han Chiu|Anne Senabouth|Timothy Bruxner|Angelika Christ|Nathan Palpant|Joseph Powell Institute for Molecular Bioscience
http://dx.doi.org/10.1101/119222 2017-03-22 Bioinformatics CC BY-ND Gene Length And Detection Bias In Single Cell RNA Sequencing Protocols Belinda Phipson|Luke Zappia|Alicia Oshlack Murdoch Children's Research Institute;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/119560 2017-03-22 Ecological drivers of body size evolution and sexual size dimorphism in short-horned grasshoppers (Orthoptera: Acrididae) Vicente Garcia-Navas|Victor Noguerales|Pedro Javier Cordero|Joaquin Ortego EBD-CSIC;|IREC
http://dx.doi.org/10.1101/119636 2017-03-22 CC BY-NC Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets Soroush Samadian|Jeff P. Bruce|Trevor J. Pugh Princess Margaret Cancer Centre
http://dx.doi.org/10.1101/119461 2017-03-22 CC BY-NC-ND Profiling copy number variation and disease associations from 50,726 DiscovEHR Study exomes Evan K Maxwell|Jonathan S Packer|Colm O'Dushlaine|Shane E McCarthy|Abby Hare-Harris|Jeffrey Staples|Claudia Gonzaga-Jauregui|Samantha N Fetterolf|W Andrew Faucett|Joseph B Leader|Andres Moreno-De-Luca|Giusy Della Gatta|Margaret Scollan|Trikaldarshi Persaud|John Penn|Alicia Hawes|Xiaodong Bai|Sarah Wolf|Alexander E Lopez|Rick Ulloa|Christopher Spangel|Rostislav Chernomorksy|Ingrid B Borecki|Frederick E Dewey|Aris N Economides|John D Overton|H Lester Kirchner|Michael F Murray|Marylyn D Ritchie|David J Carey|David H Ledbetter|George D Yancopoulos|Alan R Shuldiner|Aris Baras|Omri Gottesman|Lukas Habegger|Christa Lese Martin|Jeffrey G Reid Regeneron Genetics Center;|Geisinger Health System
http://dx.doi.org/10.1101/116855 2017-03-22 CC BY-NC-ND Decomposing leaf mass into photosynthetic and structural components explains divergent patterns of trait variation within and among plant species Masatoshi Katabuchi|Kaoru Kitajima|S. Joseph Wright|Sunshine A. Van Bael|Jeanne L.D. Osnas|Jeremy W. Lichstein University of Florida;|Kyoto University;|Smithsonian Tropical Research Institute;|Tulane University
http://dx.doi.org/10.1101/119370 2017-03-22 CC BY-NC The Readability Of Scientific Texts Is Decreasing Over Time Pontus Plaven-Sigray|Granville James Matheson|Bjorn Christian Schiffler|William Hedley Thompson Karolinska Institutet
http://dx.doi.org/10.1101/119552 2017-03-22 CC BY-ND Alternative REST Splicing Underappreciated Guo-Lin Chen|Gregory M Miller Northeastern University
http://dx.doi.org/10.1101/119586 2017-03-22 CC BY Continuum approximations for lattice-free multi-species models of collective cell migration Oleksii Matsiaka|Catherine Penington|Ruth E Baker|Matthew J Simpson Queensland University of Technology;|University of Oxford;|Queensland Univeristy of Technology
http://dx.doi.org/10.1101/119644 2017-03-22 CC BY-NC-ND The functional anatomy of self-generated and predictable speech Lena K L Oestreich|Thomas J Whitford|Marta I Garrido The University of Queensland;|University of New South Wales
http://dx.doi.org/10.1101/119438 2017-03-22 CC BY-NC-ND A likelihood ratio test for changes in homeolog expression bias Ronald Dutilh Smith|Taliesin J Kinser|Gregory D Smith|Joshua R Puzey The College of William and Mary
http://dx.doi.org/10.1101/119578 2017-03-22 CC BY Distinguishing among modes of convergent adaptation using population genomic data Kristin M Lee|Graham Coop University of California, Davis, United States
http://dx.doi.org/10.1101/119545 2017-03-22 Bioinformatics CC BY-NC-ND Phandango: an interactive viewer for bacterial population genomics. James Hadfield|Nicholas J Croucher|Richard J Goater|Khalil Abudahab|David M Aanensen|Simon R Harris Wellcome Trust Sanger Institute;|Imperial College London;|Centre for Genomic Pathogen Surveillance
http://dx.doi.org/10.1101/119511 2017-03-22 Evolutionary Biology Plant organ evolution revealed by phylotranscriptomics in Arabidopsis Li Lei|Joshua G Steffen|Edward J Osborne|Christopher Toomajian University of Minnesota;|Colby-Sawyer College;|University of Utah;|Kansas State University
http://dx.doi.org/10.1101/119420 2017-03-22 Evolutionary Biology CC BY Pan-genome and phylogeny of Bacillus cereus sensu lato Adam L Bazinet Battelle National Biodefense Institute
http://dx.doi.org/10.1101/119404 2017-03-22 Neuroscience CC BY Two-photon calcium imaging of medial prefrontal cortex and hippocampus without cortical invasion Masanori Matsuzaki|Masashi Kondo|Kenta Kobayashi|Masamichi Ohkura|Junichi Nakai The University of Tokyo, Japan;|Graduate School of Medicine, The University of Tokyo, Japan;|National Institute for Physiological Sciences, Japan;|Saitama University, Japan
http://dx.doi.org/10.1101/119529 2017-03-22 Genomics CC BY-NC-ND Signatures of long-term balancing selection in human genomes Barbara Domingues Bitarello|Cesare de Filippo|Joao Carlos Teixeira|Joshua Schmidt|Philip Kleinert|Diogo Meyer|Aida M Andres Max Planck Institute for Evolutionary Anthropology;|Institut Pasteur;|Max Planck Institute for Molecular Genetics;|University of Sao Paulo
http://dx.doi.org/10.1101/119537 2017-03-22 Neuroscience CC BY-NC-ND Modeling noise mechanisms in neuronal synaptic transmission Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/119180 2017-03-22 Neuroscience CC BY Emergence of an adaptive command for orienting behavior in premotor brainstem neurons of barn owls Fanny Cazettes|Brian J Fischer|Michael V Beckert|Jose L Pena Champalimaud Foundation, Portugal;|Seattle University, United States;|Albert Einstein College of Medicine, United States
http://dx.doi.org/10.1101/119446 2017-03-22 Ecology CC BY-NC-ND PREDICTING COEXISTENCE IN SPECIES WITH CONTINUOUS ONTOGENETIC NICHE SHIFTS AND COMPETITIVE ASYMMETRY Ronald D Bassar|Joseph Travis|Tim Coulson University of Oxford;|Florida State University
http://dx.doi.org/10.1101/119412 2017-03-22 Ecology CC BY-NC-ND Space use and movement of jaguar (Panthera onca) in western Paraguay Roy T McBride|Jeffrey J Thompson Faro Moro Eco Research;|Guyra Paraguay/CONACYT
http://dx.doi.org/10.1101/119503 2017-03-22 Biophysics CC BY The role of coherence in bacterial communication Sarangam Majumdar|Sisir Roy DISIM, University of L Aquila;|National Institute of Advanced Studies
http://dx.doi.org/10.1101/119495 2017-03-22 Genetics CC BY-NC-ND Embryonic loss of human females with partial trisomy 19 identifies region critical for the single active X Barbara R Migeon|Michael A Beer|Hans T Bjornsson The Johns Hopkins University;|The Johns hopkins University
http://dx.doi.org/10.1101/119453 2017-03-22 Neuroscience CC BY-NC-ND Cortical neural activity predicts sensory acuity under optogenetic manipulation. John Briguglio|Mark Aizenberg|Vijay Balasubramanian|Maria Neimark Geffen University of Pennsylvania
http://dx.doi.org/10.1101/119479 2017-03-22 Cancer Biology CC BY-NC-ND Inflammatory Breast Cancer: a model for investigating cluster-based dissemination Mohit Kumar Jolly|Marcelo Boareto|Bisrat G Debeb|Nicola Aceto|Mary C Farach-Carson|Wendy A Woodward|Herbert Levine Rice University;|ETH Zurich;|UT MD Anderson Cancer Center;|University of Basel;|UT Health School of Dentistry
http://dx.doi.org/10.1101/119339 2017-03-22 Cell Biology CC BY-ND Cytosolic ribosomes on the surface of mitochondria Vicki A.M. Gold|Piotr Chroscicki|Piotr Bragoszewski|Agnieszka Chacinska Max Planck Institute of Biophysics;|International Institute of Molecular and Cell Biology
http://dx.doi.org/10.1101/116335 2017-03-22 Bioinformatics CC BY-NC-ND LncATLAS database for subcellular localisation of long noncoding RNAs David Mas-Ponte|Joana Carlevaro-Fita|Emilio Palumbo|Toni Hermoso|Roderic Guigo|Rory Johnson Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology;|Department of Clinical Research, University of Bern, 3008 Bern, Switzerland
http://dx.doi.org/10.1101/119784 2017-03-23 Bioinformatics CC BY Assessing The Reliability Of Spike-In Normalization For Analyses Of Single-Cell RNA Sequencing Data Aaron TL Lun|Fernando J Calero-Nieto|Liora Haim-Vilmovsky|Berthold Gottgens|John C Marioni CRUK Cambridge Institute;|Wellcome Trust and MRC Cambridge Stem Cell Institute;|European Molecular Biology Laboratory - European Bioinformatics Institute
http://dx.doi.org/10.1101/119727 2017-03-23 Genetics CC BY-NC-ND On The Relationship Between Epistasis And Genetic Variance-Heterogeneity Simon K G Forsberg|Orjan Carlborg Uppsala University
http://dx.doi.org/10.1101/119776 2017-03-23 Developmental Biology CC BY-NC-ND Vegetally Localized Vrtn Functions As A Novel Repressor To Modulate bmp2b Transcription During Dorsoventral Patterning In Zebrafish Ming Shao|Min Wang|Yi-Wen Ge|Yan-Jun Zhang|De-Li Shi School of Life Science, Shandong University;|University Pierre et Marie Curie
http://dx.doi.org/10.1101/119719 2017-03-23 Genetics CC BY-NC-ND Sorting & Sequencing Flies By Size: Identification Of Novel TOR Regulators And Parameters For Successful Sorting Katrin Strassburger|Tanja Zoeller|Thomas Sandmann|Svenja Leible|Grainne Kerr|Michael Boutros|Aurelio Teleman German Cancer Research Center (DKFZ);|Uni Freiburg;|Denali Therapeutics;|Novartis
http://dx.doi.org/10.1101/119735 2017-03-23 Evolutionary Biology CC BY-ND Identification And Characterization Of Domesticated Bacterial Transposases Frederic Bertels|Jenna Gallie|Paul B Rainey Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/119792 2017-03-23 Evolutionary Biology CC BY-NC Pathogenic Amino Acid Variants In Mitochondrial Proteins More Frequently Arise In Lineages Closely Related To Human Than In Distantly Related Lineages Galya V. Klink|Georgii A. Bazykin IITP RAS
http://dx.doi.org/10.1101/119693 2017-03-23 Cell Biology CC BY Can Human Embryonic Stem Cell-Derived Stromal Cells Serve A Starting Material For Myoblasts? Yu Ando|Marie Saito|Masakazu Machida|Chikako Noro|Masataka Takahashi|Masashi Toyoda|Akihiro Umezawa National Research Institute for Child Health and Development;|Nihon University;|Tokyo Metropolitan Institute of Gerontology
http://dx.doi.org/10.1101/119701 2017-03-23 Bioengineering CC BY A Microfluidic Module For Real-Time Generation Of Complex Multi-Molecule Temporal Concentration Profiles Kristina Woodruff|Sebastian Josef Maerkl Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/120006 2017-03-23 CC BY-NC-ND An evolutionary module in central metabolism Andrew F Schober|Christine Ingle|Junyoung O Park|Li Chen|Joshua D Rabinowitz|Ivan Junier|Olivier Rivoire|Kimberly A Reynolds University of Texas Southwestern Medical Center;|Princeton University;|CNRS and Universite Grenoble Alpes TIMC-IMAG;|CNRS
http://dx.doi.org/10.1101/119891 2017-03-23 CC BY-NC Transcripts evolutionary conservation and structural dynamics give insights into the role of alternative splicing for the JNK family. Adel Ait-hamlat|Lelia Polit|Hugues Richard|Elodie Laine Sorbonne Universites, UPMC University Paris 06, CNRS, IBPS, UMR 7238, LCQB
http://dx.doi.org/10.1101/119925 2017-03-23 CC BY The Rice XA21 Ectodomain Fused to the Arabidopsis EFR Cytoplasmic Domain Confers Resistance to Xanthomonas oryzae pv. oryzae Nicholas C Thomas|Nir Oksenberg|Furong Liu|Daniel Caddell|Alina Nalyvayko|Yen Nguyen|Benjamin Schwessinger|Pamela Ronald Univsersity of Calofirnia, Riverside, Riverside, CA 92521, USA;|University of California, Davis, Davis, California 95616, USA;|The Australian National University, Research School of Biology, Acton ACT 2601, Australia
http://dx.doi.org/10.1101/119966 2017-03-23 CC BY-NC Behavioral decoding of Drosophila locomotion in a circular arena Shuang Qiu|R Meldrum Robertson|Chengfeng Xiao Department of Biology, Queen's University
http://dx.doi.org/10.1101/119933 2017-03-23 Genomic analysis of human polymorphisms affecting drug-protein interactions Oriol Pich i Rosello|Anna V Vlasova|Polina A Shichkova|Yuri Markov|Peter K Vlasov|Fyodor A Kondrashov Universitat de Barcelona (UB), Centre for Genomic Regulation (CRG), Universitat Pompeu Fabra (UPF);|Universitat de Barcelona (UB), Centre for Genomic Regulation (CRG);|Moscow Institute of Physics and Technology (MIPT), Skolkovo Institute of Science and Technology;|National Research University Higher School of Economics;|Centre for Genomic Regulation (CRG), Universitat Pompeu Fabra (UPF);|CRG, Institució Catalana de Recerca i Estudis Avançats (ICREA)
http://dx.doi.org/10.1101/119917 2017-03-23 Escape from bacterial diversity: potential enemy release in invading yellow starthistle (Centaurea solstitialis) microbiomes Patricia Lu-Irving|Julia Harencar|Hailey Sounart|Shana R Welles|Sarah M Swope|David A Baltrus|Katrina M Dlugosch University of Arizona;|California Polytechnic State University, San Luis Obispo;|Mills College
http://dx.doi.org/10.1101/119941 2017-03-23 CC BY Novel Plasmodium falciparum metabolic network reconstruction identifies shifts associated with clinical antimalarial resistance Maureen A. Carey|Jason A Papin|Jennifer Guler University of Virginia
http://dx.doi.org/10.1101/119958 2017-03-23 Weak epistasis may drive adaptation in recombining bacteria Brian J Arnold|Michael Gutmann|Yonatan Grad|Sam K Sheppard|Jukka Corander|Marc Lipsitch|William P Hanage Harvard T. H. Chan School of Public Health;|University of Edinburgh;|University of Bath;|University of Oslo
http://dx.doi.org/10.1101/117648 2017-03-23 CC BY-NC-ND Genomic changes associated with reproductive and migratory ecotypes in sockeye salmon (Oncorhynchus nerka) Andrew J Veale|Michael A Russello University of British Columbia
http://dx.doi.org/10.1101/116236 2017-03-23 Rapid spatial learning controls instinctive defensive behavior in mice Ruben Vale|Dominic Evans|Tiago Branco UCL Sainsbury Wellcome Centre
http://dx.doi.org/10.1101/119990 2017-03-23 Integrated Structure-Transcription analysis of small molecules reveals widespread noise in drug-induced transcriptional responses and a transcriptional signature for drug-induced phospholipidosis Francesco Sirci|Francesco Napolitano|Sandra Pisonero Vaquero|Diego Carrella|Diego L. Medina|Diego di Bernardo TIGEM
http://dx.doi.org/10.1101/119834 2017-03-23 CC BY-NC From word models to executable models of signaling networks using automated assembly Benjamin M Gyori|John A Bachman|Kartik Subramanian|Jeremy L Muhlich|Lucian Galescu|Peter K Sorger Harvard Medical School;|Institute for Human and Machine Cognition
http://dx.doi.org/10.1101/119982 2017-03-23 CC BY-NC-ND The acute toxicity of Oxydemeton-methyl in zebrafish Guofeng Jia|Xiecheng Liu Qingdao Municipal Hospital
http://dx.doi.org/10.1101/119867 2017-03-23 CC BY Size uniformity of animal cells is actively maintained by a p38 MAPK-dependent regulation of G1-length Shixuan Liu|Miriam Bracha Ginzberg|Nish Patel|Marc Hild|Bosco Leung|Yen-Chi Chen|Zhengda Li|Nancy Chang|Shulamit Diena|Yuan Wang|William Trimble|Larry Wasserman|Jeremy Jenkins|Marc W Kirschner|Ran Kafri The Hospital for Sick Children, Canada;|Novartis Institutes for Biomedical Research, Canada;|University of Washington, Canada;|University of Michigan, United States;|Novartis Institutes for BioMedical Research, Canada;|The Hospital for Sick Children, University of Toronto, United States;|Carnegie Mellon University, United States;|Harvard Medical School, Canada
http://dx.doi.org/10.1101/119099 2017-03-23 CC BY ModuleDiscoverer: Identification of regulatory modules in protein-protein interaction networks. Sebastian Vlaic|Christian Tokarski-Schnelle|Mika Gustafsson|Uta Dahmen|Reinhard Guthke|Stefan Schuster Leibniz Institute for Natural Product Research and Infection Biology - Hans-Knöll-Institute;|Linköping University;|University Hospital Jena, Friedrich-Schiller-University;|Friedrich-Schiller-University
http://dx.doi.org/10.1101/110478 2017-03-23 Animal Behavior and Cognition CC BY-NC A fully automated computer based Skinner box for testing learning and memory in zebrafish Alistair J Brock|Ari Sudwarts|Jennifer Daggett|Matthew O Parker|Caroline H Brennan Queen Mary University of London;|University of Portsmouth
http://dx.doi.org/10.1101/119677 2017-03-23 Cell Biology CC BY-NC-ND Conserved roles of RECQ-like helicases Sgs1 and BLM in preventing R-loop induced genome instability Carolina A Novoa|Emily Yun-Chia Chang|Maria J Aristizabal|Yan Coulombe|Romulo Segovia|Yaoqing Shen|Christelle Keong|Steven JM Jones|Jean-Yves Masson|Michael S Kobor|Peter C Stirling BC Cancer Agency;|University of British Columbia;|Universite de Laval;|Michael Smith Genome Sciences Centre
http://dx.doi.org/10.1101/117390 2017-03-23 Neuroscience CC BY Treating the lungs via the brain: Mechanisms underpinning improvements in breathlessness with pulmonary rehabilitation. Mari Herigstad|Olivia Faull|Anja Hayen|Eleanor Evans|Maxine Hardinge|Katja Wiech|Kyle T S Pattinson University of Sheffield;|University of Oxford;|University of Reading;|Oxford Univeristy Hospitals NHS Trust
http://dx.doi.org/10.1101/119818 2017-03-23 Cancer Biology CC BY-NC-ND Selectivity profile of the poly(ADP-ribose) polymerase (PARP) inhibitor, A-966492 Ann-Gerd Thorsell|Herwig Schuler Karolinska Institutet
http://dx.doi.org/10.1101/119768 2017-03-23 Evolutionary Biology CC BY-NC-ND A Molecular Portrait Of De Novo Genes Nikolaos Vakirlis|Alex S Hebert|Dana A Opulente|Guillaume Achaz|Chris Todd Hittinger|Gilles Fischer|Josh J Coon|Ingrid Lafontaine UPMC Univ. Paris 06;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/119669 2017-03-23 Biophysics On the mechanism of long-range alignment order of fibroblasts Xuefei Li|Rajesh Balagam|Ting-Fang He|Peter P. Lee|Oleg A. Igoshin|Herbert Levine Center for Theoretical Biological Physics, Rice University;|Department of Bioengineering, Rice University;|Immuno-Oncology, City of Hope Comprehensive Cancer Center
http://dx.doi.org/10.1101/119743 2017-03-23 Evolutionary Biology CC BY-ND Discovering Complete Quasispecies In Bacterial Genomes Frederic Bertels|Chaitanya S Gokhale|Arne Traulsen Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/119594 2017-03-23 Neuroscience CC BY Neurodesign: Optimal experimental designs for task fMRI Joke Durnez|Ross Blair|Russell Poldrack Stanford University
http://dx.doi.org/10.1101/120998 2017-03-27 Genomics CC BY-NC The Genome Of The Contractile Demosponge Tethya wilhelma And The Evolution Of Metazoan Neural Signalling Pathways Warren R Francis|Michael Eitel|Sergio Vargas|Marcin Adamski|Steven HD Haddock|Stefan Krebs|Helmut Blum|Gert Worheide LMU Munich;|Australian National University;|MBARI
http://dx.doi.org/10.1101/120931 2017-03-27 Evolutionary Biology Exact And Approximate Limit Behaviour Of The Yule Tree's Cophenetic Index Krzysztof Bartoszek Uppsala University
http://dx.doi.org/10.1101/120923 2017-03-27 Bioinformatics CC BY-NC-ND Genome Build Information Is An Essential Part Of Genomic Track Files Chakravarthi Kanduri|Diana Domanska|Eivind Hovig|Geir Kjetil Sandve University of Oslo;|Department of Tumor Biology, Institute for Cancer Research, University of Oslo
http://dx.doi.org/10.1101/120964 2017-03-27 Systems Biology A Map Of Genetic Interactions In Cancer Cells Benedikt Rauscher|Florian Heigwer|Luisa Henkel|Thomas Hielscher|Michael Boutros German Cancer Research Center (DKFZ) and Heidelberg University;|German cancer Research Center (DKFZ);|German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/087502 2017-03-27 Neuroscience CC BY-NC-ND Striatal Action-Value Neurons Reconsidered Lotem Elber-Dorozko|Yonatan Loewenstein Hebrew University
http://dx.doi.org/10.1101/121020 2017-03-27 Neuroscience CC BY-NC-ND Towards Human Super EEG Lucy L. W. Owen|Jeremy R. Manning Dartmouth College
http://dx.doi.org/10.1101/120899 2017-03-26 Genetics CC BY Adjusting For Principal Components Of Molecular Phenotypes Induces Replicating False Positives Andrew Dahl|Vincent Guillemot|Joel Mefford|Hugues Aschard|Noah Zaitlen University of California, San Francisco;|Institut Pasteur
http://dx.doi.org/10.1101/120857 2017-03-26 Neuroscience CC BY Anatomical And Functional Organization Of The Human Substantia Nigra And Its Connections Yu Zhang|Kevin Larcher|Bratislav Misic|Alain Dagher McGill University
http://dx.doi.org/10.1101/120865 2017-03-26 Evolutionary Biology CC BY Polygenicity And Epistasis Underlie Fitness-Proximal Traits In The Caenorhabditis elegans Multiparental Experimental Evolution (CeMEE) Panel Luke M Noble|Ivo Chelo|Thiago Guzella|Bruno Afonso|David D Riccardi|Patrick Ammerman|Adel Dayarian|Sara Carvalho|Anna Crist|Ania Pino-Querido|Boris Shraiman|Matthew V Rockman|Henrique Teotonio New York University;|Instituto Gulbenkian de Ciência;|École Normale Supérieure;|University of California, Santa Barbara
http://dx.doi.org/10.1101/120873 2017-03-26 Cancer Biology CC BY-NC-ND Multi-omics Biomarker Pipeline Reveals Elevated Levels Of Protein-Glutamine Gamma-Glutamyltransferase 4 In Seminal Plasma Of Patients With Prostate Cancer Andrei P. Drabovich|Punit Saraon|Theano D. Karakosta|Apostolos Dimitromanolakis|Eleftherios P. Diamandis|Eric M. Hyndman|Keith Jarvi University of Toronto;|University Health Network;|Mount Sinai Hospital;|Prostate Cancer Centre, Southern Alberta Institute of Urology
http://dx.doi.org/10.1101/120642 2017-03-26 Cell Biology CC BY Distinguishing Signal From Autofluorescence In Cryogenic Correlated Light And Electron Microscopy Of Mammalian Cells Stephen D Carter|Shrawan K Mageswaran|Zachary J Farino|Joao I Mamede|Catherine M Oikonomou|Thomas J Hope|Zachary Freyberg|Grant J Jensen California Institute of Technology;|University of Pittsburgh;|Northwestern University
http://dx.doi.org/10.1101/120667 2017-03-26 Systems Biology Optimal Growth Of Microbes On Mixed Carbon Sources Xin Wang|Chao Tang University of Oxford;|Peking University
http://dx.doi.org/10.1101/120261 2017-03-26 Bioinformatics CC BY SNP genotyping and parameter estimation in polyploids using low-coverage sequencing data Paul Blischak|Laura Kubatko|Andrea Wolfe The Ohio State University
http://dx.doi.org/10.1101/120675 2017-03-26 Ecology CC BY-NC-ND Demographic variability in spruce-fir-beech forest stands in Europe Guillaume Lagarrigues|Franck Jabot|Andreas Zingg|Jean-Claude Gegout|Matija Klopcic|Benoit Courbaud None;|IRSTEA;|WSL;|AgroParisTech;|University of Ljubljana
http://dx.doi.org/10.1101/120659 2017-03-26 Cell Biology CC BY Mitochondrial replacement in an iPSC model of Leber Hereditary Optic Neuropathy. Raymond Wong|Shiang Y Lim|Sandy SC Hung|Stacey Jackson|Shahnaz Khan|Nicole J Van Bergen|Elisabeth De Smit|Helena H Liang|Lisa S Kearns|Linda Clarke|David A Mackey|Alex Hewitt|Ian A Trounce|Alice Pebay Centre for Eye Research Australia;|O'Brien Institute Department, St Vincent s Institute of Medical Research;|Lions Eye Institute, University of Western Australia;|University of Tasmania
http://dx.doi.org/10.1101/084152 2017-03-26 Neuroscience CC BY-NC-ND Conditioning by Subthreshold Synaptic Input Changes the Characteristic Firing Pattern of CA3 Hippocampal Neurons Saray Soldado Magraner|Federico Brandalise|Suraj Honnuraiah|Michael Pfeiffer|Urs Gerber|Rodney Douglas Institute of Neuroinformatics Zurich;|Center for Learning and Memory, University of Texas at Austin;|Institute of Neuroinformatics, University of Zurich and ETH Zurich, Switzerland;|Brain Research Institute, University of Zurich, Switzerland
http://dx.doi.org/10.1101/120725 2017-03-26 Neuroscience CC BY Context-Dependent Attractor Dynamics in Visual Cortex Satohiro Tajima|Kowa Koida|Chihiro I Tajima|Hideyuki Suzuki|Kazuyuki Aihara|Hidehiko Komatsu University of Geneva, Switzerland;|Toyohashi University of Technology, Japan;|The University of Tokyo, Japan;|Osaka University, Japan;|University of Tokyo, Japan;|National Institute for Physiological Sciences, Japan
http://dx.doi.org/10.1101/120733 2017-03-26 Systems Biology CC BY-NC-ND A Dynamic Bioenergetic Model For Coral-Symbiodinium Symbioses And Coral Bleaching As An Alternate Stable State Ross Cunning|Erik B. Muller|Ruth D. Gates|Roger M. Nisbet Hawaii Institute of Marine Biology, University of Hawaii at Manoa;|Department of Ecology, Evolution, and Marine Biology, University of California, Santa Barbara
http://dx.doi.org/10.1101/120709 2017-03-26 Cancer Biology CC BY Exome-Capture RNA-Sequencing Of Decade-Old Breast Cancers And Matched Decalcified Bone Metastases Identifies Clinically Actionable Targets Nolan Priedigkeit|Rebecca J Watters|Peter C Lucas|Ahmed Basudan|Rohit Bhargava|William Horne|Jay K Kolls|Zhou Fang|Margaret Q Rosenzweig|Adam M Brufsky|Kurt R Weiss|Steffi Oesterreich|Adrian V Lee University of Pittsburgh
http://dx.doi.org/10.1101/120683 2017-03-26 Ecology CC BY-NC-ND Individual heterogeneity and capture-recapture models: what, why and how? Olivier Gimenez|Emmanuelle Cam|Jean-Michel Gaillard CNRS;|Universite Toulouse 3, Paul Sabatier
http://dx.doi.org/10.1101/120808 2017-03-26 Genetics Genome Wide Association Analyses Based On Broadly Different Specifications For Prior Distributions, Genomic Windows, And Estimation Methods Chunyu Chen|Juan P. Steibel|Robert J. Tempelman Michigan State University, United States
http://dx.doi.org/10.1101/120766 2017-03-26 Microbiology CC BY-NC-ND Replication Defective Viral Genomes Exploit A Cellular Pro-Survival Mechanism To Establish Viral Persistence Jie Xu|Yan Sun|Yize Li|Gordon Ruthel|Susan R Weiss|Arjun Raj|Daniel Beiting|Carolina Lopez University of Pennsylvania
http://dx.doi.org/10.1101/120592 2017-03-26 Bioinformatics Machine Learning-Based State-Of-The-Art Methods For The Classification Of RNA-Seq Data Almas Jabeen|Nadeem Ahmad|Khalid Raza Jamia Millia Islamia
http://dx.doi.org/10.1101/120410 2017-03-26 Genetics CC BY-NC-ND Accurate Cytogenetic Biodosimetry Through Automation Of Dicentric Chromosome Curation And Metaphase Cell Selection Jin Liu|Yaking Li|Ruth Wilkins|Farrah Flegal|Joan H. M. Knoll|Peter K. Rogan University of Western Ontario;|CytoGnomix Inc;|Health Canada;|Canadian Nuclear Laboratories
http://dx.doi.org/10.1101/120170 2017-03-25 Molecular Biology Decoding directional genetic dependencies through orthogonal CRISPR/Cas screens Michael Boettcher|Ruilin Tian|James Blau|Evan Markegard|David Wu|Anne Biton|Noah Zaitlen|Frank McCormick|Martin Kampmann|Michael T McManus University of California, San Francisco
http://dx.doi.org/10.1101/120543 2017-03-25 Biophysics CC BY De novo BK channel mutation causes epilepsy by regulating voltage-dependent, but not calcium-dependent, activation Qing Kenneth Wang|Marjolein Willemsen|Xia Li|Sibylle Poschmann|Qiuyun Chen|Nelly Jouayed Oundjian|Francesca M. Snoeijen-Schouwenaars|Erik-Jan Kamsteeg Cleveland Clinic and Case Western Reserve University, United States;|Radboud University Medical Center, Netherlands;|Huazhong University of Science and Technology, China;|Children Hospital Dritter Orden, Germany;|Columbia University Medical Center, United States;|Academic Centre for Epileptology Kempenhaeghe, United States
http://dx.doi.org/10.1101/120634 2017-03-25 Molecular Biology CC BY Alternative miRNAs: Human Sequences Misidentified As Plant miRNAs In Plant Studies And In Human Plasma Kenneth W Witwer Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/120469 2017-03-25 Bioinformatics Evolutionarily Conserved Alternative Splicing Across Monocots Wenbin Mei|Jon Lucas Boatwright|Guanqiao Feng|James C Schnable|William Brad Barbazuk University of Florida;|University Of Nebraska
http://dx.doi.org/10.1101/120600 2017-03-25 Bioinformatics CC BY-NC UpSetR: An R Package For The Visualization Of Intersecting Sets And Their Properties Jake R Conway|Alexander Lex|Nils Gehlenborg Harvard Medical School;|University of Utah
http://dx.doi.org/10.1101/120527 2017-03-25 Microbiology CC BY-NC-ND Brucella abortus Induces A Warburg Shift In Host Metabolism That Enhances Intracellular Replication Of The Pathogen Daniel M. Czyz|Jonathan Willett|Sean Crosson University of Chicago
http://dx.doi.org/10.1101/120519 2017-03-25 Ecology Using Mobile Phones As Acoustic Sensors For High-Throughput Surveillance Of Mosquito Ecology Haripriya Mukundarajan|Felix J H Hol|Erica A Castillo|Cooper Newby|Manu Prakash Stanford University
http://dx.doi.org/10.1101/120584 2017-03-25 Neuroscience Pattern Component Modeling: A Flexible Approach For Understanding The Representational Structure Of Brain Activity Patterns Joern Diedrichsen|Atsushi Yokoi|Spencer Arbuckle Western University;|Graduate School of Frontier Biosciences, Osaka University, Japan;|Brain and Mind Institute, Western University, Canada
http://dx.doi.org/10.1101/118505 2017-03-25 Cell Biology CC BY-NC-ND Semisynthetic pH-Sensitive Fluorophores For Imaging Exocytosis And Endocytosis Magalie Martineau|Agila Somasundaram|Jonathan B Grimm|Todd D Gruber|Daniel Choquet|Justin W Taraska|Luke D Lavis|David Perrais Centre National de la Recherche Scientifique, Interdisciplinary Institute for Neuroscience;|National Heart, Lung, and Blood Institute, US National Institutes of Health;|Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/120402 2017-03-25 Bioinformatics Fast functional annotation of metagenomic shotgun data by DNA alignment to a microbial gene catalog Stuart M. Brown|Yuhan Hao|Hao Chen|Bobby Peter Laungani|Thahmina A. Ali|Changsu Dong|Carlos Lijeron|Baekdoo Kim|Konstantinos Krampis|Zhiheng Pei NYU School of Medicine;|Hunter College;|NYU College of Medicine
http://dx.doi.org/10.1101/120428 2017-03-24 Bioinformatics STAG-CNS: An Order-Aware Conserved Non-coding Sequences Discovery Tool For Arbitrary Numbers of Species Xianjun Lai|Sairam Behera|Zhikai Liang|Yanli Lu|Jitender S Deogun|James Schnable University of Nebraska-Lincoln;|Sichuan Agricultural University
http://dx.doi.org/10.1101/120477 2017-03-24 Evolutionary Biology CC BY RNA viruses drove adaptive introgressions between Neanderthals and modern humans David Enard|Dmitri A Petrov Stanford University
http://dx.doi.org/10.1101/120493 2017-03-24 Microbiology CC BY-NC Adaptation, Specialization, and Coevolution within Phytobiomes David A Baltrus University of Arizona
http://dx.doi.org/10.1101/120485 2017-03-24 Ecology CC BY-NC The mismatch in distributions of vertebrates and the plants that they disperse Jacob W. Dittel|Christopher M Moore|Stephen Vander Wall Oregon State University;|Case Western Reserve University;|University of Nevada, Reno
http://dx.doi.org/10.1101/120451 2017-03-24 Neuroscience CC BY-NC-ND Intersubject brain network organization during dynamic anxious anticipation Mahshid Najafi|Joshua Kinnison|Luiz Pessoa University of Maryland
http://dx.doi.org/10.1101/120501 2017-03-24 Microbiology CC BY-ND Enterovirus-A76 of South-East Asian ancestry in a Captive Chimpanzee (Pan troglodytes) in Jos, Nigeria Arthur Obinna Oragwa|Uwem Etop George|Temitope Oluwasegun Cephas Faleye|Moses Olubusuyi Adewumi|Johnson Adekunle Adeniji University of Jos, Jos, Plateau State, Nigeria;|University of Ibadan, Ibadan, Oyo State, Nigeria;|Ekiti State University, Ado-Ekiti, Ekiti, State, Nigeria;|WHO National Polio Laboratory, University of Ibadan, Ibadan, Oyo State, Nigeria
http://dx.doi.org/10.1101/120303 2017-03-24 Genetics Differentially regulated ortholog analysis demonstrates that early transcriptional responses to cold are more conserved in Andropogoneae Yang Zhang|Daniel W. Ngu|Daniel Carvalho|Zhikai Liang|Yumou Qiu|Rebecca L. Roston|James C. Schnable University of Nebraska-Lincoln;|Department of Agronomy and Horticulture;|Department of Statistics, University of Nebraska;|Department of Biochemistry, University of Nebraska
http://dx.doi.org/10.1101/120444 2017-03-24 Cell Biology CC BY-NC-ND Three-dimensional actin-based protrusions of migrating neutrophils are intrinsically lamellar and facilitate direction changes Lillian K Fritz-Laylin|Megan Riel-Mehan|Bi-Chang Chen|Samuel J Lord|Thomas D Goddard|Thomas E Ferrin|Graham Johnson|Eric Betzig|R. Dyche Mullins University of California, San Francisco;|Academia Sinica;|Allen Institute for Cell Science;|Janelia Farm Research Campus
http://dx.doi.org/10.1101/120360 2017-03-24 Evolutionary Biology Disparate patterns of thermal adaptation between life stages in temperate vs. tropical populations of Drosophila melanogaster Brent L Lockwood|Tarun Gupta|Rosemary Scavotto The University of Vermont
http://dx.doi.org/10.1101/120378 2017-03-24 Bioinformatics CC BY-NC-ND PHATE: A Dimensionality Reduction Method for Visualizing Trajectory Structures in High-Dimensional Biological Data Kevin R. Moon|David van Dijk|Zheng Wang|William Chen|Matthew J Hirn|Ronald R Coifman|Natalia B Ivanova|Guy Wolf|Smita Krishnaswamy Yale University;|Memorial Sloan Kettering Cancer Center;|Yale School of Medicine;|Michigan State University
http://dx.doi.org/10.1101/120212 2017-03-24 Evolutionary Biology CC BY Regulatory remodeling in the allo-tetraploid frog Xenopus laevis Dei M. Elurbe|Sarita S. Paranjpe|Georgios Georgiou|Ila van Kruijsbergen|Ozren Bogdanovic|Romain Gibeaux|Rebecca Heald|Ryan Lister|Martijn A. Huynen|Simon J. van Heeringen|Gert Jan C. Veenstra Radboud University Medical Center, CMBI, RIMLS, Nijmegen, The Netherlands;|Radboud University, Department of Molecular Developmental Biology, RIMLS, Nijmegen, The Netherlands;|Genomics and Epigenetics Division, Garvan Institute of Medical Research, Sydney, Australia;|Department of Molecular and Cell Biology, University of California, CA 94720, Berkeley, USA;|Harry Perkins Institute of Medical Research and ARC Centre of Excellence in Plant Energy Biology
http://dx.doi.org/10.1101/120048 2017-03-24 Evolutionary Biology Diverse genome organization following 13 independent mesopolyploid events in Brassicaceae contrasts with convergent patterns of gene retention Terezie Mandakova|Zheng Li|Michael Barker|Martin Lysak Masaryk University;|University of Arizona
http://dx.doi.org/10.1101/120352 2017-03-24 Animal Behavior and Cognition CC BY-NC-ND Sex-specific inhibition and stimulation of worker-reproductive transition in a termite Qian Sun|Kenneth F Haynes|Jordan D Hampton|Xuguo Zhou University of Kentucky
http://dx.doi.org/10.1101/120394 2017-03-24 Genomics CC BY-NC Towards the human cellular microRNAome Matthew N McCall|Min-Sik Kim|Mohammed Adil|Arun H Patil|Yin Lu|Christopher J Mitchell|Pamela Leal-Rojas|Jinchong Xu|Manoj Kumar|Valina L Dawson|Ted M Dawson|Alexander S Baras|Avi Z Rosenberg|Dan E Arking|Kathleen H Burns|Akhilesh Pandey|Marc Halushka University of Rochester Medical Center;|Kyung Hee University;|Abdur Rahman University;|Johns Hopkins University;|Ginkgo Bioworks;|Universidad de La Frontera;|Johns Hopkins Medical Institutions
http://dx.doi.org/10.1101/120295 2017-03-24 Bioinformatics CC BY-ND STAR-Fusion: Fast and Accurate Fusion Transcript Detection from RNA-Seq Brian Haas|Alexander Dobin|Nicolas Stransky|Bo Li|Xiao Yang|Timothy Tickle|Asma Bankapur|Carrie Ganote|Thomas Doak|Natalie Pochet|Jing Sun|Catherine Wu|Thomas Gingeras|Aviv Regev Broad Institute;|Cold Spring Harbor Laboratory;|Blueprint Medicines;|University of California at Berkeley;|Grail, Inc.;|Indiana University;|Brigham and Womens;|Dana Farber
http://dx.doi.org/10.1101/120253 2017-03-24 Synthetic Biology Population regulation in microbial consortia using dual feedback control Xinying Ren|Ania-Ariadna Baetica|Anandh Swaminathan|Richard M Murray California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/118620 2017-03-24 Molecular Biology Generation Of A Double Binary Transgenic Zebrafish Model To Study Myeloid Gene Regulation In Response To Melanocyte Transformation Amy Kenyon|Daria Gavriouchkina|Giorgio Napolitani|Vincenzo Cerundolo|Tatjana Sauka-Spengler University of Oxford
http://dx.doi.org/10.1101/120329 2017-03-24 Systems Biology A personalized, multi-omics approach identifies genes involved in cardiac hypertrophy and heart failure Marc Santolini|Milagros C Romay|Clara L Yukhtman|Christoph D Rau|Shuxun Ren|Jeffrey J Saucerman|Jessica J Wang|James N Weiss|Yibin Wang|Aldons J Lusis|Alain Karma Northeastern University;|University of California, Los Angeles;|University of Virginia
http://dx.doi.org/10.1101/120279 2017-03-24 Bioengineering Optimising 3D scaffold for otic neural progenitor differentiation Kamolchanok Ngamkham|Marcelo N Rivolta|Giuseppe Battaglia University College London;|University of Sheffield
http://dx.doi.org/10.1101/120386 2017-03-24 Neuroscience Neuronal brain region-specific DNA methylation and chromatin accessibility are associated with neuropsychiatric disease heritability Lindsay Rizzardi|Peter Hickey|Varenka Rodriguez|Rakel Tryggvadottir|Colin Callahan|Adrian Idrizi|Kasper Hansen|Andrew P Feinberg Johns Hopkins University;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/120311 2017-03-24 Biophysics CC BY-NC-ND Intramolecular dynamics of single molecules in free diffusion Charles Limouse|Jason C Bell|Colin J Fuller|Aaron F Straight|Hideo Mabuchi Stanford University
http://dx.doi.org/10.1101/113647 2017-03-24 Animal Behavior and Cognition CC BY-NC-ND Ethoscopes: An Open Platform For High-Throughput Ethomics Quentin Geissmann|Luis Garcia Rodriguez|Esteban J. Beckwith|Alice S. French|Arian R. Jamasb|Giorgio Gilestro Imperial College London;|Polygonal Tree Ltd
http://dx.doi.org/10.1101/120188 2017-03-24 Bioinformatics CC BY-NC-ND Network analysis of patient flow in two UK acute care hospitals identifies key sub-networks for A&E performance Daniel Bean|Clive Stringer|Neeraj Beeknoo|James Teo|Richard Dobson King's College London;|King's College Hospital NHS Foundation Trust
http://dx.doi.org/10.1101/120196 2017-03-24 Bioinformatics CC BY-ND JfxNgs : A BAM/VCF viewer with javascript-based filtering/reformatting functionalities Pierre Lindenbaum|Matilde Karakachoff|Richard Redon Institut du thorax, INSERM, CNRS, UNIV Nantes, France;|Institut du thorax, INSERM, CNRS, UNIV Nantes, CHU Nantes, France
http://dx.doi.org/10.1101/120121 2017-03-24 Genomics CC BY-NC-ND Patterns of cancer somatic mutations predict genes involved in phenotypic abnormalities and genetic diseases Paolo Provero|Ivan Molineris|Dejan Lazarevic|Davide Cittaro University of Turin;|San Raffaele Scientific Institute
http://dx.doi.org/10.1101/120204 2017-03-24 Cell Biology CC BY The phosphatase PTPRG controls FGFR1 activity and influences sensitivity to FGFR kinase inhibitors Jrgen Wesche|Michal Kostas|Ellen Margrethe Haugsten|Yan Zhen|Vigdis Srensen|Patrycja Szybowska|Elisa Fiorito|Susanne Lorenz|Gustavo Antonio de Souza|Antoni Wiedlocha Oslo University Hospital, The Norwegian Radium Hospital;|Universidade Federal do Rio Grande do Norte
http://dx.doi.org/10.1101/120154 2017-03-24 Bioinformatics CC BY Assembling Metagenomes, One Community At A Time Andries Johannes van der Walt|Marc Warwick Van Goethem|Jean-Baptiste Ramond|Thulani Peter Makhalanyane|Oleg Reva|Don Arthur Cowan University of Pretoria
http://dx.doi.org/10.1101/119826 2017-03-24 Epidemiology CC BY-NC External introductions helped drive and sustain the high incidence of HIV-1 in rural KwaZulu-Natal, South Africa David Rasmussen|Eduan Wilkinson|Alain Vandormael|Frank Tanser|Deenan Pillay|Tanja Stadler|Tulio de Oliveira ETH Zurich;|University of KwaZulu-Natal;|Africa Health Research Institute
http://dx.doi.org/10.1101/120147 2017-03-24 Genetics Contribution Of Trans Regulatory eQTL To Cryptic Genetic Variation In C. elegans Basten Snoek|Mark Sterken|Roel Bevers|Rita Volkers|Arjen van't Hof|Rachel Brenchley|Joost Riksen|Andrew Cossins|Jan Kammenga Wageningen University;|Ecole polytechnique federale de Lausanne;|University of Liverpool
http://dx.doi.org/10.1101/120097 2017-03-24 Evolutionary Biology CC BY Fragmentation Modes And The Evolution Of Life Cycles Yuriy Pichugin|Jorge Pena|Paul Rainey|Arne Traulsen Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/117408 2017-03-24 Neuroscience CC BY Breathlessness And The Body: Neuroimaging Evidence For The Inferential Leap Olivia Faull|Anja Hayen|Kyle Pattinson University of Oxford;|University of Reading
http://dx.doi.org/10.1101/120113 2017-03-24 Genomics CC BY-NC Detection Of Cooperatively Bound Transcription Factor Pairs Using ChIP-seq Peak Intensities And Expectation Maximization Vishaka Datta|Rahul Siddharthan|Sandeep Krishna National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bangalore;|The Institute of Mathematical Sciences, Chennai, India
http://dx.doi.org/10.1101/120105 2017-03-24 Neuroscience Human Self-Initiated Action Is Preceded By A Reliable Process Of Noise Reduction Nima Khalighinejad|Aaron Schurger|Andrea Desantis|Leor Zmigrod|Patrick Haggard University College London;|INSERM, Universite Paris-Sud, Universite Paris-Saclay;|University of Cambridge
http://dx.doi.org/10.1101/120071 2017-03-24 Genomics Trichoderma reesei Complete Genome Sequence, Repeat-Induced Point Mutation And Partitioning Of CAZyme Gene Clusters Wan-Chen Li|Chien-Hao Huang|Chia-Ling Chen|Yu-Chien Chuang|Shu-Yun Tung|Ting-Fang Wang Institute of Molecular Biology, Academia Sinica. Taipei 115, Taiwan;|Academia Sinica
http://dx.doi.org/10.1101/120063 2017-03-24 Biochemistry CC BY-NC-ND Towards Water-Free Biobanks: Long-Term Dry-Preservation At Room Temperature Of Desiccation-Sensitive Enzyme Luciferase In Air-Dried Insect Cells Shingo Kikuta|Shunsuke J. Watanabe|Ryoichi Sato|Oleg Gusev|Alexander Nesmelov|Yoichiro Sogame|Richard Cornette|Takahiro Kikawada Tokyo University of Agriculture and Technology;|RIKEN;|Kazan Federal University;|Institute of Agrobiological Sciences, NARO
http://dx.doi.org/10.1101/120022 2017-03-24 Genomics Type 1 diabetes genome-wide association analysis with imputation identifies five new risk regions Nicholas James Cooper|Chris Wallace|Oliver S Burren|Antony Cutler|Neil Walker|John A Todd JDRF/Wellcome Trust Diabetes and Inflammation Laboratory;|MRC Biostatistics Unit;|University of Cambridge;|Clinical Informatics, Cambridge University Hospitals NHS Foundation Trust
http://dx.doi.org/10.1101/119974 2017-03-24 Genomics Environmental Perturbations Lead To Extensive Directional Shifts In RNA Processing Allison L Richards|Donovan Watza|Anthony Findley|Adnan Alazizi|Xiaoquan Wen|Athma A Pai|Roger Pique-Regi|Francesca Luca Wayne State University;|University of Michigan;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/121194 2017-03-27 CC BY-NC-ND Poly(A) Binding Protein Nuclear 1 regulates the polyadenylation of key synaptic plasticity genes and plays a role in homeostatic plasticity Irena Vlatkovic|Sivakumar Sambandan|Georgi Tushev|Mantian Wang|Irina Epstein|Caspar Glock|Nicole Fuerst|Ivan Cajigas|Erin Schuman Max Planck Institute for Brain Research
http://dx.doi.org/10.1101/121160 2017-03-27 CC BY-NC-ND The cycad coralloid root contains a diverse endophytic bacterial community with novel biosynthetic gene clusters unique to its microbiome Pablo Cruz-Morales|Antonio Corona-Gomez|Nelly Selem-Mojica|Miguel A. Perez-Farrera|Francisco Barona-Gomez|Angelica Cibrian Jaramillo Laboratorio Nacional de Genomica para la Biodiversidad;|Universidad de Ciencias y Artes del Estado de Chiapas
http://dx.doi.org/10.1101/121186 2017-03-27 DNA-dependent protein synthesis exhibited by cancer shed particulates Vijay Kumar Ulaganathan|Axel Ullrich Max Planck Institute of Biochemistry
http://dx.doi.org/10.1101/120980 2017-03-27 CC BY Regulation of Life Span by the Gut Microbiota in The Short-Lived African Turquoise Killifish Patrick Smith|David Willemsen|Miriam Lea Popkes|Franziska Metge|Edson Gandiwa|Martin Reichard|Dario Riccardo Valenzano Max Planck Institute for Biology of Ageing, Germany;|Chinhoyi University of Technology, Germany;|Inst Vertebrate Biology, Germany
http://dx.doi.org/10.1101/121038 2017-03-27 CC BY-NC-ND Fungus causing White-Nose Syndrome in bats accumulates genetic variability in North America and shows no sign of recombination Jigar Trivedi|Karen Vanderwolf|Vikram Misra|Craig K.R. Willis|John Ratcliffe|James B. Anderson|Linda M. Kohn University of Torontoi;|University of Wisconsin;|University of Saskatchewan;|University of Winnipeg;|University of Toronto
http://dx.doi.org/10.1101/121111 2017-03-27 CC BY Post-translational thioamidation of methyl-coenzyme M reductase, a key enzyme in methanogenic and methanotrophic Archaea William W. Metcalf|Dipti D. Nayak|Nilkamal Mahanta|Douglas A Mitchell University of Illinois at Urbana Champaign, United States;|University of Illinois at Urbana-Champaign, United States
http://dx.doi.org/10.1101/121137 2017-03-27 CC BY H+- and Na+- elicited swift changes of the microtubule system in the biflagellated green alga Chlamydomonas Liu Yi|Mike Visetsouk|Michelle Mynlieff|Hongmin Qin|Karl Lechtreck|Pinfen Yang|Pinfen Yang|Pinfen Yang Marquette University, United States;|Texas A&M University, United States;|The University of Georgia, United States
http://dx.doi.org/10.1101/121079 2017-03-27 Neuroscience CC BY Beyond differences in means: robust graphical methods to compare two groups in neuroscience Guillaume A Rousselet|Cyril R Pernet|Rand R Wilcox University of Glasgow;|University of Edinburgh;|University of Southern California
http://dx.doi.org/10.1101/121103 2017-03-27 Microbiology CC BY-NC-ND Primary souring: a novel bacteria-free method for sour beer production Kara Osburn|Justin Amaral|Sara R. Metcalf|David M. Nickens|Cody M. Rogers|Christopher Sausen|Robert Caputo|Justin Miller|Hongde Li|Jason M. Tennessen|Matthew L. Bochman Indiana University;|Mainiacal Brewing Company;|Wild Pitch Yeast
http://dx.doi.org/10.1101/121152 2017-03-27 Synthetic Biology CC BY-NC-ND Quantitative Modeling of Integrase Dynamics Using a Novel Python Toolbox for Parameter Inference in Synthetic Biology Anandh Swaminathan|Victoria Hsiao|Richard M Murray California Institute of Technology;|Amyris
http://dx.doi.org/10.1101/120915 2017-03-27 Bioinformatics CC BY-NC ClusterEnG: An interactive educational web resource for clustering big data Mohith Manjunath|Yi Zhang|Steve H. Yeo|Omar Sobh|Nathan Russell|Christian Followell|Colleen Bushell|Umberto Ravaioli|Jun S Song University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/121087 2017-03-27 Evolutionary Biology CC BY Natural selection can favor the evolution of ratchet robustness over evolution of mutational robustness Yinghong Lan|Aaron Trout|Daniel M Weinreich|C Scott Wylie Brown Univeristy;|Chatham University;|Brown University
http://dx.doi.org/10.1101/120956 2017-03-27 Neuroscience CC BY-NC Inferring hidden structure in multilayered neural circuits Niru Maheswaranathan|Stephen A Baccus|Surya Ganguli Stanford University
http://dx.doi.org/10.1101/121053 2017-03-27 Cancer Biology CC BY Classical Cancer Biology: Misconceptions and Limitations Abicumaran Uthamacumaran McGill University
http://dx.doi.org/10.1101/120758 2017-03-27 Evolutionary Biology CC BY Parallel evolution of sperm hyper-activation Ca2+ channels Jacob C Cooper|Nitin Phadnis University of Utah, Department of Biology
http://dx.doi.org/10.1101/121350 2017-03-28 Bioinformatics CC BY Plasmid Profiler: Comparative Analysis of Plasmid Content in WGS Data Adrian Zetner|Jennifer Cabral|Laura Mataseje|Natalie Knox|Philip Mabon|Michael Mulvey|Gary Van Domselaar Public Health Agency of Canada
http://dx.doi.org/10.1101/121533 2017-03-28 Bioinformatics CC BY-NC Correcting For Cell-Type Heterogeneity In Epigenome-Wide Association Studies: Premature Analyses And Conclusions Shijie Zheng|Stephan Beck|Andrew Jaffe|Devin Koestler|Kasper Hansen|Andres Houseman|Martin Widschwendter|Rafa Irizarry|Andrew Teschendorff PICB Shanghai;|UCL;|JHU;|University of Kansas;|Johns Hopkins;|Oregon State University;|Harvard
http://dx.doi.org/10.1101/121517 2017-03-28 Systems Biology CC BY Glycosylation Flux Analysis Reveals Dynamic Changes Of Intracellular Glycosylation Flux Distribution In Chinese Hamster Ovary Fed-Batch Cultures Sandro Hutter|Thomas K. Villiger|David Bruhlmann|Matthieu Stettler|Herve Broly|Miroslav Soos|Rudiyanto Gunawan ETH Zurich;|Merck Biopharma;|University of Chemistry and Technology Prague
http://dx.doi.org/10.1101/121491 2017-03-28 Ecology CC BY The Structure Of Plant Spatial Association Networks Increases Plant Diversity In Global Drylands Hugo Saiz|Jesus Gomez-Gardenes|Juan Pablo Borda|Fernando Maestre Universidad Rey Juan Carlos;|Departamento de Fisica de la Materia Condensada, Universidad de Zaragoza;|Dept. de Biologia y Geologia, Fisica y Quimica Inorganica, Universidad Rey Juan Carlos
http://dx.doi.org/10.1101/121335 2017-03-28 Biochemistry A Shortened Version Of SecA (SecAN) Functions As The Protein-Conducting Channel For Nascent β-Barrel Outer Membrane Proteins Feng Jin|Zengyi Chang Peking University
http://dx.doi.org/10.1101/121459 2017-03-28 Neuroscience Transient Network Synchrony Of The Developing Medial Entorhinal Cortex Julia Dawitz|Johannes J Hjorth|Tim Kroon|Marta Ruiperez-Alonso|Nandakumar Chandrasekhar|Henrike Hartung|Ileana Hanganu-Opatz|Huibert Mansvelder|Rhiannon Meredith VU University Amsterdam;|University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/121483 2017-03-28 Genomics CC BY-NC-ND Introgression Makes Waves In Inferred Histories Of Effective Population Size John Hawks University of Wisconsin-Madison
http://dx.doi.org/10.1101/121392 2017-03-28 Systems Biology CC BY-NC-ND Bidirectional Changes Of Hepatic And Peripheral Insulin Clearance Characterize Abnormal Temporal Patterns Of Serum Insulin Concentration In Diabetic Subjects Kaoru Ohashi|Masashi Fujii|Shinsuke Uda|Hiroyuki Kubota|Hisako Komada|Kazuhiko Sakaguchi|Wataru Ogawa|Shinya Kuroda University of Tokyo;|Kyushu University;|Kobe University Graduate School of Medicine
http://dx.doi.org/10.1101/121434 2017-03-28 Microbiology CC BY-NC-ND Integrating Patient And Whole Genome Sequencing Data To Provide Insights Into The Epidemiology Of Seasonal Influenza A(H3N2) Viruses Emily J Goldstein|William T Harvey|Gavin S Wilkie|Samantha J Shepherd|Alasdair R MacLean|Pablo R Murcia|Rory N Gunson West of Scotland Specialist Virology Centre, Glasgow, UK;|Institute of Biodiversity, Animal Health and Comparative Medicine, University of Glasgow, UK;|Medical Research Council-University of Glasgow Centre for Virus Research, UK
http://dx.doi.org/10.1101/121293 2017-03-28 Evolutionary Biology CC BY The Cellular Expression and Genetics of Purple Body (Pb) in the Ocular Media of the Guppy Poecilia reticulata Alan S. Bias|Richard D. Squire Independent Researcher;|Biology Department (retired), University of Puerto Rico, Mayaguez campus, Mayaguez, Puerto Rico, USA
http://dx.doi.org/10.1101/121343 2017-03-28 Evolutionary Biology CC BY-NC-ND Continuous Characters Outperform Binary Discrete Characters In Phylogenetic Inference Caroline Parins-Fukuchi University of Michigan
http://dx.doi.org/10.1101/121384 2017-03-28 Genetics RETA: An R Package For Whole Exome And Targeted Region Sequencing Data Analysis Mengbiao Guo|Jing Yang|Yu-Lung Lau|Wanling Yang The University of Hong Kong
http://dx.doi.org/10.1101/121376 2017-03-28 Microbiology Response Of Microbial Community Function To Fluctuating Geochemical Conditions Within A Legacy Radioactive Waste Trench Environment Xabier Vazquez-Campos|Andrew S. Kinsela|Mark W. Bligh|Jennifer J. Harrison|Timothy E. Payne|T. David Waite University of New South Wales;|Australia Nuclear Science and Technology Organisation
http://dx.doi.org/10.1101/121301 2017-03-28 Genetics CC BY The Phenotypic Expression of Purple Body (Pb) in Domestic Guppy Strains of Poecilia reticulata Alan S. Bias|Richard D. Squire Independent Researcher;|Biology Department (retired), University of Puerto Rico, Mayaguez campus, Mayaguez, Puerto Rico, USA
http://dx.doi.org/10.1101/121285 2017-03-28 Evolutionary Biology CC BY The Cellular Expression and Genetics of Purple Body (Pb) in Poecilia reticulata, and its Interactions with Asian Blau (Ab) and Blond (bb) under Reflected and Transmitted Light Alan S. Bias|Richard D. Squire Independent Researcher;|Biology Department (retired), University of Puerto Rico, Mayaguez campus, Mayaguez, Puerto Rico, USA
http://dx.doi.org/10.1101/121418 2017-03-28 Microbiology CC BY Quantifying The Fitness Benefit And Cost Of Cefixime Resistance In Neisseria gonorrhoeae To Inform Prescription Policy Lilith K Whittles|Peter J White|Xavier Didelot Imperial College London
http://dx.doi.org/10.1101/119651 2017-03-28 Genomics An Integrative Framework For Detecting Structural Variations In Cancer Genomes Jesse Dixon|Jie Xu|Vishnu Dileep|Ye Zhan|Fan Song|Victoria T. Le|Galip Gurkan Yardimci|Abhijit Chakraborty|Darrin V. Bann|Yanli Wang|Royden Clark|Lijun Zhang|Hongbo Yang|Tingting Liu|Sriranga Iyyanki|Lin An|Christopher Pool|Takayo Sasaki|Juan Carlos Rivera Mulia|Hakan Ozadam|Bryan R. Lajoie|Rajinder Kaul|Michael Buckley|Kristen Lee|Morgan Diegel|Dubravka Pezic|Christina Ernst|Suzana Hadjur|Duncan T. Odom|John A. Stamatoyannopoulos|James R. Broach|Ross Hardison|Ferhat Ay|William Stafford Noble|Job Dekker|David M Gilbert|Feng Yue Salk Institute for Biological Studies;|The Pennsylvania State University;|Florida State University;|University of Massachusetts;|University of Washington;|La Jolla Institute for Allergy and Immunology;|Altius institute for Biomedical Sciences;|University College London;|University of Cambridge;|University of Massachusetts Medical School;|Florida State Univ.
http://dx.doi.org/10.1101/121277 2017-03-28 Evolutionary Biology CC BY The Cellular Expression and Genetics of an Established Polymorphism in Poecilia reticulata; Purple Body, (Pb) is an Autosomal Dominant Gene Alan S. Bias|Richard D. Squire Independent Researcher;|Biology Department (retired), University of Puerto Rico, Mayaguez campus, Mayaguez, Puerto Rico, USA
http://dx.doi.org/10.1101/121400 2017-03-28 Biochemistry CC BY-NC-ND Disease-Associated Mutations In Human BICD2 Hyperactivate Motility Of Dynein-Dynactin Walter Huynh|Ron Vale University of California, San Francisco;|University of California San Francisco
http://dx.doi.org/10.1101/121228 2017-03-27 Biochemistry Biosynthesis of Isonitrile Lipopeptides by Conserved Non-ribosomal Peptide Synthetase Gene Clusters in Actinobacteria Nicholas C Harris|Michio Sato|Nicolaus A Herman|Frederick Twigg|Wenlong Cai|Joyce Liu|Jordan Downey|Ryan Khalaf|Joelle Martin|Hiroyuki Koshino|Wenjun Zhang University of California, Berkeley;|University of Shizuoka, Japan;|RIKEN Physical Center for Sustainable Resource Science
http://dx.doi.org/10.1101/121319 2017-03-27 Physiology Arabidopsis thaliana Trihelix Transcription factor AST1 mediates abiotic stress tolerance by binding to a novel AGAG-box and some GT motifs Hongyun Xu|Lin He|Yong Guo|Xinxin Shi|Dandan Zang|Hongyan Li|Wenhui Zhang|Yucheng Wang State Key Laboratory of Tree Genetics and Breeding (Northeast Forestry University)
http://dx.doi.org/10.1101/121681 2017-03-28 CC BY Interaction Of N-3-Oxododecanoyl Homoserine Lactone With LasR Protein Of Pseudomonas aeruginosa: Insights From Molecular Docking And Dynamics Simulations Hovakim Grabski|Lernik Hunanyan|Susanna Tiratsuyan|Hrachik Vardapetyan Russian-Armenian University
http://dx.doi.org/10.1101/121707 2017-03-28 CC BY-NC-ND Changes In Firing Regularity In The Normal And Impaired Auditory System Dan F. M. Goodman|Ian M Winter|Agnes C Leger|Alain de Cheveigne|Christian Lorenzi Imperial College;|University of Cambridge;|Unaffiliated;|Ecole Normale Superieure
http://dx.doi.org/10.1101/121640 2017-03-28 Epidemiology Predicting The Impact Of Pneumococcal Conjugate Vaccine Programme Options In Vietnam: A Dynamic Transmission Model Olivier le Polain de Waroux|W John Edmunds|Kensuke Takahashi|Koya Ariyoshi|Kim Mulholland|David Goldblatt|Yoon Choi|Dang Duc Anh|Lay Myint Yoshida|Stefan Flasche London School of Hygiene and Tropical Medicine;|Institute of Tropical Medicine, Nagasaki University;|Institute of Child Health, University College London;|Public Health England;|National Institute of Hygiene and Epidemiology, Hanoi, Vietnam;|LSHTM
http://dx.doi.org/10.1101/121665 2017-03-28 Epidemiology Characteristics Of Human Encounters And Social Mixing Patterns Relevant To Infectious Diseases Spread By Close Contact: A Survey In Southwest Uganda Olivier le Polain de Waroux|Sandra Cohuet|Donny Ndazima|Adam Kucharski|Aitana Juan-Giner|Stefan Flasche|Elioda Tumwesigye|Rinah Arinaitwe|Juliet Mwanga-Amumpaire|Yap Boum|Fabienne Nackers|Francesco Checchi|Rebecca F Grais|W John Edmunds London School of Hygiene and Tropical Medicine;|Epicentre, Paris;|Epicentre, Mbarara Research Centre;|London School of Hygiene & Tropical Medicine;|LSHTM;|Kabwohe Medical Research Centre, Kabwohe, Uganda;|Epicentre, Uganda Research Centre, Mbarara, Uganda;|Mbarara University Of Science and Technology (MUST), Mbarara, Uganda;|Epicentre, Brussels, Belgium
http://dx.doi.org/10.1101/121608 2017-03-28 Evolutionary Biology CC BY-NC-ND Gene Expression Stasis And Plasticity Following Migration Into A Foreign Environment Brian Lohman|William Stutz|Daniel Bolnick Department of Integrative Biology, University of Texas at Austin;|Office of Institutional Research, Western Michigan University
http://dx.doi.org/10.1101/121590 2017-03-28 Cell Biology CC BY-NC-ND Localised Dynactin Protects Growing Microtubules To Deliver Oskar mRNA To The Posterior Cortex Of The Drosophila Oocyte Ross Nieuwburg|Dmitry Nashchekin|Maximilian Jakobs|Andrew Carter|Philipp Khuc Trong|Raymond E Goldstein|Daniel St Johnston The Gurdon Institute and the Department of Genetics, University of Cambridge;|The Department of Physiology, Development and Neuroscience, University of Cambridge;|Medical Research Council Laboratory of Molecular Biology;|Department of Applied Mathematics and Theoretical Physics, University of Cambridge
http://dx.doi.org/10.1101/121616 2017-03-28 Bioengineering Stimulated Raman Scattering Micro-dissection Sequencing (SMD-Seq) for Morphology-specific Genomic Analysis of Oral Squamous Cell Carcinoma Tao Chen|Chen Cao|Jianyun Zhang|Aaron M Streets|Yanyi Huang|Tiejun Li Peking University;|Peking University School and Hospital of Stomatology;|University of California, Berkeley
http://dx.doi.org/10.1101/121145 2017-03-28 Epidemiology CC BY Physical Activity Phenotyping With Activity Bigrams, And Their Association With BMI Louise AC Millard|Kate Tilling|Debbie A Lawlor|Peter A Flach|Tom R Gaunt University of Bristol
http://dx.doi.org/10.1101/116079 2017-03-28 Epidemiology Identifying Human Encounters That Shape The Transmission Of Streptococcus Pneumoniae And Other Respiratory Infections Olivier le Polain de Waroux|Stefan Flasche|Adam Kucharski|Celine Langendorf|Donny Ndazima|Juliet Mwanga-Amumpaire|Rebecca Grais|Sandra Cohuet|W John Edmunds London School of Hygiene and Tropical Medicine;|London School of Hygiene & Tropical Medicine;|Epicentre;|Epicentre Mbarara Research Centre
http://dx.doi.org/10.1101/121558 2017-03-28 Epidemiology CC BY DNA Methylation As A Marker For Prenatal Smoke Exposure In Adults Rebecca Richmond|Matthew Suderman|Ryan Langdon|Caroline Relton|George Davey Smith University of Bristol
http://dx.doi.org/10.1101/121830 2017-03-29 Evolutionary Biology CC BY phydms: Software for phylogenetic analyses informed by deep mutational scanning Sarah K Hilton|Michael B Doud|Jesse D Bloom University of Washington;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/122051 2017-03-29 Cancer Biology CC BY-ND EMT and MET: necessary or permissive for metastasis? Mohit Kumar Jolly|Kathryn E Ware|Shivee Gilja|Jason A Somarelli|Herbert Levine Rice University;|Duke University
http://dx.doi.org/10.1101/122036 2017-03-29 Cancer Biology CC BY-ND Epithelial-mesenchymal plasticity: How have quantitative mathematical models helped improve our understanding? Mohit Kumar Jolly|Satyendra C Tripathi|Jason A Somarelli|Samir M Hanash|Herbert Levine Rice University;|UT MD Anderson Cancer Center;|Duke University
http://dx.doi.org/10.1101/122069 2017-03-29 Biophysics CC BY-NC Real-time observation of flexible domain movements in Cas9 Saki Osuka|Kazushi Isomura|Shohei Kajimoto|Tomotaka Komori|Hiroshi Nishimasu|Tomohiro Shima|Osamu Nureki|Sotaro Uemura The University of Tokyo
http://dx.doi.org/10.1101/121822 2017-03-29 Genetics CC BY-NC-ND Rahu Is A Mutant Allele Of Dnmt3c, Encoding A DNA Methyltransferase Required For Meiosis And Transposon Repression In The Mouse Male Germline Devanshi Jain|Cem Meydan|Julian Lange|Corentin Claeys Bouuaert|Christopher E Mason|Kathryn V Anderson|Scott Keeney Memorial Sloan Kettering Cancer Center;|Weill Cornell Medical College;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/122028 2017-03-29 Cell Biology CC BY-NC-ND A Di-Acidic Motif Targets Cytoplasmic Proteins For Unconventional Protein Secretion David Cruz-Garcia|Nathalie Brouwers|Juan M Duran|Amy J Curwin|Vivek Malhotra Centre for Genomic Regulation
http://dx.doi.org/10.1101/121806 2017-03-29 Evolutionary Biology CC BY-NC-ND A case for sympatric speciation by cannibalism in South-American annual killifish (Austrolebias) Tom Van Dooren|Henri A Thomassen|Femmie Smit|Andrew J Helmstetter|Vincent Savolainen iEES Paris;|University of Tuebingen;|Dutch Society for the Protection of Animals;|Imperial College London
http://dx.doi.org/10.1101/121897 2017-03-29 Bioinformatics CC BY SUPERmerge: ChIP-Seq Coverage Island Analysis Algorithm For Broad Histone Marks Bohdan B Khomtchouk|Derek J Van Booven|Claes Wahlestedt University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/121905 2017-03-29 Synthetic Biology CC BY Multiplexed sgRNA Expression Allows Versatile Single Non-repetitive DNA Labeling and Endogenous Gene Regulation Shipeng Shao|Lei Chang|Yuao Sun|Yingping Hou|Xiaoying Fan|Yujie Sun Biodynamic Optical Imaging Center, Peking University, Beijing 100871, China
http://dx.doi.org/10.1101/122002 2017-03-29 Neuroscience CC BY-NC-ND The Non-Linear Development Of The Right Hemispheric Specialization For Human Face Perception Aliette Lochy|Adelaide de Heering|Bruno Rossion Catholic University of Louvain-la-Neuve;|Universite Libre de Bruxelles
http://dx.doi.org/10.1101/121939 2017-03-29 Bioinformatics CC BY-NC Canvas SPW: Calling De Novo Copy Number Variants In Pedigrees Sergii Ivakhno|Eric Roller|Camilla Colombo|Philip Tedder|Anthony J. Cox Illumina Inc.
http://dx.doi.org/10.1101/121574 2017-03-29 Neuroscience CC BY-NC-ND Understanding Neural Circuit Development Through Theory And Models Leonidas M. A. Richter|Julijana Gjorgjieva Max Planck Institute for Brain Research
http://dx.doi.org/10.1101/121749 2017-03-29 Evolutionary Biology Genetic Variation In Adaptability And Pleiotropy In Budding Yeast Elizabeth R. Jerison|Sergey Kryazhimskiy|James Mitchell|Joshua S Bloom|Leonid Kruglyak|Michael M. Desai Harvard University;|University of California, San Diego;|UCLA
http://dx.doi.org/10.1101/121947 2017-03-29 Neuroscience CC BY-NC-ND Neural Computations Underpinning The Strategic Management Of Influence In Advice Giving Uri Hertz|Stefano Palminteri|Silvia Brunetti|Cecilie Olesen|Chris Frith|Bahador Bahrami UCL;|Ecole Normale Superieure;|University of London
http://dx.doi.org/10.1101/121913 2017-03-29 Biophysics CC BY Iterative model-based density improvement yields better atomic structures from cryo-EM maps Arjen J Jakobi|Matthias Wilmanns|Carsten Sachse EMBL (European Molecular Biology Laboratory), Germany
http://dx.doi.org/10.1101/121954 2017-03-29 Bioinformatics CC BY Enhancing Sensitivity And Controlling False Discovery Rate In Somatic Indel Discovery Using A Latent Variable Model Louis J. Dijkstra|Johannes Koster|Tobias Marschall|Alexander Schonhuth Universiteit van Amsterdam, Amsterdam, The Netherlands;|Centrum Wiskunde & Informatica, Amsterdam, The Netherlands;|Max Planck Institute for Informatics, Saarbrücken, Germany
http://dx.doi.org/10.1101/121855 2017-03-29 Developmental Biology Steroid Hormone Induction Of Temporal Gene Expression In Drosophila Brain Neuroblasts Generates Neuronal And Glial Diversity Mubarak Hussain Syed|Brandon Mark|Chris Q Doe Institute of Neuroscience
http://dx.doi.org/10.1101/108399 2017-03-29 Pharmacology and Toxicology CC BY-NC Repurposed High-Throughput Images Enable Biological Activity Prediction For Drug Discovery Jaak Simm|Guenter Klambauer|Adam Arany|Marvin Steijaert|Joerg Kurt Wegner|Emmanuel Gustin|Vladimir Chupakhin|Yolanda T. Chong|Jorge Vialard|Peter Buijnsters|Ingrid Velter|Alexander Vapirev|Shantanu Singh|Anne Carpenter|Roel Wuyts|Sepp Hochreiter|Yves Moreau|Hugo Ceulemans ESAT-STADIUS, KU Leuven;|Institute of Bioinformatics, Johannes Kepler University Linz;|Open Analytics NV;|Janssen Pharmaceutica NV;|Facilities for Research, KU Leuven;|Imaging Platform, Broad Institute of Harvard and MIT;|ExaScience Life Lab, IMEC
http://dx.doi.org/10.1101/121798 2017-03-29 Plant Biology CC BY-NC-ND Methomyl Injury To Carbon Exchange Rates And Related Processes In Cotton Elaine Salem|JT Cothren|CR Benedict Texas A&M University
http://dx.doi.org/10.1101/121772 2017-03-29 Plant Biology CC BY-NC Phytohormone Inhibitor Treatments Phenocopy Brassinosteroid And Gibberellin Dwarf Mutant Interactions In Maize Norman B Best|Gurmukh Johal|Brian P Dilkes Purdue University
http://dx.doi.org/10.1101/121962 2017-03-29 Bioinformatics CC BY Patternize: An R Package For Quantifying Color Pattern Variation Steven M. Van Belleghem|Riccardo Papa|Humberto Ortiz-Zuazaga|Frederik Hendrickx|Chris Jiggins|W. Owen McMillan|Brian Counterman University of Cambridge;|University of Puerto Rico, Rio Piedras;|Royal Belgian Institute of Natural Sciences;|Smithsonian Tropical Research Institute Panama;|Mississippi State University
http://dx.doi.org/10.1101/121863 2017-03-29 Neuroscience CC BY-NC-ND Stem cell intrinsic, Seven-up-triggered temporal factor gradients diversify intermediate neural progenitors Qingzhong Ren|Ching-Po Yang|Zhiyong Liu|Ken Sugino|Kent Mok|Yisheng He|Tzumin Lee Howard Hughes Medical Institute, Janelia Research Campus, 19700 Helix Drive, Ashburn, VA, USA
http://dx.doi.org/10.1101/121582 2017-03-29 Biophysics CC BY Physiological Preparation Of Hair Cells From The Sacculus Of The American Bullfrog (Rana catesbeiana) Julien B Azimzadeh|Joshua D Salvi The Rockefeller University
http://dx.doi.org/10.1101/121764 2017-03-29 Neuroscience A Comparison Between Scalp- And Source-Reconstructed EEG Networks Margherita Lai|Matteo Demuru|Arjan Hillebrand|Matteo Fraschini University of Cagliari;|VUMC Amsterdam
http://dx.doi.org/10.1101/121525 2017-03-29 Evolutionary Biology CC BY-NC-ND Semicircular Canals In Anolis Lizards: Ecomorphological Convergence And Ecomorph Affinities Of Fossil Species Blake V Dickson|Emma Sherratt|Jonathan B Losos|Stephanie E Pierce Harvard University;|Australian National University
http://dx.doi.org/10.1101/121780 2017-03-29 Microbiology CC BY Rv3723/LucA coordinates fatty acid and cholesterol uptake in Mycobacterium tuberculosis Brian C VanderVen|Evgeniya V Nazarova|Christine R Montague|Thuy La|Kaley M Wilburn|Neelima Sukumar|Wonsik Lee|Shannon Caldwell|David G Russell Cornell University, United States
http://dx.doi.org/10.1101/121871 2017-03-29 Biophysics CC BY-NC-ND Evidence of evolutionary selection for co-translational folding William M Jacobs|Eugene I Shakhnovich Harvard University
http://dx.doi.org/10.1101/121921 2017-03-29 Molecular Biology CC BY-ND Evolutionary Insights On The Structure And Function Of Archaeal C/D Box sRNAs As Revealed By A Comprehensive Set From Six Pyrobaculum Species Lauren M Lui|Andrew V Uzilov|David L Bernick|Andrea Corredor|Todd M Lowe|Patrick P Dennis University of California, Santa Cruz;|Whitman College
http://dx.doi.org/10.1101/121756 2017-03-29 Neuroscience Dystroglycan Maintains Inner Limiting Membrane Integrity To Coordinate Retinal Development Reena Clements|Rolf Turk|Kevin Campbell|Kevin M Wright Oregon Health & Science University;|University of Iowa
http://dx.doi.org/10.1101/121814 2017-03-29 Systems Biology Modeling the dynamics of progression of chromosomal alterations in cervical cancer: a computational model Augusto Cabrera-Becerril|Cruz Vargas-De-Leon|Sergio Hernandez|Pedro Miramontes|Raul Peralta Facultad de Ciencias, UNAM;|Escuela Superior de Medicina, IPN;|Programa de Dinamica Nolineal, UACM;|Centro de Investigacion en Dinamica Celular, UAEM
http://dx.doi.org/10.1101/121673 2017-03-29 Biophysics CC BY Dynamical Scaling And Phase Coexistence In Topologically-Constrained DNA Melting Yair Augusto Gutierrez Fosado|Davide Michieletto|Davide Marenduzzo University of Edinburgh
http://dx.doi.org/10.1101/122168 2017-03-29 CC BY-ND Advances in abscission signaling Osric Rahul Patharkar|John C Walker University of Missouri
http://dx.doi.org/10.1101/122127 2017-03-29 Plasmodium simium causing human malaria: a zoonosis with outbreak potential in the Rio de Janeiro Brazilian Atlantic forest Patricia Brasil|Mariano Gustavo Zalis|Anielle de Pina-Costa|Andre Machado Siqueira|Cesare Bianco Junior|Sidnei Silva|Andre Luiz Lisboa Areas|Marcelo Pelajo-Machado|Denise A M de Alvarenga|Ana Carolina Faria da Silva Santelli|Hermano Gomes Albuquerque|Pedro Cravo|Flipe V S de Abreu|Cassio Leonel Peterka|Graziela Maria Zanini|Martha C Suarez-Mutis|Alcides Pissinatti|Ricardo Lourenco-de-Oliveira|Cristiana F A de Brito|Maria de Fatima Ferreira-da-Cruz|Richard Culleton|Claudio Tadeu Daniel-Ribeiro Laboratorio de Doencas Febris Agudas, INI, Fiocruz;|Universidade Federal do Rio de Janeiro;|Centro de Pesquisa, Diagnostico e Treinamento em Malaria (CPD-Mal), Fiocruz, Rio de Janeiro, Brazil;|Laboratorio de Parasitologia, INI, Fiocruz, Rio de Janeiro, Brazil;|Laboratorio de Patologia, IOC, Fiocruz, Rio de Janeiro, Brazil;|Centro de Pesquisas Rene Rachou, Fiocruz;|Programa Nacional de Prevencao e Controle de Malaria, SVS, Ministerio da Saude;|Fiocruz;|Universidade Federal de Goias;|Programa Nacional de Prevencao e Controle da Malaria, SVS, Ministerio da Saude, Brazil;|Centro Universitario Serra dos Orgaos (UNIFESO), Teresopolis, Rio de Janeiro, Brazil;|Laboratorio de Mosquitos Transmissores de Hematozoarios, IOC, Fiocruz, Rio de Janeiro, Brazil;|Laboratorio de Malaria, Centro de Pesquisas Rene Rachou (CPqRR), Fiocruz, Belo Horizonte, Brazil;|Malaria Unit, Department of Pathology, Institute of Tropical Medicine, Nagasaki University,Japan
http://dx.doi.org/10.1101/122143 2017-03-29 CC BY-NC High-Throughput Characterization of Protein-Protein Interactions by Reprogramming Yeast Mating David Aaron Younger|Stephanie Berger|David Baker|Eric Klavins University of Washington
http://dx.doi.org/10.1101/122093 2017-03-29 CC BY-NC-ND Genetic costs of domestication and improvement Brook T Moyers|Peter L Morrell|John K McKay Colorado State University;|University of Minnesota
http://dx.doi.org/10.1101/122119 2017-03-29 Cross-talk between active DNA demethylation, resetting of cellular metabolism and shoot apical growth in poplar bud break Daniel Conde|Mariano Perales|Anne-Laure Le Gac|Christopher Dervinis|Matias Kirst|Stephane Maury|Pablo Gonzalez-Melendi|Isabel Allona CBGP (UPM/INIA);|LBLGC EA1207, USC 1328 INRA, University Orleans;|School of Forest Resources and Conservation, University of Florida, Gainesville, Florida 32611, USA;|University of Florida Genetics Institute, University of Florida, Gainesville, FL 32611, USA;|LBLGC EA1207, USC 1328 INRA, University Orleans, 45067 Orleans, France;|eDepartamento de Biotecnologia-Biologia Vegetal, Escuela Tecnica Superior de Ingenieria Agronomica,;|CBGP-UPM campus de montegancedo
http://dx.doi.org/10.1101/121178 2017-03-29 EXPLANe: An Extensible Framework for Poster Annotation with Mobile Devices Nikhil Gopal|Andrew I. Su|Chunlei Wu|Sean D Mooney University of Washington;|The Scripps Research Institute
http://dx.doi.org/10.1101/122085 2017-03-29 CC BY-NC-ND An ancient FMRFamide-related peptide-receptor pair induces defense behavior in a brachiopod larva Daniel Thiel|Philipp Bauknecht|Gaspar Jekely|Andreas Hejnol University of Bergen;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/122135 2017-03-29 CC BY-NC Epigenetic analyses of the planarian genome reveals conservation of bivalent promoters in animal stem cells. Damian Kao|Yuliana Mihaylova|Samantha Hughes|Alvina Lai|Aziz Aboobaker University of Oxford
http://dx.doi.org/10.1101/102327 2017-03-29 Genomics CC BY-ND Paternally inherited noncoding structural variants contribute to autism William M Brandler|Danny Antaki|Madhusudan Gujral|Morgan L Kleiber|Michelle S Maile|Oanh Hong|Timothy R Chapman|Shirley Tan|Prateek Tandon|Timothy Pang|Shih C Tang|Keith K Vaux|Yan Yang|Eoghan Harrington|Sissel Juul|Daniel J Turner|Stephen F Kingsmore|Joseph G Gleeson|Boyko Kakaradov|Amalio Telenti|J Craig Venter|Roser Corominas|Bru Cormand|Isabel Rueda|Karen S Messer|Caroline M Nievergelt|Maria J Arranz|Eric Courchesne|Karen Pierce|Alysson R Muotri|Lilia M Iakoucheva|Amaia Hervas|Christina Corsello|Jonathan Sebat University of California, San Diego;|Rady Children's Hospital;|Oxford Nanopore Technologies Inc.;|Rady Children's Institute for Genomic Medicine;|Human Longevity Institute;|Pompeu Fabra University;|Universitat de Barcelona;|Hospital Sant Joan de Deu;|Hospital de la Santa Creu i Sant Pau;|Hospital Universitari Mutua de Terrassa
http://dx.doi.org/10.1101/121731 2017-03-29 Plant Biology CC BY-ND Could Plants Be Sentient? Paco Calvo|Vaidurya Sahi|Anthony Trewavas University of Edinburgh (UK)/Universidad de Murcia (Spain);|Karlsruhe Institute of Technology;|University of Edinburgh (UK)
http://dx.doi.org/10.1101/121509 2017-03-29 Bioinformatics Multiple Kernel Learning Approach For Medical Image Analysis Nisar Wani|Khalid Raza Govt. Degree College Baramulla, University of Kashmir, J&K, India;|Jamia Millia Islamia
http://dx.doi.org/10.1101/122077 2017-03-29 Bioinformatics CC BY-NC-ND Squeakr: An Exact and Approximate k-mer Counting System Prashant Pandey|Michael A. Bender|Rob Johnson|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/122010 2017-03-29 Cell Biology CC BY Drosophila Short stop as a paradigm for the role and regulation of spectraplakins Andre Voelzmann|Yu-Ting Liew|Yue Qu|Ines Hahn|Cristina Melero|Natalia Sanchez-Soriano|Andreas Prokop The University of Manchester;|University of Liverpool
http://dx.doi.org/10.1101/122044 2017-03-29 Systems Biology CC BY A Systematic Atlas of Chaperome Deregulation Topologies Across the Human Cancer Landscape Ali Hadizadeh Esfahani|Angelina Sverchkova|Julio Saez-Rodriguez|Andreas Schuppert|Marc Brehme Joint Research Center for Computational Biomedicine (JRC-COMBINE), RWTH Aachen, 52074 Aachen
http://dx.doi.org/10.1101/122556 2017-03-30 CC BY-ND A mathematical model for Dengue and Chikungunya in Mexico. Nohemi Baez-Hernandez|Mauricio Casas-Martinez|Rogelio Danis-Lozano|Jorge X. Velasco-Hernandez Universidad Veracruzana;|Instituto Nacional de Salud Publica;|Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/122416 2017-03-30 CC BY Epidemiology of the multidrug-resistant ST131-H30 subclone among extraintestinal Escherichia coli collected from US children Arianna Miles-Jay|Scott J. Weissman|Amanda L. Adler|Veronika Tchesnokova|Evgeni V. Sokurenko|Janet G. Baseman|Danielle M. Zerr University of Washington;|Seattle Children's Research Institute
http://dx.doi.org/10.1101/122564 2017-03-30 The role of N-terminal modification of MeCP2 in the pathophysiology of Rett syndrome Taimoor I Sheikh|Alexia Martinez de Paz|Shamim Akhtar|Juan Ausio|John B Vincent Centre for Addiction and Mental Health;|University of Victoria;|University of Engineering and Technology Taxila;|Centre for Addiction & Mental Health
http://dx.doi.org/10.1101/121996 2017-03-30 CC BY-ND Production and purification of human Hsp90β in Escherichia coli Martina Radli|Dmitry B. Veprintsev|Stefan G.D. Rudiger Utrecht University;|Paul Scherrer Institute
http://dx.doi.org/10.1101/122572 2017-03-30 CC BY-NC-ND Predicting Causal Relationships from Biological Data: Applying Automated Casual Discovery on Mass Cytometry Data of Human Immune Cells Sofia Triantafillou|Vincenzo Lagani|Christina Heinze-Deml|Angelika Schmidt|Jesper Tegner|Ioannis Tsamardinos Northwestern University;|University of Crete;|ETH;|KI;|KAUST
http://dx.doi.org/10.1101/122606 2017-03-30 CC BY-NC-ND Implementation and System Identification of a Phosphorylation-Based Insulator in a Cell-Free Transcription-Translation System Shaobin Guo|Enoch Yeung|Richard M Murray California Institute of Technology;|Pacific Northwest National Laboratory;|Caltech
http://dx.doi.org/10.1101/122408 2017-03-30 Microbiology CC BY-NC-ND Methicillin resistant Staphylococcus aureus emerged long before the introduction of methicillin in to clinical practice Catriona P Harkins|Bruno Pichon|Michel Doumith|Julian Parkhill|Henrik Westh|Alexander Tomasz|Herminia de Lencastre|Stephen D Bentley|Angela M Kearns|Matthew TG Holden University of St Andrews;|Public Health England;|The Wellcome Trust Sanger Institute;|University of Copenhagen;|The Rockefeller University;|Universidade Nova de Lisboa
http://dx.doi.org/10.1101/122432 2017-03-30 Bioinformatics xMWAS: an R package for data-driven integration and differential network analysis Karan Uppal|Young-Mi Go|Dean P. Jones Emory University
http://dx.doi.org/10.1101/112425 2017-03-30 Plant Biology CC BY-NC Generation And Comparative Analysis Of Full-Length Transcriptomes In Sweetpotato And Its Putative Wild Ancestor I. trifida Yonghai Luo|Na Ding|Xuan Shi|Yunxiang Wu|Ruyuan Wang|Lingquan Pei|Ruoyu Xu|Shuo Cheng|Yongyan Lian|Jingyan Gao|Aimin Wang|Qinghe Cao|Jun Tang Jiangsu Normal University;|Xuzhou Institute of Agricultural Sciences in Jiangsu Xuhuai Region
http://dx.doi.org/10.1101/122390 2017-03-30 Immunology CC BY Reactive Oxygen Species Regulate the Inflammatory Function of NKT Cells through Promyelocytic Leukemia Zinc Finger Yeung-Hyen Kim|Ajay Kumar|Cheong-Hee Chang|Kalyani Pyaram University of Michigan
http://dx.doi.org/10.1101/122242 2017-03-30 Biophysics A Conformational Checkpoint Between DNA Binding And Cleavage By CRISPR-Cas9 Yavuz S Dagdas|Janice S Chen|Samuel H Sternberg|Jennifer A Doudna|Ahmet Yildiz University of California Berkeley
http://dx.doi.org/10.1101/122150 2017-03-30 Cell Biology Cellular Interplay and Cytokine Hierarchy Cause Pathological Cardiac Hypertrophy in RAF1-Mutant Noonan Syndrome Jiani C Yin|Mathew J Platt|Xixi Tian|Xue Wu|Peter H Backx|Jeremy A Simpson|Toshiyuki Araki|Benjamin G Neel Department of Medical Biophysics, University of Toronto;|Department of Human Health and Nutritional Sciences, University of Guelph;|Department of Biology, York University;|Laura and Isaac Perlmutter Cancer Center, New York University Langone Medical Center
http://dx.doi.org/10.1101/122275 2017-03-30 Cell Biology Nanoscale Manipulation Of Membrane Curvature For Probing Endocytosis In Live Cells Wenting Zhao|Lindsey Hanson|Hsin-Ya Lou|Matthew Akamatsu|Praveen Chowdary|Francesca Santoro|Jessica Marks|Alexandre Grassart|David Drubin|Yi Cui|Bianxiao Cui Stanford University;|University of California, Berkeley
http://dx.doi.org/10.1101/122531 2017-03-30 Genomics CC BY Aligning single-cell developmental and reprogramming trajectories identifies molecular determinants of reprogramming outcome Davide Cacchiarelli|Xiaojie Qiu|Sanjay Srivatsan|Michael Ziller|Eliah Overbey|Jonna Grimsby|Prapti Pokharel|Ken Livak|Shuqiang Li|Alex Meissner|Tarjei Mikkelsen|John Rinn|Cole Trapnell Telethon Institute of Genetics and Medicine;|University of Washington;|Max-Planck Institute of Psychiatry;|The Broad Institute of MIT and Harvard;|Fluidigm Corporation;|Max Planck Institute for Molecular Genetics;|Harvard University
http://dx.doi.org/10.1101/122382 2017-03-30 Cell Biology CC BY-NC-ND Migration Of Human Mesenchymal Stem Cells Stimulated With Pulsed Electric Field And The Dynamics Of The Cell Surface Glycosylation Katarzyna Jezierska-Wozniak|Seweryn Lipinski|ukasz Grabarczyk|Monika Barczewska|Aleksandra Habich|Joanna Wojtkiewicz|Wojciech Maksymowicz University of Warmia and Mazury, Olsztyn, Poland
http://dx.doi.org/10.1101/122465 2017-03-30 Microbiology CC BY-NC-ND The Toxoplasma centrocone houses cell cycle regulatory factors Anatoli Naumov|Stella Kratzer|Li-Min Ting|Kami Kim|Elena S Suvorova|Michael W White University of South Florida;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/122374 2017-03-30 Systems Biology CC BY-NC Semblance Of Heterogeneity In Collective Cell Migration Linus J Schumacher|Philip K Maini|Ruth E Baker Imperial College London;|University of Oxford
http://dx.doi.org/10.1101/122267 2017-03-30 Neuroscience CC BY-NC-ND Should A Few Null Findings Falsify Prefrontal Theories Of Conscious Perception? Brian Odegaard|Robert T Knight|Hakwan Lau University of California, Los Angeles;|University of California, Berkeley
http://dx.doi.org/10.1101/122341 2017-03-30 Systems Biology CC BY-NC Post-inference Methods Of Prior Knowledge Incorporation In Gene Regulatory Network Inference Ajay Nair|Madhu Chetty Indian Institute of Technology Bombay and Monash University;|Federation University
http://dx.doi.org/10.1101/122283 2017-03-30 Molecular Biology Urine Glucose Levels Are Disordered Before Blood Glucose Levels Increase In Zucker Diabetic Fatty Rats Wei Yin|Weiwei Qin|Youhe Gao Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences;|Dept. of Biochemistry and Molecular Biology, School of Life Science, Beijing Normal University
http://dx.doi.org/10.1101/122523 2017-03-30 Neuroscience CC BY Agreement between measurements of stance width using motion capture and center of pressure in individuals with and without Parkinson's disease J. L. McKay Emory University / Georgia Tech
http://dx.doi.org/10.1101/122358 2017-03-30 Plant Biology CC BY-ND Guidance Of Circumnutation Of Climbing Bean Stems: An Ecological Exploration Paco Calvo|Vicente Raja|David N. Lee University of Edinburgh (UK)/Universidad de Murcia (Spain);|University of Cincinnati;|University of Edinburgh (UK)
http://dx.doi.org/10.1101/122259 2017-03-30 Genetics CC BY-NC-ND Estimating The Contribution Of Folding Stability To Non-Specific Epistasis In Protein Evolution Pouria Dasmeh|Adrian Serohijos University of Montreal
http://dx.doi.org/10.1101/122473 2017-03-30 Bioinformatics CC BY-ND miniMDS: 3D structural inference from high-resolution Hi-C data Lila Rieber|Shaun Mahony Pennsylvania State University
http://dx.doi.org/10.1101/122499 2017-03-30 Microbiology Horizontal Gene Transfer of Functional Type VI Killing Genes by Natural Transformation Jacob Thomas|Samit S Watve|William C Ratcliff|Brian K Hammer Georgia Institute of Technology;|Tufts University School of Medicine
http://dx.doi.org/10.1101/122226 2017-03-30 Cell Biology CC BY Chromosome Conformation Paints Reveal The Role Of Lamina Association In Genome Organization And Regulation Teresa R Luperchio|Michael EG Sauria|Xianrong Wong|Marie-Cecile Gaillard|Peter Tsang|Katja Pekrun|Robert A Ach|N Alice Yamada|James Taylor|Karen Reddy Johns Hopkins University;|Agilent Technologies
http://dx.doi.org/10.1101/122713 2017-03-31 Microbiology Worldwide Population Structure Of Escherichia coli Reveals Two Major Subspecies Yu Kang|Lina Yuan|Zilong He|Fei Chen|Zhancheng Gao|Shulin Liu|Xinmiao Jia|Qin Ma|Xinhao Jin|Rongrong Fu|Yang Yu|Chunxiong Luo|Jiayan Wu|Jingfa Xiao|Songnian Hu|Jun Yu Beijing Institute of Genomics;|Peking University People's Hostiptal;|Harbin Medical University;|South Dakota State University;|University of Virginia;|School of Physics, Peking University
http://dx.doi.org/10.1101/122754 2017-03-31 Microbiology CC BY The effect of climatic conditions on malaria epidemics in Swat Valley Sohail Khan University of Swat
http://dx.doi.org/10.1101/122549 2017-03-31 Genomics CC BY Classifying cancer genome aberrations by their mutually exclusive effects on transcription Jonathan B Dayton|Stephen R Piccolo Brigham Young University
http://dx.doi.org/10.1101/122697 2017-03-31 Cell Biology The microprotein Minion controls cell fusion and muscle formation Qiao Zhang|Ajay Vashisht|Jason O'Rourke|Stephane Y Corbel|Rita Moran|Angelica Romero|Loren Miraglia|Jia Zhang|Eric Durrant|Christian Schmedt|Srinath C Sampath|Srihari C Sampath GNF
http://dx.doi.org/10.1101/122234 2017-03-31 Evolutionary Biology CC BY-ND Mitochondrial genome variation affects the mutation rate of the nuclear genome in Drosophila melanogaster Jonci N Wolff|M. Florencia Florencia Camus|Damian Dowling|Bjorn Rogell Monash University;|University College London;|Stockholm University
http://dx.doi.org/10.1101/122580 2017-03-31 Cell Biology CC BY A protein phosphatase network controls the temporal and spatial dynamics of differentiation commitment in human epidermis Ajay Mishra|Angela Pisco|Benedicte Oules|Tony Ly|Kifayathullah Liakath-Ali|Gernot Walko|Priyalakshmi Viswanathan|Jagdeesh Nijjhar|Sara-Jane Dunn|Angus Lamond|Fiona Watt King's College London;|Dundee University;|Microsoft, Cambridge
http://dx.doi.org/10.1101/122655 2017-03-31 Synthetic Biology Multiplex genome editing for synthetic biology in Vibrio natriegens Triana N. Dalia|Chelsea A. Hayes|Sergey Stolyar|Christopher J. Marx|James B. McKinlay|Ankur B. Dalia Indiana University;|University of Idaho
http://dx.doi.org/10.1101/123018 2017-03-31 Ultrasensitivity and Fluctuations in the Barkai-Leibler Model of Chemotaxis Receptors in Escherichia coli Ushasi Roy|Manoj Gopalakrishnan Indian Institute of Technology Madras
http://dx.doi.org/10.1101/123075 2017-03-31 Altered allostatic regulation of wakefulness and slow-wave-sleep spectral quality in mice with hypocretin (orexin) receptor 1 inactivation in noradrenergic cells Sha Li|Paul Franken|Anne Vassalli University of Lausanne
http://dx.doi.org/10.1101/123059 2017-03-31 CC BY Members of the abscisic acid co-receptor PP2C protein family mediate salicylic acid-abscisic acid crosstalk Daniel F Klessig|Murli Manohar|Dekai Wang|Patricia M Manosalva|Hyong Woo Choi|Erich Kombrink Boyce Thompson Institute for Plant Research, United States;|Cornell University, United States;|Max Plank Institute for Plant Breeding Research, United States
http://dx.doi.org/10.1101/123042 2017-03-31 Systematic gene tagging using CRISPR/Cas9 in human stem cells to illuminate cell organization Brock Roberts|Amanda Haupt|Andrew Tucker|Tanya Grancharova|Joy Arakaki|Margaret A. Fuqua|Angelique Nelson|Caroline Hookway|Susan A. Ludmann|Irina M. Mueller|Ruian Yang|Alan R. Horwitz|Susanne M. Rafelski|Ruwanthi N. Gunawardane Allen Institute for Cell Science
http://dx.doi.org/10.1101/123034 2017-03-31 CC BY-NC The development of scientific consensus: analyzing conflict and concordance among Avian phylogenies Joseph Brown|Ning Wang|Stephen Smith University of Michigan
http://dx.doi.org/10.1101/122994 2017-03-31 CC BY-NC Feel the way with a vibrotactile compass: Does a navigational aid aid navigation? Steven M Weisberg|Daniel Badgio|Anjan Chatterjee University of Pennsylvania
http://dx.doi.org/10.1101/122614 2017-03-31 Biophysics CC BY Quantitative hybrid modeling reveals predictable mechanical stress response of growing tumor spheroids Paul Van Liedekerke|Johannes Neistch|Tim Johann|Kevin Alessandri|Pierre Nassoy|Dirk Drasdo INRIA;|IZBI;|Institut Optique
http://dx.doi.org/10.1101/122903 2017-03-31 Genomics CC BY Hypocretin underlies the evolution of sleep loss in the Mexican cavefish James B Jaggard|Bethany A Stahl|Evan Lloyd|Erik R Duboue|Alex C Keene Florida Atlantic University, United States;|Carnegie Institution, United States
http://dx.doi.org/10.1101/122978 2017-03-31 Bioinformatics CC BY-NC-ND Intra-protein binding peptide fragments have specific and intrinsic sequence patterns Yuhong Wang|Junzhou Huang|Wei Li|Sheng Wang|Chuanfan Ding Ningbo University;|University of Texas;|Jilin University;|Fudan University
http://dx.doi.org/10.1101/122960 2017-03-31 Plant Biology CC BY-ND Regulation of intercellular TARGET OF MONOPTEROS 7 protein transport in the Arabidopsis root Kuan-Ju Lu|Bert De Rybel|Hilda van Mourik|Dolf Weijers Wageningen University;|VIB Ghent
http://dx.doi.org/10.1101/122788 2017-03-31 Neuroscience CC BY-NC-ND Inflated False Negative Rates Undermine Reproducibility In Task-Based fMRI Gabriele Lohmann|Johannes Stelzer|Karsten Mueller|Eric Lacosse|Tilo Buschmann|Vinod J. Kumar|Wolfgang Grodd|Klaus Scheffler Max Planck Institute for Biological Cybernetics, Tuebingen, Germany;|University Hospital Tuebingen, Germany;|Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany;|Max Planck Institute for Intelligent Systems, Tuebingen, Germany;|Fraunhofer Institute for Cell Therapy and Immunology, Leipzig, Germany
http://dx.doi.org/10.1101/122945 2017-03-31 Neuroscience CC BY-NC-ND Local Connectome Phenotypes Predict Social, Health, and Cognitive Factors Michael Powell|Javier Garcia|Fang-Cheng Yeh|Jean Vettel|Timothy Verstynen United States Military Academy;|Army Research Laboratory;|University of Pittsburgh Medical Center;|Carnegie Mellon University
http://dx.doi.org/10.1101/121889 2017-03-31 Bioinformatics CC BY-NC HiGlass: Web-based Visual Comparison And Exploration Of Genome Interaction Maps Peter Kerpedjiev|Nezar Abdennur|Fritz Lekschas|Chuck McCallum|Kasper Dinkla|Hendrik Strobelt|Jacob M Luber|Scott B Ouellette|Alaleh Ahzir|Nikhil Kumar|Jeewon Hwang|Burak H Alver|Hanspeter Pfister|Leonid A Mirny|Peter J Park|Nils Gehlenborg Harvard Medical School;|Massachusetts Institute of Technology;|Harvard University
http://dx.doi.org/10.1101/122705 2017-03-31 Neuroscience Memory And Perception-based Facial Image Reconstruction Chi-Hsun Chang|Dan Nemrodov|Andy C.H. Lee|Adrian Nestor University of Toronto Scarborough
http://dx.doi.org/10.1101/122879 2017-03-31 Bioinformatics CC BY A Site Specific Model And Analysis Of The Neutral Somatic Mutation Rate In Whole-Genome Cancer Data Johanna Bertl|Qianyun Guo|Malene Juul Rasmussen|Soeren Besenbacher|Morten Muhlig Nielsen|Henrik Hornshoej|Jakob Skou Pedersen|Asger Hobolth Department of Molecular Medicine, Aarhus University, Denmark;|Bioinformatics Research Center, Aarhus University, Denmark
http://dx.doi.org/10.1101/122747 2017-03-31 Bioinformatics CC BY RNA-Seq 2G: Online Analysis Of Differential Gene Expression With Comprehensive Options Of Statistical Methods Zhe Zhang|Yuanchao Zhang|Perry Evans|Asif Chinwalla|Deanne Taylor The Children's Hospital of Philadelphia
http://dx.doi.org/10.1101/122820 2017-03-31 Neuroscience CC BY-NC-ND Concurrent tACS-fMRI Reveals Causal Influence Of Power Synchronized Neural Activity On Resting State fMRI Connectivity Marc Baechinger|Valerio Zerbi|Marius Moisa|Rafael Polania|Quanying Liu|Dante Mantini|Christian Ruff|Nicole Wenderoth Neural Control of Movement Lab, Dept. of Health Sciences and Technology, ETH Zurich;|Laboratory for Social and Neural Systems Research, Dept. of Economics, University of Zurich
http://dx.doi.org/10.1101/122887 2017-03-31 Neuroscience CC BY Learning And Recognition Of Tactile Temporal Sequences By Mice And Humans Michael R Bale|Malamati Bitzidou|Anna Pitas|Leonie Brebner|Lina Khazim|Stavros Anagnou|Caitlin Stevenson|Miguel Maravall Instituto de Neurociencias UMH-CSIC; University of Sussex;|University of Sussex
http://dx.doi.org/10.1101/122937 2017-03-31 Bioinformatics CC BY-ND Exhaustive capture of biological variation in RNA-seq data through k-mer decomposition Jerome Audoux|Nicolas Philippe|Rayan Chikhi|Mikael Salson|Marc Gabriel|Therese Commes|Daniel Gautheret INSERM U1183 IRMB, Université de Montpellier, Montpellier, France;|Univ. Lille, CNRS, Inria, UMR 9189 - CRIStAL - F-59000 Lille, France;|Institute for Integrative Biology of the Cell, Universite Paris-Sud, CNRS;|Institute for Integrative Biology of the Cell, Universite Paris-Sud
http://dx.doi.org/10.1101/122895 2017-03-31 Cell Biology CC BY-NC Replication Fork Slowing And Stalling are Distinct, Checkpoint-Independent Consequences of Replicating Damaged DNA Divya Ramalingam Iyer|Nicholas Rhind UMass Med School;|UMass Medical School
http://dx.doi.org/10.1101/122184 2017-03-31 Plant Biology Discovery and reduction of nonspecific activities of the major herbicide-resistance gene BAR Bastien Christ|Ramon Hochstrasser|Luzia Guyer|Rita Francisco|Sylvain Aubry|Stefan Hoertensteiner|Jing-Ke Weng Whitehead Institute for Biomedical Research / MIT;|University of Zurich
http://dx.doi.org/10.1101/122838 2017-03-31 Bioinformatics CC BY karyoploteR: An R/Bioconductor Package To Plot Customizable Linear Genomes Displaying Arbitrary Data Bernat Gel|Eduard Serra Germans Trias i Pujol Research Institute (IGTP)
http://dx.doi.org/10.1101/122812 2017-03-31 Neuroscience CC BY The 100 Euro Lab: A 3-D Printable Open Source Platform For Fluorescence Microscopy, Optogenetics And Accurate Temperature Control During Behaviour Of Zebrafish, Drosophila And C. elegans Andre Maia Chagas|Lucia Prieto Godino|Aristides B Arrenberg|Tom Baden University of Tuebingen;|University of Lausanne;|University of Sussex
http://dx.doi.org/10.1101/122853 2017-03-31 Physiology Loss And Gain Of Function Experiments Implicate TMEM18 As A Mediator Of The Strong Association Between Genetic Variants At Human Chromosome 2p25.3 And Obesity Rachel Larder|M.F. Michelle Sim|Pawan Gulati|Robin Antrobus|Y.C. Loraine Tung|Debra Rimmington|Eduard Ayuso|Joseph Polex-Wolf|Brian Y.H. Lam|Cristina Dias|Darren W. Logan|Sam Virtue|Fatima Bosch|Giles S.H. Yeo|Vladimir Saudek|Stephen O'Rahilly|Anthony P. Coll University of Cambridge Metabolic Research Laboratories, Cambridge, United Kingdom;|Cambridge Institute for Medical Research, University of Cambridge, United Kingdom;|Centre of Animal Biotechnology and Gene Therapy, University Autònoma de Barcelona;|Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton-Cambridge, UK
http://dx.doi.org/10.1101/122846 2017-03-31 Plant Biology The Date Palm (Phoenix dactylifera L.) In Siwa Oasis (Egypt): How Ethnographic, Morphometric, And Genetic Analyses Together Explain The Local Agrobiodiversity Vincent Battesti|Muriel Gros-Balthazard|Clemence Ogeron|Sarah Ivorra|Jean-Frederic Terral|Claire Newton CNRS, Musee de l'Homme;|None;|CNRS UMR EcoFog;|Universite de Montpellier;|Universite du Quebec
http://dx.doi.org/10.1101/122598 2017-03-31 Neuroscience Gamma and beta bursts during working memory read-out suggest roles in its volitional control Mikael Lundqvist|Pawel Herman|Melissa R Warden|Scott L Brincat|Earl K Miller MIT;|Royal Institute of Technology;|Dept. of Neurobiology and Behavior, Cornell University
http://dx.doi.org/10.1101/122671 2017-03-31 Biophysics RRM domain of ALS/FTD-causing FUS interacts with membrane: an anchor of membraneless organelles to membranes? Yimei Lu|Liangzhong Lim|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/122366 2017-04-01 CC BY Personal Cancer Genome Reporter: Variant Interpretation Report For Precision Oncology Sigve Nakken|Ghislain Fournous|Daniel Vodak|Lars Birger Aasheim|Eivind Hovig Institute for Cancer Research, Oslo University Hospital
http://dx.doi.org/10.1101/123182 2017-04-01 CC BY-ND PTSD Blood Transcriptome Mega-Analysis: Shared Inflammatory Pathways Across Genders And Modes Of Traumas Michael S Breen|Daniel S Tylee|Adam X Maihofer|Thomas C Neylan|Divya Mehta|Elisabeth Binder|Sharon D Chandler|William S Kremen|Victoria B Risbrough|Christopher H Woelk|Dewleen G Baker|Caroline M Nievergelt|Ming T Tsuang|Joseph D Buxbaum|Stephen J Glatt Icahn School of Medicine at Mount Sinai;|SUNY Upstate Medical University;|University of California San Diego;|University of California San Francisco;|Queensland University of Technology;|Max-Planck Institute of Psychiatry;|University of Southampton
http://dx.doi.org/10.1101/123125 2017-04-01 Developmental Biology CC BY-NC-ND Secretogranin-II Plays A Critical Role In Zebrafish Neurovascular Modeling Binbin Tao|Hongling Hu|Kimberly Mitchell|Ji Chen|Haibo Jia|Zuoyan Zhu|Vance Trudeau|Wei Hu Institute of Hydrobiology, Chinese Academy of Sciences;|Department of Biology, University of Ottawa;|College of Life Science and Technology, HuaZhong University of Science and Technology
http://dx.doi.org/10.1101/122986 2017-04-01 Biochemistry The C-Terminal Domain Of ParB Is Critical For Dynamic DNA Binding And Bridging Interactions Which Condense The Bacterial Centromere Gemma L M Fisher|Cesar L Pastrana|Victoria A Higman|Alan Koh|James A Taylor|Annika Butterer|Timothy D Craggs|Frank Sobott|Heath Murray|Matthew P Crump|Fernando Moreno-Herrero|Mark Dillingham University of Bristol;|Centro Nacional de Biotecnologia;|Newcastle University;|National Institutes of Health;|University of Antwerp;|University of Sheffield
http://dx.doi.org/10.1101/123133 2017-04-01 Biochemistry CC BY-NC-ND Sec17 (α-SNAP) And An SM-Tethering Complex Control The Outcome Of SNARE Zippering In Vitro And In Vivo Matthew L. Schwartz|Daniel P. Nickerson|Braden T. Lobingier|Cortney G. Angers|Michael Zick|Alexey Merz University of Washington;|Dartmouth Geisel Medical School
http://dx.doi.org/10.1101/123026 2017-04-01 Biochemistry Characterisation Of The Biflavonoid Hinokiflavone As A Pre-mRNA Splicing Modulator That Inhibits SENP Andrea Pawellek|Ursula Ryder|Triin Tammsalu|Lewis J King|Helmi Kreinin|Tony Ly|Ronald T Hay|Richard Hartley|Angus I Lamond University of Dundee, School of Life Sciences, Centre for Gene Regulation and Expression;|University of Glasgow, WestCHEM School of Chemistry, Glasgow
http://dx.doi.org/10.1101/123141 2017-04-01 Cancer Biology LncRNA-TUG1/EZH2 Axis Promotes Cell Proliferation, Migration And The EMT Phenotype Formation Through Sponging miR-382 Liang Zhao|Hongwei Sun|Hongru Kong|Zongjing Chen|Bicheng Chen|Mengtao Zhou The First Affiliated Hospital, Wenzhou Medical University
http://dx.doi.org/10.1101/123117 2017-04-01 Genomics CC BY-NC A Robust Targeted Sequencing Approach For Low Input And Variable Quality DNA From Clinical Samples Austin So|Anna Vilborg|Yosr Bouhlal|Ryan Koehler|Susan Grimes|Yannick Pouliot|Daniel Mendoza|Federico Goodsaid|Mike Lucero|Francisco M De La Vega|Hanlee P Ji TOMA Biosciences;|Stanford University;|TOMA Biosciences, Stanford University
http://dx.doi.org/10.1101/122739 2017-04-01 Cancer Biology CC BY-NC-ND Proteomic Analysis Defines Kinase Taxonomies Specific For Subtypes Of Breast Cancer Kyla AL Collins|Timothy J Stuhlmiller|Jon S Zawistowski|Michael P East|Trang T Pham|Claire R Hall|Daniel R Goulet|Samantha M Bevill|Steven P Angus|Sara H Velarde|Noah Sciaky|Lee M Graves|Gary L Johnson|Shawn M Gomez UNC-Chapel Hill
http://dx.doi.org/10.1101/123067 2017-04-02 Epidemiology Role of inter-related population-level host traits in determining pathogen richness and zoonotic risk Tim C Lucas|Hilde M Wilkinson-Herbots|Kate E Jones University of Oxford;|University College London
http://dx.doi.org/10.1101/122200 2017-04-02 Epidemiology CC BY Impact of rapid susceptibility testing and antibiotic selection strategy on the emergence and spread of antibiotic resistance in gonorrhea Ashleigh R Tuite|Thomas L Gift|Harrell W Chesson|Katherine Hsu|Joshua A Salomon|Yonatan H Grad Harvard T.H. Chan School of Public Health;|Centers for Disease Control and Prevention;|Massachusetts Department of Public Health
http://dx.doi.org/10.1101/123232 2017-04-02 Evolutionary Biology CC BY Rate Of Fixation Of Rare Variants In A Population Bhavin S Khatri The Francis Crick Institute
http://dx.doi.org/10.1101/123208 2017-04-02 Developmental Biology CC BY-ND Transcription Activation Of Early Human Development Suggests DUX4 As An Embryonic Regulator Virpi Tohonen|Shintaro Katayama|Liselotte Vesterlund|Mona Sheikhi|Liselotte Antonsson|Giuditta Filippini-Cattaneo|Marisa Jaconi|Anna Johnsson|Sten Linnarsson|Outi Hovatta|Juha Kere Department of Bioinformatics and Nutrition, Karolinska Institutet;|Karolinska Institutet;|Dept. of Clinical Science, Technology and Intervention, Karolinska Institutet;|ProCreaLab SA;|Department of Pathology and Immunology, Faculty of Medicine, Geneva University;|Department of Medical Biochemistry and Biophysics, Karolinska Institutet;|Department of Clinical Science, Technology and Intervention, Karolinska Institutet
http://dx.doi.org/10.1101/112219 2017-04-02 Genetics A Comprehensive Reanalysis Of Publicly Available GWAS Datasets Reveals An X Chromosome Rare Regulatory Variant Associated With High Risk For Type 2 Diabetes. Silvia Bonas-Guarch|Marta Guindo-Martinez|Irene Miguel-Escalada|Niels Grarup|David Sebastian|Elias Rodriguez-Fos|Friman Sanchez|Merce Planas-Felix|Paula Cortes-Sanchez|Santi Gonzalez|Pascal Timshel|Tune H Pers|Claire C Morgan|Ignasi Moran|Juan R Gonzalez|Ehm A Andersson|Carlos Diaz|Rosa M Badia|Miriam Udler|Jason Flannick|Torben Jrgensen|Allan Linneberg|Marit E Jrgensen|Daniel R Witte|Cramer Christensen|Ivan Brandslund|Emil V Appel|Robert A Scott|Jianan Luan|Claudia Langenberg|Nicholas J Wareham|Oluf Pedersen|Antonio Zorzano|Jose C Florez|Torben Hansen|Jorge Ferrer|Josep M Mercader|David Torrents Joint BSC-CRG-IRB Research Program in Computational Biology;|Genomic Programming of Beta-cells Laboratory, Institut d Investigacions August Pi i Sunyer;|The Novo Nordisk Foundation Center for Basic Metabolic Research;|Institute for Research in Biomedicine (IRB Barcelona);|Barcelona Supercomputing Center (BSC);|Department of Medicine, Imperial College London;|ISGlobal, Centre for Research in Environmental Epidemiology (CREAL);|Computer Sciences Department, Barcelona Supercomputing Center (BSC-CNS);|Broad Institute of Harvard and MIT;|Research Centre for Prevention and Health, Copenhagen, Denmark;|Steno Diabetes Center, Gentofte, Denmark;|Department of Public Health, Aarhus University, Aarhus, Denmark;|Medical Department, Lillebaelt Hospital, Vejle, Denmark;|Department of Clinical Biochemistry, Lillebaelt Hospital, Vejle, Denmark;|MRC Epidemiology Unit, University of Cambridge School of Clinical Medicine;|Institucio Catalana de Recerca i Estudis Avancats (ICREA)
http://dx.doi.org/10.1101/123265 2017-04-02 Evolutionary Biology CC BY Pairwise Hybrid Incompatibilities Dominate During Allopatric Speciation For A Simple Genotype-Phenotype Map Of Embryonic Spatial Patterning Bhavin S Khatri|Richard Goldstein The Francis Crick Institute;|University College London
http://dx.doi.org/10.1101/123190 2017-04-02 Bioengineering CC BY-NC-ND Prototyping And Implementation Of A Novel Feedforward Loop In A Cell-Free Transcription-Translation System And Cells Shaobin Guo|Richard M Murray California Institute of Technology;|Caltech
http://dx.doi.org/10.1101/123273 2017-04-02 Evolutionary Biology CC BY-NC Temporal Niche Expansion In Mammals From A Nocturnal Ancestor After Dinosaur Extinction Roi Maor|Tamar Dayan|Henry Ferguson-Gow|Kate Jones Tel Aviv University;|University College London
http://dx.doi.org/10.1101/123299 2017-04-02 Bioinformatics CC BY CogStack - Experiences Of Deploying Integrated Information Retrieval And Extraction Services In A Large National Health Service Foundation Trust Hospital Richard Jackson|Asha Agrawal|Kenneth Lui|Amos Folarin|Honghan Wu|Tudor Groza|Angus Roberts|Genevieve Gorrell|Xingyi Song|Damian Lewsley|Doug Northwood|Clive Stringer|Robert Stewart|Richard Dobson King's College London;|King's College Hospital;|Farr Institute;|Garvan Institute of Medical Research;|University of Sheffield
http://dx.doi.org/10.1101/123158 2017-04-02 Developmental Biology CC BY-NC-ND Myomerger Induces Fusion Of Non-Fusogenic Cells And Is Required For Myoblast Fusion Malgorzata Quinn|Qingnian Goh|Mitsutoshi Kurosaka|Dilani Gamage|Michael Petrany|Vikram Prasad|Douglas Millay Cincinnati Children's Hospital Medical Center
http://dx.doi.org/10.1101/123240 2017-04-02 Pharmacology and Toxicology CC BY Practical Unidentifiability Of Receptor Density In Target Mediated Drug Disposition Models Can Lead To Over-Interpretation Of Drug Concentration Data Andrew Stein Novartis
http://dx.doi.org/10.1101/123497 2017-04-03 Systems Biology Pervasive Discordance Between mRNA And Protein Expression During Embryonic Stem Cell Differentiation Patrick van den Berg|Bogdan Budnik|Nikolai Slavov|Stefan Semrau Leiden University;|Harvard University;|Northeastern University
http://dx.doi.org/10.1101/123422 2017-04-03 Physiology Novel Repolarisation Metric Predicts Arrhythmia Origin And Clinical Events In ARVC And Brugada Syndrome Claire Martin|Michele Orini|Neil Srinivasan|Justine Bhar-Amato|Shohreh Honarbakhsh|Anthony Chow|Martin Lowe|Ron Simon|Perry Elliott|Peter Taggart|Pier Lambiase Barts Heart Centre;|UCL
http://dx.doi.org/10.1101/121426 2017-04-03 Microbiology CC BY Development Of Amplicon Deep Sequencing Markers And Data Analysis Pipeline For Genotyping Multi-Clonal Malaria Infections Anita Lerch|Cristian Koepfli|Natalie Hofmann|Camilla Messerli|Stephen Wilcox|Johanna H Kattenberg|Inoni Betuela|Liam O'Connor|Ivo Mueller|Ingrid Felger Swiss Tropical and Public Health Institute, Basel, Switzerland;|Walter and Eliza Hall Institute of Medical Research, Parkville, VIC, Australia;|Papua New Guinea Institute of Medical Research, Madang, Papua New Guinea
http://dx.doi.org/10.1101/123513 2017-04-03 Progressive Multiple Sequence Alignment With The Poisson Indel Process Massimo Maiolo|Xiaolei Zhang|Manuel Gil|Maria Anisimova ZHAW;|National Heart and Lung Institute, Imperial College London, London, United Kingdom;|Inst. of Applied Simulation, School of Life Sciences & Facility Management, Zurich University
http://dx.doi.org/10.1101/123554 2017-04-03 CC BY-NC-ND Single-Cell Statistical Thermodynamics In Early Embryo Development Alessandro Giuliani|Masa Tsuchiya|Kenichi Yoshikawa Istituto Superiore di Sanita;|Kieo University;|Doshisha University
http://dx.doi.org/10.1101/123323 2017-04-03 The Spectrum Of De Novo Variants In Neurodevelopmental Disorders With Epilepsy Henrike O. Heyne|Rami Abou Jamra|Hande Caglayan|Dana Craiu|Peter De Jonghe|Renzo Guerrini|Katherine L. Helbig|Bobby P. C. Koeleman|Jack A. Kosmicki|Tarja Linnankivi|Patrick May|Hiltrud Muhle|Rikke S. Moeller|Bernd Neubauer|Aarno Palotie|Manuela Pendziwiat|Hannah Stamberger|Pasquale Striano|Sha Tang|Sitao Wu|Mark J. Daly|Annapurna Poduri|Yvonne Weber|Sarah Weckhuysen|Sanjay M. Sisodiya|Ingo Helbig|Dennis Lal|Johannes R. Lemke University of Leipzig, Germany;|Institute of Human Genetics, University of Leipzig Hospitals and Clinics, Leipzig, Germany;|Department of Molecular Biology and Genetics, Bogazici University Istanbul, Turkey;|“Carol Davila” University of Medicine Bucharest;|Neurogenetics Group, Center for Molecular Neurology, VIB, Antwerp, Belgium;|Children's Hospital-University of Florence, Florence, Italy;|Division of Clinical Genomics, Ambry Genetics, Aliso Viejo, California, USA;|Department of Medical Genetics University Medical Center Utrecht, Utrecht, The Netherlands;|Massachusetts General Hospital;|Folkhaelsan Institute of Genetics, Helsinki, Finland;|Luxembourg Centre for Systems Biomedicine, Esch-sur-Alzette, University of Luxembourg;|Department of Neuropediatrics, Christian-Albrechts University, Kiel, Germany;|The Danish Epilepsy Centre, Dianalund, Denmark;|Department of Pediatric Neurology, University Hospital Giessen, Giessen, Germany;|University of Genoa ‘G. Gaslini’ Institute, Genova, Italy;|Boston Children's Hospital, Boston, MA, USA;|University of Tuebingen, Tuebingen, Germany;|UCL Institute of Neurology, London, United Kingdom;|Division of Neurology, Children's Hospital of Philadelphia, Philadelphia, Pennsylvania, USA
http://dx.doi.org/10.1101/123174 2017-04-03 Immunology Unbiased Definition Of A Shared T-Cell Receptor Motif Enables Population-Based Studies Of Tuberculosis William S DeWitt|Krystle K. Quan|Damien Wilburn|Anna Sherwood|Marissa Vignali|Stephen C. DeRosa|Cheryl L. Day|Thomas J. Scriba|Harlan S. Robins|Willie Swanson|Ryan O. Emerson|Chetan Seshadri Fred Hutchinson Cancer Research Center;|University of Washington;|Adaptive Biotechnologies;|Emory University;|University of Cape Town
http://dx.doi.org/10.1101/123471 2017-04-03 Neuroscience CC BY Modelling Theta-Band Connectivity Between Occipital And Frontal Lobes: A Methodological MEG Study Darren Price|Matthew Brookes|Elizabeth Liddle|Peter Liddle|Lena Palaniyappan|Peter Morris MRC-CBU;|University of Nottingham;|University of Western Ontario
http://dx.doi.org/10.1101/123406 2017-04-03 Neuroscience CC BY The Virtual Mouse Brain: A Computational Neuroinformatics Platform To Study Whole Mouse Brain Dynamics Francesca Melozzi|Marmaduke Woodman|Viktor Jirsa|Christophe Bernard Aix Marseille Univ, Inserm, INS, Institut de Neurosciences des Systèmes
http://dx.doi.org/10.1101/123448 2017-04-03 Systems Biology Improved Outcome And Cost Effectiveness In Ablation Of Persistent Atrial Fibrillation Under General Anaesthetic Claire Martin|James P Curtain|Parag R Gajendragadkar|David A Begley|Simon P Fynn|Andrew A Grace|Patrick M Heck|Kiran Salaunkey|Munmohan S Virdee|Sharad Agarwal Papworth Hospital NHS Foundation Trust
http://dx.doi.org/10.1101/122218 2017-04-03 Genetics Reply To Lazaridis And Reich: Robust Model-Based Inference Of Male-Biased Admixture During Bronze Age Migration From The Pontic-Caspian Steppe Amy Goldberg|Torsten Gunther|Noah A Rosenberg|Mattias Jakobsson Stanford University;|Uppsala University
http://dx.doi.org/10.1101/122770 2017-04-03 Neuroscience CC BY-NC-ND Brainwide Mapping Of Endogenous Serotonergic Transmission Via Chemogenetic-fMRI Andrea Giorgi|Sara Migliarini|Marta Gritti|Alberto Galbusera|Giacomo Maddaloni|Maria Antonietta De Luca|Raffaella Tonini|Alessandro Gozzi|Massimo Pasqualetti Center for Neuroscience and Cognitive Systems, Istituto Italiano;|Biology Department, University of Pisa, Pisa, Italy;|Neuroscience and Brain Technologies Department, Istituto Italiano di Tecnologia, Genova, Italy;|Center for Neuroscience and Cognitive Systems, Istituto Italiano di Tecnologia, Rovereto, Italy;|Department of Biomedical Sciences, University of Cagliari, Cagliari, Italy
http://dx.doi.org/10.1101/123463 2017-04-03 Systems Biology Ablation Of Complex Fractionated Electrograms Improves Outcome In Long Standing Persistent Atrial Fibrillation Claire Martin|James P Curtain|Parag R Gajendragadkar|David A Begley|Simon P Fynn|Andrew A Grace|Patrick M Heck|Munmohan S Virdee|Sharad Agarwal Papworth Hospital NHS Foundation Trust
http://dx.doi.org/10.1101/123331 2017-04-03 Ecology CC BY-ND Estimating The Extinction Date Of The Thylacine Accounting For Unconfirmed Sightings Colin J Carlson|Alexander L Bond|Kevin R Burgio University of California Berkeley;|Ardenna Research;|University of Connecticut
http://dx.doi.org/10.1101/123430 2017-04-03 Bioinformatics CC BY-NC blkbox: Integration Of Multiple Machine Learning Approaches To Identify Disease Biomarkers Boris Guennewig|Zachary Davies|Mark Pinese|Antony A Cooper Garvan Institute of Medical Research
http://dx.doi.org/10.1101/123364 2017-04-03 Biophysics CC BY Neuron Type-Specific Mechanical Regulation Of Voltage-Gated Ca2+ Channels And Excitability In Hippocampal And Trigeminal Ganglion Neurons Sisi Liu|Yang Yu|Xiaoan Wu|Yuchen Qi|Liying Huang|Lin-Hua Jiang|Hucheng Zhao Tsinghua University;|Memorial Sloan-Kettering Cancer Center, Developmental Biology Program, New York;|Guanzhou Sport University;|Leeds University
http://dx.doi.org/10.1101/123414 2017-04-03 Bioinformatics CC BY Meta-Analysis Of Liver Transcriptomic Data To Identify Mammalian Functional Orthologs Pia Francesca Loren Reyes|Tom Michoel|Anagha Joshi|Guillaume Devailly The Roslin Institute, The University of Edinburgh
http://dx.doi.org/10.1101/123687 2017-04-03 Genomics CC BY-NC The Nuclear And Mitochondrial Genomes Of The Facultatively Eusocial Orchid Bee Euglossa dilemma Philipp Brand|Nicholas Saleh|Hailin Pan|Cai Li|Karen Kapheim|Santiago Ramirez University of California, Davis;|China National Genebank, BGI-Shenzhen;|Utah State University
http://dx.doi.org/10.1101/123547 2017-04-03 Cell Biology CC BY-NC-ND Giantin Knockout Models Reveal The Capacity Of The Golgi To Regulate Its Biochemistry By Controlling Glycosyltransferase Expression Nicola Stevenson|Dylan Bergen|Roderick Skinner|Kate Robson Brown|Chrissy Hammond|David Stephens University of Bristol
http://dx.doi.org/10.1101/123703 2017-04-03 Plant Biology CC BY A Role For The F-Box Protein HAWAIIAN SKIRT In Plant miRNA Function Patricia Lang|Michael Christie|Ezgi Dogan|Rebecca Schwab|Joerg Hagmann|Anna-Lena Van de Weyer|Detlef Weigel MPI for Developmental Biology
http://dx.doi.org/10.1101/123695 2017-04-03 Neuroscience CC BY-ND Spatial Structure Of Synchronized Inhibition In The Olfactory Bulb Hannah A Arnson|Ben Strowbridge Case Western Reserve University
http://dx.doi.org/10.1101/123653 2017-04-03 Animal Behavior and Cognition Limitation Of Dogwhelk Consumption Of Mussels By Crab Cues Depends On Dogwhelk Density And Cue Type Melanie L Boudreau|Ricardo A Scrosati|Melisa C Wong St. Francis Xavier University;|Bedford Institute of Oceanography
http://dx.doi.org/10.1101/121988 2017-04-03 Pharmacology and Toxicology CC BY-ND Detecting Drug-Target Binding In Cells Using Fluorescence Activated Cell Sorting Coupled With Mass Spectrometry Analysis Kris Wilson|Scott P Webster|John Peter Iredale|Xiaozhong Zheng|Natalie Z. M. Homer|Nhan Pham|Manfred Auer|Damian James Mole University of Glasgow;|University of Edinburgh;|University of Bristol
http://dx.doi.org/10.1101/123661 2017-04-03 Animal Behavior and Cognition CC BY-NC-ND Evolution Of Coprophagy And Nutrient Absorption In A Cave Salamander Daphne Soares|Rachel Roenfeldt|Shea Hammond|Michael E Slay|Dante B Fenolio|Matthew L Niemiller NJIT;|Texas A&M University;|Ozark Plateau National Wildlife Refuge;|The Nature Conservancy;|Department of Conservation & Research, San Antonio Zoological Park;|University of Alabama
http://dx.doi.org/10.1101/123646 2017-04-03 Neuroscience CC BY-NC-ND Serotonin Buffers Hippocampal Neuroplasticity And Emotional Behavior Giacomo Maddaloni|Sara Migliarini|Francesco Napolitano|Andrea Giorgi|Daniele Biasci|Alessia De Felice|Alberto Galbusera|Sara Franceschi|Francesca Lessi|Marco La Ferla|Paolo Aretini|Chiara M Mazzanti|Alessandro Gozzi|Alessandro Usiello|Massimo Pasqualetti University of Pisa;|Ceinge Biotecnologie Avanzate;|Cancer Research UK Cambridge Institute;|Istituto Italiano di Tecnologia;|Fondazione Pisana per la Scienza
http://dx.doi.org/10.1101/123588 2017-04-03 Bioinformatics CC BY-NC HiPiler: Visual Exploration Of Large Genome Interaction Matrices With Interactive Small Multiples Fritz Lekschas|Benjamin Bach|Peter Kerpedjiev|Nils Gehlenborg|Hanspeter Pfister Harvard School of Engineering and Applied Sciences;|Harvard Medical School
http://dx.doi.org/10.1101/123489 2017-04-03 Systems Biology A Note On Dynamical Compensation And Its Relation To Parameter Identifiability Omer Karin|Uri Alon|Eduardo Sontag Weizmann Institute of Science;|Rutgers University
http://dx.doi.org/10.1101/123596 2017-04-03 Cell Biology CC BY-NC-ND Scc2-Mediated Loading Of Cohesin Onto Chromosomes In G1 Yeast Cells Is Insufficient To Build Cohesion During S Phase Kim Nasmyth Department of Biochemistry University of Oxford
http://dx.doi.org/10.1101/123612 2017-04-03 Bioinformatics CC BY Scallop Enables Accurate Assembly Of Transcripts Through Phasing-Preserving Graph Decomposition Mingfu Shao|Carl Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/123455 2017-04-03 Bioinformatics CC BY-ND CiliaCarta: An Integrated And Validated Compendium Of Ciliary Genes Teunis J. P. van Dam|Julie Kennedy|Robin van der Lee|Erik de Vrieze|Kirsten A. Wunderlich|Suzanne Rix|Gerard W. Dougherty|Nils J. Lambacher|Chunmei Li|Victor L. Jensen|Michael R. Leroux|Rim Hjeij|Nicola Horn|Yves Texier|Yasmin Wissinger|Jeroen van Reeuwijk|Gabrielle Wheway|Barbara Knapp|Jan F. Scheel|Brunella Franco|Dorus A. Mans|Erwin van Wijk|Francois Kepes|Gisela G. Slaats|Grischa Toedt|Hannie Kremer|Heymut Omran|Katarzyna Szymanska|Konstantinos Koutroumpas|Marius Ueffing|Thanh-Minh T. Nguyen|Stef J. F. Letteboer|Machteld M. Oud|Sylvia E. C. van Beersum|Miriam Schmidts|Philip L. Beales|Qianhao Lu|Rachel H. Giles|Radek Szklarczyk|Robert B. Russell|Toby J. Gibson|Colin A. Johnson|Oliver E. Blacque|Uwe Wolfrum|Karsten Boldt|Ronald Roepman|Victor Hernandez-Hernandez|Martijn A. Huynen Centre for Molecular and Biomolecular Informatics, Radboud University Medical Center;|School of Biomolecular and Biomedical Science, University College Dublin;|Department of Otorhinolaryngology, Radboud University Medical Center;|Dept. of Cell and Matrix Biology, Institute of Zoology, Johannes Gutenberg University of Mainz;|Institute of Child Health, University College London;|Department of General Pediatrics, University Hospital Muenster;|Dept. of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BC, Canada;|Medical Proteome Center, Institute for Ophthalmic Research, University of Tuebingen;|Dept. of Human Genetics and Radboud Institute for Molecular Life Sciences, Radboud Univ.;|Leeds Institute of Molecular Medicine, University of Leeds;|Telethon Institute of Genetics and Medicine (TIGEM), Naples, Italy;|Institute of Systems and Synthetic Biology (iSSB), Genopole, CNRS, Univ. Evry, France;|Dept. Nephrology and Hypertension, University Medical Center Utrecht;|Structural and Computational Biology Unit, European Molecular Biology Laboratory;|Sec. of Ophthalmology & Neurosciences, Leeds Institute of Molecular Medicine, Univ. of Leeds;|Institute of Systems and Synthetic Biology (iSSB), Genopole, CNRS, Univ. Evry;|Biochemie Zentrum Heidelberg (BZH), Ruprecht-Karls Universitaet Heidelberg
http://dx.doi.org/10.1101/123851 2017-04-03 Cell Biology CC BY Cell size sensing in animal cells coordinates growth rates and cell cycle progression to maintain cell size uniformity Miriam Bracha Ginzberg|Nancy Chang|Ran Kafri|Marc W Kirschner The Hospital for Sick Children, Canada;|Harvard Medical School, Canada
http://dx.doi.org/10.1101/124271 2017-04-04 CC BY-NC-ND Rapid and Programmable Protein Mutagenesis Using Plasmid Recombineering Sean Higgins|Sorel Ouonkap Yimga|David Savage UC, Berkeley
http://dx.doi.org/10.1101/124198 2017-04-04 CC BY Sleep-Dependent Modulation Of Metabolic Rate In Drosophila Bethany A Stahl|Melissa Slocumb|Hersh Chaitin|Justin DiAngelo|Alex C Keene Florida Atlantic University;|Penn State Berks
http://dx.doi.org/10.1101/124214 2017-04-04 CC BY FtsEX-Mediated Regulation Of Inner Membrane Fusion And Cell Separation Reveals Morphogenetic Plasticity In Caulobacter crescentus Elizabeth L Meier|Qing Yao|Allison K Daitch|Grant J Jensen|Erin D Goley Johns Hopkins University School of Medicine;|California Institute of Technology
http://dx.doi.org/10.1101/124255 2017-04-04 CC BY-NC-ND Differential Effects of LIS1 On Processive Dynein-Dynactin Motility Pedro A Gutierrez|Richard J McKenney University of California - Davis
http://dx.doi.org/10.1101/123927 2017-04-04 CC BY-NC PREDICTD: PaRallel Epigenomics Data Imputation With Cloud-based Tensor Decomposition Timothy J Durham|Maxwell W Libbrecht|J Jeffry Howbert|Jeffrey Bilmes|William S Noble University of Washington
http://dx.doi.org/10.1101/123752 2017-04-04 Biophysics CC BY Landmark Kernel tICA For Conformational Dynamics Matthew P Harrigan|Vijay S Pande Stanford University
http://dx.doi.org/10.1101/123935 2017-04-04 Systems Biology CC BY Multiple Sources Of Signaling Noise In Bacterial Chemotaxis Network Remy Colin|Christelle Rosazza|Ady Vaknin|Victor Sourjik Max Planck Institute for Terrestrial Microbiology, 35043 Marburg, Germany;|The Racah Institute of Physics, the Hebrew University, Jerusalem 91904, Israel
http://dx.doi.org/10.1101/120741 2017-04-04 Physiology Dehydration Bouts Prompt Increased Activity And Blood Feeding By Mosquitoes Richard Hagan|Elise Szuter|Andrew Rosselot|Christopher Holmes|Samantha Siler|Andrew Rosendale|Jacob Hendershot|Kiaira Elliott|Emily Jennings|Alexandre Rizlallah|Yanyu Xiao|Miki Watanabe|Lindsey Romick-Rosendale|Jason Rasgon|Joshua Benoit University of Cincinnati;|Cincinnati Children's Hospital Medical Center;|Penn State University
http://dx.doi.org/10.1101/124081 2017-04-04 Genetics CC BY-NC-ND Extensions Of BLUP Models For Genomic Prediction In Heterogeneous Populations: Application In A Diverse Switchgrass Sample Guillaume Paul Ramstein|Michael Casler University of Wisconsin-Madison
http://dx.doi.org/10.1101/123794 2017-04-04 Biophysics Revealing The Cell-Material Interface With Nanometer Resolution By FIB-SEM Francesca Santoro|Wenting Zhao|Lydia-Marie Joubert|Liting Duan|Jan Schnitker|Yoeri van de Burgt|Hsin-Ya Lou|Bofei Liu|Alberto Salleo|Lifeng Cui|Yi Cui|Bianxiao Cui Stanford University;|Forschungszentrum Juelich;|Dongguan University of Technology
http://dx.doi.org/10.1101/124180 2017-04-04 Neuroscience CC BY Lipopolysaccharide-Binding Protein (LBP) Can Reverse The Amyloid State Of Fibrin Seen Or Induced In Parkinson's Disease: Implications For Its Aetiology Etheresia Pretorius|Sthembile Mbotwe|Douglas Kell Stellenbosch University;|University of Pretoria;|The University of Manchester
http://dx.doi.org/10.1101/123729 2017-04-04 Neuroscience CC BY Sex Differences In The Adult Human Brain: Evidence From 5,216 UK Biobank Participants Stuart J Ritchie|Simon R Cox|Xueyi Shen|Michael V Lombardo|Lianne Maria Reus|Clara Alloza|Matthew A Harris|Helen Alderson|Stuart Hunter|Emma Neilson|David CM Liewald|Bonnie Auyeung|Heather C Whalley|Stephen M Lawrie|Catharine R Gale|Mark E Bastin|Andrew M McIntosh|Ian J Deary The University of Edinburgh;|University of Cyprus;|VU Medical Centre;|Queen Margaret Hospital;|NHS Lothian;|University of Southampton
http://dx.doi.org/10.1101/124131 2017-04-04 SEARCH_16S: A new algorithm for identifying 16S ribosomal RNA genes in contigs and chromosomes Robert C Edgar Independent Scientist
http://dx.doi.org/10.1101/123745 2017-04-04 Physiology CC BY Running On The Moon: Work-Based Optimization Explains Flatter Gait In Reduced Gravity Delyle T. Polet|Ryan T. Schroeder|John E. A. Bertram University of Calgary
http://dx.doi.org/10.1101/124065 2017-04-04 Cell Biology CC BY Syntaxin 17 promotes lipid droplet formation by regulating the distribution of acyl-CoA synthetase 3 Hana Kimura|Kohei Arasaki|Yuki Ohsaki|Toyoshi Fujimoto|Mitsuo Tagaya Tokyo University of Pharmacy and Life Sciences, Japan;|Nagoya University Graduate School of Medicine, Japan
http://dx.doi.org/10.1101/124156 2017-04-04 Bioinformatics SINAPS: Prediction of microbial traits from marker gene sequences Robert C Edgar Independent Scientist
http://dx.doi.org/10.1101/123992 2017-04-04 Evolutionary Biology Regulatory Divergence In Wound-Responsive Gene Expression In Domesticated And Wild Tomato Ming-Jung Liu|Koichi Sugimoto|Sahra Uygun|Nicholas Panchy|Michael S. Campbell|Mark Yandell|Gregg A. Howe|Shin-Han Shiu Academia Sinica;|Michigan State University;|University of Utah
http://dx.doi.org/10.1101/124008 2017-04-04 Systems Biology Generation And Attenuation Of Variability In A Bacterial Signalling Network Revealed By Single-Cell FRET Johannes Keegstra|Keita Kamino|Francois Anquez|Milena D Lazova|Thierry Emonet|Thomas S Shimizu AMOLF;|Yale University
http://dx.doi.org/10.1101/123810 2017-04-04 Bioinformatics CC BY-NC-ND CellView: Interactive Exploration Of High Dimensional Single Cell RNA-Seq Data Mohan T Bolisetty|Michael L Stitzel|Paul Robson The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/123901 2017-04-04 Evolutionary Biology CC BY-NC-ND Phylogenetic Conflict In Bears Identified By Automated Discovery Of Transposable Element Insertions In Low Coverage Genomes Fritjof Lammers|Susanne Gallus|Axel Janke|Maria A Nilsson Senckenberg Biodiversity and Climate Research Centre
http://dx.doi.org/10.1101/124073 2017-04-04 Molecular Biology Independence Between Pre-mRNA Splicing And De Novo DNA Methylation In An Isogenic Minigene Resource Kyster K. Nanan|Cody Ocheltree|David Sturgill|Mariana D. Mandler|Maria Prigge|Garima Varma|Shalini Oberdoerffer National Institutes of Health;|Thomas Jefferson University
http://dx.doi.org/10.1101/124149 2017-04-04 Bioinformatics UNBIAS: An attempt to correct abundance bias in 16S sequencing, with limited success Robert C Edgar Independent Scientist
http://dx.doi.org/10.1101/124107 2017-04-04 Cell Biology Cohesin Can Remain Associated With Chromosomes During DNA Replication James Rhodes|Judith Haarhuis|Jonathan Grimm|Benjamin Rowland|Luke Lavis|Kim Nasmyth Department of Biochemistry, Oxford University;|Department of Cell Biology, The Netherlands Cancer Institute;|Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/124099 2017-04-04 Genomics Genome-Wide Association Study And Genomic Predictions For Resistance Against Piscirickettsia salmonis In Coho Salmon (Oncorhynchus kisutch) Using ddRAD Sequencing Agustin Barria|Kris A Christensen|Katharina Correa|Ana Jedlicki|Jean Paul Lhorente|William Davidson|Jose Manuel Yanez Universidad de Chile;|Simon Fraser University;|Aquainnovo
http://dx.doi.org/10.1101/123604 2017-04-04 Evolutionary Biology CC BY Rational Design Of A Novel Pollinator Interaction Kelsey Jaye Ruth Paularena Byers|H. D. Bradshaw University of Cambridge;|University of Washington
http://dx.doi.org/10.1101/123281 2017-04-04 Neuroscience CC BY Carbon Fiber On Polyimide Ultra-Microelectrodes Winthrop F Gillis|Charles A Lissandrello|Jun Shen|Ben W Pearre|Alket Mertiri|Felix Deku|Stuart Cogan|Bradley J Holinski|Daniel J Chew|Alice E White|Timothy J Gardner|Timothy M Otchy Department of Biology and Department of Biomedical Engineering, Boston University;|Department of Mechanical Engineering, Boston University;|Pendar Technologies, Cambridge, MA, USA;|Department of Bioengineering, The University of Texas at Dallas, Richardson, TX, USA;|Neuspera Medical, San Jose, CA, USA;|Galvani Bioelectronics, Stevenage, Hertfordshire, UK;|Department of Mechanical Engineering, Boston University, Boston, MA, USA
http://dx.doi.org/10.1101/123844 2017-04-04 Bioinformatics CC BY Interactive Visual Exploration And Refinement Of Cluster Assignments Michael Kern|Alexander Lex|Nils Gehlenborg|Chris R. Johnson Technical University of Munich;|University of Utah;|Harvard Medical School
http://dx.doi.org/10.1101/122929 2017-04-04 Scientific Communication and Education CC BY Standardising and harmonising research data policy in scholarly publishing Iain Hrynaszkiewicz|Aliaksandr Birukou|Mathias Astell|Sowmya Swaminathan|Amye Kenall|Varsha Khodiyar Springer Nature;|Springer-Verlag GmbH;|Nature Research;|BioMed Central;|Scientific Data
http://dx.doi.org/10.1101/124032 2017-04-04 Microbiology CC BY-NC-ND Uncovering The Repertoire Of Endogenous Flaviviral Elements In Aedes Mosquito Genomes Yasutsugu Suzuki|Lionel Frangeul|Laura B Dickson|Herve Blanc|Yann Verdier|Joelle Vinh|Louis Lambrechts|Maria-Carla Saleh Institut Pasteur;|Ecole Superieure de Physique et de Chimie Industrielles Paris
http://dx.doi.org/10.1101/123877 2017-04-04 Systems Biology Predicting Novel Metabolic Pathways Through Subgraph Mining Aravind Sankar|Sayan Ranu|Karthik Raman Indian Institute of Technology Madras
http://dx.doi.org/10.1101/123919 2017-04-04 A Chiral Selectivity Relaxed Paralog Of DTD For Proofreading tRNA Mischarging In Animalia Santosh Kumar Kuncha|Mohd Mazeed|Raghvendra Singh|Bhavita Kattula|Satya Brata Routh|Rajan Sankaranarayanan CCMB
http://dx.doi.org/10.1101/123828 2017-04-04 Pharmacology and Toxicology High Ambient Temperature Facilitates The Acquisition Of 3,4-Methylenedioxymethamphetamine (MDMA) Self-Administration Shawn M Aarde|Pai-Kai Huang|Michael A Taffe The Scripps Research Institute
http://dx.doi.org/10.1101/124016 2017-04-04 Neuroscience CC BY-ND Modelling And Interpreting Network Dynamics Ankit N Khambhati|Ann E Sizemore|Richard F Betzel|Danielle S Bassett University of Pennsylvania
http://dx.doi.org/10.1101/124123 2017-04-04 Neuroscience CC BY-NC-ND Multimodal Neural Correlates Of Cognitive Control In The Human Connectome Project Dov B Lerman-Sinkoff|Jing Sui|Srinivas Rachakonda|Sridhar Kandala|Vince D Calhoun|Deanna M Barch Washington University in St. Louis;|The Mind Research Network
http://dx.doi.org/10.1101/123802 2017-04-04 Cancer Biology APOBEC-Mediated Mutagenesis In Urothelial Carcinoma Is Associated With Improved Survival, Mutations In DNA Damage Response Genes, And Immune Response Alexander P Glaser|Damiano Fantini|Kalen J Rimar|Joshua J Meeks Northwestern Unviersity;|Northwestern University
http://dx.doi.org/10.1101/123711 2017-04-04 Genetics CC BY-NC-ND Father Absence And Accelerated Reproductive Development Lauren Gaydosh|Daniel W. Belsky|Benjamin W. Domingue|Jason D. Boardman|Kathleen Mullan Harris University of North Carolina at Chapel Hill;|Duke University School of Medicine;|Stanford University;|University of Colorado
http://dx.doi.org/10.1101/124347 2017-04-05 Developmental Biology Sympathetic Nerve Activity Promotes Cardiomyocyte Cell-Cycle Arrest And Binucleation Li Chen|Alexander Y Payumo|Kentaro Hirose|Rachel B. Bigley|Jonathan Lovas|Rejji Kuruvilla|Guo N. Huang University of California San Francisco;|Johns Hopkins University
http://dx.doi.org/10.1101/124370 2017-04-05 Cell Biology CC BY-NC Principles Of Cellular Resource Allocation Revealed By Condition-Dependent Proteome Profiling Eyal Metzl-Raz|Moshe Kafri|Gilad Yaakov|Ilya Soifer|Yonat Gurvich|Naama Barkai Weizmann Institute of Science
http://dx.doi.org/10.1101/124693 2017-04-05 CC BY-NC-ND SOMSC: Self-Organization-Map for High-Dimensional Single-Cell Data of Cellular States and Their Transitions Tao Peng|Qing Nie Department of Mathematics, University of California Irvine
http://dx.doi.org/10.1101/124628 2017-04-05 Neuroscience Beyond the labeled line: variation in visual reference frames from intraparietal cortex to frontal eye fields and the superior colliculus V. C. Caruso|Daniel S. Pages|Marc Sommer|Jennifer M. Groh Duke University
http://dx.doi.org/10.1101/124206 2017-04-05 Neuroscience Sampling Stability And Processing Parameter-Dependent Characteristics Of The 3D Fractal Dimension As A Marker Of Structural Brain Complexity In Magnetic Resonance Images Stephan Krohn|Martijn Froeling|Alexander Leemans|Dirk Ostwald|Jesus Jimenez|Pablo Villoslada|Francisco J. Esteban Computational Cognitive Neuroscience Laboratory, Free University Berlin, Germany;|Department of Radiology, University Medical Center Utrecht, Netherlands;|Image Sciences Institute, University Medical Center Utrecht, Netherlands;|Department of Computer Science, University of Jaén, Spain;|Center of Neuroimmunology, IDIBAPS, Barcelona, Spain;|Systems Biology Unit, Department of Experimental Biology, University of Jaén, Spain
http://dx.doi.org/10.1101/124438 2017-04-05 Cell Biology CC BY-NC-ND The role of Cdx2 as a lineage specific transcriptional repressor for pluripotent network during trophectoderm and inner cell mass specification Daosheng Huang|Xiaoping Han|Ping Yuan|Amy Ralston|Lingang Sun|Mikael Huss|Tapan Mistri|Luca Pinello|Huck Hui Ng|Guocheng Yuan|Junfeng Ji|Janet Rossant|Paul Robson|Guoji Guo Zhejiang University School of Medicine, Hangzhou, China;|The Guangdong Provincial Key Laboratory of Colorectal and Pelvic Floor Disease, China;|Department of Biochemistry and Molecular Biology, Michigan State University, MI 48824,USA;|Science for Life Laboratory, School of Biotechnology, Royal Institute of Technology, Solna, Sweden;|Institute for Stem Cell Research, School of Biological Sciences, University of Edinburgh, Edinburgh;|Dana-Farber Cancer Institute, Harvard University, Boston, MA 02215, USA;|Stem Cell and Regenerative Biology, Genome Institute of Singapore, 60 Biopolis Street, Singapore;|Program in Dev and Stem Cell Biology, Hospital for Sick Children Research Institute, Toronto, Canada;|The Jackson Laboratory for Genomic Medicine, Farmington, Connecticut 06032, USA
http://dx.doi.org/10.1101/124503 2017-04-05 Biophysics Thermodynamic Projection Of The Antibody Interaction Network: The Binding Fountain Energy Landscape Jozsef Prechl Diagnosticum Zrt
http://dx.doi.org/10.1101/124412 2017-04-05 Microbiology CC BY Modeling The Consequences Of Heterogeneity In Microbial Population Dynamics Helena Herrmann|Conor Lawless School of Computing Science, Newcastle University, UK;|Newcastle University
http://dx.doi.org/10.1101/124321 2017-04-05 Neuroscience CC BY-NC-ND Developmental And Genetic Regulation Of The Human Cortex Transcriptome In Schizophrenia Andrew E Jaffe|Richard E Straub|Joo Heon Shin|Ran Tao|Yuan Gao|Leonardo Collado Torres|Tony Kam-Thong|Hualin S Xi|Jie Quan|Qiang Chen|Carlo Colantuoni|Bill Ulrich|Brady J Maher|Amy Deep-Soboslay|Alan Cross|Nicholas J Brandon|Jeffrey T Leek|Thomas M Hyde|Joel E Kleinman|Daniel R Weinberger Lieber Institute for Brain Development;|Roche;|Pfizer;|AstraZeneca;|Johns Hopkins University
http://dx.doi.org/10.1101/122689 2017-04-05 Bioinformatics CC BY MMTF - an efficient file format for the transmission, visualization, and analysis of macromolecular structures Anthony R Bradley|Alexander S Rose|Antonin Pavelka|Yana Valasatava|Jose M Duarte|Andreas Prlic|Peter W Rose University of California, San Diego
http://dx.doi.org/10.1101/124636 2017-04-05 Genetics CC BY The ethics conundrum in Recall by Genotype (RbG) research: Perspectives from birth cohort participants Joel T Minion|Frances Butcher|Nicholas J Timpson|Madeleine J Murtagh Policy, Ethics and Life Sciences (PEALS) Research Centre, Newcastle University;|Oxford School of Public Health, Oxford;|MRC Integrative Epidemiology Unit, School of Social and Community Medicine, University of Bristol
http://dx.doi.org/10.1101/124594 2017-04-05 Developmental Biology CC BY Mouse embryonic stem cells can differentiate via multiple paths to the same state James Alexander Briggs|Victor C Li|Seungkyu Lee|Clifford J Woolf|Allon Klein|Marc W Kirschner Harvard University, United States;|Harvard Medical School, United States;|Boston Children's Hospital, United States
http://dx.doi.org/10.1101/124511 2017-04-05 Ecology CC BY-NC-ND Niche characteristics and potential distribution of Thelocactus species, a Mexican genus of globular cacti. Alessandro Mosco Azienda Sanitaria Universitaria Integrata di Trieste
http://dx.doi.org/10.1101/124115 2017-04-05 Genetics CC BY-NC-ND Properties Of Genomic Relationships For Estimating Current Genetic Variances Within And Genetic Correlations Between Populations Yvonne CJ Wientjes|Piter Bijma|Jeremie Vandenplas|Mario P.L. Calus Wageningen University & Research
http://dx.doi.org/10.1101/123521 2017-04-05 Neuroscience Distributed Affective Space Represents Multiple Emotion Categories Across The Brain Heini Saarimaki|Lara Farzaneh Ejtehadian|Enrico Glerean|Iiro P Jaaskelainen|Patrik Vuilleumier|Mikko Sams|Lauri Nummenmaa Aalto University;|University of Geneva;|University of Turku
http://dx.doi.org/10.1101/124578 2017-04-05 Systems Biology The fundamental principles of antibody repertoire architecture revealed by large-scale network analysis Enkelejda Miho|Victor Greiff|Rok Roskar|Sai T. Reddy ETH Zurich
http://dx.doi.org/10.1101/124396 2017-04-05 Plant Biology A Collection Of Genetically Engineered Populus Trees Reveals Wood Biomass Traits That Predict Glucose Yield From Enzymatic Hydrolysis Sacha Escamez|Madhavi Latha Gandla|Marta Derba-Maceluch|Sven-Olof Lundqvist|Ewa J. Mellerowicz|Leif J. Jonsson|Hannele Tuominen Department of Plant Physiology, Umea University, Umea Plant Science Centre (UPSC);|Department of Chemistry, Umea University, SE-901 87 Umea, Sweden;|Department of Forest Genetics and Plant Physiology, SLU, Umea Plant Science Centre (UPSC);|INNVENTIA AB, Box 5604, SE-114 86 Stockholm, Sweden
http://dx.doi.org/10.1101/124057 2017-04-05 Microbiology A Novel Ultra High-Throughput 16S rRNA Amplicon Sequencing Library Preparation Method On The Illumina HiSeq Platform Eric J. de Muinck|Pal Trosvik|Gregor D. Gilfillan|Arvind YM Sundaram Centre for Ecological and Evolutionary Synthesis, Dept. of Biosciences, University of Oslo;|Department of Medical Genetics, Oslo University Hospital and University of Oslo
http://dx.doi.org/10.1101/124529 2017-04-05 Bioinformatics CC BY SeedVicious: analysis of microRNA target and near-target sites Antonio Marco University of Essex
http://dx.doi.org/10.1101/124453 2017-04-05 Neuroscience CC BY-NC-ND Sign-Consistency Based Variable Importance For Machine Learning In Brain Imaging Vanessa Gomez-Verdejo|Emilio Parrado-Hernandez|Jussi Tohka Universidad Carlos III de Madrid;|University of Eastern Finland
http://dx.doi.org/10.1101/124354 2017-04-05 Neuroscience CC BY Salt-inducible kinase 3 regulates the mammalian circadian clock by destabilizing PER2 protein Naoto Hayasaka Nagoya University Research Institute of Environmental Medicine, Japan
http://dx.doi.org/10.1101/124420 2017-04-05 Biophysics CC BY-ND Intracellular Passage Of Na+ In An Active State G Protein Coupled Receptor Owen N Vickery|Catarina A Carvalheda|Saheem A Zaidi|Andrei V Pisliakov|Vsevolod Katritch|Ulrich Zachariae Dundee University;|University of Southern California
http://dx.doi.org/10.1101/122325 2017-04-05 Bioinformatics CC BY-NC-ND DIVERSITY In Binding, Regulation, And Evolution Revealed From High-Throughput ChIP Sneha Mitra|Anushua Biswas|Leelavati Narlikar Duke University;|National Chemical Laboratory
http://dx.doi.org/10.1101/124230 2017-04-05 Cell Biology CC BY Extensive alternative splicing transitions during postnatal skeletal muscle development are required for Ca2+ handling Tom Cooper Baylor College of Medicine, United States
http://dx.doi.org/10.1101/124339 2017-04-05 Bioinformatics CC BY-NC-ND HadoopCNV: A Dynamic Programming Imputation Algorithm To Detect Copy Number Variants From Sequencing Data Hui Yang|Gary Chen|Leandro Lima|Han Fang|Laura Jimenez|Mingyao Li|Gholson J Lyon|Max He|Kai Wang University of Southern California;|Stanley Institute for Cognitive Genomics, Cold Spring Harbor Laboratory;|Department of Biostatistics and Epidemiology, University of Pennsylvania;|Center for Human Genetics, Marshfield Clinic Research Foundation;|Institute for Genomic Medicine, Columbia University Medical Center
http://dx.doi.org/10.1101/125047 2017-04-06 CC BY-NC FiloQuant reveals increased filopodia density during DCIS progression Guillaume Jacquemet|Ilkka Paatero|Alexandre Carisey|Artur Padzik|Jordan Orange|Hellyeh Hamidi|Johanna Ivaska Turku Centre for Biotechnology, University of Turku;|Center for Human Immunobiology, Texas Children Hospital, Houston
http://dx.doi.org/10.1101/124800 2017-04-05 Physiology CC BY-NC The dynamic upper limit of human lifespan Saul Justin Newman|Simon Easteal Commonwealth Scientific and Industrial Research Organziation;|The John Curtin School of Medical Research
http://dx.doi.org/10.1101/124792 2017-04-05 Developmental Biology CC BY-NC Global patterns of human ageing Saul Justin Newman|Simon Easteal Commonwealth Scientific and Industrial Research Organziation;|The John Curtin School of Medical Research
http://dx.doi.org/10.1101/125021 2017-04-06 CC BY-NC Insight and Inference for DVARS Soroosh Afyouni|Thomas E Nichols University of Warwick
http://dx.doi.org/10.1101/125153 2017-04-06 CC BY Cycledash: a web application for the interactive analysis and exploration of variants Isaac A Hodes|Dan Vanderkam|Tavi Nathanson|B. Arman Aksoy|Jaclyn Perrone|Jeffrey Hammerbacher Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/125112 2017-04-06 CC BY ZINB-WaVE: A general and flexible method for signal extraction from single-cell RNA-seq data Davide Risso|Fanny Perraudeau|Svetlana Gribkova|Sandrine Dudoit|Jean-Philippe Vert Weill Cornell Medicine;|University of California, Berkeley;|University Paris Diderot;|MINES ParisTech
http://dx.doi.org/10.1101/125138 2017-04-06 CC BY-NC-ND Comprehensive statistical inference of the clonal structure of cancer from multiple biopsies Jie Liu|John Halloran|Jeffrey Bilmes|Riza Daza|Choli Lee|Elisabeth Mahen|Donna Prunkard|Chaozhong Song|Sibel Blau|Michael Dorschner|Vijayakrishna Gadi|Jay Shendure|Anthony Blau|William Noble University of Washington
http://dx.doi.org/10.1101/124750 2017-04-06 CC BY-NC-ND Cortical Representations of Speech in a Multi-talker Auditory Scene Krishna C Puvvada|Jonathan Z Simon University of Maryland, College Park
http://dx.doi.org/10.1101/125039 2017-04-06 Neuroscience Concentration invariant odor coding Christopher D Wilson|Gabriela O Serrano|Alexei A Koulakov|Dmitry Rinberg NYU Neuroscience Institute, New York University Langone Medical Center;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/125120 2017-04-06 Molecular Biology Early urinary candidate biomarker discovery in a rat thioacetamide-induced liver fibrosis model Fanshuang Zhang|Yanying Ni|Yuan Yuan|Wei Yin|Youhe Gao Institute of Basic Medical Sciences Chinese Academy of Medical Sciences;|Beijing Tiantan Hospital, Capital Medical University;|Beijing Normal University
http://dx.doi.org/10.1101/123166 2017-04-06 Biophysics CC BY Single Cardiac Ventricular Myosins Change Step-Size with Loading Yihua Wang|Chen-Ching Yuan|Katarzyna Kazmierczak|Danuta Szczesna-Cordary|Thomas P Burghardt Mayo Clinic Rochester;|University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/125096 2017-04-06 Neuroscience CC BY Post-transcriptional regulation of adult CNS axonal regeneration by Cpeb1 Wilson Pak-Kin Lou|Alvaros Mateos|Marta Koch|Stefan Klussmann|Chao Yang|Na Lu|Stefanie Limpert|Manuel Gopferich|Marlen Zschaetzsch|Carlos Maillo|Elena Senis|Dirk Grimm|Raul Mendez|Kai Liu|Bassem A Hassan|Ana Martin-Villalba German Cancer Research Centre;|VIB;|Hong Kong University of Science and Technology;|Institute for Research in Biomedicine;|University of Heidelberg;|Heidelberg University;|Institute for Research in Biomedicine (IRB);|Hong Kong Unversity of Science and Technology;|ICM;|German Cancer Research Center
http://dx.doi.org/10.1101/124297 2017-04-06 Cell Biology CC BY-NC-ND Formin-Dependent Adhesions Are Required For Invasion By Epithelial Tissues Tim B Fessenden|Yvonne Beckham|Mathew Perez-Neut|Aparajita H Chourasia|Kay F Macleod|Patrick W Oakes|Margaret L Gardel University of Chicago;|University of Rochester
http://dx.doi.org/10.1101/124479 2017-04-06 Developmental Biology Establishment In Culture Of Expanded Potential Stem Cells Jian Yang|David Ryan|Wei Wang|Cheuk-Ho J Tsang|Guocheng Lan|Xuefei Gao|Liliana Antunes|Adam Clifford Wilkinson|Yong Yu|Aleksandra Kolodziejczyk|Lia Campos|Juexuan Wang|Fengtang Yang|Yosuke Tanaka|Melanie Eckersley-Maslin|Michael Woods|James Bussell|Ramiro Ramirez-Solis|Wolf Reik|Bertie Gottgens|Xiangang Zou|Liming Lu|Cui Wang|Hideki Masaki|Jacqui White|Hiro Nakauchi|Zheng Zhong|Sarah Teichmann|Beiyuan Fu|Zhexin Zhu|Pentao Liu Wellcome Trust Sanger Institute;|Cancer Research UK Cambridge Institute;|University of Cambridge;|European Bioinformatics Institute;|Babraham Institute;|Babraham;|Shanghai Institute of Immunology;|University of Tokyo;|Medical Research Council Laboratory of Molecular Biology
http://dx.doi.org/10.1101/124685 2017-04-06 Evolutionary Biology Evolutionary compromises to environmental toxins: ammonia and urea tolerance in Drosophila suzukii and Drosophila melanogaster. Virginia Belloni|Alessia Galeazzi|Giulia Bernini|Mauro Mandrioli|Elisabetta Versace|Albrecht Haase Center for Mind/Brain Sciences, University of Trento;|Department of Life Sciences, University of Modena and Reggio Emilia;|Center for Mind/Brain Sciences, University of Trento; 3Department of Physics, University of Trento
http://dx.doi.org/10.1101/124875 2017-04-06 Neuroscience CC BY Four-Sphere Head Model For EEG Signals Revisited Solveig Naess|Chaitanya Chintaluri|Torbjorn Baeko Ness|Anders M Dale|Gaute Tomas Einevoll|Daniel K Wojcik Department of Informatics, University of Oslo, Oslo, Norway;|Nencki Institute - PAS, Warsaw, Poland;|Faculty of Science and Technology, Norwegian University of Life Sciences, Aas, Norway;|Departments of Neurosciences and Radiology, University of California, San Diego, USA;|Nencki Institute of Experimental Biology of Polish Academy of Sciences
http://dx.doi.org/10.1101/125013 2017-04-06 Biochemistry CC BY Covalent Protein Labeling By SpyTag-SpyCatcher In Fixed Cells For Super-Resolution Microscopy Veronica Pessino|Y. Rose Citron|Siyu Feng|Bo Huang University of California, San Francisco
http://dx.doi.org/10.1101/124446 2017-04-06 Cancer Biology Resolving Drug Effects In Patient-Derived Cancer Cells Links Organoid Responses To Genome Alterations Julia Neugebauer|Franziska M. Zickgraf|Jeongbin Park|Steve Wagner|Xiaoqi Jiang|Katharina Jechow|Kortine Kleinheinz|Umut H. Toprak|Marc A. Schneider|Michael Meister|Saskia Spaich|Marc Suetterlin|Matthias Schlesner|Andreas Trumpp|Martin Sprick|Roland Eils|Christian Conrad Bioquant/DKFZ;|German Cancer Research Center (DKFZ);|Thoraxklinik at Heidelberg University Hospital;|University Medical Centre Mannheim
http://dx.doi.org/10.1101/124826 2017-04-06 Genetics CC BY Accounting For Cell Lineage And Sex Effects In The Identification Of Cell-Specific DNA Methylation Using A Bayesian Model Selection Algorithm Nicole M White|Miles C Benton|Daniel W Kennedy|Andrew Fox|Lyn R Griffiths|Rodney A Lea|Kerrie L Mengersen Queensland University of Technology;|Florey Department of Neuroscience and Mental Health
http://dx.doi.org/10.1101/124651 2017-04-06 Genomics CC BY-NC-ND Polygenic prediction of the phenome, across ancestry, in emerging adulthood Anna R Docherty|Arden Moscati|Danielle Dick|Jeanne E Savage|Jessica E Salvatore|Megan Cooke|Fazil Aliev|Ashlee A Moore|Alexis C Edwards|Brien P Riley|Daniel E Adkins|Roseann Peterson|Bradley T Webb|Silviu A Bacanu|Kenneth S Kendler University of Utah;|Virginia Commonwealth University
http://dx.doi.org/10.1101/124982 2017-04-06 Evolutionary Biology CC BY-NC-ND Bayesian Inference Of Species Networks From Multilocus Sequence Data Chi Zhang|Huw A Ogilvie|Alexei J Drummond|Tanja Stadler ETH Zurich;|Australian National University;|Auckland
http://dx.doi.org/10.1101/124925 2017-04-06 Bioinformatics CC BY-NC-ND Unbiased Estimate Of Synonymous And Non-Synonymous Substitution Rates With Non-Stationary Base Composition Laurent Gueguen|Laurent Duret LBBE - Université Lyon 1;|LBBE - UMR CNRS 5558
http://dx.doi.org/10.1101/124784 2017-04-06 Ecology Predator-induced shell plasticity in mussels hinders predation by drilling snails Zachary T Sherker|Julius A Ellrich|Ricardo A Scrosati St. Francis Xavier University
http://dx.doi.org/10.1101/124743 2017-04-06 Ecology CC BY-NC Host traits drive viral life histories across phytoplankton viruses Kyle Edwards|Grieg Steward University of Hawaii
http://dx.doi.org/10.1101/125104 2017-04-06 Biophysics Transcription factor clusters regulate genes in eukaryotic cells Adam Wollman|Sviatlana Shashkova|Erik Hedlund|Rosmarie Friemann|Stefan Hohmann|Mark C Leake University of York;|University of Gothenburg;|Chalmers University of Technology
http://dx.doi.org/10.1101/124552 2017-04-06 Microbiology CC BY Molecular Noise Accelerates Cell Division And Death Under Antibiotic Treatment Savita Chib|Suman Das|Soumya V.|Aswin Sai Narain Seshasayee|Mukund Thattai National Centre for Biological Sciences, Tata Institute of Fundamental Research;|Birla Institute of Technology and Science, Pilani
http://dx.doi.org/10.1101/124842 2017-04-06 Cancer Biology CC BY Quantifying Rates Of Cell Migration And Cell Proliferation In Co-Culture Barrier Assays Reveals How Skin And Melanoma Cells Interact During Melanoma Spreading And Invasion Parvathi Haridas|Catherine Penington|Jacqui McGovern|Sean McElwain|Matthew J Simpson Queensland University of Technology;|Queensland Univeristy of Technology
http://dx.doi.org/10.1101/124669 2017-04-06 Neuroscience Response Reversal During Top-Down Modulation In Cortical Circuits With Multiple Interneuron Types Luis C Garcia del Molino|Guangyu R Yang|Jorge F Mejias|Xiao-Jing Wang New York University
http://dx.doi.org/10.1101/124735 2017-04-06 Bioinformatics CC BY-NC-ND SOMSC: Self-Organization-Map for High-Dimensional Single-Cell Data of Cellular States and Their Transitions Tao Peng|Qing Nie Department of Mathematics, University of California Irvine;|U of California, Irvine
http://dx.doi.org/10.1101/125062 2017-04-06 Neuroscience CC BY Burst Activation Of Dopamine Neurons Produces Prolonged Post-Burst Availability Of Actively Released Dopamine Sweyta Lohani|Adria Martig|Suzanne Underhill|Alicia DeFrancesco|Melanie Roberts|Linda Rinaman|Susan Amara|Bita Moghaddam University of Pittsburgh;|The Michael J. Fox Foundation;|National Institute of Mental Health;|Case Western Reserve University;|Oregon Health and Science University
http://dx.doi.org/10.1101/124610 2017-04-06 Evolutionary Biology CC BY-NC Atlantean Evolution in Darwin's Finches - Issues and Perspectives in Species Delimitation using Phenotypic Data Carlos Daniel Cadena|Ivan Jimenez|Felipe Zapata Universidad de los Andes;|Missouri Botanical Garden;|University of California Los Angeles
http://dx.doi.org/10.1101/124719 2017-04-06 Bioinformatics CC BY-ND Literature Evidence in Open Targets - a target validation platform Senay Kafkas|Ian Dunham|Johanna McEntyre EMBL-EBI
http://dx.doi.org/10.1101/124834 2017-04-06 Developmental Biology CC BY-NC-ND Sex Differences In 20-Hydroxyecdysone Hormone Levels Control Sexual Dimorphism In Bicyclus anynana Butterfly Wing Patterns Shivam Bhardwaj|Kathleen L Prudic|Ashley Bear|Mainak Das Gupta|Bethany R Wasik|Xiaoling Tong|Wei Fun Cheong|Markus R Wenk|Antonia Monteiro Department of Biological Sciences, National University of Singapore, Singapore 117543;|Department of Ecology and Evolutionary Biology, Yale University, New Haven, CT, USA;|Cornell University Press, Cornell University, Ithaca, NY;|State Key Laboratory of Silkworm Genome Biology, Southwest University;|Department of Biochemistry, National University of Singapore, Singapore
http://dx.doi.org/10.1101/124941 2017-04-06 Genomics CC BY Sequence Alignment On Directed Graphs Kavya Vaddadi|Naveen Sivadasan|Kshitij Tayal|Rajgopal Srinivasan TCS Research
http://dx.doi.org/10.1101/124644 2017-04-06 Developmental Biology CC BY Kek-6: A Truncated Trk-Like Receptor For Drosophila Neurotrophin 2 Regulates Structural Synaptic Plasticity Suzana Ulian-Benitez|Simon Bishop|Istvan Foldi|Jill Wentzell|Chinenye Okenwa|Manuel G. Forero|Bangfu Zhu|Marta Moreira|Mark Phizacklea|Graham McIlroy|Nicholas J. Gay|Alicia Hidalgo University of Birmingham;|Universidad de Ibague, Colombia;|University of Cambridge
http://dx.doi.org/10.1101/124677 2017-04-06 Neuroscience Disruption of perineuronal nets increases the frequency of sharp wave ripples ZhiYong Sun|P. Lorenzo Bozzelli|Adam Caccavano|Megan Allen|Jason Balmuth|Stefano Vicini|Jian-Young Wu|Katherine Conant Jilin Women and Children's Health Hospital;|Georgetown University;|Johns Hopkins University Applied Physics Laboratory
http://dx.doi.org/10.1101/125211 2017-04-07 Bioinformatics CC BY-ND De novo assembly of microbial genomes from human gut metagenomes using barcoded short read sequences Eli Moss|Alex Bishara|Ekaterina Tkachenko|Joyce B Kang|Tessa M Andermann|Christina Wood|Christine Handy|Hanlee Ji|Serafim Batzoglou|Ami S Bhatt Stanford University
http://dx.doi.org/10.1101/125484 2017-04-07 Genetics CC BY-NC-ND RNA helicase, DDX27 regulates proliferation and myogenic commitment of muscle stem cells Alexis Bennett|Marie Francoise ODonohue|Stacey Gundry|Aye Chan|Jeffery Widrick|Isabelle Draper|Anirban Chakraborty|Yi Zhou|Leonard Zon|Pierre-Emmanuel Gleizes|Alan Beggs|Vandana Gupta Brigham and Women's Hospital;|Universite de Toulouse;|Boston Children's Hospital;|Tufts Medical Center
http://dx.doi.org/10.1101/125203 2017-04-07 Genomics Lethal Haplotypes And Candidate Casual Mutations In Angus Cattle Jesse L Hoff|Jared E. Decker|Robert Schnabel|Jerry Taylor University of Missouri
http://dx.doi.org/10.1101/125195 2017-04-07 Genetics CC BY-NC Genetic control of age-related gene expression and complex traits in the human brain Trevor Martin|Hunter Fraser Stanford University
http://dx.doi.org/10.1101/125633 2017-04-07 CC BY-NC-ND Analysis of DICER1 in familial and sporadic cases of Transposition of the Great Arteries Nelly Sabbaghian|M. Cristina Digilio|Gillian M Blue|David S Winlaw|William D Foulkes Lady Davis Institute, Segal Cancer Centre, Jewish General Hospital, Montreal, Quebec, Canada;|Department of Medical Genetics, Bambino Gesu Pediatric Hospital, Rome, Italy;|Heart Centre for Children, The Children's Hospital at Westmead and University of Sydney Australia;|Departments of Oncology and Human Genetics, McGill University, Montreal, Canada
http://dx.doi.org/10.1101/124362 2017-04-07 CC BY Testing the principles of Mendelian randomization: Opportunities and complications on a genomewide scale Michelle Taylor|Katherine E Tansey|Deborah A Lawlor|Jack Bowden|David M Evans|George Davey-Smith|Nicholas J Timpson University of Bristol;|University of Queensland Diamantina Institute
http://dx.doi.org/10.1101/125617 2017-04-07 CC BY-NC Hypothesis: Hypoxia induces de novo synthesis of NeuGc gangliosides in humans Paula A. Bousquet|Joe A. Sandvig|Nina F. J. Edin|Ute Krengel University of Oslo
http://dx.doi.org/10.1101/125377 2017-04-07 Spatially-induced nestedness in a neutral model of phage-bacteria networks Sergi Valverde|Santiago F. Elena|Ricard V. Sole University Pompeu Fabra;|CSIC;|ICREA
http://dx.doi.org/10.1101/125534 2017-04-07 Bioinformatics CC BY-NC GAPPadder: A Sensitive Approach for Closing Gaps on Draft Genomes with Short Sequence Reads Chong Chu|Xin Li|Yufeng Wu University of Connecticut
http://dx.doi.org/10.1101/125443 2017-04-07 Bioinformatics CC BY GSA-Genie: a web application for gene set analysis Zhe Zhang|Deanne Taylor The Children's Hospital of Philadelphia
http://dx.doi.org/10.1101/125567 2017-04-07 Genetics CC BY-NC-ND Natural variation in a single amino acid underlies cellular responses to topoisomerase II poisons Stefan Zdraljevic|Christine Strand|Hannah S Seidel|Daniel E Cook|John G Doench|Erik C Andersen Department of Molecular Biosciences, Northwestern University, Evanston, IL 60208, USA;|Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA;|Biology Department, Eastern Michigan University, Ypsilanti, MI 48197, USA
http://dx.doi.org/10.1101/123679 2017-04-07 Plant Biology The Odd One Out: Arabidopsis Reticulon 20 Has A Role In Lipid Biosynthesis Verena Kriechbaumer|Lilly Maneta-Peyret|Stanley W Botchway|Jessica Upson|Louise Hughes|Jake Richardson|Maike Kittelmann|Patrick Moreau|Chris Hawes Oxford Brookes University;|CNRS-Universite de Bordeaux;|Central Laser Facility, Science and Technology Facilities Council
http://dx.doi.org/10.1101/125344 2017-04-07 Microbiology CC BY-NC-ND SMC Progressively Aligns Chromosomal Arms In Caulobacter crescentus But Is Antagonized By Convergent Transcription Ngat T Tran|Michael T Laub|Tung BK Le John Innes Centre;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/125336 2017-04-07 Systems Biology Windows of opportunity for Ebola virus infection treatment and vaccination Van Kinh Nguyen|Esteban A. Hernandez Vargas Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/125260 2017-04-07 Neuroscience CC BY Running Promotes Spatial Bias Independently Of Adult Neurogenesis Jason Scott Snyder|Shaina P Cahill|Paul W Frankland University of British Columbia;|The Hospital for Sick Children
http://dx.doi.org/10.1101/125252 2017-04-07 Microbiology CC BY-NC-ND Enterococcus faecalis Modulates Immune Activation And Slows Healing During Wound Infection Kelvin Kian Long Chong|Wei Hong Tay|Baptiste Janela|Mei Hui Adeline Yong|Tze Horng Liew|Leigh Madden|Damien Keogh|Timothy Barkham|Florent Ginhoux|David Laurence Becker|Kimberly A. Kline Nanyang Technological University;|Agency for Science, Technology and Research (A*STAR);|Tan Tock Seng Hospital
http://dx.doi.org/10.1101/125229 2017-04-07 Bioinformatics CC BY DeepBound: Accurate Identification of Transcript Boundaries via Deep Convolutional Neural Fields Mingfu Shao|Jianzhu Ma|Sheng Wang Carnegie Mellon University;|University of California San Diego;|King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/124891 2017-04-07 Neuroscience CC BY Decision Confidence As A Mapping Of Bayesian Posterior Belief Luciano Paz|Alejo Salles|Mariano Sigman Laboratorio de Neurocienca, Universidad Torcuato di Tella; Tactile Perception & Learning Lab;|Instituto del Calculo, FCEyN, UBA, Buenos Aires, Argentina;|Laboratorio de Neurociencia, Universidad Torcuato di Tella, Buenos Aires, Argentina
http://dx.doi.org/10.1101/125351 2017-04-07 Bioinformatics CC BY-NC Non-Parametric Estimation Of Population Size Changes From The Site Frequency Spectrum Berit Lindum Waltoft|Asger Hobolth Aarhus University, National Centre for Register-based Research;|Aarhus University, Bioinformatics Research Centre
http://dx.doi.org/10.1101/125419 2017-04-07 Biochemistry CC BY OGT binds a conserved C-terminal domain of TET1 to regulate TET1 activity and function in development Joel Hrit|Cheng Li|Elizabeth Allene Martin|Mary Goll|Barbara Panning UCSF, United States;|Weill Cornell Graduate School of Medical Sciences, United States;|Memorial Sloan Kettering Cancer Center, United States
http://dx.doi.org/10.1101/125187 2017-04-07 Microbiology CC BY-NC-ND 16S rRNA Gene Sequencing Reveals Site-Specific Signatures Of The Upper And Lower Airways Of Cystic Fibrosis Patients Sarah K Lucas|Robert Yang|Jordan M Dunitz|Holly C Boyer|Ryan C Hunter University of Minnesota
http://dx.doi.org/10.1101/125237 2017-04-07 Evolutionary Biology CC BY-NC-ND K-mer Similarity, Networks Of Microbial Genomes And Taxonomic Rank Guillaume Bernard|Paul Greenfield|Mark A Ragan|Cheong Xin Chan Institute for Molecular Bioscience;|CSIRO
http://dx.doi.org/10.1101/125278 2017-04-07 Biophysics Formation Of Dominant Mode By Evolution In Biological Systems Chikara Furusawa|Kunihiko Kaneko RIKEN;|University of Tokyo
http://dx.doi.org/10.1101/125245 2017-04-07 Molecular Biology CC BY-NC-ND Integrated Computational Guide Design, Execution, And Analysis Of Arrayed And Pooled CRISPR Genome Editing Experiments Matthew C. Canver|Maximilian Haeussler|Daniel E. Bauer|Stuart H. Orkin|Neville E. Sanjana|Ophir Shalem|Guo-Cheng Yuan|Feng Zhang|Jean-Paul Concordet|Luca Pinello Harvard Medical School;|Santa Cruz Genomics Institute;|Boston Children's Hospital;|Boston Children's Hospital; Howard Hughes Medical Institute;|New York Genome Center; New York University;|Children's Hospital of Philadelphia; University of Pennsylvania;|Dana-Farber Cancer Institute; Harvard T.H. Chan School of Public Health;|Broad Institute; McGovern Institute at MIT;|INSERM;|Massachusetts General Hospital
http://dx.doi.org/10.1101/125294 2017-04-07 Plant Biology Sequence Features Of MADS-Domain Proteins That Act As Hubs In The Protein-Protein Interaction Network Controlling Flower Development Florian Ruempler|Guenter Theissen|Rainer Melzer Department of Genetics, Friedrich Schiller University Jena;|School of Biology and Environmental Science, University College Dublin
http://dx.doi.org/10.1101/125385 2017-04-07 Molecular Biology A Cassava Drought Inducible CC-Type Glutaredoxin, MeGRX232, Negatively Regulates Drought Tolerance In Arabidopsis By Inhibition Of ABA-Dependent Stoma Meng-Bin Ruan|Yi-Ling Yang|Xin Guo|Xue Wang|Bin Wang|Xiao-Ling Yu|Peng Zhang|Ming Peng Institute of Tropical Bioscience and Biotechnology;|Crops Research Institute, Guangdong Academy of Agricultural Sciences;|Huazhong Agricultural University;|Inst. of Tropical Bioscience and Biotechnology, Chinese Acad. of Tropical Agricultural Science;|Huazhong Argicultural University, China;|Institute of Tropical Bioscience and Biotechnology, CATAS;|Institute of Plant Physiology & Ecology, SIBS, Chinese Academy of Sciences
http://dx.doi.org/10.1101/125450 2017-04-07 Systems Biology CC BY A measure of agreement to distinguish between condition levels: Reproducibility of co-expression networks across tissues Alejandro Caceres|Juan Ramon Gonzalez ISGlobal
http://dx.doi.org/10.1101/125286 2017-04-07 Bioengineering CC BY-NC Feature Extraction Through Wavelet Decomposition For Automatic Detection Of Landmarks On Cephalogram Images Srikanth Vasamsetti|Viren Sardana|Prasoon Kumar|Harish K Sardana Central Scientific Instruments Organization;|Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/122424 2017-04-07 Scientific Communication and Education Addressing the digital divide in contemporary biology: Lessons from teaching UNIX Serghei Mangul|Lana Martin|Alexander Hoffmann|Matteo Pellegrini|Eleazar Eskin University of California, Los Angeles
http://dx.doi.org/10.1101/124024 2017-04-07 Cancer Biology CC BY Assessing Inhibitors Of Mutant Isocitrate Dehydrogenase Using A Suite Of Pre-Clinical Discovery Assays Daniel J Urban|Natalia J Martinez|Mindy I Davis|Kyle R Brimacombe|Dorian M Cheff|Tobie D Lee|Mark J Henderson|Steven A Titus|Rajan Pragani|Jason M Rohde|Yuhong Wang|Surendra Karavadhi|Pranav Shah|Olivia W Lee|Amy Wang|Andrew McIver|Hongchao Zheng|Xiaodong Wang|Xin Xu|Ajit Jadhav|Anton Simeonov|Min Shen|Matthew B Boxer|Matthew D Hall NCATS Chemical Genomics Center, National Center for Advancing Translational Sciences, NIH;|Eshelman School of Pharmacy, University of North Carolina School of Medicine
http://dx.doi.org/10.1101/125302 2017-04-07 Ecology Linking Dendroecology And Association Genetics: Stress Responses Archived In Tree Rings Associate With SNP Genotypes In Abies alba (Mill.) Katrin Heer|David Behringer|Alma Piermattei|Claus Bassler|Bruno Fady|Hans Jehl|Sascha Liepelt|Sven Lorch|Andrea Piotti|Giovanni Guiseppe Vendramin|Max Weller|Birgit Ziegenhagen|Ulf Buntgen|Lars Opgenoorth Philipps-University Marburg, Faculty of Biology, Conservation Biology, Marburg, Germany;|Marche Polytechnic University, Department of Agricultural, Food and Environmental Sciences;|Bavarian Forest National Park, Freyunger Str. 2, Grafenau, Germany;|INRA, UR Ecologie des Forets Mediterraneennes, Avignon, France;|Philipps-University Marburg, Faculty of Biology, Department of Ecology, Marburg, Germany;|National Research Council, Institute of Biosciences and Bioresources, Sesto Fiorentino, Italy;|Department of Geography, University of Cambridge, Downing Place, CB2 3EN Cambridge, UK
http://dx.doi.org/10.1101/125088 2017-04-07 Systems Biology CC BY-NC The Fes tyrosine kinase guides CD19 receptor fate in B-cells by shaping regulatory Src phosphorylation networks Andreas Oliver Helbig|Michael Kofler|Evangelia Petsalaki|Gerald Gish|Kristina Lorenzen|Monika Tucholska|Cunjie Zhang|Frederick P Roth|Karen Colwill|Tony Pawson Lunenfeld-Tanenbaum Research Institute, Sinai Health Systems, 600 University Ave, M5G 1X5, Toronto,;|European Molecular Biology Laboratory - European Bioinformatics Institute, Wellcome Genome Campus, H;|European XFEL GmbH, Holzkoppel 4, 22869, Schenefeld, Germany
http://dx.doi.org/10.1101/106419 2017-04-07 Neuroscience Medial prefrontal cortical NMDA receptors regulate depression-like behavior and dictate limbic thalamus innervation Oliver H Miller|Andreas Bruns|Imen Ben Ammar|Thomas Mueggler|Benjamin J Hall Roche Innovation Center, Basel, Switzerland;|Faculte de Medecine de Strasbourg, Universite de Strasbourg, Strasbourg, France
http://dx.doi.org/10.1101/125435 2017-04-07 Genomics CC BY-ND Complexity and conservation of regulatory landscapes underlie evolutionary resilience of mammalian gene expression Camille Berthelot|Diego Villar|Julie E Horvath|Duncan T Odom|Paul Flicek Institut de Biologie de l Ecole Normale Superieure, CNRS UMR8197, INSERM U1024, Paris, France;|University of Cambridge, Cancer Research UK Cambridge Institute, Robinson Way, Cambridge, UK;|Biological and Biomedical Sciences, North Carolina Central University, Durham, NC 27707, USA;|European Molecular Biology Laboratory, European Bioinformatics Institute, UK
http://dx.doi.org/10.1101/125476 2017-04-07 Cell Biology CC BY PERTURBATION OF PTEN-PI3K/AKT SIGNALLING IMPAIRED AUTOPHAGY MODULATION IN DYSTROPHIN-DEFICIENT MYOBLASTS Muhammad Dain Yazid|Janet Smith Universiti Kebangsaan Malaysia Medical Centre;|University of Birmingham
http://dx.doi.org/10.1101/125765 2017-04-08 CC BY A protein phosphatase network controls temporal and spatial dynamics of differentiation commitment in human epidermis Ajay Mishra|Angela Oliveira Pisco|Benedicte Oules|Tony Ly|Kifayathullah Liakath-Ali|Gernot Walko|Priyalakshmi Viswanathan|Jagdeesh Nijjher|Sara-Jane Dunn|Angus I Lamond|Fiona M Watt King's College London;|University of Dundee;|Centre for Stem Cells and King's College;|Microsoft
http://dx.doi.org/10.1101/120691 2017-04-08 CC BY-ND Electrochemical Measurement Of Acetylcholine In The Dorsolateral Prefrontal Cortex: A Technical Report Devavrat Vartak|Chris van der Togt|Bram van Vugt|Pieter R Roelfsema Netherlands Institute for Neuroscience
http://dx.doi.org/10.1101/125674 2017-04-08 Abnormal Social Behaviors And Dysfunction Of Autism-Related Genes Associated With Daily Agonistic Interactions In Mice Natalia N Kudryavtseva|Irina L Kovalenko|Dmitry A Smagin|Anna G Galyamina|Vladimir N Babenko Institute of Cytology anf Genetics SD RAS;|Institute of Cytology and Genetics SB RAS;|Instiitute of Cytology and Genetics SB RAS
http://dx.doi.org/10.1101/124495 2017-04-08 CC BY Looking Into Pandora's Box: The Content Of Sci-Hub And Its Usage Bastian Greshake Institute of Cell Biology and Neuroscience, Goethe University Frankfurt, Frankfurt, Germany
http://dx.doi.org/10.1101/125690 2017-04-08 CC BY-NC-ND Force Generation By Polymerizing Filaments Revisited: Diffusive Interaction Leads To Nonlinear Force-Number Scaling Jemseena Valiyakath|Manoj Gopalakrishnan International Centre for Theoretical Sciences, Bangalore;|Indian Institute of Technology Madras
http://dx.doi.org/10.1101/124305 2017-04-08 Pleiotropic Chemoreceptors Facilitate The Maintenance Of Signal-Receptor Coupling In Pheromonal Communication Kathleen Zelle|Xitong Liang|Yehuda Ben-Shahar Washington University in St. Louis
http://dx.doi.org/10.1101/122804 2017-04-08 The sequence of a male-specific genome region containing the sex determination switch in Aedes aegypti Joe Turner|Ritesh Krishna|Arjen E. Van 't Hof|Elizabeth R. Sutton|Kelly Matzen|Alistair C Darby University of Liverpool;|IBM Research UK;|Liverpool School of Tropical Medicine;|Sistemic;|Oxitec Ltd.
http://dx.doi.org/10.1101/125658 2017-04-08 CC BY-ND Faucet: streaming de novo assembly graph construction Roye Rozov|Gil Goldshlager|Eran Halperin|Ron Shamir Tel Aviv University;|MIT;|UCLA
http://dx.doi.org/10.1101/125641 2017-04-08 CC BY-NC-ND Tissue adaptation: implications for gut immunity and tolerance Ana M. C. Faria|Bernardo S. Reis|Daniel Mucida Universidade Federal de Minas Gerais;|The Rockefeller University
http://dx.doi.org/10.1101/125799 2017-04-08 Comparative Genomic Evidence For Self-Domestication In Homo sapiens Constantina Theofanopoulou|Simone Gastaldon|Thomas O'Rourke|Bridget D Samuels|Angela Messner|Pedro Tiago Martins|Francesco Delogu|Saleh Alamri|Cedric Boeckx Universitat de Barcelona;|University of Southern California;|Norwegian University of Life Sciences;|Universitat de Barcelona/ICREA
http://dx.doi.org/10.1101/125666 2017-04-08 CC BY-ND Elucidating dispersal ecology of reclusive species through genetic analyses of parentage and relatedness: the island night lizard (Xantusia riversiana) as a case study. Stephen Rice|Rulon W Clark San Diego State University
http://dx.doi.org/10.1101/125161 2017-04-08 CC BY Data-driven Assessment of Structural Image Quality Adon Rosen|David R Roalf|Kosha Ruparel|Jason Blake|Kevin Seelaus|L Prayosha Villa|Phillip A Cook|Christos Davatzikos|Mask A Elliot|Angel Garcia De La Garza|Estathios D Gennatas|Megan Quarmley|J. Eric Schmitt|Russell T Shionhara|M. Dylan Tisdall|R. Cameron Craddock|Raquel E Gur|Ruben C Gur|Theodore D Satterthwaite University of Pennsylvania;|Department of Psychiatry;|Department of Radiology;|Department of Radiology Department of Electrical and Systems Engineering;|Department of Psychiatry Department of Radiology;|Department of Biostatistics, Epidemiology, and Informatics;|Center for the Developing Brain Computational Neuroimaging Lab
http://dx.doi.org/10.1101/125708 2017-04-08 Cell Biology CC BY Hardwired synthetic lethality within the cohesin complex in human cancer cells Mark Paul Petronczki|Petra van der Lelij|Simone Lieb|Julian Jude|Gordana Wutz|Catarina P Santos|Katrina Falkenberg|Andreas Schlattl|Jozef Ban|Raphaela Schwentner|Heinrich Kovar|Francisco X Real|Todd Waldman|Mark Pearson|Norbert Kraut|Jan-Michael Peters|Johannes Zuber Boehringer Ingelheim RCV;|IMP Research Institute of Molecular Pathology;|Centro Nacional de Investigaciones Oncológicas;|IMP Research Institute of Molecular Pathology;|Children's Cancer Research Institute;|Spanish National Cancer Research Centre;|Lombardi Comprehensive Cancer Center - Georgetown University School of Medicine;|Boehringer Ingelheim Austria GmbH
http://dx.doi.org/10.1101/125807 2017-04-09 CC BY Functional Implications Of Disordered Terminal Regions Of Macrotyloma uniflorum Bowman-Birk Inhibitors: A Molecular Dynamics Study Abhishek Acharya Central Food Technological Research Institute
http://dx.doi.org/10.1101/125864 2017-04-09 CC BY-NC-ND On The Principles Of Cell Decision-Making: Intracellular Coupling Improves Cell Responses Fidelity Of Noisy Signals Andreas Reppas|Eduard Jorswieck|Haralampos Hatzikirou Helmholtz Centre for Infection Research;|TU Dresden
http://dx.doi.org/10.1101/125724 2017-04-09 Molecular Biology Index Switching Causes “Spreading-Of-Signal” Among Multiplexed Samples In Illumina HiSeq 4000 DNA Sequencing Rahul Sinha|Geoff Stanley|Gunsagar Singh Gulati|Camille Ezran|Kyle Joseph Travaglini|Eric Wei|Charles Kwok Fai Chan|Ahmad N Nabhan|Tianying Su|Rachel Marie Morganti|Stephanie Diana Conley|Hassan Chaib|Kristy Red-Horse|Michael T Longaker|Michael P Snyder|Mark A Krasnow|Irving L Weissman Stanford University School of Medicine;|Stanford University School of Engineering;|Department of Biochemistry and Howard Hughes Medical Institute, Stanford University;|Stanford Center for Genomics and Personalized Medicine;|Department of Biology, Stanford University
http://dx.doi.org/10.1101/125831 2017-04-09 Biochemistry CC BY Proteomic analysis of cell cycle progression in asynchronous cultures, including mitotic subphases, using PRIMMUS Tony Ly|Arlene Whigham|Rosemary Clarke|Alejandro J Brenes-Murillo|Brett Estes|Patricia Wadsworth|Angus I Lamond University of Dundee, United Kingdom;|University of Massachusetts, United Kingdom
http://dx.doi.org/10.1101/123349 2017-04-09 Biochemistry CC BY-NC-ND Structural Models And Considerations On The COA6, COX18 And COX20 Factors That Assist Assembly Of Human Cytochrome C Oxidase Subunit II Luciano Abriata Ecole Polytechnique Federale de Lausanne
http://dx.doi.org/10.1101/126060 2017-04-10 The Y-Chromosome Clarifies The Evolutionary History Of Sus scrofa By Large-Scale Deep Genome Sequencing Huashui Ai|Jun Ren|Junwu Ma|Zhiyan Zhang|Wanbo Li|Bin Yang|Lusheng Huang State Key Lab. for Swine Genetic Improvement & Production Tech., Jiangxi Agricultural Univ.
http://dx.doi.org/10.1101/126011 2017-04-10 CC BY-NC-ND Polymorphisms In The Yeast Galactose Sensor Underlie A Natural Continuum Of Nutrient-Decision Phenotypes Kayla B. Lee|Jue Wang|Julius Palme|Renan Escalante-Chong|Bo Hua|Michael Springer Harvard University;|Harvard Medical School;|Technische Universitat;|Immuneering Corporation
http://dx.doi.org/10.1101/125914 2017-04-10 CC BY-NC-ND High Cooperativity In Negative Feedback Can Amplify Noisy Gene Expression Pavol Bokes|Abhyudai Singh|Yen Ting Lin Comenius University;|University of Delaware;|Los Alamos National Laboratory
http://dx.doi.org/10.1101/125500 2017-04-10 Cell Biology Par3/Baz levels control epithelial folding at actomyosin-enriched compartmental boundaries Jose M Urbano|Huw W Naylor|Elena Scarpa|Leila Muresan|Benedicte Sanson University of Cambridge
http://dx.doi.org/10.1101/125526 2017-04-10 Neuroscience The Developing Human Connectome Project: a Minimal Processing Pipeline for Neonatal Cortical Surface Reconstruction Antonios Makropoulos|Emma C Robinson|Andreas Schuh|Robert Wright|Sean Fitzgibbon|Jelena Bozek|Serena J Counsell|Johannes Steinweg|Jonathan Passerat-Palmbach|Gregor Lenz|Filippo Mortari|Tencho Tenev|Eugene P Duff|Matteo Bastiani|Lucilio Cordero-Grande|Emer Hughes|Nora Tusor|Jacques-Donald Tournier|Jana Hutter|Anthony N Price|Maria Murgasova|Christopher Kelly|Mary A Rutherford|Stephen M Smith|A. David Edwards|Joseph V Hajnal|Mark Jenkinson|Daniel Rueckert Imperial College London;|University of Oxford;|University of Zagreb;|King's College London
http://dx.doi.org/10.1101/125575 2017-04-10 Cancer Biology CC BY-NC-ND Case-control study highlights a different gut microbiome in cirrhotic patients with and without hepatocellular carcinoma Federico Pinero|Martin P Vazquez|Patricia Bare|Cristian Rohr|Manuel Mendizabal|Mariela Sciara|Cristina Alonso|Fabian Fay|Marcelo Silva Hospital Universitario Austral;|Heritas and CONICET;|IMEX, National Academy of Medicine;|Heritas
http://dx.doi.org/10.1101/125591 2017-04-10 Neuroscience Efficient Information Contents Flow Down from Memory to Predict the Identity of Faces Jiayu Zhan|Oliver B Garrod|Nicola J van Rijsbergen|Philippe G Schyns University of Glasgow;|University of Glasgow
http://dx.doi.org/10.1101/125922 2017-04-10 Microbiology CC BY-NC Microbial Community Assembly And Metabolite Profile Of The Gut Microbiome In Extremely Low Birthweight Infants Stephen Wandro|Stephanie Osborne|Claudia Enriquez|Claudia Bixby|Antonio Arrieta|Katrine Whiteson University of California Irvine;|Children's Hospital of Orange County
http://dx.doi.org/10.1101/125930 2017-04-10 Biochemistry Toward D-Peptide Biosynthesis: Elongation Factor P Enables Ribosomal Incorporation Of Consecutive D-Amino Acids Po-Yi Huang|Fanny Wang|Kamesh Narasimhan|Kelly Chatman|John Aach|Sunia A. Trauger|Ryan Spoering|George M. Church Harvard Medical School;|Virginia Tech-Wake Forest University School of Biomedical Engineering and Sciences;|Harvard University, Small Molecule Mass Spectrometry Facility;|Lab Machinist Solutions, LLC
http://dx.doi.org/10.1101/125823 2017-04-10 Genomics Cataloguing Over-Expressed Genes In Epstein Barr Virus Immortalized Lymphoblastoid Cell Lines Through Consensus Analysis Of PacBio Transcriptomes Corroborates Hypomethylation Of Chromosome 1 Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/125856 2017-04-10 Bioinformatics CC BY-NC QuickRNASeq: Guide For Pipeline Implementation And For Interactive Results Visualization Wen He|Shanrong Zhao|Chi Zhang|Michael S Vincent|Baohong Zhang Pfizer, Inc.
http://dx.doi.org/10.1101/126078 2017-04-10 Epidemiology CC BY Evaluating Clinical Stop-Smoking Services Globally: Proposal For A Minimum Data Set Andy Skinner|Robert West|Martin Raw|Emma Anderson|Marcus Munafo University of Bristol;|University College London;|University of Nottingham
http://dx.doi.org/10.1101/125369 2017-04-10 Epidemiology CC BY-ND Increasing Antibiotic Susceptibility In Staphylococcus aureus In Boston, Massachusetts, 2000-2014: An Observational Study Sanjat Kanjilal|Mohamad Sater|Maile Thayer|Georgia Lagoudas|Soohong Kim|Paul Blainey|Yonatan Grad Dept. of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health;|MIT Department of Biological Engineering and Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/126052 2017-04-10 Epidemiology CC BY-ND Systematic Identification of Correlates of HIV-1 Infection: An X-Wide Association Study in Zambia Chirag Patel|John P Ioannidis|Jay Bhattacharya|Eran Bendavid Harvard University;|Stanford University
http://dx.doi.org/10.1101/125740 2017-04-10 Clinical Trials CC BY-NC-ND The effect of a lifestyle intervention in obese pregnant women on change in gestational metabolic profiles: findings form the UK Pregnancies Better Eating and Activity Trial (UPBEAT) RCT. Harriet Mills|Nashita Patel|Sara White|Dharmintra Pasupathy|Annette L Briley|Diana dos Santos Ferreira|Paul T Seed|Scott M Nelson|Naveed Sattar|Kate Tilling|Lucilla Poston|Debbie A Lawlor MRC Integrative Epidemiology Unit at the University of Bristol;|Division of Womens Health Kings College London;|Womens Health Kings College London;|School of Medicine University of Glasgow;|Institute of Cardiovascular and Medical Sciences University of Glasgow;|MRC Integrative Epidemiology Unit
http://dx.doi.org/10.1101/125989 2017-04-10 Developmental Biology CC BY-NC Morphogen And Community Effects Determine Cell Fates In Response To BMP4 Signaling In Human Embryonic Stem Cells Anastasiia Nemashkalo|Albert Ruzo|Idse Heemskerk|Aryeh Warmflash Rice University;|Rockefeller University
http://dx.doi.org/10.1101/126102 2017-04-10 Epidemiology CC BY Robust Inference In Two-Sample Mendelian Randomisation Via The Zero Modal Pleiotropy Assumption Fernando Pires Hartwig|George Davey Smith|Jack Bowden Postgraduate Programme in Epidemiology, Federal University of Pelotas, Pelotas, Brazil;|MRC Integrative Epidemiology Unit, University of Bristol, Bristol, UK
http://dx.doi.org/10.1101/120550 2017-04-10 Epidemiology CC BY-NC Diagnostic Prediction Tools For Bacteraemia Caused By 3rd Generation Cephalosporin-Resistant Enterobacteriaceae In Suspected Bacterial Infections: A Nested Case-Control Study Wouter C. Rottier|Cornelis H. van Werkhoven|Yara R.P. Bamberg|J. Wendelien Dorigo-Zetsma|Ewoudt M. van de Garde|Babette C. van Hees|Jan A.J.W. Kluytmans|Emile M. Kuck|Paul D. van der Linden|Jan M. Prins|Steven F.T. Thijsen|Annelies Verbon|Bart J.M. Vlaminckx|Heidi S.M. Ammerlaan|Marc J.M. Bonten University Medical Center Utrecht (Utrecht, NL);|Tergooi Hospitals (Hilversum, NL);|Antonius Hospital (Utrecht/Nieuwegein, NL);|Gelre Hospitals (Apeldoorn, NL);|Amphia Hospital (Breda, NL);|Diakonessenhuis (Utrecht, NL);|Tergooi Hospitals (Hilversum NL);|Academic Medical Center (Amsterdam, NL);|Erasmus Medical Center (Rotterdam, NL)
http://dx.doi.org/10.1101/125518 2017-04-10 Epidemiology Modeling the consequences of regional heterogeneity in human papillomavirus (HPV) vaccination uptake on transmission in Switzerland Maurane Riesen|Victor Garcia|Nicola Low|Christian L. Althaus Institute of Social and Preventive Medicine (ISPM)
http://dx.doi.org/10.1101/125971 2017-04-10 Neuroscience CC BY-NC-ND Neural Overlap In Item Representations Across Episodes Impairs Context Memory Ghootae Kim|Kenneth A. Norman|Nicholas B. Turk-Browne University of Oregon;|Princeton University
http://dx.doi.org/10.1101/124560 2017-04-10 Epidemiology CC BY Disease as collider: a new case-only method to discover environmental factors in complex diseases with genetic risk estimation Felix Balazard|Sophie Le Fur|Pierre Bougneres|Alain-Jacques Valleron Inserm U1169;|Inserm u1169
http://dx.doi.org/10.1101/123620 2017-04-10 Epidemiology CC BY-NC-ND Antibiotic Resistance Detection Is Essential For Gonorrhoea Point-Of-Care Testing: A Mathematical Modelling Study Stephanie M Fingerhuth|Nicola Low|Sebastian Bonhoeffer|Christian L Althaus ETH Zurich;|University of Bern
http://dx.doi.org/10.1101/123976 2017-04-10 Epidemiology CC BY Association Between Genetically Elevated Levels Of Inflammatory Biomarkers And Risk Of Schizophrenia: A Two-Sample Mendelian Randomisation Study Fernando Hartwig|Maria Carolina Borges|Bernardo Lessa Horta|Jack Bowden|George Davey Smith Federal University of Pelotas;|Medical Research Council Integrative Epidemiology Unit, University of Bristol, Bristol, UK;|Postgraduate Programme in Epidemiology, Federal University of Pelotas, Pelotas, Brazil
http://dx.doi.org/10.1101/126276 2017-04-10 Microbiology CC BY Sub-minute phosphoregulation of cell-cycle systems during Plasmodium gamete formation revealed by a high-resolution time course Brandon Invergo|Mathieu Brochet|Lu Yu|Jyoti Choudhary|Pedro Beltrao|Oliver Billker EMBL-EBI;|Department of Microbiology & Molecular Medicine, University of Geneva, Switzerland;|Sanger Institute
http://dx.doi.org/10.1101/126045 2017-04-10 Evolutionary Biology CC BY-NC-ND Young Genes To The Front — A Strategy For Future Resistance Against Powdery Mildew? Markus Boenn|Francois Buscot|Marcel Quint|Ivo Grosse Institute of Computer Science, Martin Luther University Halle-Wittenberg;|UFZ - Helmholtz Centre for Environmental Research, Dept. Soil Ecology;|Institute of Agricultural and Nutritional Sciences, Martin Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/104414 2017-04-10 Neuroscience CC BY-NC-ND Multichannel Sleep Spindle Detection Using Sparse Low-Rank Optimization Ankit Parekh|Ivan Selesnick|Ricardo S. Osorio|Andrew W. Varga|David M. Rapoport|Indu Ayappa University of Iowa;|New York University;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/126151 2017-04-10 Cell Biology CC BY-NC-ND An Arf6- And Caveolae-Dependent Pathway Links Hemidesmosome Remodeling And Mechanoresponse Nael Osmani|Julien Pontabry|Jordi Comelles|Nina Fekonja|Jacky G Goetz|Daniel Riveline|Elisabeth Georges-Labouesse|Michel Labouesse IGBMC/Inserm U1109-MN3T;|IGBMC;|Inserm U1109-MN3T
http://dx.doi.org/10.1101/126169 2017-04-10 Genomics CC BY 5-Hydroxymethylcytosine Is Highly Dynamic Across Human Fetal Brain Development Helen Spiers|Eilis Hannon|Leonard Schalkwyk|Nicholas Bray|Jonathan Mill University of Oxford;|University of Exeter;|University of Essex;|Cardiff University
http://dx.doi.org/10.1101/126201 2017-04-10 Biophysics CC BY Large, long range tensile forces drive convergence during Xenopus blastopore closure and body axis elongation David R Shook|Raymond Keller|Lance Davidson|Eric M. Kasprowicz University of Virginia, United States;|University of Pittsburgh, United States;|Thomas Jefferson University Hospital, United States
http://dx.doi.org/10.1101/126136 2017-04-10 Bioinformatics Dense And Accurate Whole-Chromosome Haplotyping Of Individual Genomes David Porubsky|Shilpa Garg|Ashley D. Sanders|Jan O Korbel|Victor Guryev|Peter M. Lansdorp|Tobias Marschall ERIBA;|Max Planck Institute for Informatics;|European Molecular Biology Laboratory;|Saarland University and Max Planck Institute for Informatics
http://dx.doi.org/10.1101/125815 2017-04-10 Biophysics CC BY A Versatile Compressed Sensing Scheme For Faster And Less Phototoxic 3D Fluorescence Microscopy Maxime Woringer|Xavier Darzacq|Christophe Zimmer|Mustafa Mir Institut Pasteur, Paris/UC Berkeley;|UC Berkeley;|Institut Pasteur
http://dx.doi.org/10.1101/125849 2017-04-10 Neuroscience CC BY-NC-ND From Neural Network To Psychophysics Of Time: Exploring Emergent Properties Of RNNs Using Novel Hamiltonian Formalism Rakesh Sengupta|Raju Surampudi Bapi|Anindya Pattanayak York University;|IIIT Hyderabad;|Visva-Varati University
http://dx.doi.org/10.1101/126086 2017-04-10 Neuroscience CC BY-NC Cerebellar Re-Encoding Of Self-Generated Head Movements Guillaume Pierre Dugue|Matthieu Tihy|Boris Gourevitch|Clement Lena Institut de l'Ecole Normale Superieure;|Institut Pasteur
http://dx.doi.org/10.1101/112912 2017-04-10 Epidemiology CC BY Assessing the causal role of body mass index on cardiovascular health in young adults: Mendelian randomization and recall-by-genotype analyses Kaitlin H Wade|Scott T Chiesa|Alun D Hughes|Nish Chaturvedi|Marietta Charakida|Alicja Rapala|Vivek Muthurangu|Tauseef Khan|Nicholas Finer|Naveed Sattar|Laura D Howe|Abigail Fraser|Debbie A Lawlor|George Davey Smith|John E Deanfield|Nicholas J Timpson MRC Integrative Epidemiology Unit at the University of Bristol;|Vascular Physiology Unit, Institute of Cardiovascular Science, University College London;|Cardiometabolic Phenotyping Group, University College London;|Institute of Cardiovascular and Medical Sciences, University of Glasgow
http://dx.doi.org/10.1101/126458 2017-04-11 Biochemistry CC BY-NC ETV4 And AP1 Transcription Factors Form Multivalent Interactions With Three Sites On The MED25 Activator-Interacting Domain Simon L Currie|Jedediah J Doane|Kathryn S Evans|Niraja Bhachech|Bethany J Madison|Desmond K. W. Lau|Lawrence P McIntosh|Jack J Skalicky|Kathleen A Clark|Barbara J Graves University of Utah;|University of British Columbia
http://dx.doi.org/10.1101/126417 2017-04-11 Genetics CC BY-NC Evolution And Multiple Roles Of The Pancrustacea Specific Transcription Factor zelda In Insects Lupis Ribeiro|Vitoria Tobias-Santos|Danielle Santos|Felipe Antunes|Georgia Feltran|Jackson de Souza Menezes|L Aravind|Thiago M Venancio|Rodrigo Nunes da Fonseca Centro de Biociencias e Biotecnologia, Univ. Estadual do Norte Fluminense Darcy Ribeiro;|NUPEM, Campus UFRJ Macae, Universidade Federal do Rio de Janeiro;|National Center for Biotechnology Information, National Library of Medicine
http://dx.doi.org/10.1101/126508 2017-04-11 Cell Biology Combinatorial Regulation Of The Balance Between Dynein Microtubule End Accumulation And Initiation Of Directed Motility Rupam Jha|Johanna Roostalu|Martina Trokter|Thomas Surrey The Francis Crick Institute;|Centre for Therapeutics Discovery, MRC Technology
http://dx.doi.org/10.1101/126540 2017-04-11 Developmental Biology CC BY-NC MLL3/4 Prevents Stem Cell Hyperplasia And Controls Differentiation Programs In A Planarian Cancer Stem Cell Model Yuliana Mihaylova|Damian Kao|Samantha Hughes|Alvina Lai|Farah Jaber-Hijazi|Nobuyoshi Kosaka|Prasad Abnave|Aziz Aboobaker University of Oxford;|Beatson Institute for Cancer Research
http://dx.doi.org/10.1101/126516 2017-04-11 Molecular Biology Intermolecular Disulfide-Bond Formation In Human FICD Modulates The Activity Of The Hyperactive E234G Mutant Raffaella Magnoni|Minttu S Virolainen|Celeste M Hackney|Cecilie L Soltoft|Ana P Cordeiro|Yun Liu|Carsten Scavenius|Jan J Enghild|Brian Christensen|James Paton|Adrienne W Paton|Esben S Sorensen|Lars Ellgaard Department of Biology, University of Copenhagen, Copenhagen, Denmark;|Department of Molecular Biology and Genetics, Science Park, Aarhus University;|Research Centre for Infectious Diseases, School of Biological Sciences, University of Adelaide;|Department of Molecular Biology and Genetics, Science Park, Aarhus University, Aarhus
http://dx.doi.org/10.1101/125997 2017-04-11 Genomics CC BY Deep experimental profiling of microRNA diversity, deployment, and evolution across the Drosophila genus Alex S Flynt|Alexandra Panzarino|Md Mosharrof Hossain Mondal|Adam Siepel|Jaaved Mohammed|Eric Lai University of Southern Mississippi, United States;|Sloan-Kettering Institute, United States;|Cold Spring Harbor Laboratory, United States;|Cornell University, United States
http://dx.doi.org/10.1101/126359 2017-04-11 Cancer Biology Motif Disruption Domains Lead To Cancer Gene Expression Rewiring Fabien C Lamaze|Aurelien Chateigner|Hilary A Edgington|Marie-Julie Fave|Armande Ang Houle|Philip Awadalla Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/126300 2017-04-11 Bioinformatics CC BY-NC JEPEGMIX2: improved gene-level joint analysis of eQTLs in cosmopolitan cohorts. Chris Chatzinakos|Donghyung Lee|Bradley Todd Webb|Vladimir Vladimirov|Kenneth Kendler|Silviu Bacanu Virginia Commonwealth University;|Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/126284 2017-04-11 Cell Biology CC BY-NC-ND Anillin proteins stabilize the cytoplasmic bridge between the two primordial germ cells during C. elegans embryogenesis Eugenie Goupil|Rana Amini|Jean-Claude Labbe Universite de Montreal - IRIC
http://dx.doi.org/10.1101/124172 2017-04-11 Genetics CC BY-NC Survival Beyond the Perinatal Period Expands the Phenotypes Caused by Mutations in GLE1 Edith Said|Jessica Chong|Maja Hempel|Jonas Denecke|Paul Soler|Tim Strom|Deborah A Nickerson|Christian Kubisch|Michael Bamshad|Davor Lessel University of Malta;|University of Washington;|Institute of Human Genetics, University Medical Center Hamburg-Eppendorf, Hamburg, Germany;|Department of Pediatrics, University Medical Center Eppendorf, Hamburg, Germany;|Department of Paediatics, Mater dei Hospital, Malta;|Institute of Human Genetics, Helmholtz Zentrum Munchen, Neuherberg, Germany;|Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA;|Department of Pediatrics, University of Washington, Seattle, WA 98195, USA.
http://dx.doi.org/10.1101/126771 2017-04-11 CC BY Akt regulation of glycolysis mediates bioenergetic stability in epithelial cells John G Albeck|Yin P Hung|Carolyn Teragawa|Michael Pargett|Taryn E Gillies|Marta Minguet|Kevin Distor|Briana L Rocha-Gregg|Nont Kosaisawe|Joan S Brugge|Gary Yellen University of California, Davis, United States;|Harvard Medical School, United States
http://dx.doi.org/10.1101/126722 2017-04-11 CC BY-NC Spatial gene drives and pushed genetic waves Hidenori Tanaka|Howard A Stone|David R. Nelson Harvard University;|Princeton University
http://dx.doi.org/10.1101/126730 2017-04-11 CC BY-ND Histopathological image QTL discovery of thyroid autoimmune disease variants Joseph D Barry|Maud Fagny|Joseph N Paulson|Hugo Aerts|John Platig|John Quackenbush Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/126755 2017-04-11 CC BY Quiescence unveils a novel mutational force in fission yeast Serge Gangloff|Guillaume Achaz|Adrien Villain|Samia Miled|Claire Denis|Benoit Arcangioli Institut Pasteur;|Atelier de Bioinformatique;|Pasteur Institute of Paris
http://dx.doi.org/10.1101/126763 2017-04-11 CC BY Sensitivity to statistical structure facilitates perceptual analysis of complex auditory scenes Lucie Aman|Lefkothea Andreou|Maria Chait UCL, United Kingdom;|University College London, United Kingdom
http://dx.doi.org/10.1101/126656 2017-04-11 CC BY-NC Evaluation of tools for long read RNA-seq splice-aware alignment Kresimir Krizanovic|Amina Echchiki|Julien Roux|Mile Sikic University of Zagreb Faculty of Electrical Engineering and Computing;|University of Lausanne, Departement of Ecology and Evolution;|Department of Biomedicine, University Hospital Basel;|University of Zagreb, Faculty of Electrical Engineering and Computing
http://dx.doi.org/10.1101/126318 2017-04-11 CC BY-NC-ND The feature-weighted receptive field: an interpretable encoding model for complex feature spaces. Ghislain St-Yves|Thomas Naselaris Medical University of South Carolina
http://dx.doi.org/10.1101/126706 2017-04-11 Wheel running increases hyperthermia and mortality rate following 3,4-methylenedioxymethamphetamine (MDMA) in rats Michael A Taffe The Scripps Research Institute
http://dx.doi.org/10.1101/126623 2017-04-11 Biochemistry CC BY-NC-ND Chaperonin facilitates protein folding by avoiding polypeptide collapse Fumihiro Motojima|Katsuya Fujii|Masasuke Yoshida Kyoto Sangyo University
http://dx.doi.org/10.1101/126672 2017-04-11 Biochemistry CC BY-NC A commensal adhesin enhances E. coli retention by mucin, while mucin desulfation by mucin-foraging bacteria enhances its transmigration through the mucus barrier Fitua Al-Saedi|Diana Pereira Vaz|Daniel H Stones|Anne Krachler University of Birmingham;|University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/126466 2017-04-11 CC BY Cell type boundaries organize plant development Marcus G Heisler|Monica Pia Caggiano|Xiulian Yu|Neha Bhatia|Andre Larsson|Hasthi Ram|Carolyn K Ohno|Pia Sappl|Elliot M Meyerowitz|Henrik Jonsson The University of Sydney;|Monash University;|European Molecular Biology Laboratory;|Lund University;|Howard Hughes Medical Institute, California Institute of Technology;|University of Cambridge
http://dx.doi.org/10.1101/126649 2017-04-11 Neuroscience CC BY-NC The central amygdala controls learning in the lateral amygdala Kai Yu|Sandra Ahrens|Xian Zhang|Hillary Schiff|Charu Ramakrishnan|Lief Fenno|Karl Deisseroth|Pengcheng Zhou|Liam Paninski|Bo Li Cold Spring Harbor Laboratory;|Stanford University;|Columbia University
http://dx.doi.org/10.1101/126490 2017-04-11 Neuroscience CC BY-NC-ND When Group Means Fail: Can One Size Fit All? Thomas H. Grandy|Ulman Lindenberger|Markus Werkle-Bergner Max Planck Institute for Human Development
http://dx.doi.org/10.1101/126375 2017-04-11 Microbiology CC BY-NC-ND Mupirocin-associated temporal changes in the nasal microbiota and host's antimicrobial responses: A pilot study in healthy staphylococcal carriers Su-Hsun Liu|Yi-Ching Tang|Yi-Hsiung Lin|Kuan-Fu Chen|Chih-Jung Chen|Yhu-Chering Huang|Leslie Y. Chen Chang Gung Memorial Hospital;|Chang Gung University
http://dx.doi.org/10.1101/126607 2017-04-11 Neuroscience CC BY The influence of Parkinson's disease and neurotypical aging on cognitive performance among volunteers for an exercise-based rehabilitative intervention Johnathan Lucas McKay|Ariyana Bozzorg|Joe Nocera|Madeleine E Hackney Emory University / Georgia Tech;|Atlanta VA RR&D Center for Visual and Neurocognitive Rehabilitation;|Emory University / Atlanta VA
http://dx.doi.org/10.1101/126219 2017-04-11 Neuroscience CC BY-NC-ND Compressed timeline of recent experience in monkey lPFC Zoran Tiganj|Jason A Cromer|Jefferson E Roy|Earl K Miller|Marc W Howard Boston University;|MIT
http://dx.doi.org/10.1101/126292 2017-04-11 Neuroscience Single-Trial Inhibition of Anterior Cingulate Disrupts Model-based Reinforcement Learning in a Two-step Decision Task. Thomas Akam|Ines Rodrigues-Vaz|Xiangyu Zhang|Michael Pereira|Rodrigo Oliveira|Peter Dayan|Rui M Costa Oxford University, Oxford;|Columbia University, New York;|Massachusetts Institute of Technology;|Champalimaud Centre for the Unknown, Lisbon;|Gatsby Computational Neuroscience Unit, UCL, London
http://dx.doi.org/10.1101/125898 2017-04-11 Neuroscience CC BY-NC Modernization, Wealth And The Emergence Of Strong Alpha Oscillations In The Human EEG Dhanya Parameshwaran|Tara C. Thiagarajan The Human Brain Diversity Project, Sapien Labs
http://dx.doi.org/10.1101/126409 2017-04-11 Systems Biology CC BY-NC-ND Small effect-size mutations cumulatively affect yeast quantitative traits Bo Hua|Michael Springer Harvard Medical School
http://dx.doi.org/10.1101/126367 2017-04-11 Evolutionary Biology CC BY-NC Stags, hawks, and doves: Social evolution theory and individual variation in cooperation Jeremy Van Cleve University of Kentucky
http://dx.doi.org/10.1101/126425 2017-04-11 Neuroscience Recording action potential propagation in single axons using multi-electrode arrays Kenneth R Tovar|Daniel C Bridges|Bian Wu|Connor Randall|Morgane Audouard|Jiwon Jang|Paul K Hansma|Kenneth S Kosik University of California, Santa Barbara
http://dx.doi.org/10.1101/126631 2017-04-11 Biochemistry CC BY-NC Environmental cystine drives glutamine anaplerosis and sensitizes cells to glutaminase inhibition Alexander Muir|Laura V Danai|Dan Y Gui|Chiara Y Waingarten|Matthew G Vander Heiden Massachusetts Institute of Technology
http://dx.doi.org/10.1101/126441 2017-04-11 Neuroscience CC BY-NC-ND Modelling Neuroanatomical Variation Due To Age And Sex During Childhood And Adolescence Gareth Ball|Chris Adamson|Richard Beare|Marc L Seal Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/126334 2017-04-11 Microbiology CC BY-ND Household triclosan and triclocarban exposure impacts the adult intestinal microbiome but not the infant intestinal microbiome Jessica V. Ribado|Catherine Ley|Thomas D. Haggerty|Ekaterina Tkachenko|Ami S Bhatt|Julie Parsonnet Stanford University
http://dx.doi.org/10.1101/126573 2017-04-11 Bioinformatics CC BY-NC-ND Framework For Reanalysis Of Publicly Available Affymetrix® Genechip® Data Sets Based On Functional Regions Of Interest Ernur Saka|Benjamin J Harrison|Kirk West|Jeffrey C Petruska|Eric Christian Rouchka University of Louisville;|University of New England;|University of Arkansas for Medical Sciences
http://dx.doi.org/10.1101/126532 2017-04-11 Bioinformatics CC BY-NC-ND Generalising Better: Applying Deep Learning To Integrate Deleteriousness Prediction Scores For Whole-Exome SNV Studies Ilia Korvigo|Andrey Afanasyev|Nikolay Romashchenko|Mihail Skoblov Moscow Institute for Physics and Technology;|All-Russia Research Institute for Agricultural Microbiology
http://dx.doi.org/10.1101/125872 2017-04-11 Neuroscience CC BY-NC Complexity Of EEG Reflects Socioeconomic Context And Geofootprint Dhanya Parameshwaran|Tara C. Thiagarajan The Human Brain Diversity Project, Sapien Labs
http://dx.doi.org/10.1101/126680 2017-04-11 Bioinformatics High Accuracy Base Calls in Nanopore Sequencing Philippe Christophe Faucon|Robert Trevino|Parithi Balachandran|Kylie Standage-Beier|Xiao Wang Arizona State University
http://dx.doi.org/10.1101/126326 2017-04-11 Evolutionary Biology CC BY-ND Transcriptome sequencing and delimitation of cryptic Oscarella species (O. carmela and O. pearsei sp. nov) from California, USA. Alexander Ereskovsky|Daniel J. Richter|Dennis V. Lavrov|Klaske J. Schippers|Scott A. Nichols Institut Mediterraneen de Biodiversite et d'Ecologie Marine et Continentale (IMBE);|University of California Berkeley and Station Biologique de Roscoff;|Iowa State University;|University of Denver
http://dx.doi.org/10.1101/125906 2017-04-11 Neuroscience CC BY-NC Dynamical Features Of Human EEG Scale Systematically With Life Context Dhanya Parameshwaran|Tara C. Thiagarajan The Human Brain Diversity Project, Sapien Labs
http://dx.doi.org/10.1101/126474 2017-04-11 Genomics CC BY Linking FANTOM5 CAGE Peaks To Annotations With CAGEscan Nicolas Bertin|Mickael Mendez|Akira Hasegawa|Marina Lizio|Imad Abugessaisa|Jessica Severin|Mizuho Sakai-Ohno|Timo Lassmann|Takeya Kasukawa|Hideya Kawaji|Yoshihide Hayashizaki|Alistair Forrest|Piero Carninci|Charles Plessy Human Longevity Singapore Pte. Ltd., Singapore;|Department of Computer Science, University of Toronto, Canada;|RIKEN Center for Life Science Technologies, Division of Genomics Technologies, Japan;|Telethon Kids Institute, The University of Western Australia, Australia;|RIKEN Preventive Medicine and Diagnosis Innovation Program, Japan;|Harry Perkins Institute of Medical Research, University of Western Australia
http://dx.doi.org/10.1101/126482 2017-04-11 Bioinformatics CC BY BasePlayer: Versatile Analysis Software For Large-Scale Genomic Variant Discovery Riku Katainen|Iikki Donner|Tatiana Cajuso|Eevi Kaasinen|Kimmo Palin|Veli Makinen|Lauri A Aaltonen|Esa Pitkanen University of Helsinki
http://dx.doi.org/10.1101/126433 2017-04-11 Neuroscience Estimating DSM accuracy for Attention Deficit Hyperactivity Disorder Based on Neurophysiological, Psychological, and Behavioral Correlates Dimitri M. Abramov|Saint-Clair Gomes-Junior|Carlos A Mourao-Junior|Adailton T Pontes|Carla Q C Rodrigues|Monique C Pontes|Juliana Vieira|Paulo R Galhanone|Leonardo C deAzevedo|Vladimir V Lazarev Lab of Neurobiology and Clinical Neurophysiology, IFF, Oswaldo Cruz Foundation;|Clinical Research Unit, National Institute of Women, Children and Adolescents Health Fernandes Figue;|Laboratory of Psychophysiology, Institute of Biological Sciences, Federal University of Juiz de Fora
http://dx.doi.org/10.1101/127001 2017-04-12 Bioinformatics CC BY-NC-ND Estimation of immune cell content in tumour tissue using single-cell RNA-seq data Max Schelker|Sonia Feau|Jinyan Du|Nav Ranu|Edda Klipp|Gavin MacBeath|Birgit Schoeberl|Andreas Raue Humboldt-University Berlin;|Merrimack Pharmaceuticals
http://dx.doi.org/10.1101/126953 2017-04-12 Bioinformatics CC BY-NC MAPseq: Improved Speed, Accuracy And Consistency In Ribosomal RNA Sequence Analysis Joao F Matias Rodrigues|Thomas SB Schmidt|Janko Tackmann|Christian von Mering University of Zurich;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/126714 2017-04-12 Biophysics CC BY-NC-ND Mechanisms of generation of membrane potential resonance in a neuron with multiple resonant ionic currents David M Fox|Hua-an Tseng|Tomasz G Smolinski|Horacio G Rotstein|Farzan Nadim New Jersey Institue of Technology;|New Jersey Institute Of Technology;|Delaware State University;|New Jersey Institute of Technology
http://dx.doi.org/10.1101/119800 2017-04-12 Cell Biology Local Nucleation Of Microtubule Bundles Through Tubulin Concentration Into A Condensed Tau Phase Amayra Hernandez-Vega|Marcus Braun|Lara Scharrel|Marcus Jahnel|Susanne Wegmann|Bradley T. Hyman|Simon Alberti|Stefan Diez|Anthony A. Hyman Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany;|Dept. Neurology, Massachusetts General Hospital, Harvard Medical School, Boston, MA
http://dx.doi.org/10.1101/126904 2017-04-12 Synthetic Biology CC BY-NC-ND The WPRE Improves Genetic Engineering With Site-Specific Nucleases Jessica M. Ong|Christopher R Brown|Matthew C. Mendel|Gregory J Cost Sangamo Therapeutics
http://dx.doi.org/10.1101/126896 2017-04-12 CC BY-NC-ND Genome Wide Identification Of Genes Required For Bacterial Plant Infection By Tn-Seq Kevin Royet|Nicolas Parisot|Agnes Rodrigue|Erwan Gueguen|Guy Condemine Universite Lyon 1, INSA de Lyon, CNRS UMR 5240 Microbiologie Adaptation et Pathogenie;|Univ Lyon, INSA de Lyon, INRA UMR 203 Biologie Fonctionnelle Insectes et Interactions
http://dx.doi.org/10.1101/127084 2017-04-12 CC BY Acute transient cognitive dysfunction and acute brain injury induced by systemic inflammation occur by dissociable IL-1-dependent mechanisms Donal Skelly|Eadaoin W Griffin|Carol Murray|Sarah Harney|Conor O'Boyle|Edel Hennessy|Nicholas Rawlins|David Bannerman|Colm Cunningham Trinity College Dublin;|University of Oxford
http://dx.doi.org/10.1101/126557 2017-04-12 CC BY-NC Can Zika Account For The Missing Babies? Flavio Codeco Coelho|Margaret Armstrong|Valeria Saraceni|Cristina Lemos Getulio Vargas Foundation;|Getulio Vargas Foundation and MINES Paristech;|Secretaria Municipal de Saude do Rio de Janeiro
http://dx.doi.org/10.1101/127092 2017-04-12 CC BY-ND Contextual Autocomplete: A Novel User Interface Using Machine Learning to Improve Ontology Usage and Structured Data Capture for Presenting Problems in the Emergency Department Nathaniel R Greenbaum|Yacine Jernite|Yoni Halpern|Shelley Calder|Larry A Nathanson|David A Sontag|Steven Horng Beth Israel Deaconess Medical Center / Harvard Medical School;|New York University
http://dx.doi.org/10.1101/124313 2017-04-12 CC BY-NC-ND Derivation and Validation of a Record Linkage Algorithm between EMS and the Emergency Department Colby Redfield|Abdulhakim Tlimat|Yoni Halpern|David Schoenfeld|Edward Ullman|David A Sontag|Larry A Nathanson|Steven Horng Beth Israel Deaconess Medical Center / Harvard Medical School;|New York University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/124289 2017-04-12 CC BY-NC-ND Evaluation of the Angus ICD9-CM Sepsis Abstraction Criteria Steven Horng|Larry A Nathanson|David A Sontag|Nathan I Shapiro Beth Israel Deaconess Medical Center / Harvard Medical School;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/123950 2017-04-12 CC BY-NC-ND Assessing the role of inhibition in stabilizing neocortical networks requires large-scale perturbation of the inhibitory population Sadra Sadeh|Robin Angus Silver|Thomas Mrsic-Flogel|Dylan Muir United College London;|University College London;|University of Basel
http://dx.doi.org/10.1101/126615 2017-04-12 CC BY-NC-ND Case fatality as an indicator for the human toxicity of pesticides - a systematic review on the availability and variability of severity indicators of pesticide poisoning Susanne Moebus|Wolfgang Boedeker Centre for Urban Epidemiology, University Clinic, University of Duisburg-Essen, Essen, Germany;|EPICURUS Impact Assessment
http://dx.doi.org/10.1101/127068 2017-04-12 Molecular Biology CC BY-NC-ND Modulation of Genome Editing Outcomes by Cell Cycle Control of Cas9 Expression Yuping Huang|Caitlin McCann|Andrey Samsonov|Dmitry Malkov|Greg D Davis|Qingzhou Ji MilliporeSigma
http://dx.doi.org/10.1101/126912 2017-04-12 Microbiology Individual Variation Of Natural D. melanogaster Associated Bacterial Communities Yun Wang|Fabian Staubach Albert Ludwigs Universitaet Freiburg
http://dx.doi.org/10.1101/126870 2017-04-12 Bioinformatics CC BY-NC-ND Consensus Development Of A Modern Ontology Of Emergency Department Presenting Problems: The HierArchical Presenting Problem OntologY (HaPPy) Steven Horng|Nathaniel Greenbaum|Larry A Nathanson|James McClay|Foster R Goss|Jeffrey A Nielson Beth Israel Deaconess Medical Center / Harvard Medical School;|University of Nebraska Medical Center College of Medicine;|University of Colorado Hospital / University of Colorado School of Medicine;|Northeastern Ohio Universities College of Medicine
http://dx.doi.org/10.1101/126946 2017-04-12 Bioinformatics CC BY Transcriptome-Wide Prediction Of lncRNA-RNA Interactions By A Thermodynamics Algorithm Ivan Antonov|Andrey Marakhonov|Maria Zamkova|Mikhail Skoblov|Yulia Medvedeva Institute of Bioengineering, Research Center of Biotechnology RAS;|Research Centre of Medical Genetics, Moscow, Russia;|Russian N.N. Blokhin Cancer Research Center, Moscow, Russia;|Institute of Bioengineering, Research Center of Biotechnology RAS, Moscow, Russia
http://dx.doi.org/10.1101/126920 2017-04-12 Neuroscience CC BY-NC-ND Adolescent Tuning Of Association Cortex In Human Structural Brain Networks Frantisek Vasa|Jakob Seidlitz|Rafael Romero-Garcia|Kirstie J. Whitaker|Gideon Rosenthal|Petra E. Vertes|Maxwell Shinn|Aaron Alexander-Bloch|Peter Fonagy|Ray Dolan|Peter Jones|Ian Goodyer|Olaf Sporns|Edward T. Bullmore University of Cambridge;|University of Cambridge / National Institute of Mental Health;|Ben-Gurion University of the Negev;|Yale University School of Medicine;|University College London;|Indiana University
http://dx.doi.org/10.1101/124586 2017-04-12 Genetics CC BY Causal Analyses, Statistical Efficiency And Phenotypic Precision Through Recall-By-Genotype Study Design Laura J Corbin|Vanessa Y Tan|David A Hughes|Kaitlin H Wade|Dirk S Paul|Katherine E Tansey|Frances Butcher|Frank Dudbridge|Joanna M Howson|Momodou W Jallow|Catherine John|Nathalie Kingston|Cecilia M Lindgren|Micheal O'Donavan|Steve O'Rahilly|Micheal J Owen|Colin N.A. Palmer|Ewan R Pearson|Robert A Scott|David A van Heel|John Whittaker|Tim Frayling|Martin D Tobin|Louise V Wain|Dave M Evans|Fredrik Karpe|Mark I McCarthy|John Danesh|Paul W Franks|Nicholas J Timpson MRC Integrative Epidemiology Unit, School of Social and Community Medicine, Univ. of Bristol;|Cardiovascular Epidemiology Unit, Dept of Public Health and Primary Care, Univ of Cambridge;|Core Bioinformatics and Statistics Team, College of Biomedical & Life Sciences, Cardiff Univ.;|Oxford School of Public Health, University of Oxford;|Department of Health Sciences, University of Leicester;|Dept. of Epidemiology and Population Health, London School of Hygiene and Tropical Med.;|NIHR Bioresource & Cambridge Bioresource, University of Cambridge;|Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Univ. of Oxford;|MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University;|Metabolic Research Laboratories, Institute of Metabolic Science, University of Cambridge;|Medical Research Institute, University of Dundee;|MRC Epidemiology Unit, University of Cambridge and PCPS, GlaxoSmithKline;|Blizard Institute, Queen Mary University of London;|London School of Hygiene and Tropical Medicine and Quantitative Sciences, GlaxoSmithKline;|Genetics of Complex Traits, Institute of Biomedical and Clinical Science, University of Exeter;|Leicester Respiratory Biomedical Research Unit, Glenfield Hospital Leicester;|The University of Queensland Diamantina Institute, The University of Queensland;|Oxford Centre for Diabetes, Endocrinol. & Metabolism; NIHR Oxford Biomed. Research Centre;|Department of Human Genetics, Wellcome Trust Sanger Institute and University of Cambridge;|Department of Clinical Sciences, Genetic and Molecular Epidemiology Unit, Lund University;|MRC Integrative Epidemiology Unit, School of Social & Community Medicine, Univ. of Bristol
http://dx.doi.org/10.1101/126821 2017-04-12 Ecology CC BY-ND Simultaneous Modelling Of Movement, Measurement Error, And Observer Dependence In Double-Observer Distance Sampling Surveys Paul Conn|Ray T Alisauskas Marine Mammal Lab., Natl. Marine Fisheries Service, Alaska Fisheries Science Center, NOAA;|Wildlife Research Division, Environment and Climate Change Canada
http://dx.doi.org/10.1101/126888 2017-04-12 Evolutionary Biology CC BY Allelic Differentiation Of Complex Trait Loci Across Human Populations Emily Wong|Joseph Powell The University of Queensland
http://dx.doi.org/10.1101/127035 2017-04-12 Microbiology CC BY-NC-ND Bacterial community composition and dynamics spanning five years in freshwater bog lakes Alexandra Linz|Benjamin C Crary|Ashley Shade|Sarah Owens|Jack Gilbert|Rob Knight|Katherine McMahon University of Wisconsin Madison;|Michigan State University;|Argonne National Laboratory;|University of California San Diego
http://dx.doi.org/10.1101/126987 2017-04-12 Plant Biology CC BY-NC-ND An organ-on-a-chip approach for investigating root-environment interactions in heterogeneous conditions Claire E. Stanley|Jagriti Shrivastava|Rik Brugman|Dirk van Swaay|Guido Grossmann ETH Zurich;|Heidelberg University
http://dx.doi.org/10.1101/127050 2017-04-12 Genetics CC BY Human Missense Variation is Constrained by Domain Structure and Highlights Functional and Pathogenic Residues Stuart A MacGowan|Fabio Madeira|Thiago Britto Borges|Melanie S Schmittner|Christian Cole|Geoffrey J Barton University of Dundee
http://dx.doi.org/10.1101/126862 2017-04-12 Genomics CC BY-NC-ND Interactome INSIDER: A Multi-Scale Structural Interactome Browser For Genomic Studies Michael Meyer|Juan Felipe Beltran|Siqi Liang|Robert Fragoza|Aaron Rumack|Jin Liang|Xiaomu Wei|Haiyuan Yu Cornell University
http://dx.doi.org/10.1101/126995 2017-04-12 Molecular Biology Gut Microbiota Composition Related With Clostridium difficile-Positive Diarrhea And C. Difficile Type (A+B+, A-B+, And A-B-) In ICU Hospitalized Patients Anhua Wu|Juping Duan|Sidi Liu|Xiujuan Meng|Pengcheng Zhou|Qingya Dou|Chunhui Li Infection Control Center, Xiangya Hospital, Central South University
http://dx.doi.org/10.1101/126938 2017-04-12 Ecology Last And Corresponding Authorship Practices In Ecology Meghan A Duffy University of Michigan
http://dx.doi.org/10.1101/126813 2017-04-12 Biophysics Slow conformational exchange and overall rocking motion in ubiquitin protein crystals Vilius Kurauskas|Sergei A Izmailov|Olga N Rogacheva|Audrey Hessel|Isabel Ayala|Joyce Woodhouse|Anastasya Shilova|Yi Xue|Tairan Yuwen|Nicolas Coquelle|Jacques-Philippe Colletier|Nikolai R Skrynnikov|Paul Schanda Institut de Biologie Structurale Grenoble;|Saint Petersburg University;|European Synchrotron Radiation Facility;|Purdue University
http://dx.doi.org/10.1101/126524 2017-04-12 Neuroscience CC BY-NC-ND Stereotypical Modulations In Dynamic Functional Connectivity Explained By Changes In BOLD Variance Katharina Glomb|Adrian Ponce-Alvarez|Matthieu Gilson|Petra Ritter|Gustavo Deco Universitat Pompeu Fabra;|Charite University Medicine Berlin
http://dx.doi.org/10.1101/126805 2017-04-12 Scientific Communication and Education CC BY-NC-ND Why Do Scientists Fabricate And Falsify Data? A Matched-Control Analysis Of Papers Containing Problematic Image Duplications Daniele Fanelli|Rodrigo Costas|Ferric C Fang|Arturo Casadevall|Elisabeth M Bik Stanford University;|Leiden University;|University of Washington School of Medicine;|Johns Hopkins Bloomberg School of Public Health;|uBiome
http://dx.doi.org/10.1101/126979 2017-04-12 Bioinformatics CC BY-NC-ND Characterizing RNA Pseudouridylation By Convolutional Neural Networks Xuan He|Sai Zhang|Yanqing Zhang|Tao Jiang|Jianyang Zeng Institute for Interdisciplinary Information Sciences;|Department of Computer Science and Engineering
http://dx.doi.org/10.1101/126789 2017-04-13 Metabolic profiling of adiponectin levels in adults: Mendelian randomization analysis Maria Carolina Borges|Aluisio JD Barros|Diana L Santos Ferreira|Juan Pablo Casas|Bernardo Lessa Horta|Mika Kivimaki|Meena Kumari|Usha Menon|Tom R Gaunt|Yoav Ben-Shlomo|Deise F Freitas|Isabel O Oliveira|Aleksandra Gentry-Maharaj|Evangelia Fourkala|Debbie A Lawlor|Aroon D Hingorani MRC Integrative Epidemiology Unit at the University of Bristol, Bristol, UK;|Post-Graduate Program in Epidemiology, Federal University of Pelotas, Pelotas, Brazil;|Farr Institute of Health Informatics, University College London, London, UK;|Department of Epidemiology and Public Health, University College London, London, UK;|Institute for Social and Economic Research, University of Essex, Essex, UK;|Department of Women's Cancer, Institute for Women's Health, Faculty of Population Health Sciences UK;|School of Social and Community Medicine, University of Bristol, Bristol, UK
http://dx.doi.org/10.1101/125880 2017-04-13 Epidemiology CC BY-ND pomp-Astic Inference For Epidemic Models: Simple Vs. Complex Theresa Stocks|Tom Britton|Michael Hohle Stockholm University
http://dx.doi.org/10.1101/125492 2017-04-13 Epidemiology CC BY Maternal BMI at the start of pregnancy and offspring epigenome-wide DNA methylation: Findings from the Pregnancy and Childhood Epigenetics (PACE) consortium. Gemma C Sharp|Lucas A Salas|Claire Monnereau|Catherine Allard|Paul Yousefi|Todd Everson|Stephanie J London|Janine F Felix|Caroline L Relton University of Bristol;|ISGlobal, Centre for Research in Environmental Epidemiology (CREAL),;|Erasmus MC;|University de Sherbrooke;|University of California Berkeley;|Emory University;|National Institute of Environmental Health Sciences
http://dx.doi.org/10.1101/126847 2017-04-13 Genomics CC BY-NC Nanopore Long-Read RNAseq Reveals Widespread Transcriptional Variation Among the Surface Receptors of Individual B cells Ashley Byrne|Anna E Beaudin|Hugh E Olsen|Miten Jain|Charles Cole|Theron Palmer|Rebecca M DuBois|E. Camilla Forsberg|Mark Akeson|Christopher Vollmers UC Santa Cruz
http://dx.doi.org/10.1101/127159 2017-04-13 Neuroscience CC BY Local processing of visual information in neurites of VGluT3-expressing amacrine cells Jen-Chun Hsiang|Keith Johnson|Linda Madisen|Hongkui Zeng|Daniel Kerschensteiner Washington University School of Medicine, United States;|Allen Institute for Brain Science, United States
http://dx.doi.org/10.1101/127381 2017-04-13 CC BY-NC De novo transcriptome sequencing and comparative analysis of midgut tissues of four non-model insects pertaining to Hemiptera, Coleoptera, Diptera and Lepidoptera Rajesh K. Gazara|Christiane Cardoso|Daniel Bellieny-Rabelo|Clelia Ferreira|Walter R. Terra|Thiago M. Venancio Universidade Estadual do Norte Fluminense;|Universidade de São Paulo
http://dx.doi.org/10.1101/127324 2017-04-13 CC BY-NC-ND Just above chance: is it harder to decode information from human prefrontal cortex BOLD signals? Apoorva Bhandari|Christopher Gagne|David Badre Brown University;|University of California Berkeley
http://dx.doi.org/10.1101/126797 2017-04-13 CC BY-ND Genome-Wide Mechanisms of Lifespan Extension by Dietary Restriction in Yeast Sergio E. Campos|Erika Garay|J. Abraham Avelar-Rivas|Alejandro Juarez-Reyes|Alexander DeLuna Centro de Investigacion y de Estudios Avanzados del IPN
http://dx.doi.org/10.1101/127399 2017-04-13 Variability in prior expectations explains biases in confidence reports Pablo Tano|Florent Meyniel|Mariano Sigman|Alejo Salles Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales.;|CEA;|Universidad Torcuato Di Tella
http://dx.doi.org/10.1101/127365 2017-04-13 CC BY-NC-ND Volumetric grey matter alterations in adolescents and adults born very preterm suggest accelerated brain maturation Vyacheslav R. Karolis|Sean Froudist-Walsh|Jasmin Kroll|Philip J. Brittain|Chieh-En Jane Tseng|Kie-Woo Nam|Antje A. T. S. Reinders|Robin M. Murray|Steven C. R. Williams|Paul M. Thompson|Chiara Nosarti Institute of Psychiatry, Psychology and Neuroscience, King's College London;|Friedman Brain Institute, Icahn School of Medicine at Mount Sinai;|Keck School of Medicine of USC, University of Southern California
http://dx.doi.org/10.1101/127100 2017-04-13 CC BY-NC Nanopore detection of bacterial DNA base modifications Alexa B.R. McIntyre|Noah Alexander|Aaron S. Burton|Sarah Castro-Wallace|Charles Y. Chiu|Kristen K. John|Sarah E. Stahl|Sheng Li|Christopher E. Mason Weill Cornell Medicine;|NASA;|UCSF;|The Jackson Laboratories
http://dx.doi.org/10.1101/127308 2017-04-13 Enhancing Multiplex Genome Editing by Natural Transformation (MuGENT) via inactivation of ssDNA exonucleases Triana N. Dalia|Soo H. Yoon|Elisa Galli|Francois-Xavier Barre|Christopher M. Waters|Ankur B. Dalia Indiana University;|Michigan State University;|Universite Paris-Saclay
http://dx.doi.org/10.1101/127332 2017-04-13 CC BY Intracellular metabolic circuits shape inter-species microbial interactions Ali R Zomorrodi|Daniel Segre Boston University
http://dx.doi.org/10.1101/127316 2017-04-13 CC BY-NC-ND Co-evolution of dispersal with behaviour favours social polymorphism Charles Mullon|Laurent Keller|Laurent Lehmann University of Lausanne
http://dx.doi.org/10.1101/059360 2017-04-13 Cancer Biology CC BY-NC-ND Bayesian Inference Of Cancer Driver Genes Using Signatures Of Positive Selection Luis Zapata|Hana Susak|Oliver Drechsel|Marc Friedlander|Xavier Estivill|Stephan Ossowski Center For Genomic Regulation;|Science for Life Laboratory, Department of Molecular Biosciences, The Wenner-Gren Institute
http://dx.doi.org/10.1101/127167 2017-04-13 Systems Biology CC BY-NC-ND Extracting Intercellular Signaling Network Of Cancer Tissues Using Ligand-Receptor Expression Patterns From Whole-Tumor And Single-Cell Transcriptomes Joseph Xu Zhou|Roberto Taramelli|Edoardo Pedrini|Theo Knijnenburg|Sui Huang Institute for Systems Biology;|Department of Biotechnology and Molecular Science, University of Insubria
http://dx.doi.org/10.1101/127274 2017-04-13 Genetics CC BY Genetical genomics reveals Ras/MAPK modifier loci Mark G. Sterken|Linda Van Bemmelen van der Plaat|Joost A.G. Riksen|Miriam Rodriguez|Tobias Schmid|Alex Hajnal|Jan E. Kammenga|Basten L. Snoek Laboratory of Nematology, Wageningen University, 6708PB, The Netherlands;|University of Zurich, Institute of Molecular Life Sciences, CH-8057, Switzerland
http://dx.doi.org/10.1101/127217 2017-04-13 Cell Biology CC BY-NC-ND Mapping Human Hematopoietic Hierarchy At Single Cell Resolution By Microwell-seq Shujing Lai|Yang Xu|Wentao Huang|Mengmeng Jiang|Haide Chen|Fang Ye|Renying Wang|Yunfei Qiu|Xinyi Jiang|Daosheng Huang|Jie Mao|Yanwei Li|Yingru Lu|Jin Xie|Qun Fang|Tiefeng Li|He Huang|Xiaoping Han|Guoji Guo Zhejiang University School of Medicine;|Center for Stem Cell and Regenerative Medicine, Zhejiang University School of Medicine;|Zhejiang University;|The First Affiliated Hospital of Wenzhou Medical University
http://dx.doi.org/10.1101/125716 2017-04-13 Developmental Biology CC BY-ND Competition between histone and transcription factor binding regulates the onset of transcription in zebrafish embryos Shai Joseph|Mate Palfy|Lennart Hilbert|Mukesh Kumar|Jens Karschau|Vasily Zaburdaev|Andrej Shevchenko|Nadine Vastenhouw MPI-CBG;|MPI-CBG, MPI-PKS;|MPI-PKS
http://dx.doi.org/10.1101/122457 2017-04-13 Evolutionary Biology CC BY-NC-ND On reciprocal causation in the evolutionary process Erik I. Svensson Department of Biology, Lund University
http://dx.doi.org/10.1101/127126 2017-04-13 Neuroscience CC BY-ND Gamma Oscillations In The Rat Ventral Striatum Originate In The Piriform Cortex James E Carmichael|Jimmie M Gmaz|Matthijs AA van der Meer Dartmouth College
http://dx.doi.org/10.1101/127142 2017-04-13 Biophysics CC BY-NC-ND Comparison Of NMR And Crystal Structures Of Membrane Proteins And Computational Refinement To Improve Model Quality Julia Koehler Leman|Andrew R D'Avino|Yash D Bhatnagar|Jeffrey J Gray Simons Foundation / NYU;|Johns Hopkins University
http://dx.doi.org/10.1101/127241 2017-04-13 Genomics CC BY A Collection Of 2,280 Public Domain (CC0) Curated Genotypes Richard Shaw|Manuel Corpas Repositive Ltd.
http://dx.doi.org/10.1101/127282 2017-04-13 Genomics Defining functional intergenic transcribed regions based on heterogeneous features of phenotype genes and pseudogenes John P Lloyd|Zing TY Tsai|Rosalie P Sowers|Nicholas L Panchy|Shin-Han Shiu Michigan State University;|Pennsylvania State University
http://dx.doi.org/10.1101/125542 2017-04-13 Bioinformatics CC BY Describing the Local Structure of Sequence Graphs Yohei Rosen|Jordan Eizenga|Benedict Paten UCSC
http://dx.doi.org/10.1101/127118 2017-04-13 Biochemistry Binding Of A Newly Identified Essential Light Chain To Expressed Plasmodium falciparum Class XIV Myosin Enhances Actin Motility Carol S. Bookwalter|Chwen L. Tay|Rama McCrorie|Michael J. Previs|Elena B. Krementsova|Patricia M. Fagnant|Jake Baum|Kathleen M. Trybus University of Vermont;|Imperial College London
http://dx.doi.org/10.1101/127043 2017-04-13 Genomics CC BY Limited contribution of rare, noncoding variation to autism spectrum disorder from sequencing of 2,076 genomes in quartet families Donna M Werling|Harrison Brand|Joon-Yong An|Matthew R Stone|Joseph T Glessner|Lingxue Zhu|Ryan L Collins|Shan Dong|Ryan M Layer|Eiriene-Chloe Markenscoff-Papadimitriou|Andrew Farrell|Grace B Schwartz|Benjamin B Currall|Jeanselle Dea|Clif Duhn|Carolyn Erdman|Michael Gilson|Robert E Handsaker|Seva Kashin|Lambertus Klei|Jeffrey D Mandell|Tomasz J Nowakowski|Yuwen Liu|Sirisha Pochareddy|Louw Smith|Michael F Walker|Harold Z Wang|Mathew J Waterman|Xin He|Arnold R Kriegstein|John L Rubenstein|Nenad Sestan|Steven A McCarroll|Ben M Neale|Hilary Coon|A. Jeremy Willsey|Joseph D Buxbaum|Mark J Daly|Matthew W State|Aaron Quinlan|Gabor T Marth|Kathryn Roeder|Bernie Devlin|Michael E Talkowski|Stephan J Sanders UCSF;|Massachusetts General Hospital;|Carnegie Mellon University;|University of Utah School of Medicine;|Broad Institute;|University of Pittsburgh School of Medicine;|University of Chicago;|Yale School of Medicine;|Eastern Nazarene College;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/127134 2017-04-13 Genetics Do gametes woo? Evidence for non-random unions at fertilization Joseph H Nadeau Pacific Northwest Research Institute, United States
http://dx.doi.org/10.1101/127183 2017-04-13 Biophysics The Unique Protein-To-Protein Carotenoid Transfer Mechanism Eugene G. Maksimov|Nikolai N. Sluchanko|Yury B. Slonimskiy|Kirill S. Mironov|Konstantin E. Klementiev|Marcus Moldenhauer|Thomas Friedrich|Dmitry A. Los|Vladimir Z. Paschenko|Andrew B. Rubin Lomonosov Moscow State University;|A.N.Bach Institute of Biochemistry, FRC of Biotechnology of RAS;|Lomonosov Moscow State University, Department of Biochemistry, Faculty of Biology;|Timiryazev Institute of Plant Physiology;|Lomonosov Moscow State University, Department of Biophysics, Faculty of Biology;|Technical University of Berlin, Institute of Chemistry PC 14;|Technical University of Berlin
http://dx.doi.org/10.1101/117028 2017-04-14 Evolutionary Biology CC BY-NC Flexible Parental Care: Uniparental Incubation In Biparentally Incubating Shorebirds Martin Bulla|Hanna Pruter|Hanna Vitnerova|Wim Tijsen|Martin Sladecek|Jose A Alves|Olivier Gilg|Bart Kempenaers Max Planck Institute for Ornithology;|Department of Wildlife Diseases, Leibniz Institute for Zoo and Wildlife Research, Berlin;|Department of Ecology, Faculty of Environmental Sciences, Charles University in Prague;|Poelweg 12, 1778 KB Westerland, The Netherlands;|Department of Ecology, Faculty of Environmental Sciences, Czech University of Life Sciences;|Department of Biology & Centre for Environmental and Marine Studies, University of Aveiro;|Equipe Ecol. Evol., UMR 6282 Biogéosci., Univ. de Bourgogne Franche Comté;|Dept. of Behavioural Ecology & Evolutionary Genetics, Max Planck Institute for Ornithology
http://dx.doi.org/10.1101/123869 2017-04-14 Bioinformatics CCFold: Rapid And Accurate Prediction Of Coiled-Coil Structures And Application To Modelling Intermediate Filaments Dmytro Guzenko|Sergei Strelkov KU Leuven
http://dx.doi.org/10.1101/127464 2017-04-14 Bioinformatics CC BY ChIPWig: A Random Access-Enabling Lossless And Lossy Compression Method For ChIP-Seq Data Vida Ravanmehr|Minji Kim|Zhiying Wang|Olgica Milenkovic University of Illinois at Urbana-Champaign;|University of California, Irvine
http://dx.doi.org/10.1101/127423 2017-04-14 Bioinformatics CC BY-NC-ND PB-kPRED: Knowledge-Based Prediction Of Protein Backbone Conformation Using A Structural Alphabet Iyanar Vetrivel|Swapnil Mahajan|Manoj Tyagi|Lionel Hoffmann|Yves-Henri Sanejouand|Narayanaswamy Srinivasan|Alexandre G de Brevern|Frederic Cadet|Bernard Offmann Universite de Nantes, UFIP UMR CNRS 6286;|Universite de La Reunion;|Indian Institute of Science, Molecular Biophysics Unit;|Universite Paris Diderot, DSIMB INSERM UMR_S 1134,;|Universite de La Reunion, DSIMB INSERM UMR S-1134
http://dx.doi.org/10.1101/127472 2017-04-14 Ecology CC BY-NC-ND Predation Of Stocked Masu Salmon (Oncorhynchus masou) By Riparian Wildlife Kouta Miyamoto|Theodore Squires|Hitoshi Araki Natl Research Inst of Fisheries Science, Japan Fisheries Research and Education Agency;|Hokkaido University
http://dx.doi.org/10.1101/127480 2017-04-14 Cell Biology CC BY-NC Direct Conversion Of Human Fibroblasts Into Osteoblasts And Osteocytes With Small Molecules And A Single Factor, Runx2 Yanjiao Li|YaoLong Wang|Juehua Yu|Zhaoxia Ma|Qiong Bai|Xingfei Wu|Pengfei Bao|Lirong Li|Daiping Ma|Jingxue Liu|Change Liu|Fangyun Chen|Min Hu Yunnan Key Lab. for Basic Res. on Bone & Joint Dis.; Yunnan Stem Cell Translational Res. Ctr.
http://dx.doi.org/10.1101/127704 2017-04-14 CC BY A causal role for right frontopolar cortex in directed, but not random, exploration Wojciech K. Zajkowski|Malgorzata Kossut|Robert C Wilson University of Social Sciences and Humanities, Poland;|Nencki Institute, Poland;|University of Arizona, United States
http://dx.doi.org/10.1101/127555 2017-04-14 Evolutionary Biology CC BY Predicting The Evolutionary Consequences Of Trophy Hunting On A Quantitative Trait Tim Coulson|Susanne Schindler|Lochran Traill|Bruce E Kendall University of Oxford;|University of Zurich;|Liverpool John Moores University;|UCSB
http://dx.doi.org/10.1101/127563 2017-04-14 Genomics CC BY-NC Evolutionary Dynamics Of Genome-Wide Position Effects In Mammals Meenakshi Bagadia|Keerthivasan Raanin Chandradoss|Yachna Jain|Kuljeet Singh Sandhu Indian Institute of Science Education and Research (IISER) - Mohali
http://dx.doi.org/10.1101/121012 2017-04-14 Genomics CC BY-ND Novel Locus Influencing Retinal Venular Tortuosity Is Also Associated With Risk Of Coronary Artery Disease Abirami Veluchamy|Lucia Ballerini|Veronique Vitart|Caroline Hayward|Katherine Schraut|Peter Joshi|Harry Campbell|Mirna Kirin|Devanjali Relan|Sarah Harris|Ellie Brown|Suraj Vaidya|Bal Dhillon|Kaixin Zhou|Ewan Pearson|Ozren Polasek|Ian Deary|Thomas MacGillivray|James Wilson|Emanuele Trucco|Colin Palmer|Alexander Doney University of Dundee;|University of Edinburgh;|University of Split
http://dx.doi.org/10.1101/127514 2017-04-14 Biophysics Characterization Of The Stoichiometry Of The Complex Formed By Staphylococcal LukSF And Human C5aR Receptor In Living Cells Karita Haapasalo|Adam Wollman|Carla de Haas|Kok van Kessel|Jos van Strijp|Mark C Leake Department of Medical Microbiology, University Medical Center Utrecht, Utrecht;|University of York
http://dx.doi.org/10.1101/127498 2017-04-14 Genomics CC BY Long-read assembly of the Aedes aegypti genome reveals the nature of heritable adaptive immunity sequences Raul Andino|Whitfield Zach|Patrick T Dolan|Mark Kunitomi|Michel Tassetto University of California, San Francisco, United States;|UCSF, United States;|Stanford, United States
http://dx.doi.org/10.1101/127548 2017-04-14 Evolutionary Biology CC BY-NC MaxTiC: Fast Ranking Of A Phylogenetic Tree By Maximum Time Consistency With Lateral Gene Transfers Cedric Chauve|Akbar Rafiey|Adrian A Davin|Celine Scornavacca|Philippe Veber|Bastien Boussau|Gergely Szollosi|Vincent Daubin|Eric Tannier Simon Fraser University;|Univ Lyon, Universite Lyon 1, CNRS, Laboratoire de Biometrie et Biologie Evolutive;|Institut des Sciences de l'Evolution, Universite de Montpellier, CNRS, IRD;|MTA-ELTE;|Inria Grenoble Rhone-Alpes, F-38334 Montbonnot, France
http://dx.doi.org/10.1101/127522 2017-04-14 Genomics Topological Demarcation By HMGB2 Is Disrupted Early Upon Senescence Entry Across Cell Types And Induces CTCF Clustering Anne Zirkel|Milos Nikolic|Konstantinos Sofiadis|Jan-Philipp Mallm|Lilija Brant|Christian Becker|Janine Altmueller|Julia Franzen|Mirjam Koker|Eduardo G Gusmao|Ivan G Costa|Rolland T Ullrich|Wolfgang Wagner|Peter Nuernberg|Karsten Rippe|Argyris Papantonis University of Cologne;|University of Heidelberg;|RWTH University of Aachen
http://dx.doi.org/10.1101/127530 2017-04-14 Pharmacology and Toxicology CC BY-ND Model Based Safety Ranking Of Opioid Drugs Using Adversity Index Krishna Asvalayana|Samadhan Ghubade|Sharayu Paranjpe|Anil Gore CYTEL Statistical Software and Services Pvt Ltd
http://dx.doi.org/10.1101/127670 2017-04-15 Plant Biology CC BY-NC Genomics-enabled analysis of the emergent disease cotton bacterial blight Anne Z. Phillips|Jeffrey C. Berry|Mark C. Wilson|Anupama Vijayaraghavan|Jillian Burke|J. Imani Bunn|Tom W. Allen|Terry Wheeler|Rebecca Bart Donald Danforth Plant Science Center;|Mississippi State University;|Texas AgriLife Extension Service
http://dx.doi.org/10.1101/127662 2017-04-15 Systems Biology GlnK facilitates the dynamic regulation of bacterial nitrogen assimilation Adam Gosztolai|Jorg Schumacher|Volker Behrends|Jacob G Bundy|Franziska Heydenreich|Mark H Bennett|Martin Buck|Mauricio Barahona Imperial College London;|University of Roehampton
http://dx.doi.org/10.1101/127738 2017-04-15 Bioinformatics CC BY CRAST Leads to Homologous-ncRNA Search in Genomic Scale Masaki Tagashira The University of Tokyo
http://dx.doi.org/10.1101/127647 2017-04-15 Immunology CC BY-NC-ND Preexisting antibodies can protect against congenital cytomegalovirus infection in monkeys Cody Shaw Nelson|Diana Vera Cruz|Dollnovan Tran|Kristy M Bialas|Lisa Stamper|Huali Wu|Margaret Gilbert|Robert Blair|Xavier Alvarez|Hannah Itell|Meng Chen|Ashlesha Deshpande|Flavia Chiuppesi|Felix Wussow|Don J Diamond|Nathan Vandergrift|Mark Walter|Peter Barry|Michael Cohen-Wolkowiez|Katia Koelle|Amitinder Kaur|Sallie R Permar Duke University;|Tulane National Primate Research Center;|Duke Clinical Research Unit;|University of Alabama Birmingham;|City of Hope;|University of California Davis Primate Center
http://dx.doi.org/10.1101/127571 2017-04-15 Neuroscience Surgically disconnected temporal pole exhibits resting functional connectivity with remote brain regions David E Warren|Matthew J Sutterer|Joel Bruss|Taylor J Abel|Andrew Jones|Hiroto Kawasaki|Michelle Voss|Martin Cassell|Matthew A Howard|Daniel Tranel University of Nebraska Medical Center;|University of Iowa
http://dx.doi.org/10.1101/125682 2017-04-15 Neuroscience Aversive Learning Changes Face-Viewing Strategies, as Revealed by Model-Based Fixation-Pattern Similarity Analysis Lea Kampermann|Niklas Wilming|Arjen Alink|Christian Buechel|Selim Onat Department of Systems Neuroscience, University Medical Center Hamburg-Eppendorf, Hamburg, Germany;|Department of Neurophysiology and Pathophysiology, University Medical Center Hamburg-Eppendorf, Hamb
http://dx.doi.org/10.1101/127720 2017-04-15 Bioinformatics CC BY StateHub-StatePaintR: rules-based chromatin state annotations. Simon G Coetzee|Zachary Ramjan|Huy Q. Ding|Benjamin P. Berman|Dennis J. Hazelett Cedars-Sinai Medical Center;|Zaxxis LLC
http://dx.doi.org/10.1101/127654 2017-04-15 Evolutionary Biology CC BY Genomic regression of claw keratin, taste receptor and light-associated genes inform biology and evolutionary origins of snakes Christopher A Emerling University of California, Berkeley
http://dx.doi.org/10.1101/127449 2017-04-14 Cancer Biology CC BY-NC High accuracy label-free classification of kinetic cell states from holographic cytometry Miroslav Hejna|Aparna Jorapur|Jun S. Song|Robert L. Judson University of Illinois, Urbana-Champaign;|University of California, San Francisco
http://dx.doi.org/10.1101/127613 2017-04-14 Cell Biology CC BY-NC-ND A general method to fine-tune fluorophores for live-cell and in vivo imaging Jonathan B. Grimm|Anand K. Muthusamy|Yajie Liang|Timothy A. Brown|William C. Lemon|Ronak Patel|Rongwen Lu|John J. Macklin|Phillip J. Keller|Na Ji|Luke D. Lavis Janelia Research Campus, HHMI
http://dx.doi.org/10.1101/127829 2017-04-15 CC BY-NC-ND Efficiently Exploring Functional Space In Loop Engineering With Variations In Length And Composition Pedro A. G. Tizei|Emma Harris|Marleen Renders|Vitor B. Pinheiro University College London;|Birkbeck, University of London;|KU Leuven
http://dx.doi.org/10.1101/127761 2017-04-15 CC BY Challenges And Emerging Directions In Single-Cell Analysis Guo-Cheng Yuan|Long Cai|Michael Elowitz|Tariq Enver|Guoping Fan|Guoji Guo|Rafael Irizarry|Peter Kharchenko|Junhyong Kim|Stuart Orkin|John Quackenbush|Assieh Saadatpour|Timm Schroeder|Ramesh Shivdasani|Itay Tirosh Dana-Farber Cancer Institute;|Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena;|Division of Biology and Biological Engineering, California Institute of Technology;|Cancer Institute, University College London, London, United Kingdom;|Department of Human Genetics, University of California, Los Angeles, USA;|Center for Stem Cell and Regenerative Medicine, Zhejiang University, Hangzhou, China;|Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute, Boston;|Department of Biomedical Informatics, Harvard Medical School, Boston, USA;|Department of Biology, University of Pennsylvania, Philadelphia, USA;|Howard Hughes Medical Institute, USA;|Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland;|Department of Medical Oncology, Dana-Farber Cancer Institute, Boston, USA;|Broad Institute of MIT and Harvard, Cambridge, USA
http://dx.doi.org/10.1101/127233 2017-04-15 Decoding The Brain: Neural Representation And The Limits Of Multivariate Pattern Analysis In Cognitive Neuroscience J. Brendan Ritchie|David Kaplan|Colin Klein KU Leuven;|Macquarie University
http://dx.doi.org/10.1101/127753 2017-04-15 CC BY GeoDiver: Differential Gene Expression Analysis & Gene-Set Analysis For GEO Datasets Ismail Moghul|Suresh Hewapathirana|Nazrath Nawaz|Anisatu Rashid|Marian Priebe|Fabrizio Smeraldi|Conrad Bessant University College London;|School of Biological and Chemical Sciences, Queen Mary University of London, UK;|School of Electronic Engineering & Computer Science, Queen Mary University of London, UK
http://dx.doi.org/10.1101/127779 2017-04-15 CC BY-NC-ND Changes In LXRα Phosphorylation Promote A Novel Diet-Induced Transcriptome That Alters The Transition From Fatty Liver To Steatohepatitis Natalia Becares|Mathew C Gage|Lucia Martin-Gutierrez|Benoit Pourcet|Oscar M Pello|Tu Vinh Luong|Saioa Goni|Ning Liang|Cesar Pichardo|Elina Shrestha|Hanne Roberg-Larsen|Vanessa Diaz|Knut Steffensen|Michael J Garabedian|Krista Rombouts|Eckardt Treuter|Ines Pineda-Torra University College London;|University of Lille;|Imperial College Healthcare NHS Trust;|Royal Free London NHS Foundation Trust;|Karolinska Institute;|New York University School of Medicine;|University of Oslo
http://dx.doi.org/10.1101/127837 2017-04-16 Investigation Of Protein Synthesis In Drosophila Larvae Using Puromycin Labelling Lisa Deliu|Abhishek Ghosh|Savraj Grewal University of Calgary, Canada
http://dx.doi.org/10.1101/127811 2017-04-16 CC BY-ND Cell-Type Specific Burst Firing Interacts With Theta And Beta Activity In Prefrontal Cortex During Attention States Benjamin Voloh|Thilo Womelsdorf York University
http://dx.doi.org/10.1101/127878 2017-04-16 Bioinformatics SARNAclust: Semi-Automatic Detection Of RNA Protein Binding Motifs From Immunoprecipitation Data Ivan Dotu|Scott Adamson|Benjamin Coleman|Cyril Fournier|Emma Ricart-Altimiras|Eduardo Eyras|Jeffrey H Chuang Research Programme on Biomedical Informatics (GRIB);|The Jackson Laboratory for Genomic Medicine, University of Connecticut Health Center;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/127852 2017-04-16 Bioinformatics CC BY-ND Improved D-Statistic For Low-Coverage Data Samuele Soraggi|Carsten Wiuf|Anders Albrechtsen University of Copenhagen, Department of Mathematical Sciences;|University of Copenhagen, Department of Biology, Section for RNA and Bioinformatics
http://dx.doi.org/10.1101/127373 2017-04-17 Molecular Biology CC BY-NC-ND Autonomous Combinatorial Color Barcoding For Multiplexing Single Molecule RNA Visualization Yong-Sheng Chen|Yue Zhuo|Katharina Hartmann|Peng Zou|Goezde Bekki|Heike Alter|Hai-Kun Liu German Cancer Research Center
http://dx.doi.org/10.1101/128033 2017-04-17 Ecology CC BY Burrow Morphology of Genus Ocypode (Brachyura: Decapoda: Ocypodidae) Along the Coast of Karachi Sahir Odhano|Noor Us Saher Marine Biology
http://dx.doi.org/10.1101/128066 2017-04-17 Microbiology CC BY-NC-ND Succession of embryonic and intestinal bacterial communities of Atlantic salmon Lokesh Jep|Kiron Viswanath|Detmer Sipkema|Jorge Fernandes|Truls Moum Nord University;|Wageningen University
http://dx.doi.org/10.1101/127639 2017-04-17 Microbiology A Zebrafish Model For Mycobacterium leprae Granulomatous Infection Cressida A Madigan|James Cameron|Lalita Ramakrishnan UCLA David Geffen School of Medicine;|NOAA;|University of Cambridge
http://dx.doi.org/10.1101/126383 2017-04-17 Epidemiology CC BY-NC-ND Biologics-associated Risks for Incident Skin and Soft Tissue Infections in Psoriasis Patients: Results from Propensity Score-Stratified Survival Analysis Su-Hsun Liu|Tsung-Han Hsieh|Leslie Y. Chen|Yhu-Chering Huang|Yu-Huei Huang Chang Gung Memorial Hospital
http://dx.doi.org/10.1101/128025 2017-04-17 Immunology Quantification of inter-sample differences in T cell receptor sequences Ryo Yokota|Yuki Kaminaga|Tetsuya J. Kobayashi The University of Tokyo
http://dx.doi.org/10.1101/127910 2017-04-17 Neuroscience CC BY-NC-ND Alterations in cortical thickness and structural connectivity are associated with symptom severity in bulimia nervosa Margaret L Westwater|Jakob Seidlitz|Kelly MJ Diederen|Sarah Fischer|James C Thompson University of Cambridge;|George Mason University
http://dx.doi.org/10.1101/128058 2017-04-17 Bioengineering Refactoring the Genetic Code for Increased Evolvability Gur Pines|James D. Winkler|Assaf Pines|Ryan T. Gill University of Colorado Boulder;|None
http://dx.doi.org/10.1101/127894 2017-04-17 Genomics CC BY Transcript Isoform Differences Across Human Tissues Are Predominantly Driven By Alternative Start And Termination Sites Of Transcription Alejandro Reyes|Wolfgang Huber Dana-Farber Cancer Institute;|EMBL
http://dx.doi.org/10.1101/128082 2017-04-17 Molecular Biology The LDB1 complex co-opts CTCF for erythroid lineage specific long-range enhancer interactions Jongjoo Lee|Ivan Krivega|Ryan K. Dale|Ann Dean Laboratory of Cellular and Developmental Biology, NIDDK, NIH
http://dx.doi.org/10.1101/127589 2017-04-17 Neuroscience CC BY-NC-ND Experience-dependent plasticity in accessory olfactory bulb interneurons following male-male social interaction Hillary L. Cansler|Marina A. Maksimova|Julian P. Meeks UT Southwestern Medical Center
http://dx.doi.org/10.1101/127951 2017-04-17 Biochemistry CC BY-NC-ND TGH: Trans-Generational Hormesis And The Inheritance Of Aging Resistance Li Fang Ng|Jahnavi Suresh|Krishna Chaithanya|Linfan Xiao|Tuan Zea Tan|Jan Gruber|Nicholas Tolwinski Yale-NUS College;|Cancer Science Institute
http://dx.doi.org/10.1101/127688 2017-04-17 Evolutionary Biology Multiple origin but single domestication led to domesticated Asian rice Jae Young Choi|Michael Purugganan New York University
http://dx.doi.org/10.1101/127902 2017-04-17 Systems Biology Learning The High-Dimensional Immunogenomic Features That Predict Public And Private Antibody Repertoires Victor Greiff|Cedric R Weber|Johannes Palme|Ulrich Bodenhofer|Enkelejda Miho|Ulrike Menzel|Sai T Reddy ETH Zurich;|Austrian Institute of Technology;|Johannes Kepler University
http://dx.doi.org/10.1101/127944 2017-04-17 Microbiology A Macrophage Response To Mycobacterium leprae Phenolic Glycolipid Initiates Nerve Damage In Leprosy Cressida A Madigan|CJ Cambier|Kindra M Kelly-Scumpia|Philip O Scumpia|Tan-Yun Cheng|Joseph Zailaa|Barry R Bloom|D. Branch Moody|Stephen T Smale|Alvaro Sagasti|Robert L Modlin|Lalita Ramakrishnan UCLA David Geffen School of Medicine;|Stanford;|Brigham and Women's Hospital;|Harvard School of Public Health;|UCLA;|University of Cambridge
http://dx.doi.org/10.1101/128009 2017-04-17 Systems Biology Enzymes And Substrates Are Balanced At Minimal Combined Mass Concentration In Vivo Hugo Dourado|Veronica G Maurino|Martin J Lercher Heinrich Heine University
http://dx.doi.org/10.1101/127993 2017-04-17 Epidemiology The Causal Effect Of Educational Attainment On Alzheimer's Disease: A Two-Sample Mendelian Randomization Study Emma Anderson|Kaitlin H Wade|Gibran Hemani|Jack Bowden|Roxanna Korologou-Linden|George Davey Smith|Yoav Ben-Shlomo|Laura D Howe|Evie Stergiakouli University of Bristol;|Integrative Epidemiology Unit
http://dx.doi.org/10.1101/128280 2017-04-18 Cell Biology CC BY-NC Nuclear Microenvironments Modulate Transcription From Low-Affinity Enhancers Justin Crocker|Albert Tsai|Anand K Muthusamy|Luke D Lavis|Robert H Singer|David L Stern Janelia Howard Hughes Medical Institute;|Janelia Research Campus
http://dx.doi.org/10.1101/127936 2017-04-18 Molecular Biology CC BY-NC-ND Autogenous Cross-Regulation Of Quaking mRNA Processing And Translation Balances Quaking Functions In Splicing And Translation W. Samuel Fagg|Manuel Ares University of California Santa Cruz
http://dx.doi.org/10.1101/128199 2017-04-18 Cancer Biology CC BY-NC Estimating Autoantibody Signatures To Detect Autoimmune Disease Patient Subsets Zhenke Wu|Livia Casciola-Rosen|Ami A. Shah|Antony Rosen|Scott L. Zeger Department of Biostatistics, University of Michigan;|Johns Hopkins University School of Medicine;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/128207 2017-04-18 Molecular Biology CC BY-ND Profiling Of Lysine-Acetylated Proteins In Human Urine Weiwei Qin|Zhenhuan Du|He Huang|Youhe Gao Beijing Normal University;|Beijing Normal Universtiy
http://dx.doi.org/10.1101/128074 2017-04-18 Neuroscience CC BY-NC Differential gene expression in populations of sympathetic neurons purified from a neuropeptide Y reporter mouse Kristine M. Sikora|Paul H.M. Kullmann|John P. Horn University of Colorado Denver;|University of Pittsburgh
http://dx.doi.org/10.1101/128173 2017-04-18 Pharmacology and Toxicology Effects Of Δ9-THC And Cannabidiol Vapor Inhalation In Male And Female Rats Mehrak Javadi-Paydar|Jacques D Nguyen|Yanabel Grant|Sophia A Vandewater|Maury Cole|Michael A Taffe The Scripps Research Institute;|La Jolla Alcohol Research, Inc
http://dx.doi.org/10.1101/128298 2017-04-18 Microbiology CC BY-NC Aging, Mortality And The Fast Growth Trade-Off Of Schizosaccharomyces pombe Hidenori Nakaoka|Yuichi Wakamoto University of Tokyo
http://dx.doi.org/10.1101/128090 2017-04-18 Molecular Biology Regulatory RNPs: A novel class of ribonucleoproteins that contribute to ribosome heterogeneity Aaron R. Poole|Ian Vicino|Hiro Adachi|Yi-Tao Yu|Michael D. Hebert University of Mississippi Medical Center, United States;|University of Rochester Medical Center, United States
http://dx.doi.org/10.1101/128041 2017-04-17 Biophysics A model for autonomous and non-autonomous effects of the Hippo pathway in Drosophila Jia Gou|Lin Lin|Hans G Othmer University of Minnesota;|University of MInnesota
http://dx.doi.org/10.1101/128413 2017-04-18 CC BY Anticipated effects of an open access policy at a private foundation Eesha Khare|Carly Strasser Harvard University;|Gordon and Betty Moore Foundation
http://dx.doi.org/10.1101/128405 2017-04-18 CC BY-NC-ND Modeling Zika Virus Congenital Eye Disease: Differential Susceptibility of Fetal Retinal Progenitor Cells and iPSC-Derived Retinal Stem Cells to Zika Virus Infection Deisy Contreras|Melissa Jones|Laura E Martinez|Vineela Gangalapudi|Jie Tang|Ying Wu|Jiagang J. Zhao|Zhaohui Chen|Shaomei Wang|Vaithilingaraja Arumugaswami Cedars Sinai Medical Center;|Alpine Biotech LLC;|Shiley Eye Institute
http://dx.doi.org/10.1101/128314 2017-04-18 A Posteriori Evaluation Of Molecular Divergence Dates Using Empirical Estimates Of Time-Heterogeneous Fossilization Rates Simon Gunkel|Jes Rust|Torsten Wappler|Christoph Mayer|Oliver Niehuis|Bernhard Misof University of Bonn;|Hessisches Landesmuseum Darmstadt;|ZMFK;|University Freiburg
http://dx.doi.org/10.1101/128439 2017-04-18 CC BY-NC-ND Not by systems alone: identifying functional outliers in rare disease pedigrees Sara Ballouz|Max Doerfel|Jonathan Crain|Megan Crow|Laurence Faivre|Catherine E Keegan|Sophia Kitsiou-Tzeli|Maria Tzetis|Gholson J Lyon|Jesse Gillis Cold Spring Harbor Laboratory;|Universite Bourgogne Franche-Comte;|University of Michigan;|National Kapodistrian University of Athens
http://dx.doi.org/10.1101/128272 2017-04-18 Genomics CC BY-NC-ND The genetic legacy of Zoroastrianism in Iran and India: Insights into population structure, gene flow and selection. Saioa Lopez|Mark G Thomas|Lucy van Dorp|Naser Ansari-Pour|Sarah Stewart|Abigail L Jones|Erik Jelinek|Lounes Chikhi|Tudor Parfitt|Neil Bradman|Michael E Weale|Garrett Hellenthal Dept. Genetics, Evolution & Environment, University College London;|Faculty of New Sciences and Technology, University of Tehran;|The School of Oriental and African Studies (SOAS), University of London;|Liverpool Women's Hospital;|CNRS, Universite Paul Sabatier;|Florida International University;|Henry Stewart Group;|Dept. Medical & Molecular Genetics, King's College London
http://dx.doi.org/10.1101/127985 2017-04-18 Bioinformatics CC BY-NC-ND ConsensusDriver Improves Upon Individual Algorithms For Predicting Driver Alterations In Different Cancer Types And Individual Patients — A Toolbox For Precision Oncology Denis Bertrand|Sibyl Drissler|Burton Chia|Jia Yu Koh|Chenhao Li|Chayaporn Suphavilai|Iain Beehuat Tan|Niranjan Nagarajan Genome Institue of Singapore;|Genome Institute of Singapore, University of British Columbia;|Genome Institute of Singapore;|Genome Institute of Singapore, National University of Singapore;|Genome Institute of Singapore, National Cancer Centre Singapore
http://dx.doi.org/10.1101/128124 2017-04-18 Neuroscience CC BY-NC-ND Defects of myelination are common pathophysiology in syndromic and idiopathic autism spectrum disorders BaDoi Nguyen Phan|Stephanie Cerceo Page|Morganne N Campbell|Joseph F Bohlen|Courtney L Thaxton|Jeremy M Simon|Emily E Burke|Joo Heon Shin|Andrew J. Kennedy|J. David Sweatt|Benjamin D. Philpot|Andrew E. Jaffe|Brady J. Maher Lieber Institute for Brain Development;|University of North Carolina;|Bates College;|Vanderbilt University
http://dx.doi.org/10.1101/128330 2017-04-18 Genomics CC BY-ND Red Blood Cell Distribution Width: genetic evidence for aging pathways in 116,666 volunteers Luke C Pilling|Janice L Atkins|Michael O Duff|Robin N Beaumont|Samuel E Jones|Jessica Tyrrell|Chia-Ling Kuo|Katherine S Ruth|Marcus A Tuke|Hanieh Yaghootkar|Rachel M Freathy|Andrew R Wood|Anna Murray|Michael N Weedon|Lorna W Harries|George A Kuchel|Luigi Ferrucci|Timothy M Frayling|David Melzer University of Exeter;|University of Connecticut Health Center;|University of Connecticut Health;|University of Connecticut;|National Institute on Aging
http://dx.doi.org/10.1101/127506 2017-04-18 Genetics CC BY-NC-ND Highly efficient DNA-free gene disruption in the agricultural pest Ceratitis capitata by CRISPR-Cas9 RNPs Angela Meccariello|Simonmaria Monti|Alessandra Romanelli|Rita Colonna|Paquale Primo|Maria Grazia Inghilterra|Giuseppe Del Corsano|Antonio Ramaglia|Giovanni Iazzetti|Antonia Chiarore|Francesco Patti|Svenia Dilara Heinze|Marco Salvemini|Helen Lindsay|Elena Chiavacci|Alexa Burger|Mark Robinson|Christian Mosimann|Daniel Bopp|Giuseppe Saccone Department of Biology, University of Naples Federico II;|Institute of Biostructure and Bioimaging (IBB-CNR));|Department of Pharmacy, University of Naples Federico II;|Department of Physics E. Pancini, University of Naples Federico II;|Stazione Zoologica Anton Dohrn, Center Villa Dohrn for Benthic Ecology;|Institute of Molecular Life Sciences, University of Zurich
http://dx.doi.org/10.1101/126664 2017-04-18 Bioinformatics NetREX: Network Rewiring using EXpression - Towards Context Specific Regulatory Networks Yijie Wang|Dong-Yeon Cho|Hangnoh Lee|Brian Oliver|Teresa M Przytycka NCBI/NLM/NIH;|NIDDK/NIH
http://dx.doi.org/10.1101/128264 2017-04-18 Biochemistry CC BY-NC-ND Glutathione And Thioredoxin Systems Of The Malaria Parasite Plasmodium falciparum: Partners In Crime? Rahul Chaudhari|Shobhona Sharma|Swati Patankar Tata Institute of Fundamental Research;|Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/128348 2017-04-18 Genomics Improved de novo Genome Assembly: Synthetic long read sequencing combined with optical mapping produce a high quality mammalian genome at relatively low cost David W Mohr|Ahmed Naguib|Neil Weisenfeld|Vijay Kumar|Preyas Shah|Deanna M Church|David Jaffe|Alan F Scott Johns Hopkins University;|BioNano Genomics;|10X Genomics;|The Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/128371 2017-04-18 Plant Biology CC BY-ND The G-box transcriptional regulatory code in Arabidopsis Daphne Ezer|Samuel JK Shepherd|Anna Brestovitsky|Patrick Dickinson|Sandra Cortijo|Varodom Charoensawan|Mathew S Box|Surojit Biswas|Philip Wigge Sainsbury Laboratory, University of Cambridge;|Mahidol University, Bangkok 10400, Thailand
http://dx.doi.org/10.1101/127258 2017-04-18 Animal Behavior and Cognition CC BY Wall following in Xenopus laevis is passive Sara Hanzi|Hans Straka Biology II, Ludwig-Maximilians-Universität München
http://dx.doi.org/10.1101/128322 2017-04-18 Neuroscience CC BY-NC Relative Electrical Conductivity Measurements Of The Rat Frontal Cortex And The Influence On Current Source Density Yevgenij Yanovsky|Jurij Brankack University Heidelberg
http://dx.doi.org/10.1101/128223 2017-04-18 Bioinformatics CC BY-NC-ND Predicting Protein Binding Affinity With Word Embeddings And Recurrent Neural Networks Carlo Mazzaferro Center for Computational Biology and Bioinformatics
http://dx.doi.org/10.1101/126839 2017-04-18 Genomics Evaluation of pre-analytical factors affecting plasma DNA analysis Havell Markus|Tania Contente-Cuomo|Winnie S Liang|Mitesh J Borad|Shivan Sivakumar|Simon Gollins|Nhan L Tran|Harshil D Dhruv|Michael E Berens|Alan Bryce|Aleksandar Sekulic|Antoni Ribas|Jeffrey M Trent|Patricia M LoRusso|Muhammed Murtaza Translational Genomics Research Institute;|Mayo Clinic;|University of Oxford;|North Wales Cancer Treatment Centre;|University of California Los Angeles Jonsson Comprehensive Cancer Center;|Yale University;|Translational Genomics Research Institute and Mayo Clinic
http://dx.doi.org/10.1101/128306 2017-04-18 Bioinformatics CC BY-NC-ND Detecting Gene Subnetworks Under Selection In Biological Pathways Alexandre Gouy|Josephine T. Daub|Laurent Excoffier University of Berne;|Universitat Pompeu Fabra, Barcelona
http://dx.doi.org/10.1101/127977 2017-04-18 Plant Biology CC BY-NC-ND Environmental Conditions And Agronomic Practices Induce Consistent Global Changes In DNA Methylation Patterns In Grapevine (Vitis vinifera cv Shiraz) Huahan Xie|Moumouni Konate|Na Sai|Kiflu Gebremicael Tesfamicael|Timothy Cavagnaro|Matthew Gilliham|James Breen|Andrew Metcalfe|Roberta DeBei|Cassandra Collins|Carlos M Rodriguez Lopez University of Adelaide
http://dx.doi.org/10.1101/128231 2017-04-18 Bioinformatics Large-Scale Structure Prediction By Improved Contact Predictions And Model Quality Assessment Mirco Michel|David Menendez Hurtado|Karolis Uziela|Arne Elofsson Science for Life Laboratory and Dept. of Biochemistry and Biophysics, Stockholm University
http://dx.doi.org/10.1101/128637 2017-04-19 Genomics Comparative Genomics Shows That Viral Integrations Are Abundant And Express piRNAs In The Arboviral Vectors Aedes aegypti And Aedes albopictus Umberto Palatini|Pascal Miesen|Rebeca Carballar-Lejarazu|Lino Ometto|Ettore Rizzo|Zhijian Tu|Ronald van Rij|Mariangela Bonizzoni University of Pavia;|Radboud University Medical Center;|Independent Researcher;|Engenome;|Virginia Tech
http://dx.doi.org/10.1101/128553 2017-04-19 Zoology NOTES ON THE BIOMETRY, ORIENTATION AND SPATIAL LOCALIZATION OF THE NESTS OF THE GLOBALLY NEAR-THREATENED STRAIGHT-BILLED REEDHAUNTER (LIMNOCTITES RECTIROSTRIS) Maycon Sanyvan Sigales Goncalves|Priscila dos Santos Pons|Christian Borges Andretti|Felipe Castro Bonow Instituto Pro-Pampa;|Museu de Ciencias e Tecnologia, Pontificia Universidade Catolica do Rio Grande do Sul
http://dx.doi.org/10.1101/128512 2017-04-19 Bioinformatics CC BY-NC Pheniqs: Fast and flexible quality-aware sequence demultiplexing Lior Galanti|Dennis Shasha|Kristin Gunsalus New York University
http://dx.doi.org/10.1101/128165 2017-04-19 Neuroscience CC BY-NC-ND White matter alterations at pubertal onset Sila Genc|Marc L Seal|Thijs Dhollander|Charles B Malpas|Philip Hazell|Tim Silk The University of Melbourne;|Murdoch Childrens Research Institute;|The Florey Institute of Neuroscience and Mental Health;|The University of Sydney
http://dx.doi.org/10.1101/128561 2017-04-19 Biophysics CC BY-NC-ND A multi-model approach to assessing local and global cryo-EM map quality Mark A Herzik|James Fraser|Gabriel C Lander The Scripps Research Institute;|University of California, San Francisco
http://dx.doi.org/10.1101/128686 2017-04-19 Genomics Beyond The Linear Genome: Comprehensive Determination Of The Endogenous Circular Elements In C. elegans And Human Genomes Via An Unbiased Genomic-Biophysical Method Massa Shoura|Idan Gabdank|Loren Hansen|Jason Merker|Jason Gotlib|Stephen Levene|Andrew Fire Stanford University School of Medicine, United States;|University of Texas at Dallas, United States
http://dx.doi.org/10.1101/128611 2017-04-19 Neuroscience Spiking Resonances In Models With The Same Slow Resonant And Fast Amplifying Currents But Different Subthreshold Dynamic Properties Horacio G. Rotstein New Jersey Institute of Technology
http://dx.doi.org/10.1101/128249 2017-04-19 Neuroscience Non-monotonic spatial structure of interneuronal correlations in prefrontal microcircuits Shervin Safavi|Abhilash Dwarakanath|Vishal Kapoor|Joachim Werner|Nicholas G Hatsopoulos|Nikos K Logothetis|Theofanis I Panagiotaropoulos Max Planck Institute for Biological Cybernetics;|University of Chicago
http://dx.doi.org/10.1101/128538 2017-04-19 Bioengineering CC BY-NC-ND Amplified visual immunosensor integrated with nanozyme for ultrasensitive detection of avian influenza virus Syed Rahin Ahmed|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/128710 2017-04-19 Neuroscience CC BY-NC-ND The Effect Of Perinatal Brain Injury On Dopaminergic Function And Hippocampal Volume In Adult Life Sean Froudist-Walsh|Michael AP Bloomfield|Mattia Veronese|Jasmin Kroll|Vyacheslav Karolis|Sameer Jauhar|Ilaria Bonoldi|Philip K McGuire|Shitij Kapur|Robin M Murray|Chiara Nosarti|Oliver Howes Icahn School of Medicine at Mount Sinai;|University College London;|King's College London;|Imperial College London
http://dx.doi.org/10.1101/128496 2017-04-19 Systems Biology CC BY-NC Efficient And Accurate Causal Inference With Hidden Confounders From Genome-Transcriptome Variation Data Lingfei Wang|Tom Michoel University of Edinburgh
http://dx.doi.org/10.1101/128504 2017-04-19 Bioengineering CC BY-NC-ND Recent Advancement in Biosensors Technology for Animal and Livestock Health Management Suresh Neethirajan|Sheng-Tung Huang|Satish Tuteja|David Kelton University of Guelph;|National Taipei University of Technology, Taiwan
http://dx.doi.org/10.1101/128645 2017-04-19 Neuroscience CC BY A Comprehensive Assessment Of Reproducibility Of R-fMRI Metrics On The Impact Of Different Strategies For Multiple Comparison Correction And Small Sample Size Xiao Chen|Bin Lu|Chao-Gan Yan CAS Key Laboratory of Behavioral Science, Institute of Psychology, Beijing, China
http://dx.doi.org/10.1101/128728 2017-04-19 Genetics CC BY Leveraging The Resolution Of RNA-Seq Markedly Increases The Number Of Causal eQTLs And Candidate Genes In Human Autoimmune Disease Christopher A Odhams|Deborah S Cunninghame Graham|Timothy J Vyse King's College London
http://dx.doi.org/10.1101/128629 2017-04-19 Microbiology CC BY-NC Characterisation Of Trichuris muris Secreted Proteins And Extracellular Vesicles Provides New Insights Into Host-Parasite Communication Ramon M Eichenberger|Md Hasanuzzaman Talukder|Matt Field|Phurpa Wangchuk|Paul Giacomin|Alex Loukas|Javier Sotillo James Cook University;|Bangladesh Agricultural University
http://dx.doi.org/10.1101/128603 2017-04-19 Molecular Biology Effects of the glucocorticoid drug prednisone on urinary proteome and candidate biomarkers Jianqiang Wu|Xundou Li|Manxia An|Youhe Gao Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences;|School of Life Sciences, Beijing Normal University
http://dx.doi.org/10.1101/128579 2017-04-19 Bioinformatics CC BY-NC Lineage: Visualizing Multivariate Clinical Data in Genealogy Graphs Carolina Nobre|Nils Gehlenborg|Hilary Coon|Alexander Lex University of Utah;|Harvard Medical School
http://dx.doi.org/10.1101/128587 2017-04-19 Bioinformatics Highly sensitive detection of small variants in multi-sample ultra-deep tumor sequencing Raul Rabadan|Sonia Marsilio|Nicholas Chiorazzi|Laura Pasqualucci|Hossein Khiabanian Columbia University;|The Feinstein Institute for Medical Research;|Rutgers University
http://dx.doi.org/10.1101/128595 2017-04-19 Cell Biology CC BY Cell-intrinsic activation of Orai1 regulates human T cell motility Tobias X. Dong|Milton L. Greenberg|Sabrina Leverrier|Ying Yu|Ian Parker|Joseph L. Dynes|Michael D. Cahalan University of California, Irvine, United States
http://dx.doi.org/10.1101/128991 2017-04-19 High sensitivity quantitative proteomics using accumulated ion monitoring and automated multidimensional nano-flow chromatography Paolo Cifani|Alex Kentsis MSKCC
http://dx.doi.org/10.1101/121848 2017-04-19 CC BY The ubiquity of directional and reciprocating motion in enzymes out of equilibrium David R Slochower|Michael K Gilson University of California, San Diego
http://dx.doi.org/10.1101/120238 2017-04-19 Population Genetics Based Phylogenetics Under Stabilizing Selection for an Optimal Amino Acid Sequence: A Nested Modeling Approach Jeremy Beaulieu|Brian O'Meara|Russell Zaretzki|Cedric Landerer|Juanjuan Chai|Michael Gilchrist Dept. of Biology, University of Arkansas;|Dept. of Ecology & Evolutionary Biology, University of Tennessee Knoxville;|Dept. of Business Analytics & Statistics, University of Tennessee Knoxville;|Dept. of Ecology & Evolutionary Biology, University of Tennessee;|N/A
http://dx.doi.org/10.1101/128884 2017-04-19 Ecology Structure and function of the bacterial and fungal gut flora of Neotropical butterflies Alison Ravenscraft|Michelle Berry|Tobin Hammer|Kabir Peay|Carol Boggs Stanford University;|University of Colorado Boulder;|University of South Carolina
http://dx.doi.org/10.1101/128777 2017-04-19 Evolutionary Biology CC BY-NC-ND Like Sugar in Milk: Reconstructing the genetic history of the Parsi population Gyaneshwer Chaubey|Qasim Ayub|Niraj Rai|Satya Prakash|Veena Mushrif-Tripathy|Massimo Mezzavilla|Ajai Kumar Pathak|Rakesh Tamang|Sadaf Firasat|Maere Reidla|Monika Karmin|Deepa Selvi Rani|Alla G Reddy|Juri Parik|Ene Metspalu|Siiri Rootsi|Kurush Dalal|Sagufta Khaliq|Syed Qasim Mehdi|Lalji Singh|Mait Metspalu|Toomas Kivisild|Chris Tyler-Smith|Richard Villems|Kumarasamy Thangaraj Estonian Biocentre;|Sanger Institute, UK;|CSIR-CCMB, Hyderabad, India;|Deccan College, Pune, India;|Estonian Biocentre, Estonia;|University of Kolkata, India;|Centre for Human Genetics and Molecular Medicine, Karachi, Pakistan;|University of Mumbai, India;|University of Health Science, Lahore;|Centre for Human Genetics, Karachi, Pakistan;|Genome Foundation, India;|University of Cambridge, UK;|CSIR-CCMB Hyderabad, India
http://dx.doi.org/10.1101/128876 2017-04-19 Microbiology CC BY-NC-ND Pathogenesis of Zika Virus Infection via Rectal Route Laura E. Martinez|Gustavo Garcia|Deisy Contreras|Danyang Gong|Ren Sun|Vaithilingaraja Arumugaswami Cedars-Sinai Medical Center;|University of California Los Angeles
http://dx.doi.org/10.1101/128660 2017-04-19 Microbiology CC BY-NC-ND Vitamin and amino acid auxotrophy in anaerobic consortia operating under methanogenic condition Valeria Hubalek|Moritz Buck|BoonFei Tan|Julia Foght|Anneli Wendeberg|David Berry|Stefan Bertilsson|Alexander Eiler Uppsala University;|Singapore-MIT;|University of Alberta;|Centre for Environmental Research;|University of Vienna
http://dx.doi.org/10.1101/128819 2017-04-19 Microbiology CC BY-NC-ND The complex quorum sensing circuitry of Burkholderia thailandensis is both hierarchically and homeostatically organized Servane Le Guillouzer|Marie-Christine Groleau|Eric Deziel INRS-IAF
http://dx.doi.org/10.1101/128843 2017-04-19 Bioinformatics CC BY Slingshot: Cell lineage and pseudotime inference for single-cell transcriptomics Kelly Street|Davide Risso|Russell B Fletcher|Diya Das|John Ngai|Nir Yosef|Elizabeth Purdom|Sandrine Dudoit University of California, Berkeley;|Weill Cornell Medicine
http://dx.doi.org/10.1101/128744 2017-04-19 Neuroscience CC BY Does tobacco abstinence decrease reward sensitivity? A human laboratory test John R Hughes|Alan J Budney|Sharon R Muellers|Dustin C Lee|Peter W Callas|Stacey C Sigmon|James R Fingar|Jeff Priest University of Vermont;|Geisel School of Medicine at Dartmouth
http://dx.doi.org/10.1101/128801 2017-04-19 Systems Biology An Integrated Mechanistic Model of Pan-Cancer Driver Pathways Predicts Stochastic Proliferation and Death Mehdi Bouhaddou|Anne Marie Barrette|Rick J Koch|Matthew S DiStefano|Eric A Riesel|Alan D Stern|Luis C Santos|Annie Tan|Alex Mertz|Marc R Birtwistle Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/128520 2017-04-19 Genomics CC BY-NC-ND Integrative Single-Cell Analysis By Transcriptional And Epigenetic States In Human Adult Brain Blue Lake|Song Cheng|Brandon Sos|Jean Fan|Yun Yung|Gwendolyn Kaeser|Thu Duong|Derek Gao|Jerold Chun|Peter Kharchenko|Kun Zhang UCSD;|Harvard University;|Sanford Burnham Prebys Medical Discovery Institute
http://dx.doi.org/10.1101/128751 2017-04-19 Genetics Low mitochondrial diversity in native Italian pig breeds is consistent with the occurrence of strong population bottlenecks Joanna Kubejko|Marcel Amills|Fabio Pilla|Maria Silvia D'Andrea|Alex Clop Center for Research in Agricultural Genomics;|Universita degli Studi del Molise
http://dx.doi.org/10.1101/128827 2017-04-19 Cell Biology PHOSPHATASE-REGULATED RECRUITMENT OF THE SPINDLE AND KINETOCHORE ASSOCIATED (SKA) COMPLEX TO KINETOCHORES Sushama Sivakumar|Gary J Gorbsky Oklahoma Medical Research Foundation
http://dx.doi.org/10.1101/128678 2017-04-19 Neuroscience CC BY Dissociating frontoparietal brain networks with neuroadaptive Bayesian optimization Romy Lorenz|Ines R Violante|Ricardo Pio Monti|Giovanni Montana|Adam Hampshire|Robert Leech Imperial College London;|King's College London
http://dx.doi.org/10.1101/128736 2017-04-19 Molecular Biology Improved DOP-PCR (iDOP-PCR): a robust and simple WGA method for efficient amplification of low copy number genomic DNA Konstantin Blagodatskikh|Vladimir Kramarov|Ekaterina Barsova|Alexey Garkovenko|Dmitriy Shcherbo|Andrew Shelenkov|Vera Ustinova|Maria Tokarenko|Simon Baker|Tatiana Kramarova|Konstantin Ignatov All-Russia Institute of Agricultural Biotechnology, Russian Academy of Sciences, Moscow, Russia;|Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia;|Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, Moscow, Russi;|Syntol JSC, Moscow, Russia;|Evrogen JSC, Moscow, Russia;|Bioline Ltd, London, UK;|Anocca AB
http://dx.doi.org/10.1101/129114 2017-04-20 Principles for models of neural information processing Kendrick Kay|Kevin Weiner University of Minnesota;|Stanford University
http://dx.doi.org/10.1101/126268 2017-04-20 CC BY STRT-seq-2i: dual-index 5ʹ single cell and nucleus RNA-seq on an addressable microwell array Hannah Hochgerner|Peter Lannerberg|Rebecca Hodge|Jaromir Mikes|Abeer Heskol|Herman Hubschle|Philip Lin|Simone Picelli|Gioele La Manno|Michael Ratz|Jude Dunne|Syed Husain|Ed Lein|Maithreyan Srinivasan|Amit Zeisel|Sten Linnarsson Karolinska Institutet;|Allen Institute for Brain Science;|Science for Life Laboratory;|WaferGen Biosystems Inc.
http://dx.doi.org/10.1101/129106 2017-04-20 CC BY-NC-ND Dissecting telomere maintenance mechanisms in pediatric glioblastoma Katharina I. Deeg|Inn Chung|Alexandra M. Poos|Delia M. Braun|Andrey Korshunov|Marcus Oswald|Nick Kepper|Sebastian Bender|David Castel|Peter Lichter|Jacques Grill|Stefan M. Pfister|Rainer Konig|David T. W. Jones|Karsten Rippe German Cancer Research Center (DKFZ);|Integrated Research and Treatment Center, Center for Sepsis Control and Care (CSCC), Jena University;|Institut Gustave Roussy, Universite Paris Sud;|German Cancer Research Center (DKFZ) & Bioquant Center
http://dx.doi.org/10.1101/128454 2017-04-20 CC BY-NC-ND Effects of Bisphenol A on Incidence and Severity of Cardiac Lesions in the NCTR-Sprague-Dawley Rat: A CLARITY-BPA Study Gear Robin|Jessica Kendziorski|Scott Belcher University of Cincinnati College of Medicine;|North Carolina State University
http://dx.doi.org/10.1101/128942 2017-04-20 Immunology Light Guided In-vivo Activation of Innate Immune Cells with Photocaged TLR 2/6 Agonist Keun Ah Ryu|Bethany McGonnigal|Troy Moore|Rock J Mancini|Aaron P Esser-Kahn University of California-Irvine
http://dx.doi.org/10.1101/128850 2017-04-20 Microbiology CC BY-NC-ND Microbial community assembly differs by mineral type in the rhizosphere Thea Whitman|Rachel Neurath|Adele Perera|Daliang Ning|Jizhong Zhou|Peter Nico|Jennifer Pett-Ridge|Mary Firestone Department of Soil Science, University of Wisconsin-Madison;|Department of Environmental Science Policy and Management, University of California-Berkeley;|School of Civil Engineering and Environmental Sciences, University of Oklahoma;|Earth and Environmental Sciences, Lawrence Berkeley National Laboratory;|Physical and Life Science Directorate, Lawrence Livermore National Laboratory
http://dx.doi.org/10.1101/128488 2017-04-20 Neuroscience CC BY-NC-ND Graphical models for functional connectivity networks: best methods and the autocorrelation issue Yunan Zhu|Ivor Cribben University of Alberta;|University of Alberta School of Business
http://dx.doi.org/10.1101/125070 2017-04-20 Neuroscience CC BY-NC-ND Rapid Sensing Of Volumetric Neural Activity Through Adaptive Remote Focusing Mantas Zurauskas|Oliver Barnstedt|Maria Frade-Rodriguez|Scott Waddell|Martin J. Booth University of Oxford
http://dx.doi.org/10.1101/124867 2017-04-20 Neuroscience Increasing Suppression Of Saccade-Related Transients Along The Human Visual Hierarchy Tal Golan|Ido Davidesco|Meir Meshulam|David M Groppe|Pierre Megevand|Erin M Yeagle|Matthew S Goldfinger|Michal Harel|Lucia Melloni|Charles E Schroeder|Leon Y Deouell|Ashesh D Mehta|Rafael Malach Hebrew University of Jerusalem;|New York University;|Weizmann Institute of Science;|Feinstein Institute for Medical Research; The Krembil Neuroscience Centre;|Hofstra Northwell School of Medicine; Feinstein Institute for Medical Research;|Max Planck Institute for Brain Research; New York University;|Columbia University College of Physicians and Surgeons; Nathan Kline Institute;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/129064 2017-04-20 Ecology Estimating Wildlife Vaccination Coverage Using Genetic Methods Freya Smith|Andrew Robertson|Graham C Smith|Peter Gill|Robbie A McDonald|Gavin Wilson|Richard Delahay APHA;|University of Oslo;|University of Exeter;|Biocensus Limited
http://dx.doi.org/10.1101/125054 2017-04-20 Systems Biology Long-Term Memory In The Migration Movements Of Enucleated Amoeba proteus Carlos Bringas|Iker Malaina|Alberto Perez-Samartin|Maria Dolores Boyano|Maria Fedetz|Gorka Perez-Yarza|Jesus Cortes|Ildefonso Martinez de la Fuente UPV/EHU;|“Lopez-Neyra”, CSIC;|IKERBASQUE;|CEBAS-CSIC Institute
http://dx.doi.org/10.1101/128769 2017-04-20 Neuroscience The rate of transient beta frequency events predicts impaired function across tasks and species Hyeyoung Shin|Robert Law|Shawn Tsutsui|Christopher I Moore|Stephanie R Jones Brown University
http://dx.doi.org/10.1101/129015 2017-04-20 Neuroscience CC BY-ND Integrative Structural Brain Network Analysis In Diffusion Tensor Imaging Moo K Chung|Jamie L Hanson|Nagesh Adluru|Andrew L Alexander|Richard J Davison|Seth D. Pollak University of Wisconsin-Madison;|University of Pittsburgh, Pittsburgh
http://dx.doi.org/10.1101/129072 2017-04-20 Cell Biology CC BY Human Rab GTPase- And Class V Myosin-Dependent Membrane Tethering In A Chemically Defined Reconstitution System Motoki Inoshita|Joji Mima Osaka University
http://dx.doi.org/10.1101/128934 2017-04-20 Microbiology CC BY High-resolution analysis of spatiotemporal virulence gene regulation during food-borne infection with Escherichia coli O157:H7 within a live host Daniel H Stones|Alexander GJ Fehr|Thekke P Madhavan|Kerstin Voelz|Anne Krachler University of Birmingham;|University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/128793 2017-04-20 Neuroscience CC BY Development of a Self-Report Measure of Reward Sensitivity: A Test in Current and Former Smokers John R Hughes|Peter W Callas|Jeff S Priest|Jean-Francois Etter|Alan J Budney|Stacey C Sigmon University of Vermont;|Institute of Global Health, University of Geneva;|Geisel School of Medicine
http://dx.doi.org/10.1101/129007 2017-04-20 Neuroscience Identification Of Animal Behavioral Strategy By Inverse Reinforcement Learning ~ Its Application To Thermotaxis In C. elegans ~ Shoichiro Yamaguchi|Honda Naoki|Muneki Ikeda|Yuki Tsukada|Shunji Nakano|Ikue Mori|Shin Ishii Kyoto University;|Nagoya University
http://dx.doi.org/10.1101/129023 2017-04-20 Evolutionary Biology CC BY-NC-ND Single-Virion Sequencing Of Lamivudine Treated HBV Populations Reveal Population Evolution Dynamics And Demographic History Yuan O Zhu|Pauline PK Aw|Paola Florez de Sessions|Shuzhen Hong|Lee Xian See|Lewis Z Hong|Andreas Wilm|Chen Hao Li|Stephane Hue|Seng Gee Lim|Niranjan Nagarajan|William F Burkholder|Martin Hibberd Genome Institute of Singapore;|Institute of Molecular and Cell Biology, Singapore;|London School of Hygiene and Tropical Medicine, UK;|National University Hospital, Singapore
http://dx.doi.org/10.1101/128959 2017-04-20 Cancer Biology CC BY Adaptive Therapy For Heterogeneous Cancer: Exploiting Space And Trade-Offs In Drug Scheduling Jill A. Gallaher|Pedro M. Enriquez-Navas|Kimberly A. Luddy|Robert A. Gatenby|Alexander R. A. Anderson H. Lee Moffitt Cancer Center
http://dx.doi.org/10.1101/128918 2017-04-20 Neuroscience Audio-visual synchrony and spatial attention enhance processing of dynamic visual stimulation independently and in parallel: a frequency-tagging study Amra Covic|Christian Keitel|Emanuele Porcu|Erich Schroger|Matthias M Muller Universität Göttingen;|University of Glasgow;|Universität Magdeburg;|Universität Leipzig
http://dx.doi.org/10.1101/128215 2017-04-20 Animal Behavior and Cognition CC BY-ND Sex Specific Molecular Responses Of Quick-To-Court In Indian Malarial Vector Anopheles culicifacies: Conflict Of Mating And/Or Blood Feeding? Tanwee Das De|Punita Sharma|Charu Rawal|Seena Kumari|Sanjay Tavetiya|Jyoti Yadav|Yasha Hasija|Rajnikant Dixit Host-Parasite Interaction Biology Group, National Institute of Malaria Research, Delhi;|Department of Biotechnology, Delhi Technological University
http://dx.doi.org/10.1101/128926 2017-04-20 Genomics CC BY The effect of common inversion polymorphisms In(2L)t and In(3R)Mo on patterns of transcriptional variation in Drosophila melanogaster Erik Lavington|Andrew D Kern Rutgers University, United States
http://dx.doi.org/10.1101/128983 2017-04-20 Genomics Conservation of single amino-acid polymorphisms in Plasmodium falciparum erythrocyte membrane protein 1 and association with severe pathophysiology Daniel Zinder|Mary M Rorick|Kathryn E Tiedje|Shazia Ruybal-Pesantez|Karen P Day|Mercedes Pascual University of Chicago;|The University of Melbourne, New York University;|University of Melbourne, New York University;|University of Chicago, Santa-Fe Institute
http://dx.doi.org/10.1101/128975 2017-04-20 Immunology CC BY-NC-ND Fine-mapping of genetic loci driving spontaneous clearance of hepatitis C virus infection Hailiang Huang|Priya Duggal|Chloe Thio|Rachel Latanich|James Goedert|Alessandra Mangia|Andrea Cox|Gregory Kirk|Shruti Mehta|Joel Blankson|Jasneet Aneja|Laurent Alric|Sharyne Donfield|Matthew Cramp|Salim Khakoo|Leslie Tobler|Michael Busch|Graeme Alexander|Hugo Rosen|Brian Edlin|Georg Lauer|David Thomas|Mark Daly|Raymond Chung|Arthur Kim Massachusetts General Hospital;|Johns Hopkins University Bloomberg School of Public Health;|Johns Hopkins University School of Medicine;|National Cancer Institute;|IRCCS Casa Sollievo della Sofferenza Hospital;|University of Toulouse III;|Rho;|Plymouth Hospitals NHS Trust;|Southampton General Hospital;|University of California;|Cambridge University Hospitals NHS Foundation Trust and Addenbrooke's Hospital;|University of Colorado;|State University of New York Downstate College of Medicine
http://dx.doi.org/10.1101/128900 2017-04-20 Physiology Reversal of cardiac and skeletal manifestations of Duchenne muscular dystrophy by cardiosphere-derived cells and their exosomes in mdx dystrophic mice and in human Duchenne cardiomyocytes Mark A Aminzadeh|Russell G Rogers|Kenneth Gouin|Mario Fournier|Rachel E Tobin|Xuan Guan|Martin K Childers|Allen M Andres|David J Taylor|Ahmed Ibrahim|Xiang-ming Ding|Angelo Torrente|Joshua I Goldhaber|Ronald A Victor|Roberta A Gottlieb|Michael Lewis|Eduardo Marban Cedars-Sinai Heart Institute;|Institute for Stem Cell and Regenerative Medicine, University of Washington;|UCLA Technology Center for Genomics & Bioinformatics;|Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/128967 2017-04-20 Evolutionary Biology CC BY-NC-ND Host population structure and treatment frequency maintain balancing selection on drug resistance Sarah Cobey|Edward B. Baskerville|Caroline Colijn|William Hanage|Christophe Fraser|Marc Lipsitch University of Chicago;|Imperial College London;|Harvard T.H. Chan School of Public Health;|University of Oxford
http://dx.doi.org/10.1101/129205 2017-04-20 CC BY-ND Identification of Genes under Purifying Selection in Human Cancers Robert A Mathis|Ethan S Sokol|Piyush B Gupta Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/127407 2017-04-20 Redundancy in synaptic connections enables neurons to learn optimally Naoki Hiratani|Tomoki Fukai University College London;|RIKEN Brain Science Institute
http://dx.doi.org/10.1101/129122 2017-04-20 CC BY-NC-ND Auxin Response Factors — output control in auxin biology Mark Roosjen|Sebastien Paque|Dolf Weijers Wageningen University
http://dx.doi.org/10.1101/129155 2017-04-20 Neuroscience Power and shift invariant detection of dynamically coupled networks (PSIICOS) from non-invasive MEG data Alexei Ossadtchi|Dmitriy Altukhov|Karim Jerbi Higher School of Economics;|University of Montreal
http://dx.doi.org/10.1101/128835 2017-04-20 CC BY Nanopore sequencing and assembly of a human genome with ultra-long reads Miten Jain|Sergey Koren|Josh Quick|Arthur C Rand|Thomas A Sasani|John R Tyson|Andrew D Beggs|Alexander T Dilthey|Ian T Fiddes|Sunir Malla|Hannah Marriott|Karen H Miga|Tom Nieto|Justin O'Grady|Hugh E Olsen|Brent S Pedersen|Arang Rhie|Hollian Richardson|Aaron Quinlan|Terrance P Snutch|Louise Tee|Benedict Paten|Adam M. Phillippy|Jared T Simpson|Nicholas James Loman|Matthew Loose UC Santa Cruz;|National Human Genome Research Institute, National Institutes of Health;|University of Birmingham;|University of Utah;|University of British Columbia;|National Human Genome Research Institute;|University of Nottingham;|University of East Anglia;|University of Colorado;|UCSC;|Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/129171 2017-04-20 Neuroscience CC BY Artificial pseudoneglect: Connectional constraints leading to the emergence of spatial bias in neurorobots Onofrio Gigliotta|Tal Seidel Malkinson|Orazio Miglino|Paolo Bartolomeo Department of Humanistic Studies, University of Naples Federico II, Naples, Italy;|Inserm U 1127
http://dx.doi.org/10.1101/129189 2017-04-20 Evolutionary Biology CC BY-NC-ND Geographic range dynamics drove ancient hybridization in a lineage of angiosperms Ryan A Folk|Clayton J Visger|Pamela S Soltis|Douglas E Soltis|Robert P Guralnick Florida Museum of Natural History, University of Florida;|Department of Biology, University of Florida
http://dx.doi.org/10.1101/129197 2017-04-20 Microbiology CC BY-NC-ND Sofosbuvir protects Zika virus-infected mice from mortality, preventing short- and long-term sequela Andre Ferreira|Camila Valle|Patricia Reis|Giselle Barbosa-Lima|Yasmine Vieira|Mayara Mattos|Priscila Silva|Carolina Sacramento|Hugo Neto|Loraine Campanati|Amilcar Tanuri|Karin Bruning|Fernando Bozza|Patricia Bozza|Thiago Moreno L. Souza Fiocruz;|UFRJ;|BMK consortium
http://dx.doi.org/10.1101/088443 2017-04-20 Neuroscience Role of somatostatin-positive cortical interneurons in the generation of sleep slow waves Giulio Tononi|Chiara Cirelli|Chadd M Funk|Kayla Peelman|Michele Bellesi|William Marshall University of Wisconsin - Madison
http://dx.doi.org/10.1101/129163 2017-04-20 Systems Biology CC BY Genomics of cellular proliferation under periodic stress Jerome Salignon|Magali Richard|Etienne Fulcrand|Gael Yvert CNRS Ecole Normale Superieure de Lyon
http://dx.doi.org/10.1101/128785 2017-04-21 Neuroscience Single Molecule Fluorescence In Situ Hybridisation For Quantitating Post-Transcriptional Regulation In Drosophila Brains Lu Yang|Josh Titlow|Darragh Ennis|Carlas Smith|Jessica Mitchell|Florence L. Young|Scott Waddell|David Ish-Horowicz|Ilan Davis Department of Biochemistry, The University of Oxford;|Centre for Neural Circuits and Behaviour, The University of Oxford;|LMCB, University College, London
http://dx.doi.org/10.1101/108506 2017-04-21 Neuroscience Insular Cortex Mediates Approach And Avoidance Responses To Social Affective Stimuli Morgan M. Rogers|Juan Varela|Katherine B. Gribbons|Anne F. Pierce|Morgan T. McGoey|John Christianson Boston College
http://dx.doi.org/10.1101/129247 2017-04-21 Genomics Deciphering Variance In Epigenomic Regulators By k-mer Factorization Carl de Boer|Aviv Regev The Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/129403 2017-04-21 Ecology CC BY-ND River impoundments cause little change in fish boreal diversity, but clear species assemblage shifts Katrine Turgeon|Christian Turpin|Irene Gregory-Eaves McGill University;|Hydro-Quebec
http://dx.doi.org/10.1101/129312 2017-04-21 Genomics CC BY Base-Specific Mutational Intolerance Near Splice-Sites Clarifies Role Of Non-Essential Splice Nucleotides Sidi Zhang|Kaitlin E. Samocha|Manuel A. Rivas|Konrad J. Karczewski|Emma Daly|Ben Schmandt|Benjamin M. Neale|Daniel G. MacArthur|Mark J. Daly Harvard University;|Broad Institute of MIT and Harvard;|Massachusetts General Hospital
http://dx.doi.org/10.1101/129221 2017-04-21 Neuroscience Amygdala Input Differentially Influences Prefrontal Local Field Potential And Single Neuron Encoding Of Reward-Based Decisions Frederic M. Stoll|Clayton P. Mosher|Sarita Tamang|Elisabeth A. Murray|Peter H. Rudebeck Icahn School of Medicine at Mount Sinai;|National Institute of Mental Health, Laboratory of Neuropsychology
http://dx.doi.org/10.1101/129056 2017-04-21 Developmental Biology CC BY-NC-ND An Embryonic System To Assess Wnt Transcriptional Targets Jahnavi Suresh|Nathan Harmston|Ka Keat Lim|Prameet Kaur|Helen Jingshu Jin|Jay B. Lusk|Enrico Petretto|Nicholas S. Tolwinski Yale-NUS;|Duke-NUS;|Yale-NUS College;|Duke-NUS Medical School
http://dx.doi.org/10.1101/129395 2017-04-21 Genetics CC BY-ND A Standardized Framework For Representation Of Ancestry Data In Genomics Studies Joannella Morales|Emily H. Bowler|Annalisa Buniello|Maria Cerezo|Peggy Hall|Laura W. Harris|Emma Hastings|Heather A. Junkins|Cinzia Malangone|Aoife C. McMahon|Annalisa Milano|Danielle Welter|Tony Burdett|Fiona Cunningham|Paul Flicek|Helen Parkinson|Lucia Hindorff|Jacqueline A. L. MacArthur European Molecular Biology Laboratory, European Bioinformatics Institute;|National Human Genome Research Institute
http://dx.doi.org/10.1101/129254 2017-04-21 Genetics CC BY-NC-ND CRISPR-Cas9 Screens In Human Cells And Primary Neurons Identify Modifiers Of C9orf72 Dipeptide Repeat Protein Toxicity Michael S. Haney|Nicholas J. Kramer|David W. Morgens|Ana Jovicic|Julien Couthouis|Amy Li|James Ousey|Rosanna Ma|Gregor Bieri|Michael C. Bassik|Aaron D. Gitler Stanford University;|Genentech
http://dx.doi.org/10.1101/129148 2017-04-21 Genomics CC BY-NC Reconstructing The Gigabase Plant Genome Of Solanum pennellii Using Nanopore Sequencing Maximilian H.-W. Schmidt|Alxander Vogel|Alisandra Denton|Benjamin Istace|Alexandra Wormit|Henri van de Geest|Marie E. Bolger|Saleh Alseekh|Janina Mass|Christian Pfaff|Ulrich Schurr|Roger Chetelat|Florian Maumus|Jean-Marc Aury|Alisdair R. Fernie|Dani Zamir|Anthony M. Bolger|Bjoern Usadel RWTH Aachen University;|Commissariat a l'Energie Atomique et aux Energies Alternatives (CEA);|Wagenigen Plant Research;|Forschungszentrum Juelich;|MPI Molecular Plant Physiology;|C. M. Rick Tomato Genetics Resource Center, UC Davis;|French National Institute for Agricultural Research, UR1164 Research Unit in Genomics Info;|CEA/Genoscope;|Institute of Plant Sciences and Genetics in Agriculture, Hebrew University of Jerusalem
http://dx.doi.org/10.1101/129288 2017-04-21 Genetics CC BY-NC-ND Association Between Substance Use Disorder And Polygenic Liability To Schizophrenia Sarah Hartz|Amy C. Horton|Mary Oehlert|Caitlin E. Carey|Arpana Agrawal|Ryan Bogdan|Li-Shiun Chen|Dana B. Hancock|Eric O. Johnson|Carlos Pato|Michele Pato|John P. Rice|Laura J. Bierut Washington University School of Medicine in St. Louis;|Transmontane Analytics;|VA Eastern Kansas Health Care System;|Washington University in St. Louis;|RTI International;|SUNY Downstate Medical Center
http://dx.doi.org/10.1101/129346 2017-04-21 Evolutionary Biology With Our Powers Combined: Integrating Behavioral And Genetic Data To Estimate Mating Success And Sexual Selection Zoe Gauthey|Cedric Tentelier|Olivier Lepais|Arturo Elosegi|Laura Royer|Stephane Glise|Jacques Labonne INRA;|UPPA;|UPV Bilbao
http://dx.doi.org/10.1101/129577 2017-04-21 CC BY A chromatin extension model for insulator function based on comparison of high-resolution chromatin conformation capture and polytene banding maps Michael R Stadler|Michael B. Eisen University of California, Berkeley
http://dx.doi.org/10.1101/129528 2017-04-21 Ubiquitin and ATP-dependent unfoldase activity of P97/VCP·NPLOC4·UFD1L1 is enhanced by a mutation that causes multisystem proteinopathy Emily Blythe|Kristine Olson|Vincent Chau|Raymond Deshaies California Institute of Technology;|Pennsylvania State University College of Medicine
http://dx.doi.org/10.1101/128363 2017-04-21 CC BY Severe population collapses and species extinctions in multi-host epidemic dynamics Sergei Maslov|Kim Sneppen University of Illinois at Urbana-Champaign;|Niels Bohr Institute, Copenhagen University
http://dx.doi.org/10.1101/129270 2017-04-21 CC BY-NC-ND Components Of Alcohol Use And All-Cause Mortality Sarah Hartz|Mary Oehlert|Amy C. Horton|Richard Grucza|Sherri L. Fisher|Karl G. Nelson|Scott W. Sumerall|Chad Neal|Patrice Regnier|Guoqing Chen|Alexander Williams|Jagriti Bhattarai|Bradley Evanoff|Laura J. Bierut Washington University School of Medicine in St. Louis;|VA Eastern Kansas Health Care System;|Transmontane Analytics;|Washington University School of Medicine in St Louis;|Fargo VA Health Care System
http://dx.doi.org/10.1101/129387 2017-04-21 CC BY-NC Estimating Time Of HIV-1 Infection From Next-Generation Sequence Diversity Vadim Puller|Richard Neher|Jan Albert Biozentrum, University of Basel, Basel Switzerland;|Department of Microbiology, Tumor and Cell Biology, Karolinska Institute, Stockholm, Sweden
http://dx.doi.org/10.1101/129452 2017-04-21 CC BY Mashona Mole-Rat Automatic Individual Identification Based on the Mating Calls Veronika Dvorakova|Ladislav Ptacek|Ema Hrouzkova|Ludek Muller|Radim Sumbera University of South Bohemia, Faculty of Science, C.Budejovice, Czech Republic;|European Centre of Excellence, NTIS, Pilsen, Czech Republic
http://dx.doi.org/10.1101/129478 2017-04-21 CC BY-NC-ND Transcription factor activities enhance markers of drug response in cancer Luz Garcia-Alonso|Francesco Iorio|Angela Matchan|Nuno Fonseca|Patricia Jaaks|Fiamenta Falcone|Graham Bignell|Simon S McDade|Mathew J Garnett|Julio Saez-Rodriguez EMBL-EBI, Wellcome Genome Campus, Cambridge, UK;|Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge, UK;|Centre for Cancer Research and Cell Biology; Queen's University Belfast, Belfast, BT9 7BL, UK;|saezrodriguez@combine.rwth-aachen.de
http://dx.doi.org/10.1101/129494 2017-04-21 Tunneling through time: Horizontal gene transfer constrains the timing of methanogen evolution Joanna M. Wolfe|Gregory P. Fournier Massachusetts Institute of Technology
http://dx.doi.org/10.1101/129502 2017-04-21 CC BY-NC-ND Effects of mestranol on estrogen receptors expression in zebrafish Lianqiang Cheng|Xiaowen Wang|Shijun Li|Yongjun Liu|Zhengxin Guo Shanxi University
http://dx.doi.org/10.1101/129445 2017-04-21 CC BY-NC-ND Rational Design of Evolutionarily Stable Microbial Kill Switches Finn Stirling|Lisa Bitzan|John Oliver|Jeffrey Way|Pamela A. Silver Harvard Medical School
http://dx.doi.org/10.1101/129460 2017-04-21 CC BY-NC-ND Using genotype-environment associations to identify multilocus local adaptation Brenna R. Forester|Jesse R. Lasky|Helene H. Wagner|Dean L. Urban Duke University;|Penn State;|University of Toronto Mississauga
http://dx.doi.org/10.1101/129262 2017-04-21 Ecology CC BY-ND Allometric Derivation And Estimation Of Guadua weberbaueri And G. sarcocarpa Biomass In The Bamboo-Dominated Forests Of SW Amazonia Noah M. Yavit N/A
http://dx.doi.org/10.1101/129239 2017-04-21 Physiology CC BY-NC How Does Mixed Reality Affect Quiet Stance? Gaiqing Kong|Kunlin Wei|Konrad Paul Kording Shirley Ryan AbilityLab; Northwestern University; Peking University;|School of Psychological and Cognitive Sciences, Peking University;|Shirley Ryan AbilityLab; Northwestern University
http://dx.doi.org/10.1101/129411 2017-04-21 CC BY A novel role for Ets4 in axis specification and cell migration in the spider Parasteatoda tepidariorum Matthias Pechmann|Matthew Alan Benton|Nathan James Kenny|Nico Posnien|Siegfried Roth University of Cologne, Germany;|The Natural History Museum, London, Germany;|University Goettingen, Abteilung fuer Entwicklungsbiologie, GZMB, Justus-von-Liebig-Weg 11, United Kingdom
http://dx.doi.org/10.1101/129296 2017-04-21 Systems Biology CC BY-NC-ND System Identification Using Compressed Sensing Reveals Signaling-Decoding System By Gene Expression Takaho Tsuchiya|Masashi Fujii|Naoki Matsuda|Katsuyuki Kunida|Shinsuke Uda|Hiroyuki Kubota|Katsumi Konishi|Shinya Kuroda University of Tokyo;|Kyushu University;|Kogakuin University
http://dx.doi.org/10.1101/129361 2017-04-21 CC BY Bayesian Phylogenetic Analysis For Diploid And Allotetraploid Species Networks Graham R. Jones Gothenburg University
http://dx.doi.org/10.1101/129510 2017-04-22 Neuroscience CC BY-NC-ND Finger recruitment patterns during mirror movements suggest two systems for hand recovery after stroke Naveed Ejaz|Jing Xu|Meret Branscheidt|Benjamin Hertler|Heidi Schambra|Mario Widmer|Andreia V Faria|Michelle Harran|Juan Camilo Cortes|Nathan Kim|Tomoko Kitago|Pablo A Celnik|Andreas Luft|John W Krakauer|Jorn Diedrichsen Western University;|Johns Hopkins University;|University of Zurich;|Columbia University
http://dx.doi.org/10.1101/129593 2017-04-22 Neuroscience Distinct regulation of history-dependent responses by two cortical interneuron populations Elizabeth A. K. Phillips|Christoph E. Schreiner|Andrea R. Hasenstaub University of California, San Francisco
http://dx.doi.org/10.1101/129684 2017-04-22 Evolutionary footprints reveal insights into plant microRNA biogenesis Uciel Chorostecki|Belen Moro|Arantxa Rojas|Juan Debernardi|Arnaldo Schapire|Cedric Notredame|Javier F Palatnik Instituto de Biologia Molecular y Celular de Rosario (IBR);|Centre for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/129619 2017-04-22 Optimal structure of metaplasticity for adaptive learning Peyman Khorsand|Alireza Soltani Dartmouth College
http://dx.doi.org/10.1101/126961 2017-04-22 CC BY-ND Computational neuroanatomy of human stratum proprium of interparietal sulcus Maiko Uesaki|Hiromasa Takemura|Hiroshi Ashida Ritsumeikan University;|National Institute of Information and Communications Technology;|Kyoto University
http://dx.doi.org/10.1101/129643 2017-04-22 Neuroscience CC BY A mechanistic model of the spatial interaction between blue cones and blue cone bipolar cells in macaque retina Andreas V Lonborg|Stephen J Eglen University of Cambridge
http://dx.doi.org/10.1101/129627 2017-04-22 Biochemistry CC BY Disabling Cas9 by an anti-CRISPR DNA mimic Jiyung Shing|Fuguo Jiang|Jun-Jie Liu|Nicholas L Bray|Benjamin J Rauch|Seung Hyun Baik|Eva Nogales|Joseph Bondy-Denomy|Jacob E Corn|Jennifer A Doudna University of California, Berkeley;|University of California, San Francisco
http://dx.doi.org/10.1101/129601 2017-04-22 Immunology c-Maf-dependent regulatory T cells mediate immunological tolerance to intestinal microbiota Mo Xu|Maria Pokrovskii|Yi Ding|Ren Yi|Christy Au|Carolina Galan|Richard Bonneau|Dan R Littman New York University School of Medicine;|University of Rochester Medical Center;|NYU;|University of Massachusetts Medical Schoo
http://dx.doi.org/10.1101/129668 2017-04-22 Microbiology CC BY-NC-ND Pooled CRISPR interference screens enable high-throughput functional genomics study and elucidate new rules for guide RNA library design in Escherichia coli Tianmin Wang|Jiahui Guo|Changge Guan|Yinan Wu|Bing Liu|Zhen Xie|Chong Zhang|Xin-Hui Xing Department of Chemical Enigneering, Tsinghua University;|Beijing Syngentech Co., Ltd.;|Department of Automation, Tsinghua University
http://dx.doi.org/10.1101/129866 2017-04-23 Bioinformatics CC BY Stationary Analysis the Alternative Splicing Profile Reveals the Splicing Code Meng Li Harbin Engineering University
http://dx.doi.org/10.1101/129809 2017-04-23 Ecology CC BY The Relationship Of Survivorship And Body Mass Modeled By Metabolic And Vitality Theories James J. Anderson University of Washington
http://dx.doi.org/10.1101/129759 2017-04-23 Bioinformatics CC BY-NC-ND Using Neural Networks To Improve Single-Cell RNA-Seq Data Analysis Chieh Lin|Siddhartha Jain|Hannah Kim|Ziv Bar-Joseph Carnegie Mellon University
http://dx.doi.org/10.1101/129734 2017-04-23 Neuroscience CC BY-NC-ND Evaluating Methods of Correcting for Multiple Comparisons Implemented in SPM12 in Social Neuroscience fMRI Studies: An Example from Moral Psychology Hyemin Han|Andrea L Glenn University of Alabama
http://dx.doi.org/10.1101/129791 2017-04-23 Microbiology CC BY Nitrogen-Fixing Populations Of Planctomycetes And Proteobacteria Are Abundant In The Surface Ocean Tom O. Delmont|Christopher Quince|Alon Shaiber|Ozcan C. Esen|Sonny T. M. Lee|Sebastian Lucker|A. Murat Eren University of Chicago;|University of Warwick;|Radboud University
http://dx.doi.org/10.1101/129841 2017-04-23 Bioinformatics CC BY-ND The closed-loop pathways of signaling molecules Yang Liu The Hong Kong Polytechnic University
http://dx.doi.org/10.1101/129825 2017-04-23 Biophysics Matrix Production In Bacillus subtilis Biofilms Is Localized To A Propagating Front Siddarth Srinivasan|Ioana D. Vladescu|Stephan A. Koehler|Xiaoling Wang|Madhav Mani|Shmuel M. Rubinstein Harvard University;|Northwestern University
http://dx.doi.org/10.1101/129676 2017-04-23 Neuroscience Salience network dynamics underlying successful resistance of temptation Rosa Steimke|Jason S. Nomi|Vince D. Calhoun|Christine Stelzel|Lena M. Paschke|Robert Gaschler|Henrik Walter|Lucina Q. Uddin Charite Universitatsmedizin Berlin;|University of Miami;|The Mind Research Network;|FernUniversitat
http://dx.doi.org/10.1101/129767 2017-04-23 Systems Biology Quantitative Assessment Of Cell Fate Decision Between Autophagy And Apoptosis Bing Liu|Zoltan Oltvai|Hulya Bayir|Gary Silverman|Stephen Pak|David Perlmutter|Ivet Bahar University of Pittsburgh;|Washington University School of Medicine, St Louis
http://dx.doi.org/10.1101/130260 2017-04-24 Cancer Biology CC BY-NC-ND Agarose Floor Technique: A Simple Scaffold-Free Method For 3D Cell Culture And Multicellular Tumor Spheroids Formation Cesar Rivera Universidad de Talca
http://dx.doi.org/10.1101/129742 2017-04-24 CC BY-NC Genome-Wide Differential Gene Network Analysis R Software And Its Application In LnCap Prostate Cancer Gokmen Altay|David E. Neal La Jolla Institute for Allergy and Immunology;|Nuffield Department of Surgical Sciences, University of Oxford, OX3 7DQ, Oxford, UK
http://dx.doi.org/10.1101/130369 2017-04-24 CC BY-NC-ND Epistasis in genomic and survival data of cancer patients Dariusz Matlak|Ewa Szczurek University of Warsaw
http://dx.doi.org/10.1101/130393 2017-04-24 CC BY Characterisation of an antimicrobial and phytotoxic ribonuclease secreted by the fungal wheat pathogen Zymoseptoria tritici Graeme J Kettles|Carlos Bayon|Caroline Sparks|Gail Canning|Kostya Kanyuka|Jason J Rudd Rothamsted Research
http://dx.doi.org/10.1101/130385 2017-04-24 CC BY-ND Image Processing and Quality Control for the first 10,000 Brain Imaging Datasets from UK Biobank Fidel Alfaro-Almagro|Mark Jenkinson|Neal K Bangerter|Jesper LR Andersson|Ludovica Griffanti|Gwenaelle Douaud|Stamatios Sotiropoulos|Saad Jbabdi|Moises Hernandez Fernandez|Emmanuel Vallee|Diego Vidaurre|Matthew Webster|Paul D McCarthy|Chris Rorden|Alessandro Daducci|Daniel Alexander|Hui Zhang|Iulius Dragonu|Paul Matthews|Karla L Miller|Stephen M Smith University of Oxford;|Brigham Young University;|University of South Carolina;|University of Verona;|University College London;|Siemens Healthcare;|Imperial College
http://dx.doi.org/10.1101/130443 2017-04-24 CC BY-NC-ND HMMER Cut-off Threshold Tool (HMMERCTTER): Supervised Classification of Superfamily Protein Sequences with a reliable Cut-off Threshold Inti Anabela Pagnuco|Maria Victoria Revuelta|Hernan Gabriel Bondino|Marcel Brun|Arjen ten Have ICyTE, Facultad de Ingenieria, Universidad Nacional de Mar del Plata;|IIB-CONICET-UNMdP;|IIB-CONICET-Universidad Nacional de Mar del Plata, Argentina
http://dx.doi.org/10.1101/130419 2017-04-24 CC BY-NC-ND Statistically robust methylation calling for whole-transcriptome bisulfite sequencing reveals distinct methylation patterns for mouse RNAs Carine Legrand|Francesca Tuorto|Mark Hartmann|Reinhard Liebers|Dominik Jacob|Mark Helm|Frank Lyko German Cancer Research Center;|University of Mainz
http://dx.doi.org/10.1101/130344 2017-04-24 CC BY-NC-ND A practical guide to CRISPR/Cas9 genome editing in Lepidoptera Linlin Zhang|Robert Reed Cornell University
http://dx.doi.org/10.1101/130401 2017-04-24 CC BY Loss of MECP2 leads to telomere dysfunction and neuronal stress William E Lowry|Minori Ohashi|Peiyee Lee|Kai Fu|Benni Vargas|Denise E. Allen|Jessica K Cinkornpumin|Carlos Salas|Jennifer C Park|Igal Germanguz|Konstantinos Chronis|Edward Kuoy|Tao Wu|Kaixuan Lin|Andrew Xiao|Li Chen|Stephen Tran|Xinshu Xiao|Li Lin|Peng Jin|Matteo Pellegrini|Kathrin Plath UCLA;|University of California, Los Angeles;|MCDB, UCLA;|California State University, Northridge;|Yale;|Emory;|Emory University
http://dx.doi.org/10.1101/130054 2017-04-24 Genetics CC BY-NC-ND High-resolution mapping of heteroduplex DNA formed during UV-induced and spontaneous mitotic recombination events in yeast Yi Yin|Margaret Dominska|Eunice Yim|Thomas D Petes University of Washington;|Duke University;|University of North Carolina
http://dx.doi.org/10.1101/129551 2017-04-24 Neuroscience Synaptophysin is a β-Amyloid Target that Regulates Synaptic Plasticity and Seizure Susceptibility in an Alzhiemer's Model Daniel J Adams|Chong Shen|Josien Levenga|Tamara Basta|Stephen P. Eisenberg|James Mapes|Lukas Hampton|Kelly Grounds|Charles A Hoeffer|Michael H. B. Stowell CU Boulder;|Cu Boulder
http://dx.doi.org/10.1101/128116 2017-04-24 Genetics CC BY-NC-ND Whole Genome Sequencing of Pharmacogenetic Drug Response in Racially and Ethnically Diverse Children with Asthma Angel C.Y. Mak|Marquitta J. White|Zachary A. Szpiech|Walter L. Eckalbar|Sam S. Oh|Maria Pino-Yanes|Donglei Hu|Scott Huntsman|Joshua Galanter|Dara G. Torgerson|Ann Chen Wu|Blanca E. Himes|Soren Germer|Julia M. Vogel|Karen L. Bunting|Celeste Eng|Sandra Salazar|Kevin L. Keys|Thomas A. Nguyen|Pui-Yan Kwok|Albert M. Levin|Juan C. Celedon|Erick Forno|Hakon Hakonarson|Patrick M. Sleiman|Amber Dahlin|Kelan G. Tantisira|Scott T. Weiss|Denise Serebrisky|Emerita Brigino-Buenaventura|Harold J. Farber|Kelley Meade|Michael A. Lenoir|Pedro C. Avila|Saunak Sen|Shannon M. Thyne|William Rodriguez-Cintron|Cheryl A. Winkler|Andres Moreno-Estrada|Karla Sandoval|Jose R. Rodriguez-Santana|Rajesh Kumar|L. Keoki Williams|Nadav Ahituv|Elad Ziv|Max A. Seibold|Robert B. Darnell|Noah Zaitlen|Ryan D. Hernandez|Esteban G. Burchard University of California San Francisco;|Universidad de La Laguna;|Harvard Medical School;|University of Pennsylvania;|New York Genome Center;|Henry Ford Health System;|University of Pittsburgh School of Medicine;|The Children's Hospital of Philadelphia Research Institute;|Jacobi Medical Center;|Kaiser Permanente Vallejo Medical Center;|Baylor College of Medicine;|Children's Hospital and Research Center;|Bay Area Pediatrics;|Northwestern University;|University of California Los Angeles;|Veterans Caribbean Health Care System;|Frederick National Laboratory;|National Laboratory of Genomics for Biodiversity (UGALANGEBIO);|Centro de Neumologia Pediatria;|National Jewish Health
http://dx.doi.org/10.1101/130120 2017-04-24 Genetics A Versatile Genetic Tool For Post-Translational Control Of Gene Expression With A Small Molecule In Drosophila melanogaster Sachin Sethi|Jing W. Wang University of California, San Diego
http://dx.doi.org/10.1101/130351 2017-04-24 Neuroscience CC BY The neural representational space of social memory Sarah L. Dziura|James C. Thompson George Mason University
http://dx.doi.org/10.1101/130088 2017-04-24 Synthetic Biology CC BY Recombineering in Vibrio natriegens Henry H Lee|Nili Ostrov|Michaela A Gold|George M Church Harvard University;|Tufts University
http://dx.doi.org/10.1101/130336 2017-04-24 Bioinformatics Manifold Alignment Reveals Correspondence Between Single Cell Transcriptome and Epigenome Dynamics Joshua D. Welch|Alexander J. Hartemink|Jan F. Prins The University of North Carolina at Chapel Hill;|Duke University
http://dx.doi.org/10.1101/130021 2017-04-24 Neuroscience CC BY-NC-ND Dopaminergic Modulation Of Brain Signal Variability And The Functional Connectome During Cognitive Performance Mohsen Alavash|Sung-Joo Lim|Christiane Thiel|Bernhard Sehm|Lorenz Deserno|Jonas Obleser University of Luebeck;|University of Oldenburg;|Max Planck Institute for Human Cognitive and Brain Sciences
http://dx.doi.org/10.1101/129130 2017-04-24 Neuroscience CC BY-NC-ND The Neural Circuitry Of Emotion-Induced Distortions Of Trust Jan B. Engelmann|Friederike Meyer|Christian C. Ruff|Ernst Fehr University of Amsterdam;|University of Zurich
http://dx.doi.org/10.1101/130294 2017-04-24 Genomics Population size determines the type of nucleotide variations in humans Sankar Subramanian University of the Sunshine Coast
http://dx.doi.org/10.1101/130161 2017-04-24 Bioinformatics Protein Structural Disorder Of The Envelope V3 Loop Contributes To The Switch In Human Immunodeficiency Virus Type 1 Cell Tropism Xiaowei Jiang|Felix Feyertag|David L. Robertson University of Oxford;|University of Manchester
http://dx.doi.org/10.1101/130195 2017-04-24 Neuroscience CC BY-ND Dorsal Anterior Cingulate-Midbrain Ensemble As A Reinforcement Meta-Learner Massimo Silvetti|Eliana Vassena|Tom Verguts Ghent University;|Donders Institute
http://dx.doi.org/10.1101/130112 2017-04-24 Biophysics Optimal Information Transfer In Enzymatic Networks: A Field Theoretic Formulation Himadri Samanta|Michael Hinczewski|D. Thirumalai Department of Chemistry, The University of Texas at Austin;|Department of Physics, Case Western Reserve University
http://dx.doi.org/10.1101/130237 2017-04-24 Neuroscience CC BY A minority-ruled population coding of kinematics in the striatum Wahiba Taouali|Pavel E Rueda-Orozco|David Robbe INSERM;|Universidad Nacional Autónoma de México
http://dx.doi.org/10.1101/130062 2017-04-24 Animal Behavior and Cognition CC BY-NC-ND Late Bayesian inference in sensorimotor behavior Evan Remington|Mehrdad Jazayeri Massachusetts Institute of Technology
http://dx.doi.org/10.1101/129536 2017-04-24 Genetics A human huntingtin SNP alters post-translational modification and pathogenic proteolysis of the protein causing Huntington disease Dale D.O. Martin|Chris Kay|Jennifer A. Collins|Yen T. Nguyen|Ramy A. Slama|Michael R. Hayden University of British Columbia
http://dx.doi.org/10.1101/130229 2017-04-24 Genetics CC BY Genome-Wide Meta-Analyses Of Stratified Depression In Generation Scotland And UK Biobank Lynsey S. Hall|Mark J. Adams|Aleix Arnau-Soler|Toni-Kim Clarke|David M. Howard|Yanni Zeng|Gail Davies|Saskia P. Hagenaars|Ana Maria Fernandez-Pujals|Jude Gibson|Eleanor M. Wigmore|Thibaud S. Boutin|Caroline Hayward|David J. Porteous|Ian J. Deary|Pippa A. Thomson|Chris S. Haley|Andrew M. McIntosh Newcastle University;|University of Edinburgh
http://dx.doi.org/10.1101/130096 2017-04-24 Neuroscience CC BY Causal Evidence for Lateral Prefrontal Cortex Dynamics Supporting Cognitive Control Derek Evan Nee|Mark D'Esposito Florida State University, United States;|University of California, Berkeley, United States
http://dx.doi.org/10.1101/130104 2017-04-24 Cell Biology CC BY-NC-ND Dynactin Binding To Tyrosinated Microtubules Promotes Centrosome Centration In C. Elegans By Enhancing Dynein-Mediated Organelle Transport Daniel J. Barbosa|Joana Duro|Dhanya K. Cheerambathur|Bram Prevo|Ana X. Carvalho|Reto Gassmann IBMC;|LICR San Diego
http://dx.doi.org/10.1101/129379 2017-04-24 Genomics CC BY-NC Mapping And Phasing Of Structural Variation In Patient Genomes Using Nanopore Sequencing Mircea Cretu Stancu|Markus J. van Roosmalen|Ivo Renkens|Marleen Nieboer|Sjors Middelkamp|Joep de Ligt|Giulia Pregno|Daniela Giachino|Giorgia Mandrile|Jose Espejo Valle-Inclan|Jerome Korzelius|Ewart de Bruijn|Edwin Cuppen|Michael E. Talkowski|Tobias Marschall|Jeroen de Ridder|Wigard P. Kloosterman University Medical Center Utrecht;|University of Torino;|Massachusetts General Hospital and Harvard Medical School;|Max Planck Institute for Informatics
http://dx.doi.org/10.1101/129999 2017-04-24 Genetics CC BY-NC Position Effect Variegation In Natural Populations Not Explained By Common Variation In Known Modifiers Keegan J. P. Kelsey|Andrew G. Clark Cornell University
http://dx.doi.org/10.1101/130146 2017-04-24 Microbiology CC BY-NC-ND Extracellular Electron Transfer Powers Enterococcus faecalis Biofilm Metabolism Damien Keogh|Ling Ning Lam|Lucinda Doyle|Artur Matysik|Shruti Pavagadhi|Shivshankar Umashankar|Jennifer L. Dale|Chris B. Boothroyd|Gary M. Dunny|Sanjay Swarup|Rohan B. H. Williams|Enrico Marsili|Kimberly Kline Nanyang Technological University;|National University of Singapore;|University of Minnesota
http://dx.doi.org/10.1101/130138 2017-04-24 Genetics CC BY-ND Genomic Relatedness Strengthens Genetic Connectedness Across Management Units Haipeng Yu|Matthew L. Spangler|Ronald M. Lewis|Gota Morota University of Nebraska-Lincoln
http://dx.doi.org/10.1101/129908 2017-04-24 Biochemistry CC BY Unexpected sequences and structures of mtDNA required for efficient transcription from the first heavy-strand promoter Akira Uchida|Divakaran Murugesapillai|Yao Wang|Maria F. Lodeiro|Shaan Prabhakar|Jamie Arnold|L. James Maher|Mark C. Williams|Craig E Cameron The Pennsylvaina State University, United States;|Northeastern University, United States;|The Pennsylvania State University, United States;|Mayo Clinic College of Medicine and Science, United States
http://dx.doi.org/10.1101/129049 2017-04-24 Epidemiology Gestational Age At Birth And Risk Of Intellectual Disability Without A Common Genetic Cause: Findings From The Stockholm Youth Cohort Hein Heuvelman|Kathryn Abel|Susanne Wicks|Renee Gardner|Edward Johnstone|Brian Lee|Cecilia Magnusson|Christina Dalman|Dheeraj Rai University of Bristol;|University of Manchester;|Karolinska Institute;|Drexel University School of Public Health
http://dx.doi.org/10.1101/130070 2017-04-24 Genomics CC BY-ND Transcriptional decomposition reveals active chromatin architectures and cell specific regulatory interactions Sarah Rennie|Maria Dalby|Lucas van Duin|Robin Andersson University of Copenhagen
http://dx.doi.org/10.1101/130278 2017-04-24 Microbiology CC BY-NC-ND Modulation Of Type IV Pili Phenotypic Plasticity Through A Novel Chaperone-Usher System In Synechocystis sp 6803 Anchal Chandra|Lydia Maria Joubert|Devaki Bhaya Carnegie Institution for Science;|Stanford University Medical Center, Stanford
http://dx.doi.org/10.1101/123943 2017-04-24 Microbiology CC BY Draft Genome Sequence Of A Candidatus Brocadia Bacterium Enriched From Tropical-Climate Activated Sludge Xianghui Liu|Krithika Arumugam|Gayathri Natarajan|Thomas Seviour|Daniela I. Drautz-Moses|Stefan Wuertz|Yingyu Law|Rohan B. H. Williams Nanyang Technological University;|National University of Singapore
http://dx.doi.org/10.1101/130211 2017-04-24 Bioinformatics CC BY-NC-ND A Computational Study About The Mechanism Of Action Of Metformin On Hepatic Gluconeogenesis, Focused On Its Ability To Create Stable Pseudo-Aromatic Copper Complexes Fabio Rebecchi Calyx Informatics
http://dx.doi.org/10.1101/130203 2017-04-24 Genetics CC BY Reassessment Of Lesion-Associated Gene And Variant Pathogenicity In Focal Human Epilepsies Lisa Marie Neupert|Michael Nothnagel|Patrick May|Aarno Palotie|Mark Daly|Peter Nurnberg|Ingmar Blumcke|Dennis Lal Cologne Center for Genomics (CCG), University of Cologne, Germany;|Luxembourg Centre for Systems Biomedicine, University Luxembourg, Luxembourg;|Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland;|Stanley Center for Psychiatric Research, Broad Institute of Harvard and M.I.T., USA;|Department of Neuropathology, University Hospital Erlangen, Germany;|Stanley Center for Psychiatric Research, Broad Institute, Cambridge, MA
http://dx.doi.org/10.1101/130252 2017-04-24 Ecology Bank Vole Immunoheterogeneity May Limit Nephropatia Epidemica Emergence In A French Non-Endemic Region Adelaide Dubois|Guillaume Castel|Severine Murri|Coralie Pulido|Jean-Baptiste Pons|Laure Benoit|Anne Loiseau|Latifa Lakhdar|Maxime Galan|Philippe Marianneau|Nathalie Charbonnel INRA;|ANSES;|Univ. Lyon;|CIRAD
http://dx.doi.org/10.1101/130245 2017-04-24 Biochemistry CC BY-NC-ND Chimeric 14-3-3 Proteins For Unravelling Interactions With Intrinsically Disordered Partners Nikolai N. Sluchanko|Kristina V. Tugaeva|Alfred A. Antson A.N. Bach Institute of Biochemistry, Federal Research Center of Biotechnology of the RAS;|York Structural Biology Laboratory, Department of Chemistry, University of York
http://dx.doi.org/10.1101/130914 2017-04-25 CC BY-NC-ND Dengue virus hijacks a noncanonical oxidoreductase function of a cellular oligosaccharyltransferase complex David L. Lin|Natalia A. Cherepanova|Leonia Bozzacco|Margaret R. Macdonald|Reid Gilmore|Andrew Tai Department of Microbiology and Immunology, University of Michigan;|Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School;|Laboratory of Virology and Infectious Disease, The Rockefeller University;|University of Michigan
http://dx.doi.org/10.1101/130773 2017-04-25 CC BY-NC Mass univariate testing biases the detection of interaction effects in whole-brain analysis of variance. Robert S. Chavez|Dylan D. Wagner The Ohio State University
http://dx.doi.org/10.1101/130583 2017-04-25 CC BY-NC Escalation of Memory Length in Finite Populations Kyle Harrington|Jordan Pollack University of Idaho;|Brandeis University
http://dx.doi.org/10.1101/130716 2017-04-25 CC BY-NC-ND Expecting the Unexpected: Base-rate Neglect is Driven by Neural Activation of Common Cues Sean O'Bryan|Darrell A. Worthy|Evan Livesey|Tyler Davis Texas Tech University;|Texas A&M University;|University of Sydney
http://dx.doi.org/10.1101/130799 2017-04-25 CC BY Leveraging population-based clinical quantitative phenotyping for drug repositioning Adam Samuel Brown|Danielle Rasooly|Chirag J Patel Harvard Medical School, Department of Biomedical Informatics
http://dx.doi.org/10.1101/130641 2017-04-25 Identification Of cis-Regulatory Mutations Generating De Novo Edges In Personalized Cancer Gene Regulatory Networks Zeynep Kalender Atak|Hana Imrichova|Dmitry Svetlichnyy|Gert Hulselmans|Valerie Christiaens|Joke Reumers|Hugo Ceulemans|Stein Aerts University of Leuven, Leuven, Belgium;|Janssen Pharmaceutica NV, Belgium
http://dx.doi.org/10.1101/130377 2017-04-25 CC BY-NC-ND Duplications at 19q13.33 in patients with neurodevelopmental disorders Eduardo Perez-Palma|Elmo Saarentaus|Joris Andrieux|Marie Ravoet|Giancarlo V. De Ferrari|Peter Nuernberg|Bertrand Isidor|Bernd A. Neubauer|Dennis Lal Cologne Center for Genomics, University of Cologne, Germany;|Stanley Center for Psychiatric Genetics, Broad Institute of MIT and Harvard, Cambridge, MA, USA;|Institut de Genetique Medicale Hopital Jeanne de Flandre CHRU de Lille, France;|Molecular Immunology Unit, Institut Jules Bordet, Universite Libre de Bruxelles, Brussels, Belgium;|Center for Biomedical Research, Universidad Andres Bello, Santiago, Chile.;|Service de Genetique Medicale, CHU Hotel Dieu, France;|Department of Neuropediatrics, University Medical Clinic Giessen, Giessen, Germany;|Stanley Center for Psychiatric Genetics, Broad Institute of MIT and Harvard, Cambridge, Massachusett
http://dx.doi.org/10.1101/130872 2017-04-25 CC BY-NC-ND mTORC1-mediated inhibition of 4EBP1 is essential for Hedgehog (HH) signaling and can be targeted to suppress HH-driven medulloblastoma Chang-Chih Wu|Shirui Hou|Brent A. Orr|Yong Ha Youn|Fanny Roth|Charles G. Eberhart|Young-Goo Han St. Jude Children's Research Hospital;|Sorbonne Universités;|The Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/130500 2017-04-25 CC BY Neural Correlates of human cognitive abilities during sleep Zhuo Fang|Laura B Ray|Adrian M Owen|Stuart Fogel Western University, Canada;|University of Western Ontario, Canada;|University of Ottawa, Canada
http://dx.doi.org/10.1101/130575 2017-04-25 CC BY Assessing species biomass contributions in microbial communities via metaproteomics Manuel Kleiner|Erin Thorson|Christine E. Sharp|Xiaoli Dong|Dan Liu|Carmen Li|Marc Strous University of Calgary
http://dx.doi.org/10.1101/123968 2017-04-25 Diversity Predicts Ability Of Bacterial Consortia To Mitigate A Lethal Wildlife Pathogen Rachael Antwis|Xavier Harrison University of Salford;|Zoological Society of London
http://dx.doi.org/10.1101/129775 2017-04-25 CC BY Ultra-Accurate Complex Disorder Prediction: Case Study Of Neurodevelopmental Disorders Linh Huynh|Fereydoun Hormozdiari UC-Davis
http://dx.doi.org/10.1101/130450 2017-04-25 CC BY-NC-ND Environmental Enrichment Normalizes Hippocampal Timing Coding in a Malformed Hippocampus Amanda E Hernan|J. Matthew Mahoney|Willie Curry|Greg Richard|Marcella M Lucas|Andrew Massey|Gregory L Holmes|Rod C Scott University of Vermont College of Medicine;|Geisel School of Medicine at Dartmouth
http://dx.doi.org/10.1101/130468 2017-04-25 CC BY Independent pseudogenization of CYP2J19 in penguins, owls and kiwis implicates gene in red carotenoid synthesis Christopher A Emerling University of California Berkeley
http://dx.doi.org/10.1101/130674 2017-04-25 Parameter Estimation In Mathematical Models Of Viral Infections Using R Van Kinh Nguyen|Esteban A. Hernandez Vargas Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/130633 2017-04-25 CC BY-NC-ND Acceleration Of Nucleotide Semi-Global Alignment With Adaptive Banded Dynamic Programming Hajime Suzuki|Masahiro Kasahara The University of Tokyo
http://dx.doi.org/10.1101/130708 2017-04-25 Ecological plant epigenetics: Evidence from model and non-model species, and the way forward Christina L. Richards|Conchita Alonso|Claude Becker|Oliver Bossdorf|Etienne Bucher|Maria Colome-Tatche|Walter Durka|Jan Engelhardt|Bence Gaspar|Andreas Gogol-Doring|Ivo Grosse|Thomas P. van Gurp|Katrin Heer|Ilkka Kronholm|Christian Lampei|Vit Latzel|Marie Mirouze|Lars Opgenoorth|Ovidiu Paun|Sonja Prohaska|Stefan A. Rensing|Peter Stadler|Emiliano Trucchi|Kristian Ullrich|Koen J.F. Verhoeven Department of Integrative Biology, University of South Florida;|Estacion Biologica de Donana, CSIC;|Department of Molecular Biology, Max Planck Institute for Developmental Biology Tubingen;|Plant Evolutionary Ecology, University of Tubingen;|Institut de Recherche en Horticulture et Semences;|European Research Institute for the Biology of Ageing, University of Groningen;|Institute of Computational Biology, Helmholtz Zentrum Munchen;|Department of Community Ecology, Helmholtz Centre for Environmental Research;|Institute of Computer Science, University of Halle;|German Centre for Integrative Biodiversity Research Halle-Jena-Leipzig;|Netherlands Institute of Ecology;|Conservation Biology, University of Marburg;|University of Jyvaskyla, Department of Biological and Environmental Sciences;|Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim;|Institute of Botany, The Czech Academy of Sciences, Pruhonice;|Institut de Recherche pour le Developpement, Laboratoire Genome et Developpement des Plantes;|Department of Ecology, University of Marburg;|Plant Ecological Genomics, University of Vienna;|Institut fur Informatik, University of Leipzig;|University of Marburg
http://dx.doi.org/10.1101/130906 2017-04-25 CC BY MCAM controls cell autonomous polarity in myogenic and chondrogenic differentiation Artal Moreno-Fortuny|Laricia Bragg|Giulio Cossu|Urmas Roostalu University of Manchester
http://dx.doi.org/10.1101/130732 2017-04-25 CC BY-NC-ND Lacer: Accurate Base Quality Score Recalibration For Improving Variant Calling From Next-Generation Sequencing Data In Any Organism Jade C. Chung|Swaine L. Chen National University of Singapore;|National University of Singapore and Genome Institute of Singapore
http://dx.doi.org/10.1101/130484 2017-04-25 Genomics CC BY Use antibiotics in cell culture with caution: genome-wide identification of antibiotic-induced changes in gene expression and regulation Ann H Ryu|Walter L Eckalbar|Anat Kreimer|Nir Yosef|Nadav Ahituv UCSF;|UC Berkeley
http://dx.doi.org/10.1101/129429 2017-04-25 Genetics CC BY-NC-ND Co-localization of Conditional eQTL and GWAS Signatures in Schizophrenia Amanda Dobbyn|Laura M. Huckins|James Boocock|Laura G. Sloofman|Benjamin S. Glicksberg|Claudia Giambartolomei|Gabriel Hoffman|Thanneer Perumal|Kiran Girdhar|Yan Jiang|Douglas M. Ruderfer|Robin S. Kramer|Dalila Pinto|Schahram Akbarian|Panos Roussos|Enrico Domenici|Bernie Devlin|Pamela Sklar|Eli A. Stahl|Solveig K. Sieberts Icahn School of Medicine at Mount Sinai;|University of California Los Angeles;|Sage Bionetworks;|Vanderbilt University Medical Center;|National Institute of Mental Health;|University of Trento;|University of Pittsburgh
http://dx.doi.org/10.1101/130864 2017-04-25 Genomics CC BY-NC-ND High-resolution single-cell sequencing of malaria parasites Simon G Trevino|Standwell C Nkhoma|Shalini Nair|Benjamin J Daniel|Karla Moncada|Stanley Khoswe|Rachel L Banda|Francois Nosten|Ian H Cheeseman Texas Biomedical Research Institute;|Malawi-Wellcome-Liverpool-Wellcome Trust Clinical Research Programme;|University of Texas Health Science Center San Antonio;|Shoklo Malaria Research Unit
http://dx.doi.org/10.1101/130690 2017-04-25 Biochemistry The Yeast Mig1 Transcriptional Repressor Is Dephosphorylated By Glucose-Dependent And Independent Mechanisms Sviatlana Shashkova|Adam Wollman|Mark C. Leake|Stefan Hohmann University of York;|Chalmers University of Technology
http://dx.doi.org/10.1101/130831 2017-04-25 Cell Biology CC BY The Calcineurin-FoxO-MuRF1 Signaling Pathway Regulates Myofibril Integrity in Cardiomyocytes Jau-Nian Chen|Hirohito Shimizu|Adam D Langenbacher|Jie Huang|Kevin Wang|Georg Otto|Robert Geisler|Yibin Wang University of California, Los Angeles;|UCL Institute of Child Health;|Karlsruhe Institute of Technology
http://dx.doi.org/10.1101/130526 2017-04-25 Bioinformatics CC BY Quantification of Cancer Cell Migration with an Integrated Experimental-Computational Pipeline Edwin F Juarez|Carolina Garri|Ahmadreza Ghaffarizadeh|Paul Macklin|Kian Kani Lawrence J. Ellison Institute for Transformative Medicine
http://dx.doi.org/10.1101/130559 2017-04-25 Genetics CC BY-NC Tissue-specific downregulation of EDTP removes polyglutamine protein aggregates and extends lifespan in Drosophila Chengfeng Xiao|Shuang Qiu|R Meldrum Robertson|Laurent Seroude Queen's University
http://dx.doi.org/10.1101/130567 2017-04-25 Molecular Biology CC BY Supercoiling DNA locates mismatches Andrew Dittmore|Sumitabha Brahmachari|Yasuhara Takagi|John F. Marko|Keir C. Neuman NIH;|Northwestern University
http://dx.doi.org/10.1101/130682 2017-04-25 Cancer Biology CC BY-NC-ND miR-200c Suppresses Stemness And Increases Cellular Sensitivity To Trastuzumab In HER2+ Breast Cancer Cailu Song|Jin Wang|Hua Wang|Peng Liu|Longzhong Liu|Lu Yang|Hailin Tang|Xiaoming Xie Sun Yat-sen University Cancer Center
http://dx.doi.org/10.1101/130302 2017-04-25 Cell Biology Dual Phenotype Of MDA-MB-468 Cancer Cells Reveals Mutual Regulation Of Tensin3 And Adhesion Plasticity Astrid Vess|Ulrich Blache|Laura Leitner|Angela R.M. Kurz|Anja Ehrenpfordt|Michael Sixt|Guido Posern Institute for Physiological Chemistry, Martin Luther University Halle-Wittenberg;|LMU University of Munich;|Institute of Science and Technology, Klosterneuburg, Austria
http://dx.doi.org/10.1101/130765 2017-04-25 Cancer Biology CC BY Widespread dysregulation of the circadian clock in human cancer Guanhua Chen|Jacob Hughey Vanderbilt University School of Medicine
http://dx.doi.org/10.1101/131185 2017-04-26 CC BY-NC-ND Cross-Species Complementation Reveals Conserved Functions For EARLY FLOWERING 3 Between Monocots And Dicots He Huang|Malia Gehan|Sarah E. Huss|Sophie Alvarez|Cesar Lizarraga|Ellen L. Gruebbling|John Grier|Michael J. Naldrett|Rebecca Bindbeutel|Bradley S. Evans|Todd C. Mockler|Dmitri Nusinow Donald Danforth Plant Science Center;|Webster University;|University of Nebraska-Lincoln;|St. Louis University
http://dx.doi.org/10.1101/126581 2017-04-26 CC BY Effects Of Small-Scale Clustering Of Flowers On Pollinator Foraging Behaviour And Flower Visitation Rate Asma Akter|Paolo Biella|Jan Klecka Institute of Entomology, Biology Centre of the Czech Academy of Sciences
http://dx.doi.org/10.1101/130930 2017-04-26 CC BY-NC-ND Sparse Tensor Decomposition For Haplotype Assembly Of Diploids And Polyploids Abolfazl Hashemi|Banghua Zhu|Haris Vikalo University of Texas at Austin;|Tsinghua University
http://dx.doi.org/10.1101/130757 2017-04-26 Tolerance To PVY Infection In Potato Is Conditioned By Perturbation Of Small RNA-Gibberellin Regulatory Network Maja Kriznik|Marko Petek|David Dobnik|Ziva Ramsak|Spela Baebler|Stephan Pollmann|Jan Kreuze|Jana Zel|Kristina Gruden National institute of Biology;|The Centro de Biotecnologia y Genomica de Plantas (CBGP);|International Potato Center;|National Institute of Biology
http://dx.doi.org/10.1101/131060 2017-04-26 Biochemistry A Dry Method For Preserving Tear Samples Weiwei Qin|Chan Zhao|Linpei Zhang|Youhe Gao Beijing Normal University;|Peking Union Medical College Hospital
http://dx.doi.org/10.1101/130955 2017-04-26 Molecular Biology Collection And Preservation Of Urinary Proteins Using A Fluff Pulp Diaper Weiwei Qin|Zhenhuan Du|Youhe Gao Beijing Normal University;|Beijing Normal Universtiy
http://dx.doi.org/10.1101/131136 2017-04-26 Evolutionary Biology CC BY-NC-ND Signature Of Co-Evolution Between Defense And Vegetative Lifespan Strategies In Arabidopsis thaliana Shirin Glander|Fei He|Gregor Schmitz|Anika Witten|Arndt Telschow|Juliette de Meaux University of Muenster;|University of Cologne
http://dx.doi.org/10.1101/130880 2017-04-26 Neuroscience Arc Restores Juvenile Plasticity In Adult Mouse Visual Cortex Kyle R. Jenks|Taekeun Kim|Elissa D. Pastuzyn|Hiroyuki Okuno|Andrew V. Taibi|Haruhiko Bito|Mark F. Bear|Jason D. Shepherd University of Utah;|Massachusetts Institute of Technology;|Kyoto University Graduate School of Medicine;|The University of Tokyo
http://dx.doi.org/10.1101/131144 2017-04-26 Ecology CC BY Integrating Telemetry Data Into Spatial Capture-Recapture Modifies Inferences On Multi-Scale Resource Selection Daniel W. Linden|Alexej P. K. Siren|Peter J. Pekins NOAA Fisheries;|University of Massachusetts;|University of New Hampshire
http://dx.doi.org/10.1101/131003 2017-04-26 Plant Biology Molecular Mapping Of YrTZ2, A Stripe Rust Resistance Gene In Wild Emmer Accession TZ-2 And Its Comparative Analyses With Aegilops tauschii Zhenzhong Wang|Jingzhong Xie|Li Guo|Deyun Zhang|Genqiao Li|Tilin Fang|Yongxing Chen|Jun Li|Qiuhong Wu|Ping Lu|Yong Wang|Miaomiao Li|Haibin Wu|Yan Zhang|Wuyun Yang|Ming-Cheng Luo|Tzion Fahima|Zhiyong Liu China Rural Technology Development Center;|Institute of Genetics and Developmental Biology, Chinese Academy of Sciences;|China Agricultural University;|Oklahoma State University;|Sichuan Academy of Agriculture Sciences;|Department of Plant Sciences, University of California, Davis;|Institute of Evolution, University of Haifa
http://dx.doi.org/10.1101/130989 2017-04-26 Evolutionary Biology CC BY-NC On The Peopling Of The Americas: Molecular Evidence For The Paleoamerican And The Solutrean Models Dejian Yuan|Shi Huang Central South University
http://dx.doi.org/10.1101/131037 2017-04-26 Ecology CC BY-NC Spatially Explicit Approach To Population Abundance Estimation In Field Surveys Nao Takashina|Buntarou Kusumoto|Maria Beger|Suren Rathnayake|Hugh P. Possingham Okinawa Institute of Science and Technology;|University of the Ryukyus;|University of Leeds;|The University of Queensland;|The Nature Conservancy
http://dx.doi.org/10.1101/130013 2017-04-26 Plant Biology Pattern-Triggered Immunity And Cell Wall Integrity Maintenance Jointly Modulate Plant Stress Responses Timo Engelsdorf|Nora Gigli-Bisceglia|Manikandan Veerabagu|Joseph F. McKenna|Frauke Augstein|Dieuwertje van der Does|Cyril Zipfel|Thorsten Hamann NTNU, Department of Biology, Hogskoleringen 5, Realfagbygget;|Department of Biology, S209A Sinclair, Gypsy Lane, Oxford Brookes University, Oxford, UK;|Institute for Organismal Biology, Physiological Botany, Uppsala University, 75651 Uppsala;|The Sainsbury Laboratory, Norwich Research Park, Norwich, NR4 7UH, UK
http://dx.doi.org/10.1101/131029 2017-04-26 Systems Biology CC BY-NC-ND Faster Growth With Shorter Antigens Explains A VSG Hierarchy During African Trypanosome Infections: A Feint Attack By Parasites Dianbo Liu|Luca Albergante|David Horn|Timothy Newman University of Dundee;|Institut Curie
http://dx.doi.org/10.1101/130997 2017-04-26 Bioinformatics CC BY-NC GATTACA: Lightweight Metagenomic Binning With Compact Indexing Of Kmer Counts And MinHash-based Panel Selection Victoria Popic|Volodymyr Kuleshov|Michael Snyder|Serafim Batzoglou Stanford University
http://dx.doi.org/10.1101/131193 2017-04-26 Pharmacology and Toxicology CC BY-NC Synthesis-Free PET Imaging Of Brown Adipose Tissue And TSPO Via Combination Of Disulfiram And 64CuCl2 Jing Yang|Jian Yang|Lu Wang|Anna Moore|Steven Liang|Chongzhao Ran Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/131110 2017-04-26 Cell Biology A lncRNA/Lin28/Let7 Axis Coupled To DNA Methylation Fine Tunes The Dynamics Of A Cell State Transition Meng Amy Li|Paulo P. Amaral|Priscilla Cheung|Jan H. Bergmann|Masaki Kinoshita|Tuzer Kalkan|Meryem Ralser|Sam Robson|Ferdinand von Meyenn|Maike Paramor|Fengtang Yang|Caifu Chen|Jennifer Nichols|David L. Spector|Tony Kouzarides|Lin He|Austin Smith University of Cambridge;|University of California, Berkeley;|Cold Spring Harbor Laboratory;|University of Cambrige;|Babraham Institute;|Wellcome Trust Sanger Institute;|Integrated DNA Technologies
http://dx.doi.org/10.1101/130179 2017-04-26 Cancer Biology CC BY-NC Genome-Scale Mutational Signatures Of Aflatoxin In Cells, Mice And Human Tumors Mi Ni Huang|Willie Yu|Wei Wei Teoh|Maude Ardin|Apinya Jusakul|Alvin Ng|Arnoud Boot|Behnoush Abedi-Ardekani|Stephanie Villar|Swe Swe Myint|Rashidah Othman|Song Ling Poon|Adriana Heguy|Magali Olivier|Monica Hollstein|Patrick Tan|Bin Tean Teh|Kanaga Sabapathy|Jiri Zavadil|Steven Rozen Duke-NUS Medical School;|National Cancer Centre Singapore;|International Agency for Research on Cancer;|NUS Graduate School for Integrative Sciences and Engineering;|NYU School of Medicine;|Duke-NUS Graduate Medical School Singapore
http://dx.doi.org/10.1101/131086 2017-04-26 Microbiology CC BY-ND The human oral microbiome is shaped by shared environment rather than genetics: evidence from a large family of closely-related individuals Liam Shaw|Andre L. R. Ribeiro|Adam P. Levine|Nikolas Pontikos|Francois Balloux|Anthony W. Segal|Adam P. Roberts|Andrew Smith UCL Genetics Institute;|UCL Eastman Dental Institute;|UCL Division of Medicine;|Liverpool School of Tropical Medicine
http://dx.doi.org/10.1101/131011 2017-04-26 Developmental Biology apterous A Specifies Dorsal Wing Patterns And Sexual Traits In Butterflies Anupama Prakash|Antonia Monteiro National University of Singapore;|National University of Singapore, Yale-NUS College, Singapore
http://dx.doi.org/10.1101/130781 2017-04-26 Evolutionary Biology The Evolutionary Dynamics Of The Odorant Receptor Gene Family In Corbiculate Bees Philipp Brand|Santiago R. Ramirez University of California, Davis
http://dx.doi.org/10.1101/131045 2017-04-26 Pharmacology and Toxicology (E)-2-Benzylidene-3-(cyclohexylamino)-2,3-dihydro-1H-inden-1-one (BCI) Induces Apoptosis Via The Intrinsic Pathway In H1299 Lung Cancer Cells Jong-Woon Shin|Sae-Bom Kwon|Yesol Bak|Sangku Lee|Do-Young Yoon Konkuk University;|KRIBB
http://dx.doi.org/10.1101/130856 2017-04-26 CC BY-NC-ND Individual level reliability of PAS-induced neural plasticity Yeun Kim|Jacqueline P Ngo|Choi Deblieck|Dylan J Edwards|Bruce Dobkin|Allan D Wu|Marco Iacoboni University of California, Los Angeles;|Universitair Psychiatrisch Centrum KU Leuven;|Burke-Cornell Medical Research Institute
http://dx.doi.org/10.1101/131276 2017-04-26 CC BY-NC-ND Alternative cleavage of a bone morphogenetic protein (BMP) produces ligands with distinct developmental functions and receptor preference Edward N Anderson|Kristi A Wharton Brown University
http://dx.doi.org/10.1101/131177 2017-04-26 CC BY The threshold of binocularity: natural image statistics explain the reduction of visual acuity in peripheral vision. David W Hunter|Paul B Hibbard Aberystwyth University;|University of Essex
http://dx.doi.org/10.1101/131318 2017-04-26 CC BY Structure-based analysis of CysZ-mediated cellular uptake of sulfate Qun Liu|Oliver B Clarke|Edgar Leal Pinto|Brian Kloss|Shantelle Tabuso|James Love|Marco Punta|Surajit Banerjee|Kanagalaghatta R Rajashankar|Burkhard Rost|Diomedes Logothetis|Matthias Quick|Wayne A Hendrickson|Filippo Mancia|Zahra Assur Sanghai Brookhaven National Laboratory, United States;|Columbia University, United States;|Virginia Commonwealth University, United States;|New York Structural Biology Center, United States;|Institution of Cancer Research, United States;|Cornell University, United States;|Technical University of Munich, United Kingdom
http://dx.doi.org/10.1101/122952 2017-04-26 CC BY A Systematic Nomenclature for the Drosophila Ventral Nervous System Robert Christopher Court|James Douglas Armstrong|Jana Borner|Gwyneth Card|Marta Costa|Michael Dickinson|Carsten Duch|Wyatt Korff|Richard Mann|David Merritt|Rod Murphey|Shigehiro Namiki|Andrew Seeds|David Shepherd|Troy Shirangi|Julie Simpson|James Truman|John Tuthill|Darren Williams University of Edinburgh;|Florida Atlantic University;|HHMI - Janelia Research Campus;|University of Cambridge;|University of Washington;|University of Mainz;|Columbia University;|The University of Queensland;|HHMI Janelia Research Campus;|Bangor University;|Harvard Medical School;|Kings College London
http://dx.doi.org/10.1101/131219 2017-04-26 The demographic history and mutational load of African hunter-gatherers and farmers Marie Lopez|Athanasios Kousathanas|Helene Quach|Christine Harmant|Patrick Mouguiama-Daouda|Jean-Marie Hombert|Alain Froment|George H Perry|Luis B Barreiro|Paul Verdu|Etienne Patin|Lluis Quintana-Murci Institut Pasteur;|Universite Omar Bongo;|Universite Lumiere-Lyon 2;|Museum National d Histoire Naturelle;|Pennsylvania State University;|Centre de Recherche CHU Sainte-Justine
http://dx.doi.org/10.1101/131201 2017-04-26 CC BY-NC Association mapping and haplotype analysis of the pre-harvest sprouting resistance locus Phs-A1 reveals a causal role of TaMKK3-A in global germplasm Oluwaseyi Shorinola|Barbara Balcarkova|Jessica Hyles|Josquin F. G. Tibbits|Matthew J. Hayden|Katarina Holusova|Miroslav Valarik|Assaf Distelfeld|Atsushi Torada|Jose M. Barrero|Cristobal Uauy John Innes Centre, Norwich Research Park, NR4 7UH, UK;|Institute of Experimental Botany, Olomouc, 783 71, Czech Rep;|Commonwealth Scientific and Industrial Research Organisation (CSIRO), Canberra, ACT, 2601, Australia;|Department of Economic Development, Jobs, Transport and Resources, Bundoora, Victoria, 3083, Austral;|The Institute for Cereal Crop Improvement, Tel Aviv University, Tel Aviv, Israel;|HOKUREN Agricultural Research Institute, Naganuma, Hokkaido 069-1317, Japan
http://dx.doi.org/10.1101/131151 2017-04-26 CC BY-NC-ND Clustering gene expression time series data using an infinite Gaussian process mixture model Ian C McDowell|Dinesh Manandhar|Christopher M Vockley|Amy Schmid|Timothy E Reddy|Barbara Engelhardt Duke University;|Princeton University
http://dx.doi.org/10.1101/131235 2017-04-26 CC BY-NC-ND VCF2CNA: A tool for efficiently detecting copy-number alteration in VCF genotype data Daniel Putnam|Xiaotu Ma|Stephen V Rice|Yu Liu|Jinghui Zhang|Xiang Chen St Jude Children's Research Hospital
http://dx.doi.org/10.1101/131284 2017-04-26 CC BY Relic DNA contributes minimally to estimates of microbial diversity Jay T Lennon|Sarah A Placella|Mario E Muscarella Indiana University;|Michigan State University;|University of Illinois
http://dx.doi.org/10.1101/130922 2017-04-26 Life history variation along an elevational gradient in Plethodon montanus: implications for conservation Nicholas M. Caruso|Leslie J. Rissler Department of Biological Sciences, University of Alabama;|Directorate for Biological Sciences, National Science Foundation
http://dx.doi.org/10.1101/131342 2017-04-26 CC BY-ND Genotype-by-Environment Interactions Affecting Heterosis in Maize Zhi Li|Lisa Coffey|Jacob Garfin|Nathan D. Miller|Michael R. White|Edgar P. Spalding|Natalia de Leon|Shawn M. Kaeppler|Patrick S. Schnable|Nathan M. Springer|Candice N. Hirsch Department of Agronomy and Plant Genetics, University of Minnesota, Saint Paul, MN 55108;|Department of Agronomy, Iowa State University, Ames, IA 50011;|Department of Botany, University of Wisconsin, Madison, WI 53706;|Department of Agronomy, University of Wisconsin, Madison, WI 53706;|Department of Plant and Microbial Biology, University of Minnesota, Saint Paul, MN 55108
http://dx.doi.org/10.1101/125583 2017-04-26 CC BY-NC-ND Photoacoustic molecular rulers based on DNA nanostructures James Joseph|Philipp Koehler|Tim J. Zuehlsdorff|Daniel J Cole|Kevin N. Baumann|Judith Weber|Sarah E. Bohndiek|Silvia Hernandez-Ainsa Cavendish Laboratory, Department of Physics, University of Cambridge, Cambridge, UK/Cancer Research;|Cavendish Laboratory, Department of Physics, University of Cambridge, Cambridge, UK;|School of Natural Sciences, University of California Merced, Merced, USA;|School of Chemistry, Newcastle University, Newcastle upon Tyne NE1 7RU, UK;|University of Cambridge
http://dx.doi.org/10.1101/131326 2017-04-26 CC BY Distinct effects of tubulin isotype mutations on neurite growth in Caenorhabditis elegans Chaogu Zheng|Margarete Diaz-Cuadros|Susan Laura Jao|Ken Nguyen|David H Hall|Martin Chalfie Columbia University, United States;|Albert Einstein College of Medicine, United States
http://dx.doi.org/10.1101/131102 2017-04-26 CC BY-NC-ND Epigenetic Reprogramming of Tissue-Specific Transcription Promotes Metastasis Shuaishuai Teng|Yang Li|Ming Yang|Rui Qi|Yiming Huang|Qianyu Wang|Shasha Li|Kequan Lin|Yujing Cheng|Zhi John Lu|Dong Wang Department of Basic Medical Sciences, School of Medicine, Tsinghua University;|School of Life Sciences, Tsinghua University
http://dx.doi.org/10.1101/131250 2017-04-26 Neuroscience Fused dorsal-ventral cerebral organoids model human cortical interneuron migration Joshua A Bagley|Daniel Reumann|Shan Bian|Juergen A. Knoblich Institute of Molecular Biotechnology
http://dx.doi.org/10.1101/130815 2017-04-26 Genomics CC BY-NC-ND A novel k-mer set memory (KSM) motif representation improves regulatory variant prediction Yuchun Guo|Kevin Tian|Haoyang Zeng|Xiaoyun Guo|David K Gifford Massachusetts Institute of Technology
http://dx.doi.org/10.1101/125781 2017-04-26 Ecology CC BY-NC-ND Ecological Network Metrics: Opportunities For Synthesis Matthew K Lau|Stuart R Borrett|Benjamin Baiser|Nicholas Gotelli|Aaron M Ellison Harvard University;|University of North Carolina, Wilmington;|University of Florida;|University of Vermont
http://dx.doi.org/10.1101/131433 2017-04-27 Neuroscience CC BY-NC-ND Avoiding Math On A Rapid Timescale: Emotional Responsivity And Anxious Attention In Math Anxiety Rachel G. Pizzie|David J. M. Kraemer Dartmouth College
http://dx.doi.org/10.1101/131227 2017-04-27 Biophysics Gradients Of Rac1 Nanoclusters Support Spatial Patterns Of Rac1 Signaling Amanda Remorino|Simon De Beco|Fanny Cayrac|Fahima Di Federico|Gaetan Cornilleau|Alexis Gautreau|Maria Carla Parrini|Jean-Baptiste Masson|Maxime Dahan|Mathieu Coppey Institut Curie, UMR168, CNRS, PSL, UPMC, Paris;|Ecole Polytechnique, Universite Paris-Saclay, CNRS UMR7654, Plaiseau;|Institut Curie, Centre de Recherche, Paris Sciences Lettres, ART group, Inserm U830, Paris;|Decision and Bayesian Computation, Institut Pasteur, Paris
http://dx.doi.org/10.1101/130591 2017-04-27 Bioinformatics Inference Of The Human Polyadenylation Code Michael Ka Kit Leung|Andrew Delong|Brendan J. Frey University of Toronto;|Deep Genomics Inc.
http://dx.doi.org/10.1101/129833 2017-04-27 Microbiology CC BY Interactions Between Molecular Chaperone P20 And Cyt2Ba7 Toxin In Bacillus thuringiensis Yongxia Shi|Mujin Tang|Yalin Liao|Wei Xu Health Quarantine Lab, Guangdong Inspection & Quarantine Technology Center, Guangzhou;|State Key Laboratory of Biocontrol, Sun Yat-sen University, Guangzhou, PRC;|School of Veterinary and Life Sciences, Murdoch University, Murdoch, WA, Australia
http://dx.doi.org/10.1101/131524 2017-04-27 Neuroscience CC BY-NC-ND Visual Context Modulates Action Perception In 10-Month-Old Infants Cathleen Bache|Hannes Noack|Anne Springer|Waltraud Stadler|Franziska Kopp|Ulman Lindenberger|Markus Werkle-Bergner Max Planck Institute for Human Development;|University of Tubingen;|University of Basel;|Technische Universitat Munchen
http://dx.doi.org/10.1101/131482 2017-04-27 Bioengineering Feature Engineering Coupled Machine Learning Algorithms For Epileptic Seizure Forecasting From Intracranial EEGs Rishav Kumar|Rishi Raj Singh Jhelumi|Achintye Madhav Singh|Prasoon Kumar International Institute of Information Technology, Hyderabad;|Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/131425 2017-04-27 Developmental Biology CC BY Germ cell connectivity enhances cell death in response to DNA damage in Drosophila testis Yukiko M Yamashita|Kevin L Lu University of Michigan, United States
http://dx.doi.org/10.1101/131409 2017-04-27 Neuroscience Retinotopic Organization of Scene Areas in Macaque Inferior Temporal Cortex Michael J Arcaro|Margaret S Livingstone Harvard Medical School
http://dx.doi.org/10.1101/130849 2017-04-27 Cell Biology Fast Activation Cycles Of Rac1 At The Lamellipodium Tip Trigger Membrane Protrusion Amine Mehidi|Olivier Rossier|Anael Chazeau|Fabien Biname|Amanda Remorino|Mathieu Coppey|Zeynep Karatas|Jean-Baptiste Sibarita|Violaine Moreau|Gregory Giannone Centre National De La Recherche Scientifique, University of Bordeaux;|Inserm National Institute of Health and Medical Research, University of Bordeaux;|Utrecht University;|Centre National De La Recherche Scientifique, University Pierre and Marie Curie Paris 6
http://dx.doi.org/10.1101/131094 2017-04-27 Animal Behavior and Cognition CC BY-NC-ND Consistent Individual Differences Drive Collective Behaviour And Group Functioning Of Schooling Fish Jolle W Jolles|Neeltje J. Boogert|Vivek H. Sridhar|Iain D. Couzin|Andrea Manica Max Planck Institute of Ornithology;|University of Cambridge
http://dx.doi.org/10.1101/131508 2017-04-27 Plant Biology CC BY Leaf Rolling As Indicator Of Water Stress In Cistus incanus From Different Provenances Giacomo Puglielli|Loretta Gratani|Laura Varone Sapienza University of Rome;|Sapienza Univesity of Rome
http://dx.doi.org/10.1101/131359 2017-04-27 Genetics CC BY-NC-ND Heterogeneous Contribution of Microdeletions in the Development of Common Generalized and Focal epilepsies Eduardo Perez-Palma|Ingo Helbig|Karl Martin Klein|Verneri Anttila|Heiko Horn|Eva Maria Reinthaler|Padhraig Gormley|Andrea Ganna|Andrea Byrnes|Katharina Pernhorst|Mohammad Reza Toliat|Elmo Saarentaus|Daniel Howrigan|Per Hoffmann|Juan Francisco Miquel|Giancarlo V. De Ferrari|Peter Nurnberg|Holger Lerche|Fritz Zimprich|Bernd Axel Neubauer|Albert Becker|Felix Rosenow|Emilio Perucca|Federico Zara|Yvonne Weber|Dennis Lal University of Cologne, Cologne Center for Genomics (CCG) Cologne, NRW, DE;|The Childrens Hospital of Philadelphia, Division of Neurology Philadelphia, PA, USA;|Goethe-University Frankfurt, Epilepsy Center Frankfurt Rhine-Main, University Hospital Frankfurt;|Broad Institute, Stanley Center for Psychiatric Genetics Cambridge, MA, USA;|Massachusetts General Hospital, Department of Surgery Boston, MA, USA;|Medizinische Universitat Wien, Department of Neurology Wien, Wien, AT;|Rheinische Friedrich-Wilhelms-Universitat Bonn, Department of Neuropathology Bonn, NRW, DE;|Universitatsspital Basel, Division of Medical Genetics, Genomics Research Group Basel, BS, CH;|Pontificia Universidad Catolica de Chile, Department of Gastroenterology Santiago, CL;|Center for Biomedical Research, Universidad Andres Bello, Santiago, Chile;|Hertie-Institute for Clinical Brain Research, Dept. of Neurology and Epileptology Tuebingen, DE;|Medizinische Universitat Wien, Department of Neurology Wien, AT;|University Medical Clinic Giessen, Department of Neuropediatrics Giessen, DE;|Epilepsy Center Hessen, Department of Neurology Giessen, Hessen, DE;|C. Mondino National Neurological Institute Pavia, IT;|Institute G. Gaslini and University of Genova, Neuroscience Largo Gaslini, 5 Genova, IT 16147;|Universitatsklinikum Zentrum fur Neurologie, Hertie Institute for Brain Research Tubingen, DE
http://dx.doi.org/10.1101/131367 2017-04-27 Bioinformatics CC BY-NC Predicting clinical outcomes from large scale cancer genomic profiles with deep survival models Safoora Yousefi|Fateme Amrollahi|Mohamed Amgad|Coco Dong|Joshua E Lewis|Congzheng Song|David A Gutman|Sameer H Halani|Jose Enrique Velazquez Vega|Daniel J Brat|Lee AD Cooper Emory University;|Columbia University;|Georgia Institute of Technology;|Cornell University;|Winship Cancer Institute
http://dx.doi.org/10.1101/131417 2017-04-27 Microbiology Epistatic interactions within the influenza virus polymerase complex mediate mutagen resistance and replication fidelity Matthew D. Pauly|Daniel M. Lyons|Adam S. Lauring University of Michigan
http://dx.doi.org/10.1101/131391 2017-04-27 Biophysics CC BY Quantifying the efficacy of first aid treatments for burn injuries using mathematical modelling and in vivo porcine experiments Matthew J Simpson|Sean McInerney|Elliot Carr|Leila Cuttle Queensland Univeristy of Technology;|Queensland University of Technology
http://dx.doi.org/10.1101/130153 2017-04-27 CC BY-NC-ND TelNet - a database for human and yeast genes involved in telomere maintenance Delia M. Braun|Inn Chung|Nick Kepper|Karsten Rippe German Cancer Research Center (DKFZ);|German Cancer Research Center (DKFZ) and Bioquant Center
http://dx.doi.org/10.1101/131680 2017-04-27 CC BY-ND Genome-scale detection of positive selection in 9 primates predicts human-virus evolutionary conflicts Robin van der Lee|Laurens Wiel|Teunis J.P. van Dam|Martijn A. Huynen Radboud University Medical Center
http://dx.doi.org/10.1101/131631 2017-04-27 CC BY Fast and simple analysis of MiSeq amplicon sequencing data with MetaAmp Xiaoli Dong|Manuel Kleiner|Christine E. Sharp|Erin Thorson|Carmen Li|Dan Liu|Marc Strous University of Calgary
http://dx.doi.org/10.1101/126177 2017-04-27 Extensive phenotypic plasticity in a seasonal butterfly limits potential for evolutionary responses to environmental change Vicencio Oostra|Marjo Saastamoinen|Bas J Zwaan|Christopher W Wheat University College London;|University of Helsinki, Finland;|Wageningen University, The Netherlands;|Stockholm University, Sweden
http://dx.doi.org/10.1101/131581 2017-04-27 CC BY-ND Expression of short hairpin RNAs using the compact architecture of retroviral microRNA genes James M Burke|Rodney P. Kincaid|Francesca Aloisio|Nicole Welch|Christopher S. Sullivan The University of Texas at Austin
http://dx.doi.org/10.1101/131607 2017-04-27 CC BY-NC-ND Obesity/Type II Diabetes Alters Macrophage Polarization Resulting in a Fibrotic Tendon Healing Response Jessica E Ackerman|Michael B Geary|Caitlin A Orner|Fatima Bawany|Alayna Loiselle University of Rochester Medical Center;|University of Rochester
http://dx.doi.org/10.1101/131664 2017-04-27 CC BY The Ndc80 complex targets Bod1 to human mitotic kinetochores Katharina Schleicher|Sara ten Have|Iain M Porter|Jason R Swedlow University of Dundee
http://dx.doi.org/10.1101/131672 2017-04-27 CC BY Necroptosis promotes the Aging of the Male Reproductive System in Mice Xiaodong Wang|Dianrong Li|Lingjun Meng|Tao Xu|Yaning Su|Xiao Liu|Zhiyuan Zhang National Institute of Biological Sciences, China;|National Institute of Biological Sciences, Beijing, China
http://dx.doi.org/10.1101/130286 2017-04-27 Epidemiology Cadmium-associated differential methylation throughout the placental genome: epigenome-wide association study of two US birth cohorts Todd M Everson|Tracy Punshon|Brian P Jackson|Ke Hao|Luca Lambertini|Jia Chen|Margaret R Karagas|Carmen J Marsit Emory University;|Dartmouth College;|Mount Sinai
http://dx.doi.org/10.1101/131243 2017-04-28 Evolutionary Biology CC BY-NC-ND Interpreting Differentiation Landscapes In The Light Of Long-Term Linked Selection Reto Burri Department of Population Ecology, Friedrich Schiller University Jena
http://dx.doi.org/10.1101/100768 2017-04-28 Bioengineering Shortwave Infrared Fluorescence Imaging with the Clinically Approved Near-Infrared Dye Indocyanine Green Jessica A. Carr|Daniel Franke|Justin R. Caram|Collin F. Perkinson|Vasileios Askoxylakis|Meenal Datta|Dai Fukumura|Rakesh K. Jain|Moungi G. Bawendi|Oliver T. Bruns Massachusetts Institute of Technology;|Massachusetts General Hospital and Harvard Medical School;|Massachusetts General Hospital and Harvard Medical School, Tufts University
http://dx.doi.org/10.1101/131706 2017-04-28 Genomics A heuristic method to identify runs of homozygosity associated with reduced performance in livestock. Jeremy T Howard|Francesco Tiezzi|Yijian Huang|Kent A. Gray|Christian Maltecca North Carolina State University;|Smithfield Premium Genetics
http://dx.doi.org/10.1101/131573 2017-04-28 Ecology An experimental approach to understanding elevation limits in a montane terrestrial salamander, Plethodon montanus Nicholas M. Caruso|Jeremy F. Jacobs|Leslie J. Rissler Department of Biological Sciences, University of Alabama;|Division of Amphibians and Reptiles Museum Support Center, Smithsonian Institution;|Directorate for Biological Sciences, National Science Foundation
http://dx.doi.org/10.1101/125963 2017-04-28 Bioinformatics Meffil: efficient normalisation and analysis of very large DNA methylation samples Josine Min|Gibran Hemani|George Davey Smith|Caroline L Relton|Matthew Suderman University of Bristol
http://dx.doi.org/10.1101/131730 2017-04-28 Evolutionary Biology CC BY-NC-ND Coalescent models for populations with time-varying population sizes and arbitrary offspring distributions Christophe Fraser|Lucy M Li University of Oxford;|Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/131789 2017-04-28 Developmental Biology CC BY-NC PHRED-1 Is A Divergent Neurexin-1 Homolog That Organizes Muscle Fibers And Patterns Organs During Regeneration Carolyn E. Adler|Alejandro Sanchez Alvarado Cornell University;|Stowers Institute for Medical Research
http://dx.doi.org/10.1101/108621 2017-04-28 CC BY-NC-ND A biological source of marine sedimentary iron oxides Jacob P Beam|Jarrod J Scott|Sean M McAllister|Clara S Chan|James McManus|Filip JR Meysman|David Emerson Bigelow Laboratory for Ocean Sciences;|University of Delaware;|Royal Netherlands Institute for Sea Research;|Bigelow Laboratory
http://dx.doi.org/10.1101/132068 2017-04-28 CC BY-NC-ND On Neural Code: The Self-Information Processor Disguised As Neuronal Variability? Joe Z. Tsien|Meng Li Medical College of Georiga, Augusta University;|Medical College of Georgia, Augusta University
http://dx.doi.org/10.1101/132225 2017-04-28 CC BY Emerging Electrical Properties of Graphene incorporated Photosynthetic Biofilms Sanhita Ray|Sayantani Sen|Alakananda Das|Anirban Bose|Anirban Bhattacharyya|Avishek Das|Sanatan Chattopadhyay|Hirak K Patra|Shibsankar Singha|Achintya Singha|Anjan Kr Dasgupta University of Calcutta;|University of Linksoping;|Bose Institute
http://dx.doi.org/10.1101/132084 2017-04-28 CC BY-NC Exploring the Diversity of Bacillus whole genome sequencing projects using Peasant, the Prokaryotic Assembly and Annotation Tool Jonathon Brenner|Laurynas Kalesinskas|Catherine Putonti Loyola University Chicago
http://dx.doi.org/10.1101/132258 2017-04-28 CC BY-NC-ND MicroRNA perturbation of the MRN complex buffers DNA damage response from VEGF signaling Cristina Espinosa-Diez|RaeAnna Wilson|Namita Chatterjee|Clayton Hudson|Rebecca Ruhl|Christina Hipfinger|Erin Helms|Omar F Khan|Daniel G Anderson|Sudarshan Anand Oregon Health & Science Univ;|Massachusetts Institute of Technology;|OHSU
http://dx.doi.org/10.1101/132167 2017-04-28 CC BY Mitotic gene conversion tracts associated with repair of a defined double-strand break in Saccharomyces cerevisiae Sue Jinks-Robertson|Yee Fang Hum Duke University, United States
http://dx.doi.org/10.1101/132241 2017-04-28 Global analysis of plasma lipids identifies liver-derived acyl-carnitines as a fuel source for brown fat thermogenesis Judith Simcox|Gisela Geoghegan|John Alan Maschek|Marzia Pasquali|Ren Miao|Sanghoon Lee|Lei Jiang|Ian Huck|Anthony Donato|Udayan Apte|Nicola Longo|Jared Rutter|James Cox|Claudio J. Villanueva University of Utah School of Medicine;|UT Southwestern;|University of Kansas;|Veteran's Affairs Medical Center
http://dx.doi.org/10.1101/132183 2017-04-28 A Computational Framework To Infer The Order Of Accumulating Mutations In Individual Tumors Daniele Ramazzotti|Alex Graudenzi|Luca De Sano|Marco Antoniotti|Giulio Caravagna Stanford University;|Dept. of Informatics, Systems and Communication, University of Milan-Bicocca, Milan, Italy;|School of Informatics, University of Edinburgh, Edinburgh, UK
http://dx.doi.org/10.1101/132126 2017-04-28 CC BY-NC Mode Of Sucrose Delivery Alters Reward-Related Phasic Dopamine Signals In Nucleus Accumbens James McCutcheon|Mitchell F. Roitman University of Leicester;|University of Illinois at Chicago
http://dx.doi.org/10.1101/132027 2017-04-28 Comprehensive Characterization Of The Complex Lola Locus Reveals A Novel Role In The Octopaminergic Pathway Via Tyramine Beta-Hydroxylase Activation Nadja Dinges|Violeta Morin|Nastasja Kreim|Tony Southall|Jean-Yves Roignant Institute of Molecular Biology, Mainz;|Imperial College London
http://dx.doi.org/10.1101/132001 2017-04-28 CC BY-NC-ND wft4galaxy: A Workflow Tester for Galaxy Marco Enrico Piras|Luca Pireddu|Gianluigi Zanetti CRS4
http://dx.doi.org/10.1101/132134 2017-04-28 CC BY-NC-ND Modeling Of Biomechanics And Biorheology Of Red Blood Cells In Type-2 Diabetes Mellitus Hung-Yu Chang|Xuejin Li|George Em Karniadakis Brown University
http://dx.doi.org/10.1101/131946 2017-04-28 CC BY-NC-ND Optimal Sensory Coding By Populations Of ON And OFF Neurons Julijana Gjorgjieva|Markus Meister|Haim Sompolinsky Max Planck Institute for Brain Research;|California Institute of Technology;|Hebrew University; Harvard University
http://dx.doi.org/10.1101/131920 2017-04-28 How Convincing Is A Matching Y-Chromosome Profile? Mikkel M. Andersen|David J. Balding Aalborg University;|University of Melbourne
http://dx.doi.org/10.1101/131052 2017-04-28 CC BY Encoding And Decoding Dynamic Sensory Signals With Recurrent Neural Networks: An Application Of Conceptors To Birdsongs Richard Gast|Patrick Faion|Kai Standvoss|Andrea Suckro|Brian Lewis|Gordon Pipa University of Osnabrueck, Institute of Cognitive Science
http://dx.doi.org/10.1101/131805 2017-04-28 Neuroscience Visual Response Properties In The Three Layer Turtle Visual Cortex Mahmood Sayed Hoseini|Jeff Pobst|Nathaniel Caleb Wright|Wesley Clawson|Woodrow Shew|Ralf Wessel Department of Physics, Washington University, St. Louis, MO;|Department of Electrical Engineering, University of Arkansas, Fayetteville, AR;|Department of Physics, University of Arkansas, Fayetteville, AR
http://dx.doi.org/10.1101/131714 2017-04-28 Biophysics CC BY Structural Basis Of STAT2 Recognition By IRF9 Reveals Molecular Insights Into ISGF3 Function Srinivasan Rengachari|Silvia Groiss|Juliette Devos|Elise Caron|Nathalie Grandvaux|Daniel Panne EMBL;|Institut Laue-Langevin;|University of Montreal
http://dx.doi.org/10.1101/131888 2017-04-28 Plant Biology CC BY-NC-ND Altering Expression Of A Vacuolar Iron Transporter Doubles Iron Content In White Wheat Flour James M. Connorton|Eleanor R. Jones|Ildefonso Rodriguez-Ramiro|Susan Fairweather-Tait|Cristobal Uauy|Janneke Balk John Innes Centre;|Norwich Medical School
http://dx.doi.org/10.1101/131649 2017-04-28 Bioinformatics CC BY-ND GTC: An Attempt To Maintenance Of Huge Genome Collections Compressed Agnieszka Danek|Sebastian Deorowicz Silesian University of Technology
http://dx.doi.org/10.1101/131938 2017-04-28 Genetics CC BY-NC-ND Natural Genetic Variation Can Independently Tune The Induced Fraction And Induction Level Of A Bimodal Signaling Response Jue Wang|Julius Palme|Kayla Lee|Michael Springer Harvard Medical School;|Technische Universitaet
http://dx.doi.org/10.1101/131862 2017-04-28 Bioinformatics Side-By-Side Analysis Of Alternative Approaches On Multi-Level RNA-Seq Data Irina Mohorianu University of East Anglia
http://dx.doi.org/10.1101/131904 2017-04-28 Genomics CC BY-NC-ND Myotis rufoniger Genome Sequence And Analyses: M. rufoniger's Genomic Feature And The Decreasing Effective Population Size Of Myotis Bats Youngjune Bhak|Yeonsu Jeon|Sungwon Jeon|Oksung Chung|Jho Sungwoong|JeHoon Jun|Hak-Min Kim|Yongsoo Cho|Changhan Yoon|Seungwoo Lee|Jung-Hoon Kang|Jong-Deock Lim|Junghwa An|Yun Sung Cho|Doug-Young Ryu|Jong Bhak The Genomics Institute, Ulsan National Institute of Science and Technology, Republic of Korea;|Personal Genomics Institute, Genome Research Foundation, Republic of Korea;|Research Institute for Veterinary Sci. & College of Veterinary Med., Seoul National University;|National Research Institute of Cultural Heritage, Republic of Korea;|Animal Resources Division, National Institute of Biological Resources, Republic of Korea
http://dx.doi.org/10.1101/130740 2017-04-28 Microbiology CC BY-NC-ND Bacterial Biofilm Formation On Soil Fungi: A Widespread Ability Under Controls Cora Miquel Guennoc|Christophe Rose|Jessy Labbe|Aurelie Deveau INRA - ORNL;|INRA;|ORNL
http://dx.doi.org/10.1101/131763 2017-04-28 Zoology Induction of Reproductive Behaviors by Exogenous Hormones in Captive Southern Rocky Mountain Boreal Toads, Anaxyrus boreas boreas Natalie Emma Calatayud|Amanda Kathryn Mullen|Cecilia Jane Langhorne San Diego Zoo Global;|Mississippi State University
http://dx.doi.org/10.1101/131813 2017-04-28 Physiology Mid-Infrared Free-Electron Laser-Evoked Discharge Of Crayfish Compound Eyes Fumio Shishikura|Heishun Zen|Ken Hayakawa|Yoshimasa Komatsuzaki|Yashushi Hayakawa|Takeshi Sakai|Toshiteru Kii|Hideaki Ohgaki Nihon University;|Kyoto University
http://dx.doi.org/10.1101/131532 2017-04-28 Neuroscience CC BY-NC-ND Rapid Whole Brain Imaging Of Neural Activities In Freely Behaving Larval Zebrafish Lin Cong|Zeguan Wang|Yuming Chai|Wei Hang|Chunfeng Shang|Wenbin Yang|Lu Bai|Jiulin Du|Kai Wang|Quan Wen Institute of Neuroscience, Chinese Academy of Sciences;|University of Science and Technology of China
http://dx.doi.org/10.1101/131995 2017-04-28 Genetics CC BY High-resolution mapping of heteroduplex DNA formed in UV-induced and spontaneous mitotic recombination events in yeast Yi Yin|Margaret Dominska|Eunice Yim|Thomas D. Petes Duke University, United States
http://dx.doi.org/10.1101/131623 2017-04-28 Neuroscience Altered Expression Of A Unique Set Of Genes Reveals Complex Etiology Of Schizophrenia Ashutosh Kumar|Himanshu Narayan Singh|Vikas Pareek|Khursheed Raza|Pavan Kumar|Muneeb A. Faiq|Sankat Mochan|Subrahamanyam Dantham|Ashish Datt Upadhyaya All India Institute of Medical Sciences (AIIMS), New Delhi, India;|Institute of Genomics and Integrated Biology (IGIB), New Delhi-110025;|National Brain Research Centre (NBRC), Manesar, Haryana-122001, India;|All India Institute of Medical Sciences (AIIMS). New Delhi-110029, India;|Indian Council of Medical Research (ICMR), New Delhi-110077, India
http://dx.doi.org/10.1101/132076 2017-04-28 Genomics CC BY-NC-ND Intragenomic Redistribution Of Host Transcription Factor Binding With Toxoplasma gondii Infection Netha Ulahannan|Masako Suzuki|Claudia A. Simoes-Pires|Zofia Wicik|N. Ari Wijetunga|Matthew McKnight Croken|Sanchari Bhattacharyya|Andrew D. Johnston|Yu Kong|Shahina B. Maqbool|Amit Verma|John M. Greally Albert Einstein College of Medicine
http://dx.doi.org/10.1101/132092 2017-04-28 Cancer Biology N-(3-Oxododecanoyl)-L-Homoserine Lactone Interactions In The Breast Tumor Microenvironment: Implications For Breast Cancer Viability And Proliferation In Vitro Brittany N. Balhouse|Logan Patterson|Eva M. Schmelz|Daniel J. Slade|Scott S. Verbridge Virginia Tech;|University of Virginia
http://dx.doi.org/10.1101/131516 2017-04-28 Neuroscience CC BY-NC-ND 10-Month-Old Infants Are Sensitive To The Time Course Of Perceived Actions: Evidence From A Study Combining Eye-tracking And EEG Cathlee Bache|Anne Springer|Hannes Noack|Waltraud Stadler|Franziska Kopp|Ulman Lindenberger|Markus Werkle-Bergner Max Planck Institute for Human Development;|University of Basel;|University of Tubingen;|Technische Universitat Munchen
http://dx.doi.org/10.1101/131755 2017-04-28 Developmental Biology C. elegans Flavin Monooxygenases Regulate C. elegans Axon Guidance and Growth Cone Protrusion with UNC-6/Netrin signaling and Rac GTPases Mahekta R. Gujar|Aubrie M. Stricker|Erik A. Lundquist The University of Kansas
http://dx.doi.org/10.1101/131748 2017-04-28 Genetics CC BY-NC-ND Genomic and chromatin features shaping meiotic double-strand break formation and repair in mice Shintaro Yamada|Seoyoung Kim|Sam E Tischfield|Julian Lange|Maria Jasin|Scott Keeney Memorial Sloan Kettering Cancer Center;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/127860 2017-04-28 Genomics CC BY Single-cell analysis of clonal dynamics in direct lineage reprogramming: a combinatorial indexing method for lineage tracing Brent A Biddy|Sarah E Waye|Tao Sun|Samantha A Morris Washington University in St Louis
http://dx.doi.org/10.1101/132050 2017-04-28 Cell Biology CC BY-NC-ND Real-Time Observation Of Light-Controlled Transcription In Living Cells Anne Rademacher|Fabian Erdel|Jorge Trojanowski|Karsten Rippe German Cancer Research Center (DKFZ) & Bioquant
http://dx.doi.org/10.1101/131987 2017-04-28 Cancer Biology CC BY NFATc2 enhances tumor-initiating phenotypes through the NFATc2/SOX2/ALDH axis in lung adenocarcinoma Zhi-Jie XIAO|Jing Liu|Si-Qi Wang|Yun Zhu|Xu-Yuan Gao|Vicky Pui-Chi Tin|Jing Qin|Jun-Wen Wang|Maria Pik Wong The Chinese University of Hong Kong;|Arizona State University
http://dx.doi.org/10.1101/131599 2017-04-28 Developmental Biology TGF(beta) Mediated Structural Remodeling Facilitates Optic Fissure Fusion And The Necessity Of BMP Antagonism In This Process Max D. Knickmeyer|Juan L. Mateo|Priska Eckert|Eleni Roussa|Belal Rahhal|Aimee Zuniga|Kerstin Krieglstein|Joachim Wittbrodt|Stephan Heermann Institute for Anatomy and Cell Biology, Medical Faculty, University Freiburg;|Departamento de Informatica, Universidad de Oviedo;|Developmental Genetics, University of Basel Medical School;|Centre for Organismal Studies, Heidelberg
http://dx.doi.org/10.1101/131870 2017-04-29 Clinical Trials Topical Silver Diamine Fluoride For Dental Caries Arrest In Preschool Children: A Randomized Controlled Trial Peter Milgrom|Jeremy A. Horst|Sharity Ludwig|Marilynn Rothen|Benjamin W. Chaffee|Svetlana Lyalina|Katherine Pollard|Joseph L. DeRisi|Lloyd Mancl University of Washington;|UCSF;|Advantage Dental Services
http://dx.doi.org/10.1101/130658 2017-04-29 Epidemiology CC BY Assessing The Dynamics And Control Of Droplet- and Aerosol-Transmitted Influenza Using An Indoor Positioning System Timo Smieszek|Gianrocco Lazzari|Marcel Salathe Public Health England;|Ecole Polytechnique Fédérale de Lausanne (EPFL)
http://dx.doi.org/10.1101/130724 2017-04-29 Epidemiology Estimating Effects Of Second Line Therapy For Type 2 Diabetes Mellitus: Retrospective Cohort Study Assaf Gottlieb|Chen Yanover|Amos Cahan|Yaara Goldschmidt University of Texas Health Science Center in Houston;|IBM Research - Haifa
http://dx.doi.org/10.1101/132019 2017-04-29 Epidemiology CC BY Causal epigenome-wide association study identifies CpG sites that influence cardiovascular disease risk Tom G Richardson|Jie Zheng|George Davey Smith|Nicholas J Timpson|Tom R Gaunt|Caroline L Relton|Gibran Hemani University of Bristol
http://dx.doi.org/10.1101/132274 2017-04-29 Bioengineering CC BY-NC-ND Reading canonical and modified nucleotides in 16S ribosomal RNA using nanopore direct RNA sequencing Andrew M Smith|Miten Jain|Logan Mulroney|Daniel R Garalde|Mark Akeson University of California - Santa Cruz;|Oxford Nanopore Technologies
http://dx.doi.org/10.1101/131698 2017-04-29 CC BY Evolutionarily Conserved Roles For Blood-Brain Barrier Xenobiotic Transporters In Endogenous Steroid Partitioning And Behavior Samantha Hindle|Roeben Munji|Elena Dolghih|Garrett Gaskins|Souvinh Orng|Hiroshi Ishimoto|Allison Soung|Michael DeSalvo|Toshihiro Kitamoto|Michael Keiser|Matthew Jacobson|Richard Daneman|Roland Bainton University of California, San Francisco;|University of California, San Diego;|Nagoya University;|University of Iowa
http://dx.doi.org/10.1101/132357 2017-04-29 CC BY Signaling Pathway Activities Improve Prognosis for Breast Cancer Yunlong Jiao|Marta R. Hidalgo|Cankut Cubuk|Alicia Amadoz|Jose Carbonell-Caballero|Jean-Philippe Vert|Joaquin Dopazo MINES ParisTech, PSL Research University, Centre for Computational Biology;|Computational Genomics Department, Centro de Investigacion Principe Felipe;|Clinical Bioinformatic Research Area, Fundacion Progreso y Salud;|MINES ParisTech
http://dx.doi.org/10.1101/132324 2017-04-29 Universal Patterns Of Selection In Cancer And Somatic Tissues Inigo Martincorena|Keiran M. Raine|Moritz Gerstung|Kevin J. Dawson|Kerstin Haase|Peter Van Loo|Helen Davies|Michael R. Stratton|Peter J. Campbell Wellcome Trust Sanger Institute;|European Bioinformatics Institute EMBL-EBI;|The Francis Crick Institute
http://dx.doi.org/10.1101/131540 2017-04-29 Immunology CC BY Mycophenolate mofetil increases susceptibility to opportunistic fungal infection independent of lymphocytes Rory H Gibson|Richard Hotham|Aleksandra Bojarczuk|Amy Lewis|Ewa Bielska|Robin C May|Philip Elks|Stephen A Renshaw|Simon A Johnston University of Sheffield;|University of Birmingham
http://dx.doi.org/10.1101/132282 2017-04-29 Microbiology The effector TepP mediates the recruitment and activation of Phosphoinositide 3 Kinase on early Chlamydia trachomatis vacuoles Raphael H Valdivia|Victoria Carpenter|Yi-Shan Chen|Lee Dolat Duke University School of Medicine
http://dx.doi.org/10.1101/122648 2017-04-29 Biochemistry CC BY-NC-ND Structure Of The Cpf1 Endonuclease R-Loop Complex After Target DNA Cleavage Stefano Stella|Pablo Alcon|Guillermo Montoya Protein Struct. & Funct. Programme, Macromolec. Crystallography Grp., Novo Nordisk Found.
http://dx.doi.org/10.1101/129353 2017-04-29 Plant Biology CC BY Ranking quantitative resistance to Septoria tritici blotch in elite wheat cultivars using automated image analysis Petteri Karisto|Andreas Hund|Kang Yu|Jonas Anderegg|Achim Walter|Fabio Mascher|Bruce A. McDonald|Alexey Mikaberidze Institute of Integrative Biology, ETH Zurich;|Institute for Plant Production Sciences, Agroscope, Nyon, Switzerland
http://dx.doi.org/10.1101/129213 2017-04-30 Proof of concept: Molecular prediction of schizophrenia risk Anna R. Docherty|Arden Moscati|Daniel E. Adkins|Gemma T. Wallace|Gaurav Kumar|Brien P. Riley|Aiden Corvin|F. Anthony O'Neill|Michael Gill|Kenneth S. Kendler|Patrick F. Sullivan|Ayman H. Fanous|Silviu-Alin Bacanu Department of Psychiatry, University of Utah School of Medicine;|Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University;|Center for Biomarker Research and Personalized Medicine, Virginia Commonwealth University;|Trinity Translational Medicine Institute, Trinity College Dublin;|Queen's University Belfast;|Departments of Genetics and Psychiatry, UNC-Chapel Hill
http://dx.doi.org/10.1101/132373 2017-04-30 CC BY-NC Multiple P450s And Variation In Neuronal Genes Underpins The Response To The Insecticide Imidacloprid In A Population Of Drosophila melanogaster Shane Denecke|Roberto Fusetto|Felipe Martelli|Alex Giang|Paul Battlay|Alexandre Fournier-Level|Richard O'Hair|Philip Batterham The University of Melbourne
http://dx.doi.org/10.1101/132498 2017-04-30 CC BY Bistability In Fluorescence From A Purple Non-Sulfur Bacteria Anirban Bose|Sufi O. Raja|Sanhita Ray|Anjan Kr. Dasgupta Calcutta University;|Institute for Stem Cell Biology and Regenerative Medicine (inStem);|University of Calcutta
http://dx.doi.org/10.1101/132472 2017-04-30 CC BY-ND Meiotic Genes In Colpodean Ciliates Support Secretive Sexuality Micah Dunthorn|Rebecca A. Zufall|Jingyun Chi|Konrad Paszkiewicz|Karen Moore|Frederic Mahe University of Kaiserslautern;|University of Houston;|University of Exeter
http://dx.doi.org/10.1101/132399 2017-04-30 CC BY-NC-ND A horizontally transferred autonomous Helitron became a full polydnavirus segment in Cotesia vestalis Pedro Heringer|Guilherme Dias|Gustavo C. S. Kuhn Universidade Federal de Minas Gerais
http://dx.doi.org/10.1101/132522 2017-04-30 Caterpillars lack a resident gut microbiome Tobin J Hammer|Daniel H Janzen|Winnifred Hallwachs|Samuel L Jaffe|Noah Fierer University of Colorado at Boulder;|University of Pennsylvania;|The Caterpillar Lab
http://dx.doi.org/10.1101/132530 2017-04-30 CC BY-NC-ND Niche filtering, not interspecific resource competition, explains the co-occurrence of butterfly species across the Japanese archipelago Ryosuke Nakadai|Koya Hashimoto|Takaya Iwasaki|Yasuhiro Sato Faculty of Science, University of the Ryukyus;|Center for Ecological Research, Kyoto University;|Faculty of Science, Kanagawa University;|Faculty of Agriculture, Ryukoku University
http://dx.doi.org/10.1101/132381 2017-04-30 CC BY Rapid DNA Re-Identification for Cell Line Authentication and Forensics Sophie Zaaijer|Yaniv Erlich|Daniel Speyer|Robert Piccone|Assaf Gordon New York Genome Center/Columbia University, United States;|Columbia University, United States;|New York Genome Center, United States
http://dx.doi.org/10.1101/132464 2017-04-30 Comparative Genomics Of Two Sequential Candida glabrata Clinical Isolates Luis Andre Vale-Silva|Emmanuel Beaudoing|Van Du T. Tran|Dominique Sanglard University of Lausanne and University Hospital Center;|University of Lausanne;|Swiss Institute of Bioinformatics
http://dx.doi.org/10.1101/131300 2017-04-30 Secondary Osteons Scale Allometrically In Mammalian Humerus And Femur Alessandro A. Felder|Carina Phillips|Hannah Cornish|Martyn Cooke|John R. Hutchinson|Michael Doube The Royal Veterinary College;|The Royal College of Surgeons of England
http://dx.doi.org/10.1101/132407 2017-04-30 CC BY The Evolution Of Covert Signaling Paul E. Smaldino|Thomas J. Flamson|Richard McElreath University of California, Merced;|Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/132506 2017-04-30 Three-Dimensional Two-Photon Optogenetics And Imaging Of Neural Circuits In Vivo Weijian Yang|Luis Carrillo-Reid|Yuki Bando|Darcy S. Peterka|Rafael Yuste Columbia University
http://dx.doi.org/10.1101/132456 2017-04-30 Molecular Biology CC BY-NC Transcription Factors Orchestrate Dynamic Interplay Between Genome Topology And Gene Regulation During Cell Reprogramming Ralph Stadhouders|Enrique Vidal|Francois Serra|Bruno Di Stefano|Francois Le Dily|Javier Quilez|Antonio Gomez|Samuel Collombet|Clara Berenguer|Yasmina Cuartero|Jochen Hecht|Guillaume Filion|Miguel Beato|Marc A. Marti-Renom|Thomas Graf Centre for Genomic Regulation (CRG);|Harvard Stem Cell Institute;|IBENS
http://dx.doi.org/10.1101/132431 2017-04-30 Developmental Biology Cells From The Same Lineage Switch From Reduction To Enhancement Of Size Variability In Arabidopsis Sepals Satoru Tsugawa|Nathan Hervieux|Daniel Kierzkowski|Anne-Lise Routier-Kierzkowska|Aleksandra Sapala|Olivier Hamant|Richard S. Smith|Adrienne H. K. Roeder|Arezki Boudaoud|Chun-Biu Li Riken;|University of Cambridge;|Max Planck Institute for Plant Breeding Research;|ENS de Lyon;|Cornell University;|Stockholm University
http://dx.doi.org/10.1101/132423 2017-04-30 Neuroscience CC BY-NC-ND A High Resolution Whole Brain Imaging Using Oblique Light Sheet Tomography Arun Narasimhan|Judith Mizrachi|Kannan Umadevi Venkatraju|Dinu F. Albeanu|Pavel Osten Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/133512 2017-05-02 CC BY-NC-ND Exon-Based Phylogenomics Strengthens The Phylogeny Of Neotropical Cichlids And Identifies Remaining Conflicting Clades (Cichlomorphae: Cichlidae: Cichlinae) Katriina L. Ilves|Dax Torti|Hernan Lopez-Fernandez Pace University;|Ontario Institute for Cancer Research;|Royal Ontario Museum
http://dx.doi.org/10.1101/133488 2017-05-02 CC BY-NC Network Dynamics In The Healthy And Epileptic Developing Brain Richard E. Rosch|Torsten Baldeweg|Friederike Moeller|Gerold Baier University College London;|Great Ormond Street Hospital
http://dx.doi.org/10.1101/133462 2017-05-02 CC BY BugBase Predicts Organism Level Microbiome Phenotypes Tonya Ward|Jake Larson|Jeremy Meulemans|Ben Hillmann|Joshua Lynch|Dimitri Sidiropoulos|John Spear|Greg Caporaso|Ran Blekhman|Rob Knight|Ryan Fink|Dan Knights University of Minnesota;|Colorado School of Mines;|Northern Arizona University;|University of California San Diego;|St. Cloud State University
http://dx.doi.org/10.1101/133413 2017-05-02 Deep Sequencing: Intra-Terrestrial Metagenomics Illustrates The Potential Of Off-Grid Nanopore DNA Sequencing Arwyn Edwards|Andre Soares|Sara Rassner|Paul Green|Joao Felix|Andrew Mitchell Aberystwyth University;|National Museums of Wales:The Big Pit;|Cardiff University
http://dx.doi.org/10.1101/133207 2017-05-02 Scientific Communication and Education A Universal Metric For Evaluating, Optimising And Benchmarking The Performance Of A Research Technology Platform (RTP) Anna M. Petrunkina|Andrew Filby University of Cambridge;|Newcastle University
http://dx.doi.org/10.1101/133348 2017-05-02 Developmental Biology Concentration Dependent Chromatin States Induced by the Bicoid Morphogen Gradient Colleen E Hannon|Shelby A Blythe|Eric F Wieschaus Princeton University;|Princeton University/HHMI
http://dx.doi.org/10.1101/133025 2017-05-02 Neuroscience CC BY-NC Hebbian Learning in a Random Network Captures Selectivity Properties of Prefrontal Cortex Grace W Lindsay|Mattia Rigotti|Melissa R. Warden|Earl K Miller|Stefano Fusi Columbia University;|IBM T. J. Watson Research Center;|Cornell University;|MIT
http://dx.doi.org/10.1101/132951 2017-05-02 Bioinformatics CC BY-NC-ND Coal-Miner: A Coalescent-Based Method For GWA Studies Of Quantitative Traits With Complex Evolutionary Origins Hussein A. Hejase|Natalie Vande Pol|Gregory M. Bonito|Patrick P. Edger|Kevin J. Liu Michigan State University
http://dx.doi.org/10.1101/132993 2017-05-02 Biophysics CC BY Statistical Mechanics Of Phase Space Partitioning In Large-Scale Spiking Neuron Circuits Maximilian Puelma Touzel|Fred Wolf Ecole Normale Superieure;|Max Planck Institute for Dynamics and Self-Organization
http://dx.doi.org/10.1101/133108 2017-05-02 Bioinformatics CC BY Gene annotation bias impedes biomedical research Winston Haynes|Aurelie Tomczak|Purvesh Khatri Stanford University
http://dx.doi.org/10.1101/133314 2017-05-02 Neuroscience CC BY Advanced Lesion Symptom Mapping Analyses And Implementation As BCBtoolkit Chris Foulon|Leonardo Cerliani|Serge Kinkingnehun|Richard Levy|Charlotte Rosso|Marika Urbanski|Emmanuelle Volle|Michel Thiebaut de Schotten Brain Connectivity and Behaviour Laboratory;|Frontlab;|Centre de Neuroimagerie de l'ICM
http://dx.doi.org/10.1101/133181 2017-05-02 Microbiology Redox-Dependent Condensation Of Mycobacterial Genome By WhiB4 Manbeena Chawla|Mansi Mehta|Pankti Parikh|Saurabh Mishra|Prashant Shukla|Priyanka Baloni|Manika Vij|H. N. Verma|Munia Ganguli|Nagasuma Chandra|Amit Singh IISc;|CSIR-Institute of Genomics and Integrative Biology, South Campus;|Jaipur National University;|Indian Institute of Science
http://dx.doi.org/10.1101/132605 2017-05-02 Neuroscience CC BY Extracting Saccades From Eye Movements Triggered By Reflex Blinks Uday K. Jagadisan|Neeraj J. Gandhi University of Pittsburgh
http://dx.doi.org/10.1101/132514 2017-05-02 Neuroscience CC BY Population Temporal Structure Supplements The Rate Code During Sensorimotor Transformations Uday K. Jagadisan|Neeraj J. Gandhi University of Pittsburgh
http://dx.doi.org/10.1101/133330 2017-05-02 Neuroscience CC BY Recurrent Convolutional Neural Networks: A Better Model Of Biological Object Recognition Under Occlusion Courtney Spoerer|Patrick McClure|Nikolaus Kriegeskorte MRC Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/133405 2017-05-02 Zoology CC BY-NC-ND Carrion Fly-Derived DNA Metabarcoding Is An Effective Tool For Mammal Surveys: Evidence From A Known Tropical Mammal Community Torrey W. Rodgers|Charles Xu|Jacalyn Giacalone|Karen Kapheim|Kristin Saltonstall|Marta Vargas|Douglas Yu|Panu Somervuo|W. Owen McMillan|Patrick Jansen Utah State University;|University of Notre Dame;|Montclair State University;|Smithsonian Tropical Research Institute;|Kunming Institute of Zoology;|University of Helsinki
http://dx.doi.org/10.1101/133033 2017-05-02 Microbiology CC BY-NC-ND A Supervised Statistical Learning Approach For Accurate Legionella pneumophila Source Attribution During Outbreaks Andrew Buultjens|Kyra Chua|Sarah Baines|Jason Kwong|Wei Gao|Zoe Cutcher|Stuart Adcock|Susan Ballard|Takehiro Tomita|Nela Subasinghe|Glen Carter|Sacha Pidot|Lucinda Franklin|Torsten Seemann|Anders Goncalves Da Silva|Benjamin Howden|Timothy Stinear University of Melbourne;|Department of Health and Human Services, Victoria, Australia
http://dx.doi.org/10.1101/132936 2017-05-02 Neuroscience CC BY A unified internal model theory to resolve the paradox of active versus passive self-motion sensation Jean Laurens|Dora E Angelaki Baylor College of Medicine, United States
http://dx.doi.org/10.1101/133066 2017-05-02 Animal Behavior and Cognition CC BY-NC-ND Perceived closeness and autistic traits modulate interpersonal vocal communication Olivia Spinola|T.A. Sumathi|Nandini Chatterjee Singh|Bhismadev Chakrabarti Universita` degli Studi di Milano Bicocca;|National Brain Research Centre, India;|University of Reading
http://dx.doi.org/10.1101/133298 2017-05-02 Biochemistry Stable Membrane Topologies Of Small Dual-Topology Membrane Proteins Nir Fluman|Victor Tobiasson|Gunnar von Heijne Stockholm University
http://dx.doi.org/10.1101/133272 2017-05-02 Neuroscience CC BY-NC-ND Focal Versus Distributed Temporal Cortex Activity For Speech Sound Category Assignment Sophie Bouton|Valerian Chambon|Remi Tyrand|Adrian G. Guggisberg|Margitta Seeck|Sami Karkar|Dimitri van de Ville|Anne-Lise Giraud University of Geneva - Biotech Campus;|Ecole Normale Superieure & PSL Research University;|University of Geneva - HUG;|Ecole Centrale de Lyon;|EPFL - Biotech Campus
http://dx.doi.org/10.1101/133157 2017-05-02 Bioinformatics CC BY LEAP: A Generalization Of The Landau-Vishkin Algorithm With Custom Gap Paneities Hongyi Xin|Jeremie Kim|Sunny Nahar|Carl Kingsford|Can Alkan|Onur Mutlu Carnegie Mellon University;|Bilkent University;|ETH Zurich
http://dx.doi.org/10.1101/133371 2017-05-02 Neuroscience CC BY-NC NMDA receptor blockade causes selective prefrontal disinhibition in a roving auditory oddball paradigm Richard E Rosch|Ryszard Auksztulewicz|Pui Duen Leung|Karl J Friston|Torsten Baldeweg University College London;|University of Oxford
http://dx.doi.org/10.1101/133363 2017-05-02 Neuroscience Reverse Engineering of Trascriptional Networks Uncovers Candidate Master Regulators Governing Neuropathology of Schizophrenia Abolfazl Doostparast Torshizi|Chris Armoskus|Siwei Zhang|Winton Moy|Oleg V Evgrafov|Jubao Duan|James A Knowles|Kai Wang Institute for Genomic Medicine, Columbia University;|Zilkhe Neurogenetic Institute, University of Southern California;|Center for Psychiatric Genetics, North Shore University Health System and The University of Chicago
http://dx.doi.org/10.1101/133249 2017-05-02 Pathology CC BY-NC-ND Glioma Grade Map: A Machine-Learning Based Imaging Biomarker For Tumor Characterization Andras Jakab|Peter P. Molnar|Miklos Emri|Ervin Berenyi University Children's Hospital Zurich;|Institute of Pathology, Faculty of Medicine, University of Debrecen;|Department of Nuclear Medicine, Faculty of Medicine, University of Debrecen;|Dept. of Biomedical Laboratory and Imaging Science, University of Debrecen
http://dx.doi.org/10.1101/133223 2017-05-02 Cell Biology Mitochondria Are Physiologically Maintained At Close To 50 C Dominique Chretien|Paule Benit|Hyung-Ho Ha|Susanne Keipert|Riyad El-Khoury|Young-Tae Chang|Martin Jastroch|Howard Jacobs|Pierre Rustin|Malgorzata Rak Inserm UMR 1141, France;|Sunchon National University, Republic of Korea;|Helmholtz Centre Munich, Germany;|American University of Beirut Medical Center, Beirut, Lebanon;|National University of Singapore, Singapore;|University of Helsinki, Finland
http://dx.doi.org/10.1101/133264 2017-05-02 Molecular Biology CC BY-NC-ND Negative Correlation Between The Expression Of tlr4 And grp78 Is Characteristic Of Sepsis Onset And Progression Razvan Stan|Camila Bonin|Rose Porto|Francisco Soriano|Maristela M. de Camargo University of Sao Paulo
http://dx.doi.org/10.1101/133165 2017-05-02 Systems Biology Network Reconstruction And Systems Analysis Of Plant Cell Wall Deconstruction By Neurospora crassa Areejit Samal|James P. Craig|Samuel T. Coradetti|J. Philipp Benz|James A. Eddy|Nathan D. Price|N. Louise Glass Institute for Systems Biology, Seattle, WA 98109, USA;|Energy Biosciences Institute, University of California Berkeley, Berkeley, CA 94704, USA;|Univ. of California, Berkeley
http://dx.doi.org/10.1101/133173 2017-05-02 Bioinformatics CC BY Splatter: Simulation Of Single-Cell RNA Sequencing Data Luke Zappia|Belinda Phipson|Alicia Oshlack Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/133215 2017-05-02 Bioinformatics CC BY-ND The Landscape Of Human Mutually Exclusive Splicing Klas Hatje|Ramon Vidal|Raza-Ur Rahman|Dominic Simm|Bjoern Hammesfahr|Orr Shomroni|Martin Kollmar|Stefan Bonn Roche Pharmaceutical Research and Early Development;|DZNE;|University of Goettingen;|MPI for Biophysical Chemistry
http://dx.doi.org/10.1101/132761 2017-05-02 Bioinformatics CC BY Identifying differential isoform abundance with RATs: a universal tool and a warning Kimon Froussios|Kira Mourao|Gordon G Simpson|Geoffrey J Barton|Nicholas J Schurch University of Dundee
http://dx.doi.org/10.1101/132811 2017-05-02 Bioinformatics CC BY-NC-ND FORKS: Finding Orderings Robustly using K-means and Steiner trees Mayank Sharma|Huipeng Li|Debarka Sengupta|Shyam Prabhakar|Jayadeva Jayadeva Indian Institute of Technology, Delhi;|Genome Institute of Singapore;|Indraprasth Institute of Information Technology, Delhi
http://dx.doi.org/10.1101/133041 2017-05-02 Bioinformatics CC BY PaperBLAST: Text-mining papers for information about homologs Morgan N Price|Adam P. Arkin Lawrence Berkeley Lab
http://dx.doi.org/10.1101/133116 2017-05-02 Bioinformatics CC BY-ND Metagenomic binning through low density hashing Yunan Luo|Y. William Yu|Jianyang Zeng|Bonnie Berger|Jian Peng University of Illinois;|Massachusetts Institute of Technology;|Tsinghua University;|MIT
http://dx.doi.org/10.1101/133090 2017-05-01 Neuroscience CC BY Morphine selectively promotes glutamate release from glutamatergic terminals of projection neurons from medial prefrontal cortex to dopamine neurons of ventral tegmental area Ping Zheng|Li Yang|Ming Chen Fudan University, China;|Fudan Univeristy, China
http://dx.doi.org/10.1101/133082 2017-05-01 Biophysics Cell-cycle dependent organization and dynamics of RNA Polymerase I in live human cells William Conway|Won-Ki Cho|Namrata Jayanth|Susan Mullen|Ibrahim I Cisse MIT
http://dx.doi.org/10.1101/133124 2017-05-01 Developmental Biology Dense Bicoid Hubs Accentuate Binding along the Morphogen Gradient Mustafa Mir|Armando Reimer|Jenna E. Haines|Xiao-Yong Li|Michael Stadler|Hernan Garcia|Michael E. Eisen|Xavier Darzacq University of California, Berkeley
http://dx.doi.org/10.1101/133058 2017-05-01 Bioinformatics CC BY-NC-ND BasecRAWller: Streaming Nanopore Basecalling Directly from Raw Signal Marcus Stoiber|James Brown Lawrence Berkeley National Laboratory;|Lawrence Berekeley National Laboratory
http://dx.doi.org/10.1101/133074 2017-05-01 Cell Biology CC BY-NC-ND Distinct features of multivesicular body-lysosome fusion revealed by a new cell-free content-mixing assay Mahmoud Abdul Karim|Sevan Mattie|Christopher Brett Concordia University;|McGill University
http://dx.doi.org/10.1101/132795 2017-05-01 Bioinformatics CC BY-NC-ND FastNet: Fast and accurate inference of phylogenetic networks using large-scale genomic sequence data Hussein Hejase|Natalie VandePol|Gregory A Bonito|Kevin J Liu Michigan State University
http://dx.doi.org/10.1101/132928 2017-05-01 Bioinformatics AASRA: An Anchor Alignment-Based Small RNA Annotation Pipeline Chong Tang|Yeming Xie|Wei Yan University of Nevada, Reno School of Medicine
http://dx.doi.org/10.1101/132985 2017-05-01 Genomics CC BY-NC-ND Contribution Of Genetic Variation And Developmental Stage To Methylome Dynamics In Myeloid Differentiation Xiang Chen|Yiping Fan|Jinjun Cheng|Beisi Xu|Yong-Dong Wang|Donald Yergeau|John Easton|James R. Downing|JInghui Zhang St. Jude Children's Research Hospital
http://dx.doi.org/10.1101/132837 2017-05-01 Neuroscience CC BY-NC-ND Platelet Phosphorylated TDP-43: An Exploratory Study For A Peripheral Surrogate Biomarker Development For Alzheimer's Disease Rodger Wilhite|Jessica M. Sage|Abdurrahman Bouzid|Tyler Primavera|Abdulbaki Agbas Kansas City University of Medicine and Biosciences
http://dx.doi.org/10.1101/133009 2017-05-01 Bioinformatics CC BY-NC-ND piClusterBusteR: Software For Automated Classification And Characterization Of piRNA Cluster Loci Patrick A. Schreiner|Peter Atkinson University of California, Riverside
http://dx.doi.org/10.1101/132977 2017-05-01 Neuroscience CC BY-NC-ND Long-Lasting Contribution Of Dopamine In The Nucleus Accumbens Core, But Not Dorsal Lateral Striatum, To Sign-Tracking Kurt Michael Fraser|Patricia H. Janak Johns Hopkins University;|Johns Hopkins University; Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/132829 2017-05-01 Neuroscience CC BY Policies or Knowledge: Priors differ between perceptual and sensorimotor tasks Claire Chambers|Hugo Fernandes|Konrad Kording Northwestern University
http://dx.doi.org/10.1101/132894 2017-05-01 Genomics CC BY Population Genomics Of Cryptococcus neoformans var. grubii Reveals New Biogeographic Relationships And Finely Maps Hybridization Johanna Rhodes|Christopher A. Desjardins|Sean M. Sykes|Mathew A. Beale|Mathieu Vanhove|Sharadha Sakthikumar|Yuan Chen|Sharvari Gujja|Sakina Saif|Anuradha Chowdhary|Daniel John Lawson|Vinicius Ponzio|Arnaldo Colombo|Wieland Meyer|David Engelthaler|Ferry Hagen|Maria Teresa Illnait-Zaragozi|Alexandre Alanio|Jo-Marie Vreulink|Joseph Heitman|John R. Perfect|Anastasia Litvintseva|Tihana Bicanic|Thomas S. Harrison|Matthew C. Fisher|Christina A. Cuomo Imperial College London;|Broad Institute;|Wellcome Trust Sanger Institute;|Duke University Medical Center;|Vallabhbhai Patel Chest Institute, University of Delhi;|University of Bristol;|Federal University of Sao Paulo;|University of Sydney, Westmead Institute for Medical Research;|Translational Genomics Research Institute;|Canisius-Wilhelmina Hospital;|Instituto de Medicina Tropical Pedro Kouri;|Institut Pasteur;|Stellenbosch University;|Duke Univeristy Medical Center;|St. Georges University London
http://dx.doi.org/10.1101/132878 2017-05-01 Evolutionary Biology CC BY-ND Disparity, Diversity, And Duplications In The Caryophyllales Stephen Smith|Caroline Parins-Fukuchi|Ya Yang|Michael Moore|Samuel F. Brockington|Riva Bruenn|Chloe P. Drummond|Joseph W. Brown|Joseph F. Walker|Noah Last|Norman A. Douglas University of Michigan;|University of Minnesota;|Oberlin College;|University of Cambridge;|University of California;|University of Wisconsin;|University of Florida
http://dx.doi.org/10.1101/132746 2017-05-01 Neuroscience CC BY Distance Is Not Everything In Imaging Genomics Of Functional Networks: Reply To A Commentary On Correlated Gene Expression Supports Synchronous Activity In Brain Networks Jonas Richiardi|Andre Altmann|Michael Greicius University of Geneva;|University College London;|Stanford University
http://dx.doi.org/10.1101/132704 2017-05-01 Neuroscience CC BY-NC-ND In Utero Diffusion Tensor Imaging Of The Fetal Brain: A Reproducibility Study Andras Jakab|Ruth Tuura|Christian Kellenberger|Ianina Scheer University Children's Hospital Zurich
http://dx.doi.org/10.1101/132910 2017-05-01 Zoology CC BY-NC A Migratory Divide In The Painted Bunting (Passerina ciris) C. J. Battey|Ethan B. Linck|Kevin L. Epperly|Cooper French|David L. Slager|Paul W. Sykes|John Klicka University of Washington;|USGS Patuxent Wildlife Research Center;|Burke Museum of Natural History & University of Washington
http://dx.doi.org/10.1101/132787 2017-05-01 Plant Biology CC BY-NC High-Throughput Profiling Identifies Resource Use Efficient And Abiotic Stress Tolerant Sorghum Varieties Kira M. Veley|Jeffrey C. Berry|Sarah J. Fentress|Daniel P. Schachtman|Ivan Baxter|Rebecca Bart Donald Danforth Plant Science Center;|University of Nebraska
http://dx.doi.org/10.1101/132688 2017-05-01 Neuroscience CC BY-NC Identification Of Cellular-Activity Dynamics Across Large Tissue Volumes In The Mammalian Brain Logan M. Grosenick|Michael Broxton|Christina K. Kim|Conor Liston|Ben Poole|Samuel Yang|Aaron S. Andalman|Edward Scharff|Noy Cohen|Ofer Yizhar|Charu Ramakrishnan|Surya Ganguli|Patrick Suppes|Marc Levoy|Karl Deisseroth Stanford University
http://dx.doi.org/10.1101/132621 2017-05-01 Neuroscience CC BY-NC-ND Perceptual Expectations Do Not Modulate Image Repetition Effects As Measured By Event-Related Potentials Daniel Feuerriegel|Owen Churches|Scott Coussens|Hannah A. D. Keage University of Melbourne;|Flinders University;|University of South Australia
http://dx.doi.org/10.1101/132902 2017-05-01 Immunology High-Risk Human Papillomavirus E7 Alters Host DNA Methylome And Represses HLA-E Expression In Human Keratinocytes Louis Cicchini|Rachel Z. Blumhagen|Joseph A. Westrich|Mallory E. Meyers|Cody J. Warren|Charlotte Siska|David Raben|Katerina J. Kechris|Dohun Pyeon University of Colorado School of Medicine;|Colorado School of Public Health
http://dx.doi.org/10.1101/132753 2017-05-01 Ecology CC BY-NC Modeling Zero-Inflated Count Data With glmmTMB Mollie E. Brooks|Kasper Kristensen|Koen J. van Benthem|Arni Magnusson|Casper W. Berg|Anders Nielsen|Hans J. Skaug|Martin Maechler|Benjamin M. Bolker Technical University of Denmark;|University of Zurich;|International Council for the Exploration of the Sea;|University of Bergen;|ETH Zurich;|McMaster University
http://dx.doi.org/10.1101/132555 2017-05-01 Genetics CC BY European Admixture In Chinchorro DNA Robert Smith Independent researcher
http://dx.doi.org/10.1101/132647 2017-05-01 Genetics CC BY-NC-ND Mutual Information Estimation For Transcriptional Regulatory Network Inference Jonathan Ish-Horowicz|John Reid MRC Biostatistics Unit
http://dx.doi.org/10.1101/132175 2017-05-01 Genetics CC BY-NC Widespread Inter-Chromosomal Epistasis Regulates Glucose Homeostasis And Gene Expression Anlu Chen|Liu Yang|Scott M. Williams|Nathan Morris|David A. Buchner Case Western Reserve University
http://dx.doi.org/10.1101/132779 2017-05-01 Cancer Biology Pharmacological inhibition of the DNA damage checkpoint prevents radiation-induced oocyte death Vera D Rinaldi|Kristin Hsieh|Robert Munroe|Ewelina Bolcun-Filas|John C Schimenti Cornell University;|The Jackson Laboratory
http://dx.doi.org/10.1101/132860 2017-05-01 Cell Biology CC BY-NC-ND Deletion Of EP4 In S100a4-Lineage Cells Reduces Scar Tissue Formation During Early But Not Later Stages Of Tendon Healing Jessica E. Ackerman|Katherine T. Best|Regis J. O'Keefe|Alayna Loiselle University of Rochester Medical Center;|Washington University in St. Louis
http://dx.doi.org/10.1101/132670 2017-05-01 Bioinformatics CC BY-NC-ND RGBM: Regularized Gradient Boosting Machines For The Identification of Transcriptional Regulators Of Discrete Glioma Subtypes Raghvendra Mall|Luigi Cerulo|Khalid Kunji|Halima Bensmail|Thais Sabedot|Houtan Noushmehr|Antonio Iavarone|Michele Ceccarelli QCRI, HBKU, Doha, Qatar;|University of Sannio, Italy;|Department of Neurosurgery, Brain Tumor Center, Henry Ford Health System, Detroit, MI, USA;|Dept. of Neurology, Dept. of Pathology, Institute for Cancer Genetics, Columbia University
http://dx.doi.org/10.1101/132563 2017-05-01 Genetics CC BY-NC-ND Translating GWAS Findings Into Therapies For Depression And Anxiety Disorders: Drug Repositioning Using Gene-Set Analyses And Testing For Enrichment Of Psychiatric Drug Classes Hon-Cheong So Chinese University of Hong Kong
http://dx.doi.org/10.1101/132696 2017-05-01 Genomics A High Resolution Atlas Of Gene Expression In The Domestic Sheep (Ovis aries) Emily L. Clark|Stephen J. Bush|Mary E. B. McCulloch|Iseabail L. Farquhar|Rachel Young|Lucas Lefevre|Clare Pridans|Hiu-Gwen Tsang|Mick Watson|Bruce Whitelaw|Thomas Freeman|Kim M. Summers|Alan L. Archibald|David A. Hume University of Edinburgh, The Roslin Institute;|University of Edinburgh, Centre for Synthetic and Systems Biology
http://dx.doi.org/10.1101/132613 2017-05-01 Biochemistry Nucleotide-Driven Triple-State Remodeling Of The AAA-ATPase Channel In The Activated Human 26S Proteasome Yanan Zhu|Wei Li Wang|Daqi Yu|Qi Ouyang|Ying Lu|Youdong Mao Peking University;|Harvard Medical School;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/132654 2017-05-01 Cell Biology CC BY An Anisotropic Attraction Model For The Diversity And Robustness Of Cell Arrangement In Nematodes Kazunori Yamamoto|Akatsuki Kimura SOKENDAI (The Graduate University for Advanced Studies);|National Institute of Genetics
http://dx.doi.org/10.1101/132597 2017-05-01 Bioinformatics Detecting Presence Of Mutational Signatures In Cancer With Confidence Xiaoqing Huang|Damian Wojtowicz|Teresa M. Przytycka National Center of Biotechnology Information, National Library of Medicine, NIH
http://dx.doi.org/10.1101/132571 2017-05-01 Biophysics CC BY-NC High-Density Super-Resolution Microscopy With An Incoherent Light Source And A Conventional Epifluorescence Microscope Setup Kirti Prakash Carnegie Institution for Science
http://dx.doi.org/10.1101/134007 2017-05-03 CC BY Identification and dynamics of the DHHC16-DHHC6 palmitoylation cascade Laurence Abrami|Tiziano Dallavilla|Patrick Sandoz|Mustafa Demir|Beatrice Kunz|Georgios Savoglidis|Vassily Hatzimanikatis|F. Gisou van der Goot Ecole Polytechnique Fédérale de Lausanne;|EPFL
http://dx.doi.org/10.1101/133785 2017-05-03 CC BY-NC-ND A Defense Of Model Averaging Jeffrey A. Walker University of Southern Maine
http://dx.doi.org/10.1101/133967 2017-05-03 CC BY Spike Discharge Prediction Based On Neuro-Fuzzy System Mahdi Zarei UCSF
http://dx.doi.org/10.1101/133983 2017-05-03 Initial-State-Dependent, Robust, Transient Neural Dynamics Encode Conscious Visual Perception Alexis T. Baria|Brian Maniscalco|Biyu J. He Northwestern University;|New York University Langone Medical Center
http://dx.doi.org/10.1101/133975 2017-05-03 CC BY-NC-ND Gene2Function: An Integrated Online Resource For Gene Function Discovery Yanhui Hu|Aram Comjean|Stephanie Mohr|Norbert Perrimon Harvard Medical School
http://dx.doi.org/10.1101/133934 2017-05-03 CC BY SArKS: Discovering Gene Expression Regulatory Motifs And Domains By Suffix Array Kernel Smoothing Dennis C. Wylie|Hans A. Hofmann|Boris V. Zemelman University of Texas at Austin
http://dx.doi.org/10.1101/133777 2017-05-03 CC BY-NC-ND Regulation Of Iron Homeostasis By SPAK-Dependent Modulation Of FBXL5 Stability David N. Powers|Ajay A. Vashisht|Monika Shenouda|Calvin Yao|James A. Wohlschlegel Food and Drug Administration;|Genomics Institute of the Novartis Research Foundation;|UCLA
http://dx.doi.org/10.1101/132886 2017-05-03 Epidemiology CC BY-NC-ND Spatial distribution of extensively drug-resistant tuberculosis (XDR-TB) patients in KwaZulu-Natal, South Africa Thandi Kapwata|Natashia Morris|Neel Gandhi|Angela Campbell|Thuli Mthiyane|Primrose Mpangase|Kristin Nelson|Salim Allana|James Brust|Pravi Moodley|Koleka Mlisana|Sarita Shah Environment and Health Research Unit, South African Medical Research Council, Johannesburg (South;|Biostatistics Unit, South African Medical Research Council, KwaZulu-Natal (South Africa);|Emory University Rollins School of Public Health, Atlanta, GA (USA);|University of KwaZulu-Natal, Durban, KwaZulu-Natal (South Africa);|Albert Einstein College of Medicine and Montefiore Medical Center, Bronx, NY (USA);|U.S. Centers for Disease Control and Prevention, Atlanta, GA (USA)
http://dx.doi.org/10.1101/133421 2017-05-03 Epidemiology Multiscale Modeling To Explore Ebola Vaccination Strategies Van Kinh Nguyen|Rafael Mikolajczyk|Esteban A. Hernandez-Vargas Frankfurt Institute for Advanced Studies;|Helmholtz Centre for Infection Research
http://dx.doi.org/10.1101/132332 2017-05-03 Epidemiology CC BY-NC-ND Diagnostic, Infection Timing and Incidence Surveillance Applications of High Dynamic Range Chemiluminescent HIV Immuno-Assay Platforms Eduard Grebe|Alex Welte|Jake Hall|Sheila M Keating|Shelley N Facente|Kara Marson|Jeffrey N Martin|Susan J Little|Matthew A Price|Esper G Kallas|Michael P Busch|Christopher D Pilcher|Gary Murphy South African Centre for Epidemiological Modelling and Analysis, Stellenbosch University;|Public Health England;|Blood Systems Research Institute;|University of California, San Francisco;|University of California, San Diego;|Division of Clinical Immunology and Allergy, School of Medicine, University of São Paulo
http://dx.doi.org/10.1101/132852 2017-05-03 Epidemiology Polymorphisms in the vitamin D receptor gene are associated with reduced rate of sputum culture conversion in multidrug-resistant tuberculosis patients in South Africa Matthew J Magee|Yan V Sun|James CM Brust|N Sarita Shah|Yuming Ning|Salim Allana|Angela Campbell|Qin Hui|Koleka Mlisana|Pravi Moodley|Neel R Gandhi Div. of Epidemiology and Biostatistics, School of Public Health, Georgia State University, Atlanta;|Department of Epidemiology, Rollins School of Public Health, Emory University, Atlanta, USA;|Divisions of General Internal Medicine and Infectious Diseases, Albert Einstein College of Medicine;|US Centers for Disease Control and Prevention, Atlanta, USA;|School of Laboratory Medicine and Medical Sciences, University of KwaZulu-Natal, Durban, So. Africa
http://dx.doi.org/10.1101/133801 2017-05-03 Neuroscience CC BY-ND Integration And Differentiation Of Neural Information Dissociate Between Conscious Percepts Andres Canales-Johnson|Alexander Billig|Francisco Olivares|Andres Gonzalez|Maria del Carmen Garcia|Walter Silva|Carlos Ciraolo|Esteban Vaucheret|Ezequiel Mikulan|Agustin Ibanez|Valdas Noreika|Srivas Chennu|Tristan Bekinschtein University of Cambridge;|MRC Cognition and Brain Sciences Unit;|Universidad Diego Portales;|Hospital Italiano de Buenos Aires;|Laboratory of Experimental Psychology and Neuroscience (LPEN);|University of Kent
http://dx.doi.org/10.1101/133900 2017-05-03 Evolutionary Biology CC BY-ND Predicting Morphological Disparities In Sea Urchin Skeleton Growth And Form Maria Abou Chakra|Miroslav Lovric|Jon R. Stone University of Toronto;|McMaster University
http://dx.doi.org/10.1101/133918 2017-05-03 Microbiology CC BY-NC The Envelope Proteome Changes Driven By RamA Overproduction in Klebsiella pneumoniae That Enhance Acquired β-Lactam Resistance Juan-Carlos Jimenez-Castellanos|Wan Ahmad Kamil Wan Nur Ismah|Yuiko Takebayashi|Jacqueline Findlay|Thamarai Schneiders|Kate J. Heesom|Matthew B. Avison University of Bristol;|University of Edinburgh
http://dx.doi.org/10.1101/133546 2017-05-03 Cell Biology CC BY-ND COPI Mediates Recycling Of An Exocytic SNARE From Endosomes By Recognition Of A Ubiquitin Sorting Signal Peng Xu|Hannah Hankins|Chris Macdonald|Samuel J. Erlinger|Meredith Frazier|Nicholas S. Diab|Robert C. Piper|Lauren P. Jackson|Jason A. MacGurn|Todd R. Graham Vanderbilt University;|University of Iowa
http://dx.doi.org/10.1101/133694 2017-05-03 Neuroscience CC BY Frequency-Resolved Correlates Of Visual Object Recognition In Human Brain Revealed By Deep Convolutional Neural Networks Ilya Kuzovkin|Raul Vicente|Mathilde Petton|Jean-Philippe Lachaux|Monica Baciu|Philippe Kahane|Sylvain Rheims|Juan R. Vidal|Jaan Aru University of Tartu;|Lyon Neuroscience Research Center;|University Grenoble Alpes;|Inserm;|Hospices Civils de Lyon and Université Lyon
http://dx.doi.org/10.1101/133843 2017-05-03 Genomics CC BY-NC Single Molecule Sequencing Of M13 Virus Genome Without Amplification Luyang Zhao|Liwei Deng|Gailing Li|Huan Jin|Jinsen Cai|Huan Shang|Yan Li|Haomin Wu|Weibin Xu|Lidong Zeng|Renli Zhang|Huan Zhao|Ping Wu|Zhiliang Zhou|Jiao Zheng|Pierre Ezanno|Qin Yan|Michael Deem|Jiankui He Direct Genomics Co., Ltd;|Reproductive Med. Ctr. of Guangdong General Hospital & Guangdong Acad. of Med. Sciences;|Shenzhen Armed Police Hospital Reproductive Center;|Departments of Bioengineering and Physics & Astronomy, Rice University;|Department of Biology, South University of Science and Technology of China
http://dx.doi.org/10.1101/133769 2017-05-03 Neuroscience CC BY-NC-ND The Spectral Features Of EEG Responses To Transcranial Magnetic Stimulation Of The Primary Motor Cortex Depend On The Amplitude Of The Motor Evoked Potentials Matteo Fecchio|Andrea Pigorini|Angela Comanducci|Simone Sarasso|Silvia Casarotto|Isabella Premoli|Alice Mazza|Chiara-Camilla Derchi|Simone Russo|Federico Resta|Fabio Ferrarelli|Maurizio Mariotti|Ulf Ziemann|Marcello Massimini|Mario Rosanova University of Milan;|King's College London;|Ospedale Luigi Sacco;|University of Pittsburgh;|University Tubingen
http://dx.doi.org/10.1101/133496 2017-05-03 Neuroscience CC BY-NC-ND An Efficient Platform For Astrocyte Differentiation From Human Induced Pluripotent Stem Cells Julia TCW|Minghui Wang|Anna Pimenova|Kathryn Bowles|Brigham Hartley|Emre Lacin|Saima Machlovi|Rawan Abdelaal|Celeste Karch|Hemali Phatnani|Paul Slesinger|Bin Zhang|Alison Goate|Kristen Brennand Icahn School of Medicine at Mount Sinai;|New York Genome Center;|Washington University
http://dx.doi.org/10.1101/133751 2017-05-03 Cell Biology ADAM17 Is The Main Sheddase For The Generation Of Human Triggering Receptor Expressed In Myeloid Cells (hTREM2) Ectodomain And Cleaves TREM2 After Histidine 157 Dominik Feuerbach|Patrick Schindler|Carmen Barske|Stefanie Joller|Edwige Beng-Louka|Katie A. Worringer|Sravya Kommineni|Ajamete Kaykas|Daniel J. Ho|Chaoyang Ye|Karl Welzenbach|Gaelle Elain|Laurent Klein|Irena Brzak|Anis K. Mir|Christopher J. Faraday|Reiner Aichholz|Simone Popp|Nathalie George|Christine L. Hsieh|Mary C. Nakamura|Ulf Neumann NIBR;|University of California
http://dx.doi.org/10.1101/133561 2017-05-03 Neuroscience CC BY-NC-ND Stimulus Dependent Diversity And Stereotypy In The Output Of An Olfactory Functional Unit Ezequiel M. Arneodo|Kristina B. Penikis|Neil Rabinowitz|Annika Cichy|Jingji Zhang|Thomas Bozza|Dmitry Rinberg NYU Neuroscience Institute, New York University Langone Medical Center, New York, NY;|Center for Neural Science, New York University, New York, NY;|Department of Neurobiology, Northwestern University, Evanston, IL
http://dx.doi.org/10.1101/133553 2017-05-03 Bioinformatics CC BY-NC-ND UPS-indel: A Universal Positioning System For Indels Mohammad Shabbir Hasan|Xiaowei Wu|Layne T. Watson|Zhiyi Li|Liqing Zhang Virginia Tech
http://dx.doi.org/10.1101/133579 2017-05-03 Bioinformatics CC BY In-Silico Read Normalization Using Set Multi-Cover Optimization Dilip Ariyur Durai|Marcel H. Schulz MPII Saarbrueken and Cluster of Excellence in MMCI, Saarland University, Germany
http://dx.doi.org/10.1101/133736 2017-05-03 Neuroscience CC BY-NC-ND The Superior Colliculus And The Steering Of Saccades Toward A Moving Visual Target Laurent Goffart|Aaron L. Cecala|Neeraj Gandhi CNRS;|Elizabethtown College;|University of Pittsburgh
http://dx.doi.org/10.1101/133538 2017-05-03 Genomics Precision Medicine Screening Using Whole Genome Sequencing And Advanced Imaging To Identify Disease Risk In Adults Bradley A. Perkins|C. Thomas Caskey|Pamila Brar|Eric Dec|David Karow|Andrew Kahn|Claire Hou|Naisha Shah|Debbie Boeldt|Erin Coughlin|Gabby Hands|Victor Lavrenko|James Yu|Andrea Procko|Julia Appis|Anders M. Dale|Lining Guo|Thomas J. Jonsson|Bryan M. Wittmann|Istvan Bartha|Smriti Ramakrishnan|Axel Bernal|James Brewer|Suzanne Brewerton|William H. Biggs|Yaron Turpaz|Amalio Telenti|J. Craig Venter Human Longevity, Inc.;|Baylor College of Medicine;|UCSD School of Medicine;|USCD Neuroscience;|Metabolon;|UCSD Neuroscience
http://dx.doi.org/10.1101/133611 2017-05-03 Neuroscience CC BY-NC-ND Fronto-Parietal Interactions With Task-Evoked Functional Connectivity During Cognitive Control Kai Hwang|James M. Shine|Mark D'Esposito University of California, Berkeley;|The University of Sydney
http://dx.doi.org/10.1101/131128 2017-05-03 Evolutionary Biology Are Global Hotspots Of Endemic Richness Shaped By Plate Tectonics? Loic Pellissier|Christian Heine|Camille Albouy ETH Zuerich/WSL;|EarthByte Group, The University of Sydney, Australia;|IFREMER, 44311 Nantes
http://dx.doi.org/10.1101/133256 2017-05-03 Cancer Biology CC BY-NC-ND A Functional Drug Re-Purposing Screening Identifies Carfilzomib As A Drug Preventing 17β-Estradiol: ERα Signaling And Cell Proliferation In Breast Cancer Cells Claudia Busonero|Stefano Leone|Cinzia Klemm|Filippo Acconcia University Roma TRE;|University of Freiburg
http://dx.doi.org/10.1101/133744 2017-05-03 Cell Biology CC BY-NC-ND ATR Is Required To Complete Meiotic Recombination In Mice Sarai Pacheco|Andros Maldonado-Linares|Marina Marcet-Ortega|Cristina Rojas|Ana Martinez-Marchal|Judit Fuentes-Lazaro|Julian Lange|Maria Jasin|Scott Keeney|Oscar Fernandez-Capetillo|Montserrat Garcia-Caldes|Ignasi Roig Universitat Autonoma de Barcelona;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center;|Memorial Sloan-Kettering Cancer Center;|Spanish National Cancer Research Centre
http://dx.doi.org/10.1101/133710 2017-05-03 Evolutionary Biology CC BY Is It Time To Retire Wolbachia Multilocus Sequence Typing (MLST)? Christoph Bleidorn|Michael Gerth Museo Nacional de Ciencias Naturales;|University of Liverpool
http://dx.doi.org/10.1101/133637 2017-05-03 Biophysics CC BY-NC Self-Organisation And Positioning Of Bacterial Protein Clusters Sean M. Murray|Victor Sourjik Max Planck Institute for Terrestrial Microbiology
http://dx.doi.org/10.1101/133678 2017-05-03 Plant Biology The Floral Homeotic Protein SEPALLATA3 Recognizes Target DNA Sequences By Shape Readout Involving A Conserved Arginine Residue In The MADS-Domain Sandra Gusewski|Rainer Melzer|Florian Ruempler|Christian Gafert|Guenter Theissen Friedrich Schiller University Jena;|University College Dublin
http://dx.doi.org/10.1101/133306 2017-05-03 Genomics CC BY Testing an alternative explanation for relatively greater base-sharing between Neanderthals and non-African humans William Amos Cambridge University, United Kingdom
http://dx.doi.org/10.1101/133645 2017-05-03 Genetics CC BY-NC-ND Identification And Prioritisation Of Variants In The Short Open-Reading Frame Regions Of The Human Genome Felix Jackson|Matthew T. Wayland|Sudhakaran Prabakaran University of Cambridge
http://dx.doi.org/10.1101/133389 2017-05-03 Evolutionary Biology CC BY Experimental Evidence That Thermal Selection Shapes Mitochondrial Genome Evolution Zdenek Lajbner|Reuven Pnini|M. Florencia Camus|Jonathan Miller|Damian K. Dowling Okinawa Institute of Science and Technology Graduate University;|University College London;|Monash University
http://dx.doi.org/10.1101/133520 2017-05-03 Biophysics CC BY Nanoscale Dynamics of Centromere Nucleosomes and the Critical Roles of CENP-A Micah P Stumme-Diers|Siddhartha Banerjee|Mohtadin Hashemi|Zhiqiang Sun|Yuri L Lyubchenko University of Nebraska Medical Center, United States
http://dx.doi.org/10.1101/133470 2017-05-03 Developmental Biology CC BY A safer, urea-based in situ hybridization method improves detection of gene expression in diverse animal species Chiara Sinigaglia|Daniel Thiel|Andreas Hejnol|Evelyn Houliston|Lucas Leclere Institut de Genomique Fonctionnelle de Lyon - Ecole Normale Superieure de Lyon;|Sars International Centre for Marine Molecular Biology, University of Bergen;|UMR7009 CNRS/UPMC Laboratoire de Biologie du Developpement de Villefranche sur mer
http://dx.doi.org/10.1101/134015 2017-05-04 Molecular Biology CC BY-NC-ND A Survey of Genome Editing Activity for 16 Cpf1 orthologs Bernd Zetsche|Jonathan Strecker|Omar O Abudayyeh|Jonathan S Gootenberg|David A Scott|Feng Zhang Broad Institute;|Broad Institute of MIT and Harvard; McGovern Institute for Brain Research at MIT
http://dx.doi.org/10.1101/134072 2017-05-04 Biophysics CC BY-NC-ND The N-terminal domain of ALS-linked TDP-43 assembles without misfolding Phoebe S. Tsoi|Kyoungjae J. Choi|Paul G. Leonard|Antons Sizovs|Mahdi Muhammad Moosa|Kevin R. MacKenzie|Josephine C. Ferreon|Allan Chris M. Ferreon Baylor College of Medicine;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/134130 2017-05-04 Bioinformatics CC BY-NC-ND Impact Of Sequencing Depth And Read Length On Single Cell RNA Sequencing Data: Lessons From T Cells Simone Rizzetto|Auda A. Eltahla|Paul Lin|Rowena Bull|Andrew Lloyd|Joshua W. K. Ho|Vanessa Venturi|Fabio Luciani UNSW Sydney;|Victor Chang Cardiac Research Institute;|Victor Chang Institute;|UNSW
http://dx.doi.org/10.1101/134171 2017-05-04 Molecular Biology CC BY-NC-ND Smc6 And Top1 Prevent Aberrant Recombination At The Silent Mating-Type Locus HMR In Budding Yeast Martin Tran|Camilla Sjogren|Andreas Kegel Karolinska Institute
http://dx.doi.org/10.1101/134106 2017-05-04 Systems Biology Cells Interpret Temporal Information From TGF-β Through A Nested Relay Mechanism Jingyu Zhang|Xiao-Jun Tian|Yi-Jiun Chen|Weikang Wang|Simon Watkins|Jianhua Xing Dept. of Computational and Systems Biology, School of Medicine, University of Pittsburgh;|University of Pittsburgh;|Department of Cell Biology, School of Medicine, University of Pittsburgh
http://dx.doi.org/10.1101/134387 2017-05-04 CC BY-NC-ND Juvenile Hormone, But Not Nutrition Or Social Cues, Affects Reproductive Maturation In Solitary Alkali Bees (Nomia melanderi) Karen M. Kapheim|Makenna M. Johnson Utah State University
http://dx.doi.org/10.1101/134395 2017-05-04 CC BY Role of Membrane-tension Gated Ca Flux in Cell Mechanosensation Lijuan He|Jiaxiang Tao|Fangwei Si|Yi Wu|Tiffany Wu|Vishnu Prasath|Denis Wirtz|Sean X. Sun Johns Hopkins University, United States;|UC San Diego, United States;|University of Connecticut Health Center, United States;|Johns Hopkins, United States
http://dx.doi.org/10.1101/134247 2017-05-04 Animal Behavior and Cognition CC BY Complex Dynamics From Simple Cognition: The Primary Ratchet Effect In Animal Culture Mary Brooke McElreath|Christophe Boesch|Hjalmar Kuehl|Richard McElreath Max Planck Institute for Evolutionary Anthropology, Leipzig;|MPI for Evolutionary Anthropology
http://dx.doi.org/10.1101/134049 2017-05-04 Cancer Biology CC BY Uncertainties In Tumor Allele Frequencies Limit Power To Infer Evolutionary Pressures Javad Noorbakhsh|Jeffrey Chuang The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/127209 2017-05-04 Evolutionary Biology Demography And Mating System Shape The Genome-Wide Impact Of Purifying Selection In Arabis alpina Benjamin Laenen|Andrew Tedder|Michael D. Nowak|Per Torang|Jorg Wunder|Stefan Wotzel|Kim Steige|Yiannis Kourmpetis|Thomas Odong|Andreas D. Drouzas|Marco Bink|Jon Agren|George Coupland|Tanja Slotte Stockholm University;|Uppsala University;|Max Planck Institute of Plant Breeding Research;|Wageningen University and Research Centre;|Aristotle University of Thessaloniki
http://dx.doi.org/10.1101/133926 2017-05-04 Scientific Communication and Education CC BY Research Waste In ME/CFS Sonia Lee University of Sydney
http://dx.doi.org/10.1101/134346 2017-05-04 Genomics CC BY-NC Coessentiality And Cofunctionality: A Network Approach To Learning Genetic Vulnerabilities From Cancer Cell Line Fitness Screens Traver Hart|Clara Koh|Jason Moffat University of Texas MD Anderson Cancer Center;|University of Toronto
http://dx.doi.org/10.1101/134189 2017-05-04 Bioinformatics CC BY-NC Automated Recommendation Of Metabolite Substructures From Mass Spectra Using Frequent Pattern Mining Aida Mrzic|Pieter Meysman|Wout Bittremieux|Kris Laukens University of Antwerp
http://dx.doi.org/10.1101/134163 2017-05-04 Neuroscience CC BY-NC Fronto-parietal Organization for Response Times in Inhibition of Return: The FORTIOR Model Tal Seidel Malkinson|Paolo Bartolomeo Brain and Spine Institute (ICM);|Inserm U 1127
http://dx.doi.org/10.1101/134239 2017-05-04 Neuroscience CC BY-NC-ND Repetitive Transcranial Magnetic Stimulation Increases Phase-Amplitude Coupling Chie Nakatani|Caitlin Mullin|Johan Wagemans|Cees van Leeuwen KU Leuven;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/134270 2017-05-04 Microbiology A Cell Culture Platform For Cryptosporidium That Enables Long-Term Cultivation And New Tools For The Systematic Investigation Of Its Biology Christopher N. Miller|Lyne Josse|Ian R. Brown|Ben Blakeman|Jane Povey|Lyto Yiangou|Mark Price|Jindrich Cinatl|Wei-Feng Xue|Martin Michaelis|Anastasios Tsaousis University of Kent;|Klinikum der Goethe-Universitat
http://dx.doi.org/10.1101/134379 2017-05-04 Neuroscience CC BY-NC Untuned But Not Irrelevant: A Role For Untuned Neurons In Sensory Information Coding Joel Zylberberg University of Colorado School of Medicine
http://dx.doi.org/10.1101/134155 2017-05-04 Bioinformatics CC BY-NC Real-Time Demultiplexing Nanopore Barcoded Sequencing Data With npBarcode Son Hoang Nguyen|Tania Da Silva Duarte|Lachlan J. M. Coin|Minh Duc Cao Institute for Molecular Bioscience, the University of Queensland
http://dx.doi.org/10.1101/104240 2017-05-04 Evolutionary Biology CC BY-NC-ND Multilevel And Sex-Specific Selection On Competitive Traits In North American Red Squirrels David N. Fisher|Stan Boutin|Ben Dantzer|Murray M. Humphries|Jeffrey E. Lane|Andrew G. McAdam University of Guelph;|University of Alberta;|University of Michigan;|McGill University;|University of Saskatchewan
http://dx.doi.org/10.1101/134320 2017-05-04 Microbiology CC BY-ND Microbial Metagenome Of Urinary Tract Infection Ahmed Moustafa|Harinder Singh|Weizhong Li|Kelvin Moncera|Manolito Torralba|Yanbao Yu|Oriol Manuel|William Biggs|J. Craig Venter|Karen Nelson|Rembert Pieper|Amalio Telenti Human Longevity Inc.;|J. Craig Venter Institute;|Centre Hospitalier Universitaire Vaudois
http://dx.doi.org/10.1101/133504 2017-05-04 Neuroscience CC BY-NC Deep Neural Networks In Computational Neuroscience Tim Christian Kietzmann|Patrick McClure|Nikolaus Kriegeskorte MRC Cognition and Brain Sciences Unit
http://dx.doi.org/10.1101/134064 2017-05-04 Evolutionary Biology CC BY-NC Convergent evolution of the army ant syndrome and congruence in big-data phylogenetics Marek L Borowiec Arizona State University
http://dx.doi.org/10.1101/134361 2017-05-04 Cancer Biology CC BY-NC Extinction Times In Tumor Public Goods Games Philip Gerlee|Philipp M. Altrock Chalmers University of Technology;|Moffitt Cancer Center and Research Institute
http://dx.doi.org/10.1101/134338 2017-05-04 Microbiology CC BY-NC-ND A Specific Non-Bisphosphonate Inhibitor Of The Bifunctional Farnesyl/Geranylgeranyl Diphosphate Synthase In Malaria Parasites Jolyn E. Gisselberg|Zachary Herrera|Lindsey Orchard|Manuel Llinas|Ellen Yeh Stanford;|Pennsylvania State University
http://dx.doi.org/10.1101/134122 2017-05-04 Genetics Partitioning The Roles Of Insect And Microbial Enzymes In The Metabolism Of The Insecticide Imidacloprid In Drosophila melanogaster Roberto Fusetto|Shane Denecke|Trent Perry|Richard O'Hair|Philip Batterham The University of Mebourne;|The University of Melbourne
http://dx.doi.org/10.1101/134304 2017-05-04 Developmental Biology Aubergine And piRNAs Repress The Proto-Oncogene Cbl For Germline Stem Cell Self-Renewal Patricia Rojas-Rios|Aymeric Chartier|Martine Simonelig Institute of Human Genetics
http://dx.doi.org/10.1101/134080 2017-05-04 Animal Behavior and Cognition CC BY-NC-ND Smile at Me! Dogs Activate The Temporal Cortex Towards Smiling Human Faces Laura V. Cuaya|Raul Hernandez-Perez|Luis Concha Institute of Neurobiology, Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/134205 2017-05-04 Plant Biology CC BY Deep Phenotyping: Deep Learning For Temporal Phenotype/Genotype Classification Sarah Taghavi Namin|Mohammad Esmaeilzadeh|Mohammad Najafi|Tim B. Brown|Justin O. Borevitz Australian National University
http://dx.doi.org/10.1101/131292 2017-05-05 CC BY-NC-ND A persistent lack of International representation on editorial boards in biology Johanna Espin|Sebastian Palmas-Perez|Farah Carrasco-Rueda|Kristina Riemer|Pablo Allen|Nathan Berkebile|Kirsten Hecht|Renita Kay Kastner-Wilcox|Mauricio Nunez-Regueiro|Candice Prince|Maria Constanza Rios-Marin|Erica P Ross|Bhagatveer Singha|Tia Tyler|Judit Ungvari Martin|Mariana Villegas|Tara Cataldo|Emilio Bruna University of Florida
http://dx.doi.org/10.1101/134718 2017-05-05 Genomics CC BY Quantitative RNAseq Meta Analysis Of Alternative Exon Usage In C. elegans Nicolas J. Tourasse|Jonathan R. M. Millet|Denis Dupuy Université de Bordeaux, Inserm, Institut Européen de Chimie et Biologie
http://dx.doi.org/10.1101/134296 2017-05-05 Bioinformatics CC BY MotifMark: Finding Regulatory Motifs in DNA Sequences Hamid Reza Hassanzadeh GT
http://dx.doi.org/10.1101/134429 2017-05-05 Genetics CC BY-NC-ND Naturally-segregating Variation at Ugt86Dd Contributes to Nicotine Resistance in Drosophila melanogaster Chad Highfill|Jonathan Tran|Samantha Nguyen|Taylor Moldenhauer|Xiaofei Wang|Stuart J Macdonald Department of Molecular Biosciences, University of Kansas, United States;|University of KansasDepartment of Molecular Biosciences, University of Kansas, United States
http://dx.doi.org/10.1101/134411 2017-05-05 Bioinformatics CircMarker: A Fast and Accurate Algorithm for Circular RNA Detection Xin Li|Chong Chu|Jingwen Pei|Ion Mandoiu|Yufeng Wu University of Connecticut
http://dx.doi.org/10.1101/134023 2017-05-05 Bioinformatics CC BY-NC-ND taxMaps - Ultra-comprehensive and highly accurate taxonomic classification of short-read data in reasonable time Andre Corvelo|Wayne E. Clarke|Nicolas Robine|Michael C. Zody New York Genome Center
http://dx.doi.org/10.1101/134841 2017-05-05 CC BY-NC-ND Tumor-infiltrating immune repertoires captured by single-cell barcoding in emulsion Adrian W Briggs|Stephen J Goldfless|Sonia Timberlake|Brian J Belmont|Christopher R Clouser|David Koppstein|Devin Sok|Jason Vander A Heiden|Manu V Tamminen|Steven H Kleinstein|Dennis R Burton|George M Church|Francois Vigneault AbVitro Inc.;|Center for HIV/AIDS Vaccine Immunology and Immunogen Discovery, The Scripps Research Institute;|Interdepartmental Program in Computational Biology and Bioinformatics, Yale University;|Department of Biological Engineering, Massachusetts Institute of Technology;|Harvard Medical School
http://dx.doi.org/10.1101/134726 2017-05-05 CC BY The unfolded protein response turns from pro-survival to pro-death to cap the extent of endoplasmic reticulum expansion Andrea Orsi|Anush Bakunts|Federica Lari|Laura Tade|Angela Cattaneo|Roberto Sitia|Andrea Raimondi|Angela Bachi|Eelco van Anken|Milena Vitale San Raffaele Scientific Institute;|IRCSS San Raffaele
http://dx.doi.org/10.1101/134825 2017-05-05 The Effect Of Nipped-B-Like (Nipbl) Haploinsufficiency On Genome-Wide Cohesin Binding And Target Gene Expression: Modeling Cornelia de Lange Syndrome Daniel Newkirk|Yen-Yun Chen|Richard Chien|Weihua Zeng|Jacob Biesinger|Ebony Flowers|Shimako Kawauchi|Rosaysela Santos|Anne Calof|Arthur Lander|Xiaohui Xie|Kyoko Yokomori University of California, Irvine
http://dx.doi.org/10.1101/134759 2017-05-05 Optogenetic Characterization Of CeA CRF Pathways In Alcohol Dependence Giordano de Guglielmo|Marsida Kallupi|Mattew Pomrenze|Elena Crawford|Sierra Simpson|Paul Schweitzer|George F. Koob|Robert O. Messing|Olivier George The Scripps Research Institute;|The University of Texas at Austin;|National Institutes on Drug Abuse
http://dx.doi.org/10.1101/134833 2017-05-05 Food Webs Over Time: Evaluating The Variability Of Degree Distribution On Ecological Networks Daniela Lopez|Patricio Camus|Nelson Valdivia|Sergio Estay Universidad Austral de Chile;|Universidad Catolica de la Santisima Concepcion
http://dx.doi.org/10.1101/134817 2017-05-05 CC BY-NC-ND Concomitant Duplication Of The Cid And Cenp-C Genes In Drosophila Jose R. Teixeira|Guilherme B. Dias|Marta Svartman|Alfredo Ruiz|Gustavo C. S. Kuhn Universidade Federal de Minas Gerais;|Universitat Autonoma de Barcelona
http://dx.doi.org/10.1101/134742 2017-05-05 CC BY-NC-ND FCS In Closed Systems And Application For Membrane Nanotubes Yanfei Jiang|Artem Melnykov|Elliot L. Elson University of California, San Diego;|Dept. of Biochem & Mol Biophysics, School of Medicine, Washinton University in St. Louis
http://dx.doi.org/10.1101/134585 2017-05-05 Extending Causality Tests With Genetic Instruments: An Integration Of Mendelian Randomization And The Classical Twin Design Camelia C. Minica|Conor V. Dolan|Dorret I. Boomsma|Eco de Geus|Michael C. Neale Vrije Universiteit Amsterdam;|Virginia Commonwealth University
http://dx.doi.org/10.1101/134809 2017-05-05 CC BY Spindle assembly checkpoint strength is governed by cell size and PAR-mediated cell fate determination in C. elegans Abigail Gerhold University of Montreal, Canada
http://dx.doi.org/10.1101/134791 2017-05-05 CC BY-ND Transcriptomic Correlates Of Neuron Electrophysiological Diversity Shreejoy J. Tripathy|Lilah Toker|Brenna Li|Cindy-Lee Crichlow|Dmitry Tebaykin|B. Ogan Mancarci|Paul Pavlidis University of British Columbia
http://dx.doi.org/10.1101/134734 2017-05-05 CC BY Random Walk With Restart On Multiplex And Heterogeneous Biological Networks Alberto Valdeolivas|Laurent Tichit|Claire Navarro|Sophie Perrin|Gaelle Odelin|Nicolas Levy|Pierre Cau|Elisabeth Remy|Anais Baudot Aix-Marseille Universite, CNRS, Centrale Marseille, I2M UMR 7373, Marseille, France;|Aix-Marseille Universite, INSERM, UMR_S910, Faculte de Medecine, France;|ProGeLife, 8 Rue Sainte Barbe 13001, Marseille, France
http://dx.doi.org/10.1101/134767 2017-05-05 CC BY-NC-ND Ki-67 Contributes To Normal Cell Cycle Progression And Inactive X Heterochromatin In p21 Checkpoint-Proficient Human Cells Xiaoming Sun|Aizhan Bizhanova|Timothy D. Matheson|Jun Yu|Julie L. Zhu|Paul D. Kaufman University of Massachusetts Medical School
http://dx.doi.org/10.1101/134692 2017-05-05 CC BY-NC-ND Cells With Treg-Specific FOXP3 Demethylation But Low CD25 Are Prevalent In Autoimmunity Ricardo C. Ferreira|Henry Z. Simons|Whitney Thompson|Daniel B. Rainbow|Xin Yang|Antony J. Cutler|Joao Oliveira|Xaquin Castro Dopico|Deborah J. Smyth|Natalia Savinykh|Meghavi Mashar|Tim Vyse|David B. Dunger|Helen Baxendale|Anita Chandra|Chris Wallace|John A. Todd|Linda S. Wicker|Marcin L. Pekalski University of Oxford;|University of Cambridge;|King's College Hospital, London, UK
http://dx.doi.org/10.1101/134601 2017-05-05 Genetics CC BY-NC-ND The Stratification Of Major Depressive Disorder Into Genetic Subgroups David M. Howard|Toni-Kim Clarke|Mark J. Adams|Jonathan D. Hafferty|Eleanor M. Wigmore|Yanni Zeng|Lynsey S. Hall|Jude Gibson|Thibaud S. Boutin|Caroline Hayward|Pippa A. Thomson|David J. Porteous|Blair H. Smith|Alison D. Murray|Chris S. Haley|Ian J. Deary|Heather C. Whalley|Andrew M. McIntosh University of Edinburgh;|University of Dundee;|University of Aberdeen
http://dx.doi.org/10.1101/133686 2017-05-05 Neuroscience CC BY-NC-ND Organization Of The Drosophila Larval Visual Circuit Ivan Larderet|Pauline Fritsch|Nanae Gendre|Larisa Maier|Rick D. Fetter|Casey Schneider-Mizell|James Truman|Marta Zlatic|Albert Cardona|Simon Sprecher University of Fribourg;|HHMI Janelia Research Campus
http://dx.doi.org/10.1101/134668 2017-05-05 Genetics CC BY-NC-ND Omics-Based Hybrid Prediction In Maize Matthias Westhues|Tobias A. Schrag|Claas Heuer|Georg Thaller|Friedrich H. Utz|Wolfgang Schipprack|Alexander Thiemann|Felix Seifert|Anita Ehret|Armin Schlereth|Mark Stitt|Zoran Nikoloski|Lothar Willmitzer|Chris C. Schon|Stefan Scholten|Albrecht E. Melchinger University of Hohenheim;|Christian-Albrechts University;|University of Hamburg;|Max Planck Institute of Molecular Plant Physiology;|Technische Universität München
http://dx.doi.org/10.1101/134437 2017-05-05 Genomics Selecting Short DNA Fragments In Plasma Improves Detection Of Circulating Tumour DNA Florent Mouliere|Anna M. Piskorz|Dineika Chandrananda|Elizabeth Moore|James Morris|Christopher G. Smith|Teodora Goranova|Katrin Heider|Richard Mair|Anna Supernat|Ioannis Gounaris|Susana Ros|Jonathan C. M. Wan|Mercedes Jimenez-Linan|Davina Gale|Kevin Brindle|Charles E. Massie|Christine A. Parkinson|James D. Brenton|Nitzan Rosenfeld Cancer Research UK Cambridge Institute, University of Cambridge;|Cambridge University Hospitals NHS Foundation Trust
http://dx.doi.org/10.1101/134635 2017-05-05 Microbiology CC BY-ND Fine Stratification Of Microbial Communities Through A Metagenomic Profile Of The Photic Zone Jose M. Haro-Moreno|Mario Lopez-Perez|Jose de la Torre|Antonio Picazo|Antonio Camacho|Francisco Rodriguez-Valera Universidad Miguel Hernandez;|San Francisco State University;|Universidad de Valencia
http://dx.doi.org/10.1101/134197 2017-05-05 Genetics CC BY-NC-ND Genetic Instrumental Variable (GIV) Regression: Explaining Socioeconomic And Health Outcomes In Non-Experimental Data Thomas A. DiPrete|Casper Burik|Philipp Koellinger Columbia University;|Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/134551 2017-05-05 Genomics Consequences Of Natural Perturbations In The Human Plasma Proteome Benjamin B. Sun|Joseph C. Maranville|James E. Peters|David Stacey|James R. Staley|James Blackshaw|Stephen Burgess|Tao Jiang|Ellie Paige|Praveen Surendran|Clare Oliver-Williams|Mihir A. Kamat|Bram P. Prins|Sheri K. Wilcox|Erik S. Zimmerman|An Chi|Narinder Bansal|Sarah L. Spain|Angela M. Wood|Nicholas W. Morrell|John R. Bradley|Nebojsa Janjic|David J. Roberts|Willem H. Ouwehand|John A. Todd|Nicole Soranzo|Karsten Suhre|Dirk S. Paul|Caroline S. Fox|Robert M. Plenge|John Danesh|Heiko Runz|Adam S. Butterworth University of Cambridge;|MRL, Merck & Co., Inc., Kenilworth, New Jersey, USA;|SomaLogic Inc., Boulder, Colorado 80301, USA;|Wellcome Trust Sanger Institute;|NIHR Cambridge Biomedical Research Centre/BioResource, Cambridge University Hospitals;|NHS Blood and Transplant and Radcliffe Department of Medicine, NIHR Oxford;|University of Oxford;|Weill Cornell Medicine - Qatar
http://dx.doi.org/10.1101/134528 2017-05-05 Evolutionary Biology CC BY Parallel Altitudinal Clines Reveal Adaptive Evolution Of Genome Size In Zea mays Paul Bilinski|Patrice S. Albert|Jeremy J. Berg|James Birchler|Mark Grote|Anne Lorant|Juvenal Quezada|Kelly Swarts|Jinliang Yang|Jeff Ross-Ibarra Dept. of Plant Sciences, University of California;|Dept. of Biological Sciences, University of Missouri, Columbia, MO, USA;|Center for Population Biology and Dept. of Evolution & Ecology, University of California, Davis;|Dept. of Anthropology, University of California, Davis, CA, USA;|Dept. of Plant Sciences, University of California, Davis, CA, USA;|Dept. of Molecular Biology, Max Planck Institute for Developmental Biology, Tuebingen, DE;|Dept. of Horticulture and Agronomy, University of Nebraska, Lincoln, NE, USA;|UC Davis
http://dx.doi.org/10.1101/134650 2017-05-05 Bioinformatics CC BY How To Normalize Metatranscriptomic Count Data For Differential Expression Analysis Heiner Klingenberg|Peter Meinicke University of Goettingen
http://dx.doi.org/10.1101/134494 2017-05-05 Animal Behavior and Cognition CC BY-NC-ND Effect Of Initial Body Orientation On Escape Probability In Prey Fish Escaping From Predators Yuuki Kawabata|Hibiki Kimura Graduate School of Fisheries & Environmental Sciences, Nagasaki University
http://dx.doi.org/10.1101/134700 2017-05-05 Neuroscience CC BY-NC The Equivalent Arc Ratio For Auditory Space W. Owen Brimijoin MRC/CSO Institute of Hearing Research
http://dx.doi.org/10.1101/134510 2017-05-05 Bioinformatics Simulating The Dynamics Of Targeted Capture Sequencing With CapSim Minh Duc Cao|Devika Ganesamoorthy|Lachlan J. M. Coin The University of Queensland;|University of Queensland
http://dx.doi.org/10.1101/134627 2017-05-05 Cell Biology CC BY-NC-ND A Deep Learning And Novelty Detection Framework For Rapid Phenotyping In High-Content Screening Christoph Sommer|Rudolf Hoefler|Matthias Samwer|Daniel W. Gerlich Institute of Molecular Biotechnology of the Austrian Academy of Sciences
http://dx.doi.org/10.1101/134569 2017-05-05 Evolutionary Biology CC BY-NC-ND Differential Strengths Of Molecular Determinants Guide Environment Specific Mutational Fates Rohan Dandage|Rajesh Pandey|Gopal Jayaraj|Kausik Chakraborty CSIR- Institute of Genomics and Integrative Biology, Mathura Road Campus, New Delhi, India
http://dx.doi.org/10.1101/134536 2017-05-05 Bioinformatics CC BY Differential Proportionality - A Normalization-Free Approach To Differential Gene Expression Ionas Erb|Thomas Quinn|David Lovell|Cedric Notredame Centre for Genomic Regulation (CRG);|Deakin University;|Queensland University of Technology
http://dx.doi.org/10.1101/134619 2017-05-05 Systems Biology Mathematical Model For Plant-Insect Interaction With Dynamic Response To PAD4-BIK1 Interaction And Effect Of BIK1 Inhibition Sanjay Kumar|Sabahuddin Ahmad|M. I. Siddiqi|Khalid Raza Department of Computer Science, Jamia Millia Islamia, New Delhi-110025, India;|Molecular & Structural Biology Division, CSIR-Central Drug Research Institute, Lucknow, India
http://dx.doi.org/10.1101/134544 2017-05-05 Developmental Biology CC BY-NC-ND Vimentin Plays A Functional Role In Mammary Gland Regeneration Reetta Virtakoivu|Emilia Peuhu|Anja Mai|Anni Warri|Johanna Ivaska Centre for Biotechnology, University of Turku;|University of Turku
http://dx.doi.org/10.1101/135012 2017-05-06 CC BY-NC-ND Two Loci Single Particle Trajectories Analysis: Constructing A First Passage Time Statistics Of Local Chromatin Exploration Ofir Shukron|David Holcman Ecole Normale Superieure
http://dx.doi.org/10.1101/135004 2017-05-06 CC BY-NC-ND Homology Modeling In A Dynamical World Alexander Miguel Monzon|Diego Javier Zea|Cristina Marino-Buslje|Gustavo Parisi Universidad Nacional de Quilmes;|Fundacion Instituto Leloir
http://dx.doi.org/10.1101/134924 2017-05-06 Targeting xCT-Mediated Glutamate Release Normalizes Tumor Angiogenesis In The Brain Zheng Fan|Thomas Broggini|Eduard Yakubov|Tina Sehm|Sebastian Schuermann|Eric P. Meyer|Nevenka Dudvarski Stankovic|Mirko H. Schmidt|Marco Stampanoni|Marcus Czabanka|Robert Nitsch|Michael Buchfelder|Oliver Friedrich|Ilker Y. Eyupoglu|Nicolai Savaskan University of Erlangen-Nuremberg;|Charite - Universitaetsmedizin Berlin;|UK Erlangen;|University of Zurich;|University Medical School Mainz;|ETH Zurich;|University Medical School Muenster;|University Medical School Erlangen;|BiMECON
http://dx.doi.org/10.1101/134965 2017-05-06 CC BY DeepDeath: Learning To Predict The Underlying Cause Of Death With Big Data Hamid Reza Hassanzadeh|Ying Sha|May D. Wang Georgia Institute of Technology
http://dx.doi.org/10.1101/129437 2017-05-06 CC BY-ND EyeBallGUI: A Tool For Visual Inspection And Binary Marking of Multi-Channel Bio-Signals Kieran Mohr|Bahman Nasseroleslami|Parameswaran Mahadeva Iyer|Orla Hardiman|Edmund C. Lalor Trinity College Dublin, the University of Dublin
http://dx.doi.org/10.1101/134999 2017-05-06 A Carbon Nanotube Optical Reporter Maps Endolysosomal Lipid Flux Prakrit V. Jena|Daniel Roxbury|Thomas V. Galassi|Leila Akkari|Christopher P. Horoszko|David B. Iaea|Januka Budhathoki-Uprety|Nina H. Pipalia|Abigail S. Haka|Jackson D. Harvey|Jeetain Mittal|Frederick R. Maxfield|Johanna A. Joyce|Daniel A. Heller Memorial Sloan Kettering Cancer Center;|University of Rhode Island;|Weill Cornell Medical College;|University of Lausanne;|Lehigh University;|Memorial Sloan Kettering Cancer Ceter
http://dx.doi.org/10.1101/131375 2017-05-06 Systemic Activation Coordinates The Heat Shock Response Of The Insulin/IGF-1 Pathway In Caenorhabditis elegans Ronen Binyamin Kopito|Kathie Watkins|Erel Levine Harvard University
http://dx.doi.org/10.1101/133991 2017-05-06 CC BY Heterogeneity Among Estimates Of The Core Genome And Pan-Genome In Different Pneumococcal Populations Andries J. van Tonder|James E. Bray|Keith A. Jolley|Sigridur J. Quirk|Gunnsteinn Haraldsson|Martin C. J. Maiden|Stephen D. Bentley|Asgeir Haraldsson|Helga Erlendsdottir|Karl G. Kristinsson|Angela B. Brueggemann University of Oxford;|University of Iceland and Landspitali University Hospital;|Wellcome Trust Sanger Institute;|Landspitali University Hospital
http://dx.doi.org/10.1101/135129 2017-05-07 CC BY-ND Mapping Quantitative Trait Loci Underlying Circadian Light Sensitivity In Drosophila Adeolu B. Adewoye|Sergey Nuzhdin|Eran Tauber Loughborough University;|University of Southern California;|University of Leicester
http://dx.doi.org/10.1101/134882 2017-05-07 CC BY Whole-Brain Serial-Section Electron Microscopy In Larval Zebrafish David Grant Colburn Hildebrand|Marcelo Cicconet|Russel Miguel Torres|Woohyuk Choi|Tran Minh Quan|Jungmin Moon|Arthur Willis Wetzel|Andrew Scott Champion|Brett Jesse Graham|Owen Randlett|George Scott Plummer|Ruben Portugues|Isaac Henry Bianco|Stephan Saalfeld|Alex David Baden|Kunal Lillaney|Randal Burns|Joshua Tzvi Vogelstein|Alexander Franz Schier|Wei-Chung Allen Lee|Won-Ki Jeong|Jeff William Lichtman|Florian Engert Harvard University;|Image and Data Analysis Core, Harvard Medical School;|Department of Neurobiology, Harvard Medical School;|School of Electrical & Computer Engineering, Ulsan National Institute of Science & Technology;|Pittsburgh Supercomputing Center, Carnegie Mellon University;|Janelia Research Campus, Howard Hughes Medical Institute;|Department of Molecular and Cell Biology, Harvard University;|Department of Computer Science, Johns Hopkins University;|Dept. of Biomedical Engineering & Inst. for Computational Medicine, Johns Hopkins University
http://dx.doi.org/10.1101/135103 2017-05-07 Microbiology CC BY Signal Peptide Hydrophobicity Modulates Interaction With The Twin-Arginine Translocase Qi Huang|Tracy Palmer University of Dundee
http://dx.doi.org/10.1101/132712 2017-05-07 Genomics CC BY-NC-ND The Genomic Landscape Of Tree Rot In Phellinus noxius And Its Hymenochaetales Members Chia-Lin Chung|Jiaye T. Lee|Mitsuteru Akiba|Hsin-Han Lee|Tzu-Hao Kuo|Dang Liu|Huei-Mien Ke|Toshiro Yokoi|Marylette B. Roa|Meiyeh J. Lu|Ya-Yun Chang|Pao-Jen Ann|Jyh-Nong Tsai|Chien-Yu Chen|Shean-Shong Tzean|Yuko Ota|Tsutomu Hattori|Norio Sahashi|Ruey-Fen Liou|Taisei Kikuchi|Isheng Jason Tsai National Taiwan University;|Academia Sinica;|Forestry anForest Products Research Institute;|Forestry and Forest Products Research Institute;|Taiwan Agricultural Research Institute;|Forestry andForest Products Research Institute;|University of Miyazaki
http://dx.doi.org/10.1101/134940 2017-05-07 Biochemistry CC BY Characterization Of Copper Complex Nanoparticles Synthesized By Plant Polyphenols Zhiqiang Wang|Pengfei An China Merchants Group;|Institute of High Energy Physics Chinese Academy of Sciences
http://dx.doi.org/10.1101/134973 2017-05-07 Pharmacology and Toxicology CC BY-NC A New Big-Data Paradigm For Target Identification And Drug Discovery Neel S. Madhukar|Prashant Khade|Linda Huang|Kaitlyn Gayvert|Giuseppe Galletti|Martin Stogniew|Joshua E. Allen|Paraskevi Giannakakou|Olivier Elemento Weill Cornell Medical College;|Oncoceutics Inc;|Oncoceutics Inc.
http://dx.doi.org/10.1101/134221 2017-05-07 Ecology Malthusian Catastrophe: Species Extinction Caused By Oversized Population Xubin Pan Chinese Academy of Inspection and Quarantine
http://dx.doi.org/10.1101/131847 2017-05-08 Microbiology CC BY-NC-ND Assessment Of The Potential Role Of Streptomyces In Cave Moonmilk Formation Marta Maciejewska|Delphine Adam|Aymeric Naome|Loic Martinet|Elodie Tenconi|Magdalena Calusinska|Philippe Delfosse|Marc Hanikenne|Denis Baurain|Philippe Compere|Monique Carnol|Hazel Barton|Sebastien Rigali University of Liege;|Luxembourg Institute of Science and Technology;|University of Akron
http://dx.doi.org/10.1101/134874 2017-05-08 CC BY-NC-ND The Landscape Of Type VI Secretion Across Human Gut Microbiomes Reveals Its Role In Community Composition Adrian Verster|Benjamin Ross|Matthew Radey|Yiqiao Bao|Andrew Goodman|Joseph Mougous|Elhanan Borenstein University of Washington;|Yale University
http://dx.doi.org/10.1101/135426 2017-05-08 CC BY-NC-ND Revealing Complete Complex KIR Haplotypes Phased By Long-Read Sequencing Technology David Roe|Cynthia Vierra-Green|Chul-Woo Pyo|Kevin Eng|Richard Hall|Rui Kuang|Stephen Spellman|Swati Ranade|Daniel Geraghty|Martin Maiers National Marrow Donor Program;|Fred Hutchinson Cancer Research Center;|Pacific Biosciences;|University of Minnesota
http://dx.doi.org/10.1101/135277 2017-05-08 CC BY Crosslink: A Fast, Scriptable Genetic Mapper For Outcrossing Species Robert J. Vickerstaff|Richard J. Harrison NIAB EMR
http://dx.doi.org/10.1101/135475 2017-05-08 Genome Comparisons Indicate Recent Transfer Of wRi-Like Wolbachia Between Sister Species Drosophila suzukii And D. subpulchrella William R. Conner|Mark L. Blaxter|Gianfranco Anfora|Lino Ometto|Omar Rota-Stabelli|Michael Turelli University of California;|University of Edinburgh;|Fondazione Edmund Mach;|Edmund Mach Foundation
http://dx.doi.org/10.1101/135293 2017-05-08 CC BY-NC-ND Bayesian Integrated Analysis Of Multiple Types Of Rare Variants To Infer Risk Genes For Schizophrenia And Other Neurodevelopmental Disorders Hoang T. Nguyen|Amanda Dobbyn|Laura M. Huckins|Douglas Ruderfer|Gulio Genovese|Menachem Fromer|Xinyi Xu|Joseph Buxbaum|Christina Hultman|Pamela Sklar|Shaun M. Purcell|Xin He|Patrick F. Sullivan|Eli Ayumi Stahl Icahn School of Medicine at Mount Sinai, New York, New York 10029, USA;|Vanderbilt University, Nashville, TN 37235, USA;|Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA;|Verily Life Sciences, USA;|Karolinska Instituet, Stockholm, Sweden;|Sleep Center, Brigham and Women's Hospital, Massachusetts, USA;|University of Chicago, Chicago, IL 60637, USA;|University of North Carolina, Chapel Hill, North Carolina 27599-7264, USA
http://dx.doi.org/10.1101/135269 2017-05-08 CC BY-ND Inverse Modeling For MEG/EEG Data Alberto Sorrentino|Michele Piana Universita degli Studi di Genova
http://dx.doi.org/10.1101/126599 2017-05-08 CC BY Genetic Epidemiology And Mendelian Randomization For Informing Disease Therapeutics: Conceptual And Methodological Challenges Lavinia Paternoster|Kate M. Tilling|George Davey Smith MRC-IEU at the University of Bristol
http://dx.doi.org/10.1101/135095 2017-05-08 Interacting Learning Processes During Skill Acquisition: Learning To Control With Gradually Changing System Dynamics Nicolas Ludolph|Martin A. Giese|Winfried Ilg CIN, HIH, IMPRS, University of Tübingen;|CIN, HIH, University of Tübingen
http://dx.doi.org/10.1101/135327 2017-05-08 CC BY-NC Kinship Governs Fertility With Pre- And Post-Zygotic Mechanisms Mediated By Match Of Methylation Patterns M. Linton Herbert Pinellas County Health Dept.
http://dx.doi.org/10.1101/134775 2017-05-08 CC BY-NC-ND Low-Cost HPV Screening And The Prevalence Of Cervical Infection In Asymptomatic Populations In Guatemala Hong Lou|Eduardo Gharzouzi|Sarita Polo Guerra|Joel Fokom Domgue|Julie Sawitzke|Guillermo Villagran|Lisa Garland|Joseph Boland|Sarah Wagner|Joanna Martinez|Hector Rosas|Jami Troxler|Heidi McMillen|Bailey Kessing|Enrique Alvirez|Miriam Castillo|Hesler Morales|Victor Argueta|Andert Rosingh|Femke van Aerde-van Nunen|Griselda Lopez|Mark Schiffman|Michael Dean|Roberto Orozco Cancer Genomics Research Laboratory, Leidos Biomedical Inc., National Cancer Institute;|Instituto de Cancerologia;|Cancer Genetics Branch, DCEG, NCI;|Laboratory of Translational Genomics, DCEG, NCI;|Department of Gynecology and Obstetrics, Hospital General San Juan de Dios;|Cancer Research Technology Program, Leidos Biomedical Research, National Cancer Institute;|Hospital Central Universitario Dr. Antonio M. Pineda, Barquisimeto, Venezuela;|Medical Laboratory Services, Willemstad, Curacao;|NCI
http://dx.doi.org/10.1101/135467 2017-05-08 CC BY Gamma-Band Resonance Of Visual Cortex To Optogenetic Stimulation Jianguang Ni|Christopher Lewis|Thomas Wunderle|Patrick Jendritza|Ilka Diester|Pascal Fries Ernst Struengmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society
http://dx.doi.org/10.1101/135087 2017-05-08 CC BY-NC-ND Fast Periodic Stimulation (FPS): A Highly Effective Approach In fMRI Brain Mapping Xiaoqing Gao|Francesco Gentile|Bruno Rossion University of Louvain;|Maastricht University
http://dx.doi.org/10.1101/135376 2017-05-08 Arousal Dependent Modulation Of Thalamo-Cortical Functional Interaction Iain Stitt|Zhe Charles Zhou|Susanne Radtke-Schuller|Flavio Frohlich University of North Carolina
http://dx.doi.org/10.1101/121202 2017-05-08 CC BY The Human Cell Atlas Aviv Regev|Sarah Teichmann|Eric S. Lander|Ido Amit|Christophe Benoist|Ewan Birney|Bernd Bodenmiller|Peter Campbell|Piero Carninci|Menna Clatworthy|Hans Clevers|Bart Deplancke|Ian Dunham|James Eberwine|Roland Eils|Wolfgang Enard|Andrew Farmer|Lars Fugger|Berthold Gottgens|Nir Hacohen|Muzlifah Haniffa|Martin Hemberg|Seung K. Kim|Paul Klenerman|Arnold Kriegstein|Ed Lein|Sten Linnarsson|Joakim Lundeberg|Partha Majumder|John Marioni|Miriam Merad|Musa Mhlanga|Martijn Nawijn|Mihai Netea|Garry Nolan|Dana Pe'er|Anthony Philipakis|Chris P. Ponting|Stephen R. Quake|Wolf Reik|Orit Rozenblatt-Rosen|Joshua R. Sanes|Rahul Satija|Ton Shumacher|Alex K. Shalek|Ehud Shapiro|Padmanee Sharma|Jay Shin|Oliver Stegle|Michael Stratton|Michael J. T. Stubbington|Alexander van Oudenaarden|Allon Wagner|Fiona M. Watt|Jonathan S. Weissman|Barbara Wold|Ramnik J. Xavier|Nir Yosef MIT and Broad Inst. of MIT & Harvard;|Wellcome Trust Sanger Institute;|Broad Institute of MIT and Harvard;|Weizmann Inst.;|Harvard Medical School;|European Bioinformatics Institute;|University of Zurich;|Sanger Institute;|RIKEN Yokohama Institute;|University of Cambridge;|Cancer Genomics Netherlands;|EPFL;|EMBL European Bioinformatics Institute;|University of Pennsylvania School of Medicine;|DKFZ;|Ludwig Maximilian University;|Takara Bio USA, Inc.;|John Radcliffe Hospital, University of Oxford;|Cambridge University;|Broad Institute of MIT and Harvard, MGH;|Newcastle University;|Howard Hughes Medical Institute, Stanford University School of Medicine;|University of Oxford, The John Radcliffe Hospital;|UCSF;|Allen Institute;|Karolinska Institutet;|Royal Institute of Technology;|National Institute of Biomedical Genomics;|European Molecular Biology Laboratory - European Bioinformatics Institute;|Mount Sinai Hospital;|Department of Integrative Biomedical Sciences, University of Cape Town;|University of Groningen, University Medical Center Groningen;|Radboud University Medical Center;|Stanford University;|Sloan Kettering Institute;|The University of Edinburgh, Western General Hospital;|Babraham Institute;|Harvard University;|New York University, New York Genome Center;|The Netherlands Cancer Institute;|MIT, Broad Institute of MIT and Harvard, Ragon Institute of MGH, MIT and Harvard;|Weizmann Institute of Science;|MD Anderson;|Riken Center for Life Science Technologies;|European Molecular Biology Laboratory;|Hubrecht Institute;|University of California, Berkeley;|King's College London;|Howard Hughes Medical Institute, University of California, San Francisco;|Caltech;|Massachusetts General Hospital;|UC Berkeley
http://dx.doi.org/10.1101/135541 2017-05-08 CC BY-NC-ND Distinct Temporal Filters In Mitral Cells And External Tufted Cells Of The Olfactory Bulb Christopher E. Vaaga|Gary L. Westbrook Oregon Health and Science University
http://dx.doi.org/10.1101/134031 2017-05-08 CC BY-NC Meta Analysis Of Microbiome Studies Identifies Shared And Disease-Specific Patterns Claire Duvallet|Sean M. Gibbons|Thomas Gurry|Rafael A. Irizarry|Eric J. Alm Massachusetts Institute of Technology;|Dana-Farber Cancer Institute and Harvard University;|Massachusetts Institute of Technology and Center for Microbiome Informatics & Therapeutics
http://dx.doi.org/10.1101/135525 2017-05-08 Genome And Epigenome Engineering CRISPR Toolkit For Probing In Vivo cis-Regulatory Interactions In The Chicken Embryo Ruth M. Williams|Upeka Senanayake|Mara Artibani|Gunes Ozlem Taylor|Daniel Wells|Ahmed Ashour Ahmed|Tatjana Sauka-Spengler University of Oxford
http://dx.doi.org/10.1101/135053 2017-05-08 CC BY Attention is required for knowledge-based sequential grouping of syllables into words Nai Ding|Xunyi Pan|Cheng Luo|Naifei Su|Wen Zhang|Jianfeng Zhang Zhejiang University, China;|Zhejiang Univ, China
http://dx.doi.org/10.1101/135459 2017-05-08 CC BY-NC-ND Coordinated Changes In The Accumulation Of Metal Ions In Maize (Zea mays ssp. mays L.) In Response To Inoculation With The Arbuscular Mycorrhizal Fungus Funneliformis mosseae M. Rosario Flores-Ramirez|Ruben Rellan-Alvarez|Barbara Wozniak|Mesfin-Nigussie Gebreselassie|Iver Jakobsen|Victor Olalde-Portugal|Ivan Baxter|Uta Paszkowski|Ruairidh Sawers CINVESTAV;|LANGEBIO-CINVESTAV;|University of Lausanne;|University of Copenhagen;|Donald Danforth Plant Science Center;|University Cambridge
http://dx.doi.org/10.1101/135384 2017-05-08 CC BY-NC-ND Ultra-Accurate Genome Sequencing And Haplotyping Of Single Human Cells Wai Keung Chu|Peter Edge|Ho Suk Lee|Vikas Bansal|Vineet Bafna|Xiaohua Huang|Kun Zhang UCSD
http://dx.doi.org/10.1101/135483 2017-05-08 OncoScore: An R Package To Measure The Oncogenic Potential Of Genes Daniele Ramazzotti|Luca De Sano|Roberta Spinelli|Rocco Piazza|Carlo Gambacorti Passerini Department of Pathology, Stanford University, Stanford, CA, USA;|Department of Informatics, University of Milano-Bicocca, Milan, Italy;|Department of Medicine and Surgery, University of Milano-Bicocca, Milan, Italy
http://dx.doi.org/10.1101/135434 2017-05-08 Microbiology Epha2, An Epithelial Cell Pattern Recognition Receptor For Fungal β-Glucans Marc Swidergall|Norma V. Solis|Scott G. Filler Los Angeles Biomedical Research Institute
http://dx.doi.org/10.1101/135194 2017-05-08 Developmental Biology Sex Differentiation In Grayling (Salmonidae) Goes Through An All-Male Stage And Is Delayed In Genetic Males Who Instead Grow Faster Diane Maitre|Oliver M. Selmoni|Anshu Uppal|Lucas Marques da Cunha|Laetitia G. E. Wilkins|Julian Roux|Kenyon B. Mobley|Susanne Knorr|Marc Robinson-Rechavi|Claus Wedekind University of Lausanne;|University of Heidelberg
http://dx.doi.org/10.1101/135251 2017-05-08 Neuroscience Basal Ganglia Control Of Reflexive Saccades: A Computational Model Integrating Physiology Anatomy And Behaviour Alexander Cope|Jonathan M. Chambers|Tony J. Prescott|Kevin N. Gurney University of Sheffield
http://dx.doi.org/10.1101/135236 2017-05-08 Genetics Copb2 Is Essential For Embryogenesis And Hypomorphic Mutations Cause Human Microcephaly Andrew DiStasio|Ashley Driver|Kristen Sund|Milene Donlin|Shabnam Pooya|Beth Kline-Fath|Kenneth Kaufman|Cynthia Prows|Elizabeth Schorry|Biplab DasGupta|Rolf Stottmann Cincinnati Children's Hospital Medical Center
http://dx.doi.org/10.1101/111369 2017-05-08 Bioengineering Micropatterned Substrates To Promote And Dissect Reprogramming Of Human Somatic Cells Jared Carlson-Stevermer|Ty Harkness|Ryan Prestil|Stephanie Seymour|Gavin Knight|Randolph Ashton|Krishanu Saha University of Wisconsin-Madison
http://dx.doi.org/10.1101/134676 2017-05-08 Molecular Biology CC BY 6S RNA Supports Recovery From Nitrogen Depletion In Synechocystis Sp. PCC 6803 Beate Heilmann|Kaisa Hakkila|Jens Georg|Taina Tyystjaervi|Wolfgang R. Hess|Ilka M. Axmann|Dennis Dienst Heinrich Heine University Duesseldorf;|University of Turku;|University of Freiburg
http://dx.doi.org/10.1101/134684 2017-05-08 Microbiology CC BY Multifactorial Chromosomal Variants Regulate Polymyxin Resistance In Extensively Drug-Resistant Klebsiella pneumoniae Miranda Pitt|Alysha Elliott|Minh Duc Cao|Devika Ganesamoorthy|Ilias Karaiskos|Helen Giamarellou|Cely S. Abboud|Mark A. T. Blaskovich|Matthew A. Cooper|Lachlan J. M. Coin Institute for Molecular Bioscience, University of Queensland, Brisbane, Australia;|6th Department of Internal Medicine, Hygeia General Hospital, Athens, Greece;|Instituto Dante Pazzanese de Cardiologia, Sao Paulo, Brazil
http://dx.doi.org/10.1101/135350 2017-05-08 Microbiology Heat Shock Protein 70 (Hsp70) Is Involved In The Zika Virus Cellular Infection Process Sujit Pujhari|Vanessa M. Macias|Ruth H. Nissly|Masashi Nomura|Suresh V. Kuchipudi|Jason L. Rasgon Penn State University;|Chiba University
http://dx.doi.org/10.1101/135319 2017-05-08 Bioinformatics CC BY-NC Insight Into The Mechanism Of Protein Thermostability Based On The Residue Interaction Degrees Huihua Ge|Yunmeng Chu|Guangya Zhang Fujian Provincial Key Laboratory of Biochemical Technology, Huaqiao University
http://dx.doi.org/10.1101/135400 2017-05-08 Cell Biology CC BY-NC Dynamic Current Clamp Experiments Define The Functional Roles Of IK1 And Ito,f In Human Induced Pluripotent Stem Cell Derived Cardiomyocytes Scott Marrus|Steven Springer|Eric Johnson|Rita Martinez|Edward Dranoff|Rebecca Mellor|Kathryn Yamada Washington University in St. Louis;|Washington University School of Medicine
http://dx.doi.org/10.1101/135152 2017-05-08 Genomics CC BY-ND Frequent Non-Allelic Gene Conversion On The Human Lineage And Its Effect On The Divergence Of Gene Duplicates Arbel Harpak|Xun Lan|Ziyue Gao|Jonathan K. Pritchard Stanford University
http://dx.doi.org/10.1101/135244 2017-05-08 Animal Behavior and Cognition CC BY-NC Positive Sexual Imprinting For Human Eye Color Lisa M. DeBruine|Benedict C. Jones|Anthony C. Little University of Glasgow;|University of Bath
http://dx.doi.org/10.1101/135178 2017-05-08 Molecular Biology Neuronal Inhibition Of The Autophagy Nucleation Complex Extends Lifespan In Post-Reproductive C. elegans Thomas Wilhelm|Jonathan Byrne|Rebeca Medina|Ena Kolundzic|Johannes Geisinger|Martina Hajduskova|Baris Tursun|Holger Richly Institute for Molecular Biology Mainz;|Berlin Institute for Medical Systems Biology
http://dx.doi.org/10.1101/135418 2017-05-08 Neuroscience Excitatory Motor Neurons Function As Central Pattern Generators In An Anatomically Compressed Motor Circuit For Reverse Locomotion Shangbang Gao|Sihui Asuka Guan|Anthony D. Fouad|Jun Meng|Yung-Chi Huang|Yi Li|Salvador Alcaire|Wesley Hung|Taizo Kawano|Yangning Lu|Yingchuan Billy Qi|Yishi Jin|Mark Alkema|Christopher Fang-Yen|Mei Zhen Key Lab. of Molec. Biophys. of the Ministry of Educ., Huazhong Univ. of Science & Technology;|Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, Canada;|Dept. of Bioengineering, School of Engineering & Applied Science, University of Pennsylvania;|Department of Neurobiology, University of Massachusetts Medical School, Worcester, MA;|Neurobiology Section, Division of Biological Sciences, University of California, San Diego
http://dx.doi.org/10.1101/135822 2017-05-09 Genetics CC BY-NC-ND Precise And Predictable DNA Fragment Editing Reveals Principles Of Cas9-Mediated Nucleotide Insertion Jia Shou|Jinhuan Li|Qiang Wu Shanghai Jiao Tong University
http://dx.doi.org/10.1101/135624 2017-05-09 Bioinformatics CC BY-NC iREAD: A Tool For Intron Retention Detection From RNA-seq Data Hong-Dong Li|Cory C. Funk|Nathan D. Price Central South University;|Institute for Systems Biology
http://dx.doi.org/10.1101/135590 2017-05-09 Evolutionary Biology CC BY Duplication And Sub/Neofunctionalization Of malvolio, An Insect Homolog Of Nramp, In The Subsocial Beetle Nicrophorus vespilloides Elijah C. Mehlferber|Kyle M. Benowitz|Eilleen M. Roy-Zokan|Elizabeth C. McKinney|Christopher B. Cunningham|Allen J. Moore University of Georgia;|University of Swansea
http://dx.doi.org/10.1101/135806 2017-05-09 Developmental Biology CC BY-NC-ND Towards An Understanding Of Spiral Patterning In The Sargassum muticum Shoot Apex Marina Linardic|Siobhan A. Braybrook Sainsbury Laboratory, University of Cambridge
http://dx.doi.org/10.1101/135210 2017-05-09 Ecology Sex-Specific Changes In Gene Expression And Delayed Sex Differentiation In Response To Estrogen Pollution In Grayling (Salmonidae) Oliver M. Selmoni|Diane Maitre|Julien Roux|Laetitia G. E. Wilkins|Lucas Marques da Cunha|Etienne Vermeirssen|Susanne Knorr|Marc Robinson-Rechavi|Claus Wedekind University of Lausanne;|Swiss Centre for Applied Ecotoxicology Eawag-EPFL;|University of Heidelberg
http://dx.doi.org/10.1101/135582 2017-05-09 Ecology CC BY The Paradox Of Constant Oceanic Plastic Debris: Evidence For Evolved Microbial Biodegradation? Ricard Sole|Ernest Fontich|Blai Vidiella|Salva Duran-Nebreda|Raul Montanez|Jordi Pinero|Sergi Valverde Universitat Pompeu Fabra;|Universitat de Barcelona
http://dx.doi.org/10.1101/135517 2017-05-09 Systems Biology Systems-Level Analysis Of 32 TCGA Cancers Reveals Disease-Dependent tRNA Fragmentation Patterns And Very Selective Associations With Messenger RNAs And Repeat Elements Isidore Rigoutsos|Aristeidis G. Telonis|Phillipe Loher|Rogan Magee|Yohei Kirino|Venetia Pliatsika Thomas Jefferson University
http://dx.doi.org/10.1101/118299 2017-05-09 Evolutionary Biology CC BY-NC-ND Evolution Of Hierarchy In Bacterial Metabolic Networks Aaron Goodman|Marcus Feldman Stanford University
http://dx.doi.org/10.1101/135574 2017-05-09 Systems Biology CC BY-NC DeepMetabolism: A Deep Learning System To Predict Phenotype From Genome Sequencing Weihua Guo|You Eric Xu|Xueyang Feng Virginia Polytechnic Institute and State University;|ai.codes, Inc.;|Virginia Tech
http://dx.doi.org/10.1101/134981 2017-05-09 Bioinformatics MutPred2: inferring the molecular and phenotypic impact of amino acid variants Vikas Pejaver|Jorge Urresti|Jose Lugo-Martinez|Kymberleigh A. Pagel|Guan Ning Lin|Hyun-Jun Nam|Matthew Mort|David N. Cooper|Jonathan Sebat|Lilia M. Iakoucheva|Sean D. Mooney|Predrag Radivojac Indiana University;|University of California San Diego;|Cardiff University;|University of Washington
http://dx.doi.org/10.1101/135566 2017-05-09 Neuroscience CC BY-NC-ND Translational Profiling Of Microglia Reveals Artifacts Of Cell Sorting Silvia S. Kang|Kelsey E. Baker|Xuewei Wang|Jeanne-Pierre Kocher|John D. Fryer Mayo Clinic
http://dx.doi.org/10.1101/135509 2017-05-09 Molecular Biology CC BY-NC-ND Multiple Poliovirus-Induced Organelles Suggested By Comparison Of Spatiotemporal Dynamics Of Membranous Structures And Phosphoinositides Hyung Suk Oh|Sravani Banerjee|David Aponte-Diaz|Jason Aligo|Maria F. Lodeiro|Craig E. Cameron Pennsylvania State University
http://dx.doi.org/10.1101/135442 2017-05-09 Genomics CC BY A Comparative Study Of Endoderm Differentiation In Humans And Chimpanzees Lauren E. Blake|Samantha M. Thomas|John D. Blischak|Chiaowen Joyce Hsiao|Claudia Chavarria|Marsha Myrthil|Yoav Gilad|Bryan J. Pavlovic University of Chicago
http://dx.doi.org/10.1101/133397 2017-05-09 Genetics Identification of Novel Breast Tumor Expression Dimensions within the PAM50 and Discovery of a Breast Cancer Susceptibility Locus at 12q15 Michael J Madsen|Stacey Knight|Carol Sweeney|Rachel Factor|Mohamed Salama|Venkatesh Rajamanickam|Bryan E Welm|Sasi Arunachalam|Brandt Jones|Kerry Rowe|Melissa Cessna|Alun Thomas|Lawrence H Kushi|Bette J Caan|Philip S Bernard|Nicola J Camp School of Medicine, University of Utah;|Intermountain Healthcare;|Division of Research, Kaiser Permanente;|University of Utah
http://dx.doi.org/10.1101/134502 2017-05-09 Evolutionary Biology CC BY Mitochondrial pseudogenes suggest repeated inter-species hybridization in hominid evolution. Konstantin Popadin|Konstantin Gunbin|Leonid Peshkin|Sofia Annis|Genya Kraytsberg|Natalya Markuzon|Rebecca R. Ackermann|Konstantin Khrapko University of Lausanne;|Novosibirsk State University;|Harvard Medical School;|Northeastern University;|Draper Laboratory;|University of Cape Town
http://dx.doi.org/10.1101/135889 2017-05-09 Wolbachia Effects On Rift Valley Fever Virus Infection In Culex tarsalis Mosquitoes Brittany L. Dodson|Elizabeth S. Andrews|Michael J. Turell|Jason Rasgon Penn State University;|California Department of Public Health;|VectorID LLC
http://dx.doi.org/10.1101/111880 2017-05-09 Random Sequences Rapidly Evolve Into De Novo Promoters Avihu H. Yona|Eric J. Alm|Jeff Gore Massachusetts Institute of Technology
http://dx.doi.org/10.1101/135715 2017-05-09 CC BY DNA.Land: A Digital Biobank Using A Massive Crowdsourcing Approach Jie Yuan|Assaf Gordon|Daniel Speyer|Richard Aufrichtig|Dina Zielinski|Joseph Pickrell|Yaniv Erlich Columbia University;|New York Genome Center
http://dx.doi.org/10.1101/136150 2017-05-09 CC BY-ND A Neuropeptide Signaling System That Rapidly Enforces Paternity In The Aedes aegypti Mosquito Laura B. Duvall|Nipun S. Basrur|Henrik Molina|Conor J. McMeniman|Leslie B. Vosshall The Rockefeller University
http://dx.doi.org/10.1101/135673 2017-05-09 Neuroscience CC BY Human brain-derived Aβ oligomers bind to synapses and disrupt synaptic activity in a manner that requires APP Dominic Walsh|Zemin Wang|Rosemary J. Jackson|Wei Hong|Taylor M. Walter|Arturo Moreno|Wen Liu|Shaomin Li|Matthew P. Frosch|Inna Slutsky|Tracy Young-Pearse|Tara L Spires-Jones Brigham and Women's Hospital and Harvard Medical School;|Edinburgh University;|Massachusetts General Hospital and Harvard Medical School;|Tel Aviv University;|University of Edinburgh
http://dx.doi.org/10.1101/134957 2017-05-09 Genetics High-risk Autism Spectrum Disorder Utah pedigrees: a novel Shared Genomic Segments analysis. Todd Darlington|Deborah Bilder|Jubel Morgan|Leslie Jerominski|Venkatesh Rajamanickam|Rob Sargent|Nicola J Camp|Hilary H Coon University of Utah
http://dx.doi.org/10.1101/136085 2017-05-09 Evolutionary Biology CC BY Comparative Genomics Of Apomictic Root-Knot Nematodes: Hybridization, Ploidy, And Dynamic Genome Change Amir Szitenberg|Laura Salazar-Jaramillo|Vivian C. Blok|Dominik R. Laetsch|Soumi Joseph|Valerie M. Williamson|Mark L. Blaxter|David H. Lunt Dead Sea and Arava Science Center;|Institute of Evolutionary Biology, School of Biological Sciences, University of Edinburgh;|The James Hutton Institute, Invergowrie, Dundee, UK;|Department of Entomology and Nematology, University of Florida, Gainesville, USA;|Department of Plant Pathology, University of California, Davis, USA;|Evolutionary Biology Group, School of Environmental Sciences, University of Hull
http://dx.doi.org/10.1101/135863 2017-05-09 Epidemiology CC BY-NC-ND Vaccination Can Drive An Increase In Frequencies Of Antibiotic Resistance Among Non-Vaccine Serotypes Of Streptococcus pneumoniae Uri Obolski|Jose Lourenco|Sunetra Gupta University of Oxford
http://dx.doi.org/10.1101/135301 2017-05-09 Epidemiology Epigenome-Wide Association Study Of Asthma And Wheeze In Childhood And Adolescence Ryan Arathimos|Matthew Suderman|Gemma C. Sharp|Kimberley Burrows|Raquel Granell|Kate Tilling|Tom R. Gaunt|John Henderson|Susan Ring|Rebecca Richmond|Caroline L. Relton University of Bristol
http://dx.doi.org/10.1101/134403 2017-05-09 Epidemiology CC BY Exponential Growth Of The USA Overdose Epidemic Jeanine M. Buchanich|Lauren C. Balmert|Donald S. Burke Graduate School of Public Health, University of Pittsburgh
http://dx.doi.org/10.1101/136275 2017-05-10 Genomics CC BY-ND Universal Alternative Splicing Of Noncoding Exons Ira W. Deveson|Marion E. Brunck|James Blackburn|Elizabeth Tseng|Ting Hon|Tyson A. Clark|Michael B. Clark|Joanna Crawford|Marcel E. Dinger|Lars K. Nielsen|John S. Mattick|Tim R. Mercer Garvan Institute of Medical Research, NSW, Australia;|University of Queensland, QLD, Australia;|Pacific Biosciences, Menlo Park, CA, USA
http://dx.doi.org/10.1101/134254 2017-05-10 Genomics CC BY-NC-ND The Population Genomics Of Archaeological Transition In West Iberia Rui Martiniano|Lara M. Cassidy|Ros O'Maolduin|Russell McLaughlin|Nuno M. Silva|Licinio Manco|Daniel Fidalgo|Tania Pereira|Maria J. Coelho|Miguel Serra|Joachim Burger|Rui Parreira|Elena Moran|Antonio Valera|Eduardo Porfirio|Rui Boaventura|Ana M. Silva|Daniel G. Bradley Smurfit Institute of Genetics, School of Genetics and Microbiology, Trinity College Dublin;|The Irish Fieldschool of Prehistoric Archaeology, Department of Archaeology, NUI Galway;|Department of Genetics & Evolution - Anthropology Unit, University of Geneva, Switzerland;|Research Centre for Anthropology and Health, Department of Life Sciences, Univ. of Coimbra;|Palimpsesto - Estudo e Preservacao do Patrimonio Cultural Lda., Coimbra, Portugal;|Palaeogenetics Group, Johannes Gutenberg University, Bentzelweg 7, Mainz, Germany;|Workgroup on Ancient Peasant Societies, University of Lisbon Archaeological Center, Lisboa;|Nucleo de Investigacao Arqueologica - ERA Arqueologia, Cruz Quebrada, Portugal
http://dx.doi.org/10.1101/134858 2017-05-10 Biophysics CC BY-NC-ND Transient Thresholding: A Mechanism Enabling Non-Cooperative Transcriptional Circuitry To Form A Switch Katherine H. Aull|Elizabeth Tanner|Matthew Thomson|Leor S. Weinberger Gladstone Institutes;|Caltech
http://dx.doi.org/10.1101/135905 2017-05-09 Biophysics CC BY-NC Torque and buckling in stretched intertwined double-helix DNAs John Marko|Sumitabha Brahmachari Northwestern University
http://dx.doi.org/10.1101/135616 2017-05-09 Genetics CC BY The Genomic History Of Southeastern Europe Iain Mathieson|Songul Alpaslan Roodenberg|Cosimo Posth|Anna Szecsenyi-Nagy|Nadin Rohland|Swapan Mallick|Inigo Olade|Nasreen Broomandkhoshbacht|Olivia Cheronet|Daniel Fernandes|Matthew Ferry|Beatriz Gamarra|Gloria Gonzalez Fortes|Wolfgang Haak|Eadaoin Harney|Ben Krause-Kyora|Isil Kucukkalipci|Megan Michel|Alissa Mittnik|Kathrin Nagele|Mario Novak|Jonas Oppenheimer|Nick Patterson|Saskia Pfrengle|Kendra Sirak|Kristin Stewardson|Stefania Vai|Stefan Alexandrov|Kurt W. Alt|Radian Andreescu|Dragana Antonovic|Abigail Ash|Nadezhda Atanassova|Krum Bacvarov|Mende Balazs Gusztav|Herve Bocherens|Michael Bolus|Adina Boroneant|Yavor Boyadzhiev|Alicja Budnik|Josip Burmaz|Stefan Chohadzhiev|Nicholas J. Conard|Richard Cottiaux|Maja Cuka|Christophe Cupillard|Dorothee G. Drucker|Nedko Elenski|Michael Francken|Borislava Galabova|Georgi Ganetovski|Bernard Gely|Tamas Hajdu|Veneta Handzhyiska|Katerina Harvati|Thomas Higham|Stanislav Iliev|Ivor Jankovic|Ivor Karavanic|Douglas J. Kennett|Darko Komso|Alexandra Kozak|Damian Labuda|Martina Lari|Catalin Lazar|Maleen Leppek|Krassimir Leshtakov|Domenico Lo Vetro|Dzeni Los|Ivaylo Lozanov|Maria Malina|Fabio Martini|Kath McSweeney|Harald Meller|Marko Menusic|Pavel Mirea|Vyacheslav Moiseyev|Vanya Petrova|T. Douglas Price|Angela Simalcsik|Luca Sineo|Mario Slaus|Vladimir Slavchev|Petar Stanev|Andrej Starovic|Tamas Szeniczey|Sahra Talamo|Maria Teschler-Nicola|Corinne Thevenet|Ivan Valchev|Frederique Valentin|Sergey Vasilyev|Fanica Veljanovska|Svetlana Venelinova|Elizaveta Veselovskaya|Bence Viola|Cristian Virag|Josko Zaninovic|Steve Zauner|Philipp W. Stockhammer|Giulio Catalano|Raiko Krau|David Caramelli|Gunita Zarina|Bisserka Gaydarska|Malcolm Lillie|Alexey G. Nikitin|Inna Potekhina|Anastasia Papathanasiou|Dusan Boric|Clive Bonsall|Johannes Krause|Ron Pinhasi|David Reich Department of Genetics, Harvard Medical School;|Department of Archaeogenetics, Max Planck Institute for the Science of Human History;|Institute of Archaeology, Hungarian Academy of Sciences;|School of Archaeology and Earth Institute, University College Dublin;|Department of Life Sciences and Biotechnology, University of Ferrara;|Institute for Scientific Archaeology, University of Tuebingen;|Broad Institute;|Department of Anthropology, Emory University;|Dipartimento di Biologia, Universita di Firenze;|National Institute of Archaeology and Museum, Bulgarian Academy of Sciences;|Danube Private University;|Romanian National History Museum;|Institute of Archaeology, Belgrade;|Bulgarian Academy of Sciences;|Hungarian Academy of Sciences;|University of Tuebingen;|Vasile Pârvan Institute of Archaeology, Romanian Academy;|Cardinal Stefan Wyszyński University;|KADUCEJ;|St. Cyril and Methodius University;|Department of Early Prehistory and Quaternary Ecology, University of Tuebingen;|INRAP/UMR 8215 Trajectoires;|Archaeological Museum of Istria;|Service Régional de l'Archéologie de Bourgogne-Franche-Comté;|Senckenberg Centre for Human Evolution and Palaeoenvironment, University of Tuebingen;|Regional Museum of History Veliko Tarnovo;|Institute for Archaeological Sciences, Paleoanthropology, University of Tuebingen;|Laboratory for Human Bio-Archaeology, Sofia;|Regional Museum of History, Vratsa;|Service Régional de l'Archéologie d'Auvergne-Rhône-Alpes;|Faculty of Science, Eötvös Loránd University;|Department of Archaeology, Sofia University St. Kliment Ohridsk;|Oxford Radiocarbon Accelerator Unit;|Regional Museum of History, Haskovo;|Department of Anthropology, University of Wyoming;|Pennsylvania State University;|Institute of Archaeology, National Academy of Sciences of Ukraine;|CHU Sainte-Justine Research Center;|Dipartimento di Biologia, Università di Firenze;|National History Museum of Romania;|Ludwig-Maximilians-University;|Department of Archaeology, Sofia University St. Kliment Ohridski;|Dipartimento SAGAS, Università degli Studi di Firenze;|School of History, Classics and Archaeology, University of Edinburgh;|State Off. for Heritage Manag. & Archaeology Saxony-Anhalt and State Museum of Prehistory;|Conservation Department in Šibenik, Ministry of Culture of the Republic of Croatia;|Teleorman County Museum;|Peter the Great Museum of Anthropology and Ethnography (Kunstkamera) RAS;|University of Wisconsin;|Olga Necrasov Centre for Anthropological Research, Romanian Academy;|Lab. of Anthropology, Università degli studi di Palermo;|Anthropological Center, Croatian Academy of Sciences and Arts;|Regional Historical Museum Varna;|National Museum in Belgrade;|Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology;|Department of Anthropology, Natural History Museum Vienna;|CNRS/UMR 7041 ArScAn MAE;|Institute of Ethnology and Anthropology, Russian Academy of Sciences;|Archaeological Museum of Macedonia;|Regional Museum of History, Shumen;|Department of Anthropology, University of Toronto;|Satu Mare County Museum Archaeology Department;|Municipal Museum Drniš;|anthropol - Anthropologieservice;|Institute for Prehistory, Early History and Medieval Archaeology, University of Tuebingen;|Institute of Latvian History, University of Latvia;|Department of Archaeology, Durham University;|School of Environmental Sciences: Geography, University of Hull;|Department of Biology, Grand Valley State University;|Dept. of Bioarchaeology, Institute of Archaeology, National Academy of Sciences of Ukraine;|Ephorate of Paleoanthropology and Speleology, Athens;|Department of Archaeology, Cardiff University;|Department of Anthropology, University of Vienna
http://dx.doi.org/10.1101/135756 2017-05-09 Biophysics CC BY Epigenetic Transitions And Knotted Solitons In Stretched Chromatin Davide Michieletto|Enzo Orlandini|Davide Marenduzzo University of Edinburgh;|Universiy of Padova
http://dx.doi.org/10.1101/135855 2017-05-09 Neuroscience CC BY-NC-ND Morphometric Similarity Networks Detect Microscale Cortical Organisation And Predict Inter-Individual Cognitive Variation Jakob Seidlitz|Frantisek Vasa|Maxwell Shinn|Rafael Romero-Garcia|Kirstie J. Whitaker|Petra E. Vertes|Paul Kirkpatrick Reardon|Liv Clasen|Adam Messinger|David A. Leopold|Peter Fonagy|Raymond J. Dolan|Peter B. Jones|Ian M. Goodyer|Armin Raznahan|Edward T. Bullmore University of Cambridge;|National Institutes of Health;|University College London
http://dx.doi.org/10.1101/135772 2017-05-09 Neuroscience CC BY The Neural System of Metacognition Accompanying Decision-Making in The Prefrontal Cortex Xiaohong Wan|Lirong Qiu|Jie Su|Yinmei Ni|Yang Bai|Xiaoli Li Beijing Normal University, China
http://dx.doi.org/10.1101/135699 2017-05-09 Biophysics CC BY-NC-ND 3D Single-Molecule Super-Resolution Microscopy With A Tilted Light Sheet Anna-Karin Gustavsson|Petar N. Petrov|Maurice Y. Lee|Yoav Shechtman|W. E. Moerner Stanford University;|Technion, Israel Institute of Technology
http://dx.doi.org/10.1101/135749 2017-05-09 Zoology CC BY-NC-ND Extensive Sexual Wing Shape Dimorphism In Drosophila melanogaster, Ceratitis capitata, And Musca domestica Natalia Siomava|Ernst A. Wimmer|Nico Posnien University of Goettingen
http://dx.doi.org/10.1101/135830 2017-05-09 Pharmacology and Toxicology CC BY-NC-ND Effects Of Curcumin Nanoformulations On Cellular Function In Niemann-Pick Disease Type C Astrocytes Emily Maguire|Luke J. Haslett|Joanne L. Welton|Helen Waller-Evans|Jule Goike|Emily H. Clark|Harry R. Knifton|Ravin Shrestha|Kim Wager|Richard Webb|Emyr Lloyd-Evans Cardiff University;|Cardiff Metropolitan University
http://dx.doi.org/10.1101/135640 2017-05-09 Bioinformatics CC BY-NC-ND Deep-Learning Based, Automated Segmentation Of Macular Edema In Optical Coherence Tomography Cecilia S. Lee|Ariel J. Tyring|Nicolaas P. Deruyter|Yue Wu|Ariel Rokem|Aaron Y. Lee Department of Ophthalmology, University of Washington;|School of Medicine, University of Washington;|eScience Institute, University of Washington
http://dx.doi.org/10.1101/135814 2017-05-09 Genomics CC BY-NC Integrative And Conjugative Elements And Their Hosts: Composition, Distribution, And Organization Jean Cury|Marie Touchon|Eduardo P. C. Rocha Institut Pasteur
http://dx.doi.org/10.1101/135947 2017-05-09 Biophysics CC BY-NC Facilitated Dissociation Of Transcription Factors From Single DNA Binding Sites Ramsey I. Kamar|Ed J. Banigan|Aykut Erbas|Rebecca D. Giuntoli|Monica Olvera de la Cruz|Reid C. Johnson|John F. Marko Northwestern University;|UCLA
http://dx.doi.org/10.1101/136176 2017-05-09 Microbiology CC BY-NC The dental calculus metabolome in modern and historic samples Irina M Velsko|Katherine A Overmyer|Camilla Speller|Matthew Collins|Louise Loe|Laurent A. F. Frantz|Juan Bautista Rodriguez Martinez|Eros Chavez|Lauren Klaus|Krithivasan Sankaranarayanan|Cecil M Lewis|Joshua J Coon|Greger Larson|Christina Warinner University of Oxford;|University of Wisconsin-Madison;|University of York;|University of Copenhagen;|Oxford Archaeology;|Queen Mary University of London;|Dental Office Dr. Juan Bautista Rodriguez;|University of Oklahoma;|Max Plank Institute for the Science of Human History
http://dx.doi.org/10.1101/135962 2017-05-09 Genomics CC BY-NC-ND The Beaker Phenomenon And The Genomic Transformation Of Northwest Europe Inigo Olalde|Selina Brace|Morten E. Allentoft|Ian Armit|Kristian Kristiansen|Nadin Rohland|Swapan Mallick|Thomas Booth|Anna Szecsenyi-Nagy|Alissa Mittnik|Eveline Altena|Mark Lipson|Iosif Lazaridis|Nick J. Patterson|Nasreen Broomandkhoshbacht|Yoan Diekmann|Zuzana Faltyskova|Daniel M. Fernandes|Matthew Ferry|Eadaoin Harney|Peter de Knijff|Megan Michel|Jonas Oppenheimer|Kristin Stewardson|Alistair Barclay|Kurt W. Alt|Azucena Aviles Fernandez|Eszter Banffy|Maria Bernabo-Brea|David Billoin|Concepcion Blasco|Clive Bonsall|Laura Bonsall|Tim Allen|Lindsey Buster|Sophie Carver|Laura Castells Navarro|Oliver Edward Craig|Gordon T. Cook|Barry Cunliffe|Anthony Denaire|Kirsten Egging Dinwiddy|Natasha Dodwell|Michal Ernee|Christopher Evans|Milan Kucharik|Joan Frances Farre|Harry Fokkens|Chris Fowler|Michiel Gazenbeek|Rafael Garrido Pena|Maria Haber-Uriarte|Elzbieta Haduch|Gill Hey|Nick Jowett|Timothy Knowles|Ken Massy|Saskia Pfrengle|Philippe Lefranc|Olivier Lemercier|Arnaud Lefebvre|Joaquin Lomba Maurandi|Tona Majo|Jacqueline I. McKinley|Kathleen McSweeney|Mende Balazs Gusztav|Alessandra Modi|Gabriella Kulcsar|Viktoria Kiss|Andras Czene|Robert Patay|Anna Endrodi|Kitti Kohler|Tamas Hajdu|Joao Luis Cardoso|Corina Liesau|Michael Parker Pearson|Piotr Wodarczak|T. Douglas Price|Pilar Prieto|Pierre-Jerome Rey|Patricia Rios|Roberto Risch|Manuel A. Rojo Guerra|Aurore Schmitt|Joel Serralongue|Ana Maria Silva|Vaclav Smrcka|Luc Vergnaud|Joao Zilhao|David Caramelli|Thomas Higham|Volker Heyd|Alison Sheridan|Karl-Goran Sjogren|Mark G. Thomas|Philipp W. Stockhammer|Ron Pinhasi|Johannes Krause|Wolfgang Haak|Ian Barnes|Carles Lalueza-Fox|David Reich Harvard Medical School;|Natural History Museum, London;|Centre for GeoGenetics;|University of Bradford;|University of Gothenburg;|Hungarian Academy of Sciences;|University of Tübingen;|Leiden University Medical Center;|Broad Institute of MIT and Harvard;|University College London;|University College Dublin;|Wessex Archaeology;|Danube Private University;|Universidad de Murcia;|Museo Archeologico Nazionale di Parma;|INRAP, Institut National de Recherches Archéologiques Préventives;|Universidad Autónoma de Madrid;|University of Edinburgh;|Independent Researcher;|Oxford Archaeology;|University of Bristol;|University of York;|Scottish Universities Environmental Research Centre;|University of Oxford;|Université de Strasbourg;|Oxford Archaeology East;|Czech Academy of Sciences;|University of Cambridge;|Labrys o.p.s.;|Museu i Poblat Ibèric de Ca n'Oliver;|Leiden University;|Newcastle University;|Jagiellonian University;|Great Orme Mines;|Bristol Radiocarbon Accelerator Mass Spectrometry Facility, University of Bristol;|Ludwig-Maximilians-Universität München;|Eberhard-Karls-University of Tübingen;|Université Paul-Valéry - Montpellier 3;|Universitat Autònoma de Barcelona;|University of Florence;|Salisbury Ltd.;|Ferenczy Museum Center;|Budapest History Museum;|Eötvös Loránd University;|Universidade de Lisboa;|Polish Academy of Sciences;|University of Wisconsin-Madison;|University of Santiago de Compostela;|Université Savoie Mont Blanc;|Valladolid University;|Aix-Marseille Univ;|Conseil Général de la Haute-Savoie;|University of Coimbra;|Charles University;|ANTEA Bureau d'étude en Archéologie;|Department of Biology, University of Florence;|National Museums Scotland;|Max Planck Institute for the Science of Human History;|Natural History Museum;|Institute of Evolutionary Biology, CSIC-Universitat Pompeu Fabra
http://dx.doi.org/10.1101/136143 2017-05-09 Bioinformatics CC BY A Method To Assess Significance Of Differences In RNA Expression Levels Among Specific Groups Of Genes Mingze He|Peng Liu|Carolyn J. Lawrence-Dill Iowa State University
http://dx.doi.org/10.1101/135913 2017-05-09 Biophysics CC BY Millisecond Dynamics Of BTK Reveal Kinome-Wide Conformational Plasticity Within The Apo Kinase Domain Mohammad M. Sultan|Rajiah Aldrin Denny|Ray Unwalla|Frank Lovering|Vijay S. Pande Stanford University;|Pfizer
http://dx.doi.org/10.1101/136101 2017-05-09 Biophysics CC BY-ND Pushing The Limits Of Detection Of Weak Binding Using Fragment Based Drug Discovery: Identification Of New Cyclophilin Binders Charis Georgiou|Iain W. McNae|Martin A. Wear|Harris Ioannidis|Julien Michel|Malcolm D. Walkinshaw University of Edinburgh
http://dx.doi.org/10.1101/127746 2017-05-09 Microbiology CC BY Specific hypersensitive response-associated recognition of new apoplastic effectors from Cladosporium fulvum in wild tomato Carl H Mesarich|Bilal Okmen|Hanna Rovenich|Scott A Griffiths|Changchun Wang|Mansoor Karimi Jashni|Aleksandar Mihajlovski|Jerome Collemare|Lukas Hunziker|Cecilia H Deng|Ate van der Burgt|Henriek G Beenen|Matthew D Templeton|Rosie E Bradshaw|Pierre JGM de Wit Massey University;|Wageningen University;|The New Zealand Institute for Plant & Food Research Limited
http://dx.doi.org/10.1101/136226 2017-05-09 Neuroscience Ketogenic diet or BHB improves epileptiform spikes, memory, survival in Alzheimer's model John C Newman|Francois Kroll|Scott Ulrich|Jorge J Palop|Eric Verdin UCSF, Buck Institute, Gladstone Institutes;|Gladstone Institutes;|Ithaca College
http://dx.doi.org/10.1101/136242 2017-05-09 Bioinformatics CC BY-NC Barcode identification for single cell genomics Akshay Tambe|Lior Pachter Dept of Molecular and Cell Biology, UC Berkeley;|California Institute of Technology
http://dx.doi.org/10.1101/136234 2017-05-09 Cancer Biology CC BY-NC-ND MicroRNA-451a regulates colorectal cancer radiosensitivity Rebecca Ruhl|Shushan Rana|Katherine Kelley|Cristina Espinosa-Diez|Clayton Hudson|Christian Lanciault|Charles Thomas|Liana V Tsikitis|Sudarshan Anand Oregon Health & Science Univ;|OHSU
http://dx.doi.org/10.1101/135707 2017-05-09 Neuroscience Categorical Representations Of Decision-Variables In Orbitofrontal Cortex Junya Hirokawa|Alexander Vaughan|Adam Kepecs Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/135681 2017-05-09 Neuroscience CC BY-NC Interpreting Temporal Fluctuations In Resting-State Functional Connectivity MRI Raphael Liegeois|Timothy O. Laumann|Abraham Z. Snyder|Helen J. Zhou|B. T. Thomas Yeo National University of Singapore;|Washington University School of Medicine;|Duke-NUS Medical School
http://dx.doi.org/10.1101/135970 2017-05-09 Neuroscience CC BY Contrast Thresholds Reveal Different Visual Masking Functions In Humans And Praying Mantises Ghaith Tarawneh|Vivek Nityananda|Ronny Rosner|Steven Errington|William Herbert|Sandra Arranz-Paraiso|Natalie Busby|Jimmy Tampin|Jenny Read|Ignacio Serrano-Pedraza Newcastle University;|Complutense University of Madrid
http://dx.doi.org/10.1101/136002 2017-05-09 Bioinformatics CC BY-NC-ND Prominent Features Of The Amino Acid Mutation Landscape In Cancer Zachary A. Szpiech|Nicolas B. Strauli|Katharine A. White|Diego Garrido Ruiz|Matthew P. Jacobson|Diane L. Barber|Ryan D. Hernandez University of California, San Francisco
http://dx.doi.org/10.1101/135665 2017-05-09 Systems Biology Theory For Transitions Between Exponential And Stationary Phases: Universal Laws For Lag Time Yusuke Himeoka|Kunihiko Kaneko University of Tokyo
http://dx.doi.org/10.1101/136093 2017-05-09 Evolutionary Biology CC BY-NC Evolution Of Pre-Copulatory And Post-Copulatory Strategies Of Inbreeding Avoidance And Associated Polyandry A. Bradley Duthie|Greta Bocedi|Ryan R. Germain|Jane M. Reid University of Stirling;|University of Aberdeen
http://dx.doi.org/10.1101/136028 2017-05-09 Cell Biology CC BY-ND CRISPR-Cas9 Genome Editing In Human Cells Works Via The Fanconi Anemia Pathway Chris D. Richardson|Katelynn R. Kazane|Sharon J. Feng|Nicholas L. Bray|Axel J. Schaefer|Stephen Floor|Jacob Corn Innovative Genomics Institute, UC Berkeley;|UC Berkeley;|University of California, Berkeley
http://dx.doi.org/10.1101/135871 2017-05-09 Neuroscience CC BY Brain Structural Differences Between 73- And 92-Year Olds Matched For Childhood Intelligence, Social Background, And Intracranial Volume Stuart J. Ritchie|David Alexander Dickie|Simon R. Cox|Maria C. Valdes Hernandez|Alison Pattie|Devasuda Anblagan|Paul Redmond|Natalie A. Royle|Janie Corley|Susana Munoz Maniega|Adele M. Taylor|Sherif Karama|Tom Booth|Alan J. Gow|John M. Starr|Mark E. Bastin|Joanna M. Wardlaw|Ian J. Deary The University of Edinburgh;|McGill University;|Heriot-Watt University
http://dx.doi.org/10.1101/136077 2017-05-09 Bioinformatics CC BY-NC MAJIQ-SPEL: Web-Tool To Interrogate Classical And Complex Splicing Variations From RNA-Seq Data Christopher Green|Matthew R. Gazzara|Yoseph Barash University of Pennsylvania
http://dx.doi.org/10.1101/136598 2017-05-10 FplA From Fusobacterium nucleatum Is A Type Vd Autotransporter Phospholipase With A Proposed Role In Altered Host Signaling And Evasion Of Autophagy Michael A. Casasanta|Christopher C. Yoo|Hans B. Smith|Alison J. Duncan|Kyla Cochrane|Ann C. Varano|Emma Allen-Vercoe|Daniel J. Slade Virginia Polytechnic Institute and State University;|University of British Columbia;|Virginia Tech Carilion Research Institute;|University of Guelph
http://dx.doi.org/10.1101/135723 2017-05-10 CC BY Spinal cholinergic interneurons differentially control motoneuron excitability and alter the locomotor network operational range Maria Bertuzzi|Konstantinos Ampatzis Karolinska Institute
http://dx.doi.org/10.1101/136416 2017-05-10 Neurotrophin Receptor Ntrk2b Function In The Maintenance Of Dopamine And Serotonin Neurons In Zebrafish Madhusmita Priyadarshini Sahu|Ceren Pajanoja|Stanislav Rozov|Pertti Panula|Eero Castren University of Helsinki
http://dx.doi.org/10.1101/136564 2017-05-10 Cancer Biology Untangling The Gene-Epigenome Networks: Timing Of Epigenetic Regulation Of Gene Expression In Acquired Cetuximab Resistance Genevieve Stein-O'Brien|Luciane T. Kagohara|Sijia Li|Manjusha Thakar|Ruchira Ranaweera|Hiroyuki Ozawa|Haixia Cheng|Michael Considine|Alexander Favorov|Ludmila Danilova|Joseph Califano|Evgeny Izumchenko|Daria A. Gaykalova|Christine H. Chung|Elana J. Fertig Johns Hopkins University;|Moffitt Cancer Center;|Keio University;|University of Utah;|University of California San Diego
http://dx.doi.org/10.1101/136572 2017-05-10 Cell Biology CC BY A New Quantitative Cell Microscopy Approach Reveals Mechanistic Insights Into Clearance Of Membrane Substrates By The AAA Protein Msp1 Nicholas R. Weir|Roarke A. Kamber|James S. Martenson|Vladimir Denic Harvard University
http://dx.doi.org/10.1101/136556 2017-05-10 Microbiology CC BY Adaptation Of Staphylococcus saprophyticus At The Host-Pathogen Interface Tatum D. Mortimer|Douglas S. Annis|Mary B. O'Neill|Lindsey L. Bohr|Tracy M. Smith|Hendrik N. Poinar|Deane F. Mosher|Caitlin S. Pepperell University of Wisconsin-Madison;|McMaster University
http://dx.doi.org/10.1101/136499 2017-05-10 Systems Biology CC BY Classification Of Gene Signatures For Their Information Value And Functional Redundancy Laura Cantini|Laurence Calzone|Loredana Martignetti|Mattias Rydenfelt|Nils Bluthgen|Emmanuel Barillot|Andrei Zinovyev Insitut Curie;|Institut Curie;|Charite Universitatsmedizin Berlin and IRI Life Sciences and Institute for Theoretical Biology
http://dx.doi.org/10.1101/136515 2017-05-10 Animal Behavior and Cognition CC BY-NC Within-Woman Hormone-Attractiveness Correlations Are Not Simply Byproducts Of Between-Women Hormone-Attractiveness Correlations Benedict C. Jones|Amanda C. Hahn|Claire I. Fisher|Hongyi Wang|Michal Kandrik|Chengyang Han|Anthony J. Lee|Iris J. Holzleitner|Lisa M. DeBruine University of Glasgow;|Humboldt State University
http://dx.doi.org/10.1101/136580 2017-05-10 Evolutionary Biology CC BY-NC-ND The Evolution Of Small RNA-Mediated Silencing Of An Invading Transposable Element Erin S. Kelleher|Ricardo B. R. Azevedo|Yichen Zheng University of Houston
http://dx.doi.org/10.1101/136531 2017-05-10 Systems Biology CC BY-NC-ND Mechanistic Modeling Quantifies The Influence Of Tumor Growth Kinetics On The Response To Anti-Angiogenic Treatment Thomas D. Gaddy|Stacey D. Finley University of Southern California
http://dx.doi.org/10.1101/136507 2017-05-10 Evolutionary Biology CC BY-ND Evolutionary Processes Shaping Diversity Across The Homo Lineage Lauren Schroeder|Rebecca R. Ackermann University at Buffalo, SUNY;|University of Cape Town
http://dx.doi.org/10.1101/136366 2017-05-10 Developmental Biology CC BY Organoid And Tissue Patterning Through Phase Separation: Use Of A Vertex Model To Relate Dynamics Of Patterning To Underlying Biophysical Parameters William Waites|Matteo Cavaliere|Elise Cachat|Vincent Danos|Jamie A. Davies University of Edinburgh;|Ecole Normale Superieure
http://dx.doi.org/10.1101/136473 2017-05-10 Neuroscience CC BY A Population-Based Atlas Of The Macroscale Structural Connectome In The Human Brain Fang-Cheng Yeh|Sandip Panesar|David Fernandes|Antonio Meola|Masanori Yoshino|Juan C. Fernandez-Miranda|Jean Vettel|Timothy Verstynen Department of Neurological Surgery, University of Pittsburgh Medical Center;|Cleveland Clinic;|Department of Neurosurgery, Toranomon Hospital, Tokyo, Japan;|U.S. Army Research Laboratory, Aberdeen Proving Ground, Aberdeen, Maryland, USA;|Carnegie Mellon University
http://dx.doi.org/10.1101/136390 2017-05-10 Microbiology CC BY-NC-ND Diversity Of Biocrust-Forming Cyanobacteria In A Semiarid Gypsiferous Site From Central Spain Concha Cano-Diaz|Pilar Mateo|M. Angeles Munoz|Fernando T. Maestre Universidad Rey Juan Carlos;|Universidad Autónoma de Madrid
http://dx.doi.org/10.1101/110585 2017-05-10 Bioinformatics CC BY-NC-ND smallrnaseq: Short Non Coding RNA-Seq Analysis With Python Damien Farrell University College Dublin
http://dx.doi.org/10.1101/136408 2017-05-10 Bioinformatics CC BY PBxplore: A Tool To Analyze Local Protein Structure And Deformability With Protein Blocks Jonathan Barnoud|Hubert Santuz|Pierrick Craveur|Agnel Praveen Joseph|Vincent Jallu|Alexandre G. de Brevern|Pierre Poulain Groningen Biomolec. Sciences & Biotechnol. Institute; Zernike Institute for Advanced Materials;|INSERM, U 1134, Univ Paris Diderot, DSIMB;|The Scripps Research Institute, Dept. of Integrative Structural and Computational Biology;|Birkbeck College, University of London;|INTS, Platelet Unit;|Institut Jacques Monod, UMR 7592, Univ. Paris Diderot, CNRSR 7592 CNRS
http://dx.doi.org/10.1101/136374 2017-05-10 Genetics CC BY-NC-ND Targeting Repair Pathways With Small Molecules Increases Precise Genome Editing In Pluripotent Stem Cells Stephan Riesenberg|Tomislav Maricic Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/136440 2017-05-10 Biophysics A Systematic Analysis Of Atomic Protein-Ligand Interactions In The PDB Renato Ferreira de Freitas|Matthieu Schapira Structural Genomics Consortium, University of Toronto
http://dx.doi.org/10.1101/136051 2017-05-10 Genetics CC BY-NC-ND Population-Based Relative Risks For Specific Family History Constellations Of Breast Cancer - Towards Individualized Risk Estimation Frederick S. Albright|Leigh Neumayer|Saundra S. Buys|Cindy B. Matsen|Kimberly A. Kaphingst|Lisa A Cannon-Albright University of Utah;|University of Arizona;|University of Utah School of Medicine
http://dx.doi.org/10.1101/136465 2017-05-10 Genomics Simple And Multiplexed Enrichment Of Rare DNA Variants Via Sequence-Selective And Temperature-Robust Amplification Lucia R. Wu|Sherry Xi Chen|Yalei Wu|Abhijit A. Patel|David Zhang Rice University;|Thermo Fisher;|Yale School of Medicine
http://dx.doi.org/10.1101/136283 2017-05-10 Genomics CC BY-NC-ND Inferring Relevant Cell Types For Complex Traits Using Single-Cell Gene Expression Diego Calderon|Anand Bhaskar|David Knowles|David Golan|Towfique Raj|Audrey Fu|Jonathan K. Pritchard Stanford University;|Technion;|Mount Sinai School of Medicine;|University of Idaho;|Stanford University; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/136069 2017-05-10 Genomics CC BY De Novo Assembly And Annotation Of The Eastern Fence Lizard (Sceloporus undulatus) Transcriptome Mariana Bortoletto Grizante|Marc A. Tollis|Juan J. Rodriguez|Ofir Levy|Michael J. Angilletta|Kenro Kusumi Arizona State University
http://dx.doi.org/10.1101/136267 2017-05-10 Neuroscience CC BY The Development Of Bayesian Integration In Sensorimotor Estimation Claire Chambers|Taegh Sokhey|Deborah Gaebler-Spira|Konrad Kording Northwestern University
http://dx.doi.org/10.1101/136325 2017-05-10 Evolutionary Biology Selection On Morphological Traits And Fluctuating Asymmetry By A Fungal Parasite In The Yellow Dung Fly Wolf U. Blanckenhorn University of Zurich
http://dx.doi.org/10.1101/136259 2017-05-10 Neuroscience CC BY-NC-ND How Sample Size Influences The Reproducibility Of Task-Based fMRI Erick J. Paul|Benjamin Turner|Michael B. Miller|Aron K. Barbey Beckman Institute for Advanced Science and Technology;|UC Santa Barbara
http://dx.doi.org/10.1101/125310 2017-05-10 Evolutionary Biology CC BY Disentangling The Causes For Faster-X Evolution In Aphids Julie Jaquiery|Jean Peccoud|Tiphaine Ouisse|Fabrice Legeai|Nathalie Prunier-Leterme|Anais Gouin|Pierre Nouhaud|Jennifer Brisson|Ryan Bickel|Swapna Purandare|Julie Poulain|Christophe Battail|Claire Lemaitre|Lucie Mieuzet|Gael Le Trionnaire|Jean-Christophe Simon|Claude Rispe University of Rennes 1, CNRS UMR 6553 ECOBIO;|University of Poitiers, UMR CNRS 7267 Ecologie et Biologie des Interactions;|INRIA Centre de Rennes - Bretagne Atlantique;|Institut National de la Recherche Agronomique, UMR 1349 IGEPP;|Institute of Population Genetics, Vetmeduni Vienna;|University of Rochester, Department of Biology;|Ohio State University;|Commissariat a l'Energie Atomique (CEA), Institut de Genomique (IG);|BIOEPAR, INRA, ONIRIS
http://dx.doi.org/10.1101/136358 2017-05-10 Bioinformatics CC BY-NC Managing The Analysis Of High-Throughput Sequencing Data Javier Quilez|Enrique Vidal|Francois Le Dily|Francois Serra|Yasmina Cuartero|Ralph Stadhouders|Guillaume Filion|Thomas Graf|Marc A. Marti-Renom|Miguel Beato Centre for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/135368 2017-05-10 Genomics High Resolution Epigenomic Atlas of Early Human Craniofacial Development Andrea Wilderman|Jeffrey Kron|Jennifer VanOudenhove|James P. Noonan|Justin Cotney UConn Health;|Yale University School of Medicine
http://dx.doi.org/10.1101/136168 2017-05-10 Genomics A Next Generation Connectivity Map: L1000 Platform And The First 1,000,000 Profiles Aravind Subramanian|Rajiv Narayan|Steven M. Corsello|David D. Peck|Ted E. Natoli|Xiaodong Lu|Joshua Gould|John F. Davis|Andrew A. Tubelli|Jacob K. Asiedu|David L. Lahr|Jodi E. Hirschman|Zihan Liu|Melanie Donahue|Bina Julian|Mariya Khan|David Wadden|Ian Smith|Daniel Lam|Arthur Liberzon|Courtney Toder|Mukta Bagul|Marek Orzechowski|Oana M. Enache|Frederica Piccioni|Alice H. Berger|Alykhan Shamji|Angela N. Brooks|Anita Vrcic|Corey Flynn|Jacqueline Rosains|David Takeda|Desiree Davison|Justin Lamb|Kristin Ardlie|Larson Hogstrom|Nathanael S. Gray|Paul A. Clemons|Serena Silver|Xiaoyun Wu|Wen-Ning Zhao|Willis Read-Button|Xiaohua Wu|Stephen J. Haggarty|Lucienne V. Ronco|Jesse S. Boehm|Stuart L. Schreiber|John G. Doench|Joshua A. Bittker|David E. Root|Bang Wong|Todd R. Golub Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA
http://dx.doi.org/10.1101/135491 2017-05-10 Microbiology African Nonhuman Primates Are Infected With The Yaws Bacterium Treponema pallidum subsp. pertenue Sascha Knauf|Jan Gogarten|Verena J. Schuenemann|Helene M. De Nys|Ariane Duex|Michal Strouhal|Lenka Mikalova|Kisten I. Bos|Roy Armstrong|Emmanuel K. Batamuzi|Idrissa S. Chuma|Bernard Davoust|Georges Diatta|Robert D. Fyumagwa|Reuben R. Kazwala|Julius D. Keyyu|Inyasi A. V. Lejora|Anthony Levasseur|Hsi Liu|Michael A. Mayhew|Oleg Mediannikov|Didier Raoult|Roman M. Wittig|Christian Roos|Fabian H. Leendertz|David Smajs|Kay Nieselt|Johannes Krause|Sebastien Calvignac-Spencer German Primate Center;|Robert Koch Institute;|University of Tuebingen;|Masaryk University;|Max Planck Institute for the Science of Human History;|University of Cumbria;|Sokoine University of Agriculture;|Tanzania National Parks;|Research Unit of Emerging Infectious and Tropical Diseases;|Tanzania Wildlife Research Institute;|Centers for Diseases Control and Prevention, Atlanta;|Max Planck Institute for Evolutionary Anthropology;|German Primate Centre;|Robert Koch-Institut
http://dx.doi.org/10.1101/135954 2017-05-10 Neuroscience Protein Phosphatase 1 Regulates Huntingtin Exon 1 Aggregation And Toxicity Joana Branco-Santos|Federico Herrera|Goncalo M. Pocas|Yolanda Pires-Afonso|Flaviano Giorgini|Pedro M. Domingos|Tiago F. Outeiro Instituto de Tecnologia Quimica e Biologica (ITQB), Oeiras, Portugal;|School of Biological Sciences, Monash University, Clayton, Victoria, Australia;|Department of Oncology, Luxembourg Institute of Health, University of Luxembourg;|Department of Genetics, University of Leicester, Leicester, UK;|Department of Experimental Neurodegeneration, University Medical Center Gottingen
http://dx.doi.org/10.1101/136911 2017-05-11 Neuroscience CC BY-NC-ND Systematic Characterization Of Human 21st Chromosome Orthologs In Caenorhabditis elegans Sarah Nordquist|Allison Griffith|Jonathan Pierce University of Texas at Austin, United States
http://dx.doi.org/10.1101/136838 2017-05-11 Microbiology CC BY Modifying And Reacting To The Environmental pH Drives Bacterial Interactions Christoph Ratzke|Jeff Gore Massachusetts Institute of Technology
http://dx.doi.org/10.1101/136812 2017-05-11 Synthetic Biology Crosstalk Between Diverse Synthetic Protein Degradation Tags In Escherichia coli Nicholas Butzin|Will Mather Virginia Tech
http://dx.doi.org/10.1101/136762 2017-05-11 Plant Biology Plant miRNA Regulation Is Environmentally And Developmentally-Sensitive Patrick von Born|Ignacio Rubio-Somoza Department of Plant-Microbe Interactions, Max Planck Institute for Plant Breeding Research;|Molec. Reprogramming & Evolution Laboratory, Centre for Research in Agricultural Genomics
http://dx.doi.org/10.1101/136770 2017-05-11 Plant Biology CC BY-NC-ND Genome-Wide Characterization Of Isoform Switching In Arabidopsis thaliana Dries Vaneechoutte|April Roberts Estrada|Ying-Chen Lin|Ann Loraine|Klaas Vandepoele VIB;|University of North Carolina
http://dx.doi.org/10.1101/136705 2017-05-11 Bioinformatics CC BY A Simple Representation Of Three-Dimensional Molecular Structure Seth D. Axen|Xi-Ping Huang|Elena L. Caceres|Leo Gendelev|Bryan L. Roth|Michael Keiser University of California, San Francisco;|UNC Chapel Hill Medical School;|UNC Chapel Hill School of Medicine
http://dx.doi.org/10.1101/133140 2017-05-11 Microbiology CC BY-NC-ND Enterococcus faecalis Promotes Innate Immune Suppression And Polymicrobial Catheter-Associated Urinary Tract Infection Brenda Yin Qi Tien|Hwee Mian Sharon Goh|Kelvin Kian Long Chong|Soumili Bhaduri-Tagore|Sarah Holec|Regine Dress|Florent Ginhoux|Molly A. Ingersoll|Rohan B. H. Williams|Kimberly Kline Nanyang Technological University;|Singapore Immunology Network, Agency for Science, Technology, and Research;|Institut Pasteur;|National University Singapore
http://dx.doi.org/10.1101/136713 2017-05-11 Developmental Biology A Novel Reporter Allele For Monitoring Dll4 Expression Within The Embryonic And Adult Mouse Alexander M. Herman|Alexander M. Rhyner|W. Patrick Devine|Sean P. Marrelli|Benoit G. Bruneau|Joshua D. Wythe Baylor College of Medicine;|Gladstone Institute of Cardiovascular Disease / UCSF;|Gladstone Institute of Cardiovascular Disease
http://dx.doi.org/10.1101/136614 2017-05-11 Genomics CC BY-ND Mapping Tumor-Specific Expression QTLs In Impure Tumor Samples Douglas R. Wilson|Wei Sun|Joseph G. Ibrahim University of North Carolina at Chapel Hill;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/136754 2017-05-11 Cell Biology CC BY-ND Scc2/Nipbl Hops Between Chromosomal Cohesin Rings After Loading James Rhodes|Davide Mazza|Kim Nasmyth|Stephan Uphoff Department of Biochemistry, Oxford University;|Istituto Scientifico Ospedale San Raffaele, Centro di Imaging Sperimentale, Milano
http://dx.doi.org/10.1101/136788 2017-05-11 Evolutionary Biology CC BY-ND Excretion Through Digestive Tissues Predates The Evolution Of Excretory Organs Carmen Andrikou|Daniel Thiel|Juan Antonio Ruiz-Santiesteban|Andreas Hejnol University of Bergen
http://dx.doi.org/10.1101/136457 2017-05-11 Genomics CC BY-NC-ND Oxidative-Phosphorylation Genes From The Mitochondrial And Nuclear Genomes Co-Express In All Human Tissues Except For The Ancient Brain Gilad Barshad|Amit Blumberg|Dan Mishmar Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/136549 2017-05-11 Animal Behavior and Cognition CC BY-NC Women's Preferences For Facial Masculinity Are Not Related To Their Hormonal Status Benedict C. Jones|Amanda C. Hahn|Claire I. Fisher|Hongyi Wang|Michal Kandrik|Chengyang Han|Vanessa Fasolt|Danielle Morrison|Anthony J. Lee|Iris J. Holzleitner|Craig Roberts|Anthony C. Little|Lisa M. DeBruine University of Glasgow;|Humboldt State University;|University of Stirling;|University of Bath
http://dx.doi.org/10.1101/136739 2017-05-11 Biophysics Boosting The Localization Precision Of dSTORM By Biocompatible Metal-Dielectric Coated Glass Coverslips Hannah Sophie Heil|Benjamin Schreiber|Monika Emmerling|Sven Hoefling|Martin Kamp|Markus Sauer|Katrin Gertrud Heinze University of Wuerzburg
http://dx.doi.org/10.1101/136655 2017-05-10 Developmental Biology CC BY-NC-ND Imp/Syp Temporal Gradients Govern Decommissioning Of Drosophila Neural Stem Cells Ching-Po Yang|Tamsin J. Samuels|Yaling Huang|Lu Yang|David Ish-Horowicz|Ilan Davis|Tzumin Lee Howard Hughes Medical Institute, Janelia Research Campus;|Department of Biochemistry, University of Oxford;|MRC Laboratory for Molecular Cell Biology, University College London
http://dx.doi.org/10.1101/137042 2017-05-11 Systematic Genetic Dissection Of Chitin Degradation And Uptake In Vibrio cholerae Chelsea A. Hayes|Triana N. Dalia|Ankur B. Dalia Indiana University
http://dx.doi.org/10.1101/137034 2017-05-11 CC BY-NC-ND Genes Involved In Human Sialic Acid Biology Do Not Harbor Signatures Of Recent Positive Selection Jiyun M. Moon|David Aronoff|Tony Capra|Patrick Abbot|Antonis Rokas Vanderbilt University;|Vanderbilt University Medical Center
http://dx.doi.org/10.1101/136903 2017-05-11 Neuroscience CC BY-NC-ND A Confidence-Based Reinforcement Learning Model For Perceptual Learning Matthias Guggenmos|Philipp Sterzer Charite - University Medicine Berlin
http://dx.doi.org/10.1101/136937 2017-05-11 Genomics CC BY Multi-omic analysis of a hyper-diverse plant metabolic pathway reveals evolutionary routes to biological innovation Gaurav D. Moghe|Brian J. Leong|Steven Hurney|A. Daniel Jones|Robert L. Last Michigan State University, United States
http://dx.doi.org/10.1101/136648 2017-05-11 Biophysics CC BY-NC-ND Element-Free Multiscale Modeling Of Large Deformation Behavior Of Red Blood Cell Membrane With Malaria Infection A. S. Ademiloye|L. W. Zhang|K. M. Liew City University of Hong Kong;|Shanghai Jiao Tong University
http://dx.doi.org/10.1101/136960 2017-05-11 Genomics CC BY Identifying Core Biological Processes Distinguishing Human Eye Tissues With Systems-Level Gene Expression Analyses And Weighted Correlation Networks John M. Bryan|Robert B. Hufnagel|Brian P. Brooks|David McGaughey National Eye Institute;|National Institutes of Health
http://dx.doi.org/10.1101/136895 2017-05-11 Physiology Thermal Acclimation Mitigates Cold-Induced Paracellular Leak From The Drosophila Gut Heath A. MacMillan|Gil Yerushalmi|Sima Jonusaite|Scott P. Kelly|Andrew Donini York University;|University of Utah
http://dx.doi.org/10.1101/136929 2017-05-11 Biochemistry CC BY-NC-ND Quantitative Protein Topography Measurements By High Resolution Hydroxyl Radical Protein Footprinting Enable Accurate Molecular Model Selection Boer Xie|Amika Sood|Robert J. Woods|Joshua S. Sharp Complex Carbohydrate Research Center, University of Georgia;|Department of BioMolecular Sciences, School of Pharmacy, University of Mississippi
http://dx.doi.org/10.1101/136945 2017-05-11 Cancer Biology Quantifying Spontaneous Metastasis In A Syngeneic Mouse Melanoma Model Using Real Time PCR Wentao Deng|Sarah L. McLaughlin|David J. Klinke West Virginia University
http://dx.doi.org/10.1101/134213 2017-05-11 Microbiology Active Trachoma Cases In The Solomon Islands Have Varied Polymicrobial Community Structures But Do Not Associate With Individual Non-Chlamydial Pathogens Of The Eye Robert Butcher|Oliver Sokana|Kelvin Jack|Eric Kalae|Leslie Sui|Charles Russell|Joanna Houghton|Christine Palmer|Martin J. Holland|Richard Le Mesurier|Anthony Solomon|David Mabey|Chrissy h. Roberts London School of Hygiene & Tropical Medicine;|Solomon Islands Ministry of Health and Medical Services;|Lata Hospital;|Bellona Rural Health Centre;|Fred Hollows Foundation
http://dx.doi.org/10.1101/136861 2017-05-11 Evolutionary Biology CC BY-NC Selection-Driven Cost-Efficiency Optimisation Of Transcript Sequences Determines The Rate Of Gene Sequence Evolution In Bacteria Emily A. Seward|Steven Kelly University of Oxford
http://dx.doi.org/10.1101/136879 2017-05-11 Neuroscience Sensorimotor Processing In The Basal Ganglia Leads To Transient Beta Oscillations During Behavior Amin Mirzaei|Arvind Kumar|Daniel Leventhal|Nicolas Mallet|Ad Aertsen|Joshua Berke|Robert Schmidt University of Freiburg, Freiburg, Germany;|KTH Royal Institute of Technology, Stockholm, Sweden;|University of Michigan, Ann Arbor, United States;|Universite de Bordeaux, Bordeaux, France;|University of California San Francisco, USA;|University of Sheffield, UK
http://dx.doi.org/10.1101/135764 2017-05-11 Plant Biology CC BY-NC-ND Organ-Specific NLR Resistance Gene Expression Varies With Plant Symbiotic Status David Munch|Vikas Gupta|Asger Bachmann|Wolfgang Busch|Simon Kelly|Terry Mun|Stig U. Andersen Aarhus University;|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/136853 2017-05-11 Physiology CC BY-NC-ND Parametric Imaging Of FDG-PET Data Using Physiology And Iterative Regularization: Application To The Hepatic And Renal Systems Mara Scussolini|Sara Garbarino|Gianmario Sambuceti|Giacomo Caviglia|Michele Piana Department of Mathematics, University of Genova, Genova, Italy;|Centre for Medical Image Computing, Dept. of Computer Science, University College London;|Department of Nuclear Medicine, IRCCS-IST San Martino, and University of Genova;|Department of Mathematics, University of Genova, and CNR-SPIN, Genova, Italy
http://dx.doi.org/10.1101/136846 2017-05-11 Neuroscience CC BY-NC-ND Neurophysiological Correlates Of The Rubber Hand Illusion In Evoked And Oscillatory Brain Activity Isa S. Rao|Christoph Kayser University of Glasgow
http://dx.doi.org/10.1101/136887 2017-05-11 Neuroscience CC BY-NC-ND A Balance Of Outward And Linear Inward Ionic Currents Is Required For The Generation Of Slow Wave Oscillations Jorge Golowasch|Amitabha Bose|Yinzheng Guan|Dalia Salloum|Andrea Roeser|Farzan Nadim New Jersey Institute of Technology, Federated Department of Biological Sciences;|New Jersey Institute of Technology, Federated Department of Mathematical Sciences
http://dx.doi.org/10.1101/136804 2017-05-11 Microbiology CC BY-NC-ND Global Phylogenetic Analysis Of Escherichia coli And Plasmids Carrying The mcr-1 Gene Indicates Bacterial Diversity But Plasmid Restriction Sebastien Matamoros|Jarne M. van Hattem|Maris S. Arcilla|Niels Willemse|Damian Melles|John Penders|Trung Nguyen Vinh|Hoa Ngo Thi|Menno D. de Jong|Constance Schultsz Academic Medical Center (AMC), Amsterdam;|Erasmus University Medical Center, Rotterdam;|Maastricht University Medical Center (MUMC), Maastricht;|Oxford University Clinical Research Unit, Ho Chi Minh City
http://dx.doi.org/10.1101/136689 2017-05-11 Scientific Communication and Education CC BY-NC Eyeballs On Science: Impact Is Not Just Citations, But How Big Is Readership? Kevin Winker University of Alaska Museum
http://dx.doi.org/10.1101/136820 2017-05-11 Neuroscience Cerebellar Degeneration Affects Cortico-Cortical Connectivity In Motor Learning Networks Elinor Tzvi|Christoph Zimmermann|Richard Bey|Thomas F. Muente|Matthias Nitschke|Ulrike M. Kraemer University of Luebeck
http://dx.doi.org/10.1101/136796 2017-05-11 Biophysics CC BY-NC-ND Does Temperature Change Worsen Or Mitigate The Effect Of Malaria Infection On Erythrocyte Deformability? A. S. Ademiloye|L. W. Zhang|K. M. Liew City University of Hong Kong;|Shanghai Jiao Tong University
http://dx.doi.org/10.1101/136317 2017-05-11 Scientific Communication and Education CC BY-NC Interactive Biology Cloud Lab Enables Authentic Inquiry-Based Science Learning At MOOC Scale Zahid Hossain|Engin Bumbacher|Alison Brauneis|Monica Diaz|Andy Saltarelli|Paulo Blikstein|Ingmar Riedel-Kruse Stanford University
http://dx.doi.org/10.1101/136606 2017-05-11 Neuroscience CC BY-NC-ND Age-Related Differences In The Influence Of Task-Irrelevant Information On The Neural Bases Of Phonological And Semantic Processes Michele Diaz|Micah A. Johnson|Deborah M. Burke|Trong-Kha Truong|David J. Madden Pennsylvania State University;|Brain Imaging and Analysis Center, Duke University School of Medicine;|Pomona College
http://dx.doi.org/10.1101/135558 2017-05-11 Ecology The Kobresia pygmaea Ecosystem Of The Tibetan Highlands: Origin, Functioning And Degradation Of The World's Largest Pastoral Alpine Ecosystem Georg Miehe|Per-Marten Schleuss|Elke Seeber|Wolfgang Babel|Tobias Biermann|Martin Braendle|Fahu Chen|Heinz Coners|Thomas Foken|Tobias Gerken|Hans-F. Graf|Georg Guggenberger|Silke Hafner|Maika Holzapfel|Johannes Ingrisch|Yakov Kuzyakov|Zhongping Lai|Lukas Lehnert|Christoph Leuschner|Jianquan Liu|Shibin Liu|Yaoming Ma|Sabine Miehe|Volker Mosbrugger|Henry J. Noltie|Lars Opgenoorth|Joachim Schmidt|Sandra Spielvogel|Sebastian Unteregelsbacher|Yun Wang|Sandra Willinghofer|Xingliang Xu|Yongping Yang|Shuren Zhang|Karsten Wesche Philipps-University of Marburg, Faculty of Geography, Marburg, Germany;|University of Bayreuth, Soil Biogeochemistry, Bayreuth, Germany;|University of Greifswald, Institute of Botany and Landscape Ecology, Greifswald, Germany;|University of Bayreuth, Micrometeorology Group, Bayreuth, Germany;|Lund University, Centre for Environmental and Climate Research, Lund, Sweden;|Philipps-University of Marburg, Department of Ecology, Marburg, Germany;|Lanzhou University, Key Laboratory of West China's Environmental System;|University of Gottingen, Department of Plant Ecology and Ecosystem Research, Germany;|University of Bayreuth, Bayreuth Center of Ecology and Environmental Research, Germany;|Montana State University, Dept. of Land Resources & Environmental Sciences, Bozeman;|University of Cambridge, Department of Geography, Centre for Atmospheric Science;|Leibniz Universitat Hannover, Institute for Soil Science, Hannover, Germany;|University of Gottingen, Department of Soil Sciences of Temperate Ecosystems, Germany;|Senckenberg Museum Gorlitz, Department of Botany, Gorlitz, Germany;|University of Innsbruck, Institute of Ecology Research, Innsbruck, Austria;|China University of Geosciences, State Key Lab of Biogeology & Environmental Geology;|Lanzhou University, State Key Laboratory of Grassland Agro-Ecosystem, China;|Chinese Academy of Sciences, Institute of Tibetan Plateau Research, China;|Senckenberg Research Institute and Natural History Museum, Frankfurt am Main, Germany;|Royal Botanic Garden Edinburgh, Edinburgh, Scotland, UK;|University of Rostock, Institute of Biosciences, General and Systematic Zoology, Germany;|University of Bern, Institute of Geography, Soil Science, Bern, Switzerland;|Institute of Meteorology & Climate Research, Atmospheric Environmental Research, Germany;|Chinese Academy of Sciences, Laboratory of Systematic and Evolutionary Botany, China
http://dx.doi.org/10.1101/137562 2017-05-12 CC BY Prominent Lateral Spread Of Imaged Evoked Activity Beyond Cortical Columns In Barrel Cortex Provides Foundation For Coding Whisker Identity Nathan S. Jacobs|Ron D. Frostig UCLA;|UCI
http://dx.doi.org/10.1101/137521 2017-05-12 CC BY-NC-ND Conserving Phylogenetic Diversity Can Be A Poor Strategy For Conserving Functional Diversity Florent Mazel|Arne Mooers|Giulio Dalla Riva|Matthew Pennell Simon Fraser University;|University of British Columbia
http://dx.doi.org/10.1101/137539 2017-05-12 Arginase 1 Is Negatively Regulated By β-Catenin Signaling In The Lung Anna P. Lam|Joseph A. Sennello|Annette S. Flozak|Alexander Misharin|Cara Gottardi Northwestern University
http://dx.doi.org/10.1101/137554 2017-05-12 CC BY The Core Transcriptome Of Mammalian Placentas And The Divergence Of Expression With Placental Shape Don Leigh Armstrong|Michael R. McGowen|Amy Weckle|Priyadarshini Pantham|Jason Caravas|Dalen Agnew|Kurt Benirschke|Sue Savage-Rumbaugh|Eviatar Nevo|Chong J. Kim|Gunter P. Wagner|Roberto Romero|Derek E. Wildman University of Illinois at Urbana Champaign;|School of Biological and Chemical Sciences, Queen Mary, University of London, London, UK;|Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign;|Center for Molecular Medicine and Genetics, Wayne State University School of Medicine;|Diagnostic Ctr. for Population & Animal Health, College of Vet. Med., Michigan State Univ.;|Department of Pathology, University of California San Diego, La Jolla, CA, USA;|Great Ape Trust/Bonobo Hope Sanctuary, Des Moines, IA, USA;|The Institute of Evolution, University of Haifa, Haifa, Israel;|Dept. of Pathology, University of Ulsan College of Medicine, Asan Medical Center, Seoul;|Dept. of Ecology & Evolutionary Biology and Yale Systems Biology Institute, Yale University;|Perinatol. Res. Branch, Eunice Kennedy Shriver Natl. Inst. of Child Health and Human Dev.;|Dept. of Molecular & Integrative Physiology, University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/137547 2017-05-12 CC BY-NC-ND Deep Learning Of The Regulatory Grammar Of Yeast 5′ Untranslated Regions From 500,000 Random Sequences Josh T. Cuperus|Benjamin Groves|Anna Kuchina|Alex B. Rosenberg|Nebojsa Jojic|Stanley Fields|Georg Seelig University of Washington;|Microsoft Research
http://dx.doi.org/10.1101/137448 2017-05-12 Genome-Wide Association Study Reveals Genetic Link Between Diarrhea-Associated Entamoeba histolytica Infection And Inflammatory Bowel Disease Genevieve L. Wojcik|Chelsea Marie|Mayuresh M. Abhyankar|Nobuya Yoshida|Koji Watanabe|Josyf Mychaleckyj|Beth D. Kirkpatrick|Stephen S. Rich|Patrick Concannon|Rashidul Haque|George C. Tsokos|William A. Petri|Priya Duggal Stanford University School of Medicine, Stanford, CA;|University of Virginia School of Medicine, Charlottesville, VA;|Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, MA;|Ctr. for Public Health Genomics, University of Virginia School of Medicine, Charlottesville, VA;|University of Vermont College of Medicine and Vaccine Testing Center, Burlington, VT;|Genetics Institute, University of Florida, Gainesville, FL;|International Centre for Diarrheal Disease Research, Bangladesh;|Johns Hopkins Bloomberg School of Public Health, Baltimore, MD
http://dx.doi.org/10.1101/137414 2017-05-12 CC BY-NC-ND Behavioural Outcomes Of Adult Female Offspring Following Maternal Stress And Perinatal Fluoxetine Exposure Veronika Kiryanova|Sara Meunier|Richard Dyck University of Calgary
http://dx.doi.org/10.1101/137430 2017-05-12 CC BY-NC-ND Estimation Of Universal And Taxon-Specific Parameters Of Prokaryotic Genome Evolution Itamar Sela|Yuri I. Wolf|Eugene Koonin National Institutes of Health
http://dx.doi.org/10.1101/137307 2017-05-12 CC BY DNA Damage Checkpoint Dynamics Drive Cell Cycle Phase Transitions Hui Xiao Chao|Cere E. Poovey|Ashley A. Privette|Gavin D. Grant|Jean G. Cook|Jeremy E. Purvis University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/137513 2017-05-12 Maximum Entropy Framework For Inference Of Cell Population Heterogeneity In Signaling Networks Purushottam Dixit|Eugenia Lyashenko|Mario Niepel|Dennis Vitkup Columbia University;|Harvard Medical School
http://dx.doi.org/10.1101/137067 2017-05-12 CC BY Priming In A Permissive Type I-C CRISPR-Cas System Reveals Distinct Dynamics Of Spacer Acquisition And Loss Chitong Rao|Denny Chin|Alexander W. Ensminger University of Toronto
http://dx.doi.org/10.1101/137083 2017-05-12 CC BY-NC-ND Learning And Attention Reveal A General Relationship Between Neuronal Variability And Perception Amy M. Ni|Douglas A. Ruff|Joshua J. Alberts|Jen Symmonds|Marlene R. Cohen University of Pittsburgh
http://dx.doi.org/10.1101/137422 2017-05-12 Quadratization: From Conductance-Based Models To Caricature Models With Parabolic Nonlinearities Axel G. R. Turnquist|Horacio Rotstein New Jersey Institute of Technology
http://dx.doi.org/10.1101/137323 2017-05-12 CC BY-NC-ND Rearrangement Scenarios Guided By Chromatin Structure Sylvain Pulicani|Pijus Simonaitis|Krister M. Swenson LIRMM, IGH;|ENS Lyon;|CNRS, LIRMM
http://dx.doi.org/10.1101/136952 2017-05-12 CC BY-NC-ND Response-Time Behaviors Of Intercellular Communication Network Motifs Kevin Thurley|Lani F. Wu|Steven J. Altschuler University of California San Francisco
http://dx.doi.org/10.1101/137299 2017-05-12 CC BY Ratiometric Distribution Of OCT4 During Stem Cell Division Controls The Balance Between Self-Renewal And Differentiation Samuel C. Wolff|Raluca Dumitru|Cierra D. Dungee|Katarzyna M. Kedziora|Rachel A. Haggerty|JrGang Cheng|Adriana S. Beltran|Jeremy E. Purvis University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/137356 2017-05-12 CC BY-NC-ND The CRISPR Spacer Space Is Dominated By Sequences From The Species-Specific Mobilome Sergey A. Shmakov|Vassilii Sitnik|Kira S. Makarova|Yuri I. Wolf|Konstantin V. Severinov|Eugene Koonin Skolkovo Institute of Science and Technology;|National Instittues of Health;|National Institutes of Health
http://dx.doi.org/10.1101/137398 2017-05-12 CC BY Modules Of Co-Occurrence In The Cyanobacterial Pan-Genome Christian Beck|Henning Knoop|Ralf Steuer Humboldt-Universität zu Berlin
http://dx.doi.org/10.1101/137265 2017-05-12 Inducible And Reversible Phenotypes In A Novel Mouse Model Of Friedreich's Ataxia Vijayendran Chandran|Kun Gao|Vivek Swarup|Revital Versano|Hongmei Dong|Maria C. Jordan|Daniel H. Geschwind University of Florida;|University of California, Los Angeles
http://dx.doi.org/10.1101/137372 2017-05-12 CC BY Inferring Genetic Interactions From Comparative Fitness Data Kristina Crona|Alex Gavryushkin|Devin Greene|Niko Beerenwinkel American University, Washington DC;|ETH Zurich, Basel, Switzerland; SIB Swiss Institute of Bioinformatics, Basel, Switzerland
http://dx.doi.org/10.1101/137349 2017-05-12 Chaperone Network Based On Cellular Response Reveals The Non-Optimal Response To Perturbed Proteostasis Asmita Ghosh|Abhilash Gangadharan|Sarada Das|Monika Verma|Debasis Dash|Koyeli Mapa|Kausik Chakraborty CSIR-Institute of Genomics and Integrative Biology;|Shiv Nadar University
http://dx.doi.org/10.1101/137190 2017-05-12 Animal Behavior and Cognition CC BY-ND Amortized Hypothesis Generation Ishita Dasgupta|Eric Schulz|Noah Goodman|Samuel Gershman Harvard University;|University College London;|Stanford University
http://dx.doi.org/10.1101/137257 2017-05-12 Bioinformatics Protein Features Identification For Machine Learning-Based Prediction Of Protein-Protein Interactions Khalid Raza Jamia Millia Islamia
http://dx.doi.org/10.1101/137117 2017-05-12 Bioengineering CC BY Visualization And Label-Free Quantification Of Microfluidic Mixing Using Quantitative Phase Imaging GwangSik Park|Dongsik Han|GwangSu Kim|Seungwoo Shin|Kyoohyun Kim|Je-Kyun Park|YongKeun Park KAIST
http://dx.doi.org/10.1101/134056 2017-05-12 Pathology CC BY-NC-ND Oral diseases: a 14-year experience of a Chilean institution with a systematic review from eight countries Cesar Rivera|Carolina Jones-Herrera|Pablo Vargas|Bernardo Venegas|Daniel Droguett Department of Biomedical Sciences, Faculty of Health Sciences, University of Talca, Chile;|CESFAM Isla de Maipo, West Metropolitan Area Health Care Service, Isla de Maipo, Chile;|Private practice;|Department of Stomatology, Faculty of Health Sciences, University of Talca, Chile
http://dx.doi.org/10.1101/137240 2017-05-12 Neuroscience CC BY-NC-ND Easyml: Easily Build And Evaluate Machine Learning Models Paul Hendricks|Woo-Young Ahn The Ohio State University
http://dx.doi.org/10.1101/137174 2017-05-12 Evolutionary Biology Detecting Molecular Basis Of Phenotypic Convergence Olivier Chabrol|Manuela Royer-Carenzi|Pierre Pontarotti|Gilles Didier Aix Marseille Univ, CNRS, Centrale Marseille, I2M, Marseille, France;|CNRS
http://dx.doi.org/10.1101/137091 2017-05-12 Biophysics CC BY Gaussian Curvature Directs The Distribution Of Spontaneous Curvature On Bilayer Membrane Necks Morgan Chabanon|Padmini Rangamani University of California San Diego
http://dx.doi.org/10.1101/137059 2017-05-12 Bioengineering CC BY-NC Improved Split Fluorescent Proteins For Endogenous Protein Labeling Siyu Feng|Sayaka Sekine|Veronica Pessino|Han Li|Manuel D. Leonetti|Bo Huang University of California, San Francisco
http://dx.doi.org/10.1101/137158 2017-05-12 Ecology CC BY-NC A Theory For Ecological Survey Methods To Map Individual Distributions Nao Takashina|Maria Beger|Buntarou Kusumoto|Suren Rathnayake|Hugh Possingham Okinawa Institute of Science and Technology;|University of Leeds;|University of the Ryukyus;|University of Queensland;|The Nature Conservancy
http://dx.doi.org/10.1101/137141 2017-05-12 Genomics CC BY LTR_retriever: A Highly Accurate And Sensitive Program For Identification Of LTR Retrotransposons Shujun Ou|Ning Jiang Michigan State University
http://dx.doi.org/10.1101/137216 2017-05-12 Bioinformatics De Novo Annotation And Characterization Of The Translatome With Ribosome Profiling Data Zhengtao Xiao|Rongyao Huang|Yuling Chen|Haiteng Deng|Xuerui Yang School of Life Sciences, Tsinghua University, Beijing 100084, China
http://dx.doi.org/10.1101/135343 2017-05-12 Physiology Fundamental Constraints In Synchronous Muscle Limit Superfast Motor Control In Vertebrates Andrew F. Mead|Nerea Osinalde|Niels Ortenblad|Joachim Nielsen|Jonathan Brewer|Michael Vellema|Iris Adam|Constance Scharff|Yafeng Song|Frandsen Ulrik|Blagoy Blagoev|Irina Kratchmarova|Coen P. H. Elemans University of Vermont;|University of Southern Denmark;|University of Pennsylvania
http://dx.doi.org/10.1101/137133 2017-05-12 Neuroscience CC BY-NC-ND Ionic Current Correlations Are Ubiquitous Across Phyla Trinh Tran|Cagri T. Unal|Laszlo Zaborszky|Horacio G. Rotstein|Alfredo Kirkwood|Jorge P. Golowasch Department of Neuroscience, Johns Hopkins University;|Behavioral and Neural Science Graduate Program, Rutgers University-Newark;|Center for Molecular and Behavioral Neuroscience, Rutgers University-Newark;|Department of Mathematical Sciences, New Jersey Institute of Technology;|Federated Department of Biological Sciences, New Jersey Institute of Technology
http://dx.doi.org/10.1101/137166 2017-05-12 Developmental Biology CC BY Deciphering The Developmental Program In The Ascidian Ciona intestinalis Just Prior To Gastrulation Yoshito Harada Nagoya University
http://dx.doi.org/10.1101/137075 2017-05-12 Genetics A Single Checkpoint Pathway Eliminates Mouse Oocytes With DNA Damage Or Chromosome Synapsis Failure Vera Rinaldi|Ewelina Bolcun-Filas|Hiroshi Kogo|Hiroki Kurahashi|John Schimenti Cornell University;|The Jackson Laboratory;|Gunma University;|Fujita Health University
http://dx.doi.org/10.1101/132100 2017-05-12 Biochemistry CC BY-NC Characterization Of Amylase And Protease Activities In The Digestive System Of Concholepas concholepas (Gastropoda, muricidae) Alejandro P. Gutierrez|Viviana Cerda-Llanos|Diego Forttes|Nelson Carvajal|Elena A. Uribe University of Concepcion, Chile
http://dx.doi.org/10.1101/137000 2017-05-12 Genetics Novel Pedigree Analysis Implicates DNA Repair And Chromatin Remodeling In Multiple Myeloma Risk Rosalie G. Waller|Todd M. Darlington|Xiaomu Wei|Myke Madsen|Alun Thomas|Karen Curtin|Hilary Coon|Venkatesh Rajamanickam|Justin Musinsky|David Jayabalan|Djordje Atanackovic|Vincent Rajkumar|Shaji Kumar|Susan Slager|Mridu Middha|Perrine Galia|Delphine Demangel|Mohamed Salama|Vijai Joseph|James McKay|Kenneth Offit|Robert J. Klein|Steven M. Lipkin|Charles Dumontet|Celine M. Vachon|Nicola J. Camp University of Utah;|Weill Cornell Medical College;|University of Utah School of Medicine;|Memorial Sloan Kettering Cancer Center;|Mayo Clinic;|Icahn School of Medicine at Mount Sinai;|ProfileXpert;|International Agency for Research on Cancer;|INSERM
http://dx.doi.org/10.1101/136192 2017-05-12 Epidemiology CC BY-NC-ND Fitness, Physical Activity, And Cardiovascular Disease: Longitudinal And Genetic Analyses In The UK Biobank Study Emmi Tikkanen|Stefan Gustafsson|Erik Ingelsson Stanford University;|Uppsala University
http://dx.doi.org/10.1101/136523 2017-05-12 Epidemiology Genome-wide Association Study Of Plasma Proteins Identifies Putatively Causal Genes, Proteins, And Pathways For Cardiovascular Disease Chen Yao|George Chen|Ci Song|Michael Mendelson|Tianxiao Huan|Annika Laser|Hongsheng Wu|Jennifer E. Ho|Paul Courchesne|Asya Lyass|Martin G. Larson|Christian Gieger|Johannes Graumann|Andrew D. Johnson|Shih-Jen Hwang|Chunyu Liu|Karsten Suhre|Daniel Levy National Institutes of Health;|German Research Center for Environmental Health;|Wentworth Institute of Technology;|Boston University;|Max Planck Institute for Heart and Lung Research;|Weill Cornell Medicine-Qatar
http://dx.doi.org/10.1101/135848 2017-05-12 Developmental Biology Regulating prospero mRNA Stability Determines When Neural Stem Cells Stop Dividing Lu Yang|Tamsin J. Samuels|Yoav Arava|Francesca Robertson|Aino I. Jarvelin|Ching-Po Yang|Tzumin Lee|David Ish-Horowicz|Ilan Davis University of Oxford;|Technion, Haifa, Israel;|Howard Hughes Medical Institute, Janelia Research Campus;|MRC Laboratory for Molecular Cell Biology, University College, London
http://dx.doi.org/10.1101/137497 2017-05-13 CC BY-NC-ND Coalescent Processes With Skewed Offspring Distributions And Non-Equilibrium Demography Sebastian Matuszewski|Marcel E. Hildebrandt|Jeffrey D. Jensen EPFL;|Arizona State University
http://dx.doi.org/10.1101/137638 2017-05-13 CC BY-ND A Model For Adult Organ Resizing Demonstrates Stem Cell Scaling Through A Tunable Commitment Rate XinXin Du|Lucy Erin O'Brien|Ingmar Riedel-Kruse Stanford University
http://dx.doi.org/10.1101/137646 2017-05-13 Quantitative Models Identify Histone Signatures Of Poised Genes Prior To Cellular Differentiation Rui Tian Tongji University
http://dx.doi.org/10.1101/137596 2017-05-13 CC BY-ND Integrated Computing And Tracking System For Centralized High-Throughput Genetic Analysis: A Case Study Adrienne M. Stilp|Stephanie M. Gogarten|Cathy C. Laurie|Tamar Sofer University of Washington
http://dx.doi.org/10.1101/137737 2017-05-13 CC BY Tacrolimus Rescues Endothelial ALK1 Loss-Of-Function Signaling And Improves HHT Vascular Pathology Santiago Ruiz|Pallavi Chandakkar|Haitian Zhao|Julien Papoin|Prodyot K. Chatterjee|Erica Christen|Christine N. Metz|Lionel Blanc|Fabien Campagne|Philippe Marambaud The Feinstein Institute for Medical Research;|The Weill Cornell Medical College
http://dx.doi.org/10.1101/137703 2017-05-13 CC BY-NC-ND Experimental Evolution Of Insect Immune Memory Vs. Pathogen Resistance Imroze Khan|Arun Prakash|Deepa Agashe Ashoka University;|National Centre for Biological Sciences
http://dx.doi.org/10.1101/137570 2017-05-13 Agonist-Dependent And -Independent Kappa Opioid Receptor Phosphorylation Showed Distinct Phosphorylation Patterns And Resulted In Different Cellular Outcomes Yi-Ting Chiu|Chongguang Chen|Stefan Schulz|Lee-Yuan Liu-Chen Temple University Lewis Katz School of Medicine;|Jena University Hospital, Friedrich Schiller University
http://dx.doi.org/10.1101/137695 2017-05-13 CC BY-NC A Tunable Protein Oscillator Controls Directional Movements In Myxococcus xanthus Mathilde Guzzo|Sean M. Murray|Eugenie Martineau|Sebastien Lhospice|Gregory Baronian|Laetitia My|Yong Zhang|Leon Espinosa|Renaud Vincentelli|Benjamin P. Bratton|Joshua W. Shaevitz|Virginie Molle|Martin Howard|Tam Mignot CNRS-Aix Marseille University UMR7283;|Max Planck Institute for Terrestrial Microbiology;|CNRS-Universites de Montpellier II et I UMR 5235;|CNRS-Aix Marseille University UMR7257;|Princeton University;|John Innes Centre
http://dx.doi.org/10.1101/137711 2017-05-13 The Condensin Complex Is A Mechanochemical Motor That Translocates Along DNA Tsuyoshi Terekawa|Shveta Bisht|Jorine Eeftens|Cees Dekker|Christian Haering|Eric Greene Columbia University;|EMBL, Heidelberg;|Delft University of Technology
http://dx.doi.org/10.1101/137745 2017-05-13 Physiological Assembly Of Functionally Active 30S Ribosomal Subunits From In Vitro Synthesized Parts Jun Li|Brook Wassie|George M. Church Harvard Medical School;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/137661 2017-05-13 CC BY-NC-ND Role Of Competition In The Strain Structure Of Rotavirus Under Invasion And Reassortment Daniel Zinder|Maria A. Riolo|Robert J. Woods|Mercedes Pascual University of Chicago;|University of Michigan
http://dx.doi.org/10.1101/137612 2017-05-13 CC BY Role Of The Membrane Cholesterol-Glycosphingolipid Complex As A Transistor To Regulate GSL Receptor Function And Signaling Of Both Lipids Anton Novak|Clifford A. Lingwood Hospital for Sick Children
http://dx.doi.org/10.1101/137588 2017-05-13 Neuroscience CC BY-NC-ND Responses To Mechanically And Visually Cued Water Waves In The Nervous System Of The Medicinal Leech Andrew M. Lehmkuhl|Arunkumar Muthusamy|Daniel A. Wagenaar University of Cincinnati;|California Institute of Technology
http://dx.doi.org/10.1101/137943 2017-05-14 CC BY-NC Uncovering The Drivers Of Animal-Host Microbiotas With Joint Distribution Modeling Johannes R. Bjork|Francis K. C. Hui|Robert B. O'Hara|Jose M. Montoya Department of Biological Sciences, University of Notre Dame, United States;|Mathematical Sciences Institute, The Australian National University, Canberra, Australia;|Department of Mathematical Sciences, NTNU, Trondheim, Norway;|Theoretical and Experimental Ecology Station, CNRS-University Paul Sabatier, Moulis, France
http://dx.doi.org/10.1101/137984 2017-05-14 CC BY Inverse correlation processing by neurons with active dendrites Tomasz Gorski|Romain Veltz|Mathieu Galtier|Helissande Fragnaud|Bartosz Telenczuk|Alain Destexhe Unit of Neuroscience, Information and Complexity, CNRS, France;|Inria, Sophia Antipolis, France
http://dx.doi.org/10.1101/137968 2017-05-14 CC BY-NC-ND In depth analysis of kinase cross screening data to identify chemical starting points for inhibition of the Nek family of kinases Carrow I Wells|Nirav R Kapadia|Rafael M Counago|David H Drewry UNC Eshelman School of Pharmacy;|Universidade Estadual de Campinas
http://dx.doi.org/10.1101/136994 2017-05-14 Mechanical Activation Of Piezo1 But Not Nav1.2 Channels By Ultrasound Martin Loynaz Prieto|Kamyar Firouzi|Butrus T. Khuri-Yakub|Merritt Maduke Department of Molecular and Cellular Physiology, Stanford University;|E. L. Ginzton Laboratory, Stanford University;|E. L. Ginzaton Laboratory, Stanford University
http://dx.doi.org/10.1101/137950 2017-05-14 CC BY-ND Beneficial Effects Of Ketogenic Diets For Cancer Patients - A Realist Review With Focus On Evidence And Confirmation Rainer Johannes Klement Leopoldina Hospital Schweinfurt
http://dx.doi.org/10.1101/137455 2017-05-14 CC BY Accumulation And Functional Architecture Of Deleterious Genetic Variants During The Extinction Of Wrangel Island Mammoths Erin Fry|Sun K. Kim|Sravanthi Chigurapti|Katelyn M. Mika|Aakrosh Ratan|Alexander Dammermann|Brian J. Mitchell|Webb Miller|Vincent J. Lynch The University of Chicago;|Feinberg School of Medicine, Northwestern University;|University of Virginia;|University of Vienna;|Pennsylvania State University
http://dx.doi.org/10.1101/137935 2017-05-14 Cell Biology Aminoglycoside Antibiotics Perturb Physiologically Important MicroRNA Contributing To Drug Toxicity Gopal Jayaraj|Soundhar Ramasamy|Debojit Bose|Hemant Suryawanshi|Mukesh Lalwani|Sridhar Sivasubbu|Souvik Maiti CSIR-IGIB
http://dx.doi.org/10.1101/137885 2017-05-14 Ecology CC BY-NC The Dynamic Core Microbiome: Structure, Stability And Resistance Johannes R. Bjork|Robert B. O'Hara|Marta Ribes|Rafel Coma|Jose M. Montoya University of Notre Dame;|Department of Mathematical Sciences, NTNU, Trondheim, Norway;|Institute of Marine Sciences (ICM-CSIC), Barcelona, Spain;|Centre dEstudis Avancats de Blanes (CEAB-CSIC), Blanes, Spain;|Theoretical and Experimental Ecology Station, CNRS-University Paul Sabatier, Moulis, France
http://dx.doi.org/10.1101/137406 2017-05-14 Developmental Biology Brain Development: Machine Learning Analysis Of Individual Stem Cells In Live 3D Tissue Martin Hailstone|Lu Yang|Dominic Waithe|Tamsin J. Samuels|Yoav Arava|Tomasz Dobrzycki|Richard M. Parton|Ilan Davis University of Oxford;|Weatherall Institute for Molecular Medicine, University of Oxford;|Israel Institute of Technology
http://dx.doi.org/10.1101/137851 2017-05-14 Neuroscience CC BY The Algorithmic Neuroanatomy Of Action-Outcome Learning Richard W. Morris|Amir Dezfouli|Kristi R. Griffiths|Mike E. Le Pelley|Bernard W. Balleine UNSW;|University of Sydney
http://dx.doi.org/10.1101/137877 2017-05-14 Synthetic Biology CC BY-NC Rational Design Of RNA Structures That Predictably Tune Eukaryotic Gene Expression Tim Weenink|Robert M. McKiernan|Tom Ellis Imperial College London
http://dx.doi.org/10.1101/136291 2017-05-14 Neuroscience Revisiting Chemoaffinity Theory: Chemotactic Implementation Of Topographic Axonal Projection Honda Naoki Kyoto University
http://dx.doi.org/10.1101/137810 2017-05-14 Systems Biology CC BY-NC-ND Cellular Adaptation Through Fitness-Directed Transcriptional Tuning Peter L. Freddolino|Jamie Yang|Saeed Tavazoie University of Michigan;|Columbia University
http://dx.doi.org/10.1101/137919 2017-05-14 Synthetic Biology CC BY-NC-ND Expression Of Pokeweed Antiviral Protein Isoform S1 (PAP-S1) And Of Ricin-A-Chain/PAP-S1 Novel Fusion Protein (RTA/PAP-S1) In Escherichia coli And Their Comparative Inhibition Of Protein Synthesis In Vitro Yasser Hassan|Sherry Ogg Ophiuchus Medicine LLC;|Johns Hopkins University
http://dx.doi.org/10.1101/137752 2017-05-14 Genomics Sex Chromosome Dosage Effects On Gene Expression In Humans Armin Raznahan|Neelroop Parikshak|Vijayendran Chandran|Jonathan Blumenthal|Liv Clasen|Aaron Alexander-Bloch|Andrew Zinn|Danny Wangsa|Jasen Wise|Declan Murphy|Patrick Bolton|Thomas Ried|Judith Ross|Jay Giedd|Daniel Geschwind National Institute of Mental Health Intramural Research Program, NIH;|UCLA;|Yale;|University of Texas Southwestern Medical School;|National Cancer Institute Intramural Research Program, NIH;|Qiagen;|Institute of Psychiatry, Psychology and Neuroscience;|Thomas Jefferson University;|UCSD
http://dx.doi.org/10.1101/137828 2017-05-14 Bioinformatics CC BY-NC-ND Learning Structural Motif Representations For Efficient Protein Structure Search Yang Liu|Qing Ye|Liwei Wang|Jian Peng University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/137844 2017-05-14 Plant Biology CC BY-NC-ND An Oomycete Effector Protein Induces Shade Avoidance In Arabidopsis And Attenuates Salicylate Signaling By Binding To Host Proteins Of The RADICAL-INDUCED CELL DEATH1 Family Lennart Wirthmueller|Shuta Asai|Ghanasyam Rallapalli|Jan Sklenar|Georgina Fabro|Dae Sung Kim|Ruth Lintermann|Pinja Jaspers|Michael Wrzaczek|Jaakko Kangasjarvi|Dan MacLean|Frank L. H. Menke|Mark J. Banfield|Jonathan D. G. Jones Dahlem Centre of Plant Sciences, Freie Universität Berlin, Berlin, Germany;|Center for Sustainable Resource Science, RIKEN, Yokohama, Japan;|The Sainsbury Laboratory, Norwich Research Park, Norwich, UK;|Departamento de Quimica Biologica, Universidad Nacional de Cordoba, Cordoba, Argentina;|Department of Biosciences, University of Helsinki, Helsinki, Finland;|John Innes Centre, Norwich Research Park, Norwich, UK
http://dx.doi.org/10.1101/133702 2017-05-14 Plant Biology CC BY-ND Over-Expression Of The RieskeFeS Protein Increases Electron Transport Rates And Yield In Arabidopsis Andrew Simkin|Lorna McAusland|Tracy Lawson|Christine A. Raines University of Essex;|University of Nottingham;|Essex University
http://dx.doi.org/10.1101/137794 2017-05-14 Cell Biology CC BY-NC Analysis Of Interphase Node Proteins In Fission Yeast By Quantitative And Super Resolution Fluorescence Microscopy Matthew Akamatsu|Yu Lin|Joerg Bewersdorf|Thomas D. Pollard University of California, Berkeley;|Yale University
http://dx.doi.org/10.1101/137760 2017-05-14 Cell Biology Loss Of PTEN Promotes Formation Of Signaling-Specific Clathrin-Coated Pits Luciana K. Rosselli-Murai|Joel A. Yates|Sei Yoshida|Julia T. Bourg|Kenneth K. Y. Ho|Megan White|Julia Prisby|Xinyu Tan|Megan Altemus|Liwei Bao|Zhi-Fen Wu|Sarah L. Veatch|Joel A. Swanson|Sofia D. Merajver|Allen P. Liu University of Michigan
http://dx.doi.org/10.1101/137836 2017-05-14 Cell Biology Intercellular mRNA Trafficking Via Membrane Nanotubes In Mammalian Cells Gal Haimovich|Christopher M. Ecker|Margaret C. Dunagin|Elliot Eggan|Arjun Raj|Jeffrey E. Gerst|Robert H. Singer Weizmann Institute of Science;|University of Pennsylvania;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/137778 2017-05-14 Biophysics CC BY-NC-ND Conformational Dynamics In TRPV1 Channels Reported By An Encoded Coumarin Amino Acid Ximena Steinberg|Marina A. Kasimova|Deny Cabezas-Bratesco|Jason Galpin|Ernesto Ladron de Guevara|Federica Villa|Vincenzo Carnevale|Leon D. Islas|Christopher A. Ahern|Sebastian E. Brauchi Physiology Department, Faculty of Medicine, Universidad Austral de Chile;|Institute for Computational Molecular Science, Temple University;|Department of Molecular Physiology and Biophysics, University of Iowa;|Dept. de Fisiologia, Facultad de Medicina, Universidad Nacional Autonoma de Mexico;|Dipartimento di Elettronica, Informazione e Bioingegneria (DEIB), Politecnico di Milano
http://dx.doi.org/10.1101/137901 2017-05-15 CC BY-NC-ND The Oropharynx As A Distinct Colonization Site For Staphylococcus aureus In The Community Blake M. Hanson|Ashley E. Kates|Elizabeth Mills|Loreen A. Herwaldt|James C. Torner|Jeffrey D. Dawson|Tara C. Smith The Jackson Laboratory for Genomic Medicine;|The University of Iowa;|The Jackson Laboratory;|Kent State University
http://dx.doi.org/10.1101/137232 2017-05-15 CC BY-NC-ND Are Your Covariates Under Control? How Normalization Can Re-introduce Covariate Effects Oliver Pain|Frank Dudbridge|Angelica Ronald Birkbeck College / London School of Hygiene and Tropical Medicine;|University of Leicester;|Birkbeck College, University of London
http://dx.doi.org/10.1101/136135 2017-05-15 CC BY HIV Transmission Efficiency Through Contaminated Injections In Roka, Cambodia David Gisselquist Independent
http://dx.doi.org/10.1101/136382 2017-05-15 CC BY-NC-ND Social-Ecological Factors And Preventive Actions Decrease The Risk Of Dengue Infection At The Household-Level: Results From A Prospective Dengue Surveillance Study In Machala, Ecuador Aileen Kenneson|Efrain Beltran-Ayala|Mercy J. Borbor-Cordova|Mark E. Polhemus|Sadie Ryan|Timothy P. Endy|Anna Stewart-Ibarra SUNY Upstate Medical University;|Universidad Tecnica de Machala;|Escuela Superior Politecnica del Litoral;|University of Florida
http://dx.doi.org/10.1101/138222 2017-05-15 CC BY The effect of treatment on the microbiota of patients diagnosed with colonic lesions Marc A Sze|Nielson T Baxter|Mack T Ruffin|Mary AM Rogers|Patrick D Schloss University of Michigan;|Penn State Hershey Medical Center
http://dx.doi.org/10.1101/137992 2017-05-15 A Balance Between Regulatory Constraints And Pathogen Pressure Shapes The Evolution Of Innate Immunity Tzachi Hagai|Xi Chen|Ricardo J. Miragaia|Tomas Gomes|Raghd Rostom|Natalia Kunowska|Valentina Proserpio|Giacomo Donati|Lara Bossini-Castillo|Guy Naamati|Guy Emerton|Gosia Trynka|Ivanela Kondova|Mike Denis|Sarah Teichmann EMBL-EBI;|Wellcome Trust Sanger Institute;|Wellcome Trust Sanger Institute & University of Minho;|EMBL - EBI & Wellcome Trust Sanger Institute;|EMBL - EBI;|University of Turin;|Biomedical Primate Research Centre;|Public Health England, National Infection Service
http://dx.doi.org/10.1101/138297 2017-05-15 CC BY The Neural Representation Of Personally Familiar And Unfamiliar Faces In The Distributed System For Face Perception Matteo Visconti di Oleggio Castello|Yaroslav O. Halchenko|J. Swaroop Guntupalli|Jason D. Gors|Maria Ida Gobbini Dartmouth College
http://dx.doi.org/10.1101/138180 2017-05-15 CC BY-NC-ND Mitochondrial Genetic Effects On Reproductive Success: Signatures Of Positive Intra-Sexual, But Negative Inter-Sexual Pleiotropy M. Florencia Camus|Damian K. Dowling University College London;|Monash University
http://dx.doi.org/10.1101/138263 2017-05-15 CC BY-NC-ND Gravitational Signals Underlie Tonic Muscle Activity During Goal-Directed Reaching Erienne Olesh|Bradley Pollard|Valeriya Gritsenko West Virginia University
http://dx.doi.org/10.1101/138172 2017-05-15 CC BY-NC Integrating Planar Polarity And Tissue Mechanics In Computational Models Of Epithelial Morphogenesis Katherine H. Fisher|David Strutt|Alexander G. Fletcher University of Sheffield
http://dx.doi.org/10.1101/138107 2017-05-15 Evolutionary Biology Predicting Drug Resistance Evolution: Antimicrobial Peptides Vs. Antibiotics Guozhi Yu|Desiree Baeder|Roland Regoes|Jens Rolff FU Berlin;|ETH Zurich
http://dx.doi.org/10.1101/138099 2017-05-15 Microbiology Bifunctionality Of A Biofilm Matrix Protein Controlled By Redox State Sofia Arnaouteli|Ana Sofia Ferreira|Marieke Schor|Ryan J. Morris|Keith M. Bromley|Jeanyoung K. Jo|Krista L. Cortez|Tetyana Sukhodub|Alan R. Prescott|Lars E. P. Dietrich|Cait E. MacPhee|Nicola Stanley-Wall University of Dundee;|University of Edinburgh;|Columbia University
http://dx.doi.org/10.1101/137893 2017-05-15 Neuroscience CC BY Pupil Size Asymmetries Are Modulated By An Interaction Between Attentional Load And Task Experience Basil Wahn|Daniel P. Ferris|W. David Hairston|Peter Konig University of Osnabrück;|University of Michigan;|U.S. Army Research Laboratory
http://dx.doi.org/10.1101/134452 2017-05-15 Bioinformatics CC BY-NC Sim3C: Simulation Of HiC And Meta3C Proximity Ligation Sequencing Technologies Matthew Z. DeMaere|Aaron E. Darling i3 institute;|i3 Institute, University of Technology, Sydney
http://dx.doi.org/10.1101/138008 2017-05-15 Plant Biology CC BY-NC-ND Ascorbate Concentration In Arabidopsis thaliana And Expression Of Ascorbate Related Genes Using RNAseq In Response To Light And The Diurnal Cycle William Laing|Cara Norling|Di Brewster|Michele Wright|Sean Bulley New Zealand Institute for Plant and Food Research
http://dx.doi.org/10.1101/138040 2017-05-15 Bioinformatics CC BY-NC-ND High-Quality Rice RNA-Seq-Based Co-Expression Network For Predicting Gene Function And Regulation Hua Yu|Bingke Jiao|Chengzhi Liang Institute of Genetic and Developmental Biology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/138016 2017-05-15 Bioinformatics CC BY-NC-ND Rainbowfish: A Succinct Colored de Bruijn Graph Representation Fatemeh Almodaresi|Prashant Pandey|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/135798 2017-05-15 Microbiology CC BY-NC-ND KKL-35 Exhibits Potent Antibiotic Activity Against Legionella Species Independently Of Trans-Translation Inhibition Romain Brunel|Ghislaine Descours|Patricia Doublet|Sophie Jarraud|Xavier Charpentier Centre International de Recherche en Infectiologie
http://dx.doi.org/10.1101/138057 2017-05-15 Microbiology CC BY-ND Yeasts Dominate Soil Fungal Communities In Three Lowland Neotropical Rainforests Micah Dunthorn|Havard Kauserud|David Bass|Jordan Mayor|Frederic Mahe University of Kaiserslautern;|University of Oslo;|The Natural History Museum London;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/138420 2017-05-16 Bioengineering CC BY-NC-ND Enzyme-Free Nucleic Acid Dynamical Systems Niranjan Srinivas|James Parkin|Georg Seelig|Erik Winfree|David Soloveichik California Institute of Technology;|University of Washington;|UT Austin
http://dx.doi.org/10.1101/138255 2017-05-16 Biophysics Defocus and magnification dependent variation of TEM image astigmatism Rui Yan|Kunpeng Li|Wen Jiang Purdue University
http://dx.doi.org/10.1101/138586 2017-05-16 Microbiology CC BY-NC-ND Comparative Genomics Sheds Light On Niche Differentiation And The Evolutionary History Of Comammox Nitrospira Alejandro Palomo|Anders G. Pedersen|S. Jane Fowler|Arnaud Dechesne|Thomas Sicheritz-Ponten|Barth F. Smets Technical University of Denmark
http://dx.doi.org/10.1101/138446 2017-05-16 Ecology Understanding The Dynamics Of Laboratory Populations Of Drosophila melanogaster: Long-Term Experiments Meet Individual-Based Modelling Sudipta Tung|M. Rajamani|Amitabh Joshi|Sutirth Dey IISER Pune;|Jawaharlal Nehru Centre for Advanced Scientific Research;|Indian Institute of Science Education and Research-Pune
http://dx.doi.org/10.1101/138578 2017-05-16 Bioinformatics MetaMeta: Integrating Metagenome Analysis Tools To Improve Taxonomic Profiling Vitor C. Piro|Marcel Matschkowski|Bernhard Y. Renard Robert Koch Institute - MF1 Bioinformatics;|Robert Koch Institute
http://dx.doi.org/10.1101/138495 2017-05-16 Neuroscience CC BY-ND A 340/380 nm Light Emitting Diode Illuminator For Fura-2 AM Ratiometric Ca2+ Imaging Of Live Cells With Better Than 5 nM Precision Peter W. Tinning|Aimee J. P.M. Franssen|Shehla U. Hridi|Trevor J. Bushell|Gail McConnell Centre for Biophotonics, University of Strathclyde;|Strathclyde Institute of Pharmacy and Biomedical Sciences, University of Strathclyde
http://dx.doi.org/10.1101/138487 2017-05-16 Microbiology CC BY-ND Correct And Efficient Initiation Of Viral RNA Synthesis By The Influenza A Virus RNA Polymerase Judith Oymans|Aartjan te Velthuis University of Oxford
http://dx.doi.org/10.1101/138545 2017-05-16 Evolutionary Biology CC BY Migration Harshness Drives Habitat Choice And Local Adaptation In Anadromous Arctic Char: Evidence From Integrating Population Genomics And Acoustic Telemetry Jean-Sebastien Moore|Les N. Harris|Jeremy Le Luyer|Ben J. G. Sutherland|Quentin Rougemont|Ross F. Tallman|Aaron T. Fisk|Louis Bernatchez Université Laval;|Fisheries and Oceans Canada;|University of Windsor
http://dx.doi.org/10.1101/138594 2017-05-16 Microbiology CC BY-NC Prediction Of Cephalosporin And Carbapenem Susceptibility In Multi-Drug Resistant Gram-Negative Bacteria Using Liquid Chromatography-Tandem Mass Spectrometry Yuiko Takebayashi|Wan Ahmad Kamil Wan Nur Ismah|Jacqueline Findlay|Kate J. Heesom|Jay Zhang|Martin Williams|Alasdair P. MacGowan|Matthew B. Avison University of Bristol;|Bristol Royal Infirmary;|North Bristol NHS Trust
http://dx.doi.org/10.1101/138388 2017-05-16 Evolutionary Biology CC BY A Maladaptive Combination Of Traits Contributes To The Maintenance Of A Stable Hybrid Zone Between Two Divergent Species Of Drosophila Brandon S. Cooper|Alisa Sedghifar|W. Thurston Nash|Aaron Arthur Comeault|Daniel R. Matute University of Montana;|Princeton University;|University of North Carolina, Chapel Hill;|University of North Carolina
http://dx.doi.org/10.1101/138560 2017-05-16 Bioinformatics CC BY Predicting Protein Producibility In Filamentous Fungi Karmen Dykstra|Juho Rousu|Mikko Arvas VTT Technical Research Centre of Finland;|Aalto University
http://dx.doi.org/10.1101/138024 2017-05-16 Molecular Biology CC BY-NC-ND Post-Transcriptional Control Of EMT Is Coordinated Through Combinatorial Targeting By Multiple microRNAs Joseph Cursons|Katherine A. Pillman|Kaitlin Scheer|Philip A. Gregory|Momeneh Foroutan|Soroor Hediyeh Zadeh|John Toubia|Edmund J. Crampin|Gregory J. Goodall|Cameron P. Bracken|Melissa J. Davis Walter and Eliza Hall Institute of Medical Research;|Centre for Cancer Biology;|University of Melbourne
http://dx.doi.org/10.1101/138479 2017-05-16 Genetics CC BY-NC Differential Variant Calling In Mutants From Diverse Genetic Backgrounds: A Case Study In The Nematode Pristionchus pacificus Christian Rodelsperger|Eduardo Moreno Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/138131 2017-05-16 Ecology CC BY-NC-ND Unbiased Emission Factor Estimators For Large Scale Forest Inventories: Domain Assessment Techniques Luca Birigazzi|Javier G. P. Gamarra|Timothy G. Gregoire Food & Agriculture Organization of the United Nations (FAO);|Yale University
http://dx.doi.org/10.1101/138537 2017-05-16 Cell Biology A Theory That Predicts Behaviors Of Disordered Cytoskeletal Networks Julio Belmonte|Maria Leptin|Francois Nedelec European Molecular Biology Laboratory;|European Molecular Biology Organization
http://dx.doi.org/10.1101/138511 2017-05-16 Neuroscience CC BY-NC-ND Aberrant Cortical Activity In Multiple GCaMP6-Expressing Transgenic Mouse Lines Nicholas A. Steinmetz|Christina Buetfering|Jerome Lecoq|Christian R. Lee|Andrew J. Peters|Elina A. K. Jacobs|Philip Coen|Douglas R. Ollerenshaw|Matthew T. Valley|Saskia E. J. de Vries|Marina Garrett|Jun Zhuang|Peter A. Groblewski|Sahar Manavi|Jesse Miles|Casey White|Eric Lee|Fiona Griffin|Joshua D. Larkin|Kate Roll|Sissy Cross|Thuyanh V. Nguyen|Rachael Larsen|Julie Pendergraft|Tanya Daigle|Bosiljka Tasic|Carol L. Thompson|Jack Waters|Shawn Olsen|David J. Margolis|Hongkui Zeng|Michael Hausser|Matteo Carandini|Kenneth D. Harris University College London;|UCL;|Allen Institute;|Rutgers
http://dx.doi.org/10.1101/138503 2017-05-16 Bioinformatics CC BY-NC speaq 2.0: A Wavelet-Based Workflow For High-Throughput 1D NMR Spectra Processing And Quantification Charlie Beirnaert|Pieter Meysman|Trung Nghia Vu|Nina Hermans|Sandra Apers|Luc Pieters|Adrian Covaci|Kris Laukens University of Antwerp;|Karolinska Institutet
http://dx.doi.org/10.1101/138149 2017-05-16 Neuroscience CC BY-NC-ND I Like Coffee With Cream And Dog? Change In An Implicit Probabilistic Representation Captures Meaning Processing In The Brain Milena Rabovsky|Steven S. Hansen|James L. McClelland Freie Universitaet Berlin;|Stanford University
http://dx.doi.org/10.1101/138362 2017-05-16 Synthetic Biology CC BY-NC-ND Dynamic Allocation Of Orthogonal Ribosomes Facilitates Uncoupling Of Co-Expressed Genes Alexander P. S. Darlington|Juhyun Kim|Jose I. Jimenez|Declan G. Bates University of Warwick;|University of Surrey
http://dx.doi.org/10.1101/138248 2017-05-16 Microbiology CC BY-NC Prediction of fluoroquinolone susceptibility directly from whole genome sequence data using liquid chromatography-tandem mass spectrometry to identify mutant genotypes. Wan Ahmed Kamil Wan Nur Ismah|Yuiko Takebayashi|Jacqueline Findlay|Kate J Heesom|Juan-Carlos Jimenez-Castellanos|Jay Zhang|Lee Graham|Karen Bowker|Martin Williams|Alasdair P MacGowan|Matthew B Avison University of Bristol;|North Bristol NHS Trust;|Bristol Royal Infirmary
http://dx.doi.org/10.1101/135988 2017-05-16 Genomics CC BY A Point Of No Return Leading To Death During Heat-Shock In C. elegans Katharina Jovic|Mark G. Sterken|Jacopo Grilli|Roel P. J. Bevers|Miriam Rodriguez|Joost A. G. Riksen|Stefano Allesina|Jan E. Kammenga|L. Basten Snoek Wageningen University & Research;|University of Chicago;|Wageningen University
http://dx.doi.org/10.1101/138354 2017-05-16 Developmental Biology Geometrical confinement guides Brachyury self-patterning in embryonic stem cells. Guillaume Blin|Catherine Picart|Manuel Thery|Michel Puceat MRC Centre for Regenerative Medicine;|University Grenoble-Alpes;|Hopital Saint Louis, CEA;|Faculte de Medecine La Timone
http://dx.doi.org/10.1101/137653 2017-05-16 Molecular Biology CC BY-NC Molecular Mechanisms Of Human Papillomavirus-Related Carcinogenesis In Head And Neck Cancer Farhoud Faraji|Munfarid Zaidi|Carole Fakhry|Daria A. Gaykalova Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/138735 2017-05-17 Ecology CC BY-NC-ND A Comment On Priors For Bayesian Occupancy Models Joseph M. Northrup|Brian D. Gerber Oregon State University;|Colorado State University
http://dx.doi.org/10.1101/138636 2017-05-17 Genomics CC BY-ND A Comparison Of Machine Learning And Bayesian Modelling For Molecular Serotyping Richard Newton|Lorenz Wernisch University of Cambridge
http://dx.doi.org/10.1101/138743 2017-05-17 Neuroscience CC BY-ND A Neural Population Mechanism For Rapid Learning Matthew G. Perich|Juan Alvaro Gallego|Lee Miller Northwestern University
http://dx.doi.org/10.1101/139048 2017-05-17 Microbiology CC BY-NC-ND Identifying Parameters Of Host Cell Vulnerability During Salmonella Infection By Quantitative Image Analysis And Modeling Jakub Voznica|Christophe Gardella|Ilia Belotserkovsky|Alexandre Dufour|Jost Enninga|Virginie Stevenin Institut Pasteur;|UPMC and Ecole Normale Supérieure
http://dx.doi.org/10.1101/138859 2017-05-17 Neuroscience CC BY-NC-ND The Nonlinear Relationship Between Sensory And Motor Primitives During Reaching Movements Russell L. Hardesty|Matthew T. Boots|Sergiy Yakovenko|Valeriya Gritsenko West Virginia University
http://dx.doi.org/10.1101/139071 2017-05-17 Genomics CC BY-ND Clusternomics: Integrative Context-Dependent Clustering For Heterogeneous Datasets Evelina Gabasova|John E. Reid|Lorenz Wernisch MRC Cancer Unit, University of Cambridge, Cambridge, United Kingdom;|MRC Biostatistics Unit, University of Cambridge, Cambridge, United Kingdom
http://dx.doi.org/10.1101/138966 2017-05-17 Neuroscience CC BY-NC-ND Local Low Frequency fMRI Synchrony Is A Proxy For The Spatial Extent Of Functional Connectivity Gregory R. Kirk|Daniela Dentico|Rasmus Birn|Nagesh Adluru|Thomas Blumensath|Bill Taylor|Lauren Michael|Manuel Casanova|Andrew Alexander University of Wisconsin, Madison USA;|University of Wisconsin-Madison USA;|University of Southampton UK;|University of South Carolina School of Medicine USA
http://dx.doi.org/10.1101/138826 2017-05-17 Bioinformatics CC BY-ND Graph-Guided Assembly For Novel HLA Allele Discovery Heewook Lee|Carl Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/138701 2017-05-17 Developmental Biology CC BY-NC-ND An FGF-Driven Coherent Feed-Forward Circuit Patterns The Cardiopharyngeal Mesoderm Of A Simple Chordate In Space And Time Florian Razy-Krajka|Basile Gravez|Lionel Christiaen New York University
http://dx.doi.org/10.1101/138685 2017-05-17 Genomics CC BY Joint Profiling Of Chromatin Accessibility, DNA Methylation And Transcription In Single Cells Stephen J. Clark|Ricard Argelaguet|Chantriolnt-Andreas Kapourani|Thomas M. Stubbs|Heather J. Lee|Felix Krueger|Guido Sanguinetti|Gavin Kelsey|John C. Marioni|Oliver Stegle|Wolf Reik Babraham Institute, Cambridge, UK;|European Bioinformatics Institute, Hinxton, Cambridge, UK;|University of Edinburgh, UK;|The University of Newcastle, Callaghan, NSW, Australia
http://dx.doi.org/10.1101/113050 2017-05-17 Genomics CC BY-NC-ND Accuracy, Reproducibility And Bias Of Next Generation Sequencing For Quantitative Small RNA Profiling: A Multiple Protocol Study Across Multiple Laboratories Maria D. Giraldez|Ryan M. Spengler|Alton Etheridge|Paula Maria Godoy|Andrea J. Barczak|Srimeenakshi Srinivasan|Peter L. De Hoff|Kahraman Tanriverdi|Amanda Courtright|Shulin Lu|Joseph Khoory|Renee Rubio|David Baxter|Tom A. P. Driedonks|Hank P. J. Buermans|Esther N. M. Nolte-t Hoen|Hui Jiang|Kai Wang|Ionita Ghiran|Yaoyu Wang|Kendall Van Keuren-Jensen|Jane E. Freedman|Prescott G. Woodruff|Louise C. Laurent|David J. Erle|David J. Galas|Muneesh Tewari Department of Internal Medicine, University of Michigan;|Pacific Northwest Research Institute;|UC San Francisco;|Lung Biology Center, Department of Medicine, University of California San Francisco;|University of California, San Diego, Department of Reproductive Medicine;|U Mass Medical School, Dept of Medicine, Division of Cardiovascular Medicine;|Neurogenomics, The Translational Genomics Research Institute (TGen);|Department of Medicine, Beth Israel Deaconess Medical Center, Harvard Medical School;|Center for Cancer Computational Biology, Dana-Farber Cancer Institute;|Institute for Systems Biology;|Department of Biochemistry & Cell Biology, Faculty of Veterinary Medicine, Utrecht University;|Leiden Genome Technology Center, Dept. of Human Genetics, Leiden University Medical Ctr;|Center for Computational Medicine and Bioinformatics, University of Michigan;|U Mass Medical School, Department of Medicine, Division of Cardiovascular Medicine;|Division of Pulmonary, Critical Care, Sleep, and Allergy, University of California San Francisco
http://dx.doi.org/10.1101/130898 2017-05-17 Microbiology CC BY-NC-ND High Activity Of Selective Essential Oils Against Stationary Phase Borrelia burgdorferi As A Persister Model Jie Feng|Shuo Zhang|Wanliang Shi|Nevena Zubcevik|Judith Miklossy|Ying Zhang Johns Hopkins University;|Harvard Medical School;|Prevention Alzheimer International Foundation
http://dx.doi.org/10.1101/138552 2017-05-17 Scientific Communication and Education CC BY-NC-ND A tale of two cores: a quantitative comparative analysis of the institutional and the open access models for flow research technology platforms Anna Petrunkina|Reiner Schulte University of Cambridge;|Cambridge Institute for Medical Research
http://dx.doi.org/10.1101/138982 2017-05-17 Plant Biology Environmental Influences On The Mating System Of The Common Morning Glory Diego F. Alvarado-Serrano|Shu-Mei Chang|Regina S. Baucom University of Michigan;|University of Georgia
http://dx.doi.org/10.1101/139139 2017-05-17 Evolutionary Biology Interdependence, Reflexivity, Fidelity, Impedance Matching, And The Evolution Of Genetic Coding Charles W. Carter|Peter R. Wills University of North Carolina Chapel Hill;|University of Auckland
http://dx.doi.org/10.1101/138156 2017-05-17 Genetics CC BY Polygenic Link Between Blood Lipids And Amyotrophic Lateral Sclerosis Xu Chen|Solmaz Yazdani|Fredrik Piehl|Patrik K. E. Magnusson|Fang Fang Karolinska Institutet
http://dx.doi.org/10.1101/138669 2017-05-17 Bioinformatics CC BY Exploiting General Independence Criteria For Network Inference Petras Verbyla|Nina Desgranges|Sylvia Richardson|Lorenz Wernisch MRC Biostatistics Unit
http://dx.doi.org/10.1101/134916 2017-05-17 Neuroscience CC BY-NC-ND Activity-Dependent Control Of Inhibitory Interneuron Number In The Mammalian Cortex Myrto Denaxa|Guilherme Neves|Adam Rabinowitz|Sarah Kemlo|Petros Liodis|Juan Burrone|Vassilis Pachnis Nervous System Development & Homeostasis Laboratory, The Francis Crick Institute, London;|King's College London;|Bioinformatics and Biostatistics Laboratory, The Francis Crick Institute, London;|National Institute for Medical Research, London
http://dx.doi.org/10.1101/139030 2017-05-17 Evolutionary Biology CC BY-NC-ND On The Advantages Of Evolutionary Passivity In Fluctuating Environments: Could Sex Be The Preadaptation For The Stability-Based Sorting? Jaroslav Flegr|Petr Ponizil Fac. Science, Charles University;|Department of Physics and Materials Engineering, Tomas Bata University in Zlin
http://dx.doi.org/10.1101/139113 2017-05-17 Systems Biology CC BY-NC Untargeted Metabolomic Analysis In Naturally Occurring Canine Diabetes Mellitus Identifies Similarities To Human Type 1 Diabetes Allison L. O'Kell|Timothy J. Garrett|Clive Wasserfall|Mark A. Atkinson University of Florida
http://dx.doi.org/10.1101/139006 2017-05-17 Microbiology CC BY Revisiting The Ancylostoma caninum Secretome Provides New Information On Hookworm-Host Interactions Taylor Morante|Catherine Shepherd|Constantin Constantinoiu|Alex Loukas|Javier Sotillo James Cook University
http://dx.doi.org/10.1101/138800 2017-05-17 Bioinformatics CC BY-NC-ND Towards Selective-Alignment: Producing Accurate And Sensitive Alignments Using Quasi-Mapping Hirak Sarkar|Mohsen Zakeri|Laraib Malik|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/138925 2017-05-17 Neuroscience CC BY Removal Of Inhibition Uncovers Latent Movement Preparation Dynamics Uday K. Jagadisan|Neeraj J. Gandhi University of Pittsburgh
http://dx.doi.org/10.1101/138834 2017-05-17 Neuroscience CC BY Transcranial alternating current stimulation (tACS) mechanisms and protocols Amir Vala Tavakoli|Kyongsik Yun Caltech / UCLA;|JPL / Caltech
http://dx.doi.org/10.1101/139022 2017-05-17 Microbiology CC BY-NC-ND An Aphrodisiac Produced By Vibrio fischeri Stimulates Mating In The Closest Living Relatives Of Animals Arielle Woznica|Joseph P. Gerdt|Ryan Hulett|Jon Clardy|Nicole King University of California, Berkeley;|Harvard Medical School;|HHMI/University of California, Berkeley
http://dx.doi.org/10.1101/138974 2017-05-17 Developmental Biology CC BY On Growth And Form Of The Distal Air Exchange Surfaces Within The Lung David Warburton|Clarence Wigfall|Harvey Pollack|David Koos|Denise AlAlam|Wei Shi|Scott E. Fraser|Rex Moats Saban Research Institute, Childrens Hospital Los Angeles;|Claremont Graduate University;|Children's Hospital Los Angeles
http://dx.doi.org/10.1101/138941 2017-05-17 Biophysics CC BY A Liquid Chromatography-Mass Spectrometry Method For Screening Disulfide Tethering Fragments Kenneth K. Hallenbeck|Julia Davies|Connie Merron|Pierce Ogden|Adam R. Renslo|Christopher Wilson|Michelle R. Arkin Department of Pharmaceutical Chemistry, University of California
http://dx.doi.org/10.1101/138958 2017-05-17 Biophysics A Combined Use Of Intravoxel Incoherent Motion MRI Parameters Can Differentiate Early Stage Hepatitis-B Fibrotic Livers From Healthy Livers Yi-Xiang Wang|Min Deng|Yao Li|Hua Huang|Jason C. S. Leung|Weitian Chen|Pu-Xuan Lu The Chinese University of Hong Kong;|Shenzhen Center for Chronic Disease Control
http://dx.doi.org/10.1101/138628 2017-05-17 Animal Behavior and Cognition CC BY Domino-Like Propagation Of Collective U-Turns In Fish Schools Valentin Lecheval|Li Jiang|Pierre Tichit|Clement Sire|Charlotte K. Hemelrijk|Guy Theraulaz Centre de Recherches sur la Cognition Animale, Toulouse, France;|School of Systems Science, Beijing, China;|Laboratoire de Physique Theorique, Toulouse, France;|Groningen Institute for Evolutionary Life Sciences, Groningen, The Netherlands
http://dx.doi.org/10.1101/138610 2017-05-17 Cell Biology Filopodyan: An Open-Source Pipeline For The Analysis Of Filopodia Vasja Urbancic|Richard Butler|Benjamin Richier|Manuel Peter|Julia Mason|Christine E. Holt|Jennifer L. Gallop University of Cambridge
http://dx.doi.org/10.1101/138909 2017-05-17 Biophysics Poor man's two photon imaging: Scanning Laser Upconversion Microscopy Cecilia Sorbello|Roberto Etchenique Universidad de Buenos Aires
http://dx.doi.org/10.1101/138719 2017-05-17 Microbiology CC BY-NC-ND Evaluating The Accuracy Of DNA Stable Isotope Probing Nicholas D. Youngblut|Daniel H. Buckley Cornell University
http://dx.doi.org/10.1101/138842 2017-05-17 Biophysics CC BY-NC The AWSEM-Amylometer: Predicting Amyloid Propensity And Fibril Topology Using An Optimized Folding Landscape Model Mingchen Chen|Nicholas Schafer|Weihua Zheng|Peter Guy Wolynes Rice University
http://dx.doi.org/10.1101/138867 2017-05-16 Biochemistry A thermostable Cas9 with increased lifetime in human plasma Lucas Harrington|David Paez-Espino|Janice S. Chen|Enbo Ma|Brett T. Staahl|Nikos C. Kyrpides|Jennifer A. Doudna University of California, Berkeley;|Department of Energy, Joint Genome Institute
http://dx.doi.org/10.1101/138677 2017-05-16 Genomics CC BY-NC Gene Expression Recovery For Single Cell RNA Sequencing Mo Huang|Jingshu Wang|Eduardo Torre|Hannah Dueck|Sydney Shaffer|Roberto Bonasio|John Murray|Arjun Raj|Mingyao Li|Nancy R. Zhang University of Pennsylvania
http://dx.doi.org/10.1101/138776 2017-05-16 Physiology Role Of Chymotrypsin-Like Elastase 1 In Lung Physiology And in α1-Antitrypsin Deficiency Rashika Joshi|Andrea Heinz|Qiang Fan|Shuling Guo|Brett Monia|Christian E. H. Schmelzer|Anthony S. Weiss|Matthew Batie|Harikrishnan Parameswaran|Brian Michael Varisco Cincinnati Childrens Hospital Medical Center;|University of Copenhagen;|Ionis Pharmaceuticals;|Martin Luther University;|University of Sydney;|Northeastern University
http://dx.doi.org/10.1101/138750 2017-05-16 Plant Biology CC BY-ND A Small RNA Pathway Mediates Global Allelic Dosage In Endosperm Robert M. Erdmann|P.R. V. Satyaki|Maja Klosinska|Mary Gehring Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/138644 2017-05-16 Genetics CC BY Disrupting Pitx1 Regulatory Topology Results In Overtly Normal Limb Development Richard Sarro|Deena Emera|Severin Uebbing|Emily V. Dutrow|Scott D. Weatherbee|Timothy Nottoli|James P. Noonan Yale University
http://dx.doi.org/10.1101/138792 2017-05-16 Genetics CC BY Systematic Effects Of mRNA Secondary Structure On Gene Expression And Molecular Function In Budding Yeast Xia Wang|Pidong Li|Ryan N. Gutenkunst University of Arizona;|Northwest A&F University
http://dx.doi.org/10.1101/138883 2017-05-16 Genomics CC BY Evaluation of ddRADseq for reduced representation metagenome sequencing Michael Liu|Paul Worden|Leigh G Monahan|Matthew Z DeMaere|Catherine M Burke|Steven P Djordjevic|Ian G Charles|Aaron E Darling University of Technology Sydney
http://dx.doi.org/10.1101/138396 2017-05-16 Ecology CC BY-NC-ND Consensus and conflict among ecological forecasts of Zika virus outbreaks in the United States Colin J Carlson|Eric Dougherty|Mike Boots|Wayne Getz|Sadie Ryan University of California Berkeley;|University of California, Berkeley;|University of Florida
http://dx.doi.org/10.1101/138602 2017-05-16 Molecular Biology CC BY-NC-ND Identification of putative G-quadruplex forming sequences in three manatee papillomaviruses Maryam Zahin|William L. Dean|Shin-je Ghim|Joongho Joh|Robert D. Gray|Sujita Khanal|Gregory D. Bossart|Antonio A. Mignucci-Giannoni|Eric C. Rouchka|Alfred B. Jenson|Jonathan B. Chaires|Julia H. Chariker University of Louisville;|University of Miami;|Inter American University of Puerto Rico
http://dx.doi.org/10.1101/137182 2017-05-16 Pharmacology and Toxicology CC BY-NC-ND Mutations in the pantothenate kinase of the malaria parasite P. falciparum confer resistance or hypersensitivity to diverse pantothenate analogues Erick T Tjhin|Christina Spry|Alan L Sewell|Annabelle Hoegl|Leanne Barnard|Anna E Sexton|Vanessa M Howieson|Alexander G Maier|Darren J Creek|Erick Strauss|Rodolfo Marquez|Karine Auclair|Kevin J Saliba Australian National University;|University of Glasgow;|McGill University;|Stellenbosch University;|Monash University;|Xian Jiaotong-Liverpool University
http://dx.doi.org/10.1101/137976 2017-05-16 Neuroscience CC BY-NC-ND Lewy pathology in Parkinson's disease consists of a crowded organellar membranous medley Sarah H. Shahmoradian|Christel Genoud|Alexandra Graff-Meyer|Juergen Hench|Tim Moors|Gabriel Schweighauser|Jing Wang|Kenneth N. Goldie|Rosmarie Suetterlin|Daniel Castano-Diez|Paula Perez-Navarro|Evelien Huisman|Sabine Ipsen|Angela Ingrassia|Yvonne de Gier|Annemieke J.M. Rozemuller|Anne Da Paepe|Johannes Erny|Andreas Staempfli|Joerg Hoernschemeyer|Frederik Grosserueschkamp|Daniel Niedieker|Samir F. El-Mashtoly|Marialuida Quadri|Wilfred F.J. van Ijcken|Vincenzo Bonifati|Klaus Gerwert|Bernd Bohrmann|Stephan Frank|Markus Britschgi|Henning Stahlberg|Wilma van de Berg|Mathias E. Lauer University of Basel;|Friedrich-Miescher Institute Basel;|University Hospital Basel;|VU Medical Center, Amsterdam;|Hoffmann-La Roche, Ltd.;|Ruhr University, Bochum;|Erasmus Medical Center, Rotterdam
http://dx.doi.org/10.1101/137026 2017-05-17 Neuroscience CC BY-NC Population Coding Of Conditional Probability Distributions In Dorsal Premotor Cortex Joshua I. Glaser|Matthew G. Perich|Pavan Ramkumar|Lee E. Miller|Konrad P. Kording Northwestern University
http://dx.doi.org/10.1101/139311 2017-05-17 Cancer Biology CC BY Genetic Load Makes Cancer Cells More Sensitive To Common Drugs: Evidence From Cancer Cell Line Encyclopedia Ana B. Pavel|Kirill S. Korolev Icahn School of Medicine at Mount Sinai;|Boston University
http://dx.doi.org/10.1101/139337 2017-05-17 Neuroscience The Cerebellum Does More Than Sensory-Prediction-Error-Based Learning In Sensorimotor Adaptation Tasks Peter A. Butcher|Richard Ivry|Sheng-Han Kuo|David Rydz|John W. Krakauer|Jordan A. Taylor Princeton University;|University of California, Berkeley;|Columbia University Medical Center;|Johns Hopkins University
http://dx.doi.org/10.1101/139279 2017-05-17 Ecology CC BY Body Size Shifts Influence Effects Of Increasing Temperatures On Ectotherm Metabolism Kristina Riemer|Kristina J. Anderson-Teixeira|Felisa A. Smith|David J. Harris|S. K. Morgan Ernest University of Florida;|Smithsonian Conservation Biology Institute;|University of New Mexico
http://dx.doi.org/10.1101/139147 2017-05-17 Evolutionary Biology CC BY-NC Reconstruction of body mass evolution in the Cetartiodactyla and mammals using phylogenomic data. Emeric Figuet|Marion Ballenghien|Nicolas Lartillot|Nicolas Galtier Institut des Sciences de l'Evolution, UMR 5554, Universite Montpellier, CNRS, IRD, EPHE;|Adaptation et Diversite en Milieu Marin, UMR7144, CNRS, Universite Pierre et Marie Curie;|Laboratoire de Biometrie et Biologie Evolutive, UMR 5558, CNRS, Universite Claude Bernard Lyon 1
http://dx.doi.org/10.1101/139188 2017-05-17 Neuroscience A Non-Parametric Bayesian Prior For Causal Inference Of Auditory Streaming Tim Yates|Nathanael Larigaldie|Ulrik Beierholm University of Birmingham;|Durham University
http://dx.doi.org/10.1101/138768 2017-05-17 Neuroscience The Human Visual Cortex Response To Melanopsin-Directed Stimulation Is Accompanied By A Distinct Perceptual Experience Manuel Spitschan|Andrew Bock|Jack Ryan|Giulia Frazzetta|David H. Brainard|Geoffrey Karl Aguirre University of Pennsylvania
http://dx.doi.org/10.1101/139261 2017-05-17 Zoology CC BY-ND Reef Fishes Of Praia do Tofo & Praia da Barra, Inhambane, Mozambique Alexander John Fordyce ARC Centre of Excellence for Coral Studies
http://dx.doi.org/10.1101/139840 2017-05-18 CC BY-ND High-Definition Electronic Genome Maps From Single Molecule Data John S. Oliver|Anthony Catalano|Jennifer R. Davis|Boris S. Grinberg|Timothy E. Hutchins|Michael D. Kaiser|Steve Nurnberg|Jay M. Sage|Leah Seward|Gregory Simelgor|Nathan K. Weiner|Barrett Bready Nabsys 2.0
http://dx.doi.org/10.1101/139824 2017-05-18 CC BY-NC-ND Direct Modulation Of Aberrant Brain Network Connectivity Through Real-Time NeuroFeedback Michal Ramot|Sara Kimmich|Javier Gonzalez-Castillo|Vinai Roopchansingh|Haroon Popal|Emily White|Stephen J. Gotts|Alex Martin National Institutes of Health
http://dx.doi.org/10.1101/139857 2017-05-18 CC BY-ND Simulating The Impact Of Sensorimotor Deficits On Reaching Performance Sean M. Sketch|Cole S. Simpson|Frederic Crevecoeur|Allison M. Okamura Stanford University;|Université catholique de Louvain
http://dx.doi.org/10.1101/139873 2017-05-18 The industrial anaerobe Clostridium acetobutylicum uses polyketides to regulate butanol production and differentiation Nicolaus Herman|Seong-Jong Kim|Jeffrey S Li|Wenlong Cai|Hiroyuki Koshino|Wenjun Zhang UC Berkeley;|RIKEN Center for Sustainable Resource Science;|University of California, Berkeley
http://dx.doi.org/10.1101/138289 2017-05-18 CC BY A Comparison Between Single Cell RNA Sequencing And Single Molecule RNA FISH For Rare Cell Analysis Eduardo A. Torre|Hannah Dueck|Sydney Shaffer|Janko Gospocic|Rohit Gupte|Roberto Bonasio|Junhyong Kim|John Murray|Arjun Raj University of Pennsylvania
http://dx.doi.org/10.1101/139816 2017-05-18 CC BY-NC-ND lme4qtl: linear mixed models with flexible covariance structure for genetic studies of related individuals Andrey Ziyatdinov|Miquel Vazquez-Santiago|Helena Brunel|Angel Martinez-Perez|Hugues Aschard|Jose Manuel Soria Department of Epidemiology, Harvard T. H. Chan School of Public Health;|Institut d'Investigacio Biomedica Sant Pau (IIB-Sant Pau)
http://dx.doi.org/10.1101/139535 2017-05-18 CC BY Infants Are Superior In Implicit Crossmodal Learning And Use Other Learning Mechanisms Than Adults Sophie Rohlf|Boukje Habets|Marco von Frieling|Brigitte Roder University of Hamburg;|University of Bielefeld
http://dx.doi.org/10.1101/139766 2017-05-18 CC BY-NC-ND Hellbender Salamanders (Cryptobranchus alleganiensis) Exhibit An Ontogenetic Shift In Microhabitat Use In A Blue Ridge Physiographic Region Stream Kirsten A. Hecht|Michael J. Freake|Max A. Nickerson|Phil Colclough University of Florida;|Lee University;|Florida Museum of Natural History;|Zoo Knoxville
http://dx.doi.org/10.1101/139436 2017-05-18 Network Analysis Of High-Density Microelectrode Recordings Torsten Bullmann|Milos Radivojevic|Stefan T. Huber|Kosmas Deligkaris|Andreas Hierlemann|Urs Frey Kyoto University;|ETH Zurich;|Frey IRU;|Freu IRU
http://dx.doi.org/10.1101/139733 2017-05-18 CC BY-NC-ND How Well Do You Know Your Mutation? Complex Effects Of Genetic Background On Expressivity, Complementation, And Ordering Of Allelic Effects Christopher H. Chandler|Sudarshan Chari|Alycia Kowalski|Lin Choi|David Tack|Michael DeNieu|William R. Pitchers|Anne Sonnenschein|Leslie Marvin|Kristen Hummel|Christian Marier|Andrew Victory|Cody Porter|Anna Mammel|Julie Holms|Gayatri Sivaratnam|Ian Dworkin Department of Biological Sciences, SUNY Oswego;|Lewis-Sigler Institute for Integrative Genomics, Princeton University;|Department of Integrative Biology, Michigan State University;|Department of Biology, Pennsylvania State University;|Department of Biological Sciences, The George Washington University;|Michigan State University;|Genome Technology Center, New York University Langone Medical Center;|Center for Emergency Medicine, University of Pittsburgh Medical Center;|Department of Zoology and Physiology, University of Wyoming;|Department of Cell, Developmental & Cancer Biology, Oregon Health and Science University;|Department of Biology, McMaster University;|McMaster University
http://dx.doi.org/10.1101/138230 2017-05-18 CC BY-NC Switch Independent Task Representations In Frontal And Parietal Cortex Lasse Loose|David Wisniewski|Marco Rusconi|Thomas Goschke|John-Dylan Haynes Bernstein Center for Computational Neuroscience Berlin;|Ghent University;|Dresden University of Technology;|Bernstein Center for Computational Neuroscience
http://dx.doi.org/10.1101/139758 2017-05-18 Dynamics Of The Human Antibody Repertoire Following B-cell Depletion In Systemic Sclerosis Charles F. A. de Bourcy|Cornelia L. Dekker|Mark M. Davis|Mark R. Nicolls|Stephen R. Quake Department of Applied Physics, Stanford University;|Department of Pediatrics, Stanford University School of Medicine;|Department of Microbiology and Immunology, Stanford University School of Medicine;|Department of Medicine, Division of Pulmonary and Critical Care Medicine, Stanford University;|Depts. of Bioengineering and Applied Physics, Stanford University; Chan Zuckerberg Biohub
http://dx.doi.org/10.1101/139808 2017-05-18 CC BY-ND STAR Chimeric Post For Rapid Detection Of Circular RNA And Fusion Transcripts Nicholas Kipp Akers|Eric Schadt|Bojan Losic Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/139709 2017-05-18 The Prevalence And Benefits Of Admixture During Species Invasions: A Role For Epistasis? Brittany S. Barker|Janelle E. Cocio|Samantha R. Anderson|Joseph Braasch|Feng Alice Cang|Heather D. Gillette|Katrina M. Dlugosch University of Arizona; United Stated Geological Survey;|University of Arizona;|University of ARizona
http://dx.doi.org/10.1101/139485 2017-05-18 CC BY-NC-ND Parallel Occurrence Of Theta And Respiration-Coupled Network Oscillations Throughout The Mouse Brain Adriano B. L. Tort|Simon Ponsel|Jakob Jessberger|Yevgenij Yanovsky|Jurij Brankack|Andreas Draguhn Federal University of Rio Grande do Norte;|Heidelberg University
http://dx.doi.org/10.1101/139576 2017-05-18 CC BY Salmonella enterica Serovar Typhimurium ST313 Responsible For Gastroenteritis In The UK Are Genetically Distinct From Isolates Causing Bloodstream Infections In Africa Philip M. Ashton|Sian Owen|Lukeki Kaindama|Will P. M. Rowe|Chris Lane|Lesley Larkin|Satheesh Nair|Claire Jenkins|Elizabeth de Pinna|Nicholas Feasey|Jay C. D. Hinton|Tim Dallman Public Health England;|Institute of Integrative Biology, University of Liverpool;|Liverpool School of Tropical Medicine
http://dx.doi.org/10.1101/139584 2017-05-18 CC BY Evaluation Of Classifier Performance For Multiclass Phenotype Discrimination In Untargeted Metabolomics Patrick J. Trainor|Andrew P. DeFilippis|Shesh N. Rai University of Louisville
http://dx.doi.org/10.1101/139725 2017-05-18 CC BY-NC-ND Disentangling The Effects Of Selection And Loss Bias On Gene Dynamics Jaime Iranzo|Jose A. Cuesta|Susanna Manrubia|Mikhail I. Katsnelson|Eugene V. Koonin National Center for Biotechnology Information, NLM, NIH;|GISC; Departamento de Matematicas, Universidad Carlos III de Madrid;|Institute for Molecules and Materials, Radboud University
http://dx.doi.org/10.1101/139618 2017-05-18 CC BY-NC-ND All Fingers Are Not The Same: Handling Variable-Length Sequences In A Discriminative Setting Using Conformal Multi-Instance Kernels Sarvesh Nikumbh|Peter Ebert|Nico Pfeifer Max Planck Institute for Informatics;|Max Planck Institute for Informatics and University of Tuebingen
http://dx.doi.org/10.1101/139550 2017-05-18 CC BY-NC-ND A Core Speech Circuit Between Primary Motor, Somatosensory, And Auditory Cortex: Evidence From Connectivity And Genetic Descriptions Jeremy I. Skipper|Uri Hasson University College London;|University of Trento
http://dx.doi.org/10.1101/139493 2017-05-18 CC BY-NC Individual Differences In Perceptual Decision Making Reflect Neural Variability In Medial Frontal Cortex Tomoki Kurikawa|Takashi Handa|Tomoki Fukai RIKEN Brain Science Institute;|Research Center Caesar
http://dx.doi.org/10.1101/139287 2017-05-18 CC BY-NC Integrating TARA Oceans Datasets Using Unsupervised Multiple Kernel Learning Jerome Mariette|Nathalie Villa-Vialaneix INRA
http://dx.doi.org/10.1101/139444 2017-05-18 CC BY Molecular Correlate Of Mouse Executive Function. Top-Down And Bottom-Up Information Flows Complementation By Ntng Gene Paralogs Pavel Prosselkov|Qi Zhang|Hiromichi Goto|Denis Polygalov|Thomas J. McHugh|Shigeyoshi Itohara Lab for Behavioral Genetics, RIKEN Brain Science Institute, 351-0198 Saitama, Japan;|Lab for Circuit and Behavior Physiology, RIKEN Brain Science Institute, 351-0198 Saitama
http://dx.doi.org/10.1101/139675 2017-05-18 CC BY Purification Of The Mammalian NgBR/hCIT cis-Prenyltransferase Complex: IdentificationOf A Conserved Carboxyterminal RxG Motif Crucial For Enzymatic Activity Kariona A. Grabinska|Ban H. Edani|Eon Joo Park|Jan R. Kraehling|Bill Sessa Yale;|Yale School of Medicine
http://dx.doi.org/10.1101/139741 2017-05-18 CC BY Light Amplification By Biofilm And Its Polarization Dependence Sanhita Ray|Anjan Kr. Dasgupta University of Calcutta
http://dx.doi.org/10.1101/139568 2017-05-18 CC BY-NC-ND Quantitative MRI Provides Markers Of Intra-, Inter-Regional, And Age-Related Differences In Young Adult Cortical Microstructure Daniel Carey|Francesco Caprini|Micah Allen|Antoine Lutti|Nikolaus Weiskopf|Geraint Rees|Martina F. Callaghan|Frederic Dick Trinity College Dublin;|Centre for Brain and Cognitive Development, Birkbeck College, University of London;|Institute of Cognitive Neuroscience, University College London;|Laboratoire de Recherche en Neuroimagerie, Departement des Neurosciences Cliniques;|Department of Neurophysics, Max Planck Institute for Human Cognitive and Brain Sciences;|Wellcome Trust Centre for Neuroimaging, University College London;|Birkbeck/UCL Centre for Neuroimaging (BUCNI)
http://dx.doi.org/10.1101/138875 2017-05-18 CC BY-NC Percentage-Based Author Contribution Index. A Universal Measure Of Author Contribution To Scientific Articles Stephane Boyer|Takayoshi Ikeda|Marie-Caroline Lefort|Jagoba Malumbres-Olarte|Jason M. Schmidt Unitec Institute of Technology;|Japan Agency for Marine-Earth Science and Technology;|University of Barcelona;|University of Georgia
http://dx.doi.org/10.1101/139717 2017-05-18 NMR Analysis Of The Interaction Of Ethanol With The Nicotinic Acetylcholine Receptor David Naugler|Robert J. Cushley|Ian Clark-Lewis SFU;|Simon Fraser University;|University of British Columbia
http://dx.doi.org/10.1101/139691 2017-05-18 Zfp423, A Joubert Syndrome Gene, Is A Domain-Specific Regulator Of Cell Cycle Progression, DNA Damage Response And Purkinje Cell Development In The Cerebellar Primordium Filippo Casoni|Laura Croci|Camilla Bosone|Roberta D'Ambrosio|Aurora Badaloni|Davide Gaudesi|Valeria Barili|Justyna R. Sarna|Lino Tessarollo|Ottavio Cremona|Richard Hawkes|Soren Warming|Gian Giacomo Consalez Universita Vita-Salute San Raffaele & Div. of Neuroscience, San Raffaele Scientific Institute;|Division of Neuroscience, San Raffaele Scientific Institute;|Foothills Hospital, University of Calgary, Alberta, Canada;|Center for Cancer Research, National Cancer Institute, Frederick, MD;|University of Calgary, Alberta, Canada
http://dx.doi.org/10.1101/139204 2017-05-18 CC BY-NC Manuscript 101: A Data-Driven Writing Exercise For Beginning Scientists Michael A. Halbisen|Amy Ralston Michigan State University
http://dx.doi.org/10.1101/139626 2017-05-18 Enhanced Guide-RNA Design And Targeting Analysis For Precise CRISPR Genome Editing Of Single And Consortia Of Industrially Relevant And Non-Model Organisms Brian Mendoza|Cong T. Trinh University of Tennessee, Knoxville
http://dx.doi.org/10.1101/139543 2017-05-18 CC BY-ND Natural Chromatin Is Heterogeneous And Self Associates In Vitro Shujun Cai|Yajiao Song|Chen Chen|Jian Shi|Lu Gan National University of Singapore
http://dx.doi.org/10.1101/139782 2017-05-18 CC BY-NC-ND Cohesin Loss Eliminates All Loop Domains, Leading To Links Among Superenhancers And Downregulation Of Nearby Genes Suhas Rao|Su-Chen Huang|Brian Glenn St. Hilaire|Jesse M. Engreitz|Elizabeth M. Perez|Kyong-Rim Kieffer-Kwon|Adrian L. Sanborn|Sarah E. Johnstone|Ivan D. Bochkov|Xingfan Huang|Muhammad S. Shamim|Arina D. Omer|Bradley E. Bernstein|Rafael Casellas|Eric S. Lander|Erez Lieberman Aiden Stanford University;|Baylor College of Medicine;|Broad Institute of MIT and Harvard;|NIAMS, NIH;|Massachusetts General Hospital;|Rice University
http://dx.doi.org/10.1101/139634 2017-05-19 CC BY-NC Changes Of Gene Expression But Not Cytosine Methylation Are Associated With Behavioural Plasticity Of Parental Care Christopher B. Cunningham|Lexiang Ji|Elizabeth C. McKinney|Kyle M. Benowitz|Robert J. Schmitz|Allen J. Moore Swansea University;|University of Georgia
http://dx.doi.org/10.1101/139915 2017-05-19 Developmental Biology CC BY-NC-ND Microfluidic Immobilization And Subcellular Imaging Of Developing Caenorhabditis elegans Jordan Shivers|Sravanti Uppaluri|Clifford P. Brangwynne Rice University;|Azim Premji University;|Princeton University
http://dx.doi.org/10.1101/140020 2017-05-19 Evolutionary Biology CC BY-NC STRIDE: Species Tree Root Inference From Gene Duplication Events David M. Emms|Steven Kelly University of Oxford
http://dx.doi.org/10.1101/140038 2017-05-19 CC BY Cell Dynamics Underlying Oriented Growth Of The Drosophila Imaginal Wing Disc Natalie A. Dye|Marko Popovic|Stephanie Spannl|Raphael Etournay|Dagmar Kainmueller|Eugene W. Myers|Frank Julicher|Suzanne Eaton Max Planck Institute for Cell Biology and Genetics (MPI-CBG);|Max Planck Institute for the Physics of Complex Systems (MPI-PKS);|Unite de Genetique et Physiologie de l'Audition, Institut Pasteur;|Janelia Farm Research Campus;|Max Planck Institute
http://dx.doi.org/10.1101/139923 2017-05-19 CC BY-NC-ND Systematic Analysis Of RNA-Seq-Based Gene Co-Expression Across Multiple Plants Hua Yu|Bingke Jiao|Chengzhi Liang Institute of Genetic and Developmental Biology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/139998 2017-05-19 Molecular Biology ALPK1 And TIFA Dependent Innate Immune Response Triggered By The Helicobacter Pylori Type IV Secretion System Stephanie Zimmermann|Lennart Pfannkuch|Munir Al-Zeer|Sina Bartfeld|Manuel Koch|Jianping Liu|Cindy Rechner|Meike Soerensen|Olga Sokolova|Alla Zamyatina|Paul Kosma|Andre P. Maeurer|Frithjof Glowinski|Klaus-Peter Pleissner|Monika Schmid|Volker Brinkmann|Michael Naumann|Marion Rother|Nikolaus Machuy|Thomas F. Meyer Max-Planck Institute for Infection Biology;|Otto von Guericke University Magdeburg;|University of Natural Resources and Life Sciences-Vienna;|Steinbeis Innovation
http://dx.doi.org/10.1101/139907 2017-05-19 Cell Biology CC BY-NC NQO1 Binds And Supports SIRT1 Function Peter Tsvetkov|Julia Adler|Yaarit Adamovich|Gad Asher|Nina Reuven|Yosef Shaul Whitehead Institute;|Weizmann Institute
http://dx.doi.org/10.1101/139600 2017-05-19 Molecular Biology CC BY-NC-ND A CRISPR-Based Yeast Two-Hybrid System For Investigating RNA-Protein Interactions Evan P. Hass|David C. Zappulla Johns Hopkins University
http://dx.doi.org/10.1101/139121 2017-05-19 Systems Biology CC BY-NC Expanding The Computable Reactome In Pseudomonas putida Reveals Metabolic Cycles Providing Robustness Juan Nogales|Steinn Gudmundsson|Estrella Duque|Juan Luis Ramos|Bernhard O. Palsson CNB-CSIC;|University of Iceland;|Abengoa Research;|UCSD
http://dx.doi.org/10.1101/139980 2017-05-19 Plant Biology CC BY CRootBox: A Structural-Functional Modelling Framework For Root Systems Andrea Schnepf|Daniel Leitner|Magdalena Landl|Guillaume Lobet|Trung Hieu Mai|Shehan Morandage|Cheng Sheng|Mirjam Zoerner|Jan Vanderborght|Harry Vereecken Forschungszentrum Juelich GmbH;|Simulationswerkstatt
http://dx.doi.org/10.1101/140046 2017-05-19 Microbiology CC BY Functional Role Of Lanthanides In Enzymatic Activity And Transcriptional Regulation Of PQQ-Dependent Alcohol Dehydrogenases In Pseudomonas putida KT2440 Matthias Wehrmann|Patrick Billard|Audrey Martin Meriadec|Asfaw Zegeye|Janosch Klebensberger University of Stuttgart, Institute of Technical Biochemistry;|Université de Lorraine, LIEC - CNRS UMR7360
http://dx.doi.org/10.1101/139972 2017-05-19 CC BY-NC Telomerecat: A Ploidy-Agnostic Method For Estimating Telomere Length From Whole Genome Sequencing Data James HR Farmery|Mike L Smith|Andy G Lynch Cambridge University;|EMBL
http://dx.doi.org/10.1101/140202 2017-05-19 CC BY-NC Ccr4 And Pop2 Control Poly(A) Tail Length In Saccharomyces cerevisiae Vidya Balagopal|Mohan Bolisetty|Najwa Al Husaini|Jeff Coller|Brenton R. Graveley UConn Health;|Case Western Reserve University
http://dx.doi.org/10.1101/140251 2017-05-19 CC BY A Theta Band Network Involving Prefrontal Cortex Unique To Human Episodic Memory James J. Young|Peter H. Rudebeck|Lara V. Marcuse|Madeline C. Fields|Ji Yeoun Yoo|Fedor Panov|Saadi Ghatan|Arash Fazl|Sarah Mandelbaum|Mark G. Baxter Icahn School of Medicine at Mount Sinai;|NYU School of Medicine
http://dx.doi.org/10.1101/140210 2017-05-19 CC BY-NC-ND CRISPR/Cas9 Mutation Of A Gonad-Expressed Opsin Prevents Jellyfish Light-Induced Spawning Gonzalo Quiroga Artigas|Pascal Lapebie|Lucas Leclere|Noriyo Takeda|Ryusaku Deguchi|Gaspar Jekely|Tsuyoshi Momose|Evelyn Houliston UPMC Univ. Paris 06, CNRS;|Tohoku University;|Miyagi University of Education;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/140293 2017-05-19 mTORC2/AKT/HSF1/HuR Constitute A Feed-Forward Loop Regulating Rictor Expression And Tumor Growth In Glioblastoma Brent Holmes|Angelica Benavides-Serrato|Ryan S. Freeman|Kenna A. Landon|Tariq Bashir|Robert N. Nishimura|Joseph Gera Greater Los Angeles VA Healthcare System, UCLA SOM;|Greater Los Angeles VA Healthcare System
http://dx.doi.org/10.1101/140392 2017-05-19 CC BY-NC-ND Cooperative Accumulation Of Dynein-Dynactin At Microtubule Minus-Ends Drives Microtubule Network Reorganization Ruensern Tan|Peter J. Foster|Daniel J. Needleman|Richard J. McKenney University of California - Davis;|Harvard University
http://dx.doi.org/10.1101/140277 2017-05-19 CC BY Daam2 Driven Degradation Of VHL Promotes Gliomagenesis Wenyi Zhu|Saritha Krishna|Cristina Garcia|Chia-Ching John Lin|Ken L. Scott|Carrie Mohila|Chad Creighton|Seung-Hee Yoo|Hyun Kyoung Lee|Benjamin Deneen Baylor College of Medicine;|Texas Children's Hospital;|University of Texas Health Science Houston
http://dx.doi.org/10.1101/140269 2017-05-19 An Inference Approach Combines Spatial And Temporal Gene Expression Data To Predict Gene Regulatory Networks In Arabidopsis Stem Cells Maria Angels de Luis Balaguer|Adam P. Fisher|Natalie M. Clark|Maria Guadalupe Fernandez-Espinosa|Barbara Moller|Dolf Weijers|Jan U. Lohmann|Cranos Williams|Oscar Lorenzo|Rosangela Sozzani North Carolina State University;|Universidad de Salamanca;|Wageningen University;|University of Heidelberg
http://dx.doi.org/10.1101/140319 2017-05-19 TDG Regulates Cell Cycle Progression In Human Neural Progenitors Igal Germanguz|Jenny Park|Jessica Cinkornpumin|Areyh Soloman|Minori Ohashi|William E. Lowry UCLA
http://dx.doi.org/10.1101/140236 2017-05-19 Bioinformatics CC BY-NC-ND Interactive Phenotyping Of Large-Scale Histology Imaging Data With HistomicsML Michael Nalisnik|Mohamed Amgad|Sanghoon Lee|Sameer H. Halani|Jose Velazquez Vega|Daniel J. Brat|David A. Gutman|Lee A. D. Cooper Emory University
http://dx.doi.org/10.1101/140194 2017-05-19 Microbiology CC BY-NC-ND The Resistome Of Important Human Pathogens Christian Munck|Mostafa Ellabaan|Michael Schantz Klausen|Morten O. A. Sommer The Novo Nordisk Foundation Center for Biosustainability
http://dx.doi.org/10.1101/140178 2017-05-19 Neuroscience In Vivo Phenotyping Of Parkinson-Specific Stem Cells Reveals Increased a-Synuclein Levels But No Spreading Kathrin Hemmer|Lisa M. Smits|Silvia Bolognin|Jens C. Schwamborn Luxembourg Centre for Systems Biomedicine (LCSB), University of Luxembourg
http://dx.doi.org/10.1101/140053 2017-05-19 Biophysics CC BY Control Of AMPA Receptor Activity By The Extracellular Loops Of Auxiliary Proteins Irene Riva|Clarissa Eibl|Rudolf Volkmer|Anna L. Carbone|Andrew Plested FMP-Berlin;|FMP Berlin
http://dx.doi.org/10.1101/140160 2017-05-19 Developmental Biology CC BY-NC-ND Jellyfish Oocyte Maturation Inducing Hormone And Neuroendocrine Regulation Of Reproduction Noriyo Takeda|Yota Kon|Gonzalo Quiroga Artigas|Pascal Lapebie|Carine Barreau|Osamu Koizumi|Takeo Kishimoto|Kazunori Tachibana|Evelyn Houliston|Ryusaku Deguchi Tohoku University;|Miyagi University of Education;|UPMC Univ Paris 06, CNRS;|Fukuoka Womens University;|Tokyo Institute of Technology
http://dx.doi.org/10.1101/140145 2017-05-19 Biochemistry CC BY Oligomeric States In Sodium Ion-Dependent Regulation Of Cyanobacterial Histidine Kinase-2 Iskander M. Ibrahim|Liang Wang|Sujith Puthiyaveetil|Norbert Krau|Jon Nield|John Frederick Allen Purdue University;|Queen Mary University of London;|Karlsruher Institut fur Technologie;|University College London
http://dx.doi.org/10.1101/139303 2017-05-19 Plant Biology CC BY-NC-ND Morphometrics Reveals Complex And Heritable Apple Leaf Shapes Zoe Migicovsky|Mao Li|Daniel H. Chitwood|Sean Myles Dalhousie University;|Donald Danforth Plant Science Center;|Independent researcher
http://dx.doi.org/10.1101/140095 2017-05-19 Synthetic Biology CC BY-ND Mobius Assembly: A Versatile Framework For Golden Gate Assembly Andreas I. Andreou|Naomi Nakayama University of Edinburgh
http://dx.doi.org/10.1101/139170 2017-05-19 Scientific Communication and Education CC BY-NC-ND Cooperation And Liaison Between Universities And Editors (CLUE): Recommendations On Best Practice Elizabeth Wager|Sabine Kleinert|Michele Garfinkel|Volker Bahr|Ksenija Bazdaric|Michael Farthing|Chris Graf|Zoe Hammatt|Lyn Horn|Susan King|Debra Parrish|Bernd Pulverer|Paul Taylor|Gerrit van Meer Sideview;|The Lancet;|EMBO;|Charite;|University of Rijeka;|University of Sussex;|Wiley;|Office of Research Integrity;|Stellenbosch University;|Rockefeller University Press;|Parrish Law Offices;|EMBO Journal;|RMIT University;|University of Utrecht
http://dx.doi.org/10.1101/139253 2017-05-19 Epidemiology CC BY-NC-ND Could The Recent Zika Epidemic Have Been Predicted? Angel G. Munoz|Madeleine C. Thomson|Anna M. Stewart-Ibarra|Gabriel A. Vecchi|Xandre Chourio|Patricia Najera|Zelda Moran|Xiaosong Yang Princeton University;|IRI - Columbia University;|SUNY - Upstate Medical University;|OLE2/CMC - Universidad del Zulia;|PAHO/WHO;|Columbia University;|Geophysical Fluid Dynamics (GFDL). Princeton University
http://dx.doi.org/10.1101/139014 2017-05-19 Clinical Trials CC BY-NC Community-Led Research Discovers Links Between Elusive Symptoms And Clinical Tests Irene S. Gabashvili MeBO Research, Aurametrix
http://dx.doi.org/10.1101/140004 2017-05-19 Epidemiology Side Effects And The Need For Secrecy: Characterising Discontinuation Of Modern Contraception And Its Causes In Ethiopia Using Mixed Methods Alexandra Alvergne|Rose Stevens|Eshetu Gurmu University of Oxford;|University of Addis Ababa
http://dx.doi.org/10.1101/139154 2017-05-19 Epidemiology CC BY-NC-ND Enhancing Ebola Virus Disease Surveillance And Prevention In Counties Without Confirmed Cases In Rural Liberia: Experiences From Sinoe County During The Flare-Up In Monrovia, April To June, 2016 Vera Darling Weah|John S. Doedeh|Samson Q. Wiah|Emmanuel Nyema|Siafa Lombeh|Jeremias Naiene Ministry of Health and Social Welfare;|World Health Organization, Liberia
http://dx.doi.org/10.1101/139402 2017-05-19 Epidemiology Thoracolumbar Intervertebral Disc Area Morphometry In Elderly Chinese Men And Women: Radiographic Quantifications At Baseline And Changes At Year-4 Follow-Up Jun-Qing Wang|Zoltan Kaplar|James F. Griffith|Min Deng|Jason C. S. Leung|Anthony W. L. Kwok|Timothy Kwok|Ping Chung Leung|Yi-Xiang Wang The Chinese University of Hong Kong
http://dx.doi.org/10.1101/137687 2017-05-19 Epidemiology CC BY-NC-ND Reproductive Period, Endogenous Estrogen Exposure And Dementia Incidence Among Women In Latin America And China; A 10/66 Population-Based Cohort Study Martin James Prince|Daisy Acosta|Mariella Guerra|Yueqin Huang|Ivonne Z. Jimenez-Velazquez|Juan J. Llibre Rodriguez|Aquiles Salas|Ana Luisa Sosa|Kia-Chong Chua|Michael E. Dewey|Zhaorui Liu|Rosie Mayston|Adolfo Valhuerdi King's College London, Institute of Psychiatry, Psychology and Neuroscience;|Universidad Nacional Pedro Henriquez Urena (UNPHU), Santo Domingo, Dominican Republic;|Instituto de la Memoria y Desordenes Relacionados, Lima, Peru;|Peking University, Institute of Mental Health. Beijing, China;|School of Medicine, Medical Sciences Campus, University of Puerto Rico, San Juan;|Facultad de Medicina Finley-Albarran, Medical University of Havana, Havana, Cuba;|Faculty of Medicine, Universidad Central de Venezuela, Caracas, Venezuela;|National Institute of Neurology and Neurosurgery of Mexico, Mexico City, Mexico;|Medical University of Matanzas, Matanzas, Cuba
http://dx.doi.org/10.1101/139956 2017-05-19 Neuroscience CC BY Simultaneous Activation Of Parallel Sensory Pathways Promotes A Grooming Sequence In Drosophila Stefanie Hampel|Claire E. McKellar|Julie H. Simpson|Andrew M. Seeds University of Puerto Rico Medical Sciences Campus;|Howard Hughes Medical Institute;|University of California Santa Barbara
http://dx.doi.org/10.1101/140384 2017-05-20 Neuroscience CC BY-NC-ND A robust dissociation among the language, multiple demand, and default mode networks: evidence from inter-region correlations in effect size Zachary Allan Mineroff|Idan Blank|Kyle Mahowald|Evelina Fedorenko Massachusetts Institute of Technology;|Harvard Medical School / Massachusetts General Hospital
http://dx.doi.org/10.1101/140137 2017-05-20 Bioengineering Investigating The Functional Consequence Of White Matter Damage: An Automatic Pipeline To Create Longitudinal Disconnection Tractograms Kesshi Marin Jordan|Anisha Keshavan|Eduardo Caverzasi|Joseph Osorio|Nico Papinutto|Bagrat Amirbekian|Mitchel S. Berger|Roland G. Henry University of California, San Francisco
http://dx.doi.org/10.1101/140368 2017-05-20 Neuroscience CC BY-NC-ND Oscillatory Default Mode Network Coupling In Concussion Benjamin T. Dunkley|Karolina Urban|Leodante Da Costa|Simeon Wong|Elizabeth W. Pang|Margot J. Taylor Hospital for Sick Children;|Holland-Bloorview Hospital;|Sunnybrook Hospital
http://dx.doi.org/10.1101/129783 2017-05-20 Neuroscience CC BY-NC-ND Ophiuroid Phylotranscriptomics Enables Discovery Of Novel Echinoderm Representatives Of Bilaterian Neuropeptide Families And Reconstruction Of Neuropeptide Precursor Evolution Over ~270 Million Years Meet Zandawala|Ismail Moghul|Luis Alfonso Yanez Guerra|Jerome Delroisse|Nikara Abylkassimova|Andrew F. Hugall|Timothy D. O'Hara|Maurice R. Elphick Stockholm University;|Queen Mary University of London;|Museums Victoria
http://dx.doi.org/10.1101/140343 2017-05-20 Neuroscience Consequences Of NMDA Receptor Deficiency Can Be Rescued In The Adult Brain Catharine A. Mielnik|Yuxiao Chen|Mary A. Binko|Rehnuma Islam|Marija Milenkovic|Wendy Horsfall|Ali Salahpour|Evelyn K. Lambe|Amy Ramsey University of Toronto
http://dx.doi.org/10.1101/140418 2017-05-20 Bioengineering CC BY-NC Aberration-corrected high-NA open-top selective-plane illumination microscopy for biological imaging Ryan McGorty|Dan Xie|Bo Huang University of San Diego;|University of California, San Francisco
http://dx.doi.org/10.1101/140228 2017-05-20 Scientific Communication and Education CC BY Transparency In Authors' Contributions And Responsibilities To Promote Integrity In Scientific Publication Marcia McNutt|Monica Bradford|Jeffrey Drazen|R. Brooks Hanson|Bob Howard|Kathleen Hall Jamieson|Veronique Kiermer|Michael Magoulias|Emilie Marcus|Barbara Kline Pope|Randy Schekman|Sowmya Swaminathan|Peter Stang|Inder Verma National Academy of Sciences;|Science Journals;|New England Journal of Medicine;|American Geophysical Union;|SAGE Publishing;|University of Pennsylvania;|PLOS (Public Library of Science);|University of Chicago Press;|Cell Press;|National Academies of Sciences, Engineering, and Medicine;|eLife Sciences Publications;|Nature Research;|Journal of the American Chemical Society;|Proceedings of the National Academy of Sciences of the United States of America
http://dx.doi.org/10.1101/140467 2017-05-20 CC BY Assigning Function To Natural Allelic Variation Via Dynamic Modeling Of Gene Network Induction Magali Richard|Florent Chuffart|Helene Duplus-Bottin|Fanny Pouyet|Martin Spichty|Etienne Fulcrand|Marianne Entrevan|Audrey Barthelaix|Michael Springer|Daniel Jost|Gael Yvert Univ Grenoble Alpes, CNRS, TIMC-IMAG, F38000 Grenoble, France;|Laboratoire de Biologie et de Modélisation de la Cellule;|Department of Systems Biology, Harvard Medical School, Boston, MA 02115, USA
http://dx.doi.org/10.1101/140483 2017-05-20 CC BY-NC-ND Reported Drosophila Courtship Song Rhythms Remain Data Analysis Artifacts David Stern|Jan Clemens|Philip Coen|Adam Calhoun|John Hogenesch|Ben Arthur|Mala Murthy Janelia Research Campus, HHMI;|Princeton University;|University College London;|Cincinnati Childrens Hospital Medical Center
http://dx.doi.org/10.1101/140475 2017-05-20 CC BY-NC-ND Cancer Genome Interpreter Annotates The Biological And Clinical Relevance Of Tumor Alterations David Tamborero|Carlota Rubio-Perez|Jordi Deu-Pons|Michael P. Schroeder|Ana Vivancos|Ana Rovira|Ignasi Tusquets|Joan Albanell|Jordi Rodon|Josep Tabernero|Carmen de Torres|Rodrigo Dienstmann|Abel Gonzalez-Perez|Nuria Lopez-Bigas Institute for Research in Biomedicine (IRB Barcelona) and Pompeu Fabra University;|Charite Universitatsmedizin Berlin, Germany;|Vall d'Hebron Institute of Oncology;|Hospital del Mar Medical Research Institute (IMIM);|Institut de Recerca Pediatrica - Hospital Sant Joan de Deu de Barcelona
http://dx.doi.org/10.1101/140509 2017-05-21 Microbiology CC BY In Vivo Host-Pathogen Interaction As Revealed By Global Proteomic Profiling Of Zebrafish Larvae Francisco Diaz-Pascual|Javiera Ortiz-Severin|Macarena A. Varas|Miguel L. Allende|Francisco P. Chavez University of Chile
http://dx.doi.org/10.1101/140517 2017-05-21 Plant Biology CC BY-NC Badnaviruses Of Sweetpotato: Symptomless Co-Inhabitants On A Global Scale Jan Kreuze|Ana Perez|Marco Galvez|Wilmer J. Cuellar International Potato Center
http://dx.doi.org/10.1101/140673 2017-05-22 CC BY-NC-ND Identification Of A Native Novel Oncolytic Immunoglobulin On Exfoliated Colon Epithelial Cells: A Bispecific Heterodimeric Chimera Of IgA/IgG George P. Albaugh|Sudhir K. Dutta|Vasantha Iyengar|Samina Shami|Althaf Lohani|Eduardo Sainz|George Kessie|Prasanna Nair|Sara Lagerholm|Alka Kamra|J-H Joshua Chen|Shilpa Kalavapudi|Robert L. Shores|Laila Phillips|Ram Nair|Padmanabhan P. Nair U.S. Department of Agriculture, Agricultural Research Service;|LifeBridge Health, Sinai Hospital of Baltimore;|Kaiser Permanente;|National Institutes of Health, National Institute of Aging;|National Institutes of Health;|NonInvasive Technologies LLC;|University of Maryland School of Medicine, Department of Pediatrics;|Lawrence University;|Imclone Inc.;|Emergent Biosolutions Inc.;|Novartis Inc.;|Lifebridge Health, Sinai Hospital of Baltimore
http://dx.doi.org/10.1101/140590 2017-05-22 Genomics CC BY-NC-ND Genetic Overlap Of Depression With Cardiometabolic Diseases And Implications For Drug Repurposing For Comorbidities Brian Chi-Fung Wong|Carlos Kwan-Long Chau|Hon-Cheong So Chinese University of Hong Kong
http://dx.doi.org/10.1101/140426 2017-05-22 Genetics CC BY-NC-ND Promoter Or Enhancer Activation By CRISPRa Rescues Haploinsufficiency Caused Obesity Navneet Matharu|Sawitree Rattanasopha|Lenka Maliskova|Yi Wang|Aaron Hardin|Christian Vaisse|Nadav Ahituv UCSF;|University of California San Francisco
http://dx.doi.org/10.1101/139428 2017-05-22 Genetics Identity-By-Descent Refines Mapping Of Candidate Regions For Preaxial Polydactyly In A Large Chinese Pedigree Xingyan Yang|Quankuan Shen|Xierzhatijiang Sulaiman|Hequn Liu|Minsheng Peng|Yaping Zhang State Key Laboratory for Conservation and Utilization of Bio-resources in Yunnan;|Kunming College of Life Science, University of Chinese Academy of Sciences;|Basic Medical College, Xinjiang Medical University;|State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology
http://dx.doi.org/10.1101/140731 2017-05-22 Evolutionary Biology CC BY Re-Evaluating Evolution In The HIV Reservoir Daniel I. S. Rosenbloom|Alison L. Hill|Sarah B. Laskey|Robert F. Siliciano Columbia University;|Harvard University;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/140442 2017-05-22 Evolutionary Biology CC BY-NC-ND Diet And Life Stage Associated Remodeling Of Lipid Metabolism Regulation In The Duplicated Atlantic Salmon Genome Gareth Gillard|Thomas N. Harvey|Arne Gjuvsland|Yang Jin|Magny Thomassen|Sigbjorn Lien|Michael Leaver|Jacob S. Torgersen|Torgeir R. Hvidsten|Jon Olav Vik|Simen R. Sandve Norwegian University of Life Sciences;|Norwegian University of Science and Technology;|AquaGen AS
http://dx.doi.org/10.1101/133652 2017-05-22 Bioinformatics CC BY SNaReSim: Synthetic Nanopore Read Simulator Philippe Faucon|Parithi Balachandran|Sharon Crook Arizona State University
http://dx.doi.org/10.1101/140574 2017-05-22 Developmental Biology CC BY-ND Recapitulating Early Development Of Mouse Musculoskeletal Precursors Of The Paraxial Mesoderm In Vitro Jerome Chal|Ziad Al Tanoury|Masayuki Oginuma|Philippe Moncuquet|Benedicte Gobert|Ayako Miyanari|Olivier Tassy|Getzabel Guevara|Agata Bera|Olga Sumara|Jean-Marie Garnier|Leif Kennedy|Marie Knockaert|Barbara Gayraud-Morel|Shahragim Tajbakhsh|Olivier Pourquie Brigham and Women's Hospital;|IGBMC;|Anagenesis Biotechnologies;|Institut Pasteur
http://dx.doi.org/10.1101/140533 2017-05-22 Neuroscience CC BY-NC Exact Topological Inference For Paired Brain Networks Via Persistent Homology Moo K. Chung|Victoria Villalta-Gil|Hyekyoung Lee|Paul J. Rathouz|Benjamin B. Lahey|David H. Zald University of Wisconsin-Madison;|Vanderbilt University;|Seoul National University;|University of Chicago
http://dx.doi.org/10.1101/140830 2017-05-22 Alterations In Striato-Pallidal Intrinsic Functional Connectivity As A Prodrome Of Parkinson's Disease Eran Dayan|Nina Browner University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/141010 2017-05-22 CC BY Inferring Functional Neural Connectivity With Deep Residual Convolutional Networks Timothy Dunn|Peter K. Koo Harvard University
http://dx.doi.org/10.1101/140012 2017-05-22 Dissecting HIV Virulence: Heritability Of Setpoint Viral Load, CD4+ T Cell Decline And Per-Parasite Pathogenicity Frederic Bertels|Alex Marzel|Gabriel Leventhal|Venelin Mitov|Jacques Fellay|Huldrych F. Gunthard|Jurg Boni|Sabine Yerly|Thomas Klimkait|Vincent Aubert|Manuel Battegay|Andri Rauch|Matthias Cavassini|Alexandra Calmy|Enos Bernasconi|Patrick Schmid|Alexandra Scherrer|Viktor Muller|Sebastian Bonhoeffer|Roger Kouyos|Roland R. Regoes ETH Zurich;|University Hospital Zurich;|Ecole Polytechnique Federale de Lausanne;|University of Zurich;|Geneva University Hospital;|University of Basel;|University Hospital Lausanne;|University Hospital Basel;|Berne University Hospital and University of Berne;|Regional Hospital Lugano;|Cantonal Hospital St Gallen;|Eotvos Lorand University
http://dx.doi.org/10.1101/141036 2017-05-22 CC BY FiberNET: An ensemble deep learning framework for clustering white matter fibers Vikash Gupta|Sophia I Thomopoulos|Faisal M Rashid|Paul M Thompson University of Southern California
http://dx.doi.org/10.1101/140699 2017-05-22 CC BY-ND Automated Structural Variant Verification In Human Genomes Using Single-Molecule Electronic DNA Mapping Michael D. Kaiser|Jennifer R. Davis|Boris S. Grinberg|John S. Oliver|Jay M. Sage|Leah Seward|Barrett Bready Nabsys 2.0
http://dx.doi.org/10.1101/140848 2017-05-22 Single-Cell RNA-Seq Of Rheumatoid Arthritis Synovial Tissue Using Low Cost Microfluidic Instrumentation William Stephenson|Laura T. Donlin|Andrew Butler|Cristina Rozo|Ali Rashidfarrokhi|Susan M. Goodman|Lionel B. Ivashkiv|Vivian P. Bykerk|Dana E. Orange|Robert B. Darnell|Harold P. Swerdlow|Rahul Satija New York Genome Center;|Hospital for Special Surgery
http://dx.doi.org/10.1101/139386 2017-05-22 Mapping The Malaria Parasite Drug-Able Genome Using In Vitro Evolution And Chemogenomics Annie N. Cowell|Eva S. Istvan|Amanda K. Lukens|Maria G. Gomez-Lorenzo|Manu Vanaerschot|Tomoyo Sakata-Kato|Erika L. Flannery|Pamela Magistrado|Matthew Abraham|Gregory M. Lamonte|Roy M. Williams|Virginia Franco|Ignacio Arriago|Maria Linares|Selina Bopp|Victoria Corey|Nina F. Gnadig|Olivia Coburn-Flynn|Christin Reimer|Purva Gupta|James M. Murithi|Olivia Fuchs|Erika Sasaki|Sang W. Kim|Christine Teng|Lawrence T. Wang|Paul Willis|Dionicio Siegel|Olga Tanaseichuk|Yang Zhong|Yingyao Zhou|Sabine Otillie|Francisco-Javier Gamo|Marcus C. S. Lee|Daniel E. Goldberg|David A. Fidock|Dyann F. Wirth|Elizabeth A. Winzeler University of California, San Diego;|Washington University School of Medicine;|Harvard T.H. Chan School of Public Health; The Broad Institute;|GlaxoSmithKline;|Columbia University College of Physicians and Surgeons;|Harvard T.H. Chan School of Public Health;|Medicines for Malaria Venture;|The Genomics Institute of the Novartis Research Foundation;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/140913 2017-05-22 CC BY-NC-ND Single-Cell Reprogramming Of Mouse Embryo Development Through A Critical Transition State Masa Tsuchiya|Alessandro Giuliani|Kenichi Yoshikawa Keio University;|Istituto Superiore di Sanita;|Doshisha University
http://dx.doi.org/10.1101/141002 2017-05-22 CC BY-NC-ND A Duplication Lost In Sugarcane Hybrids Revealed By Chloroplast Genome Assembly Of Wild Species Saccharum officinarum Deise Paes|Filipe P. Matteoli|Thiago M. Venancio|Paulo C. G. Ferreira|Clicia Grativol Universidade Estadual do Norte Fluminense;|Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/140921 2017-05-22 Framework For Quality Assessment Of Whole Genome, Cancer Sequences Justin P. Whalley|Ivo Buchhalter|Esther Rheinbay|Keiran M. Raine|Kortine Kleinheinz|Miranda D. Stobbe|Johannes Werner|Sergi Beltran|Marta Gut|Daniel Huebschmann|Barbara Hutter|Dimitri Livitz|Marc Perry|Mara Rosenberg|Gordon Saksena|Jean-Remi Trotta|Roland Eils|Jan Korbel|Daniela S. Gerhard|Peter Campbell|Gad Getz|Matthias Schlesner|Ivo G. Gut CNAG-CRG;|German Cancer Research Center (DKFZ);|Broad Institute;|Wellcome Trust Sanger Institute;|Ontario Institute for Cancer Research;|European Molecular Biology Laboratory;|National Cancer Institute
http://dx.doi.org/10.1101/140954 2017-05-22 CC BY-ND An Amino Acid Motif In HLA-DRB1 Distinguishes Patients With Uveitis In Juvenile Idiopathic Arthritis Annemieke J. W. Haasnoot|Marco W. Schilham|Sylvia S. M. Kamphuis|Petra C. E. Hissink Muller|Arnd Heiligenhaus|Dirk Foll|Roel A. Ophoff|Kirsten Minden|Timothy R. D. J. Radstake|Anneke I. Den Hollander|Tjitske H. C. M. Reinards|Sanne Hiddingh|Nicoline Schalij-Delfos|Esther P. A. H. Hoppenreijs|Marion A. J. van Rossum|Carine Wouters|Rotraud K. Saurenmann|Nico Wulffraat|Rebecca ten Cate|Joke H. de Boer|Sara L. Pulit|Jonas J. W. Kuiper University Medical Center Utrecht, Utrecht, The Netherlands;|Leiden University Medical Center, Leiden, The Netherlands;|Erasmus MC Sophia Children's Hospital, Rotterdam, The Netherlands;|University of Duisburg, Essen, Germany;|University of Muenster, Germany;|University of California Los Angeles and University Medical Center Utrecht, The Netherlands;|Charite Universitatsmedizin, Berlin, Germany;|Radboud University Medical Center, Nijmegen, The Netherlands;|University Medical Center Utrecht. Utrecht, The Netherlands;|Radboud University Nijmegen Medical Center, Nijmegen, The Netherlands;|Jan van Breemen Institute, Amsterdam, The Netherlands;|University Hospital Leuven, Belgium;|University Children's Hospital, Zurich, Switzerland
http://dx.doi.org/10.1101/104760 2017-05-22 Evolutionary Biology CC BY-NC-ND Double Maternal Effect: Duplicated Nucleoplasmin 2 Genes, npm2a And npm2b, Are Shared By Fish And Tetrapods, And Have Distinct And Essential Roles In Early Embryogenesis Caroline T. Cheung|Jeremy Pasquier|Aurelien Bouleau|Thao-Vi Nguyen|Franck Chesnel|Yann Guiguen|Julien Bobe INRA;|CNRS
http://dx.doi.org/10.1101/140905 2017-05-22 Neuroscience CC BY-NC A Complete Electron Microscopy Volume Of The Brain Of Adult Drosophila melanogaster Zhihao Zheng|J. Scott Lauritzen|Eric Perlman|Camenzind G. Robinson|Matthew Nichols|Daniel Milkie|Omar Torrens|John Price|Corey B. Fisher|Nadiya Sharifi|Steven A. Calle-Schuler|Lucia Kmecova|Iqbal J. Ali|Bill Karsh|Eric T. Trautman|John Bogovic|Philipp Hanslovsky|Gregory S. X. E. Jefferis|Michael Kazhdan|Khaled Khairy|Stephan Saalfeld|Richard D. Fetter|Davi D. Bock Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA 20147;|Coleman Technologies, Inc., Newtown Square, PA 19073;|Hudson Price Designs, LLC, Hingham, MA 02043;|Division of Neurobiology, MRC Laboratory of Molecular Biology, Cambridge, CB2 0QH, UK;|Department of Computer Science, Johns Hopkins University, Baltimore, MD 21218
http://dx.doi.org/10.1101/140376 2017-05-22 Bioinformatics CC BY The Structure Of Small Beta Barrels Philippe Youkharibache|Stella Veretnik|Quingliang Li|Philip E. Bourne National Institutes of Health
http://dx.doi.org/10.1101/140806 2017-05-22 Molecular Biology CC BY-NC-ND Cloning, Molecular Evolution And Functional Characterization Of ZmbHLH16, The Maize Ortholog Of OsTIP2 (OsbHLH142) Yongming Liu|Jia Li|Gui Wei|Yonghao Sun|Yanli Lu|Hai Lan|Chuan Li|Suzhi Zhang|Moju Cao Maize Research Institute, Sichuan Agricultural University, Chengdu, China;|Tropical Crops Genetic Resources Inst., Chinese Academic of Tropical Agricultural Sciences;|National Key Lab of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan
http://dx.doi.org/10.1101/140459 2017-05-22 Neuroscience CC BY The Role Of Diffusion MRI In Neuroscience Yaniv Assaf|Heidi Johansen-Berg|Michel Thiebaut de Schotten Sagol School of Neuroscience, Tel Aviv University;|FMRIB Centre, Nuffield Department of Clinical Neurosciences, University of Oxford;|Institut du Cerveau et de la Moelle Epiniere
http://dx.doi.org/10.1101/140814 2017-05-22 Microbiology CC BY-NC-ND An RNA Virome Associated To The Golden Orb-Weaver Spider Nephila clavipes Humberto J. Debat IPAVE-CIAP-INTA
http://dx.doi.org/10.1101/140822 2017-05-22 Neuroscience Selective Inhibitory Control Of Pyramidal Neuron Ensembles And Cortical Subnetworks By Chandelier Cells Jiangteng Lu|Jason Tucciarone|Nancy Padilla-Coreano|Miao He|Joshua A. Gordon|Z. Josh Huang Cold Spring Harbor Laboratory;|Departments of Neuroscience and Psychiatry, Columbia University
http://dx.doi.org/10.1101/140665 2017-05-22 Plant Biology Influence Of Drought Stress On Alfalfa Yields And Nutritional Composition Liu Yinghao|Wu Qiang|Ge Gentu|Han Guodong|Jia Yushan Inner Mongolia Agricultural University
http://dx.doi.org/10.1101/140715 2017-05-22 Microbiology CC BY-NC Undocumented Potential For Primary Productivity In A Globally-Distributed Bacterial Photoautotroph Elaina Graham|John F. Heidelberg|Benjamin Tully University of Southern California
http://dx.doi.org/10.1101/140707 2017-05-22 Molecular Biology CC BY Using Large-Scale Mutagenesis To Guide Single Amino Acid Scanning Experiments Vanessa E. Gray|Ronald J. Hause|Douglas M. Fowler University of Washington
http://dx.doi.org/10.1101/140780 2017-05-22 Bioinformatics CC BY-NC Overtraining Often Results In Topologically Incorrect Species Trees With Maximum Likelihood Methods Damien M. de Vienne|Fran Supek|Toni Gabaldon Univ Lyon;|Institute for Research in Biomedicine (IRB);|Centre for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/140566 2017-05-22 Neuroscience Cebranopadol Blocks The Escalation Of Cocaine Intake And Conditioned Reinstatement Of Cocaine Seeking In Rats Giordano de Guglielmo|Alessandra Matzeu|Jenni Kononoff|Julia Mattioni|Remi Martin-Fardon|Olivier George The Scripps Research Institute
http://dx.doi.org/10.1101/140798 2017-05-22 Microbiology CC BY A Phylogenetic Method To Perform Genome-Wide Association Studies In Microbes That Accounts For Population Structure And Recombination Caitlin Collins|Xavier Didelot Imperial College London
http://dx.doi.org/10.1101/140764 2017-05-22 Genomics CC BY Distinct Core Promoter Codes Drive Transcription Initiation At Key Developmental Transitions In A Marine Chordate Gemma B. Danks|Pavla Navratilova|Boris Lenhard|Eric Thompson University of Bergen;|Imperial College London
http://dx.doi.org/10.1101/140087 2017-05-22 Systems Biology CC BY-ND A Systems-Level Framework For Drug Discovery Identifies Csf1R As A Novel Anti-Epileptic Drug Target Prashant K. Srivastava|Jonathan van Eyll|Patrice Godard|Manuela Mazzuferi|Benedicte Danis|Catherine Vandenplas|Patrik Foerch|Karine Leclercq|Georges Mairet-Coello|Frederic Vanclef|Kirill Shkura|Liisi Laaniste|Andree Delahaye-Duriez|Rafal M. Kaminski|Enrico Petretto|Michael R. Johnson Imperial College London;|UCB Pharma;|Clarivate Analytics;|PROTECT, INSERM;|DUKE-NUS
http://dx.doi.org/10.1101/140616 2017-05-22 Molecular Biology The Genetic Intractability Of Symbiodinium microadriaticum To Standard Algal Transformation Methods Jit Ern Chen|Guoxin Cui|Manuel Aranda Lastra King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/140657 2017-05-22 Evolutionary Biology Insuperable Problems Of The Genetic Code Initially Emerging In An RNA World Peter Wills|Charles Carter University of Auckland;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/140632 2017-05-22 Microbiology CC BY-NC-ND Development Of RNAseq Methodologies To Profile The In Vivo Transcriptome Of Bordetella pertussis During Murine Lung Infection Ting Wong|Jesse Hall|Dylan Boehm|Mariette Barbier|Fredrick H. Damron West Virginia University
http://dx.doi.org/10.1101/140681 2017-05-22 Molecular Biology Notes On Synthesis Of Perdeutero-5-13C,5,5,5-Trifluoroisoleucine VI David Naugler|Robert Scott Prosser University of Toronto;|University of Toronto, Mississauga
http://dx.doi.org/10.1101/140558 2017-05-22 Neuroscience CC BY-NC Correlated Individual Differences Suggest A Common Mechanism Underlying Metacognition In Visual Perception And Visual Short-Term Memory Jason Samaha|Bradley R. Postle University of Wisconsin-Madison
http://dx.doi.org/10.1101/141325 2017-05-23 CC BY-NC-ND Curve Selection For Predicting Breast Cancer Metastasis From Prospective Gene Expression In Blood Einar Holsb|Vittorio Perduca|Lars Ailo Bongo|Eiliv Lund|Etienne Birmele UiT Norges arktiske universitet;|Université Paris Descartes
http://dx.doi.org/10.1101/141267 2017-05-23 CC BY-NC Association Mapping From Sequencing Reads Using K-mers Atif Rahman|Ingileif Hallgrimsdottir|Michael B. Eisen|Lior Pachter University of California, Berkeley;|Amgen;|UC Berkeley
http://dx.doi.org/10.1101/141234 2017-05-23 Cell Biology High-content protein localization screening in vivo reveals novel regulators of multiciliated cell development and function Fan Tu|Jakub Sedzinski|Yun Ma|Edward Marcotte|John Wallingford UT, Austin;|Sun-Yat Sen Hospital
http://dx.doi.org/10.1101/139774 2017-05-23 Synthetic Biology CC BY-NC-ND Sequence Specific Modeling of E. coli Cell-Free Protein Synthesis Michael Vilkhovoy|Nicholas Horvath|Che-hsiao Shih|Joseph Wayman|Kara Calhoun|James Swartz|Jeffrey Varner Cornell University;|Purdue University;|Stanford University
http://dx.doi.org/10.1101/141077 2017-05-23 Ecology CC BY-NC-ND Defining Marine Microbial Biomes From Environmental And Dispersal Filtered Metapopulations Markus V. Lindh Lund University
http://dx.doi.org/10.1101/141192 2017-05-23 Neuroscience CC BY-NC-ND Multisite Generalizability Of Schizophrenia Diagnosis Classification Based On Functional Brain Connectivity Pierre Orban|Christian Dansereau|Laurence Desbois|Violaine Mongeau-Perusse|Charles-Edouard Giguere|Hien Nguyen|Adrianna Mendrek|Emmanuel Stip|Pierre Bellec Institut Universitaire en Santé Mentale de Montréal;|Computer Science Dept., University of Montreal;|School of Mathematics and Physics, University of Queensland, St. Lucia, Australia
http://dx.doi.org/10.1101/140970 2017-05-23 Biophysics CC BY-NC Molecular Dynamics Simulations Of Membrane Deformation Induced By The Amphiphilic Helices Of Epsin, Sar1p And Arf1 Zhen-Lu Li|Hong-Ming Ding Case Western Reserve Univeristy;|Suzhou University
http://dx.doi.org/10.1101/141275 2017-05-23 Developmental Biology Optic Fissure Margin Morphogenesis Sets The Stage For Consecutive Optic Fissure Fusion, Pioneered By A Distinct Subset Of Margin Cells Using A Hyaloid Vessel As Scaffold Priska Eckert|Lucas Schuetz|Joachim Wittbrodt|Stephan Heermann Dept. of Molec. Embryol., Inst. of Anatomy & Cell Biology, Faculty of Med., University Freiburg;|Centre for Organismal Studies, Heidelberg University, Heidelberg, 69120 Heidelberg, Germany
http://dx.doi.org/10.1101/141028 2017-05-23 Genetics CC BY SUMO E3 ligase Mms21 prevents spontaneous DNA damage induced genome rearrangements Huilin Zhou|Richard Kolodner|Christopher D Putnam|Jason Liang|Bin-zhong Li|Alexander P Tan Ludwig Institute for Cancer Research, UCSD, United States;|University of California, San Diego, United States
http://dx.doi.org/10.1101/141176 2017-05-23 Bioinformatics MATAM: Reconstruction Of Phylogenetic Marker Genes From Short Sequencing Reads In Metagenomes Pierre Pericard|Yoann Dufresne|Samuel Blanquart|Helene Touzet CRIStAL (UMR CNRS 9189, Universite Lille 1) and Inria Lille Nord-Europe;|Inria Lille Nord-Europe and CRIStAL (UMR CNRS 9189, Universite Lille 1)
http://dx.doi.org/10.1101/141184 2017-05-23 Neuroscience CC BY Open Hardware For Neuro-Prosthesis Research: A Study About A Closed-Loop Multi-Channel System For Electrical Surface Stimulations And Measurements David Rotermund|Udo A. Ernst|Klaus R. Pawelzik University of Bremen
http://dx.doi.org/10.1101/141150 2017-05-23 Cell Biology CC BY Postmitotic Nuclear Pore Assembly Proceeds By Radial Dilation Of Small ER Membrane Openings Shotaro Otsuka|Anna M. Steyer|Martin Schorb|Jean-Karim Heriche|M. Julius Hossain|Suruchi Sethi|Yannick Schwab|Martin Beck|Jan Ellenberg European Molecular Biology Laboratory
http://dx.doi.org/10.1101/141119 2017-05-23 Bioengineering CC BY Inducing Chondrogenesis In MSC/Chondrocyte Co-Cultures Using Exogenous TGF-β: A Mathematical Model Michael Chen|Jonathan Whiteley|Colin Please|Andrea Schwab|Franziska Ehlicke|Sarah Waters|Helen Byrne University of Oxford;|UK Wuerzburg
http://dx.doi.org/10.1101/141051 2017-05-23 Synthetic Biology CC BY-NC-ND Realizing “Integral Control” In Living Cells: How To Overcome Leaky Integration Due To Dilution? Yili Qian|Domitilla Del Vecchio Massachusetts Institute of Technology
http://dx.doi.org/10.1101/141069 2017-05-23 Neuroscience CC BY Revealing The Distribution Of Transmembrane Currents Along The Dendritic Tree Of A Neuron With Known Morphology From Extracellular Recordings Dorottya Cserpan|Domokos Meszena|Lucia Wittner|Kinga Toth|Istvan Ulbert|Zoltan Somogyvari|Daniel Wojcik Wigner Research Centre for Physics, Hungarian Academy of Sciences, Budapest, Hungary;|Institute of Cognitive Neuroscience & Psychology, Hungarian Academy of Sciences, Budapest;|Nencki Institute of Experimental Biology of Polish Academy of Sciences
http://dx.doi.org/10.1101/140871 2017-05-23 Synthetic Biology Dynamic blue light-inducible T7 RNA polymerases (Opto-T7RNAPs) for precise spatiotemporal gene expression control Armin Baumschlager|Stephanie Kiyomi Aoki|Mustafa Khammash ETH Zurich
http://dx.doi.org/10.1101/141093 2017-05-23 Neuroscience CC BY-NC Low-Level Carbon Monoxide Exposure Affects BOLD FMRI Caroline Bendell|Shakeeb H. Moosavi|Mari Herigstad Biological and Medical Sciences, Oxford Brookes University;|Academic Unit of Radiology, University of Sheffield
http://dx.doi.org/10.1101/139659 2017-05-23 Neuroscience CC BY-NC-ND Spatial organization of the mouse auditory cortex to sound dynamics revealed using automated image segmentation Ji Liu|Matthew R Whiteway|Daniel A Butts|Patrick O Kanold University of Maryland
http://dx.doi.org/10.1101/141143 2017-05-23 Immunology IGoR: A Tool For High-Throughput Immune Repertoire Analysis Quentin Marcou|Thierry Mora|Aleksandra M. Walczak Ecole Normale Superieure
http://dx.doi.org/10.1101/141085 2017-05-23 Ecology CC BY-NC-ND There And Back Again -- Unraveling Mechanisms Of Bacterial Biogeography In The North Pacific Subtropical Gyre To And From Station ALOHA Markus V. Lindh Lund University
http://dx.doi.org/10.1101/140129 2017-05-23 Epidemiology CC BY-NC-ND Leg Length, Skull Circumference, And The Incidence Of Dementia In Latin America And China; A 10/66 Population-Based Cohort Study Martin James Prince|Daisy Acosta|Mariella Guerra|Yueqin Huang|Ivonne Z. Jimenez-Velazquez|Juan J. Llibre Rodriguez|Aquiles Salas|Ana Luisa Sosa|Michael E. Dewey|Maelenn M. Guerchet|Zhaorui Liu|Jorge J. Llibre Guerra|Matthew A. Prina King's College London, Institute of Psychiatry, Psychology and Neuroscience;|Universidad Nacional Pedro Henriquez Urena (UNPHU), Santo Domingo, Dominican Republic;|Instituto de la Memoria y Desordenes Relacionados, Lima, Peru;|Peking University, Institute of Mental Health, Beijing, China;|School of Medicine, Medical Sciences Campus, University of Puerto Rico, San Juan;|Facultad de Medicina Finley-Albarran, Medical University of Havana, Cuba;|Faculty of Medicine, Universidad Central de Venezuela, Caracas, Venezuela;|National Institute of Neurology and Neurosurgery of Mexico, Mexico City, Mexico;|Institute of Neurology Dr. Rafael Estrada, Havana, Cuba
http://dx.doi.org/10.1101/141168 2017-05-23 Developmental Biology CC BY On growth and form of the distal air exchange surfaces within the lung. David Warburton|Clarence Wigfall|Harvey Pollack|David Koos|Denise Al Alam|Gianluca Turcatel|Wei Shi|Scott E Fraser|Rex Moats The Saban Research Institue, Children's Hospital Los Angeles;|The Saban Research Institute, Children's Hospital Los Angeles.;|TBIL, Children's Hospital Los Angeles;|The Saban Research Institute, Childrens Hospital Los Angeles;|The Saban Research Institute, Children's Hospital Los A;|The Saban Research Institute, Children's Hospital Los Angeles
http://dx.doi.org/10.1101/140772 2017-05-23 Developmental Biology A Dimensional Approach To Assessing Psychiatric Risk In Adults Born Very Preterm Jasmin Kroll|Sean Froudist-Walsh|Philip J. Brittain|Chieh-En Jane Tseng|Vyacheslav Karolis|Robin M. Murray|Chiara Nosarti Institute of Psychiatry, Psychology & Neuroscience
http://dx.doi.org/10.1101/141101 2017-05-23 Systems Biology CC BY MitoCore: A Curated Constraint-Based Model For Simulating Human Central Metabolism Anthony C. Smith|Filmon Eyassu|Jean-Pierre Mazat|Alan Robinson University of Cambridge;|University Bordeaux
http://dx.doi.org/10.1101/141200 2017-05-23 Genetics CC BY-NC Damaging Mutations are Associated with Diminished Motor Skills and IQ in Children on the Autism Spectrum Andreas Buja|Natalia Volfovsky|Abba Krieger|Catherine Lord|Alex Lash|Michael Wigler|Ivan Iossifov University of Pennsylvania;|Simons Foundation;|Weill Cornell Medicine;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/140608 2017-05-23 Neuroscience Loss Of lrrk2 Impairs Cell Proliferation And Neuronal Regeneration In The Zebrafish Brain Stefano Suzzi|Reiner Ahrendt|Stefan Hans|Svetlana A. Semenova|Saygin Bilican|Shady Sayed|Sylke Winkler|Sandra Spiess|Jan Kaslin|Pertti Panula|Michael Brand Biotechnology Center and Center for Regenerative Therapies Technische Universitaet Dresden;|Neuroscience Center, Institute of Biomedicine/Anatomy, University of Helsinki, Finland;|Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG), Dresden, Germany
http://dx.doi.org/10.1101/141747 2017-05-24 CC BY-NC Genome-wide sequence and expression analysis of the NAC transcription factor family in polyploid wheat Philippa Borrill|Sophie A Harrington|Cristobal Uauy John Innes Centre, Norwich Research Park, NR4 7UH, UK
http://dx.doi.org/10.1101/141283 2017-05-24 Neuroscience CC BY-ND Inferential Pitfalls In Decoding Neural Representations Vencislav Popov|Markus Ostarek|Caitlin Tenison Carnegie Mellon University;|Max Planck Institute for Psycholinguistics
http://dx.doi.org/10.1101/141705 2017-05-24 Plant Biology CC BY-NC-ND The Peach RGF/GLV Signalling Peptide pCTG134 Is Involved In A Regulatory Circuit That Sustains Auxin And Ethylene Actions Nicola Busatto|Umberto Salvagnin|Francesca Resentini|Silvia Quaresimin|Lorella Navazio|Oriano Marin|Maria Pellegrini|Fabrizio Costa|Dale F. Mierke|Livio Trainotti Department of Biology, University of Padova, Viale G. Colombo 3, I-35131 Padova, Italy;|Dept. of Biomedical Sciences, University of Padova, Viale G. Colombo 3, I-35131 Padova, Italy;|Chemistry Department, Dartmouth College, 03755 Hanover, NH, United States of America;|Research and Innovation Centre, Fondazione Edmund Mach
http://dx.doi.org/10.1101/141606 2017-05-24 Ecology CC BY-ND Genome-Wide SNP Discovery In Field And Laboratory Colonies Of Australian Plutella Species Kym D. Perry|Stephen M. Pederson|Simon W. Baxter The University of Adelaide
http://dx.doi.org/10.1101/141317 2017-05-24 Evolutionary Biology CC BY-NC-ND General Environmental Heterogeneity As The Explanation Of Sexuality? Comparative Study Shows That Ancient Asexual Taxa Are Associated With Both Biotically And Abiotically Homogeneous Environments Jan Toman|Jaroslav Flegr Dept. of Philosophy & History of Sciences, Faculty of Sciences, Charles University in Prague
http://dx.doi.org/10.1101/141481 2017-05-24 Bioinformatics Robust Estimation Of Hi-C Contact Matrices Using Fused Lasso Reveals Preferential Insulation Of Super-Enhancers By Strong TAD Boundaries Yixiao Gong|Charalampos Lazaris|Aurelie Lozano|Prabhanjan Kambadur|Panagiotis Ntziachristos|Iannis Aifantis|Aristotelis Tsirigos Department of Pathology, NYU School of Medicine, New York, NY 10016, USA;|New York University;|Center for Computational and Statistical Learning, IBM T.J. Watson Research Center, NY;|Bloomberg LP, 731 Lexington Avenue, New York City, NY, USA;|Dept. of Biochemistry & Molecular Genetics, Feinberg School of Medicine, Northwestern Univ.
http://dx.doi.org/10.1101/141580 2017-05-24 Neuroscience CC BY-NC-ND Physical And Mental Health Status In Toxoplasma-Infected Women Before And Three Years After They Learn About Their Infection: The Role Of Rh Factor Blanka Sebankova|Jaroslav Flegr Division of Biology, Faculty of Science, Charles University, Prague;|Faculty of Science, Charles University
http://dx.doi.org/10.1101/141374 2017-05-24 Bioinformatics CC BY-NC-ND Matriarchy And Prehistory: A Statistical Method For Testing An Old Theory Julien d'Huy IMAf UMR 8171 (CNRS/IRD/EHESS/Univ.Paris1/EPHE/Aix-Marseille Univ-AMU)
http://dx.doi.org/10.1101/141465 2017-05-24 Bioinformatics CC BY Cancer Progression Models And Fitness Landscapes: A Many-To-Many Relationship Ramon Diaz-Uriarte Dept. of Biochemistry, Instituto de Investigaciones Biomedicas “Alberto Sols”
http://dx.doi.org/10.1101/141473 2017-05-24 Ecology CC BY-NC Coordinated Shifts In Allocation Among Reproductive Tissues Across 14 Coexisting Plant Species Elizabeth Hedi Wenk|Konrad Abramowicz|Mark Westoby|Daniel Stein Falster Macquarie University, Australia;|Umeå University, Sweden;|University of New South Wales
http://dx.doi.org/10.1101/140855 2017-05-24 Ecology CC BY-NC Biomod2EZ − An R script suite for visualizing projected niche model ensembles and reporting statistical results. Paul R. Sesink Clee|Stephen Woloszynek|Mary Katherine Gonder Drexel University
http://dx.doi.org/10.1101/141648 2017-05-24 Neuroscience CC BY Alpha Oscillations During Incidental Encoding Predict Subsequent Memory For New “Foil” Information David A. Vogelsang|Matthias Gruber|Zara M. Bergstrom|Charan Ranganath|Jon S. Simons University of Cambridge;|Cardiff University;|University of Kent;|University of California at Davis
http://dx.doi.org/10.1101/141671 2017-05-24 Microbiology CC BY-ND Rob And MarA Alter Susceptibility Of Escherichia coli To Antibiotics In Presence Of Salicylate Kirti Jain|Supreet Saini IIT Bombay
http://dx.doi.org/10.1101/133132 2017-05-24 Genomics CC BY Estimating Degree Of Polygenicity, Causal Effect Size Variance, And Confounding Bias In GWAS Summary Statistics Dominic Holland|Chun-Chieh Fan|Oleksandr Frei|Alexey A. Shadrin|Olav B. Smeland|V. S. Sundar|Ole A. Andreassen|Anders M. Dale UCSD;|U of Oslo;|University of Oslo
http://dx.doi.org/10.1101/141630 2017-05-24 Bioinformatics CC BY-NC-ND Building Applications For Interactive Data Exploration In Systems Biology Bjrn Fjukstad|Vanessa Dumeaux|Karina Standahl Olsen|Michael Hallett|Eiliv Lund|Lars Bongo Department of Computer Science, UiT The Arctic University of Norway;|Department of Biology, Concordia University;|Department of Community Medicine, UiT The Arctic University of Norway
http://dx.doi.org/10.1101/141382 2017-05-24 Systems Biology CC BY-NC PIQED: Automated Identification And Quantification Of Protein Modifications From DIA-MS Data Jesse G. Meyer|Sushanth Mukkamalla|Hanno Steen|Alexey I. Nesvizhskii|Bradford W. Gibson|Birgit Schilling Buck Institute for Research on Aging;|Boston Children's Hospital and Harvard Medical School;|University of Michigan
http://dx.doi.org/10.1101/141218 2017-05-24 Immunology CC BY-NC Overexpression Of Hypoxia-Inducible Factor 1 Alpha Improves Immunomodulation By Dental Mesenchymal Stem Cells Victor G. Martinez|Imelda Ontoria-Oviedo|Carolina P. Ricardo|Sian E. Harding|Rosa Sacedon|Alberto Varas|Agustin Zapata|Pilar Sepulveda|Angeles Vicente Department of Cell Biology, Faculty of Medicine, Complutense University of Madrid;|Instituto de Investigacion Sanitaria La Fe, Regenerative Medicine & Heart Transplantation Unit;|National Heart and Lung Institute, Imperial College;|Department of Cell Biology, Faculty of Biology, Complutense University of Madrid
http://dx.doi.org/10.1101/141309 2017-05-24 Neuroscience Learning Fast And Slow: Deviations From The Matching Law Can Reflect An Optimal Strategy Under Uncertainty Kyo IIgaya|Yashar Ahmadian|Leo Sugrue|Greg Corrado|Yonatan Loewenstein|William T. Newsome|Stefano Fusi Gatsby Computational Neuroscience Unit, UCL;|University of Oregon;|Department of Radiology and Biomedical Imaging, University of California;|Google Inc.;|Hebrew University of Jerusalem;|Stanford University School of Medicine;|Columbia University
http://dx.doi.org/10.1101/141655 2017-05-24 Biochemistry CC BY-ND Translational Repression Of The Drosophila nanos mRNA Involves The RNA Helicase Belle And RNA Coating By Me31B And Trailer hitch Michael Gotze|Jeremy Dufourt|Christian Ihling|Christiane Rammelt|Stephanie Pierson|Nagraj Sambrani|Claudia Temme|Andrea Sinz|Martine Simonelig|Elmar Wahle Martin Luther University Halle-Wittenberg;|University of Montpellier
http://dx.doi.org/10.1101/139451 2017-05-24 Genomics CC BY Comparative Huntington And Parkinson Disease mRNA Analysis Reveals Common Inflammatory Processes Adam Labadorf|Seung Hoan Choi|Richard H. Myers Boston University;|Boston University School of Public Health;|Boston University School of Medicine
http://dx.doi.org/10.1101/141622 2017-05-24 Biochemistry Mutations In Disordered Regions Cause Disease By Creating Endocytosis Motifs Katrina Meyer|Bora Uyar|Marieluise Kirchner|Jingyuan Cheng|Altuna Akalin|Matthias Selbach MDC Berlin
http://dx.doi.org/10.1101/141507 2017-05-24 Genomics CC BY Natural mismatch repair mutations mediate phenotypic diversity and drug resistance in Cryptococcus deuterogattii R. Blake Billmyre|Shelly Applen Clancey|Joe Heitman Duke University, United States
http://dx.doi.org/10.1101/141598 2017-05-24 Bioinformatics CC BY-NC-ND scImpute: Accurate And Robust Imputation For Single Cell RNA-Seq Data Wei Vivian Li|Jingyi Jessica Li University of California, Los Angeles
http://dx.doi.org/10.1101/141416 2017-05-24 Biochemistry CC BY-NC Potential Mechanisms Linking SIRT Activity And Hypoxic 2-Hydroxyglutarate Generation: No Role For Direct Enzyme (De)acetylation Sergiy Nadtochiy|Yves T. Wang|Jimmy Zhang|Keith Nehrke|Xenia Schafer|Kevin Welle|Sina Ghaemmaghami|Joshua Munger|Paul Brookes University of Rochester Medical Center;|University of Rochester
http://dx.doi.org/10.1101/141358 2017-05-24 Neuroscience Bayesian Selection Of Grammar Productions For The Language Of Thought Sergio Romano|Alejo Salles|Marie Amalric|Stanislas Dehaene|Mariano Sigman|Santiago Figueria CONICET - Universidad de Buenos Aires;|INSERM, Universite Paris-Sud;|CONICET - Universidad Torcuato Di Tella
http://dx.doi.org/10.1101/140962 2017-05-24 Plant Biology The Proteolytic Landscape Of An Arabidopsis Separase-Deficient Mutant Reveals Novel Substrates Associated With Plant Development Chen Liu|Simon Stael|Kris Gevaert|Frank Van Breusegem|Peter Bozhkov|Panagiotis Moschou SLU;|VIB;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/141440 2017-05-24 Genetics CC BY-NC-ND Efficiency Of Genomic Prediction Of Non-Assessed Single Crosses Jose Marcelo Soriano Viana|Helcio Duarte Pereira|Gabriel Borges Mundim|Hans-Peter Piepho|Fabyano Fonseca Silva Federal University of Vicosa;|Down AgroSciences;|University of Hohenheim
http://dx.doi.org/10.1101/141044 2017-05-24 Neuroscience CC BY-NC-ND Image Memorability In The Eye Of The Beholder: Tracking The Decay Of Visual Scene Representations Melissa Le-Hoa Vo|Zoya Bylinskii|Aude Oliva Goethe University Frankfurt;|MIT
http://dx.doi.org/10.1101/141457 2017-05-23 Cell Biology Characterization Of Beta Tubulin Isotypes During Foam Cell Formation Adriana Torres|Veronica Contreras-Shannon St. Mary's University
http://dx.doi.org/10.1101/139949 2017-05-23 Biochemistry Synthesis Of Extracellular Stable Gold Nanoparticles By Cupriavidus metallidurans CH34 Cells Francisco Montero-Silva Universidad Tecnica Federico Santa Maria
http://dx.doi.org/10.1101/141366 2017-05-23 Neuroscience CC BY-NC-ND Drosophila CaV2 Channels Harboring Human Migraine Mutations Cause Synapse Hyperexcitability That Can Be Suppressed By Inhibition Of A Ca2+ Store Release Pathway Douglas J. Brusich|Ashlyn M. Spring|Thomas D. James|Timothy H. Helms|C. Andrew Frank University of Iowa, Carver College of Medicine
http://dx.doi.org/10.1101/141291 2017-05-23 Biophysics CC BY-NC-ND Disruption Of Ankyrin B And Caveolin-1 Interaction Sites Alters Na+,K+-ATPase Lateral Diffusion In HEK293 Cell Plasma Membranes Cornelia Junghans|Vladana Vukojevic|Neslihan N. Tavraz|Eugene G. Maksimov|Werner Zuschratter|Franz-Josef Schmitt|Thomas Friedrich Technical University of Berlin;|Karolinska Institutet;|Lomonosov Moscow State University;|Leibnitz Institute for Neurobiology Magdeburg
http://dx.doi.org/10.1101/141333 2017-05-23 Neuroscience Extended Synaptotagmin Is A Presynaptic ER Ca2+ Sensor That Promotes Neurotransmission And Synaptic Growth In Drosophila Koto Kikuma|Dan Kim|David Sutter|Xiling Li|Dion Dickman University of Southern California;|USC
http://dx.doi.org/10.1101/141424 2017-05-23 Genomics An Efficient CRISPR Protocol For Generating Conditional And Knock-In Mice Using Long Single-Stranded DNA Donors Hiromi Miura|Rolen M. Quadros|Channabasavaiah B. Gurumurthy|Masato Ohtsuka Tokai University;|UNMC
http://dx.doi.org/10.1101/141929 2017-05-24 CC BY Drift-Induced Selection Between Male And Female Heterogamety Carl Veller|Pavitra Muralidhar|George W. A. Constable|Martin A. Nowak Harvard University;|University of Bath
http://dx.doi.org/10.1101/141390 2017-05-24 HIVs Feedback Circuit Breaks The Fundamental Limit On Noise Suppression To Stabilize Fate Winnie Y. Wen|Elena Ingerman|Maike M. K. Hansen|Brandon S. Razooky|Roy D. Dar|Charles Chin|Michael Simpson|Leor S. Weinberger Gladstone Institutes;|Oak Ridge National Laboratory
http://dx.doi.org/10.1101/141960 2017-05-24 CC BY Rare non-coding variants are associated with plasma lipid traits in a founder population Catherine Igartua|Sahar V Mozaffari|Dan Nicolae|Carole Ober University of Chicago
http://dx.doi.org/10.1101/141812 2017-05-24 The Nucleoid Occlusion Protein SlmA Is A Direct Transcriptional Activator Of Chitobiose Utilization In Vibrio cholerae Catherine A. Klancher|Chelsea A. Hayes|Ankur B. Dalia Indiana University
http://dx.doi.org/10.1101/141937 2017-05-24 A kinetically-driven free exchange mechanism of EmrE antiport sacrifices coupling efficiency in favor of promiscuity Anne E. Robinson|Nathan E. Thomas|Emma A. Morrison|Bryan Balthazor|Katherine A. Henzler-Wildman Washington University School of Medicine;|University of Wisconsin - Madison
http://dx.doi.org/10.1101/141861 2017-05-24 Cross-Cultural Effects On Ensemble Coding Of Emotion In Facial Crowds Hee Yeon Im|Sang Chul Chong|Jisoo Sun|Troy G. Steiner|Daniel N. Albohn|Reginald B. Adams|Kestutis Kveraga MGH/Harvard Medical School;|Yonsei University;|The Pennsylvania State University
http://dx.doi.org/10.1101/141879 2017-05-24 CC BY Phenotype prediction in an Escherichia coli strain panel Marco Galardini|Alexandra Koumoutsi|Lucia Herrera-Dominguez|Juan Antonio Cordero Varela|Anja Telzerow|Omar Wagih|Morgane Wartel|Olivier Clermont|Erick Denamur|Athanasios Typas|Pedro Beltrao EMBL-EBI, Wellcome Genome Campus, Cambridge, United Kingdom;|Genome Biology Unit, EMBL, Heidelberg, Germany;|INSERM, IAME, UMR1137, Paris, France
http://dx.doi.org/10.1101/141911 2017-05-24 Distributed Rhythm Generators Underlie Caenorhabditis elegans Forward Locomotion Anthony D. Fouad|Shelly Teng|Julian R. Mark|Alice Liu|Hongfei Ji|Eli Cornblath|Asuka Guan|Mei Zhen|Christopher Fang-Yen University of Pennsylvania;|Samuel Lunenfeld Research Institute; University of Toronto
http://dx.doi.org/10.1101/137471 2017-05-24 CC BY De novo indels within introns contribute to ASD incidence Adriana Munoz|Boris Yamrom|Yoon-ha Lee|Peter Andrews|Steven Marks|Kuan-Ting Lin|Zihua Wang|Adrian R Krainer|Robert B Darnell|Michael Wigler|Ivan Iossifov CSHL;|Rockefeller University
http://dx.doi.org/10.1101/141952 2017-05-24 CD95L mRNA And CD95L Derived si- and shRNAs Kill Cancer Cells Through An RNAi Mechanism By Targeting Survival Genes William Putzbach|Quan Gao|Monal Patel|Abbas Hadji|Stijn van Dongen|Ashley Haluck-Kangas|Elizabeth Bartom|Austin Stults|Abdul Qadir|Kwang-Youn Kim|Markus Hafner|Jonathan Zhao|Andrea Murmann|Marcus Peter Northwestern University;|University of Chicago;|European Bioinformatics Institute;|NIAMS/NIH
http://dx.doi.org/10.1101/141804 2017-05-24 CC BY Sepsis Reconsidered: Identifying Novel Metrics For Behavioral Landscape Characterization With A High-Performance Computing Implementation Of An Agent-Based Model Chase Cockrell|Gary An University of Chicago
http://dx.doi.org/10.1101/141838 2017-05-24 Anxiety Modulates Perception Of Facial Fear In A Pathway-Specific, Lateralized, Manner Hee Yeon Im|Reginald B. Adams|Jasmine Boshyan|Noreen Ward|Cody A. Cushing|Kestutis Kveraga MGH/Harvard Medical School;|The Pennsylvania State University
http://dx.doi.org/10.1101/141408 2017-05-24 CC BY-NC-ND TiSAn: Tissue Specific Variant Annotation Kevin Vervier|Jacob J. Michaelson University of Iowa
http://dx.doi.org/10.1101/141820 2017-05-24 CC BY-ND Genetic Identification Of A Common Collagen Disease In Puerto Ricans Via Identity-By-Descent Mapping In A Health System Gillian M. Belbin|Jacqueline Odgis|Elena P. Sorokin|Muh-Ching Yee|Sumita Kohli|Benjamin S. Glicksberg|Christopher R. Gignoux|Genevieve L. Wojcik|Tielman Van Vleck|Janina M. Jeff|Michael Linderman|Claudia Schurmann|Douglas Ruderfer|Xaioqiang Cai|Amanda Merkelson|Anne E. Justice|Kristin L. Young|Misa Graff|Kari E. North|Ulrike Peter|Regina James|Lucia Hindorff|Ruth Kornreich|Lisa Edelmann|Omri Gottesman|Eli E. A. Stahl|Judy H. Cho|Ruth J. F. Loos|Erwin P. Bottinger|Girish N. Nadkarni|Noura S. Abul-Husn|Eimear E. Kenny Icahn School of Medicine at Mount Sinai;|Stanford University;|University of North Carolina;|Fred Hutchinson Cancer Research Center;|National Institute on Minority Health and Health Disparities;|National Human Genome Research Institute
http://dx.doi.org/10.1101/141846 2017-05-24 CC BY-NC-ND Inter-individual Recovery Of The Microbiota And Metabolome Over Time Following Fecal Microbiota Transplantation In Patients With Recurrent Clostridium difficile Infection Anna Seekatz|Casey M. Theriot|Krishna Rao|Yu-Ming Chang|Alison E. Freeman|John Y. Kao|Vincent B. Young University of Michigan;|College of Veterinary Medicine, North Carolina State University;|Ming Fang MD Inc;|University of Colorado Anschutz Medical Campus
http://dx.doi.org/10.1101/141770 2017-05-24 CC BY Serial Crystallography With Multi-stage Merging Of 1000's Of Images Herbert J. Bernstein|Lawrence C. Andrews|James Foadi|Martin R. Fuchs|Jean Jakoncic|Sean McSweeney|Dieter K. Schneider|Wuxian Shi|John Skinner|Alexei Soares|Yusuke Yamada Rochester Institute of Technology;|retired;|Diamond Light Source, Chilton, UK;|Brookhaven National Laboratory, Upton, NY, USA;|Case Western University, Cleveland, OH, USA;|Photon Factory, Tsukuba, Ibaraki, JP
http://dx.doi.org/10.1101/141788 2017-05-24 CC BY High lumenal chloride in the lysosome is critical for lysosome function. Yamuna Krishnan|Kasturi Chakraborty|KaHo Leung University of Chicago, United States
http://dx.doi.org/10.1101/141796 2017-05-24 CC BY-NC-ND Filament Rigidity And Connectivity Tune The Deformation Modes Of Active Biopolymer Networks Samantha Stam|Simon L. Freedman|Shiladitya Banerjee|Kimberly L. Weirich|Aaron R. Dinner|Margaret L. Gardel University of Chicago;|University College London
http://dx.doi.org/10.1101/141762 2017-05-24 CC BY-NC The Complete Connectome Of A Learning And Memory Center In An Insect Brain Katharina Eichler|Ashok Litwin-Kumar|Feng Li|Youngser Park|Ingrid Andrade|Casey M. Schneider-Mizell|Timo Saumweber|Annina Huser|Claire Eschbach|Bertram Gerber|Richard D. Fetter|James W. Truman|Carey E. Priebe|L. F. Abbott|Andreas S. Thum|Marta Zlatic|Albert Cardona HHMI Janelia;|Columbia University;|Johns Hopkins University;|Leibniz Institut fur Neurobiologie;|University of Konstanz
http://dx.doi.org/10.1101/141523 2017-05-24 Biochemistry Swapping Of Transmembrane Domains In The Epithelial Calcium Channel TRPV6 Appu K. Singh|Kei Saotome|Alexander I. Sobolevsky Department of Biochemistry and Molecular Biophysics, Columbia University
http://dx.doi.org/10.1101/142042 2017-05-25 Cell Biology CC BY-NC Super-Resolution Microscopy Reveals That Disruption Of Ciliary Transition Zone Architecture Is A Cause Of Joubert Syndrome Xiaoyu Shi|Galo Garcia|Julie C. Van De Weghe|Ryan McGorty|Gregory J. Pazour|Dan Doherty|Bo Huang|Jeremy F. Reiter University of California, San Francisco;|University of Washington Medical Center;|University of San Diego;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/142075 2017-05-25 Microbiology Use Of RetroNectin In Studies Requiring In Vitro HIV Infection Of Human Hematopoietic Stem/Progenitor Cells Tetsuo Tsukamoto|Seiji Okada Kindai University Faculty of Medicine;|Center for AIDS Research, Kumamoto University
http://dx.doi.org/10.1101/142026 2017-05-25 Genomics CC BY-NC-ND Static And Dynamic DNA Loops Form AP-1 Bound Activation Hubs During Macrophage Development Douglas H. Phanstiel|Kevin Van Bortle|Damek V. Spacek|Gaelen T. Hess|Muhammad Saad Shamim|Ido Machol|Michael I. Love|Erez Lieberman Aiden|Michael C. Bassik|Michael P. Snyder University of North Carolina at Chapel Hill;|Stanford University;|Baylor College of Medicine
http://dx.doi.org/10.1101/141903 2017-05-25 Cancer Biology Distinct Pattern Of Epigenetic DNA Modification In Leukocytes From Patients With Colorectal Carcinoma And Individuals With Precancerous Conditions, Benign Adenoma And Inflammatory Bowel Disease; A Link To Oxidative Stress Marta Starczak|Ewelina Zarakowska|Martyna Modrzejewska|Tomasz Dziaman|Anna Szpila|Kinga Linowiecka|Jolanta Guz|Justyna Szpotan|Maciej Gawronski|Anna Labejszo|Zbigniew Banaszkiewicz|Maria Klopocka|Marek Foksinski|Daniel Gackowski|Ryszard Olinski Dept. of Clin. Biochem., Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus Univ.;|Dept. of Surgery, Faculty of Medicine, Collegium Medicum, Nicolaus Copernicus Univ.;|Dept. of Vascular Diseases & Internal Medicine, Faculty of Health Sci., Collegium Medicum;|Faculty of Pharmacy, Collegium Medicum, Nicolaus Copernicus University in Toruń
http://dx.doi.org/10.1101/142083 2017-05-25 Cancer Biology CC BY-NC-ND Sepsis Increases Perioperative Metastases In A Murine Model Lee-Hwa Tai|Abhirami A. Ananth|Rashmi Seth|Almohanad Alkayyal|Jiqing Zhang|Christiano Tanese de Souza|Phillip Staibano|Michael A. Kennedy|Rebecca C. Auer Universite de Sherbrooke;|OHRI;|University of Ottawa;|Ottawa Hospital Research Institute
http://dx.doi.org/10.1101/141986 2017-05-25 Genomics Evaluation Of Chromatin Accessibility In Prefrontal Cortex Of Schizophrenia Cases And Controls Julien Bryois|Melanie E. Garrett|Lingyun Song|Alexias Safi|Paola Giusti-Rodriguez|Graham D. Johnson|Alfonso Buil Demur|John F. Fullard|Panos Roussos|Pamela Sklar|Schahram Akbarian|Vahram Haroutunian|Craig A. Stockmeier|Gregory A. Wray|Kevin P. White|Chunyu Liu|Timothy E. Reddy|Allison Ashley-Koch|Patrick F. Sullivan|Gregory E. Crawford Karolinska Institutet;|Duke University;|University of North Carolina Chapel Hill;|Mental Health Center Sct. Hans;|Icahn School of Medicine at Mount Sinai;|University of Mississippi Medical Center;|University of Chicago;|University of Illinois at Chicago
http://dx.doi.org/10.1101/142224 2017-05-25 Biophysics Sequential Eviction Of Crowded Nucleoprotein Complexes By The RecBCD Molecular Motor Tsuyoshi Terakawa|Sy Redding|Timothy D. Silverstein|Eric C. Greene Columbia University;|University of California - San Francisco;|Feather Medical Communications
http://dx.doi.org/10.1101/141994 2017-05-25 Biophysics CC BY Achieving Better Than 3 Å Resolution By Single Particle Cryo-EM At 200 keV Mark A. Herzik|Mengyu Wu|Gabriel C. Lander The Scripps Research Institute
http://dx.doi.org/10.1101/142117 2017-05-25 Neuroscience CC BY-NC Reconfiguration Of Dominant Coupling Modes In Mild Traumatic Brain Injury Mediated By δ-Band Activity: A Resting State MEG Study Marios Antonakakis|Stavros I. Dimitriadis|Michalis Zervakis|Andrew C. Papanicolaou|George Zouridakis Institute of Biomagnetism and Biosignal Analysis;|Institute of Psychological Medicine & Clinical Neurosciences, Cardiff University School of Med.;|Digital Image & Signal Processing Laboratory, School of Electronic & Computer Engineering;|Depts. of Pediatrics, and Anatomy & Neurobiology, Univ. of Tennessee Health Science Ctr.;|Biomedical Imaging Lab, University of Houston
http://dx.doi.org/10.1101/142174 2017-05-25 Systems Biology Breakdown Of Modularity In Complex Networks Sergi Valverde Universitat Pompeu Fabra and CSIC; Institute of Evolutionary Biology
http://dx.doi.org/10.1101/142018 2017-05-25 Genomics CC BY-ND Genome-Wide Analysis Of Repetitive Elements Associated With Gene Regulation Lu Zeng|Stephen Pederson|Dan Feng Cao|Zhi Peng Qu|Zhi Qiang Hu|David Adelson|Chao Chun Wei The University of Adelaide;|Shanghai Jiao Tong University
http://dx.doi.org/10.1101/142091 2017-05-25 Neuroscience CC BY-NC Human Resting-State Electrophysiological Networks In The Alpha Frequency Band: Evidence From Magnetoencephalographic Source Imaging Rikkert Hindriks|Cristiano Micheli|Dante Mantini|Gustavo Deco Universitat Pompeu Fabra (UPF);|Donders Centre for Cognitive Neuroimaging;|Laboratory of Movement Control and Neuroplasticity;|UPF
http://dx.doi.org/10.1101/142141 2017-05-25 Biochemistry CC BY-NC-ND Characterizing The Structure-Function Relationship Of A Naturally-Occurring RNA Thermometer Sarai Meyer|Julius Lucks Robert F. Smith School of Chemical and Biomolecular Engineering, Cornell University;|Northwestern University
http://dx.doi.org/10.1101/142067 2017-05-25 Ecology Root Interactions And Plant Growth In A Tomato/Potato Onion Intercropping System Under Different Phosphorus Levels Hongjie Yu|Shaocan Chen|Xingang Zhou|Fengzhi Wu Northeast Agricultural University
http://dx.doi.org/10.1101/141978 2017-05-25 Cell Biology CC BY Single molecule mechanics reveal Kif15 as an active molecular ratchet with acute strain sensitivity Toni McHugh|Hauke Drechsler|Andrew D McAinsh|Nicholas J Carter|Robert Anthony Cross University of Warwick, United Kingdom
http://dx.doi.org/10.1101/142265 2017-05-25 CC BY Native KCC2 Interactome Reveals PACSIN1 As A Critical Regulator Of Synaptic Inhibition Vivek Mahadevan|C. Sahara Khademullah|Zahra Dargaei|Jonah Chevrier|Pavel Uvarov|Julian Kwan|Richard D. Bagshaw|Tony Pawson|Andrew Emili|Yves De Koninck|Victor Anggono|Matti Airaksinen|Melanie A. Woodin University of Toronto;|University of Helsinki;|Institut universitaire en santé mentale de Québec;|The University of Queensland
http://dx.doi.org/10.1101/142398 2017-05-25 Prior Knowledge And Sampling Model Informed Learning With Single Cell RNA-Seq Data Sumit Mukherjee|Yue Zhang|Sreeram Kannan|Georg Seelig University of Washington
http://dx.doi.org/10.1101/142372 2017-05-25 CC BY-NC Reconstructing The Demographic History Of Atlantic Salmon (Salmo salar) Across Its Distribution Range Using Approximate Bayesian Computations Quentin Rougemont|Louis Bernatchez Laval University
http://dx.doi.org/10.1101/142232 2017-05-25 Neuroscience Olfactory Receptors Are Required For Social Behavior And Neural Plasticity In Ants, As Evidenced By CRISPR-Mediated Gene Knockout Hua Yan|Comzit Opachaloemphan|Giacomo Mancini|Huan Yang|Matthew Gallitto|Jakub Mlejnek|Kevin Haight|Majid Ghaninia|Lucy Huo|Alexandra Leibholz|Jesse Slone|Xiaofan Zhou|Maria Traficante|Clint A. Penick|Kelly Dolezal|Kaustubh Gokhale|Kelsey Stevens|Ingrid Fetter-Pruneda|Roberto Bonasio|Laurence J. Zwiebel|Shelley Berger|Juergen Liebig|Danny Reinberg|Claude Desplan Dept. of Biochemistry and Molecular Pharmacology/HHMI, NYU School of Medicine;|Department of Biochemistry and Molecular Pharmacology, NYU School of Medicine;|Department of Biology, New York University, New York, NY 10003;|School of Life Sciences, Arizona State University, Tempe, Arizona 85283;|Department of Biological Sciences, Vanderbilt University, Nashville, TN 37235;|Laboratory of Social Evolution and Behavior, The Rockefeller University, New York, NY 10065;|Epigenetics Inst., Dept. of Cell & Dev. Biol., Genet., Biol., U Penn Perelman SOM
http://dx.doi.org/10.1101/142281 2017-05-25 Systems Biology CC BY-ND Phenotype-Driven Transitions In Regulatory Network Structure Megha Padi|John Quackenbush Harvard Medical School;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/142356 2017-05-25 Bioinformatics CC BY-NC A Novel Post Hoc Method For Detecting Index Switching Finds No Evidence For Increased Switching On The Illumina HiSeq X Gregory L. Owens|Marco Todesco|Emily B. M. Drummond|Sam Yeaman|Loren H. Rieseberg University of British Columbia;|University of Calgary
http://dx.doi.org/10.1101/142315 2017-05-25 Bioengineering CC BY-NC-ND Nanoscale Imaging Approaches To Quantifying The Electrical Properties Of Pathogenic Bacteria Ryan Berthelot|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/142331 2017-05-25 Neuroscience CC BY-NC-ND Connecting Brain Responsivity And Real-World Risk Taking: Strengths And Limitations Of Current Methodological Approaches Lauren Elizabeth Sherman|Laurence Steinberg|Jason Chein Temple University
http://dx.doi.org/10.1101/142299 2017-05-25 Genetics CC BY-NC-ND Mosaic Chromosomal Aneuploidy Detection By Sequencing (MAD-seq) Yu Kong|Esther R. Berko|Anthony Marcketta|Shahina B. Maqbool|Claudia A. Simoes-Pires|David F. Kronn|Kenny Q. Ye|Masako Suzuki|Adam Auton|John M. Greally Albert Einstein College of Medicine;|New York Medical College
http://dx.doi.org/10.1101/142323 2017-05-25 Evolutionary Biology CC BY-NC-ND Evaluating Fast Maximum Likelihood-Based Phylogenetic Programs Using Empirical Phylogenomic Data Sets Xiaofan Zhou|Xing-Xing Shen|Chris Todd Hittinger|Antonis Rokas South China Agricultural University;|Vanderbilt University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/142349 2017-05-25 Neuroscience CC BY-NC-ND CA1 And CA3 Differentially Support Spontaneous Retrieval Of Episodic Contexts Within Human Hippocampal Subfields Halle R. Dimsdale-Zucker|Maureen Ritchey|Arne D. Ekstrom|Andrew P. Yonelinas|Charan Ranganath University of California Davis;|Boston College
http://dx.doi.org/10.1101/142257 2017-05-25 Bioinformatics CC BY-NC-ND Pheno4J: A Gene To Phenotype Graph Database Sajid Mughal|Ismail Moghul|Jing Yu|Tristan Clark|David S. Gregory|Nikolas Pontikos none;|University College London;|Oxford University;|Computer Science Department, University College London, London WC1E 6BT
http://dx.doi.org/10.1101/141515 2017-05-25 Epidemiology Association Between A Functional Polymorphism rs10830963 In Melatonin Receptor 1B And Risk Of Gestational Diabetes Mellitus: An Updated Meta-Analysis Xiang-yuan Yu|Qian-qian Wang|Lin-yuan Qin|Ling-xiang Peng|Zai-ming Chen|Xiu-mei Qin|Yu-chun Wang|Qing-feng Shi|Hong-ping Yu Guilin Medical University;|Affiliated Hospital of Guilin Medical University;|Affiliated Tumor Hospital of Guangxi Medical University
http://dx.doi.org/10.1101/140152 2017-05-25 Epidemiology CC BY-NC Long-Term Trends In The Contribution Of Major Causes Of Death To The Black-White Life Expectancy Gap By US State Corinne A. Riddell|Kathryn T. Morrison|Sam S. Harper|Jay S. Kaufman McGill University
http://dx.doi.org/10.1101/142133 2017-05-25 Biophysics Detailed Analyses Of Stall Force Generation In Mycoplasma mobile Gliding Masaki Mizutani|Isil Tulum|Yoshiaki Kinosita|Takayuki Nishizaka|Makoto Miyata Osaka City University;|Gakushuin University
http://dx.doi.org/10.1101/142125 2017-05-25 Epidemiology CC BY Software Application Profile: mrrobust - A Tool For Performing Two-Sample Summary Mendelian Randomization Analyses Wes Spiller|Neil M. Davies|Tom M. Palmer University of Bristol;|Lancaster University
http://dx.doi.org/10.1101/140491 2017-05-25 Epidemiology CC BY-NC-ND Excess Mortality Related To Chikungunya Epidemics In The Context Of Co-circulation Of Other Arboviruses In Brazil Andre R. R. Freitas|Luciano P. G. Cavalcanti|Andrea P. B. von Zuben|M. Rita Donalisio Sao Leopoldo Mandic Medical School;|Universidade Federal do Ceara;|Secretaria de Saude de Campinas;|UNICAMP - Universidade Estadual de Campinas
http://dx.doi.org/10.1101/142620 2017-05-26 Cancer Biology CC BY RANKL Signaling Sustains Primary Tumor Growth In Genetically Engineered Mouse Models Of Lung Adenocarcinoma Julien Faget|Caroline Contat|Nadine Zangger|Solange Peters|Etienne Meylan Ecole Polytechnique Fédérale de Lausanne;|Swiss Institute of Bioinformatics;|Centre Hospitalier Universitaire Vaudois
http://dx.doi.org/10.1101/142711 2017-05-26 Genetics CC BY A Sequencer Coming Of Age: De Novo Genome Assembly Using MinION Reads Carlos Victor de Lannoy|Dick de Ridder|Judith Risse KU Leuven;|Wageningen University & Research
http://dx.doi.org/10.1101/142448 2017-05-26 Genetics CC BY-NC-ND Continuity and admixture in the last five millennia of Levantine history from ancient Canaanite and present-day Lebanese genome sequences Marc Haber|Claude Doumet-Serhal|Christiana Scheib|Yali Xue|Petr Danecek|Massimo Mezzavilla|Sonia Youhanna|Rui Martiniano|Javier Prado-Martinez|Micha Szpak|Elizabeth Matisoo-Smith|Holger Schutkowski|Richard Mikulski|Pierre Zalloua|Toomas Kivisild|Chris Tyler-Smith Wellcome Trust Sanger Institute;|The Sidon excavation;|University of Cambridge;|The Wellcome Trust Sanger Institute;|University of Zurich;|University of Otago;|Bournemouth University;|Lebanese American University
http://dx.doi.org/10.1101/142539 2017-05-26 Microbiology HIV Persistence Alters CXCR4 Expression Patterns In OP9-DL1-Mediated Differentiation Of In Vitro Infected Human Cord Blood CD34+ Cells Tetsuo Tsukamoto|Seiji Okada Kindai University Faculty of Medicine;|Center for AIDS Research, Kumamoto University
http://dx.doi.org/10.1101/142497 2017-05-26 Neuroscience A Possible Role Of Microglia In Zika Virus Infection Of The Fetal Human Brain Julien Muffat|Yun Li|Attya Omer|Ann Durbin|Irene Bosch|Grisilda Bakiasi|Edward Richards|Aaron Meyer|Lee Gehrke|Rudolf Jaenisch WIBR;|MIT;|Bryn Mawr College;|IMES-MIT;|Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/142729 2017-05-26 Systems Biology In Situ Genotyping Of A Pooled Strain Library After Characterizing Complex Phenotypes Michael J. Lawson|Daniel Camsund|Jimmy Larsson|Ozden Baltekin|David Fange|Johan Elf Uppsala University
http://dx.doi.org/10.1101/142513 2017-05-26 Neuroscience CC BY-NC-ND Extensive Tonotopic Mapping Across Auditory Cortex Is Recapitulated By Spectrally-Directed Attention, And Systematically Related To Cortical Myeloarchitecture Frederic Dick|Matthew Lehet|Martina F. Callaghan|Timothy Keller|Martin I. Sereno|Lori Holt Birkbeck College and UCL;|Carnegie Mellon University;|UCL;|San Diego State University
http://dx.doi.org/10.1101/142521 2017-05-26 Cell Biology CC BY-NC-ND A Multi-Stage Representation Of Cell Proliferation As A Markov Process Christian A. Yates|Matthew J. Ford|Richard L. Mort University of Bath;|McGill University;|University of Lancaster
http://dx.doi.org/10.1101/142612 2017-05-26 Plant Biology CC BY-NC-ND MutS-Homolog2 Silencing Generates Tetraploid Meiocytes In Tomato (Solanum lycopersicum) Supriya Sarma|Arun Kumar Pandey|Maruthachalam Ravi|Yellamaraju Sreelakshmi|Rameshwar Sharma University of Hyderabad;|Indian Institute of Science Education and Research
http://dx.doi.org/10.1101/142604 2017-05-26 Microbiology CC BY-NC-ND Specific Virus-Host Genome Interactions Revealed By Tethered Chromosome Conformation Capture Haochen Li|Reza Kalhor|Bing Li|Trent Su|Arnold Berk|Siavash Kurdistani|Frank Alber|Lin Chen University of Southern California;|UCLA
http://dx.doi.org/10.1101/142679 2017-05-26 Neuroscience CC BY-NC-ND Mutations In Membrin/GOSR2 Reveal Stringent Secretory Pathway Demands Of Dendritic Growth And Synaptic Integrity Roman Praschberger|Simon Lowe|Nancy Malintan|Henry Houlden|Dimitri Kullmann|Maria Usowicz|Shyam Krishnakumar|James Hodge|James Rothman|James Jepson Department of Clinical and Experimental Epilepsy, UCL Institute of Neurology, London, UK;|School of Physiology, Pharmacology and Neuroscience, University of Bristol, Bristol, UK;|Department of Molecular Neuroscience, UCL Institute of Neurology, London, UK;|Department of Cell Biology, Yale School of Medicine, New Haven, USA
http://dx.doi.org/10.1101/142463 2017-05-26 Evolutionary Biology CC BY-NC Evolution of bird communication signals: transference between signals mediated by sensory drive Oscar Laverde-R.|Michael J Ryan|Daniel Cadena Universidad de los Andes;|University of Texas
http://dx.doi.org/10.1101/142505 2017-05-26 Cell Biology CC BY 14-3-3 Negatively Regulates Actin Filament Formation In The Deep Branching Eukaryote Giardia lamblia Jana Krtkova|Jennifer Xu|Marco Lalle|Melissa Steele-Ogus|Germain C. M. Alas|David Sept|Alexander R. Paredez University of Washington;|Istituto Superiore di Sanita;|University of Michigan
http://dx.doi.org/10.1101/142596 2017-05-26 Plant Biology CC BY-NC Exploiting The ZIP4 Homologue Within The Wheat Ph1 Locus Has Identified Two Lines Exhibiting Homoeologous Crossover In Wheat-Wild Relative Hybrids Maria-Dolores Rey|Azahara C. Martin|Janet Higgins|David Swarbreck|Cristobal Uauy|Peter Shaw|Graham Moore John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK;|Earlham Institute, Norwich Research Park, Norwich NR4 7UZ, UK
http://dx.doi.org/10.1101/142752 2017-05-26 Cancer Biology Postmitotic Separation Enables Selective Niche Retention Of One Daughter Cell In Intestinal Crypts And Is Facilitated By Interkinetic Nuclear Migration And Basal Tethering Thomas Carroll|Alastair J. Langlands|James M. Osborne|Ian P. Newton|Paul L. Appleton|Inke Nathke University of Dundee;|University of Melbourne;|Univrsity of Dundee
http://dx.doi.org/10.1101/142562 2017-05-26 Neuroscience CC BY-NC-ND Modality-Independent Coding Of Concepts In Prefrontal Cortex Yaelan Jung|Bart Larsen|Dirk B. Walther University of Toronto;|University of Pittsburgh
http://dx.doi.org/10.1101/141259 2017-05-26 Evolutionary Biology Thirty-five experimental fisheries reveal the mechanisms of selection Sebastien Nussle|Andrew P Hendry|Roland Knapp|Michael Bogan|Anna Sturrock|Stephanie Carlson Department of Environmental Science, Policy & Management, University of California, Berkeley, CA;|Redpath Museum & Department of Biology, McGill University, Montreal, Quebec, Canada;|Sierra Nevada Aquatic Research Laboratory, University of California, Mammoth Lakes, CA, USA;|School of Natural Resources and the Environment, University of Arizona, Tucson, AZ, USA;|University of California, Davis
http://dx.doi.org/10.1101/133322 2017-05-26 Genetics CC BY-NC-ND Shared Genetic Architecture Of Asthma With Allergic Diseases: A Genome-wide Cross Trait Analysis Of 112,000 Individuals From UK Biobank Zhaozhong Zhu|Phil H. Lee|Mark D. Chaffin|Wonil Chung|Po-Ru Loh|Quan Lu|David C. Christiani|Liming Liang Department of Epidemiology, Harvard T.H. Chan School of Public Health;|Center for Human Genetics Research, Mass. General Hospital and Harvard Medical School;|Medical and Population Genetics Program, Broad Institute of MIT and Harvard;|Harvard T.H. Chan School of Public Health;|Department of Environmental Health, Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/142778 2017-05-26 Bioengineering Wireless Implantable Sensor For Non-Invasive, Longitudinal Quantification Of Axial Strain Across Rodent Long Bone Defects Brett S. Klosterhoff|Keat Ghee Ong|Laxminarayanan Krishnan|Kevin M. Hetzendorfer|Young-Hui Chang|Mark G. Allen|Robert E. Guldberg|Nick J. Willett Georgia Institute of Technology;|Michigan Technological University;|University of Pennsylvania;|Emory University
http://dx.doi.org/10.1101/142422 2017-05-26 Neuroscience CC BY-NC-ND Oxygen-sensing neurons reciprocally regulate peripheral lipid metabolism via neuropeptide signaling in Caenorhabditis elegans Rosalind Hussey|Emily Witham|Erik Vanstrum|Jaleh Mesgarzadeh|Harkaranveer Ratanpal|Supriya Srinivasan Department of Molecular Medicine, Department of Neuroscience and Dorris Neuroscience Center
http://dx.doi.org/10.1101/142406 2017-05-26 Immunology CC BY-ND The eIF2α Kinase Heme Regulated Inhibitor (HRI) Protects The Host From Infection By Regulating Intracellular Pathogen Trafficking Wael Bahnan|Justin Boucher|Petoria Gayle|Niraj Shrestha|Mark Rosen|Bertal Aktas|Becky Adkins|Arba Ager|Wasif Khan|Kurt Schesser University of Miami Miller School of Medicine;|Janssen Research;|Harvard
http://dx.doi.org/10.1101/142414 2017-05-26 Cell Biology Control of microtubule dynamics using an optogenetic microtubule plus end-F-actin cross-linker Rebecca C Adikes|Ryan A Hallett|Brian F Saway|Brian Kuhlman|Kevin C Slep University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/142471 2017-05-26 Molecular Biology CC BY-NC-ND TRAIN in response to treatment with anti-cancer small molecule destabilizing chromatin Yekaterina Leonova|Alfiya Safina|Elimelech Nesher|Poorva Sandlesh|Rachel Pratt|Catherine Burkhart|Brittany Lipchick|Costakis Frangou|Igor Koman|Jianmin Wang|Kirill Kirsanov|Marianna Yakubovskaya|Andrei Gudkov|Katerina Gurova Roswell Park Cancer Institute;|Buffalo BioLabs;|Ariel University;|Institute of Carcinogenesis, Blokhin Cancer Research Center RAMS
http://dx.doi.org/10.1101/142786 2017-05-26 A Face Identity Hallucination (Palinopsia) Generated By Intracerebral Stimulation Of The Face-Selective Right Lateral Fusiform Cortex Jacques Jonas|Helene Brissart|Gabriela Hossu|Sophie Colnat-Coulbois|Jean-Pierre Vignal|Bruno Rossion|Louis Maillard Universite Catholique de Louvain;|Centre Hospitalier Universitaire de Nancy
http://dx.doi.org/10.1101/142810 2017-05-26 Plant Biology Genetically Engineered Orange Petunias On The Market Hany Bashandy|Teemu H. Teeri University of Helsinki
http://dx.doi.org/10.1101/142554 2017-05-26 Scientific Communication and Education CC BY Marginal Returns And Levels Of Research Grant Support Among Scientists Supported By The National Institutes Of Health Michael S. Lauer|Deepshikha Roychowdhury|Katie Patel|Rachael Walsh|Katrina Pearson National Institutes of Health
http://dx.doi.org/10.1101/142869 2017-05-26 Synthetic Biology Translation Inhibition And Resource Balance In The Cell-Free Gene Expression System Vijayalakshmi H. Nagaraj|James M. Greene|Anirvan M. Sengupta|Eduardo Sontag Rutgers University
http://dx.doi.org/10.1101/126193 2017-05-26 Immunology Single Cell Transcriptomics And Flow Cytometry Reveal Disease-Associated Fibroblast Subsets In Rheumatoid Arthritis Fumitaka Mizoguchi|Kamil Slowikowski|Jennifer L. Marshall|Kevin Wei|Deepak A. Rao|Sook Kyung Chang|Hung N. Nguyen|Erika H. Noss|Jason D. Turner|Brandon E. Earp|Philip E. Blazar|John Wright|Barry P. Simmons|Laura T. Donlin|George D. Kalliolias|Susan M. Goodman|Vivian P. Bykerk|Lionel B. Ivashkiv|James A. Lederer|Nir Hacohen|Peter A. Nigrovic|Andrew Filer|Christopher D. Buckley|Soumya Raychaudhuri|Michael B. Brenner Brigham and Women's Hospital;|Harvard University;|University of Birmingham;|Hospital for Special Surgery;|Broad Institute
http://dx.doi.org/10.1101/142851 2017-05-26 Genomics CC BY Analysis And Correction Of Compositional Bias In Sparse Sequencing Count Data M. Senthil Kumar|Eric V. Slud|Kwame Okrah|Stephanie C. Hicks|Sridhar Hannenhalli|Hector Corrada Bravo University of Maryland, College Park, MD 20740;|University of Maryland, College Park; Statist Research & Methodology, U.S. Census Bureau;|GRED Oncology Biostatistics, Genentech, San Francisco, CA;|Dana Farber Research Institute, Harvard T.H. Chan School of Public Health, Harvard University;|Center for Bioinformatics and Computational Biology, University of Maryland, College Park
http://dx.doi.org/10.1101/141697 2017-05-26 Neuroscience Rehabilitation Restores Cortical Activation Profiles And Stabilizes Synaptic Contacts After Stroke Anna Letizia Allegra Mascaro|Emilia Conti|Stefano Lai|Antonino Paolo Di Giovanna|Cristina Spalletti|Claudia Alia|Eros Quarta|Alessandro Panarese|Leonardo Sacconi|Silvestro Micera|Matteo Caleo|Francesco S. Pavone National Research Council;|LENS;|Scuola Superiore Sant Anna;|Scuola Normale Superiore;|EPFL
http://dx.doi.org/10.1101/142802 2017-05-26 Molecular Biology CC BY-NC-ND Quantitative Analysis Shows That Repair Of Cas9-Induced Double-Strand DNA Breaks Is Slow And Error-Prone Eva Karina Brinkman|Tao Chen|Marcel de Haas|Hanna Aleida Holland|Waseem Akhtar|Bas van Steensel Netherlands Cancer Institute
http://dx.doi.org/10.1101/142794 2017-05-26 Biochemistry CC BY-NC-ND A Reagentless Biosensor For mRNA: A New Tool To Study Transcription Alexander Cook|Yukti Hari-Gupta|Christopher P. Toseland University of Kent
http://dx.doi.org/10.1101/142489 2017-05-27 Neuroscience CC BY Cooperative Interactions Enable Singular Olfactory Receptor Expression Stavros Lomvardas|Ira Schieren|Kevin Monahan|Jonah Cheung|Alice Mumbey-Wafula|Edwin Monuki Columbia University;|New York Structural Biology Center;|University of California, Irvine
http://dx.doi.org/10.1101/142885 2017-05-27 Plant Biology CC BY-NC Spatial Specificity Of Auxin Responses Coordinates Wood Formation Klaus Brackmann|Virginie Jouannet|Jiyan Qi|Theresa Schlamp|Karin Gruenwald|Pablo Sanchez|Thomas Greb Gregor Mendel Institute (GMI);|Centre for Organismal Studies (COS)
http://dx.doi.org/10.1101/142877 2017-05-27 Plant Biology CC BY-ND Parsing Of Compositions And Microstructure Characteristics For Rust-Spots Of Pear Pericarp Lijun Nan|Shaobo Chen|Yashan Li|Ya Liu|Ying Jiang|Yan Yang|Chengdong Xu|Guogang Chen College of Food, Shihezi University;|School of Chemistry and Life Sciences, Chuxiong Normal University
http://dx.doi.org/10.1101/142893 2017-05-27 Synthetic Biology CC BY-NC-ND Optogenetic Single-Cell Control Of Transcription Achieves Mrna Tunability And Reduced Variability Marc Rullan|Dirk Benzinger|Gregor W. Schmidt|Ankit Gupta|Andreas Milias-Argeitis|Mustafa Khammash ETH Zurich;|University of Groningen
http://dx.doi.org/10.1101/142588 2017-05-27 Pharmacology and Toxicology CC BY-NC-ND Chondroitin sulfate elicits systemic pathogenesis in mice by interfering with gut microbiota homeostasis Tao Liao|Yan-Ping Chen|Shui-Qing Huang|Li-Li Tan|Chang-Qing Li|Xin-An Huang|Qin Xu|Qi Wang|Qing-Ping Zeng Guangzhou University of Chinese Medicine
http://dx.doi.org/10.1101/143040 2017-05-27 Bioinformatics OMSV enables accurate and comprehensive identification of large structural variations from nanochannel-based single-molecule optical maps Le Li|Tsz-Piu Kwok|Alden King-Yung Leung|Yvonne Y. Y. Lai|Iris K. Pang|Grace Tin-Yun Chung|Angel C. Y. Mak|Annie Poon|Catherine Chu|Menglu Li|Jacob J. K. Wu|Ernest T. Lam|Han Cao|Chin Lin|Justin Sibert|Siu-Ming Yiu|Ming Xiao|Kwok-Wai Lo|Pui-Yan Kwok|Ting-Fung Chan|Kevin Y. Yip The Chinese University of Hong Kong;|University of California San Francisco;|The Chinese Unversity of Hong Kong;|The University of Hong Kong;|BioNano Genomics;|Drexel University
http://dx.doi.org/10.1101/143024 2017-05-27 Bioinformatics CC BY-NC-ND An Experiment in Learning the Language of Sequence Motifs: Sequence Logos vs. Finite-State Machines Alexandre Francisco|Travis Gagie|Dominik Kempa|Leena Salmela|Sophie Sverdlov|Jarkko Toivonen|Esko Ukkonen INESC-ID / IST, University of Lisbon, Portugal;|Diego Portales University;|University of Helsinki;|Check Point Software Technologies, Ltd.
http://dx.doi.org/10.1101/143065 2017-05-27 Neuroscience CC BY-NC-ND Function of basal ganglia in tauG-guiding action David Lee|Apostolos P Georgopoulos|Gert-Jan Pepping University of Edinburgh;|University of Minnesota;|Australian Catholic University
http://dx.doi.org/10.1101/142943 2017-05-27 Developmental Biology CC BY-ND OCT4 Impedes Cell Fate Redirection By The Melanocyte Lineage Master Regulator MITF Danna Sheinboim|Itay Maza|Iris Dror|Shivang Parikh|Vladislav Krupalnik|Rachel E. Bell|Asaf Zviran|Yusuke Suita|Ofir Hakim|Yael Mandel Gutfreund|Mehdi Khaled|Jacob H. Hanna|Carmit Levy Tel Aviv University;|Weizmann Institute;|Israel Institute of Technology;|Weizmann Institute of Science;|Massachusetts General Hospital;|Bar-Ilan University;|INSERM
http://dx.doi.org/10.1101/142927 2017-05-27 Bioinformatics CC BY-NC Brain xQTL Map: Integrating The Genetic Architecture Of The Human Brain Transcriptome And Epigenome Bernard Ng|Charles C. White|Hans U. Klein|Solveig K. Sieberts|Cristin McCabe|Ellis Patrick|Jishu Xu|Lei Yu|Chris Gaiteri|David A. Bennett|Sara Mostafavi|Philip L. De Jager University of British Columbia;|Broad Institute;|Sage Bionetworks;|Rush University;|Columbia University
http://dx.doi.org/10.1101/142919 2017-05-27 Bioinformatics CC BY-NC-ND Vaxrank: A Computational Tool For Designing Personalized Cancer Vaccines Alex Rubinsteyn|Isaac Hodes|Julia Kodysh|Jeffrey Hammerbacher Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/142901 2017-05-27 Systems Biology Predicting Ligand-Dependent Tumors From Multi-Dimensional Signaling Features Helge Hass|Kristina Masson|Sibylle Wohlgemuth|Violette Paragas|John Allen|Mark Sevecka|Emily Pace|Jens Timmer|Joerg Stelling|Gavin MacBeath|Birgit Schoeberl|Andreas Raue Institute of Physics, University of Freiburg;|Merrimack Pharmaceuticals;|Dept. of Biosystems Science & Engineering and Swiss Instit. of Bioinformatics, ETH Zuerich;|Celgene;|Dept. of Biosystems Science & Engineering and Swiss Institute of Bioinformatics, ETH Zuerich
http://dx.doi.org/10.1101/142182 2017-05-27 Bioinformatics CC BY-ND Large-Scale Evolutionary Patterns of Protein Domain Distributions in Eukaryotes Arli Aditya Parikesit|Peter F Stadler|Sonja J Prohaska Indonesia International Institute for Life Sciences;|University of Leipzig
http://dx.doi.org/10.1101/142992 2017-05-27 Biochemistry CC BY Deep transcriptome annotation suggests that small and large proteins encoded in the same genes often cooperate Sondos Samandi|Annie V Roy|Vivian Delcourt|Jean-Francois Lucier|Jules Gagnon|Maxime C Beaudoin|Benoit Vanderperre|Marc-Andre Breton|Jean-Francois Jacques|Mylene Brunelle|Julie Motard|Isabelle Gagnon-Arsenault|Isabelle Fournier|Aida Ouangraoua|Darel J Hunting|Alan A Cohen|Christian R Landry|Michelle S Scott|Xavier Roucou Université de Sherbrooke;|Université Laval;|Université de Lille;|University of Sherbrooke
http://dx.doi.org/10.1101/142968 2017-05-27 Genetics Enriched expression of genes associated with autism spectrum disorders in human inhibitory neurons Ping Wang|Dejian Zhao|Herbert Lachman|Deyou Zheng Albert Einstein College of Medicine
http://dx.doi.org/10.1101/142976 2017-05-27 Biophysics Forces driving cell sorting in Hydra Olivier Cochet-Escartin|Tiffany Tian Locke|Winnie H Shi|Robert E Steele|Eva-Maria S Collins University of California, San Diego;|University of California, Irvine
http://dx.doi.org/10.1101/142380 2017-05-27 Cell Biology Acquisition of cell migration defines NK cell differentiation from hematopoietic stem cell precursors Barclay J Lee|Emily M Mace Rice University;|Baylor College of Medicine
http://dx.doi.org/10.1101/142745 2017-05-27 Microbiology CC BY-NC-ND Phosphate Is The Third Nutrient Monitored By TOR In Candida albicans And Provides A Target For Fungal-Specific Indirect TOR Inhibition Ning-Ning Liu|Peter Flanagan|Jumei Zeng|Niketa Jani|Maria E. Cardenas|Gary P. Moran|Julia R. Koehler Boston Children's Hospital and Harvard Medical School;|Division of Oral Biosciences, School of Dental Science, Trinity College Dublin, Ireland;|Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham
http://dx.doi.org/10.1101/140111 2017-05-27 CC BY-NC-ND Germline De Novo Mutation Clusters Arise During Oocyte Aging In Genomic Regions With Increased Double-Strand Break Incidence Jakob M. Goldmann|Vladimir B. Seplyarskiy|Wendy S. W. Wong|Thierry Vilboux|Dale L. Bodian|Benjamin D. Solomon|Joris A. Veltman|John F. Deeken|Christian Gilissen|John E. Niederhuber Department of Human Genetics, Radboud University Medical Center;|Division of Genetics, Brigham & Women's Hospital, Harvard Medical School;|Inova Translational Medicine Institute (ITMI), Inova Health Systems;|Institute of Genetic Medicine, International Centre for Life
http://dx.doi.org/10.1101/143149 2017-05-27 CC BY-NC-ND Obesity/Type II Diabetes Promotes Function-Limiting Changes In Flexor Tendon Extracellular Matrix Organization That Are Not Reversed By Restoring Normal Metabolic Function Melissa Glasner|Alayna Loiselle University of Rochester Medical Center
http://dx.doi.org/10.1101/143057 2017-05-27 CC BY Cell-Accurate Optical Mapping Across The Entire Developing Heart Michael Weber|Nico Scherf|Peter Kohl|Jan Huisken Harvard Medical School, United States;|Max Planck Institute for Human Cognitive and Brain Sciences, Germany;|University of Freiburg, Germany;|Morgridge Institute for Research, United States
http://dx.doi.org/10.1101/143115 2017-05-27 CC BY Discovery Of Drought-Responsive Transposable Element-Related Peach miRNAs Asli Kurden Pekmezci|Gokhan Karakulah|Turgay Unver Dokuz Eylul University
http://dx.doi.org/10.1101/143081 2017-05-27 CC BY ANNOgesic: A Pipeline To Translate Bacterial/Archaeal RNA-Seq Data Into High-Resolution Genome Annotations Sung-Huan Yu|Joerg Vogel|Konrad Ulrich Foerstner University of Wuerzburg
http://dx.doi.org/10.1101/143016 2017-05-27 CC BY Murine Glomerular Transcriptome Links Endothelial Cell-Specific Molecule-1 Deficiency With Susceptibility To Diabetic Nephropathy Xiaoyi Zheng|Fariborz Soroush|Jin Long|Evan T. Hall|Puneeth K. Adishesha|Sanchita Bhattacharya|Mohammad F. Kiani|Vivek Bhalla Division of Nephrology, Department of Medicine, Stanford University School of Medicine;|Department of Mechanical Engineering, College of Engineering, Temple University;|Institute of Computational Health Sciences, University of California
http://dx.doi.org/10.1101/143131 2017-05-27 CC BY-NC-ND Reviving A Lost Species: The Case Of The Floreana Galapagos Giant Tortoise Chelonoidis elephantopus Joshua Miller|Maud C. Quinzin|Nikos Poulakakis|James P. Gibbs|Luciano B. Beheregaray|Ryan C. Garrick|Michael A. Russello|Claudio Ciofi|Danielle L. Edwards|Elizabeth A. Hunter|Washington Tapia|Danny Rueda|Jorge Carrion|Andres A. Valdivieso|Adalgisa Caccone Yale University;|University of Crete;|State University of New York, Syracuse;|Flinders University;|University of Mississippi;|University of British Columbia, Okanagan Campus;|University of Florence;|University of California, Merced;|University of Nevada, Reno;|Galapagos Conservancy;|Galápagos National Park Directorate
http://dx.doi.org/10.1101/143156 2017-05-27 CC BY-ND TauG-Guidance Of Neonatal Vocalizing David Lee|Mateo Obregon|Jonathan Delafield-Butt University of Edinburgh;|University of Strathclyde
http://dx.doi.org/10.1101/143123 2017-05-27 Decoding The Influence Of Anticipatory States On Visual Perception In The Presence Of Temporal Distractors Freek Van Ede|Sammi R. Chekroud|Mark G. Stokes|Anna C. Nobre Oxford Centre for Human Brain Activity, University of Oxford
http://dx.doi.org/10.1101/143008 2017-05-27 CC BY-ND Rapid feedback responses are flexibly coordinated across arm muscles to support goal-directed reaching Jeffrey Weiler|Paul L. Gribble|J. Andrew Pruszynski University of Western Ontario
http://dx.doi.org/10.1101/142828 2017-05-28 Evolutionary Biology CC BY-NC-ND Mechanical And Tactile Incompatibilities Cause Reproductive Isolation Between Two Young Damselfly Species Alexandra Barnard|Ola M. Fincke|Mark A. McPeek|John P. Masly University of Oklahoma;|Dartmouth College
http://dx.doi.org/10.1101/142455 2017-05-28 CC BY Silencing Of Transposable Elements May Not Be A Major Driver Of Regulatory Evolution In Primate Induced Pluripotent Stem Cells Michelle C. Ward|Siming Zhao|Kaixuan Luo|Bryan J. Pavlovic|Mohammad M. Karimi|Matthew Stephens|Yoav Gilad University of Chicago;|Qatar Biomedical Research Institute
http://dx.doi.org/10.1101/143321 2017-05-28 CC BY SpatialDE - Identification Of Spatially Variable Genes Valentine Svensson|Sarah A. Teichmann|Oliver Stegle EMBL-EBI;|Wellcome Trust Sanger Institute;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/143313 2017-05-28 CC BY-ND Improving tauG-Control Of Action In PD Benjaman Schogler|Rachel Polokoff|Gert-Jan Pepping|Jon Perkins|David Lee University of Edinburgh;|Australian Catholic University
http://dx.doi.org/10.1101/143271 2017-05-28 Bioinformatics CC BY Dr.seq2: A Quality Control And Analysis Pipeline For Parallel Single Cell Transcriptome And Epigenome Data Chengchen Zhao|Sheng'en Hu|Xiao Huo|Yong Zhang Tongji University
http://dx.doi.org/10.1101/143164 2017-05-28 Genetics CC BY-NC-ND High-Resolution Mapping Of cis-Regulatory Variation In Budding Yeast Ryosuke Kita|Sandeep Venkataram|Yiqi Zhou|Hunter Fraser Stanford
http://dx.doi.org/10.1101/143206 2017-05-28 Cancer Biology CC BY Repurposing Tofacitinib As An Anti-Myeloma Therapeutic To Reverse Growth-Promoting Effects Of The Bone Marrow Microenvironment Christine Lam|Megan Murnane|Hui Liu|Geoffrey A. Smith|Sandy Wong|Jack Taunton|Jun O. Liu|Constantine S. Mitsiades|Byron C. Hann|Blake T. Aftab|Arun P. Wiita University of California, San Francisco;|Johns Hopkins School of Medicine;|Dana Farber Cancer Institute
http://dx.doi.org/10.1101/143248 2017-05-28 Genetics CC BY-NC-ND SRGAP2 And The Gradual Evolution Of The Modern Human Language Faculty Maties Mari|Pedro Tiago Martins|Cedric Boeckx Universitat de Barcelona;|Universitat de Barcelona/ICREA/UBICS
http://dx.doi.org/10.1101/143172 2017-05-28 Neuroscience Sleep Benefits Memory For Semantic Category Structure While Preserving Exemplar-Specific Information Anna C. Schapiro|Elizabeth A. McDevitt|Lang Chen|Kenneth A. Norman|Sara C. Mednick|Timothy T. Rogers Beth Israel Deaconess Medical Center; Harvard Medical School;|University of California-Riverside;|Stanford University School of Medicine;|Princeton University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/143263 2017-05-28 Bioinformatics CC BY-NC-ND CAM: A Quality Control Pipeline For MNase-Seq Data Sheng'en Hu|Xiaolan Chen|Ji Liao|Yiqing Chen|Chengchen Zhao|Yong Zhang School of Life Science and Technology, Tongji University
http://dx.doi.org/10.1101/143289 2017-05-28 Bioinformatics CC BY-ND Bias, Robustness And Scalability In Differential Expression Analysis Of Single-Cell RNA-Seq Data Charlotte Soneson|Mark D. Robinson Institute of Molecular Life Sciences, University of Zurich
http://dx.doi.org/10.1101/143214 2017-05-28 Plant Biology CC BY Characterization Of Imprinted Genes In Rice Reveals Post-Fertilization Regulation And Conservation At Some Loci Of Imprinting In Plant Species Chen Chen|Tingting Li|Shan Zhu|Zehou Liu|Zhenyuan Shi|Xiaoming Zheng|Rui Chen|Jianfeng Huang|Yi Shen|Shiyou Luo|Lei Wang|Qiao-Quan Liu|Zhiguo E Yangzhou University;|China National Rice Research Institute;|Rice Research Institute, Jiangxi Academy of Agricultural Sciences;|Chengdu Institute of Biology, Chinese Academy of Sciences;|Institute of Crop Sciences, Chinese Academy of Agricultural Sciences;|Tianjin Inst. of Agricultural Quality Standard & Testing Technology, Tianjin Acad. of Agriculture;|Shanghai Biotechnology Corporation;|Institute of Industrial Crops, Jiangsu Academy of Agricultural Sciences
http://dx.doi.org/10.1101/142760 2017-05-28 Bioinformatics CC BY Opportunities And Obstacles For Deep Learning In Biology And Medicine Travers Ching|Daniel S. Himmelstein|Brett K. Beaulieu-Jones|Alexandr A. Kalinin|Brian T. Do|Gregory P. Way|Enrico Ferrero|Paul-Michael Agapow|Wei Xie|Gail L. Rosen|Benjamin J. Lengerich|Johnny Israeli|Jack Lanchantin|Stephen Woloszynek|Anne E. Carpenter|Avanti Shrikumar|Jinbo Xu|Evan M. Cofer|David J. Harris|Dave DeCaprio|Yanjun Qi|Anshul Kundaje|Yifan Peng|Laura K. Wiley|Marwin H. S. Segler|Anthony Gitter|Casey S. Greene University of Hawaii at Manoa;|University of Pennsylvania;|University of Michigan;|Harvard Medical School;|GlaxoSmithKline;|Imperial College London;|Vanderbilt University;|Drexel University;|Carnegie Mellon University;|Stanford University;|University of Virginia;|Broad Institute;|Toyota Technical Institute at Chicago;|Trinity University;|University of Florida;|ClosedLoop.ai;|National Institutes of Health;|University of Colorado School of Medicine;|Westfalische Wilhelms-Universitat Munster;|University of Wisconsin-Madison and Morgridge Institute for Research
http://dx.doi.org/10.1101/142034 2017-05-28 Bioinformatics CC BY Reverse-Engineering Biological Networks From Large Data Sets Joseph Lane Natale|David Hofmann|Damian G. Hernandez|Ilya Nemenman Emory University
http://dx.doi.org/10.1101/143404 2017-05-29 Genomics CC BY Meta-Analysis Of Sequence-Based Association Studies Across Three Cattle Breeds Reveals 25 QTL For Fat And Protein Percentages In Milk At Nucleotide Resolution Hubert Pausch|Reiner Emmerling|Birgit Gredler-Grandl|Ruedi Fries|Hans D. Daetwyler|Michael E. Goddard ETH Zurich;|LfL Bayern;|Qualitas AG;|TU Muenchen;|DEDJTR;|University of Melbourne
http://dx.doi.org/10.1101/143354 2017-05-29 Neuroscience CC BY-NC-ND Single-Cell Transcriptomic Analysis Of CA1 Inhibitory Neurons Kenneth D. Harris|Carolina Bengtsson Gonzales|Hannah Hochgerner|Nathan G. Skene|Lorenza Magno|Linda Katona|Peter Somogyi|Nicoletta Kessaris|Sten Linnarsson|Jens Hjerling-Leffler UCL;|Karolinska Institute;|University of Oxford
http://dx.doi.org/10.1101/143339 2017-05-29 Developmental Biology CC BY-NC-ND The Abrogation Of Condensin Function Provides Independent Evidence For Defining The Self-Renewing Population Of Pluripotent Stem Cells Alvina Lai|Nobuyoshi Kosaka|Prasad Abnave|Sounak Sahu|Aziz Aboobaker University of Oxford
http://dx.doi.org/10.1101/143222 2017-05-29 Neuroscience CC BY-NC-ND The Brain As An Efficient And Robust Adaptive Learner Sophie Deneve|Alireza Alemi|Ralph Bourdoukan ENS
http://dx.doi.org/10.1101/143347 2017-05-29 Biochemistry CC BY Biochemical Adaptations Of The Retina And Retinal Pigment Epithelium Support A Metabolic Ecosystem In The Vertebrate Eye Mark A. Kanow|Michelle M. Giarmarco|Connor Jankowski|Kristine Tsantilas|Abbi L. Engel|Jianhai Du|Jonathan D. Linton|Christopher C. Farnsworth|Stephanie R. Sloat|Ken J. Lindsay|Edward D. Parker|Susan E. Brockerhoff|Martin Sadilek|Jennifer R. Chao|James B. Hurley University of Washington;|West Virginia University;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/143677 2017-05-29 Transcription Factors Recognize DNA Shape Without Nucleotide Recognition Md. Abul Hassan Samee|Benoit Bruneau|Katherine Pollard J. David Gladstone Institutes;|J. David Gladstone Institutes, University of California San Francisco
http://dx.doi.org/10.1101/143412 2017-05-29 Inoculation Of Biocontrol Bacteria Alleviated Panax ginseng Replanting Problem Linlin Dong|Jiang Xu|Lianjuan Zhang|Guangfei Wei|He Su|Juan Yang|Jun Qian|Ran Xu|Baosheng Liao|Liang Shen|Mingli Wu|Ruiyang Cheng|Shilin Chen Key Laboratory of Beijing for Identification and Safety Evaluation of Chinese Medicine;|Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences
http://dx.doi.org/10.1101/143594 2017-05-29 CC BY-NC Evolutionary Isolation And Phylogenetic Diversity Loss Under Random Extinction Events Mike Steel|Vahab Pourfaraj|Abhishek Chaudhary|Arne Mooers University of Canterbury;|Simon Fraser University;|ETH Zurich
http://dx.doi.org/10.1101/143586 2017-05-29 Mitigating Mitochondrial Genome Erosion Without Recombination Arunas Radzvilavicius|Hanna Kokko|Joshua Christie University of Pennsylvania;|University of Zurich
http://dx.doi.org/10.1101/143628 2017-05-29 Graphene Oxide-Quenching-Based Fluorescence In Situ Hybridization (G-FISH) To Detect RNA In Tissue: Simple And Fast Tissue RNA Diagnostics Do Won Hwang|Yoo Ri Choi|Dohyun Kim|Hye Yoon Park|Kyu Wan Kim|Mee Young Kim|Chul-Kee Park|Dong Soo Lee Seoul National Univerisity
http://dx.doi.org/10.1101/143560 2017-05-29 The Relationship Between Cancer Progression And Social Environment In Drosophila Erika Dawson|Thiphaine Bailly|Julie Dos Santos|Celine Moreno|Maelle Devilliers|Brigitte Maroni|Cedric Sueur|Andreu Casali|Beata Ujvari|Frederic Thomas|Jacques Montagne|Frederic Mery CNRS;|Universite de Strasbourg;|Institute for Research in Biomedicine;|Deakin University
http://dx.doi.org/10.1101/143578 2017-05-29 CC BY-NC-ND Microbial Network, Phylogenetic Diversity And Community Membership In The Active Layer Across A Permafrost Thaw Gradient Rhiannon Mondav|Carmody K. McCalley|Suzanne B. Hodgkins|Steve Frolking|Scott R. Saleska|Virginia I. Rich|Jeffrey P. Chanton|Patrick M. Crill Uppsala University;|Rochester Institute of Technology;|Florida State University;|University of New Hampshire;|University of Arizona;|Stockholm University
http://dx.doi.org/10.1101/143669 2017-05-29 CC BY-NC-ND Integrating Over Uncertainty In Spatial Scale Of Response Within Multispecies Occupancy Models Yields More Accurate Assessments Of Community Composition Luke O. Frishkoff|D. Luke Mahler|Marie-Josee Fortin University of Toronto
http://dx.doi.org/10.1101/143644 2017-05-29 CC BY-NC-ND Regional Polygenic Covariance Reveals Heterogeneity In The Shared Heritability Between Complex Traits Guillaume Pare|Shihong Mao|Wei Q. Deng Population Health Research Institute;|University of Toronto
http://dx.doi.org/10.1101/143073 2017-05-29 CC BY-NC-ND Optimal Number Of Spacers In CRISPR Arrays Alexander Martynov|Konstantin Severinov|Yaroslav Ispolatov Skolkovo Institute of Science and Technology;|University of Santiago de Chile
http://dx.doi.org/10.1101/143651 2017-05-29 CC BY-NC-ND Meiotic Crossover Patterning In The Absence Of ATR: Loss Of Interference And Assurance But Not The Centromere Effect Morgan Brady|Susan McMahan|Jeff Sekelsky University of North Carolina
http://dx.doi.org/10.1101/143545 2017-05-29 CC BY-NC-ND Bayesian Inference Of Phylogenetic Networks From Bi-allelic Genetic Markers Jiafan Zhu|Dingqiao Wen|Yun Yu|Heidi Meudt|Luay Nakhleh Rice University;|Museum of New Zealand Te Papa Tongarewa
http://dx.doi.org/10.1101/143495 2017-05-29 Molecular Biology CC BY-ND Polycystic Ovary Syndrome As An Endogenous Alcoholic Polycystic Ovary Syndrome Ivanildo Coutinho de Medeiros|Josivan Gomes de Lima Federal University of Rio Grande do Norte
http://dx.doi.org/10.1101/143487 2017-05-29 Systems Biology Metabolic Constraints And Quantitative Design Principles In Gene Expression During Adaption Of Yeast To Heat Shock Tania Pereira|Ester Vilaprinyo|Gemma Belli|Enric Herrero|Baldiri Salvado|Albert Sorribas|Gisela Altes|Rui Alves Universitat de Lleida & IRBLleida
http://dx.doi.org/10.1101/142844 2017-05-29 Neuroscience CC BY Global Effects Of Focal Brain Tumours On Functional Complexity And Network Robustness Michael Gavin Hart|Rafael Romero-Garcia|Stephen J. Price|John Suckling University of Cambridge
http://dx.doi.org/10.1101/143537 2017-05-29 Bioinformatics CC BY-NC nQuire: A Statistical Framework For Ploidy Estimation Using Next Generation Sequencing Clemens L. Wei|Marina Pais|Liliana M. Cano|Sophien Kamoun|Hernan A. Burbano Max Planck Institute for Developmental Biology;|The Sainsbury Laboratory;|University of Florida, Indian River Research and Education Center
http://dx.doi.org/10.1101/143529 2017-05-29 Evolutionary Biology CC BY Improved Transcriptome Sampling Pinpoints 26 Paleopolyploidy Events In Caryophyllales, Including Two Paleo-Allopolyploidy Events Ya Yang|Michael Moore|Samuel Brockington|Jessica Mikenas|Julia Olivieri|Joseph Walker|Stephen Smith University of Minnesota;|Oberlin College;|University of Cambridge;|USGS Canyonlands Research Station;|Stanford University;|University of Michigan
http://dx.doi.org/10.1101/143552 2017-05-29 Neuroscience Distinctive Behavioural Anomalies, Structural Brain Phenotypes And Cortical Hyper-Connectivity In Chd8-Deficient Mice Philipp Suetterlin|Shaun Hurley|Conor Mohan|Kimberley L. H. Riegman|Angela Caruso|Marco Pagani|Jacob Ellegood|Alberto Galbusera|Ivan Crespo-Enriquez|Caterina Michetti|Robert Ellingford|Olivier Brock|Alessio Delogu|Philippa Francis-West|Jason P. Lerch|Maria Luisa Scattoni|Alessandro Gozzi|Cathy Fernandes|Albert Basson King's College London;|Sapienzia University of Rome;|Istituto Italiano di Tecnologia;|University of Toronto;|Istituto Superiore di Sanita
http://dx.doi.org/10.1101/126342 2017-05-29 Cell Biology CC BY-NC-ND Two-Step Interphase Microtubule Disassembly Aids Spindle Morphogenesis Nunu Mchedlishvili|Helen K. Matthews|Adam Corrigan|Buzz Baum MRC Laboratory of Molecular Cell Biology and the IPLS, University College London
http://dx.doi.org/10.1101/143461 2017-05-29 Neuroscience CC BY-NC-ND Early And Late Components Of EEG Delay Activity Correlate Differently With Scene Working Memory Performance Timothy M. Ellmore|Kenneth Ng|Chelsea P. Reichert The City College of New York
http://dx.doi.org/10.1101/143446 2017-05-29 Evolutionary Biology CC BY-NC Parasite-Driven Replacement Of A Sexual By A Closely Related Asexual Taxon In Nature Jennifer N. Lohr|Christoph Haag University College London;|CNRS-UMR5175 CEFE
http://dx.doi.org/10.1101/143180 2017-05-29 Cancer Biology Clear Cell Renal Cell Carcinoma With Biallelic Inactivation Of CDKN2A/B On 9p21 Have Distinct Gene Expression Signature And Are Associated With Poor Prognosis Andrew H. Girgis University of Toronto
http://dx.doi.org/10.1101/141689 2017-05-29 Microbiology CC BY-NC-ND Nucleus Specific Expression In The Multinucleated Mushroom-Forming Fungus Agaricus bisporus Reveals Different Nuclear Regulatory Programs Thies Gehrmann|Jordi F. Pelkmans|Robin A. Ohm|Aurin M. Vos|Anton S. M. Sonnenberg|Johan J. P. Baars|Han A. B. Wosten|Marcel J. T. Reinders|Thomas Abeel Delft University of Technology;|Fungal Microbiology, Utrecht University;|Department of Biotechnology, Delft University of Technology, The Netherlands;|Plant Breeding, Wageningen University and Research;|Delft Bioinformatics Lab, Delft University of Technology
http://dx.doi.org/10.1101/143438 2017-05-29 Microbiology CC BY-NC-ND Influence Of Non-Metabolic Microbial Growth Promotors (AMP Activators) On The Sensitivity To Antimicrobials In The Actually Multiresistant Microbial Strains Artur Martynov|Tatyana Osolodchenko|Boris Farber|Sophya Farber Mechnikov Institute of Microbiology and Immunology;|Noigel LLC, R & D Department
http://dx.doi.org/10.1101/143396 2017-05-29 Biochemistry CC BY-NC-ND Theory On The Rate Equation Of Michaelis-Menten Type Single-Substrate Enzyme Catalyzed Reactions R. Murugan Indian Institute of Technology Madras
http://dx.doi.org/10.1101/141853 2017-05-29 Microbiology CC BY-ND Human Migration And The Spread Of Malaria Parasites To The New World Priscila Thihara Rodrigues|Hugo O. Valdivia|Thais C. Oliveira|Joao Marcelo P. Alves|Ana Maria R. C. Duarte|Crispim Cerutti-Junior|Julyana C. Buery|Cristiana F. A. Brito|Julio Cesar Souza|Zelinda Maria Braga Hirano|Rosely S. Malafronte|Simone Ladeia-Andrade|Toshihiro Mita|Ana Maria Santamaria|Jose E. Calzada|Fumihiko Kawamoto|Leonie R. J. Raijmakers|Ivo Mueller|Maria A. Pacheco|Ananias A. Escalante|Ingrid Felger|Marcelo Urbano Ferreira Department of Parasitology, Institute of Biomedical Sciences, University of Sao Paulo;|Institute of Biological Sciences, Federal University of Minas Gerais;|Laboratory of Biochemistry & Molecular Biology, Superintendency for the Control of Endemies;|Department of Social Medicine, Federal University of Espirito Santo;|Laboratory of Malaria, Rene Rachou Research Center, Oswaldo Cruz Foundation;|Regional University of Blumenau; Center of Biological Research of Indaial;|Laboratory of Protozoology, Institute of Tropical Medicine of Sao Paulo;|Laboratory of Parasitic Diseases, Oswaldo Cruz Institute, Oswaldo Cruz Foundation;|Department of Molecular and Cellular Parasitology, Juntendo University School of Medicine;|Department of Parasitology, Gorgas Memorial Institute of Health;|Department of Social and Environmental Medicine, Institute of Scientific Research;|Research Laboratory for Archaeology and the History of Art, University of Oxford;|Division of Population Health and Immunity, Walter and Eliza Hall Institute;|Department of Biology, Institute for Genomics and Evolutionary Medicine;|Swiss Tropical and Public Health Institute; University of Basel
http://dx.doi.org/10.1101/143453 2017-05-29 Animal Behavior and Cognition CC BY Back-Translating A Rodent Measure Of Negative Bias Into Humans: The Impact Of Induced Anxiety And Unmedicated Mood And Anxiety Disorders Jessica Aylward|Claire Hales|Emma Robinson|Oliver J. Robinson Institute of Cognitive Neuroscience, UCL;|University of Bristol
http://dx.doi.org/10.1101/143362 2017-05-29 Evolutionary Biology CC BY-NC-ND Senescence As A Defense Strategy Against Parasites Richard Y. Chin UCSF
http://dx.doi.org/10.1101/143768 2017-05-30 CC BY Precentral Gyrus Abnormal Connectivity In Male And Female Schizophrenia Patients Mahdi Zarei University of California, San Francisco
http://dx.doi.org/10.1101/143875 2017-05-30 CC BY-NC-ND To Beard, Or Not To Beard: Linking Sexual Selection On Masculinity, Embryonic Neural Crest Cells, And Human Self-Domestication Ben Thomas Gleeson Australian National University
http://dx.doi.org/10.1101/140400 2017-05-30 Evolutionary Biology CC BY Tragedy Of The Commons In The Chemostat Martin Schuster|Eric Foxall|David Finch|Hal Smith|Patrick De Leenheer Oregon State University;|Arizona State University
http://dx.doi.org/10.1101/143800 2017-05-30 Microbiology CC BY-NC-ND Genome-Wide Comparison Of Toxigenic And Non-Toxigenic Corynebacterium diphtheriae Isolates Identifies Differences In The Pan Genomes Between Respiratory And Cutaneous Strains Verlaine J. Timms|Trang Nguyen|Taryn Crighton|Marion Yuen|Vitali Sintchenko Westmead Hospital;|ICPMR-Pathology West;|University of Sydney, Westmead Hospital
http://dx.doi.org/10.1101/143891 2017-05-30 Neuroscience CC BY Different Brain Networks Underlying Intelligence In Autism Spectrum Disorders And Typically Developing Children Emmanuel P. K. Pua|Charles Malpas|Stephen Bowden|Marc Seal University of Melbourne;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/143792 2017-05-30 Evolutionary Biology CC BY High-Throughput Laboratory Evolution Of Escherichia coli Under Multiple Stress Environments Takaaki Horinouchi|Shingo Suzuki|Hazuki Kotani|Kumi Tanabe|Natsue Sakata|Hiroshi Shimizu|Chikara Furusawa Quantitative Biology Center, RIKEN;|Graduate School of Information Science and Technology, Osaka University
http://dx.doi.org/10.1101/143750 2017-05-30 Neuroscience CC BY-NC-ND Prediction (Or Not) During Language Processing. A Commentary On Nieuwland et al. (2017) And Delong et al. (2005) Shaorong Yan|Gina R. Kuperberg|T. Florian Jaeger University of Rochester;|Department of Psychology, Tufts University
http://dx.doi.org/10.1101/143842 2017-05-30 Ecology CC BY-NC Anticipating Emerging Arboviruses: What Comes After Zika? Michelle V. Evans|Courtney C. Murdock|John M. Drake University of Georgia
http://dx.doi.org/10.1101/143818 2017-05-30 Systems Biology Untargeted Metabolomics Suffers From Incomplete Data Analysis Richard Baran Baran Bioscience, LLC
http://dx.doi.org/10.1101/143735 2017-05-30 Evolutionary Biology CC BY Phylogenomic Species Delimitation In Microendemic Frogs Of The Brazilian Atlantic Forest Marcio R. Pie|Marcos R. Bornschein|Luiz F. Ribeiro|Brant C. Faircloth|John E. McCormack Universidade Federal do Parana;|Universidade Estadual Paulista;|Pontificia Universidade Catolica do Parana;|Louisiana State University;|Occidental College
http://dx.doi.org/10.1101/143776 2017-05-30 Neuroscience CC BY-NC-ND Functional Preference For Object Sounds But Not For Voices In The Occipito-Temporal Cortex Of Early Blind Individuals Giulia Dormal|Maxime Pelland|Mohamed Rezk|Esther Yakobov|Franco Lepore|Olivier Collignon Universite catholique de Louvain;|Universite de Montreal;|McGill University
http://dx.doi.org/10.1101/143867 2017-05-30 Biophysics CC BY Both Lipopolysaccharide And Lipoteichoic Acids Potently Induce Anomalous Fibrin Amyloid Formation: Assessment With Novel Amytracker™ Stains Etheresia Pretorius|Martin J. Page|Lisa Hendricks|Nondumiso B. Nkosi|Sven R. Benson|Douglas B. Kell Stellenbosch University;|The University of Manchester
http://dx.doi.org/10.1101/142687 2017-05-30 Biochemistry Structure Of Allium Lachrymatory Factor Synthase Elucidates Catalysis On Sulfenic Acid Substrate Takatoshi Arakawa|Yuta Sato|Jumpei Takabe|Noriya Masamura|Masahiro Kato|Morihiro Aoyagi|Takahiro Kamoi|Nobuaki Tsuge|Shinsuke Imai|Shinya Fushinobu The University of Tokyo;|House Foods Group Inc.
http://dx.doi.org/10.1101/143701 2017-05-30 Bioinformatics CC BY-NC-ND Unsupervised Clustering And Epigenetic Classification Of Single Cells Mahdi Zamanighomi|Zhixiang Lin|Timothy Daley|Alicia Schep|William James Greenleaf|Wing Hung Wong Stanford University
http://dx.doi.org/10.1101/143743 2017-05-30 The Human Cytoplasmic Dynein Interactome Reveals Novel Activators Of Motility William B. Redwine|Morgan E. DeSantis|Ian Hollyer|Zaw M. Htet|Phuoc T. Tran|Selene K. Swanson|Laurence Florens|Michael P. Washburn|Samara L. Reck-Peterson Harvard Medical School;|University of California San Diego;|Stowers Institute for Medical Research
http://dx.doi.org/10.1101/144097 2017-05-30 CC BY Evaluating Strategies For Reversing CRISPR-Cas9 Gene Drives Michael Vella|Christian Gunning|Alun Lloyd|Fred Gould North Carolina State University
http://dx.doi.org/10.1101/143693 2017-05-30 Time-Course Analysis Of Early Meiotic Prophase Events Informs Mechanisms Of Homolog Pairing And Synapsis In Caenorhabditis elegans Susanna Mlynarczyk-Evans|Anne M. Villeneuve Stanford University;|Stanford University School of Medicine
http://dx.doi.org/10.1101/144071 2017-05-30 CC BY-ND The Influence Of Study Characteristics On Coordinate-Based fMRI Meta-Analyses Han Bossier|Ruth Seurinck|Simone Kuhn|Tobias Banaschewski|Gareth J. Barker|Arun L. W. Bokde|Jean-Luc Martinot|Herve Lemaitre|Tomas Paus|Sabina Millenet|Beatrijs Moerkerke Department of Data Analysis, Ghent University, Ghent, Belgium;|Department of Psychiatry & Psychotherapy, University Clinic, Hamburg-Eppendorf, Germany;|Dept. of Child & Adolescent Psychiatry & Psychotherapy, Central Institute of Mental Health;|Dept. of Neuroimaging, Institute of Psychiatry, Psychology & Neuroscience, Kings College;|Discipline of Psychiatry, School of Medicine and Trinity College Institute of Neuroscience;|Institut National de la Sante et de la Recherche Medicale, INSERM Unit 1000;|Rotman Research Institute, Baycrest and Departments of Psychology and Psychiatry;|Dept. of Psychiatry and Psychotherapy, University Clinic, Hamburg-Eppendorf, Germany
http://dx.doi.org/10.1101/141135 2017-05-30 Age-specific prevalence of anti-Pgp3 antibodies and severe conjunctival scarring in the Solomon Islands Robert Butcher|Oliver Sokana|Kelvin Jack|Diana Martin|Matthew J Burton|Anthony Solomon|David Mabey|Chrissy h Roberts London School of Hygiene and Tropical Medicine;|Solomon Islands Ministry of Health and Medical Services;|US Centers for Disease Control and Prevention;|London School of Hygiene & Tropical Medicine
http://dx.doi.org/10.1101/143602 2017-05-30 CC BY-NC-ND The Kinetic Basis Of CRISPR-Cas Off-Targeting Rules Misha Klein|Behrouz Eslami-Mossallam|Dylan Gonzalez Arroyo|Martin Depken TU Delft;|Leiden University
http://dx.doi.org/10.1101/141549 2017-05-30 CC BY-ND Advancing A Science For Sustaining Health: Establishing A Model Health District in Madagascar Matthew Bonds|Andres Garchitorena|Laura Cordier|Ann C. Miller|Margaret McCarty|Benjamin Andriamihaja|Josea Ratsirarson|Andriamihaja Randrianambinina|Victor R. Rabeza|Karen Finnegan|Thomas Gillespie|Patricia C. Wright|Paul E. Farmer|Tara Loyd|Megan B. Murray|Robin M. Herrnstein|James Herrnstein|Djordje Gikic|Mohammed A. Ouenzar|Lara Hall|Michael L. Rich Harvard Medical School;|PIVOT;|MICET;|Madagascar Ministry of Health;|Madagascar Institute of Statistics;|Johns Hopkins University;|Emory University;|Stony Brook University;|Renassiance Techologies
http://dx.doi.org/10.1101/142570 2017-05-30 CC BY Directly Estimating Epidemic Curves From Genomic Data Timothy G. Vaughan|Gabriel E. Leventhal|David A. Rasmussen|Alexei J. Drummond|David Welch|Tanja Stadler University of Auckland;|Massachusetts Institute of Technology;|ETH Zurich
http://dx.doi.org/10.1101/144048 2017-05-30 Cyclin G And The Polycomb Repressive Complexes PRC1 And PR-DUB Cooperate For Developmental Stability Delphine Dardalhon-Cumenal|Jerome Deraze|Camille A. Dupont|Valerie Ribeiro|Anne Coleno-Costes|Juliette Pouch|Stephane Le Crom|Helene Thomassin-Bourrel|Vincent Debat|Neel B. Randsholt|Frederique Peronnet CNRS;|UPMC;|IBENS;|MNHN
http://dx.doi.org/10.1101/136432 2017-05-30 Epidemiology Fetal death certificate data quality: A tale of two US counties Lauren Christiansen-Lindquist|Robert M. Silver|Corette B. Parker|Donald J. Dudley|Matthew A. Koch|Uma M. Reddy|George R. Saade|Robert L. Goldenberg|Carol J. R. Hogue Emory University;|University of Utah Health Sciences Center;|RTI International;|Division of Maternal-Fetal Medicine, University of Virginia;|Eunice Kennedy Shriver National Institute of Child Health and Human Development;|University of Texas Medical Branch at Galveston;|Department of Obstetrics and Gynecology, Columbia University
http://dx.doi.org/10.1101/141499 2017-05-30 Evolutionary Biology CC BY-NC Protein Evolution Depends On Multiple Distinct Population Size Parameters Alexander Platt|Claudia C. Weber|David A. Liberles Temple University
http://dx.doi.org/10.1101/144089 2017-05-30 Genomics CC BY-NC-ND Contrasting Patterns Of Evolutionary Constraint And Novelty Revealed By Comparative Sperm Proteomic Analysis Emma Whittington|Desiree Forsythe|Timothy L. Karr|James Walters|Steve Dorus University of Syracuse;|University of Rhode Island;|Kyoto Institute of Technology;|University of Kansas
http://dx.doi.org/10.1101/143388 2017-05-30 Cancer Biology PI3K Activation In Neural Stem Cells Drives Tumorigenesis Which Can Be Suppressed By Targeting CREB Paul Daniel|Gulay Filiz|Daniel Brown|Michael Christie|Paul Waring|Yi Zhang|John Haynes|Colin Pouton|Dustin Flanagan|Elizabeth Vincan|Terrance Johns|Karen Montgomery|Wayne Phillips|Theo Mantamadiotis McGill University Health Centre and RI-MUHC;|The University of Melbourne;|Vlaams Instituut voor Biotechnologie: KU Leuven;|Monash University;|Hudson Institute of Medical Research;|Peter MacCallum Cancer Centre
http://dx.doi.org/10.1101/144063 2017-05-30 Neuroscience CC BY-NC-ND Monocyte-Lymphocyte Cross-Communication Via Soluble CD163 Directly Links Innate Immune System Activation And Adaptive Immune System Suppression Following Ischemic Stroke Grant C. O'Connell|Connie S. Tennant|Noelle Lucke-Wold|Yasser Kabbani|Abdul R. Tarabishy|Paul D. Chantler|Taura L. Barr West Virginia University;|Ruby Memorial Hospital;|Valtari Bio Incorporated
http://dx.doi.org/10.1101/143826 2017-05-30 Developmental Biology CC BY Lamellar Junctions In The Endolymphatic Sac Act As A Relief Valve To Regulate Inner Ear Pressure Ian A. Swinburne|Kishore R. Mosaliganti|Srigokul Upadhyayula|Tsung-Li Liu|David Grant Colburn Hildebrand|Tony Tsai|Anzhi Chen|Ebaa Al-Obeidi|Anna Fass|Samir Malhotra|Florian Engert|Jeff W. Lichtman|Tom Kirchhausen|Eric Betzig|Sean G. Megason Harvard Medical School;|Howard Hughes Medical Institute;|Harvard University;|Janelia Farm Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/143727 2017-05-30 Neuroscience CC BY Conserved Neural Circuit Structure Across Drosophila Larva Development Revealed By Comparative Connectomics Stephan Gerhard|Ingrid Andrade|Richard D. Fetter|Albert Cardona|Casey M. Schneider-Mizell Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/144022 2017-05-30 Genetics CC BY FGF4 Retrogene On CFA12 Is Responsible For Chondrodystrophy And Intervertebral Disc Disease In Dogs Emily A. Brown|Peter J. Dickinson|Tamer Mansour|Beverly K. Sturges|Miriam Aguilar|Amy E. Young|Courtney Korff|Jenna Lind|Cassandra L. Ettinger|Samuel Varon|Rachel Pollard|C. Titus Brown|Terje Raudsepp|Danika L. Bannasch University of California, Davis;|Barney and Russum Animal Clinic;|Texas A&M University
http://dx.doi.org/10.1101/143982 2017-05-30 Developmental Biology Skeletal Cell YAP And TAZ Redundantly Promote Bone Development By Regulation Of Collagen I Expression And Organization Christopher D. Kegelman|Devon E. Mason|James H. Dawahare|Genevieve D. Vigil|Scott S. Howard|Teresita M. Bellido|Alexander G. Robling|Joel Boerckel University of Notre Dame, University of Pennsylvania;|University of Notre Dame;|Indiana University School of Medicine
http://dx.doi.org/10.1101/143917 2017-05-30 Genomics CC BY-NC-ND Complete Transcriptome Profiling Of Normal And Age-Related Macular Degeneration Eye Tissues Reveals Changes In Regulation Of Non-Coding RNA And Extreme Disregulation Of Anti-Sense Transcription Eun Ji Kim|Gregory Robert Grant|Anita S. Bowman|Naqi Haider|Harini V. Gudiseva|Venkata Ramana Murthy Chavali University of Pennsylvania
http://dx.doi.org/10.1101/143966 2017-05-30 Systems Biology High-throughput, image-based screening of genetic variant libraries George Emanuel|Jeffrey R Moffitt|Xiaowei Zhuang Harvard University
http://dx.doi.org/10.1101/137281 2017-05-30 Plant Biology CC BY-NC-ND ALUMINUM RESISTANCE TRANSCRIPTION FACTOR 1 (ART1) underlies a major Al resistance QTL and interacts with natural variation in the genetic background to quantitatively regulate Al resistance in rice. Juan David Arbelaez|Lyza G Maron|Timothy O Jobe|Miguel A Pineros|Adam N Famoso|Ana R Rebelo|Namrata Singh|Qiyue Ma|Zhangjun Fei|Leon V Kochian|Susan R McCouch Cornell University;|Boyce Thompson Institute;|Robert W. Holley Center for Agriculture and Health, USDA-ARS
http://dx.doi.org/10.1101/143925 2017-05-30 Bioinformatics CC BY Methods For Estimation Of Model Accuracy In CASP12 Arne Elofsson|Keehyoung Joo|Chen Keasar|Jooyoung Lee|Ali H. A. Maghrabi|Balachandran Manavalan|Liam McGuffin|David Menendez Hurtado|Claudio Mirabello|Robert Pilstal|Tomer Sidi|Karolis Uziela|Bjorn Wallner Stockholm University;|Center for In Silico Protein Science & School of Computational Sciences, KIAS;|Department of Computer Science, Ben Gurion University of the Negev, Israel;|School of Biological Sciences, University of Reading, Whiteknights, Reading;|Dept. of Biochemistry & Biophysics and Science for Life Laboratory, Stockholm University;|Department of Physics, Chemistry, and Biology, Bioinformatics Division, Linkoping University;|Department of Physics, Chemistry, & Biology, Bioinformatics Division, Linkoping University
http://dx.doi.org/10.1101/143974 2017-05-30 Molecular Biology Global Gene Repression By Dicer-Independent tRNA Fragments Canan Kuscu|Pankaj Kumar|Manjari Kiran|Zhangli Su|Asrar Malik|Anindya Dutta University of Virginia
http://dx.doi.org/10.1101/143883 2017-05-30 Plant Biology CC BY-NC-ND Lipid transfer from plants to arbuscular mycorrhiza fungi Andreas Keymer|Priya Pimprikar|Vera Wewer|Claudia Huber|Mathias Brands|Simone Bucerius|Pierre-Marc Delaux|Verena Klingl|Edda von Roepenack-Lahaye|Trevor L Wang|Wolfgang Eisenreich|Peter Doermann|Martin Parniske|Caroline Gutjahr LMU Munich;|University of Cologne;|TU Munich;|University of Bonn;|CNRS Toulouse;|University of Tuebingen;|John Innes Center Norwich
http://dx.doi.org/10.1101/143909 2017-05-30 Neuroscience CC BY-NC-ND Local Signal Processing In Mouse Horizontal Cell Dendrites Camille A. Chapot|Luke E. Rogerson|Tom Baden|Sinziana Pop|Philipp Berens|Thomas Euler|Timm Schubert Institute for Ophthalmic Research / CIN, University of Tuebingen, 72076 Tuebingen, Germany;|School of Life Sciences, University of Sussex, Brighton, United Kingdom
http://dx.doi.org/10.1101/133827 2017-05-31 Genetics CC BY-NC-ND Partitioning Phenotypic Variance Due To Parent-Of-Origin Effects Using Genomic Relatedness Matrices Charles A. Laurin|Gabriel Cuellar-Partida|Gibran Hemani|George Davey Smith|Jian Yang|David M. Evans University of Bristol;|University of Queensland;|MRC Integrative Epidemiology Unit
http://dx.doi.org/10.1101/144360 2017-05-31 Cell Biology The Cell Polarity Proteins Boi1p And Boi2p Stimulate Vesicle Fusion At The Plasma Membrane Of Yeast Cells Jochen Kustermann|Yehui Wu|Lucia Rieger|Dirk Dedden|Tamara Phan|Paul Walther|Alexander Duenkler|Nils Johnsson Ulm University
http://dx.doi.org/10.1101/144220 2017-05-31 Microbiology Recipient-Biased Competition For A Cross-Fed Nutrient Is Required For Coexistence Of Microbial Mutualists Alexandra L. McCully|Breah LaSarre|James B. McKinlay Indiana University
http://dx.doi.org/10.1101/144436 2017-05-31 Neuroscience CC BY Stochastic Simulation Of Dopamine Neuromodulation For Implementation Of Fluorescent Neurochemical Probes In The Striatal Extracellular Space Abraham Beyene|Ian R. McFarlane|Rebecca Pinals|Markita Landry University of California Berkeley
http://dx.doi.org/10.1101/144279 2017-05-31 Neuroscience CC BY-NC-ND Coupling Of Tactile LFP Signals Between Mouse Cortex And Olfactory Bulb Ana Parabucki|Ilan Lampl Weizmann Institute of Science
http://dx.doi.org/10.1101/144444 2017-05-31 Ecology CC BY-NC-ND Foresight Is Required To Enforce Sustainability Under Time-Delayed Biodiversity Loss Anne-Sophie Lafuite|Claire de Mazancourt|Michel Loreau Centre for Biodiversity Theory and Modelling, CNRS and Paul Sabatier University
http://dx.doi.org/10.1101/144287 2017-05-31 Evolutionary Biology CC BY-ND Strategies For Partitioning Clock Models In Phylogenomic Dating: Application To The Angiosperm Evolutionary Timescale Charles S. P. Foster|Simon Y. W. Ho University of Sydney
http://dx.doi.org/10.1101/144147 2017-05-31 Scientific Communication and Education CC BY BioSharing: Harnessing Metadata Standards For The Data Commons Susanna-Assunta Sansone|Alejandra Gonzalez-Beltran|Philippe Rocca-Serra|Peter McQuilton|Massimiliano Izzo|Allyson Lister|Milo Thurston University of Oxford
http://dx.doi.org/10.1101/143859 2017-05-31 Evolutionary Biology CC BY-NC-ND Whole Genome Sequences Of Malawi Cichlids Reveal Multiple Radiations Interconnected By Gene Flow Milan Malinsky|Hannes Svardal|Alexandra M. Tyers|Eric A. Miska|Martin J. Genner|George F. Turner|Richard Durbin University of Basel, Switzerland;|Wellcome Trust Sanger Institute, UK;|Bangor University, UK;|University of Cambridge, UK;|University of Bristol, UK
http://dx.doi.org/10.1101/144238 2017-05-31 Cell Biology CC BY-NC-ND Deconvolution Of Subcellular Protrusion Heterogeneity And The Underlying Actin Regulator Dynamics From Live Cell Imaging Chuangqi Wang|Hee June Choi|Sung-Jin Kim|Yongho Bae|Kwonmoo Lee Worcester Polytechnic Institute;|University at Buffalo
http://dx.doi.org/10.1101/144394 2017-05-31 Genomics CC BY-NC-ND A Model-Free Approach For Detecting Genomic Regions Of Deep Divergence Using The Distribution Of Haplotype Distances Mats Pettersson|Marcin Kierczak|Markus Sallman Almen|Sangeet Lamichhaney|Leif Andersson Uppsala University
http://dx.doi.org/10.1101/144303 2017-05-31 Genomics CC BY-NC-ND Moderate Nucleotide Diversity In The Atlantic Herring Is Associated With A Low Mutation Rate Chungang Feng|Mats Pettersson|Sangeet Lamichhaney|Carl-Johan Rubin|Nima Rafati|Michele Casini|Arild Folkvord|Leif Andersson Uppsala University;|Swedish University of Agricultural Sciences;|University of Bergen;|Uppsala university
http://dx.doi.org/10.1101/144204 2017-05-31 Biophysics CC BY On The Use Of The Experimentally Determined Enzyme Inhibition Constant As A Measure Of Absolute Binding Affinity Fouad H. Darras|Yuan-Ping Pang Mayo Clinic
http://dx.doi.org/10.1101/144386 2017-05-31 Systems Biology Systems Biology Analysis Using A Genome-Scale Metabolic Model Shows That Phosphine Triggers Global Metabolic Suppression In A Resistant Strain Of C. elegans Li Ma|Angelo Hoi Chung Chan|Jake Park Noel Hattwell|Paul R. Ebert|Horst Joachim Schirra The University of Queensland, School of Biological Sciences, Brisbane, QLD, Australia, 4072;|The University of Queensland, Centre for Advanced Imaging, Brisbane, QLD, Australia, 4072;|The University of Queensland
http://dx.doi.org/10.1101/144113 2017-05-30 Immunology Characterization Of Vif Domains That Mediate Feline Immunodeficiency Virus Antagonism Of APOBEC3-H And APOBEC3-CH Restriction Olivia Lauren Sims|Ernest Maynard|Eric M. Poeschla UCSF;|Uniformed Services University of the Health Sciences;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/144139 2017-05-30 Evolutionary Biology CC BY Evolutionary Dynamics Of Incubation Periods Bertrand Ottino-Loffler|Jacob G. Scott|Steven H. Strogatz Cornell University;|Cleveland Clinic
http://dx.doi.org/10.1101/144154 2017-05-30 Neuroscience Cooperative Contributions of Structural and Functional Connectivity to Successful Memory and Aging Simon W Davis|Amanda Szymanski|Homa Boms|Thomas Fink|Roberto Cabeza Duke University
http://dx.doi.org/10.1101/144170 2017-05-30 Evolutionary Biology CC BY-NC-ND R2s for Correlated Data: Phylogenetic Models, LMMs, and GLMMs Anthony Ives UW-Madison
http://dx.doi.org/10.1101/144576 2017-05-31 The underestimated importance of acute infections by human papillomaviruses Samuel Alizon|Carmen Lia Murall|Ignacio G. Bravo CNRS
http://dx.doi.org/10.1101/144519 2017-05-31 CC BY A Standard Operating Procedure For Outlier Removal In Large-Sample Epidemiological Transcriptomics Datasets Hege Marie Bvelstad|Einar Holsb|Lars Ailo Bongo|Eiliv Lund Norwegian Institute of Public Health;|UiT - The Arctic University of Norway
http://dx.doi.org/10.1101/143511 2017-05-31 CC BY-NC-ND Metabolic Effects Of Risk Alleles In PNPLA3, TM6SF2, GCKR, And LYPLAL1 Inform About Heterogeneity Of Non-Alcoholic Fatty Liver Disease Eeva Sliz|Sylvain Sebert|Peter Wurtz|Antti Kangas|Pasi Soininen|Terho Lehtimaki|Mika Kahonen|Jorma Viikari|Minna Mannikko|Mika Ala-Korpela|Olli Raitakari|Johannes Kettunen University of Oulu;|University of Helsinki;|Nightingale Health Ltd.;|University of Tampere;|Turku University Hospital;|University of Turku
http://dx.doi.org/10.1101/144683 2017-05-31 CC BY A self-organizing memory network Callie Federer|Joel Zylberberg University of Colorado Anschutz Medical Campus
http://dx.doi.org/10.1101/144493 2017-05-31 Associations Of Prenatal And Postnatal Growth With Insulin-Like Growth Factor-I Levels In Pre-Adolescence Ryan Arathimos|Corrie Macdonald-Wallis|Caroline J. Bull|Jeff M. P. Holly|Emily Oken|Michael S. Kramer|Nina Gusina|Natalia Bogdanovich|Konstantin Vilchuck|Rita Patel|Richard M. Martin|Kate Tilling University of Bristol;|Harvard Medical School and Harvard Pilgrim Health Care Institute;|McGill University;|National Research and Applied Medicine Mother and Child Centre
http://dx.doi.org/10.1101/144352 2017-05-31 CC BY-NC-ND Breastfeeding And Risk Of Asthma, Hay Fever And Eczema Weronica Ek|Torgny Karlsson|Carlos Azuaje Hernandez|Mathias Rask-Andersen|Asa Johansson Uppsala University
http://dx.doi.org/10.1101/144709 2017-05-31 Pantothenate auxotrophy in Zymomonas mobilis ZM4 is due to a lack of aspartate decarboxylase activity Jennifer R Gliessman|Timothy A Kremer|Amee A Sangani|Sara E Jones-Burrage|James B McKinlay Indiana University
http://dx.doi.org/10.1101/144675 2017-05-31 CC BY-NC-ND Copy number variants implicate cardiac function and development pathways in earthquake-induced stress cardiomyopathy Cameron Lacey|Kit Doudney|Paul Bridgman|Peter M George|Roger T Mulder|Julie J Zarifeh|Bridget Kimber|Murray J Cadzow|Michael A Black|Tony Merriman|Klaus Lehnert|Vivienne M Bickley|John F Pearson|Vicky A Cameron|Martin A Kennedy University of Otago;|Canterbury District Health Board;|University of Auckland
http://dx.doi.org/10.1101/144543 2017-05-31 CC BY-NC-ND Learning And Transfer Of Working Memory Gating Policies Apoorva Bhandari|David Badre Cognitive, Linguistic, and Psychological Sciences, Brown University
http://dx.doi.org/10.1101/144337 2017-05-31 CC BY-NC The Reproducibility Of Research And The Misinterpretation Of P Values David Colquhoun University College London
http://dx.doi.org/10.1101/144667 2017-05-31 CC BY-NC-ND Morphological And Transcriptomic Evidence For Ammonium Induction Of Sexual Reproduction In Thalassiosira pseudonana And Other Centric Diatoms Eric R. Moore|Briana S. Bullington|Alexandra J. Weisberg|Yuan Jiang|Jeff Chang|Kimberly Halsey Oregon State University
http://dx.doi.org/10.1101/142059 2017-05-31 CC BY The Rate Of Evolution Of Postmating-Prezygotic Reproductive Isolation In Drosophila David A. Turissini|Joseph A. McGirr|Sonali S. Patel|Jean R. David|Daniel R. Matute University of North Carolina, Chapel Hill;|LEGS, CNRS
http://dx.doi.org/10.1101/144501 2017-05-31 SCENIC: Single-Cell Regulatory Network Inference And Clustering Sara Aibar|Carmen Bravo Gonzalez-Blas|Thomas Moerman|Jasper Wouters|Van Anh Huynh-Thu|Hana Imrichova|Zeynep Kalender Atak|Gert Hulselmans|Michael Dewaele|Florian Rambow|Pierre Geurts|Jan Aerts|Jean-Christophe Marine|Joost van den Oord|Stein Aerts VIB-KU Leuven;|KU Leuven - ESAT / IMEC;|University of Liege;|KU Leuven
http://dx.doi.org/10.1101/144550 2017-05-31 Rhythmic Activity In The Medial Frontal Cortex Encodes Relative Reward Value Linda M. Amarante|Marcelo A. Caetano|Mark Laubach American University;|Universidade Federal do ABC
http://dx.doi.org/10.1101/144535 2017-05-31 Protein Profiling In Cancer Cell Lines And Tumor Tissue Using Reverse Phase Protein Arrays Xiaohong Jing|Weiqing Wang|Nicholas P. Gauthier|Poorvi Kaushik|Alex Root|Richard R. Stein|Anil Korkut|Chris Sander Memorial Sloan Kettering Cancer Center;|Memorial Sloan Kettering Cancer Center and Dana-Farber Cancer Institute;|Memorial Sloan Kettering Cancer Center and University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/144584 2017-05-31 CC BY-NC-ND Compositional Canonical Correlation Analysis Jan Graffelman|Vera Pawlowsky-Glahn|Juan Jose Egozcue|Antonella Buccianti Technical University of Catalonia;|Universitat de Girona;|University of Florence
http://dx.doi.org/10.1101/144626 2017-05-31 CC BY Plasticity Of Plant Defense And Its Evolutionary Implications In Wild Populations Of Boechera stricta Maggie Wagner|Thomas Mitchell-Olds North Carolina State University;|Duke University
http://dx.doi.org/10.1101/139360 2017-05-31 Heart-Specific Activin Signaling Promotes Cardiomyopathy And Organismal Aging Through Autophagy Inhibition Kai Chang|Ping Kang|Ying Liu|Kerui Huang|Erika Taylor|Rolf Bodmer|Karen Ocorr|Hua Bai Iowa State University;|Sanford Burnham Prebys Medical Discovery Institute
http://dx.doi.org/10.1101/144592 2017-05-31 Task-Dependent Representations Of Stimulus And Choice In Mouse Parietal Cortex Gerald Pho|Michael Goard|Jonathan Woodson|Benjamin Crawford|Mriganka Sur MIT;|UCSB
http://dx.doi.org/10.1101/144568 2017-05-31 CC BY Bacterial Colonization Stimulates A Complex Physiological Response In The Immature Human Intestinal Epithelium David R. Hill|Sha Huang|Courtney Fields|Dishari Mukherjee|Brooke Bons|Shrikar Thodla|Priya H. Dedhia|Alana M. Chin|Yu-Hwai Tsai|Melinda S. Nagy|Thomas Schmidt|Seth Walk|Vincent B. Young|Jason R. Spence University of Michigan;|Montana State University
http://dx.doi.org/10.1101/144600 2017-05-31 CC BY-NC-ND Genome-Enabled Insights Into The Ecophysiology Of The Comammox Bacterium Candidatus Nitrospira nitrosa Pamela Y. Camejo|Jorge Santo Domingo|Katherine D. McMahon|Daniel R. Noguera University of Wisconsin - Madison;|Environmental Protection Agency
http://dx.doi.org/10.1101/144642 2017-05-31 CC BY Biogeography & Environmental Conditions Shape Phage & Bacteria Interaction Networks Across The Human Microbiome Geoffrey D. Hannigan|Melissa B. Duhaime|Danai Koutra|Patrick D. Schloss University of Michigan
http://dx.doi.org/10.1101/144634 2017-05-31 CC BY-NC-ND Theta Phase Synchronization Between The Human Hippocampus And The Prefrontal Cortex Supports Learning Of Unexpected Information Matthias J. Gruber|Liang-Tien Hsieh|Bernhard Staresina|Christian Elger|Juergen Fell|Nikolai Axmacher|Charan Ranganath Cardiff University;|University of California at Davis;|University of Birmingham;|University of Bonn;|University of Bochum
http://dx.doi.org/10.1101/144477 2017-05-31 CC BY Precise Timing Of Sensory Modulations Coupled To Eye Movements During Active Vision Christ Devia|Rodrigo Montefusco-Siegmund|Jose Ignacio Egana|Pedro E. Maldonado Biomedical Neuroscience Institute, Universidad de Chile;|Departamento de Anestesiologia y Reanimacion, Facultad de Medicina, Universidad de Chile;|Departamento de Neurociencias, Facultad de Medicina, Universidad de Chile
http://dx.doi.org/10.1101/144410 2017-05-31 Refining The Accuracy Of Validated Target Identification Through Coding Variant Fine-Mapping In Type 2 Diabetes Anubha Mahajan|Jennifer Wessel|Sara Willems|Wei Zhao|Neil R Robertson|Audrey Y Chu|Wei Gan|Hidetoshi Kitajima|Robert A Scott|Ines Barroso|Timothy M Frayling|Mark O Goodarzi|James B Meigs|Michael Boehnke|Danish Saleheen|Andrew P. Morris|Jerome I. Rotter|Mark I. McCarthy Wellcome Trust Centre for Human Genetics, University of Oxford;|Departments of Epidemiology and Medicine, Diabetes Translational Research Center, Indiana University;|MRC Epidemiology Unit, Institute of Metabolic Science, University of Cambridge;|Department of Biostatistics and Epidemiology, University of Pennsylvania;|National Heart, Lung, and Blood Institute's Framingham Heart Study;|Department of Human Genetics, Wellcome Trust Sanger Institute;|Genetics of Complex Traits, University of Exeter Medical School;|Division of Endocrinology, Diabetes and Metabolism, Cedars-Sinai Medical Center;|General Medicine Div, Massachusetts General Hospital and Dept of Medicine, Harvard Medical School;|Department of Biostatistics and Center for Statistical Genetics, University of Michigan;|Depts. of Pediatrics and Medicine, Institute for Translational Genomics & Population Science
http://dx.doi.org/10.1101/141754 2017-05-31 Cancer Biology Improving Leukemic CD34+/CD38- Blasts Characterization With Single-Cell Transcriptome Sequencing Ambra Sartori|Phil Cheng|Emilie Falconnet|Pascale Ribaux|Jean-Pierre Aubry-Lachainaye|Mitchell P. Levesque|Stylianos E. Antonarakis|Thomas Matthes|Christelle Borel University of Geneva Medical School;|University Hospital Zurich;|Geneva University Hospital
http://dx.doi.org/10.1101/144295 2017-05-31 Genetics CC BY Human PRDM9 Can Bind And Activate Promoters, And Other Zinc-Finger Proteins Associate With Reduced Recombination In cis Nicolas Altemose|Nudrat Noor|Emmanuelle Bitoun|Afidalina Tumian|Michael Imbeault|J. Ross Chapman|A. Radu Aricescu|Simon R. Myers University of California, Berkeley;|Harvard University;|University of Oxford;|International Islamic University Malaysia;|EPFL;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/143719 2017-06-01 Developmental Biology CC BY-NC Interphase-Arrested Drosophila Embryos Initiate Mid-Blastula Transition At A Low Nuclear-Cytoplasmic Ratio Isaac Strong|Kai Yuan|Patrick H. O'Farrell UCSF
http://dx.doi.org/10.1101/144816 2017-06-01 Bioinformatics CC BY-NC-ND Reproducible Bioconductor Workflows Using Browser-Based Interactive Notebooks And Containers Reem Almugbel|Ling-Hong Hung|Jiaming Hu|Abeer M. Almutairy|Nicole E. Ortogero|Yashaswi Tamta|Ka Yee Yeung Institute of Technology, University of Washington Tacoma;|Madigan Army Medical Center
http://dx.doi.org/10.1101/144808 2017-06-01 Developmental Biology CC BY-NC-ND A Varroa Destructor Protein Atlas Reveals Molecular Underpinnings Of Developmental Transitions And Sexual Differentiation Alison McAfee|Queenie W. T. Chan|Jay Evans|Leonard J. Foster UBC;|USDA
http://dx.doi.org/10.1101/144121 2017-06-01 Immunology Beyond Autoantibodies: Biological Roles Of Human Autoreactive B Cells In Rheumatoid Arthritis Revealed By Whole Transcriptome Profiling Ankit Mahendra|Xingyu Yang|Shaza Abnouf|Daechan Park|Sanam Soomro|Jay R. T. Adolacion|Jason Roszik|Cristian Coarfa|Gabrielle Romain|Keith Wanzeck|S. Louis Bridges|Amita Aggarwal|Peng Qiu|Sandeep Krishna Agarwal|Chandra Mohan|Navin Varadarajan Department of Chemical & Biomolecular Engineering, University of Houston, Houston, TX;|Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, Georgia;|Center for Theragnosis, Biomedical Research Institute, Korea Institute of Science and Technol.;|Department of Biomedical Engineering, University of Houston, Houston, TX;|Dept. of Melanoma Medical Oncology, University of Texas MD Anderson Cancer Center;|Department of Molecular and Cell Biology, Baylor College of Medicine, Houston, TX;|Division of Clinical Immunology & Rheumatology, University of Alabama at Birmingham;|Dept. of Clinical Immunology, Sanjay Gandhi Postgraduate Institute of Medical Sciences, India;|Section of Immunology, Department of Medicine, Baylor College of Medicine, Houston, TX
http://dx.doi.org/10.1101/144774 2017-06-01 Bioinformatics CC BY-ND Software For The Integration Of Multi-Omics Experiments In Bioconductor Marcel Ramos|Lucas Schiffer|Angela Re|Rimsha Azhar|Azfar Basunia|Carmen Rodriguez Cabrera|Tiffany Chan|Philip Chapman|Sean Davis|David Gomez-Cabrero|Aedin C. Culhane|Benjamin Haibe-Kains|Kasper Hansen|Hanish Kodali|Marie Stephie Louis|Arvind Singh Mer|Markus Riester|Martin Morgan|Vincent Carey|Levi Waldron CUNY School of Public Health;|Laboratory of Translational Genomics, Centre for Integrative Biology, University of Trento;|Harvard T.H. Chan School of Public Health;|Cancer Research UK Manchester Institute, The University of Manchester;|Center for Cancer Research, National Cancer Institute, National Institutes of Health;|Mucosal and Salivary Biology Division, King's College London Dental Institute;|Dana-Farber Cancer Institute;|Princess Margaret Cancer Center, University Health Network;|Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health;|Novartis Institutes for BioMedical Research;|Roswell Park Cancer Institute, University of Buffalo;|Channing Div. of Network Medicine, Brigham & Women's Hospital and Harvard Medical School
http://dx.doi.org/10.1101/144733 2017-06-01 Animal Behavior and Cognition Recency Order Judgments In Short Term Memory: Replication And Extension Of Hacker (1980) Inder Singh|Marc W. Howard Boston University
http://dx.doi.org/10.1101/145078 2017-06-01 CC BY-NC-ND Detection Of Human Disease Conditions By Single-Cell Morpho-Rheological Phenotyping Of Whole Blood Nicole Toepfner|Christoph Herold|Oliver Otto|Philipp Rosendahl|Angela Jacobi|Martin Krater|Julia Stachele|Leonhard Menschner|Maik Herbig|Laura Ciuffreda|Lisa Ranford-Cartwright|Michal Grzybek|Unal Coskun|Elisabeth Reithuber|Genevieve Garriss|Peter Mellroth|Birgitta Henriques-Normark|Nicola Tregay|Meinolf Suttorp|Martin Bornhauser|Edwin R. Chilvers|Reinhard Berner|Jochen Guck TU Dresden;|Zellmechanik Dresden GmbH;|University of Glasgow;|Karolinska Institutet;|University of Cambridge
http://dx.doi.org/10.1101/145136 2017-06-01 CC BY-NC-ND Genetically modified human type II collagen for N- and C-terminal covalent tagging Andrew Wieczorek|Clara K. Chan|Suzana Kovacic|Cindy Li|Thomas Dierks|Nancy R. Forde Simon Fraser University;|Bielefeld University
http://dx.doi.org/10.1101/145128 2017-06-01 CC BY Short tandem repeats with massive variation and functional consequences across strains of Arabidopsis thaliana Maximilian O Press|Rajiv C McCoy|Ashley N Hall|Joshua M Akey|Christine Queitsch University of Washington
http://dx.doi.org/10.1101/142190 2017-06-01 CC BY-NC-ND Ephemeral-Habitat Colonization And Neotropical Species Richness Of Caenorhabditis Nematodes Celine Ferrari|Romain Salle|Nicolas Callemeyn-Torre|Richard Jovelin|Asher D. Cutter|Christian Braendle Universite Cote d'Azur;|University of Toronto
http://dx.doi.org/10.1101/145060 2017-06-01 CC BY-NC-ND Actin Impacts The Late Stages Of Prion Formation And Prion Propagation Douglas R. Lyke|Jane E. Dorweiler|Emily R. Legan|Brett T. Wisniewski|Emily E. Davis|Anita L. Manogaran Marquette University
http://dx.doi.org/10.1101/144956 2017-06-01 CC BY-NC-ND Anatomical Predictors Of Recovery From Visual Neglect After Prism Adaptation Therapy Marine Lunven|Gilles Rode|Clemence Bourlon|Christophe Duret|Raffaella Migliaccio|Emmanuel Chevrillon|Michel Thiebaut de Schotten|Paolo Bartolomeo Inserm U 1127, Institut du Cerveau et de la Moelle Epiniere;|Inserm UMR_S 1028, Hopital Henry-Gabrielle;|Hopitaux de Saint Maurice, Saint Maurice, France;|Unite de Reeducation Neurologique CRF Les Trois Soleils Boissise le Roi, France;|Clinique du Bourget, Le Bourget, France
http://dx.doi.org/10.1101/144832 2017-06-01 CC BY-NC-ND Causal Modeling Dissects Tumour–Microenvironment Interactions In Breast Cancer Leon Chlon|Florian Markowetz University of Cambridge
http://dx.doi.org/10.1101/144790 2017-06-01 CC BY-NC-ND Genome Sequencing Links Persistent Outbreak Of Legionellosis In Sydney To An Emerging Clone Of Legionella pneumophila ST211 Verlaine J. Timms|Rebecca Rockett|Nathan L. Bachmann|Elena Martinez|Qinning Wang|Sharon C.-A. Chen|Neisha Jeoffreys|Peter J. Howard|Anna Smith|Sheena Adamson|Robin Gilmour|Vicky Sheppeard|Vitali Sintchenko Centre for Infectious Diseases and Microbiology - Public Health, Westmead Hospital;|Centenary Institute;|Pathology West;|Pathology West and Marie Bashir Institute, University of Sydney;|Forensic and Analytical Science Services;|NSW Health;|Centre for Infectious Diseases and Microbiology - Public Health and MBI, University of Sydney
http://dx.doi.org/10.1101/144725 2017-06-01 CC BY-NC-ND Contextual Tumor Suppressor Function Of T Cell Death-Associated Gene 8 (TDAG8) In Hematological Malignancies Calvin R. Justus|Edward J. Sanderlin|Lixue Dong|Alice Sun|Jen-Tsan Chi|Kvin Lertpiriyapong|Li V. Yang East Carolina University;|Duke University
http://dx.doi.org/10.1101/144907 2017-06-01 Comparison Of The Human Gastric Microbiota In Hypochlorhydric States Arising As A Result Of Helicobacter pylori-Induced Atrophic Gastritis, Autoimmune Atrophic Gastritis And Proton Pump Inhibitor Use Bryony N. Parsons|Umer Z. Ijaz|Rosalinda D'Amore|Michael Burkitt|Richard Eccles|Luca Lenzi|Carrie A. Duckworth|Andrew R. Moore|Laszlo Tiszlavicz|Andrea Varro|Neil Hall|David Mark Pritchard University of Liverpool;|University of Glasgow;|University of Szeged;|The Earlham Institute
http://dx.doi.org/10.1101/144691 2017-06-01 CC BY Receptor Uptake Arrays For Vitamin B12, Siderophores And Glycans Shape Bacterial Communities Steven A. Frank University of California, Irvine
http://dx.doi.org/10.1101/144527 2017-06-01 CC BY-NC Using Citizen Science Monitoring Data In Species Distribution Models To Inform Isotopic Assignment Of Migratory Connectivity In Wetland Birds Auriel M. V. Fournier|Kiel L. Drake|Doug C. Tozer Mississippi State University;|Bird Studies Canada
http://dx.doi.org/10.1101/144840 2017-06-01 CC BY-ND Structural Propensity Database Of Proteins Kamil Tamiola|Matthew Michael Heberling|Jan Domanski Peptone - The Protein Intelligence Company
http://dx.doi.org/10.1101/144345 2017-06-01 Molecular Basis For The Specific And Multivariate Recognitions Of RNA Substrates By Human hnRNPA2/B1 Baixing Wu|Shichen Su|Deepak P. Patil|Hehua Liu|Jianhua Gan|Samie R. Jaffrey|Jinbiao Ma Fudan University;|Cornell University
http://dx.doi.org/10.1101/144980 2017-06-01 CC BY-NC Genomic And Transcriptomic Profiling Of Nematode Parasites Surviving After Vaccine Exposure Guillaume Salle|Roz Laing|James A. Cotton|Kirsty Maitland|Axel Martinelli|Nancy Holroyd|Alan Tracey|Matthew Berriman|David W. Smith|George F. J. Newlands|Eve Hanks|Eileen Devaney|Collette Britton INRA;|University of Glasgow;|Wellcome Trust Sanger Institute;|Moredun Research Institute
http://dx.doi.org/10.1101/144931 2017-06-01 Mesoscopic Model For DNA G-Quadruplex Unfolding Ana Elisa Bergues-Pupo|Irene Gutierrez|J. Ricardo Arias-Gonzalez|Fernando Falo|Alessandro Fiasconaro University of Zaragoza;|Instituto Madrileño de Estudios Avanzados en Nanociencia;|CNB-CSIC-IMDEA Nanociencia Associated Unit/Unidad de Nanobiotecnologia;|Universidad de Zaragoza
http://dx.doi.org/10.1101/144923 2017-06-01 CC BY-NC Dual Function For Tango1 In Secretion Of Bulky Cargo And In ER-Golgi Morphology Luis Daniel Rios-Barrera|Sara Sigurbjornsdottir|Magdalena Baer|Maria Leptin EMBL;|University of Iceland;|Ludwig-Maximilian University of Munich;|EMBO
http://dx.doi.org/10.1101/117168 2017-06-01 CC BY-NC-ND DNA Metabarcoding For High-Throughput Monitoring Of Estuarine Macrobenthic Communities Jorge Lobo|Shadi Shokralla|Maria Helena Costa|Mehrdad Hajibabaei|Filipe Oliveira Costa Centre of Molecular and Environmental Biology, University of Minho, Portugal;|Biodiversity Institute of Ontario/Dept. of Integrative Biology, University of Guelph, Canada;|Marine and Environmental Sciences Centre, New University of Lisbon, Portugal
http://dx.doi.org/10.1101/144857 2017-06-01 Paracrine Activin-A Signaling Promotes Melanoma Growth And Metastasis Through Immune Evasion Prudence Donovan|Olivier A. Dubey|Susanna Kallioinen|Katherine W. Rogers|Katja Muehlethaler|Patrick Mueller|Donata Rimoldi|Daniel B. Constam Ecole Polytechnique Federale de Lausanne (EPFL), Switzerland;|Friedrich Miescher Laboratory of the Max Planck Society, Tuebingen, Germany;|Ludwig Institute for Cancer Research, UNIL
http://dx.doi.org/10.1101/144717 2017-06-02 Epidemiology Large Meta-Analysis Provides Evidence For An Association Of Serum Vitamin D With Pulmonary Function Jiayi Xu|Traci M. Bartz|Geetha Chittoor|Gudny Eiriksdottir|Ani W. Manichaikul|Fangui Sun|Natalie Terzikhan|Xia Zhou|Sarah L. Booth|Guy G. Brusselle|Ian H. de Boer|Myriam Fornage|Alexis C. Frazier-Wood|Mariaelisa Graff|Vilmundur Gudnason|Tamara B. Harris|Albert Hofman|Ruixue Hou|Denise K. Houston|David R. Jacobs|Stephen B. Kritchevsky|Jeanne Latourelle|Rozenn N. Lemaitre|Pamela L. Lutsey|George O'Connor|Elizabeth C. Oelsner|James S. Pankow|Bruce M. Psaty|Rebecca R. Rohde|Stephen S. Rich|Jerome I. Rotter|Lewis J. Smith|Bruno H. Stricker|V. Saroja Voruganti|Thomas J. Wang|M. Carola Zillikens|R. Graham Barr|Josee Dupuis|Sina A. Gharib|Lies Lahousse|Stephanie J. London|Kari E. North|Albert V. Smith|Lyn M. Steffen|Dana B. Hancock|Patricia A. Cassano Cornell University;|University of Washington;|University of North Carolina at Chapel Hill;|Icelandic Heart Association;|University of Virginia School of Medicine;|Boston University School of Public Health;|Erasmus Medical Center;|University of Minnesota;|Tufts University;|Ghent University Hospital;|University of Texas Health Science Center at Houston;|Baylor College of Medicine;|National Institute on Aging;|Harvard T.H. Chan School of Public Health;|Wake Forest School of Medicine;|Boston University;|Columbia University;|Harbor-UCLA Medical Center;|Northwestern University;|Vanderbilt University;|National Institute of Environmental Health Sciences;|RTI International
http://dx.doi.org/10.1101/145276 2017-06-02 Biochemistry Structural Basis For The Specific Recognition Of DSR By The YTH Domain Containing Protein Mmi1 Baixing Wu|Jinhao Xu|Shichen Su|Hehua Liu|Jianhua Gan|Jinbiao Ma Fudan University
http://dx.doi.org/10.1101/145326 2017-06-02 Cell Biology Senkyunolide A Protects Corticosterone-Induced Cell Apoptosis Via Modulating Protein Phosphatase 2A And α-Synuclein Shenglan Gong|Jin Zhang|Zhouke Guo|Wenjun Fu Shenzhen Clinical Medical College of Guangzhou University of Chinese Medicine, Shenzhen;|Department of Anatomy, Guangzhou University of Chinese Medicine, Guangzhou, Guangdong 510006;|School of Basic Medical Science, Guangzhou University of Chinese Medicine, Guangzhou
http://dx.doi.org/10.1101/145144 2017-06-02 Neuroscience Whole-Ganglion Imaging Of Voltage In The Medicinal Leech Using A Double-Sided Microscope Yusuke Tomina|Daniel A. Wagenaar California Institute of Technology
http://dx.doi.org/10.1101/145292 2017-06-02 Cell Biology CC BY-ND Energetic Costs Of Cellular And Therapeutic Control Of Stochastic mtDNA Populations Hanne Hoitzing|Payam A. Gammage|Michal Minczuk|Iain G. Johnston|Nick S. Jones Imperial College London;|University of Cambridge;|University of Birmingham
http://dx.doi.org/10.1101/145268 2017-06-02 Bioinformatics Driver Pattern Identification Over The Gene Co-Expression Of Drug Response In Ovarian Cancer By Integrating High Throughput Genomics Data Xinguo Lu|Jibo Lu|Bo Liao|Keqin Li Hunan University;|State University of New York
http://dx.doi.org/10.1101/145425 2017-06-02 Plant Biology Alkyl Gallates Display Elicitor Activities In Tobacco Plants Pascale Goupil|Razik Benouaret|Claire Richard UMR INRA PIAF;|UMR CNRS ICCF
http://dx.doi.org/10.1101/145110 2017-06-02 Cell Biology Reconstructing Spatial Transport Distributions In The Nuclear Pore Complex From 2D Images — How Reliable Is It? Li-Chun Tu|Maximiliaan Huisman|Yu-Chieh Chung|Carlas Smith|David Grunwald U Mass Medical School;|University of Tokyo;|University of Oxford
http://dx.doi.org/10.1101/145151 2017-06-02 Developmental Biology CC BY Evidence for the temporal regulation of insect segmentation by a conserved set of developmental transcription factors Erik Clark|Andrew D Peel University of Cambridge;|University of Leeds
http://dx.doi.org/10.1101/145011 2017-06-02 Plant Biology Coding sequence of firefly luciferase reporter gene affects specific hyper expression in cpl1 mutant. Hisashi Koiwa|Akihito Fukudome Texas A&M University
http://dx.doi.org/10.1101/145698 2017-06-02 CC BY Multiplexed Live-Cell Visualization Of Endogenous Proteins With Nanometer Precision By Fluorobodies Alina Klein|Susanne Hank|Anika Raulf|Felicitas Tissen|Mike Heilemann|Ralph Wieneke|Robert Tampe Goethe University Frankfurt;|Goethe University
http://dx.doi.org/10.1101/145540 2017-06-02 A Cross-Sectional Study Of Staphylococcus aureus Colonization And The Nasal And Oropharyngeal Microbiomes Ashley Kates|Mark Dalman|James Torner|Tara Smith University of Wisconsin-Madison;|Kent State University;|The University of Iowa
http://dx.doi.org/10.1101/145029 2017-06-02 The Nasal And Oropharyngeal Microbiomes Of Healthy Livestock Workers Ashley Kates|Mark Dalman|James Torner|Tara C. Smith University of Wisconsin-Madison;|Kent State University;|The University of Iowa
http://dx.doi.org/10.1101/145102 2017-06-02 CC BY Detecting Local Zika Virus Transmission In The Continental United States: A Comparison Of Surveillance Strategies Steven P. Russell|Kyle R. Ryff|Carolyn V. Gould|Stacey W. Martin|Michael A. Johansson Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/144782 2017-06-02 CC BY-NC-ND Staphylococcus aureus Colonization And Familial Transmission Over A One Year Period Blake M. Hanson|Ashley E. Kates|Sean M. O'Malley|Elizabeth Mills|Loreen A. Herwaldt|James C. Torner|Jeffrey D. Dawson|Sarah A. Farina|Cassandra Klostermann|Tara C. Smith The Jackson Laboratory for Genomic Medicine;|Dept. of Medicine, Div. of Infections Disease, Univ. Wisconsin School of Med. and Pub. Health;|University of Iowa, Iowa City, Iowa;|Kent State University, Kent, Ohio
http://dx.doi.org/10.1101/145680 2017-06-02 CC BY-NC-ND Significant Associations Between Driver Gene Mutations And DNA Methylation Alterations Across Many Cancer Types Yun-Ching Chen|Valer Gotea|Gennady Margolin|Laura Elnitski National Institutes of Health
http://dx.doi.org/10.1101/145441 2017-06-02 High Current Optogenetic Channels For Stimulation And Inhibition Of Primary Rat Cortical Neurons Lei Jin|Eike Frank Joest|Wenfang Li|Shiqiang Gao|Andreas Offenhaeusser|Vanessa Maybeck Institute of Complex Systems 8, Forschungszentrum Juelich;|Inst. for Molecular & Plant Physiology & Biophysics, Julius Maximilians Univ. of Wuerzburg
http://dx.doi.org/10.1101/139055 2017-06-02 CC BY Fine-mapping the Favored Mutation in a Positive Selective Sweep Ali Akbari|Arya Iranmehr|Mehrdad Bakhtiari|Siavash Mirarab|Vineet Bafna Electrical & Computer Engineering, University of California San Diego;|Computer Science & Engineering, University of California San Diego
http://dx.doi.org/10.1101/145458 2017-06-02 CC BY-NC Bacterial Communication And Relevance Of Quantum Theory Sarangam Majumdar|Sisir Roy DISIM, University of L'Aquila;|National Institute of Advanced Studies, IISC Campus, Bangalore 560012
http://dx.doi.org/10.1101/145342 2017-06-02 CC BY-NC-ND Deciphering Molecular Cascades In A Novel Acclimatization Strategy For Rapid Ascent To High Altitude Subhojit Paul|Anamika Gangwar|Kalpana Bhargava|Yasmin Ahmad DIPAS, DRDO
http://dx.doi.org/10.1101/145359 2017-06-02 CC BY Mycophenolate Mofetil Increases Inflammation Resolution In Zebrafish Via Neutrophil Apoptosis Aleksandra Bojarczuk|Simon Johnston Univeristy of Sheffield;|University of Sheffield
http://dx.doi.org/10.1101/144162 2017-06-02 CC BY Accurate And Fast Feature Selection Workflow For High-Dimensional Omics Data Yasset Perez-Riverol|Max Kun|Juan Antonio Vizcaino|Marc-Phillip Hitz|Enrique Audain European Bioinformatics Institute;|RStudio;|University Kiel, Kiel, Germany
http://dx.doi.org/10.1101/145037 2017-06-02 The Plastid Genome In Cladophorales Green Algae Is Encoded By Hairpin Plasmids Andrea Del Cortona|Frederik Leliaert|Kenny A. Bogaert|Monique Turmel|Christian Boedeker|Jan Janouskovec|Juan M. Lopez-Bautista|Heroen Verbruggen|Klaas Vandepoele|Olivier De Clerck Ghent University/VIB Center for Plant Systems Biology;|Ghent University, Botanic Garden Meise;|Ghent University;|Universite Laval;|Victoria University of Wellington;|University College London;|The University of Alabama;|University of Melbourne
http://dx.doi.org/10.1101/145615 2017-06-02 Novel Co-Culture Plate Enables Growth Dynamic-Based Assessment Of Contact-Independent Microbial Interactions Thomas J. Moutinho|John C. Panagides|Matthew B. Biggs|Greg L. Medlock|Glynis L. Kolling|Jason A. Papin University of Virginia
http://dx.doi.org/10.1101/145516 2017-06-02 CC BY-NC-ND Resolving Three-State Ligand-Binding Mechanisms By Isothermal Titration Calorimetry: A Simulation Study Evgenii L. Kovrigin Marquette University
http://dx.doi.org/10.1101/145169 2017-06-02 CC BY-NC-ND Using Connectivity To Identify Climatic Drivers Of Local Adaptation Stewart L. Macdonald|John Llewelyn|Ben Phillips James Cook University;|University of Melbourne
http://dx.doi.org/10.1101/145599 2017-06-02 CC BY-NC-ND On The Number Of Siblings And p-th Cousins In A Large Population Sample Vladimir Shchur|Rasmus Nielsen University of California, Berkeley
http://dx.doi.org/10.1101/144378 2017-06-02 CC BY Advances And Perspectives In Tissue Clearing Using CLARITY Kristian H. R. Jensen|Rune W. Berg University of Copenhagen
http://dx.doi.org/10.1101/145177 2017-06-02 CC BY-NC-ND Pair Matcher (PaM): Fast Model-Based Optimisation Of Treatment/Case-Control Matches Using Demographic And Genetic Data Desmond Ryan|Eran Elhaik University of Sheffield
http://dx.doi.org/10.1101/145433 2017-06-02 CC BY Heme-Iron Plays A Key Role In The Regulation Of The Ess/Type VII Secretion System Of Staphylococcus aureus RN6390 Maria Guillermina Casabona|Holger Kneuper|Daniela Alferes de Lima|Catriona P. Harkins|Martin Zoltner|Erik Hjerde|Matthew T. G. Holden|Tracy Palmer University of Dundee;|University of St. Andrews;|Arctic University of Norway
http://dx.doi.org/10.1101/145243 2017-06-02 Sexual Imprinting And Speciation In Two Peromyscus Species Emily K. Delaney|Hopi E. Hoekstra Harvard University;|Harvard University/HHMI
http://dx.doi.org/10.1101/145334 2017-06-02 CC BY Beyond Brain Size Corina J. Logan|Shahar Avin|Neeltje Boogert|Andrew Buskell|Fiona R. Cross|Adrian Currie|Sarah Jelbert|Dieter Lukas|Rafael Mares|Ana F. Navarrete|Shuichi Shigeno|Stephen H. Montgomery University of Cambridge;|University of Exeter;|University of Canterbury;|University of California, Davis;|University of St. Andrews;|Stazione Zoologica Anton Dohrn
http://dx.doi.org/10.1101/145284 2017-06-02 CC BY KmerFinderJS: A Client-Server Method For Fast Species Typing Of Bacteria Over Slow Internet Connections Jose Luis Bellod Cisneros|Ole Lund Technical University of Denmark
http://dx.doi.org/10.1101/145573 2017-06-02 CC BY Objective (Real-World) Motion Responses In Scene Responsive Regions Didem Korkmaz Hacialihafiz|Andreas Bartels Centre for Integrative Neuroscience, University of Tuebingen, Germany
http://dx.doi.org/10.1101/145508 2017-06-02 CC BY Orexin/Hypocretin Immunoreactivity In The Lateral Hypothalamus Is Reduced In Genetically Obese But Not In Diet-Induced Obese Mice J. Antonio Gonzalez|Jochen H. M. Prehn Department of Physiology and Medical Physics, Royal College of Surgeons in Ireland, Dublin
http://dx.doi.org/10.1101/145474 2017-06-02 Haplotype And Repeat Separation In Long Reads German Tischler Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/145193 2017-06-02 CC BY-NC-ND The Genomic Health Of Ancient Hominins Ali J. Berens|Taylor L. Cooper|Joseph Lachance Georgia Institute of Technology
http://dx.doi.org/10.1101/145219 2017-06-02 CC BY-NC-ND Effective Online Bayesian Phylogenetics Via Sequential Monte Carlo With Guided Proposals Mathieu Fourment|Brian C. Claywell|Vu Dinh|Connor McCoy|Frederick A. Matsen|Aaron E. Darling University of Technology Sydney;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/145607 2017-06-02 Principled Multi-Omic Analysis Reveals Gene Regulatory Mechanisms Of Phenotype Variation Casey Hanson|Junmei Cairns|Liewei Wang|Saurabh Sinha University of Illinois at Urbana - Champaign;|Mayo Clinic Rochester
http://dx.doi.org/10.1101/145466 2017-06-02 CC BY-NC-ND Genetic Identification Of Brain Cell Types Underlying Schizophrenia Nathan G. Skene|Julien Bryois|Trygve E. Bakken|Gerome Breen|James J. Crowley|Helena Gaspar|Paola Giusti-Rodriguez|Rebecca D. Hodge|Jeremy A. Miller|Ana Munoz-Manchado|Michael C. O'Donovan|Michael J. Owen|Antonio F. Pardinas|Jesper Ryge|James T. R. Walters|Sten Linnarsson|Ed S. Lein|Patrick F. Sullivan|Jens Hjerling-Leffler Karolinska Institutet;|Allen Institute for Brain Science;|King's College London;|University of North Carolina;|Cardiff University;|Brain Mind Institute;|-;|Karolinska Institute
http://dx.doi.org/10.1101/145367 2017-06-02 CC BY Modelling Personality, Plasticity And Predictability In Shelter Dogs Conor Goold|Ruth C. Newberry Norwegian University of Life Sciences
http://dx.doi.org/10.1101/145318 2017-06-02 CC BY-NC-ND Simulated Climate Change Affects How Biocrusts Modulate Infiltration And Desiccation Dynamics Angela Lafuente|Miguel Berdugo|Monica Ladron de Guevara|Beatriz Gozalo|Fernando T. Maestre Universidad Rey Juan Carlos
http://dx.doi.org/10.1101/145375 2017-06-02 Central Amygdala Circuits Modulate Food Consumption Through A Positive Valence Mechanism Amelia M. Douglass|Hakan Kucukdereli|Marion Ponserre|Milica Markovic|Jan Grundemann|Cornelia Strobel|Pilar L. Alcala Morales|Karl-Klaus Conzelmann|Andreas Luthi|Rudiger Klein Max Planck Institute of Neurobiology;|Friedrich Miescher Institute for Biomedical Research;|Max von Pettenkofer Institute & Gene Center
http://dx.doi.org/10.1101/128397 2017-06-02 CC BY-NC Social Dilemma In The External Immune System Of The Red Flour Beetle? It Is A Matter Of Time Chaitanya S. Gokhale|Arne Traulsen|Gerrit Joop Max Planck Institute for Evolutionary Biology;|Institute for Insect Biotechnology, University of Giessen
http://dx.doi.org/10.1101/145201 2017-06-02 Subharmonics And Chaos In Simple Periodically-Forced Biomolecular Models Evgeni V. Nikolaev|Sahand Jamal Rahi|Eduardo Sontag Rutgers University;|Harvard
http://dx.doi.org/10.1101/145235 2017-06-02 Genetics An Intracellular Pathogen Response Pathway Promotes Proteostasis In C. elegans Kirthi C. Reddy|Tal Dror|Jessica N. Sowa|Johan Panek|Kevin Chen|Efrem S. Lim|David Wang|Emily R. Troemel University of California, San Diego;|Washington University School of Medicine
http://dx.doi.org/10.1101/145094 2017-06-02 Genetics CC BY pals-22, A Member Of An Expanded C. elegans Gene Family, Controls Silencing Of Repetitive DNA Eduardo Leyva-Diaz|Nikolaos Stefanakis|Ines Carrera|Lori Glenwinkel|Guoqiang Wang|Monica Driscoll|Oliver Hobert Columbia University;|Rutgers
http://dx.doi.org/10.1101/144311 2017-06-02 Evolutionary Biology CC BY-NC Pathogen Dependent Phenotypic But No Genetic Correlation Between Sexual Activity And Immunity In Male Drosophila melanogaster Subjected To Differential Sexual Selection Zeeshan Ali Syed|Vanika Gupta|Manas Arun Samant|Aatashi Dhiman|N. G. Prasad IISER Mohali;|Cornell University;|Indian Institute of Science Education and Research, Mohali
http://dx.doi.org/10.1101/145706 2017-06-02 Cancer Biology Multiple antibodies identify Glypican-1 on serum exosomes from patients with pancreatic cancer Sonia Melo|Christoph Kahlert|Valerie LeBleu|Raghu Kalluri Instituto de Investigacao e Inovacao em Saude, Universidade do Porto, Portugal;|Dept of Gastrointestinal, Thoracic and Vascular Surgery, Technische Universitat Dresden, Germany;|MD Anderson Cancer Center;|Dept of Cancer Biology, Metastasis Research Center, University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/145623 2017-06-02 Developmental Biology CC BY-NC-ND Characterization Of NvLWamide-Like Neurons Reveals Stereotypy In Nematostella Nerve Net Development Jamie Havrilak|Dylan Faltine-Gonzalez|Yiling Wen|Daniella Fodera|Ayanna Simpson|Craig Magie|Michael J. Layden Lehigh University;|Quinnipiac University
http://dx.doi.org/10.1101/145524 2017-06-03 CC BY-NC-ND Polyclonal HIV envelope-specific breast milk antibodies limit founder SHIV acquisition and cell-associated virus loads in infant rhesus monkeys. Jonathon E. Himes|Ria Goswami|Riley J. Mangan|Amit Kumar|Thomas L. Jeffries|Joshua A. Eudailey|Holly Heimsath|Quang N. Nguyen|Justin Pollara|Celia LaBranche|Meng Chen|Nathan A. Vandergrift|James W. Peacock|Faith Schiro|Cecily Midkiff|Guido Ferrari|David C. Montefiori|Xavier Alvarez-Hernandez|Pyone Pyone Aye|Sallie R. Permar Duke University;|Tulane University
http://dx.doi.org/10.1101/145789 2017-06-03 Clarinet (CLA-1), a novel active zone protein required for synaptic vesicle clustering and release Zhao Xuan|Laura Manning|Jessica Nelson|Janet E. Richmond|Daniel Colon-Ramos|Kang Shen|Peri T. Kurshan Yale University;|University of Illinois at Chicago;|Stanford University
http://dx.doi.org/10.1101/145839 2017-06-03 The β3-integrin endothelial adhesome regulates microtubule dependent cell migration Samuel J. Atkinson|Aleksander M. Gontarczyk|Tim S. Ellison|Robert T. Johnson|Benjamin M. Kirkup|Abdullah Alghamdi|Wesley J. Fowler|Bernardo C. Silva|Jochen J. Schneider|Katherine N. Weilbaecher|Mette M. Mogensen|Mark D. Bass|Dylan R. Edwards|Stephen D. Robinson University of East Anglia;|University of Luxembourg;|Washington University;|University of Sheffield
http://dx.doi.org/10.1101/145821 2017-06-03 CC BY-NC Dynamical predictors of an imminent phenotypic switch in bacteria Huijing Wang|J. Christian J. Ray University of Kansas
http://dx.doi.org/10.1101/145755 2017-06-03 CC BY-NC-ND Widespread signatures of negative selection in the genetic architecture of human complex traits Jian Zeng|Ronald de Vlaming|Yang Wu|Matthew Robinson|Luke Lloyd-Jones|Loic Yengo|Chloe Yap|Angli Xue|Julia Sidorenko|Allan McRae|Joseph Powell|Grant Montgomery|Andres Metspalu|Tonu Esko|Greg Gibson|Naomi Wray|Peter Visscher|Jian Yang The University of Queensland;|VU University;|University of Lausanne;|University of Tartu;|Georgia Institute of Technology
http://dx.doi.org/10.1101/145656 2017-06-03 CC BY Improving the value of public RNA-seq expression data by phenotype prediction Shannon E Ellis|Leonardo Collado Torres|Jeffrey Leek Johns Hopkins Bloomberg School of Public Health;|Lieber Institute for Brain Development
http://dx.doi.org/10.1101/145714 2017-06-03 CC BY-NC Chondroitin Sulfate Flourishes Gut Sulfatase-Secreting Bacteria To Damage Mucus Layers, Leak Bacterial Debris, And Trigger Inflammatory Lesions In Mice Tao Liao|Yan-Ping Chen|Li-Li Tan|Chang-Qing Li|Qi Wang|Shui-Qing Huang|Xin-An Huang|Qin Xu|Qing-Ping Zeng Guangzhou University of Chinese Medicine
http://dx.doi.org/10.1101/145763 2017-06-03 Bioinformatics GOLabeler: Improving Sequence-based Large-scale Protein Function Prediction by Learning to Rank Ronghui You|Zihan Zhang|Yi Xiong|Fengzhu Sun|Hiroshi Mamitsuka|Shanfeng Zhu School of Computer Science and Technology, Fudan University;|Department of Bioinformatics and Biostatistics, Shanghai Jiaotong University;|University of Southern California;|Bioinformatics Center, Institute for Chemical Research, Kyoto University
http://dx.doi.org/10.1101/145813 2017-06-03 Neuroscience Spike-Timing Patterns Conform to Gamma Distribution with Regional and Cell Type-Specific Characteristics Meng Li|Kun Xie|Hui Kuang|Jun Liu|Deheng Wang|Grace E. Fox|Xiaojian Li|Yuhui Li|Fang Zhao|He Cui|Joe Z. Tsien Augusta University;|Institute of Neuroscience, Chinese Academy of Sciences
http://dx.doi.org/10.1101/145730 2017-06-03 Synthetic Biology CC BY-NC-ND Tandem histone-binding domains enhance the activity of a synthetic chromatin effector Stefan J. Tekel|Daniel A. Vargas|Lusheng Song|Joshua LaBaer|Karmella A. Haynes Arizona State University
http://dx.doi.org/10.1101/145805 2017-06-03 Evolutionary Biology The Gene Regulatory Landscape of Local Adaptation Billie A. Gould|Yani Chen|David B. Lowry Michigan State University
http://dx.doi.org/10.1101/145581 2017-06-03 Genetics CC BY Discovery Of The First Genome-Wide Significant Risk Loci For ADHD Ditte Demontis|Raymond K. Walters|Joanna Martin|Manuel Mattheisen|Thomas Damm Als|Esben Agerbo|Rich Belliveau|Jonas Bybjerg-Grauholm|Marie Bkved-Hansen|Felecia Cerrato|Kimberly Chambert|Claire Churchhouse|Ashley Dumont|Nicholas Eriksson|Michael Gandal|Jacqueline Goldstein|Jakob Grove|Christine S. Hansen|Mads Hauberg|Mads Hollegaard|Daniel P. Howrigan|Hailiang Huang|Julian Maller|Alicia R. Martin|Jennifer Moran|Jonatan Pallesen|Duncan S. Palmer|Carsten Bcker Pedersen|Marianne Girtz Pedersen|Timothy Poterba|Jesper Buchhave Poulsen|Stephan Ripke|Elise B. Robinson|F. Kyle Satterstrom|Christine Stevens|Patrick Turley|Hyejung Won|Ole A. Andreassen|Christie Burton|Dorret Boomsma|Bru Cormand|Sren Dalsgaard|Barbara Franke|Joel Gelernter|Daniel Geschwind|Hakon Hakonarson|Jan Haavik|Henry Kranzler|Jonna Kuntsi|Kate Langley|Klaus-Peter Lesch|Christel Middeldorp|Andreas Reif|Luis Augusto Rohde|Panos Roussos|Russell Schachar|Pamela Sklar|Edmund Sonuga-Barke|Patrick F. Sullivan|Anita Thapar|Joyce Tung|Irwin Waldman|Merete Nordentoft|David M. Hougaard|Thomas Werge|Ole Mors|Preben Bo Mortensen|Mark J. Daly|Stephen V. Faraone|Anders D. Brglum|Benjamin M. Neale iPSYCH/Aarhus University;|Massachusetts General Hospital/Broad Institute;|Broad Institute/Karolinska Institutet/Cardiff University;|iPSYCH/Aarhus University/Karolinska Institutet/Stockholm County Council;|Broad Institute;|iPSYCH/Statens Serum Institut;|23andMe;|University of California, Los Angeles;|iPSYCH/Aarhus;|iPSYCH/Statens Serum Institut/Mental Health Services Copenhagen;|Broad Institute/Genomics plc;|Massachusetts General Hospital/Broad Institute/Charite Universitatsmedizin Berlin;|Massachusetts General Hospital/Harvard Chan School of Public Health;|-;|Oslo University Hospital;|Hospital for Sick Children, University of Toronto;|VU University Amsterdam/EMGO Institute for Health and Care Research;|Universitat de Barcelona/CIBERER/Hospital Sant Joan de Déu;|Aarhus University;|Radboud University Medical Centre;|Yale University School of Medicine/Veterans Affairs Connecticut Healthcare Center;|Children's Hospital of Philadelphia;|University of Pennslyvania/Crescenz VA Medical Center;|King's College London;|Cardiff University;|University of Wuerzburg/Maastricht University;|VU University/Univ. of Queensland/Children's Health Queensland Hospital Health and Service;|University Hospital, Frankfurt;|Universidade Federal do Rio Grande do Sul/Hospital de Clínicas de Porto Alegre;|Icahn School of Medicine at Mount Sinai/James J. Peters VA Medical Center;|Icahn School of Medicine at Mount Sinai;|University of Southampton/Ghent University/King's College London;|University of North Carolina/Karolinska Institutet;|Emory University;|iPSYCH/University of Copenhagen;|iPSYCH/University of Copenhagen/Mental Health Services Copenhagen;|SUNY Upstate Medical University
http://dx.doi.org/10.1101/145045 2017-06-03 Genomics Classifying Drosophila Olfactory Projection Neuron Subtypes by Single-cell RNA Sequencing Hongjie Li|Felix Horns|Bing Wu|Qijing Xie|Jiefu Li|Tongchao Li|David Luginbuhl|Stephen R Quake|Liqun Luo Stanford University
http://dx.doi.org/10.1101/140889 2017-06-03 Genetics CC BY An exact and efficient score test for variance components models Regev Schweiger|Omer Weissbrod|Elior Rahmani|Martina Muller-Nurasyid|Sonja Kunze|Christian Gieger|Melanie Waldenberger|Saharon Rosset|Eran Halperin Tel Aviv University;|Weizmann Institute;|Helmholtz Zentrum Munchen;|University of California, Los Angeles
http://dx.doi.org/10.1101/141127 2017-06-03 Evolutionary Biology CC BY Parallel radiations of Cremastosperma and Mosannona (Annonaceae), tropical rainforest trees tracking Neogene upheaval of the South American continent Michael D. Pirie|Paul J.M. Maas|Rutger Wilschut|Heleen Melchers-Sharrott|Lars Chatrou Johannes Gutenberg-Universitat Mainz;|Naturalis Biodiversity Center;|Netherlands Institute of Ecology;|Omgevingsdienst Haaglanden;|Wageningen University
http://dx.doi.org/10.1101/146043 2017-06-04 CC BY-NC-ND Detecting polygenic adaptation in admixture graphs Fernando Racimo|Jeremy J. Berg|Joseph K. Pickrell New York Genome Center;|Columbia University
http://dx.doi.org/10.1101/145854 2017-06-04 Cell Biology CC BY-NC Evidence for a role of calcium in STING signaling Sujeong Kim|Peter Koch|Lingyin Li|Leonid Peshkin|Timothy J. Mitchison Harvard Medical School;|Harvard University
http://dx.doi.org/10.1101/145938 2017-06-04 Bioinformatics CC BY-NC GFF3sort: An efficient tool to sort GFF3 files for tabix indexing Tao Zhu|Chengzhen Liang|Zhigang Meng|Sandui Guo|Rui Zhang Biotechnology Research Institute, Chinese Academy of Agricultural Sciences
http://dx.doi.org/10.1101/145979 2017-06-04 Microbiology Metabolic changes of the host-pathogen environment in a Cryptosporidium infection Christopher N. Miller|Charalampos G. Panagos|Martin Kvac|Mark J. Howard|Anastasios D. Tsaousis University of Kent;|University of Georgia;|University of South Bohemia;|University of Western Australia
http://dx.doi.org/10.1101/145912 2017-06-04 Neuroscience Molecular Recognition of Dopamine with Dual Near Infrared Excitation-Emission Two-Photon Microscopy Jackson Travis Del Bonis-O'Donnell|Ralph H. Page|Abraham G. Beyene|Eric G. Tindall|Ian R. McFarlane|Markita P. Landry University of California Berkeley
http://dx.doi.org/10.1101/145862 2017-06-04 Ecology CC BY-NC-ND Generic assembly patterns in large ecological communities Matthieu Barbier|Jean-Francois Arnoldi|Guy Bunin|Michel Loreau Centre for Biodiversity Theory and Modelling, CNRS and Paul Sabatier University;|Technion-Israel Institute of Technology
http://dx.doi.org/10.1101/145870 2017-06-04 Plant Biology CC BY Sugar metabolism changes in response to the ultraviolet B irradiation of peach (Prunus persica L.) Xuxu Wang|Xiling Fu|Min Chen|Lei Huan|Wenhai Liu|Yangang Gao|Wei Xiao|Xiude Chen|Ling Li|Dongsheng Gao Shandong Agricultural University;|Weifang Engineering Vocational College
http://dx.doi.org/10.1101/145961 2017-06-04 Genetics Construction of an exome-wide risk score for schizophrenia based on a weighted burden test David Curtis University College London
http://dx.doi.org/10.1101/146001 2017-06-04 Bioinformatics CC BY The importance of Chargaff's second parity rule for genomic signatures in metagenomics Fabio Gori|Dimitrios Mavroeidis|Mike S. M. Jetten|Elena Marchiori Radboud University Nijmegen
http://dx.doi.org/10.1101/145888 2017-06-04 Animal Behavior and Cognition CC BY-NC Persistent one-way walking in a circular arena in Drosophila melanogaster Canton-S strain Chengfeng Xiao|Shuang Qiu|R. Meldrum Robertson Queen's University
http://dx.doi.org/10.1101/145953 2017-06-04 Genomics CC BY Isolation and semi quantitative PCR of Na+/H+ antiporter (SOS1 & NHX) genes under salinity stress in Kochia scoparia Leila Fahmideh|Ziba Fooladvand university of Zabol Iran
http://dx.doi.org/10.1101/145946 2017-06-04 Cancer Biology Global Cancer Transcriptome Quantifies Repeat Element Polarization Between Immunotherapy Responsive and T cell Suppressive Classes Alexander Solovyov|Nicolas Vabret|Kshitij S. Arora|Alexandra Snyder|Samuel A. Funt|Dean F. Bajorin|Jonathan E. Rosenberg|Nina Bhardwaj|David T. Ting|Benjamin D. Greenbaum Icahn School of Medicine at Mount Sinai, New York, NY, USA;|Massachusetts General Hospital Cancer Center and Harvard Medical School;|Memorial Sloan Kettering Cancer Center and Weill Cornell Medical College, New York, NY
http://dx.doi.org/10.1101/145086 2017-06-04 Systems Biology Proteomics of phosphorylation and protein dynamics during fertilization and meiotic exit in the Xenopus egg Marc Stuart Presler|Elizabeth Van Itallie|Allon M. Klein|Ryan Kunz|Peg Coughlin|Leonid Peshkin|Steven Gygi|Martin Wuhr|Marc Kirschner Harvard Medical School;|Princeton University
http://dx.doi.org/10.1101/146027 2017-06-04 Systems Biology CC BY Proteolytically Coordinated Activation of Toxin-Antitoxin Modules Curtis Ogle|William Mather Virginia Tech
http://dx.doi.org/10.1101/145896 2017-06-04 Developmental Biology CC BY-NC The Effects of Central Nervous System Stimulants on Drosophila melanogaster Reproduction Blake D. McMahon|Julia Willsie Diablo Valley College
http://dx.doi.org/10.1101/145995 2017-06-04 Evolutionary Biology CC BY-NC-ND Targeted Enrichment of Large Gene Families for Phylogenetic Inference: Phylogeny and Molecular Evolution of Photosynthesis Genes in the Portullugo (Caryophyllales) Abigail Moore|Jurriaan M. de Vos|Lillian P. Hancock|Eric Goolsby|Erika J. Edwards University of Oklahoma;|Royal Botanic Gardens Kew;|Brown University
http://dx.doi.org/10.1101/140939 2017-06-05 The processing of dynamic faces in the human brain: Support for an integrated neural framework of face processing. Michal Bernstein|Yaara Erez|Idan Blank|Galit Yovel Sagol School of Neuroscience, Tel Aviv University, Tel Aviv 6997801, Israel;|MRC Cognition and Brain Sciences Unit, 15 Chaucer Rd, Cambridge, UK;|Dept. of Brain and Cognitive Sciences, Massachusetts Institute of Technology, Cambridge, MA
http://dx.doi.org/10.1101/146225 2017-06-05 CC BY-ND Compartmental and spatial rule-based modeling with Virtual cell (VCell) Mikhail L. Blinov|James C. Schaff|Dan Vasilescu|Ion I. Moraru|Judy E. Bloom|Leslie M. Loew University of Connecticut School of Medicine
http://dx.doi.org/10.1101/146191 2017-06-05 Evolutionary Biology CC BY-NC-ND Inference of Adaptive Shifts for Multivariate Correlated Traits Paul Bastide|Cecile Ane|Stephane Robin|Mahendra Mariadassou UMR MIA-Paris, AgroParisTech, INRA, Université Paris-Saclay, 75005, Paris, France;|Department of Statistics and Botany, University of Wisconsin-Madison, WI, 53706, USA;|MaIAGE, INRA, Université Paris-Saclay, 78352 Jouy-en-Josas, France
http://dx.doi.org/10.1101/146209 2017-06-05 Systems Biology Network integration of multi-tumour omics data suggests novel targeting strategies Italo Faria do Valle|Giulia Menichetti|Giorgia Simonetti|Samantha Bruno|Isabella Zironi|Danielle Fernandes Durso|Jose C. M. Mombach|Giovanni Martinelli|Gastone Castellani|Daniel Remondini Department of Physics and Astronomy, University of Bologna, Italy;|Dept. of Physics, Center for Complex Network Research, Northeastern University, Boston USA;|Department of Experimental, Diagnostic and Specialty Medicine, University of Bologna Italy;|Department of Physics and Astronomy, University of Bologna Italy;|Department of Physics, Universidade Federal de Santa Maria, RS, Brazil
http://dx.doi.org/10.1101/146126 2017-06-05 Bioinformatics CC BY Exploring thematic structure in 16S rRNA marker gene surveys Stephen Woloszynek|Joshua Chang Mell|Gideon Simpson|Gail L. Rosen Drexel University
http://dx.doi.org/10.1101/146035 2017-06-05 Bioinformatics CC BY The Emergent Connectome in Caenorhabditis elegans Embryogenesis Bradly J. Alicea -;|Orthogonal Research
http://dx.doi.org/10.1101/146100 2017-06-05 Bioinformatics CC BY Evaluation of in silico algorithms for use with ACMG/AMP clinical variant interpretation guidelines Rajarshi Ghosh|Ninad Oak|Sharon E. Plon Baylor College of Medicine
http://dx.doi.org/10.1101/143990 2017-06-05 Genomics CC BY-NC Mammalian genomic regulatory regions predicted by utilizing human genomics, transcriptomics and epigenetics data Quan H. Nguyen|Ross L. Tellam|Marina Naval-Sanchez|Laercio Porto-Neto|Bill W. Barendse|Toni Reverter-Gomez|Ben Hayes|James Kijas|Brian P. Dalrymple Commonwealth Scientific and Industrial Research Organisation (CSIRO);|University of Queensland;|CSIRO and The University of Western Australia
http://dx.doi.org/10.1101/146134 2017-06-05 Cancer Biology CC BY-NC-ND No evidence of MET and HER2 over-expression in non-small cell lung carcinoma and breast cancer, respectively, raises serious doubts on using RNA-seq profiles of tumor-educated platelets as a ‘liquid biopsy’ source Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/146159 2017-06-05 Cell Biology The collective influence of 1, 25-dihydroxyvitamin D3 with physiological fluid shear stress on osteoblasts Yan Li|Jiafeng Yuan|Qianwen Wang|Lijie Sun|Yunying Sha|Yanxiang Li|Lizhong Wang|Zhonghua Wang Taizhou Polytechnic College;|School of Pharmacy, Taizhou Polytechnic College
http://dx.doi.org/10.1101/146175 2017-06-05 Bioinformatics CC BY Prediction of RNA-protein sequence and structure binding preferences using deep convolutional and recurrent neural networks Xiaoyong Pan|Peter Rijnbeek|Junchi Yan|Hong-Bin Shen Erasmus MC;|East China Normal University;|Shanghhai Jiao Tong University
http://dx.doi.org/10.1101/146076 2017-06-05 Evolutionary Biology CC BY-NC-ND Male coercion, female resistance, and the evolutionary trap of sexual reproduction Nathan William Burke|Russell Bonduriansky University of New South Wales Sydney
http://dx.doi.org/10.1101/142950 2017-06-05 Neuroscience Musical Imagery Involves the Wernicke's Area in Bilateral and Anti-Correlated Network Interactions in Musicians Yizhen Zhang|Gang Chen|Haiguang Wen|Kun-Han Lu|Zhongming Liu Purdue University;|Scientific and Statistical Computing Core, National Institute of Mental Health, National Institutes
http://dx.doi.org/10.1101/146118 2017-06-05 Evolutionary Biology CC BY-NC-ND Emerging patterns of plasmid-host coevolution that stabilize antibiotic resistance Thibault Stalder|Linda M. Rogers|Chris Renfrow|Hirokazu Yano|Zachary Smith|Eva M. Top University of Idaho
http://dx.doi.org/10.1101/145227 2017-06-05 Synthetic Biology A cell-free platform for rapid synthesis and testing of active oligosaccharyltransferases Jennifer Schoborg|Jasmine Hershewe|Jessica C. Stark|Weston Kightlinger|James E. Kath|Thapakorn Jaroentomeechai|Aravind Natarajan|Matthew P. DeLisa|Michael C. Jewett Northwestern University;|Cornell University
http://dx.doi.org/10.1101/145409 2017-06-05 CC BY-NC-ND Ancient genomes from southern Africa pushes modern human divergence beyond 260,000 years ago Carina M Schlebusch|Helena Malmstrom|Torsten Gunther|Per Sjodin|Alexandra Coutinho|Hanna Edlund|Arielle R Munters|Maryna Steyn|Himla Soodyall|Marlize Lombard|Mattias Jakobsson Uppsala University;|University of the Witwatersrand;|University of the Witwatersrand and National Health Laboratory Service;|University of Johannesburg
http://dx.doi.org/10.1101/146332 2017-06-05 CC BY A cross-sectional study of set shifting impairments and falling in individuals with and without Parkinson's disease Johnathan McKay|Kimberly C. Lang|Lena Ting|Madeleine Hackney Emory University/Georgia Tech;|Emory University
http://dx.doi.org/10.1101/146415 2017-06-05 Modeling dispersion improves decoding of population neural responses Abed Ghanbari|Ian Stevenson University of Connecticut
http://dx.doi.org/10.1101/146373 2017-06-05 CC BY-NC The Evolutionary Genomics of Grape (Vitis vinifera ssp. vinifera) Domestication Yongfeng Zhou|Melanie Massonnet|Jaleal Sanjak|Dario Cantu|Brandon S. Gaut University of California, Irvine;|University of California, Davis;|University of California Irvine;|University of California Davis
http://dx.doi.org/10.1101/146431 2017-06-05 CC BY Separable Fully Connected Layers Improve Deep Learning Models For Genomics Amr Mohamed Alexandari|Avanti Shrikumar|Anshul Kundaje Stanford University
http://dx.doi.org/10.1101/146357 2017-06-05 LSD1/KDM1A Maintains Genome-wide Homeostasis of Transcriptional Enhancers Saurabh Agarwal|Patricia Marie Garay|Robert Scott Porter|Emily Brookes|Yumie Murata-Nakamura|Todd S. Macfarlan|Bing Ren|Shigeki Iwase Ludwig Institute for Cancer Research, Univ. of California, San Diego, Univ. of Michigan;|Neuroscience Graduate Program, The University of Michigan Medical School;|Department of Human Genetics, University of Michigan Medical School;|Division of Newborn Medicine, Boston Childrens Hospital;|National Institute of Child Health and Human Development, National Institutes of Health;|Ludwig Institute for Cancer Research, University of California, San Diego School of Medicine;|The University of Michigan
http://dx.doi.org/10.1101/146282 2017-06-05 CC BY-NC Distinct neuronal activity patterns induce different gene expression programs Kelsey M. Tyssowski|Ramendra N. Saha|Nicholas R. DeStefino|Jin-Hyung Cho|Richard D. Jones|Sarah M. Chang|Palmyra Romeo|Mary K. Wurzelmann|James M. Ward|Serena M. Dudek|Jesse M. Gray Department of Genetics, Harvard Medical School;|University of California, Merced;|National Institute of Environmental Health Sciences, National Institutes of Health
http://dx.doi.org/10.1101/146266 2017-06-05 Bacterial lipopolysaccharide reduces the stability of avian and human influenza viruses Christopher Bandoro|Jonathan Runstadler Massachusetts Institute of Technology
http://dx.doi.org/10.1101/146407 2017-06-05 Role of inhibitory control in modulating spread of focal ictal activity Jyun-you Liou|Hongtao Ma|Michael Wenzel|Mingrui Zhao|Eliza Baird-Daniel|Elliot Smith|Andrew Daniel|Ronald G. Emerson|Rafael Yuste|Theodore H. Schwartz|Catherine Schevon Columbia University;|Cornell University
http://dx.doi.org/10.1101/146381 2017-06-05 MEA Viewer: a High-performance Interactive Application for Visualizing Electrophysiological Data Daniel C. Bridges|Kenneth R. Tovar|Bian Wu|Paul K. Hansma|Kenneth S. Kosik University of California, Santa Barbara
http://dx.doi.org/10.1101/146241 2017-06-05 CC BY-ND qSR: A software for quantitative analysis of single molecule and super-resolution data J. Owen Andrews|Arjun Narayanan|Jan-Hendrik Spille|Won-Ki Cho|Jesse D. Thaler|Ibrahim I. Cisse Massachusetts Institute of Technology;|MIT
http://dx.doi.org/10.1101/146563 2017-06-06 Nitric oxide sensing by chlorophyll a Abhishek Bhattacharya|Puranjoy Kar|Pranjal Biswas|Piya Roychoudhury|Sankar Basu|Sanjay Ghosh|Koustubh Panda|Ruma Pal|Anjan Kr. Dasgupta Department of Biochemistry, University of Calcutta;|Department of Botany, University of Calcutta;|Guha Centre for Genetic Engineering and Biotechnology, University of Calcutta
http://dx.doi.org/10.1101/146654 2017-06-06 Extreme conservation of miRNA complements in Opisthorchiids Vladimir Ovchinnikov|Viatcheslav A. Mordvinov|Bastian Fromm The Federal Research Center Institute of Cytology and Genetics, Novosibirsk;|Institute for Cancer Research, The Norwegian Radium Hospital, Oslo University Hospital
http://dx.doi.org/10.1101/146688 2017-06-06 Learn to Track: Deep Learning for Tractography Philippe Poulin|Marc-Alexandre Cote|Jean-Christophe Houde|Laurent Petit|Peter Florian Neher|Klaus H. Maier-Hein|Hugo Larochelle|Maxime Descoteaux Universite de Sherbrooke;|Groupe d'Imagerie Neurofonctionelle, IMN, CNRS, CEA, Universite de Bordeaux;|German Cancer Research Center (DKFZ);|German Cancer Research Center
http://dx.doi.org/10.1101/146589 2017-06-06 Molecular Biology CC BY-NC-ND Isolation and functional characterization of the rat Thyroglobulin gene upstream enhancer region Christiane Christophe-Hobertus|Daniel Christophe Universite Libre de Bruxelles
http://dx.doi.org/10.1101/146308 2017-06-06 Systems Biology CC BY-ND Design Principle of Lysis/Lysogeny Decision vis-a-vis Multiplicity of Infection Dinkar Wadhwa Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/143420 2017-06-06 Microbiology CC BY-NC Plasmids, Viruses, And Other Circular Elements In Rat Gut Tue Sparholt Jorgensen|Martin Asser Hansen|Zhuofei Xu|Mickey Tabak|Soren J. Sorensen|Lars Hestbjerg Hansen Roskilde University;|University of Copenhagen;|Huazhong Agricultural University;|Department of Zoology and Physiology, University of Wyoming;|Aarhus University
http://dx.doi.org/10.1101/146548 2017-06-06 Bioengineering Cooling Induced by Uphill Energy Transport in Plant Photosystems Koel Sen|Abhishek Bhattacharya|Santiswarup Singha|Maitrayee Dasgupta|Anjan Dasgupta Department of Biochemistry, University of Calcutta;|University of Calcutta
http://dx.doi.org/10.1101/146605 2017-06-06 Ecology Pre-dispersal conditions and presence of opposite sex modulate density dependence and sex bias of dispersal Abhishek Mishra|Sudipta Tung|V. R. Shree Sruti|Mohammed Aamir Sadiq|Sahana Srivathsa|Sutirth Dey Indian Institute of Science Education and Research-Pune
http://dx.doi.org/10.1101/135632 2017-06-06 Neuroscience CC BY-NC-ND Local-Global Parcellation of the Human Cerebral Cortex From Intrinsic Functional Connectivity MRI Alexander Schaefer|Ru Kong|Evan M. Gordon|Timothy O. Laumann|Xi-Nian Zuo|Avram Holmes|Simon B. Eickhoff|B. T. Thomas Yeo National University of Singapore;|VISN 17 Center of Excellence for Research on Returning War Veterans, Waco, TX, USA;|Washington University in St. Louis, St. Louis, MO, USA;|University of Chinese Academy of Sciences, Beijing, China;|Yale University, New Haven, CT, USA;|Institute for Systems Neuroscience, Medical Faculty, Heinrich-Heine University, Dusseldorf
http://dx.doi.org/10.1101/133231 2017-06-06 Cell Biology CC BY-NC A Guide To Analysis And Reconstruction Of Serial Block Face Scanning Electron Microscopy Data Erin Cocks|Michael Taggart|Claire Rind|Kathryn White Newcastle University
http://dx.doi.org/10.1101/146670 2017-06-06 Genetics CC BY-NC-ND The iPSYCH2012 case-cohort sample: New directions for unravelling genetic and environmental architectures of severe mental disorders Carsten Boecker Pedersen|Jonas Bybjerg-Grauholm|Marianne Gioertz Pedersen|Jakob Grove|Esben Agerbo|Marie Baekvad-Hansen|Jesper Buchhave Poulsen|Christine Soeholm Hansen|John McGrath|Thomas D. Als|Jacqueline Goldstein|Benjamin Neale|Mark Daly|David Hougaard|Ole Mors|Merete Nordentoft|Anders Boerglum|Thomas Werge|Preben Bo Mortensen iPSYCH;|Broad Institute
http://dx.doi.org/10.1101/146621 2017-06-06 Genomics CC BY Non-canonical secondary structures arising from non-B DNA motifs are determinants of mutagenesis Ilias Georgakopoulos-Soares|Sandro Morganella|Naman Jain|Martin Hemberg|Serena Nik-Zainal Wellcome Trust Sanger Institute;|Imperial College London
http://dx.doi.org/10.1101/146662 2017-06-06 Ecology CC BY-NC-ND Five years of land surface phenology in a large-scale flooding and draining manipulation in a coastal Arctic ecosystem Santonu Goswami|John A. Gamon|Sergio Vargas|Craig E. Tweedie University of Texas at El Paso;|University of Alberta
http://dx.doi.org/10.1101/146472 2017-06-06 Neuroscience Visual pathways from the perspective of cost functions and multi-task deep neural networks H. Steven Scholte|Max M. Losch|Kandan Ramakrishnan|Edward de Haan|Sander Bohte University of Amsterdam;|CWI Amsterdam
http://dx.doi.org/10.1101/121368 2017-06-06 Ecology CC BY Does circadian regulation lead to optimal gas exchange regulation? Victor Resco de Dios|Arthur Gessler|Pitter Ferrio|Josu Alday|Michael Bahn|Jorge del Castillo|Sebastien Devidal|Sonia Garcia-Munoz|Zach Kayler|Damien Landais|Paula Martin-Gomez|Alex Milcu|Clement Piel|Karin Pirhofer-Walzl|Olivier Ravel|Serajis Salekin|David Tissue|Mark Tjoelker|Jordi Voltas|Jacques Roy Universitat de Lleida;|WSL;|University of Innsbruck;|CNRS;|IMIDRA;|OSU;|ZALF;|Western Sydney University
http://dx.doi.org/10.1101/146506 2017-06-06 Developmental Biology CC BY-NC Impairment of zebrafish reproduction upon exposure to melengestrol acetate Kewen Xiong|Chunyun Zhong|Xin Wang Third Hospital of Shanxi University
http://dx.doi.org/10.1101/146514 2017-06-06 Bioinformatics CC BY-NC-ND SeqAnt 2.0: Whole-Genome Annotation and Natural-Language Searching in the Cloud Alex V. Kotlar|Cristina E. Trevino|Michael E. Zwick|David J. Cutler|Thomas S. Wingo Emory University
http://dx.doi.org/10.1101/143107 2017-06-06 Cell Biology Matryoshka: Ratiometric biosensors from a nested 1 cassette of green- and orange-emitting fluorescent proteins Cindy Ast|Jessica Foret|Luke Oltrogge|Roberto De Michele|Thomas Kleist|Cheng-Hsun Ho|Wolf Frommer Carnegie Institution for Science;|UC Berkeley;|Italian National Research Council (CNR);|Academia Sinica;|Heinrich Heine Universitaet Duesseldorf
http://dx.doi.org/10.1101/146571 2017-06-06 Developmental Biology Stepwise approach to oocyte depletion in Sry mutated XY female mice Akihiko Sakashita|Takuya Wakai|Yukiko Kawabata|Chiaki Nishimura|Yusuke Sotomaru|Tomohiro Kono Department of Bioscience, Tokyo University of Agriculture;|Graduate School of Environment and Life Science, Okayama University;|Natural Science Centre for Basic Research and Development, Hiroshima University
http://dx.doi.org/10.1101/146811 2017-06-06 CC BY-ND An integrated genomic analysis of anaplastic meningioma identifies prognostic molecular signatures Grace Collord|Patrick Tarpey|Natalja Kurbatova|Inigo Martincorena|Sebastian Moran|Manuel Castro|Tibor Nagy|Graham Bignell|Francesco Maura|Jorge Berna|Jose M. Tubio|Chris E. McMurran|Adam M. H. Young|Matthew D. Young|Imran Noorani|Stephen J. Price|Colin Watts|Elke Leipnitz|Matthias Kirsch|Gabriele Schackert|Danita Pearson|Abel Devadass|Zvi Ram|V. Peter Collins|Kieren Allinson|Michael Jenkinson|Rasheed Zakaria|Khaja Syed|C. Oliver Hanemann|Jemma Dunn|Michael McDermott|Ramez Kirollos|George S. Vassiliou|Manel Esteller|Sam Behjati|Alvis Brazma|Thomas Santarius|Ultan McDermott Wellcome Trust Sanger Institute;|European Bioinformatics Institute;|Cancer Epigenetics & Biology Program, Bellvitge Biomedical Research Institute (IDIBELL);|Phylogenomics Lab, Edificio Torre CACTI, Campus Universitario;|Dept. of Neurosurgery, Dept. of Clinical Neuroscience, Cambridge University Hospitals NHS;|Klinik und Poliklinik fur Neurochirurgie, “Carl Gustav Carus” Universitatsklinikum;|Department of Pathology, Cambridge University Hospital;|Department of Neurosurgery, Tel-Aviv Medical Center;|Department of Neurosurgery, The Walton Centre, Liverpool;|Institute of Translational & Stratified Medicine, Plymouth Univ. Peninsula Schools of Medicine;|Department of Neurosurgery, UCSF Medical Center, San Francisco;|European Molecular Biology Laboratory, European Bioinformatics Institute
http://dx.doi.org/10.1101/146738 2017-06-06 CC BY-NC-ND Combining 16S rRNA gene variable regions enables high-resolution microbial community profiling Garold Fuks|Michael Elgart|Amnon Amir|Amit Zeisel|Peter J. Turnbaugh|Yoav Soen|Noam Shental Weizmann Institute of Science;|University of California San Diego;|Karolinska Institutet;|University of California San Francisco;|The Open University Of Israel
http://dx.doi.org/10.1101/146837 2017-06-06 CC BY Mcm10 functions to isomerize CMG-DNA for replisome bypass of DNA blocks Lance D. Langston|Ryan Mayle|Grant D. Schauer|Olga Yurieva|Dan Zhang|Nina Y. Yao|Roxana E. Georgescu|Mike E. O'Donnell Howard Hughes Medical Institute, Rockefeller University
http://dx.doi.org/10.1101/146746 2017-06-06 CC BY The ash dieback invasion of Europe was founded by two individuals from a native population with huge adaptive potential Mark McMullan|Maryam Rafiqi|Gemy Kaithakottil|Bernardo J. Clavijo|Lorelei Bilham|Elizabeth Orton|Lawrence Percival-Alwyn|Ben J. Ward|Anne Edwards|Diane G. O. Saunders|Gonzalo Garcia|Jon Wright|Walter Verweij|Georgios Koutsovoulos|Kentaro Yoshida|Tsuyoshi Hosoya|Louisa Williamson|Philip Jennings|Renaud Ioos|Claude Husson|Ari M. Hietala|Adam Vivian-Smith|Halvor Solheim|Dan MacLean|Christine Fosker|Neil Hall|James K. M. Brown|David Swarbreck|Mark Blaxter|Allan Downie|Matthew D. Clark Earlham Institute;|Royal Botanic Gardens;|John Innes Centre;|University of Edinburgh;|Kobe University;|National Museum of Nature and Science;|Fera Science Limited;|ANSES Laboratoire de la Sante des Vegetaux;|Universite de Lorraine;|Norwegian Institute of Bioeconomy Research;|The Sainsbury Laboratory
http://dx.doi.org/10.1101/146787 2017-06-06 CC BY Genetic contribution to two factors of neuroticism is associated with affluence, better health, and longer life William David Hill|Alexander Weiss|Andrew M. McIntosh|Catharine R. Gale|Ian J. Deary University of Edinburgh;|University of Edinbrugh
http://dx.doi.org/10.1101/146779 2017-06-06 Neuroscience Simultaneous GCaMP6-based Fiber Photometry and fMRI in Rats Zhifeng Liang|Yuncong Ma|Glenn D. R. Watson|Nanyin Zhang The Pennsylvania State University
http://dx.doi.org/10.1101/146498 2017-06-06 Cancer Biology Non-classical estrogen signaling inhibits melanoma and improves response to PD-1 blockade Christopher A. Natale|Jinyang Li|Junqian Zhang|Ankit Dahal|Ben Z. Stanger|Todd W. Ridky University of Pennsylvania
http://dx.doi.org/10.1101/146712 2017-06-06 Developmental Biology CC BY-NC-ND Epigenetic resetting of human pluripotency Ge Guo|Ferdinand von Meyenn|Maria Rostovskaya|James Clarke|Sabine Dietmann|Duncan Baker|Anna Sahakyan|Samuel Myers|Paul Bertone|Wolf Reik|Kathrin Plath|Austin Smith The Wellcome Trust MRC Stem Cell Institute;|Babraham Institute;|University of Cambridge;|University of Sheffield;|University of California, Los Angeles
http://dx.doi.org/10.1101/145987 2017-06-06 Evolutionary Biology CC BY-NC The consequences of polyandry for sibship structures, distributions of relationships and relatedness, and potential for inbreeding in a wild population Ryan R. Germain|Peter Arcese|Jane M. Reid University of Aberdeen;|University of British Columbia
http://dx.doi.org/10.1101/145771 2017-06-07 A Novel Nasal Brush-based Classifier of Asthma Identified by Machine Learning Analysis of Nasal RNA Sequence Data Gaurav Pandey|Om Prakash Pandey|Angela J. Rogers|Gabriel E Hoffman|Benjamin A. Raby|Scott T. Weiss|Eric E. Schadt|Supinda Bunyavanich Icahn School of Medicine at Mount Sinai;|Stanford University School of Medicine;|Harvard Medical School
http://dx.doi.org/10.1101/147207 2017-06-07 CC BY-NC-ND Placental gene expression mediates the interaction between obstetrical history and genetic risk for schizophrenia Gianluca Ursini|Giovanna Punzi|Qiang Chen|Stefano Marenco|Joshua Robinson|Annamaria Porcelli|Emily Hamilton|Marina Mitjans|Giancarlo Maddalena|Martin Begemann|Jan Seidel|Hidenaga Yanamori|Andrew E. Jaffe|Karen F. Berman|Michael F. Egan|Richard E. Straub|Carlo Colantuoni|Giuseppe Blasi|Ryota Hashimoto|Dan Rujescu|Hannelore Ehrenreich|Alessandro Bertolino|Daniel R. Weinberger Lieber Institute for Brain Development;|NIMH;|UCSF;|Aldo Moro University, Bari, Italy;|Research Center for Nanoscale Microscopy & Molecular Physiology of the Brain (CNMPB);|Osaka University, Osaka, Japan;|Merck;|Lieber institute for Brain Development;|Martin Luther University of Halle-Wittenberg, Halle, Germany
http://dx.doi.org/10.1101/147215 2017-06-07 CC BY-NC-ND Non-invasive laminar inference with MEG: Comparison of methods and source inversion algorithms James J. Bonaiuto|Holly E. Rossiter|Sofie S. Meyer|Natalie Adams|Simon Little|Martina F. Callaghan|Fred Dick|Sven Bestmann|Gareth R. Barnes University College London;|Cardiff University;|University of York;|Birkbeck, University of London
http://dx.doi.org/10.1101/133454 2017-06-07 CC BY-NC-ND Psychophysiological Interactions in a Visual Checkerboard Task: Reproducibility, Reliability, and the Effects of Deconvolution Xin Di|Bharat B Biswal New Jersey Institute of Technology
http://dx.doi.org/10.1101/146456 2017-06-07 CC BY-NC-ND 3D clustering analysis of super-resolution microscopy data by 3D Voronoi tessellations Leonid Andronov|Jonathan Michalon|Khalid Ouararhni|Igor Orlov|Ali Hamiche|Jean-Luc Vonesch|Bruno Klaholz Centre for Integrative Biology, IGBMC;|IGBMC
http://dx.doi.org/10.1101/146936 2017-06-07 Genetics of the Research Domain Criteria (RDoC): genome-wide association study of delay discounting Sandra Sanchez-Roige|Pierre Fontanillas|Sarah L. Elson|Anita Pandit|Ellen Schmidt|Johanna Forster|Goncalo R. Abecasis|Joshua C. Gray|Harriet de Wit|Lea K. Davis|James MacKillop|Abraham A. Palmer Department of Psychiatry, University of California San Diego, La Jolla, CA, 92093, USA;|23andMe, Inc., Mountain View, CA, USA;|-;|Dept. of Biostatistics and Center for Statistical Genetics, University of Michigan, Ann Arbor;|K. G. Jebsen Center for Genetic Epidemiology, Dept. of Public Health, NTNU, Norwegian Univ.;|University of Georgia/Center for Alcohol and Addiction Studies, Brown University;|Dept. of Psychiatry and Behavioral Neuroscience, University of Chicago, Chicago, IL;|Vanderbilt Genetics Institute; Division of Genetic Medicine, Vanderbilt University;|Peter Boris Centre for Addictions Research, McMaster Univ./St. Joseph's Healthcare Hamilton
http://dx.doi.org/10.1101/146613 2017-06-07 CC BY-NC-ND Altered neurocognitive processing of tactile stimuli in patients with Complex Regional Pain Syndrome (CRPS) Anoop Kuttikat|Valdas Noreika|Srivas Chennu|Nicholas Shenker|Tristan Bekinschtein|Christopher Brown Cambridge University Hospitals NHS Foundation Trust;|University of Cambridge;|University of Kent;|University of Liverpool
http://dx.doi.org/10.1101/147009 2017-06-07 CC BY-NC-ND COREMIC: a web-tool to search for a root-zone associated CORE MICrobiome Richard R. Rodrigues|Nyle Rodgers|Xiaowei Wu|Mark A. Williams Virginia Tech
http://dx.doi.org/10.1101/147181 2017-06-07 Ecology CC BY-NC-ND Species-specific adaptations determine how aridity and biotic interactions drive the assembly of dryland plant communities Miguel Berdugo|Fernando T. Maestre|Sonia Kefi|Nicolas Gross|Yoann Le Bagousse-Pinguet|Santiago Soliveres Universidad Rey Juan Carlos;|Institut des Sciences de l'Evolution de Montpellier;|Centre de etude Biologique de Chize;|University of Bern
http://dx.doi.org/10.1101/147231 2017-06-07 Biochemistry Homology-based hydrogen bond information improves crystallographic structures in the PDB Bart van Beusekom|Wouter G. Touw|Mahidhar Tatineni|Sandeep Somani|Gunaretnam Rajagopal|Jinquan Luo|Gary L. Gilliland|Anastassis Perrakis|Robbie P. Joosten Department of Biochemistry, Netherlands Cancer Institute;|San Diego Supercomputer Center, University of California, San Diego;|Discovery Sciences, Janssen R&D LLC;|Janssen BioTherapeutics, Janssen R&D LLC
http://dx.doi.org/10.1101/147108 2017-06-07 Bioinformatics Genetic variation in human drug-related genes Charlotta P. I. Scharfe|Roman Tremmel|Matthias Schwab|Oliver Kohlbacher|Debora S. Marks Center for Bioinformatics, University of Tuebingen;|Dr. Margarete Fischer-Bosch Institute of Clinical Pharmacology, Stuttgart;|Department of Systems Biology, Harvard Medical School, Boston
http://dx.doi.org/10.1101/146886 2017-06-07 Microbiology CC BY-NC-ND Transient exposure to oxygen or nitrate reveals ecophysiology of fermentative and sulfate-reducing benthic microbial populations Zainab Abdulrahman Beiruti|Srijak Bhatnagar|Halina E. Tegetmeyer|Jeanine S. Geelhoed|Marc Strous|S. Emil Ruff Max Planck Institute for Marine Microbiology;|UC Davis Genome Center;|NIOZ Royal Netherlands Institute for Sea Research;|University of Calgary
http://dx.doi.org/10.1101/147223 2017-06-07 Neuroscience CC BY-NC-ND Global interactions between feature-based and spatial attention redistribute feature sensitivity across visual space Daniel Marten van Es|Jan Theeuwes|Tomas Knapen Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/147165 2017-06-07 Neuroscience Brain-derived neurotrophic factor derived from peripheral sensory neurons plays a critical role in pain chronification Shafaq Sikandar|Michael S. Minett|Joanne Lau|Queensta Millet|Sonia Santana-Varela|John N. Wood|Jing Zhao University College London
http://dx.doi.org/10.1101/146951 2017-06-07 Bioinformatics CC BY-NC-ND FUSTr: a tool to find gene Families Under Selection in Transcriptomes Timothy Jeffrey Cole|Michael Scott Brewer East Carolina University
http://dx.doi.org/10.1101/146142 2017-06-07 Evolutionary Biology CC BY-NC-ND Global biogeography since Pangaea Sarah R. N. McIntyre|Charles H. Lineweaver|Colin P. Groves|Aditya Chopra Australian National University
http://dx.doi.org/10.1101/147058 2017-06-07 Neuroscience 1/f Neural Noise and Electrophysiological Indices of Contextual Prediction in Normative Aging Shruti Dave|Trevor Brothers|Tamara Swaab University of California, Davis
http://dx.doi.org/10.1101/146993 2017-06-07 Neuroscience CC BY-ND Analytical solution of a bilateral Brown-type central pattern generator for symmetric and asymmetric locomotion Anton Sobinov|Sergiy Yakovenko West Virginia University
http://dx.doi.org/10.1101/147173 2017-06-07 Genetics Superposition of survival curves as a tool for epistasis analysis of longevity interventions Stefan Nowak|Johannes Neidhart|Jonas Rzezonka|Ivan G. Szendro|Rahul Marathe|Joachim Krug University of Cologne;|MBR Optical Systems;|Indian Institute of Technology Delhi
http://dx.doi.org/10.1101/146522 2017-06-07 Neuroscience Early warning signals regarding environmental suitability in the Drosophila antenna Haoyang Rong|Prithwiraj Das|Adalee Lube|David Yang|Debajit Saha|Yehuda Ben-Shahar|Baranidharan Raman Washington University in St. Louis
http://dx.doi.org/10.1101/147132 2017-06-07 Microbiology Unleashing natural competence in Lactococcus lactis by induction of the competence regulator ComX Joyce Mulder|Michiel Wels|Oscar P. Kuipers|Michiel Kleerebezem|Peter A. Bron Molecular Genetics, Univ. of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands;|NIZO B.V., Kernhemseweg 2, 6718 ZB, Ede, The Netherlands;|Wageningen University
http://dx.doi.org/10.1101/146704 2017-06-07 Bioinformatics PureCLIP: Capturing target-specific protein-RNA interaction footprints from single-nucleotide CLIP-seq data Sabrina Krakau|Hugues Richard|Annalisa Marsico Max Planck Institute for Molecular Genetics;|Sorbonne Universites, UPMC Univ Paris 06, CNRS, IBPS, UMR 7238;|Max Planck Institute for Molecular Genetics Berlin
http://dx.doi.org/10.1101/134262 2017-06-07 Evolutionary Biology CC BY Experimental signal dissection and method sensitivity analyses reaffirm the potential of fossils and morphology in the resolution of seed plant phylogeny Mario Coiro|Guillaume Chomicki|James A. Doyle University of Zuerich;|University of Munich;|University of California, Davis
http://dx.doi.org/10.1101/146985 2017-06-07 Biochemistry CC BY-NC-ND Post-Transcriptional Control of Coenzyme Q Biosynthesis Revealed by Transomic Analysis of the RNA-Binding Protein Puf3p Christophier P Lapointe|Jonathan A Stefely|Adam Jochem|Paul D Hutchins|Gary M Wilson|Nicholas W Kwiecien|Joshua J Coon|Marvin Wickens|David J Pagliarini University of Wisconsin-Madison;|Morgridge Institute for Research
http://dx.doi.org/10.1101/146829 2017-06-07 Genomics CC BY-NC-ND Genome-wide quantification of the effects of DNA methylation on human gene regulation Amanda J Lea|Christopher M Vockley|Rachel A Johnston|Christina A Del Carpio|Luis B Barreiro|Timothy E Reddy|Jenny Tung Princeton University;|Duke University;|University of Montreal
http://dx.doi.org/10.1101/147082 2017-06-07 Cell Biology FGF21 regulates melanogenesis in alpaca melanocytes via ERK1/2-Mediated MITF downregulation Ruiwei Wang|Tianzhi Chen|Bingling Zhao|Ruiwen Fan|Kaiyuan Ji|Xiuju Yu|Xianjun Wang|Changsheng Dong College of Animal Science and Veterinary Medicine, Shanxi Agricultural University;|Shanxi Normal University
http://dx.doi.org/10.1101/146753 2017-06-07 Neuroscience CC BY A frequency-dependent mobilization of heterogeneous pools of synaptic vesicles shapes presynaptic plasticity Frederic Doussau|Hartmut Schmidt|Kevin Dorgans|Antoine M. Valera|Bernard Poulain|Philippe Isope CNRS;|University of Leipzig
http://dx.doi.org/10.1101/146977 2017-06-07 Immunology HIV persistence during antiviral therapy occurs due to cellular proliferation Daniel B Reeves|Elizabeth R Duke|Thor A Wagner|Sarah E Palmer|Adam M Spivak|Joshua T Schiffer Fred Hutch;|Fred Hutch/UW;|Seattle Cancer Care Alliance;|Westmead Institute at University of Sydney;|University of Utah
http://dx.doi.org/10.1101/146852 2017-06-07 Biochemistry CC BY-ND Molecular chaperones inject energy from ATP hydrolysis into the non-equilibrium stabilisation of native proteins Pierre Goloubinoff|Alberto Sassi|Bruno Fauvet|Alessandro Barducci|Paolo De Los Rios University de Lausanne;|Ecole Polytechnique Federale de Lausanne;|INSERM - Montpellier
http://dx.doi.org/10.1101/147405 2017-06-07 CC BY-NC-ND Cortical Entropy Values Correlate With Brain Scale-Free Dynamics Arturo Tozzi|James Peters|Mehmet Cankaya University of North Texas;|University of Manitoba;|Usak University
http://dx.doi.org/10.1101/147314 2017-06-07 CC BY-NC-ND Novel multiscale insights into the composite nature of water transport in roots Valentin Couvreur|Marc Faget|Guillaume Lobet|Mathieu Javaux|Francois Chaumont|Xavier Draye Universite catholique de Louvain
http://dx.doi.org/10.1101/147447 2017-06-07 CC BY-NC-ND Just One Brain Activity Arturo Tozzi|James Peters University of North Texas;|University of Manitoba
http://dx.doi.org/10.1101/147421 2017-06-07 Phenolic glycolipid facilitates mycobacterial escape from a microbicidal population of tissue-resident macrophages C. J. Cambier|Seonadh M. O'Leary|Mary P. O'Sullivan|Joseph Keane|Lalita Ramakrishnan Stanford;|Trinity Translational Medicine Institute;|University of Cambridge, Cambridge, UK
http://dx.doi.org/10.1101/147272 2017-06-07 Neuroscience CC BY-ND Subgraphs of functional brain networks identify dynamical constraints of cognitive control Ankit Khambhati|John D. Medaglia|Elisabeth A. Karuza|Sharon L. Thompson-Schill|Danielle S. Bassett University of Pennsylvania
http://dx.doi.org/10.1101/147017 2017-06-07 Systems Biology CC BY-NC-ND Theoretical quantification of interference in the TASEP: Application to mRNA translation shows near-optimality of termination rates Khanh Dao Duc|Zain H. Saleem|Yun S. Song University of Pennsylvania;|University of California, Berkeley
http://dx.doi.org/10.1101/147264 2017-06-07 Synthetic Biology CC BY-NC Resetting the yeast epigenome with human nucleosomes David M. Truong|Jef D. Boeke New York University Langone Medical Center
http://dx.doi.org/10.1101/146878 2017-06-07 Neuroscience CC BY-NC Unfolding the hippocampus: An intrinsic coordinate system for subfield segmentations and quantitative mapping Jordan DeKraker|Kayla M. Ferko|Jonathan C. Lau|Stefan Kohler|Ali R. Khan Brain and Mind Institute, Robarts Research Institute, University of Western Ontario;|Robarts Research Institute, Division of Neurosurgery, University of Western Ontario;|Brain and Mind Institute, Department of Psychology, University of Western Ontario;|Robarts Research Institute, Department of Medical Biophysics, University of Western Ontario
http://dx.doi.org/10.1101/147256 2017-06-07 Plant Biology CC BY-NC-ND A Century of Guayule: Comprehensive Genetic Characterization of the Guayule (Parthenium argentatum A. Gray) USDA Germplasm Collection Daniel C. Ilut|Paul L. Sanchez|Terry A. Coffelt|John M. Dyer|Matthew A. Jenks|Michael A. Gore Cornell University;|USDA-ARS, U.S. Arid-Land Agricultural Research Center;|West Virginia University
http://dx.doi.org/10.1101/145250 2017-06-07 Microbiology Integrated transcriptomic, proteomic and epigenomic analysis of Plasmodium vivax salivary-gland sporozoites Aaron Jex|Ivo Mueller|Stefan Kappe|Sebastian Mikolajcjak|Jetsumon Sattabongkot|Rapatbhorn Patrapuvich|Scott Lindner|Erika Flannery|Cristian Koepfli|Brendan Ansell|Anita Lerch|Kristian Swearingen|Robert Moritz|Michaela Petter|Michael Duffy|Vorada Chuenchob Walter and Eliza Hall Institute of Medical Research; University of Melbourne;|Walter and Eliza Hall Institute of Medical Research; Institut Pasteur;|Centre for Infectious Disease Research;|Faculty of Tropical Medicine, Mahidol University;|University of Pennsylvania;|Center for Infectious Disease Research;|Walter and Eliza Hall Institute of Medical Research;|University of Melbourne;|University of Basel;|Institute for Systems Biology
http://dx.doi.org/10.1101/145631 2017-06-07 Evolutionary Biology CC BY Genetic Drift and Selection in Many-Allele Range Expansions Bryan T. Weinstein|Maxim O. Lavrentovich|Wolfram Mobius|Andrew W. Murray|David R. Nelson Harvard University;|University of Pennsylvania;|University of Exeter
http://dx.doi.org/10.1101/147280 2017-06-07 Pharmacology and Toxicology CC BY-NC Effects of Progesterone on the reproductive physiology in zebrafish Chunyun Zhong|Kewen Xiong|Xin Wang Third Hospital of Shanxi University
http://dx.doi.org/10.1101/122317 2017-06-07 Biochemistry CC BY-ND Discovery of BAZ2A Bromodomain Ligands Dimitrios Spiliotopoulos|Eike-Christian Wamhoff|Graziano Lolli|Christoph Rademacher|Amedeo Caflisch Universitaet Zuerich;|Max Planck Institute of Colloids and Interfaces; Freie Universitaet Berlin;|Protein Crystallography and Structure-Based Drug Design, CIBIO, University of Trento
http://dx.doi.org/10.1101/147611 2017-06-08 CC BY-NC-ND Network Connectivity Predicts Cortical Thinning And Cognitive Decline In Early Parkinson's Disease Yvonne H. C. Yau|Yashar Zeighami|Travis Baker|Kevin Larcher|Uku Vainik|Mahsa Dadar|Vladimir Fonov|Patric Hagmann|Alessandra Griffa|Bratislav Misic|D. Louis Collins|Alain Dagher McGill University;|Rutgers University;|Lausanne University Hospital and University of Lausanne;|UMC Utrecht
http://dx.doi.org/10.1101/147744 2017-06-08 CC BY Robust Averaging Protects Decisions from Noise in Neural Computations Vickie L. Li|Santiago Herce Castanon|Joshua A. Solomon|Hildward Vandormael|Christopher Summerfield University of Oxford;|City University of London
http://dx.doi.org/10.1101/147827 2017-06-08 CC BY-NC-ND Combining global tree cover loss data with historical national forest-cover maps to look at six decades of deforestation and forest fragmentation in Madagascar Ghislain Vieilledent|Clovis Grinand|Fety A. Rakotomalala|Rija Ranaivosoa|Jean-Roger Rakotoarijaona|Thomas F. Allnutt|Frederic Achard Cirad;|ETC Terra;|Office National pour l'Environnement;|GreenInfo Network;|Joint Research Center of the European Commission
http://dx.doi.org/10.1101/147645 2017-06-08 CC BY PathCORE: Visualizing globally co-occurring pathways in large transcriptomic compendia Kathleen M. Chen|Jie Tan|Gregory P. Way|Georgia Doing|Deborah A. Hogan|Casey S. Greene University of Pennsylvania;|Geisel School of Medicine at Dartmouth
http://dx.doi.org/10.1101/147769 2017-06-08 Engagement rules that underpin DBL-DARC interactions for ingress of Plasmodium knowlesi and Plasmodium vivax into human erythrocytes Manickam Yogavel|Abhishek Jamwal|Swati Gupta|Amit Sharma ICGEB
http://dx.doi.org/10.1101/147512 2017-06-08 CC BY Independent contributions of noradrenaline to behavioural flexibility and motivation Caroline Isabelle Jahn|Sophie Gilardeau|Chiara Varazzani|Bastien Blain|Jerome Sallet|Mark E. Walton|Sebastien Bouret University of Oxford;|ICM - Brain and Spine Institute;|Oxford University
http://dx.doi.org/10.1101/147728 2017-06-08 CC BY-NC The cavity method for community ecology Matthieu Barbier|Jean-Francois Arnoldi CBTM Moulis (CNRS);|CNRS
http://dx.doi.org/10.1101/147678 2017-06-08 Biophysics A Bayesian computational approach to explore the optimal duration of a cell proliferation assay Alexander P. Browning|Scott McCue|Matthew J. Simpson Queensland University of Technology
http://dx.doi.org/10.1101/147637 2017-06-08 Genomics CC BY-NC-ND Highly parallel genome variant engineering with CRISPR/Cas9 in eukaryotic cells Meru J. Sadhu|Joshua S. Bloom|Laura Day|Jake J. Siegel|Sriram Kosuri|Leonid Kruglyak University of California, Los Angeles;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/147462 2017-06-08 Bioinformatics CC BY-NC-ND PinAPL-Py: a web-service for the analysis of CRISPR-Cas9 Screens Philipp N Spahn|Tyler Bath|Ryan J. Weiss|Jihoon Kim|Jeffrey D. Esko|Nathan E Lewis|Olivier Harismendy University of California, San Diego
http://dx.doi.org/10.1101/147710 2017-06-08 Systems Biology CC BY-NC-ND A Negative Feedback Regulates The Flow Of Signal Through Akt/mTORC1/S6K1 Pathway Poulami Dutta|Vimalathithan Devaraj|Biplab Bose Indian Institute of Technology Guwahati
http://dx.doi.org/10.1101/146464 2017-06-08 Biophysics CC BY-NC-ND Measuring Protein Binding to Lipid Vesicles by Fluorescence Cross-Correlation Spectroscopy Daniela Kruger|Jan Ebenhan|Kirsten Bacia University of Halle
http://dx.doi.org/10.1101/147603 2017-06-07 Cell Biology CC BY-NC-ND ESCRT-III acts in scissioning new peroxisomes from the ER Fred D Mast|Thurston Herricks|Kathleen M Strehler|Leslie R Miller|Ramsey A Saleem|Richard A Rachubinski|John D Aitchison Center for Infectious Disease Research;|Institute for Systems Biology;|Amgen;|Department of Cell Biology, University of Alberta
http://dx.doi.org/10.1101/147389 2017-06-07 Bioengineering CC BY-NC-ND A programmable optical stimulator for the Drosophila eye Xinping Chen|Walter Leon-Salas|Taylor Zigon|Vikki Weake|Donald Ready Purdue University;|Purdue Universiry
http://dx.doi.org/10.1101/147942 2017-06-08 CC BY-NC-ND More than Drylands but Less of Dry Forests Marcelino De la Cruz|Pedro F. Quintana-Ascencio|Luis Cayuela|Carlos I. Espinosa|Adrian Escudero Universidad Rey Juan Carlos;|University of Central Florida;|Universidad Técnica Particular de Loja
http://dx.doi.org/10.1101/147470 2017-06-08 Segway 2.0: Gaussian mixture models and minibatch training Rachel C. W. Chan|Maxwell W. Libbrecht|Eric G. Roberts|William Stafford Noble|Michael M. Hoffman Princess Margaret Cancer Centre;|University of Washington;|Princess Margaret Cancer Centre/University of Toronto
http://dx.doi.org/10.1101/147900 2017-06-08 CC BY-NC-ND Neuronal adaptation and optimal coding in economic decisions Aldo Rustichini|Katherine E. Conen|Xinying Cai|Camillo Padoa-Schioppa University of Minnesota;|Washington University in St. Louis;|NYU Shanghai
http://dx.doi.org/10.1101/147884 2017-06-08 WebMeV: A Cloud Platform for Analyzing and Visualizing Cancer Genomic Data Yaoyu E. Wang|Lev Kuznetsov|Antony Partensky|Jalil Farid|John Quackenbush Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/147967 2017-06-08 CC BY-NC-ND Polarization effects and the calibration of a donut beam axial optical tweezers for single-molecule force spectroscopy Russell Pollari|Joshua N. Milstein University of Toronto
http://dx.doi.org/10.1101/147868 2017-06-08 CC BY An integrative method to unravel the host-parasite interactome: An orthology-based approach Yesid Cuesta-Astroz|Alberto Santos|Guilherme Oliveira|Lars Juhl Jensen Centro de Pesquisas Rene Rachou (CpqRR), Fundacao Oswaldo Cruz (FIOCRUZ);|Novo Nordisk Foundation Center for Protein Research;|Instituto Tecnologico Vale
http://dx.doi.org/10.1101/147926 2017-06-08 CC BY Glucose limitation in Lactococcus shapes a single-peaked fitness landscape exposing membrane occupancy as a constraint Claire Price|Filipe Branco dos Santos|Anne Hesseling|Jaakko Uusitalo|Herwig Bachmann|Vera Benavente|Anisha Goel|Jan Berkhout|Frank Bruggeman|Siewert-Jan Marrink|Manolo Montalban-Lopez|Anne de Jong|Jan Kok|Douwe Molenaar|Bert Poolman|Bas Teusink|Oscar Kuipers University of Groningen;|VU University Amsterdam;|Vrije Universiteit
http://dx.doi.org/10.1101/147850 2017-06-08 CC BY HiCdiff: A method for joint normalization of Hi-C datasets and differential chromatin interaction detection John Stansfield|Mikhail G. Dozmorov Virginia Commonwealth University
http://dx.doi.org/10.1101/147686 2017-06-08 CC BY-NC-ND Chimeric CRISPR guides enhance Cas9 target specificity Noah Jakimo|Pranam Chatterjee|Joseph M. Jacobson MIT
http://dx.doi.org/10.1101/147975 2017-06-08 CC BY Centriole triplet microtubules are required for stable centriole formation and inheritance in human cells Jennifer T. Wang|Dong Kong|Christian R. Hoerner|Jadranka Loncarek|Tim Stearns Stanford University;|National Cancer Institute
http://dx.doi.org/10.1101/146449 2017-06-08 Clinical Trials Performance Of Children With Autism In Parent-Administered Cognitive And Language Exercises Rita Dunn|Jonah Elgart|Lisa Lokshina|Alexander Faisman|Edward Khokhlovich|Yuriy Gankin|Andrey Vyshedskiy ImagiRation;|IBM TJ Watson Research Center;|EPAM Systems;|Boston University
http://dx.doi.org/10.1101/146803 2017-06-08 Epidemiology CC BY-NC-ND Ecological characterization and infection of Anophelines (Diptera: Culicidae) of the Atlantic Forest in the southeast of Brazil over a 10 year period: Has the behaviour of the autochthonous malaria vector changed? Julyana Cerqueira Buery|Helder Ricas Rezende|Licia Natal|Leonardo Santana|Regiane Maria Tironi Menezes|Blima Fux|Rosely Das Santos Malafronte|Aloisio Falqueto|Crispim Cerutti Junior Universidade Federal do Espirito Santo;|Secretaria de Estado da Saude do Espirito Santo;|Instituto de Medicina Tropical de Sao Paulo;|Superintendencia de Controle de Endemias do Estado de Sao Paulo
http://dx.doi.org/10.1101/145722 2017-06-08 Epidemiology Exposing the Exposome with Global Metabolomics and Cognitive Computing Benedikt Warth|Scott Spangler|Mingliang Fang|Caroline Johnson|Erica Forsberg|Ana Granados|Richard L. Martin|Xavi Domingo|Tao Huan|Duane Rinehart|J. Rafael Montenegro-Burke|Brian Hilmers|Aries Aisporna|Linh T. Hoang|Winnie Uritboonthai|Paul Benton|Susan D. Richardson|Antony J. Williams|Gary Siuzdak The Scripps Research Institute;|IBM Almaden;|Yale School of Public Health;|University of South Carolina;|US EPA
http://dx.doi.org/10.1101/144865 2017-06-08 Epidemiology CC BY-NC-ND Demoralization among cancer patients in mainland China: validity of the Demoralization Scale (DS) Lisha Deng|Ying Pang|Yi He|Yening Zhang|Richard Fielding|Lili Tang Department of Psycho-Oncology, Peking University Cancer Hospital & Institute;|School of Public Health, The University of Hong Kong
http://dx.doi.org/10.1101/146530 2017-06-08 Epidemiology CC BY Women's estimated HIV infections from sex in trials of pre-exposure prophylaxis in Africa: Implications for HIV prevention strategies David Gisselquist Independent
http://dx.doi.org/10.1101/146183 2017-06-08 Epidemiology Changing geographic patterns and risk factors for avian influenza A(H7N9) infection in China Jean Artois|Xiling Wang|Hui Jiang|Ying Qin|Morgan Pearcy|Shengjie Lai|Yujing Shi|Juanjuan Zhang|Zhibin Peng|Jiandong Zheng|Yangni He|Madhur Dhingra|Sophie von Dobschuetz|Fusheng Guo|Vincent Martin|Wantanee Kalpravidh|Filip Claes|Timothy Robinson|Simon Hay|Xiangming Xiao|Luzhao Feng|Marius Gilbert|Hongjie Yu Universite Libre de Bruxelles;|Fudan University;|Chinese Center for Disease Control and Prevention;|Food and Agriculture Organization of the United Nations;|Institute for Health Metrics and Evaluation;|University of Oklahoma
http://dx.doi.org/10.1101/147652 2017-06-08 Ecology CC BY-NC-ND Competition in the savanna: Models of species assemblages in Kruger National Park, South Africa Sadie J. Ryan|Joshua Ladau University of Florida;|Gladstone Institutes
http://dx.doi.org/10.1101/147629 2017-06-08 Immunology The integrated stress response pathway activates 4E-BP to bias mRNA translation and boost antimicrobial peptide synthesis in response to bacterial infection Deepika Vasudevan|Nicholas Clark|Jessica Sam|Beatrix Ueberheide|Michael T. Marr|Hyung Don Ryoo NYU School of Medicine;|Brandeis University
http://dx.doi.org/10.1101/147538 2017-06-08 Systems Biology CC BY-NC-ND Differential Community Detection in Paired Biological Networks Raghvendra Mall|Ehsan Ullah|Khalid Kunji|Fulvio D'Angelo|Halima Bensmail|Michele Ceccarelli Qatar Computing Research Institute, Hamad Bin Khalifa University, Doha;|Qatar Computing Research Institute, Hamad Bin Khalifa University;|Dept. of Neurology, Dept. of Pathology, Institute for Cancer Genetics, Columbia University;|University of Sannio
http://dx.doi.org/10.1101/146795 2017-06-08 Bioinformatics Transcriptome Deconvolution of Heterogeneous Tumor Samples with Immune Infiltration Zeya Wang|Jeffrey S. Morris|Shaolong Cao|Jaeil Ahn|Rongjie Liu|Svitlana Tyekucheva|Bo Li|Wei Lu|Ximing Tang|Ignacio I. Wistuba|Michaela Bowden|Lorelei Mucci|Massimo Loda|Giovanni Parmigiani|Chris C. Holmes|Wenyi Wang The University of Texas MD Anderson Cancer Center;|Georgetown University;|Dana Farber Cancer Institute;|Harvard T.H. Chan School of Public Health;|University of Oxford
http://dx.doi.org/10.1101/147496 2017-06-08 Bioinformatics CC BY-NC-ND TCGAbiolinksGUI: A graphical user interface to analyze cancer molecular and clinical data Tiago C. Silva|Antonio Colaprico|Catharina Olsen|Gianluca Bontempi|Michele Ceccarelli|Benjamin P. Berman|Houtan Noushmehr Center for Bioinformatics and Functional Genomics, Cedars-Sinai Medical Center;|Interuniversity Institute of Bioinformatics in Brussels (IB)2, Brussels, Belgium;|Department of Science and Technology, University of Sannio, Benevento, Italy;|Department of Neurosurgery, Henry Ford Hospital, Detroit, MI, USA
http://dx.doi.org/10.1101/147660 2017-06-08 Microbiology ComM is a hexameric helicase that promotes branch migration during natural transformation in diverse Gram-negative species Thomas M. Nero|Triana N. Dalia|Joseph Che-Yen Wang|David T. Kysela|Matthew L. Bochman|Ankur B. Dalia Indiana University
http://dx.doi.org/10.1101/147298 2017-06-08 Neuroscience CC BY-NC-ND Neural dynamics of real-world object vision that guide behaviour Radoslaw Martin Cichy|Nikolaus Kriegeskorte|Kamila M. Jozwik|Jasper J. F. van den Bosch|Ian Charest Free University Berlin;|Medical Research Council;|University of Birmingham
http://dx.doi.org/10.1101/147777 2017-06-08 Bioinformatics CC BY Integrating long-range connectivity information into de Bruijn graphs Isaac Turner|Kiran V. Garimella|Zamin Iqbal|Gil McVean Wellcome Trust Centre for Human Genetics, University of Oxford;|European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus;|Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Oxford
http://dx.doi.org/10.1101/147504 2017-06-08 Bioinformatics CC BY-NC-ND Evaluation of RNAi and CRISPR technologies by large-scale gene expression profiling in the Connectivity Map Ian Smith|Peyton Greenside|David Wadden|Itay Tirosh|Ted Natoli|Rajiv Narayan|David E. Root|Todd R. Golub|Aravind Subramanian|John G. Doench Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/147249 2017-06-08 Ecology CC BY-NC The uptake of attractant and flavour enhanced baits by foxes (Vulpes vulpes) in rural England Graham C. Smith|John A. Woods APHA
http://dx.doi.org/10.1101/147819 2017-06-08 Physiology Metabolomics and biochemical approaches link salicylic acid biosynthesis to cyanogenesis in peach plants Pedro Diaz-Vivancos|Agustina Bernal-Vicente|Daniel Cantabella|Cesar Petri|Jose A. Hernandez CEBAS-CSIC;|UPCT
http://dx.doi.org/10.1101/147553 2017-06-08 Plant Biology Three-dimensional plant architecture and sunlit-shaded dynamics: A stochastic model to enable high-throughput physiological analysis Renata Retkute|Alexandra J. Townsend|Erik H. Murchie|Oliver E. Jensen|Simon P. Preston University of Warwick;|Queen Mary University of London;|University of Nottingham;|University of Manchester
http://dx.doi.org/10.1101/146902 2017-06-09 CC BY-NC-ND Addressing current challenges in cancer immunotherapy with mathematical and computational modeling Anna Konstorum|Anthony T. Vella|Adam Adler|Reinhard Laubenbacher UConn Health;|Department of Immunology, UConn Health, Farmington, CT;|Center for Quantitative Medicine, UConn Health, Farmington, CT
http://dx.doi.org/10.1101/148064 2017-06-09 CC BY Principles that govern competition or co-existence in Rho-GTPase driven polarization Jian-geng Chiou|Timothy C. Elston|Thomas P. Witelski|David G. Schaeffer|Daniel J. Lew Duke University;|University of North Carolina at Chapel Hill;|Duke University School of Medicine
http://dx.doi.org/10.1101/147199 2017-06-09 CC BY Cameo: A Python Library for Computer Aided Metabolic Engineering and Optimization of Cell Factories Joao Cardoso|Kristian Jensen|Christian Lieven|Anne Sofie Laerke Hansen|Svetlana Galkina|Moritz Emanuel Beber|Emre Ozdemir|Markus Herrgard|Henning Redestig|Nikolaus Sonnenschein The Novo Nordisk Foundation Center for Biosustainability
http://dx.doi.org/10.1101/148189 2017-06-09 CC BY-ND Renewed diversification following Miocene landscape turnover in a Neotropical butterfly radiation Nicolas Chazot|Keith R. Willmott|Gerardo Lamas|Andre V. L. Freitas|Florence Piron-Prunier|Carlos F. Arias|Donna Lisa De-Silva|Marianne Elias Lunds Universitet, Lund, Sweden;|University of Florida, Gainesville, USA;|Universidad Nacional de San Marcos, Lima, Peru;|Universidade Estadual de Campinas, Campinas, Sao Paulo, Brazil;|Museum national d'Histoire naturelle, Paris, France;|Smithsonian Tropical Research Institute, Panama
http://dx.doi.org/10.1101/148288 2017-06-09 CC BY-NC Listening to speech induces coupling between auditory and motor cortices in an unexpectedly rate-restricted manner M. Florencia Assaneo|David Poeppel New York University;|New York University; Max Planck Institute
http://dx.doi.org/10.1101/148163 2017-06-09 Population genomics of bank vole populations reveals associations between immune related genes and the epidemiology of Puumala hantavirus in Sweden Audrey Rohfritsch|Maxime Galan|Mathieu Gautier|Karim Gharbi|Gert Olsson|Bernhard Gschloessl|Caroline Zeimes|Sophie VanWambeke|Renaud Vitalis|Nathalie Charbonnel INRA;|SLU;|Univ. Leuven
http://dx.doi.org/10.1101/148148 2017-06-09 Warm and wet: robust lipase-producing bacteria from the indoor environment Kristie Tanner|Christian Abendroth|Manuel Porcar Institute for Integrative Systems Biology (I2SysBio)
http://dx.doi.org/10.1101/148270 2017-06-09 CC BY Hammondia hammondi has a developmental program in vitro that mirrors its stringent two host life cycle Sarah L. Sokol|Abby S. Primack|Sethu C. Nair|Zhee S. Wong|Maiwase Tembo|Jitender P. Dubey|Shiv K. Verma|Jon P. Boyle University of Pittsburgh;|University of PIttsburgh;|U.S. Department of Agriculture;|Dietrich School of Arts and Sciences, University of Pittsburgh
http://dx.doi.org/10.1101/148254 2017-06-09 CC BY-NC OneD: increasing reproducibility of Hi-C Samples with abnormal karyotypes Enrique Vidal|Francois le Dily|Javier Quilez|Ralph Stadhouders|Yasmina Cuartero|Thomas Graf|Marc A. Marti-Renom|Miguel Beato|Guillaume Filion CRG-Centre for Genomic Regulation;|CNAG-CRG-Centre for Genomic Regulation
http://dx.doi.org/10.1101/148171 2017-06-09 Genetics CC BY-ND SNP Data Quality Control in a National Beef and Dairy Cattle System and Highly Accurate SNP Based Parentage Verification and Identification Matthew C. McClure|John McCarthy|Paul Flynn|Jennifer McClure|Karl O'Connell|Francis Kearney Irish Cattle Breeding Federation, Bandon, Co. Cork, Ireland;|Weatherbys Ireland, Johnstown, Co. Kildare, Ireland
http://dx.doi.org/10.1101/148056 2017-06-09 Neuroscience CC BY-NC-ND Decoding the orientation of contrast edges from MEG evoked and induced responses Dimitrios Pantazis|Mingtong Fang|Sheng Qin|Yalda Mohsenzadeh|Quanzheng Li|Radoslaw Martin Cichy Massachusetts Institute of Technology;|Massachusetts General Hospital;|Free University Berlin
http://dx.doi.org/10.1101/148122 2017-06-09 Bioinformatics CC BY-NC-ND Indoril: An I-PV Add-On For Visualization Of Point Mutations On 3D Cartesian Coordinates Ibrahim Tanyalcin|Julien Ferte|Taushif Khan|Carla Al Assaf Vrije Universiteit Brussel;|Interuniversity Institute of Bioinformatics in Brussels;|KU Leuven
http://dx.doi.org/10.1101/148239 2017-06-09 Neuroscience Post-transcriptional modulation of Dscam1 enhances axonal growth in development and after injury Marta Koch|Maya Nicolas|Marlen Zschaetzsch|Natalie de Geest|Annelies Claeys|Jiekun Yan|Matthew Morgan|Marie-Luise Erfurth|Matthew Holt|Dietmar Schmucker|Bassem Hassan VIB;|ICM
http://dx.doi.org/10.1101/148049 2017-06-09 Genetics CC BY-NC-ND Temporal and spatial variation among single dopaminergic neuron transcriptomes informs cellular phenotype diversity and Parkinson's Disease gene prioritization Paul Hook|Sarah A. McClymont|Gabrielle H. Cannon|William D. Law|Loyal A. Goff|Andrew S. McCallion Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/148072 2017-06-09 Cancer Biology Multi-dimensional genomic analysis of myoepithelial carcinoma identifies prevalent oncogenic gene fusions Martin Dalin|Nora Katabi|Marta Persson|Ken-Wing Lee|Vladimir Makarov|Alexis Desrichard|Logan Walsh|Lyndsay West|Zaineb Nadeem|Deepa Ramaswami|Jonathan Havel|Fengshen Kuo|Kalyani Chadalavada|Gouri Nanjangud|Nadeem Riaz|Alan Ho|Cristina Antonescu|Ronald Ghossein|Goran Stenman|Timothy Chan|Luc G. T. Morris Memorial Sloan Kettering Cancer Ctr;|University of Gothenburg
http://dx.doi.org/10.1101/147595 2017-06-09 Cell Biology Differential Mast Cell Outcomes Are Sensitive to FcϵRI-Syk Binding Kinetics Samantha L. Schwartz|Cedric Cleyrat|Mark Olah|Peter Relich|Genevieve Phillips|William S. Hlavacek|Keith A. Lidke|Bridget S. Wilson|Diane Lidke University of New Mexico;|Los Alamos National Laboratory
http://dx.doi.org/10.1101/147918 2017-06-09 Genetics Mutations in the Drosophila splicing regulator Prp31 as a model for Retinitis pigmentosa 11 Malte Lehmann|Sarita Hebbar|Holger Brandl|Weihua Leng|Naharajan Lakshmanaperumal|Sylke Winkler|Elisabeth Knust Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/148510 2017-06-09 Accurate Phasing of Pedigree Genotypes Using Whole Genome Sequence Data August N. Blackburn|Mark Z. Kos|Nicholas B. Blackburn|Juan M. Peralta|Peter Stevens|Donna M. Lehman|Lucy Blondell|John Blangero|Harald H. H. Goring University of Texas Rio Grande Valley;|University of Texas Rio Grande Valley; Menzies Institute for Medical Research;|UT Health San Antonio
http://dx.doi.org/10.1101/148304 2017-06-09 CC BY-NC-ND Phytoplankton traits from long-term oceanographic time-series Crispin Mutshinda|Zoe V. Finkel|Claire E. Widdicombe|Andrew J. Irwin Mount Allison University;|Plymouth Marine Laboratory
http://dx.doi.org/10.1101/148403 2017-06-09 Graphtyper: Population-scale genotyping using pangenome graphs Hannes P. Eggertsson|Hakon Jonsson|Snaedis Kristmundsdottir|Eirikur Hjartarson|Birte Kehr|Gisli Masson|Florian Zink|Aslaug Jonasdottir|Adalbjorg Jonasdottir|Ingileif Jonsdottir|Daniel F. Gudbjartsson|Pall Melsted|Kari Stefansson|Bjarni V. Halldorsson deCODE genetics
http://dx.doi.org/10.1101/148346 2017-06-09 Challenges in estimating the motility parameters of single processive motor proteins Felix Ruhnow|Linda Kloss|Stefan Diez B CUBE - TU Dresden
http://dx.doi.org/10.1101/148429 2017-06-09 CC BY-NC-ND Reciprocal control of motility and biofilm formation by the PdhS2 two-component sensor kinase of Agrobacterium tumefaciens Jason E. Heindl|Daniel Crosby|Sukhdev Brar|Daniel Merenich|Aaron M. Buechlein|Eric L. Bruger|Christopher M. Waters|Clay Fuqua University of the Sciences;|Indiana University Bloomington;|Michigan State University
http://dx.doi.org/10.1101/148296 2017-06-09 CC BY Indexcov: fast coverage quality control for whole-genome sequencing Brent S. Pedersen|Ryan L. Collins|Michael E. Talkwoski|Aaron Ryan Quinlan University of Utah;|Harvard Medical School;|Broad Institute
http://dx.doi.org/10.1101/148452 2017-06-09 CC BY-NC Age differentiation within grey matter, white matter and between memory and white matter in an adult lifespan cohort Susanne M. M. de Mooij|Richard N. A. Henson|Lourens J. Waldorp|Rogier A. Kievit Department of Psychology, University of Amsterdam;|MRC Cognition and Brain Science Unit;|-
http://dx.doi.org/10.1101/148262 2017-06-09 Development of an HPTLC method for determination of hypoglycin A in aqueous extracts of seedlings and samaras of Acer species Jean B. A. Habyarimana|Etienne Baise|Caroline Douny|Mireille Weber|Francois Boemer|Pascal De Tullio|Thierry Franck|Christel Marcillaud-Pitel|Michel Frederich|Ange Mouithys-Mickalad|Eric Richard|Marie-Louise Scippo|Dominique Votion|Pascal Gustin Fundamental and Applied Research for Animals & Health, Faculty of Veterinary Medicine;|Biochemical Genetics Laboratory, CHU, University of Liege;|Center for Interdisciplinary Research on Medicines, Medicinal Chemistry, Universite de Liege;|Centre de l'Oxygene, Recherche et Developpement (CORD);|Reseau d'Epidemio-Surveillance en Pathologie Equine (RESPE);|Center for Interdisciplinary Research on Medicines (CIRM), Pharmacognosie;|Normandie Universite, UNICAEN, SF 4206 ICORE/LABEO Frank Duncombe
http://dx.doi.org/10.1101/148320 2017-06-09 CC BY-NC-ND Intercellular communication via the comX-Inducing Peptide (XIP) of Streptococcus mutans Justin Kaspar|Simon A. M. Underhill|Robert C. Shields|Adrian Reyes|Suzanne Rosenzweig|Stephen J. Hagen|Robert A. Burne Department of Oral Biology, University of Florida, Gainesville, Florida 32610;|Department of Physics, University of Florida, Gainesville, Florida 32611-8440
http://dx.doi.org/10.1101/148395 2017-06-09 CC BY-NC-ND A First Order Phase Transition Underlies the Formation of Sub-Diffractive Protein Aggregates in Mammalian Cells Arjun Narayanan|Anatoli B. Meriin|Michael Y. Sherman|Ibrahim I. Cisse Massachusetts Institute of Technology;|Boston University School of Medicine
http://dx.doi.org/10.1101/148411 2017-06-09 CC BY-NC-ND iDEP: An integrated web application for differential expression and pathway analysis Steven Xijin Ge South Dakota State University
http://dx.doi.org/10.1101/148338 2017-06-09 Metabolic engineering of Escherichia coli for production of valerenadiene S. Eric Nybo|Jacqueline Saunders|Sean P. McCormick Ferris State University
http://dx.doi.org/10.1101/130948 2017-06-09 Bioinformatics Meta-analysis of Cytometry Data Reveals Racial Differences in Immune Cells Zicheng Hu|Chethan Jujjavarapu|Jake J. Hughey|Sandra Andorf|Pier Federico Gherardini|Matthew H. Spitzer|Patrick Dunn|Cristel G. Thomas|John Campbell|Jeff Wiser|Garry P. Nolan|Sanchita Bhattacharya|Atul J. Butte Institute for Computational Health Sciences, University of California, San Francisco;|Department of Biomedical Informatics, Vanderbilt University School of Medicine;|Department of Medicine, Stanford University School of Medicine;|Department of Microbiology and Immunology, Stanford University;|Department of Microbiology and Immunology, University of California, San Francisco;|Northrop Grumman Technology Services Health IT;|University of California, San Francisco
http://dx.doi.org/10.1101/148080 2017-06-09 Neuroscience CC BY Multiple conserved cell adhesion protein interactions mediate neural wiring of a sensory circuit in C. elegans Byunghyuk Kim|Scott Emmons Albert Einstein College of Medicine, United States
http://dx.doi.org/10.1101/148213 2017-06-09 Cell Biology CC BY aPKC-mediated displacement and actomyosin-mediated retention polarize Miranda in Drosophila neuroblasts Matthew Hannaford|Anne Ramat|Nicolas Loyer|Jens Januschke University of Dundee School of Life Sciences
http://dx.doi.org/10.1101/148437 2017-06-09 Immunology CC BY Intracellular BH3 profiling reveals shifts in anti-apoptotic dependency in B-cell maturation and activation Micah A Luftig|Joanne Dai Duke University School of Medicine, United States
http://dx.doi.org/10.1101/147363 2017-06-09 Bioengineering CC BY-NC-ND Reverse-Correlation Analysis of Mechanosensation Circuit in C. elegans Reveals Temporal and Spatial Encoding Daniel A. Porto|John Giblin|Yiran Zhao|Hang Lu Georgia Institute of Technology
http://dx.doi.org/10.1101/148247 2017-06-09 Genetics CC BY-NC-ND Quantifying the impact of rare and ultra-rare coding variation across the phenotypic spectrum Andrea Ganna|Kyle Satterstrom|Seyedeh Zekavat|Indraniel Das|Mitja Kurki|Claire Churchhouse|Jessica Alfoldi|Alicia Martin|Aki Havulinna|Andrea Byrnes|Wesley Thompson|Philip Nielsen|Konrad Karczewski|Elmo Saarentaus|Manuel Rivas|Namrata Gupta|Olli Pietilainen|Connor Emdin|Francesco Lescai|Jonas Bybjerg-Grauholm|Jason Flannick|Josep Mercader|Miriam Udler|Markku Laakso|Veikko Salomaa|Christina Hultman|Samuli Ripatti|Eija Hamalainen|Jukka Moilanen|Jarmo Korkko|Outi Kuismin|Merete Nordentoft|David Hougaard|Ole Mors|Thomas Werge|Preben Mortensen|Daniel MacArthur|Mark Daly|Patrick Sullivan|Adam Locke|Aarno Palotie|Anders Borglum|Sekar Kathiresan|Benjamin Neale Massachusetts General Hospital;|Broad Institute;|Washington University School of Medicine;|University of Helsinki;|University of Copenhagen;|Aarhus University;|Stanford University;|Harvard University;|Broad institute;|Statens Serum Institut;|University of Eastern Finland;|THL - National Institute for Health and Welfare;|Karolinska Institutet;|University of Oulu;|Washington University
http://dx.doi.org/10.1101/148015 2017-06-09 Neuroscience CC BY pulse2percept: A Python-based simulation framework for bionic vision Michael Beyeler|Geoffrey M. Boynton|Ione Fine|Ariel Rokem University of Washington
http://dx.doi.org/10.1101/147702 2017-06-09 Genomics De-novo assembly of zucchini genome reveals a whole genome duplication associated with the origin of the Cucurbita genus Javier Montero-Pau|Jose Blanca|Aureliano Bombarely|Pello Ziarsolo|Cristina Esteras|Carlos Marti-Gomez|Maria Ferriol|Pedro Gomez|Manuel Jamilena|Lukas Mueller|Belen Pico|Joaquin Canizares Institute for the Conservation and Breeding of Agricultural Biodiversity (COMAV-UPV);|Department of Horticulture, Virginia Polytechnic Institute and State University;|Insituto Agroforestal Mediterráneo (IAM-UPV);|IFAPA Centro La Mojonera;|Department of Biology and Geology, Research Centers CIAIMBITAL and CeiA3;|Boyce Thompson Institute for Plant Research
http://dx.doi.org/10.1101/148031 2017-06-09 Neuroscience CC BY-NC A single-cell anatomical blueprint for intracortical information transfer from primary visual cortex Yunyun Han|Justus M. Kebschull|Robert A. A. Campbell|Devon Cowan|Fabia Imhof|Anthony M. Zador|Thomas D. Mrsic-Flogel Biozentrum, University of Basel;|CSHL
http://dx.doi.org/10.1101/148205 2017-06-09 Biophysics Near-Atomic Resolution Structure Determination in Over-Focus with Volta Phase Plate by Cs-corrected Cryo-EM Xiao Fan|Lingyun Zhao|Chuan Liu|Jin-Can Zhang|Kelong Fan|Xiyun Yan|Hai-Lin Peng|Jianlin Lei|Hong-Wei Wang Tsinghua University;|Peking University;|Institute of Biophysics
http://dx.doi.org/10.1101/148486 2017-06-10 CC BY Genetic mapping of species differences via “in vitro crosses” in mouse embryonic stem cells Stefano Lazzarano|Marek Kucka|Joao P. L. Castro|Ronald Naumann|Paloma Medina|Michael N. C. Fletcher|Rebecka Wombacher|Joost Gribnau|Tino Hochepied|Claude Libert|Yingguang Frank Chan Friedrich Miescher Laboratory of the Max Planck Society;|Max Planck Institute for Cell Biology and Genetics;|Erasmus MC;|VIB, Ghent University
http://dx.doi.org/10.1101/148650 2017-06-10 CC BY Sperm chemotaxis is driven by the slope of the chemoattractant concentration field Hector Vicente Ramirez-Gomez|Vilma Jimenez-Sabinina|Idan Tuval|Martin Velazquez-Perez|Carmen Beltran|Jorge Carneiro|Christopher Wood|Alberto Darszon|Adan Guerrero IBt/UNAM;|EMBL;|IMEDEA;|Instituto Gulbenkian de Ciência;|Instituto de Biotecnología/UNAM
http://dx.doi.org/10.1101/148627 2017-06-10 CC BY-ND PhenoSpD: an atlas of phenotypic correlations and a multiple testing correction for the human phenome Jie Zheng|Tom Richardson|Louise Millard|Gibran Hemani|Chris Raistrick|Bjarni Vilhjalmsson|Philip Haycock|Tom Gaunt MRC Integrative Epidemiology Unit, University of Bristol;|Aarhus Center for Bioinformatics BIRC, Aarhus University
http://dx.doi.org/10.1101/148601 2017-06-10 CC BY Stability of Commonly Used Haematological Parameters in Samples Stored at 33°C, 22°C and 4°C Ashish Jain|Sanchit Jain|Neha Singh|Priyanka Aswal|Shweta Pal|Sushant Kumar Meinia|Nilotpal Chowdhury All India Institute of Medical Sciences, Rishikesh, India
http://dx.doi.org/10.1101/148536 2017-06-10 CC BY-NC Quartet Sampling distinguishes lack of support from conflicting support in the plant tree of life James B Pease|Joseph W Brown|Joseph F Walker|Cody E Hinchliff|Stephen A Smith Wake Forest University;|University of Michigan;|University of Idaho
http://dx.doi.org/10.1101/148528 2017-06-10 Immunology Strain-Specific Human Natural Killer Cell Recognition of Influenza A Virus Lisa M Kronstad|Christof Seiler|Rosemary Vergara|Susan P Holmes|Catherine A Blish Stanford University
http://dx.doi.org/10.1101/148585 2017-06-10 Neuroscience CC BY-NC-ND Correlated Light-Serial Scanning Electron Microscopy (CoLSSEM) for ultrastructural visualization of single neurons in vivo Yusuke Hirabayashi|Juan Carlos Tapia|Franck Polleux Columbia University;|University of Talca- Chile
http://dx.doi.org/10.1101/148544 2017-06-10 Evolutionary Biology CC BY Is having more than one CRISPR array adaptive? Jake L Weissman|William F Fagan|Philip LF Johnson University of Maryland, College Park
http://dx.doi.org/10.1101/148494 2017-06-10 Genomics Complex spatio-temporal distribution and genogeographic affinity of mitochondrial DNA haplogroups in 24,216 Danes Jonas Bybjerg-Grauholm|Christian Hagen|Vanessa F Goncalves|Marie Baekvad-Hansen|Christine Soeholm Hansen|Paula L Hedley|Jorgen K Kanters|Jimmi Nielsen|Michael Theisen|Ole Mors|James Kennedy|Thomas D Als|Alfonso Buil Demur|Thomas Werge|Merete Nordentoft|Anders Borglum|Preben Bo Mortensen|David Hougaard|Michael Christiansen Statens Serum Institut;|University of Toronto;|University of Copenhagen;|Aalborg University;|Aarhus University;|Sct Hans;|Mental Heath Centre
http://dx.doi.org/10.1101/148460 2017-06-10 Systems Biology CC BY The adaptive acquisition of single DNA segments drives metabolic evolution across E. coli lineages Tin Yau Pang|Martin Lercher Heinrich Heine University Duesseldorf
http://dx.doi.org/10.1101/148502 2017-06-10 Neuroscience CC BY Harmonization of cortical thickness measurements across scanners and sites Jean-Philippe Fortin|Nicholas Cullen|Yvette I. Sheline|Warren D. Taylor|Irem Aselcioglu|Phil Adams|Crystal Cooper|Mauricio Fava|Patrick J. McGrath|Melvin McInnis|Ramin V. Parsey|Mary L. Phillips|Madhukar H. Trivedi|Myrna M. Weissman|Russell T. Shinohara Department of Biostatistics, Epidemiology, and Informatics, University of Pennsylvania;|Department of Electrical and System Engineering, University of Pennsylvania;|Department of Psychiatry, University of Pennsylvania;|Department of Psychiatry, Vanderbilt University;|Department of Psychiatry, Columbia University College of Physicians and Surgeons;|Department of Psychiatry, University of Texas Southwestern Medical Center;|Department of Psychiatry, Massachusetts General Hospital;|Department of Psychiatry, University of Michigan School of Medicine;|Departments of Psychiatry and Radiology, Stony Brook University;|Department of Psychiatry, University of Pittsburgh School of Medicine;|Department pf Psychiatry, University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/148858 2017-06-11 CC BY-NC-ND Saccharomyces cerevisiae as a platform for assessing sphingolipid kinase inhibitors Yugesh Kharel|Sayeh Agah|Anna J. Mendelson|Oluwafunmilayo T. Eletu|James Gesualdi|Jeffrey S. Smith|Webster L. Santos|Kevin R. Lynch University of Virginia;|Virginia Tech
http://dx.doi.org/10.1101/148668 2017-06-11 CC BY-NC-ND Gene networks provide a high-resolution view of bacteriophage ecology Jason W. Shapiro|Catherine Putonti Loyola University Chicago
http://dx.doi.org/10.1101/148759 2017-06-11 CC BY-NC GADD45α regulates cell proliferation and DNA repair of BRL-3A cells that treated by FZD/UVC via P38, JNK, CDC2/CCNB1, AKT and MTOR pathways Xianguang Yang|Lin Zhu|Weiming Zhao|Chuncui He|Shuaihong Li|Cunshuan Xu College of Life Science, Henan Normal University, Xinxiang, Henan Province, China
http://dx.doi.org/10.1101/148791 2017-06-11 CC BY-NC-ND Exosomes from Nef expressing monocytic cells restrict HIV-1 replication in infected cells through the assembly of stress granules Mohammad Yunus Ansari|Hasan Imam|Nishant Kumar|Zulfazal Ahmed|Shahid Jameel International Centre for Genetic Engineering and Biotechnology
http://dx.doi.org/10.1101/148726 2017-06-11 CC BY Enhancer Linking by Methylation/Expression Relationships with the R package ELMER version 2 Tiago Chedraoui Silva|Simon G. Coetzee|Lijing Yao|Dennis J. Hazelett|Houtan Noushmehr|Benjamin P. Berman Cedars-Sinai Medical Center;|Roche Sequencing Solutions;|Henry Ford Hospital
http://dx.doi.org/10.1101/147793 2017-06-11 CC BY-NC-ND A DNA Contact Map for the Mouse Runx1 Gene Identifies Novel Hematopoietic Enhancers Judith Marsman|Amarni Thomas|Motomi Osato|Justin M. O'Sullivan|Julia A. Horsfield University of Otago, Dunedin, New Zealand;|Cancer Science Institute, National University of Singapore, Singapore;|The University of Auckland, Auckland, New Zealand
http://dx.doi.org/10.1101/148783 2017-06-11 CC BY-ND BugBuilder - An Automated Microbial Genome Assembly and Analysis Pipeline James C. Abbott Imperial College London
http://dx.doi.org/10.1101/148742 2017-06-11 CC BY-NC-ND Multiplex staining by sequential immunostaining and antibody removal on routine tissue sections Maddalena Maria Bolognesi|Marco Manzoni|Carla Rossana Scalia|Stefano Zannella|Francesca Maria Bosisio|Mario Romolo Faretta|Giorgio Cattoretti Dipartimento di Medicina e Chirurgia, Universitá degli Studi di Milano-Bicocca;|Laboratory of Translational Cell and Tissue Research, KU Leuven;|Department of Experimental Oncology, European Institute of Oncology
http://dx.doi.org/10.1101/148700 2017-06-11 CC BY-ND Mating can cause transgenerational gene silencing in Caenorhabditis elegans Sindhuja Devanapally|Samual Allgood|Antony M. Jose University of Maryland;|University of Maryland College Park
http://dx.doi.org/10.1101/148775 2017-06-11 CC BY-NC-ND A new multi-genomic approach for the study of biogeochemical cycles at global scale: the molecular reconstruction of the sulfur cycle Valerie De Anda|Icoquih Zapata-Penasco|Bruno Contreras-Moreira|Augusto Cesar Poot-Hernandez|Luis E. Eguiarte|Valeria Souza Departamento de Ecologia Evolutiva, Instituto de Ecologia UNAM;|Direccion de Investigacion en Transformacion de Hidrocarburos, Inst. Mexicano del Petroleo;|Estacion Experimental de Aula Dei, Consejo Superior de Investigaciones Cientificas;|Departamento de Ingenieria Celular y Biocatalisis, Instituto de Biotecnologia
http://dx.doi.org/10.1101/148379 2017-06-11 Magnetic Entropy as a Gating Mechanism for Magnetogenetic Ion Channels Guillaume Duret|Sruthi Polali|Erin D. Anderson|A. Martin Bell|Constantine N. Tzouanas|Benjamin W. Avants|Jacob T. Robinson Rice University
http://dx.doi.org/10.1101/148841 2017-06-11 CC BY-ND The Potential for Iconicity in Vocalization Marcus Perlman|Gary Lupyan Max Planck Institute for Psycholinguistics;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/148833 2017-06-11 CC BY eGARD: Extracting associations between genomic anomalies and drug responses from text A. S. M. Ashique Mahmood|Shruti Rao|Peter McGarvey|Cathy Wu|Subha Madhavan|K. Vijay-Shanker University of Delaware;|Georgetown University
http://dx.doi.org/10.1101/148718 2017-06-11 CC BY-NC-ND A plausible explanation for in silico reporting of erroneous MET gene expression in tumor-educated platelets (TEP) intended for “liquid biopsy” of non-small cell lung carcinoma still refutes the TEP-study Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/148692 2017-06-11 CC BY-NC-ND NuMA Targets Dynein to Microtubule Minus-Ends at Mitosis Christina Hueschen|Samuel J. Kenny|Ke Xu|Sophie Dumont University of California, San Francisco;|University of California, Berkeley
http://dx.doi.org/10.1101/148734 2017-06-11 Coupling effect of morphology and mechanical properties contributes to the tribological behaviors of snake scales Long Zheng|Yinghui Zhong|Yihang Gao|Jiayi Li|Zhihui Zhang|Zhenning Liu|Luquan Ren Jilin University
http://dx.doi.org/10.1101/148825 2017-06-11 CC BY-NC-ND Epistasis mediated alleviation of the cost of antibiotic resistance for MRSA Maho Yokoyama|Maisem Laabei|Emily Stevens|Sion Bayliss|Nicola Ooi|Alex O'Neill|Ewan Murray|Paul Williams|Anneke Lubben|Shaun Reeksting|Guillaume Meric|Ben Pascoe|Samuel Sheppard|Mario Recker|Laurence Hurst|Ruth Massey University of Bath;|University of Leeds;|University of Nottingham;|University of Exeter
http://dx.doi.org/10.1101/149005 2017-06-12 Evolutionary Biology The creation and selection of mutations resistant to a gene drive over multiple generations in the malaria mosquito Andrew Marc Hammond|Kyros Kyrou|Marco Bruttini|Ace North|Roberto Galizi|Xenia Karlsson|Francesco Carpi|Romina D'Aurizio|Andrea Crisanti|Tony Nolan Imperial College London;|Polo GGB;|University of Oxford;|Laboratory of Integrative Systems Medicine (LISM), Pisa, Italy
http://dx.doi.org/10.1101/149096 2017-06-12 Cancer Biology The effects of mutational process and selection on driver mutations across cancer types Daniel Temko|Ian Tomlinson|Simone Severini|Benjamin Schuster-Boeckler|Trevor Graham University College London;|Institute of Cancer and Genomic Sciences, University of Birmingham;|Ludwig Institute for Cancer Research, University of Oxford;|Barts Cancer Institute, Queen Mary University of London
http://dx.doi.org/10.1101/149104 2017-06-12 Neuroscience CC BY-NC-ND Systematic misperceptions of 3D motion explained by Bayesian inference Bas Rokers|Jacqueline Fulvio|Jonathan Pillow|Emily Cooper University of Wisconsin - Madison;|Princeton University;|Dartmouth College
http://dx.doi.org/10.1101/149070 2017-06-12 Genomics Mitochondrial DNA SNPs associated with Schizophrenia exhibit Highly Variable Inter-allelic Haplogroup Affiliation and Nuclear Genogeographic Affinity: Bi-Genomic Linkage Disequilibrium raises Major Concerns for Link to Disease Christian M. Hagen|Vanessa F. Goncalves|Paula L. Hedley|Jonas Bybjerg-Grauholm|Marie Baekvad-Hansen|Christine S. Hansen|Jorgen Kanters|Jimmi Nielsen|Ole Mors|Alfonso B. Demur|Thomas D. Als|Merete Nordentoft|Anders Borglum|Preben Bo Mortensen|James Kennedy|Thomas Werge|David Hougaard|Michael Christiansen Statens Serum Institut;|University of Toronto;|University of Copenhagen;|Aalborg University;|Aarhus University;|Capital Region of Denmark
http://dx.doi.org/10.1101/149013 2017-06-12 Systems Biology Variable sensitivity to DNA damaging chemotherapeutic modulated by cell type-dependent bimodal p53 dynamics Ruizhen Yang|Bo Huang|Yanting Zhu|Yang Li|Feng Liu|Jue Shi Hong Kong Baptist University;|Nanjing University
http://dx.doi.org/10.1101/148999 2017-06-12 Microbiology CC BY-NC-ND Characterization of polymorphisms in Plasmodium falciparum artemisinin resistance marker kelch13 in asymptomatic infections in a rural area of Cameroon Innocent Safeukui|Jerome Fru-Cho|Alassane Mbengue|Niraja Suresh|Dieudonne L. Njimoh|Violet V. Bumah|Theresa Nkuo-Akenji|Vincent P. K. Titanji|Kasturi Haldar University of Notre Dame;|University of Buea;|University of Wisconsin
http://dx.doi.org/10.1101/148981 2017-06-12 Biochemistry The Ras-like GTPase Rem2 is a potent endogenous inhibitor of calcium/calmodulin-dependent kinase II activity Leandro Royer|Josiah J. Herzog|Katelyn Kenny|Boriana Tzvetkova|Jesse C. Cochrane|Michael T. Marr|Suzanne Paradis Brandeis University;|Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/147736 2017-06-12 Cancer Biology An anti-cancer binary system activated by bacteriophage HK022 Integrase Amer Elias|Itay Spector|Natasha Gritsenko|Yael Zilberstein|Rena Gorovits|Gali Prag|Misha Kolot Tel Aviv University;|Histospeck;|Hebrew University of Jerusalem
http://dx.doi.org/10.1101/149021 2017-06-12 Neuroscience Visual experience shapes the neural networks remapping touch into external space Virginie Crollen|Latifa Lazzouni|Mohamed Rezk|Antoine Bellemare|Franco Lepore|Olivier Collignon University of Trento;|University of Montreal;|Universite Catholique de Louvain
http://dx.doi.org/10.1101/148684 2017-06-12 Genetics CC BY-NC-ND Comprehensive genome and transcriptome analysis reveals genetic basis for gene fusions in cancer Nuno A. Fonseca|Yao He|Liliana Greger|Alvis Brazma|Zemin Zhang European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI);|Peking-Tsinghua Ctr. for Life Sci., BIOPIC, and Beijing Advanced Innovation Ctr. for Genomics;|-
http://dx.doi.org/10.1101/144873 2017-06-12 Microbiology Rapid Detection of Sepsis using CESDA: the Caenorabditis elegans Sepsis Detection Assay Ling Fei Tee|Toh Leong Tan|Hui-min Neoh|Rahman Jamal Universiti Kebangsaan Malaysia
http://dx.doi.org/10.1101/148767 2017-06-12 Systems Biology CC BY-NC-ND A Rational Drug Combination Design Proves to Inhibit Epithelial-Mesenchymal Transition in a Three-Dimensional Microenvironment Farnaz Barneh|Mehdi Mirzaie|Payman Nickchi|Mehran Piran|Mona Salimi|Fatemeh Goshadrou|Amir Reza Aref|Mohieddin Jafari Pasteur Institute of Iran;|Tarbiat Modares University;|Simon Fraser University;|Beheshti University of Medical Sciences;|Dana-Farber Cancer Institute, Harvard Medical School;|Pasteur Institute
http://dx.doi.org/10.1101/148635 2017-06-12 Neuroscience CC BY-NC-ND Fluctuations of fMRI activation patterns reveal theta-band dynamics of visual object priming Bingbing Guo|Zhengang Lu|Jessica E. Goold|Huan Luo|Ming Meng South China Normal University;|Johns Hopkins University;|Dartmouth College;|Peking University, China
http://dx.doi.org/10.1101/137125 2017-06-12 Convergence of Wnt, Growth Factor and Trimeric G protein signals on Daple Nicolas Aznar|Ying Dunkel|Nina Sun|Kendall Satterfield|Fang He|Inmaculada Lopez-Sanchez|Majid Ghassemian|Debashis Sahoo|Irina Kufareva|Pradipta Ghosh University of California, San Diego;|UCSD;|Skaggs School of Pharmacy and Pharmaceutical Science, UCSD
http://dx.doi.org/10.1101/145383 2017-06-12 CC BY-NC A genome-wide polygenic approach to HIV uncovers link to inflammatory bowel disease and identifies potential novel genetic variants Robert A Power|Christian W Thorball|Istvan Bartha|John R.B. Perry|Paul J McLaren|Tulio de Oliveira|Jacques Fellay Africa Health Research Institute;|Ecole Polytechnique Federale de Lausanne;|University of Cambridge School of Clinical Medicine;|University of Manitoba;|University of KwaZulu-Natal
http://dx.doi.org/10.1101/149062 2017-06-12 A Growing Microcolony can Survive and Support Persistent Propagation of Virulent Phages Rasmus Skytte Eriksen|Sine Svenningsen|Kim Sneppen|Namiko Mitarai University of Copenhagen;|Nordita/Niels Bohr Institute
http://dx.doi.org/10.1101/148353 2017-06-12 CC BY Regional missense constraint improves variant deleteriousness prediction Kaitlin E. Samocha|Jack A. Kosmicki|Konrad J. Karczewski|Anne H. O'Donnell-Luria|Emma Pierce-Hoffman|Daniel G. MacArthur|Benjamin M. Neale|Mark J. Daly Massachusetts General Hospital
http://dx.doi.org/10.1101/148569 2017-06-12 CC BY-NC-ND An elective course for medical students on innovation and entrepreneurship Erik Reinertsen|Arun Mohan|Angela Fusaro Emory University School of Medicine;|ApolloMD
http://dx.doi.org/10.1101/149039 2017-06-12 Predicting double-strand DNA breaks using epigenome marks or DNA at kilobase resolution Raphael Mourad|Olivier Cuvier University Paul Sabatier/CNRS;|CNRS
http://dx.doi.org/10.1101/149195 2017-06-12 CC BY-NC-ND DRUID: A pipeline for reproducible transcriptome-wide measurements of mRNA stability Andrew Lugowski|Beth Nicholson|Olivia S. Rissland The Hospital for Sick Children
http://dx.doi.org/10.1101/149278 2017-06-12 Naproxen inhibits CSD-evoked meningeal afferent mechanosensitization but not prolonged activation: a role for cortical oligemia and hypoxia? Jun Zhao|Dan Levy BIDMC/Harvard Medical School
http://dx.doi.org/10.1101/149179 2017-06-12 Patterns of divergence across the geographic and genomic landscape of a butterfly hybrid zone associated with a climatic gradient Sean Ryan|Michael C. Fontaine|J. Mark Scriber|Michael E. Pfrender|Shawn T. O'Neil|Jessica J. Hellmann University of Notre Dame;|Groningen Institute for Evolutionary Life Sciences;|Michigan State University;|Oregon State University;|University of Minnesota
http://dx.doi.org/10.1101/149245 2017-06-12 CC BY-NC-ND Splicing-dependent NMD requires Prp17 in Saccharomyces cerevisiae Jikai Wen|Laetitia Marzi|Jianming Wang|Jinxin Ye|Saverio Brogna University of Birmingham;|South China Agricultural University
http://dx.doi.org/10.1101/149328 2017-06-12 CC BY-NC DeepARG: A deep learning approach for predicting antibiotic resistance genes from metagenomic data Gustavo A. Arango-Argoty|Emily Garner|Amy Pruden|Lenwood S. Heath|Peter Vikesland|Liqing Zhang Department of Computer Science, Virginia Tech;|Department of Civil and Environmental Engineering, Virginia Tech
http://dx.doi.org/10.1101/149252 2017-06-12 CC BY-ND Tumor subclonal progression model for cancer hallmark acquisition Yusuke Matsui|Satoru Miyano|Teppei Shimamura Nagoya University Graduate School of Medicine;|Human Genome Center, Institute of Medical Science, The University of Tokyo
http://dx.doi.org/10.1101/149211 2017-06-12 CC BY-NC-ND Co-evolution of virulence and immunosuppression through multiple infections Tsukushi Kamiya|Nicole Mideo|Samuel Alizon University of Toronto;|Unviersity of Toronto;|MIVEGEC, CNRS, IRD
http://dx.doi.org/10.1101/148577 2017-06-12 Parallel epigenetic modifications induced by hatchery rearing in a Pacific Salmon Jeremy Le Luyer|Martin Laporte|Terry D. Beacham|Karia H. Kaukinen|Ruth E. Withler|Jong S. Leong|Eric B. Rondeau|Ben F. Koop|Louis Bernatchez Ifremer;|Departement de Biologie, Institut de Biologie Integrative et des Systemes, Universite Laval;|Dept. of Fisheries and Ocean, Biological Science Branch, Pacific Biological Station, Nanaimo;|Centre for Biomedical Research, Department of Biology, University of Victoria, Canada
http://dx.doi.org/10.1101/149120 2017-06-12 CC BY-NC-ND To include or not to include: The impact of gene filtering on species tree estimation methods Erin Molloy|Tandy Warnow University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/148916 2017-06-12 CC BY-NC-ND Effects of Prenatal Stress on Structural Brain Development and Aging in Humans Katja Franke|Bea van den Bergh|Susanne R. de Rooij|Tessa J. Roseboom|Peter W. Nathanielsz|Otto W. Witte|Matthias Schwab Jena University Hospital;|KU Leuven, Leuven, Belgium;|Academic Medical Centre, University of Amsterdam, The Netherlands;|Texas Biomedical Research Institute, San Antonio;|Jena University Hospital, Jena, Germany
http://dx.doi.org/10.1101/149112 2017-06-12 Neurodynamics and connectivity during facial fear perception: The role of threat exposure and signal congruity Cody Cushing|Hee Yeon Im|Reginald B. Adams|Noreen Ward|Daniel N. Albohn|Troy G. Steiner|Kestutis Kveraga Athinoula A. Martinos Center/MGH;|MGH/Harvard Medical School;|The Pennsylvania State University;|Athinoula A. Martinos Center for Biomedical Imaging/MGH;|Athinoula A. Martinos Center/MGH/Harvard Medical School
http://dx.doi.org/10.1101/149047 2017-06-12 Plant Biology CC BY-NC A group of nuclear factor Y transcription factors are likely sub-functionalized in the endosperm development of rice and other monocots Zhiguo E|Tingting Li|Huaya Zhang|Zehou Liu|Hui Deng|Lei Wang|Xuefeng Wei|Baixiao Niu|Chen Chen China National Rice Research Institute;|Yangzhou University;|Chengdu Institute of Biology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/148940 2017-06-12 Genetics CC BY-NC-ND Genetics and epigenetic alterations of hexaploid early generation derived from hybrid between Brassica napus and B. oleracea Qinfei Li|Zhiyong Xiong|Jiaqin Mei|Hongyuan Song|Wei Qian College of Horticulture and Landscape Architecture, Southwest University;|Inner Mongolia Potato Engineering & Technology Research Centre, Inner Mongolia University;|College of Agronomy and Biotechnology, Southwest University
http://dx.doi.org/10.1101/148973 2017-06-12 Ecology CC BY Spatial resource heterogeneity increases diversity and evolutionary potential Emily Dolson|Samuel Perez|Randal Olson|Charles Ofria Michigan State University;|University of Pennsylvania
http://dx.doi.org/10.1101/149088 2017-06-12 Physiology CC BY-NC The mismeasure of (obese) man - body mass index is an inadequate indicator of body condition Lukas Kratochvil|Jaroslav Flegr Faculty of Science, Charles University
http://dx.doi.org/10.1101/148932 2017-06-12 Bioinformatics Repeat aware evaluation of scaffolding tools Igor Mandric|Sergey Knyazev|Alex Zelikovsky Georgia State University
http://dx.doi.org/10.1101/148965 2017-06-12 Genetics Parallel Computing to Speed up Whole-Genome Bayesian Regression Analyses Using Orthogonal Data Augmentation Hao Cheng|Rohan Fernando|Dorian Garrick University of California, Davis;|Iowa State Univeristy;|Massey University
http://dx.doi.org/10.1101/149492 2017-06-13 CC BY-NC-ND Revisiting the General Concept of Network Centralities: A Propose for Centrality Analysis in Network Science Minoo Ashtiani|Mehdi Mirzaie|Zahra Razaghi-Moghadam|Holger Hennig|Olaf Wolkenhauer|Ali Salehzadeh-Yazdi|Mohieddin Jafari Pasteur Institute of Iran;|Tarbiat Modares University;|University of Tehran;|University of Rostock
http://dx.doi.org/10.1101/144964 2017-06-13 CC BY-NC Non-latching positive feedback enables robust bimodality by de-coupling expression noise from the mean Brandon S. Razooky|Youfang Cao|Alan S. Perelson|Michael L. Simpson|Leor S. Weinberger The Rockefeller University;|Los Alamos National Laboratory;|Oak Ridge National Laboratory;|The Gladstone Institutes
http://dx.doi.org/10.1101/149542 2017-06-13 Challenges in estimating heritability of phase polyphenism: Insights from measured and simulated data in the desert locust Helene Jourdan-Pineau|Benjamin Pelissie|Elodie Chapuis|Floriane Chardonnet|Christine Pages|Antoine Foucart|Laurence Blondin|Cyril Piou|Marie-Pierre Chapuis CIRAD;|University of Wisconsin;|CIRAD CBGP;|CIRAD B-AMR
http://dx.doi.org/10.1101/149468 2017-06-13 CC BY-NC Phylogeographic separation and formation of sexually discreet lineages in a global population of Yersinia pseudotuberculosis Tristan Seecharran|Laura Karin-Mantarri|Katja Koskela|Simmo Nikari|Benjamin Dickins|Jukka Corander|Mikael Skurnik|Alan McNally Nottingham Trent University;|University of Helsinki;|Centre for Military Medicine, Finland;|University of Oslo;|University of Birmingham
http://dx.doi.org/10.1101/149443 2017-06-13 Microbiology CC BY-NC-ND Mosquito lipids regulate Plasmodium sporogony and infectivity to the mammalian host Giulia Costa|Maarten Eldering|Randall L. Lindquist|Anja E. Hauser|Robert Sauerwein|Christian Goosmann|Volker Brinkmann|Elena A. Levashina Max Planck Institute for Infection Biology;|Radboud University Medical Center;|German Rheumatism Research Centre (DRFZ)
http://dx.doi.org/10.1101/149401 2017-06-13 Microbiology CC BY-NC-ND Unusual Sulfur Requirements During Laboratory Growth of Leutibacter David A. Baltrus University of Arizona
http://dx.doi.org/10.1101/149336 2017-06-13 Bioengineering CC BY-NC-ND A vacuum-actuated microtissue stretcher for long-term exposure to oscillatory strain within a 3D matrix Matthew J. Walker|Michel Godin|Andrew Pelling University of Ottawa
http://dx.doi.org/10.1101/149476 2017-06-13 Genetics A multi-parent advanced generation inter-cross population for genetic analysis of multiple traits in cowpea (Vigna unguiculata L. Walp.) Bao-Lam Huynh|Jeffrey D. Ehlers|Maria Munoz-Amatriain|Stefano Lonardi|Jansen R. P. Santos|Arsenio Ndeve|Benoit J. Batieno|Ousmane Boukar|Ndiaga Cisse|Issa Drabo|Christian Fatokun|Francis Kusi|Richard Y. Agyare|Yi-Ning Guo|Ira Herniter|Sassoum Lo|Steve I. Wanamaker|Timothy J. Close|Philip A. Roberts University of California - Riverside;|Bill and Melinda Gates Foundation;|Institut de l'Environnement et de Recherches Agricoles;|International Institute of Tropical Agriculture;|Institut Senegalais de Recherches Agricoles;|Savanna Agricultural Research Institute
http://dx.doi.org/10.1101/149351 2017-06-13 Cell Biology Akt/PKB enhances non-canonical Wnt signals by compartmentalizing β-Catenin Nicolas Aznar|Nina Sun|Ying Dunkel|Jason Ear|Matthew Buschman|Pradipta Ghosh University of California, San Diego
http://dx.doi.org/10.1101/149385 2017-06-13 Molecular Biology Epigenetic maintenance of DNA methylation after evolutionary loss of the de novo methyltransferase Sandra Catania|Phillip A. Dumesic|Caitlin Stoddard|Sophie Cooke|Jordan Burke|Christina A. Cuomo|Geeta J. Narlikar|Hiten D. Madhani UCSF;|Broad Institute
http://dx.doi.org/10.1101/149393 2017-06-13 Ecology CC BY-NC-ND Faster carbon accumulation in global forest soils Weixin Zhang|Yuanqi Chen|Leilei Shi|Xiaoli Wang|Yongwen Liu|Xingquan Rao|Yongbiao Lin|Yuanhu Shao|Xiaobo Li|Shengjie Liu|Shilong Piao|Weixing Zhu|Xiaoming Zou|Shenglei Fu College of Environment and Planning, Henan University;|Hunan University of Science and Technology;|South China Botanical Garden, Chinese Academy of Sciences;|College of Urban and Environmental Sciences, Peking University;|Henan University;|Department of Biological Sciences, State University of New York - Binghamton;|Department of Environmental Sciences, University of Puerto Rico
http://dx.doi.org/10.1101/149369 2017-06-13 Neuroscience CC BY-ND The Healthy Brain Network Biobank: An open resource for transdiagnostic research in pediatric mental health and learning disorders Lindsay M. Alexander|Jasmine Escalera|Lei Ai|Charissa Andreotti|Karina Febre|Alex Mangone|Natan Vega Potler|Nicolas Langer|Alexis Alexander|Meagan Kovacs|Shannon Litke|Bridget O'Hagan|Batya Bronstein|Anastasia Bui|Marijayne Bushey|Victoria Castagna|Nicolas Camacho|Elisha Chan|Danielle Citera|Jon Clucas|Samantha Cohen|Megan Eaves|Brian Fradera|Natalie Grant-Villegas|Gabriella Green|Camille Gregory|Emily Hart|Shana Harris|Catherine Lord|Danielle Kahn|Katherine Kabotyanski|Kayla Kleinman|Bonhwang Koo|Eliza Kramer|Amy Margolis|Kathleen Merikangas|Judith Milham|Giuseppe Minniti|Rebecca Neuhaus|Alexandra Nussbaum|Yael Osman|Lucas Parra|Ken R. Pugh|Amy Racanello|Anita Restrepo|Tian Saltzman|Batya Septimus|Russ Tobe|Rachel Waltz|Anna Williams|Anna Yeo|F. Xavier Castellanos|Arno Klein|Tomas Paus|Bennett L. Leventhal|Cameron Craddock|Harold S. Koplewicz|Michael P. Milham Child Mind Institute;|University of Zurich;|City University of New York;|New York Presbyterian Hospital, White Plains;|Columbia University Medical Center;|National Institute of Mental Health;|Mercy College;|Nathan S. Kline Institute for Psychiatric Research;|New York University Langone Medical Center;|University of California, San Francisco
http://dx.doi.org/10.1101/149344 2017-06-13 Genomics CC BY Convergence of topological domain boundaries, insulators, and polytene interbands revealed by high-resolution mapping of chromatin contacts in the early Drosophila melanogaster embryo Michael R. Stadler|Jenna E. Haines|Michael B. Eisen University of California, Berkeley
http://dx.doi.org/10.1101/149377 2017-06-13 Genetics CC BY-NC vqtl: An R package for Mean-Variance QTL Mapping Robert W. Corty|William Valdar University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/149203 2017-06-13 Plant Biology Low Rate of Somatic Mutations in a Long-Lived Oak Tree Namrata Sarkar|Emanuel Schmid-Siegert|Christian Iseli|Sandra Calderon|Caroline Gouhier-Darimont|Jacqueline Chrast|Pietro Cattaneo|Frederic Schutz|Laurent Farinelli|Marco Pagni|Michel Schneider|Jeremie Voumard|Michel Jaboyedoff|Christian Fankhauser|Christian S. Hardtke|Laurent Keller|John R. Pannell|Alexandre Reymond|Marc Robinson-Rechavi|Ioannis Xenarios|Philippe Reymond University of Lausanne;|Fasteris;|Swiss Institute of Bioinformatics;|Lausanne University
http://dx.doi.org/10.1101/149708 2017-06-13 CC BY The emergence of words from vocal imitations Pierce Edmiston|Gary Lupyan|Marcus Perlman University of Wisconsin-Madison
http://dx.doi.org/10.1101/149716 2017-06-13 CC BY Post-translational regulation of metabolism in fumarate hydratase deficient cancer cells Emanuel Goncalves|Marco Sciacovelli|Ana S. H. Costa|Timothy Isaac Johnson|Daniel Machado|Christian Frezza|Julio Saez-Rodriguez EMBL-EBI;|Medical Research Council Cancer Unit;|EMBL;|RWTH Aachen University
http://dx.doi.org/10.1101/149633 2017-06-13 tDCS changes in motor excitability are specific to orientation of current flow Vishal Rawji|Matteo Ciocca|Andre Zacharia|David Soares|Dennis Truong|Marom Bikson|John Rothwell|Sven Bestmann Sobell Dept. of Motor Neuroscience and Movement Disorders, University College London;|Department of Neurology, University Hospitals of Geneva, Switzerland, Switzerland;|Dept. of Biomedical Engineering, The City College of The City University of New York, NY
http://dx.doi.org/10.1101/149617 2017-06-13 CC BY-NC-ND Pleistocene climate change and the formation of regional species pools Joaquin Calatayud|Miguel A. Rodriguez|Rafael Molina-Venegas|Maria Leo|Joaquin Hortal University of Alcala;|University of Bern;|Real Jardin Botanico de Madrid;|Museo Nacional de Ciencias Naturales (CSIC)
http://dx.doi.org/10.1101/149609 2017-06-13 CC BY-NC-ND Non-Parametric Genetic Prediction of Complex Traits with Latent Dirichlet Process Regression Models Ping Zeng|Xiang Zhou University of Michigan
http://dx.doi.org/10.1101/148643 2017-06-13 CC BY-ND Resolving neuronal population code and coordination with gradient boosted trees Guillaume Viejo|Thomas Cortier|Adrien Peyrache McGill University;|Ecole Normale Superieure, Paris
http://dx.doi.org/10.1101/125609 2017-06-13 Cancer Biology CC BY Comprehensive characterization of pediatric acute myeloid leukemia reveals novel molecular features and age-specific interactions Hamid Bolouri|Jason E. Farrar|Timothy J. Triche|Rhonda E. Ries|Emilia L. Lim|Todd A. Alonzo|Yussanne Ma|Richard Moore|Andrew Mungall|Marco A. Marra|Jinghui Zhang|Xiaotu Ma|Yu Liu|Yanling Liu|Jaime M. Guidry Auvil|Tanja M. Davidsen|Patee Gesuwan|Leandro C. Hermida|Bodour Salhia|Stephen Capone|Giridharan Ramsingh|Christian Michel Zwaan|Sanne Noort|Stephen Piccolo|E. Anders Kolb|Alan S. Gamis|Malcolm A. Smith|Daniela S. Gerhard|Soheil Meshinchi Division of Human Biology, Fred Hutchinson Cancer Research Center, Seattle, WA;|Winthrop P. Rockefeller Cancer Institute, University of Arkansas for Medical Sciences;|Jane Anne Nohl Division of Hematology, USC/Norris Comprehensive Cancer Center, LA, CA;|Clinical Research Division, Fred Hutchinson Cancer Research Center, Seattle, WA;|Michael Smith Genome Sciences Centre, British Columbia Cancer Agency, Vancouver, BC;|Childrens Oncology Group, Monrovia, CA;|Division of Computational Biology, St. Jude Childrens Research Hospital, Memphis, TN;|Office of Cancer Genomics, National Cancer Institute, Bethesda, MD;|Dept. of Translational Genomics, Keck School of Medicine, Univ. of Southern California, CA;|Dept. of Pediatric Oncology, Erasmus MC-Sophia Childrens Hospital, Rotterdam;|Department of Biology, Brigham Young University, Provo, UT;|Nemours Ctr. for Cancer & Blood Disorders, Alfred I. DuPont Hosp. for Children, Wilmington;|Div. of Hematol/Oncol/Bone Marrow Transplantation, Childrens Mercy Hospitals, Kansas City;|Cancer Therapy Evaluation Program, National Cancer Institute, Bethesda, MD
http://dx.doi.org/10.1101/149153 2017-06-13 Genomics Mutational signatures of DNA mismatch repair deficiency in C. elegans and human cancers Bettina Meier|Nadezda Volkova|Ye Hong|Pieta Schofield|Peter J. Campbell|Moritz Gerstung|Anton Gartner Centre for Gene Regulation and Expression, University of Dundee, Dundee, UK;|European Molecular Biology Laboratory, European Bioinformatics Institute, Hinxton, UK;|Cancer Genome Project, Wellcome Trust Sanger Institute, Hinxton, Cambridge, UK;|University of Dundee
http://dx.doi.org/10.1101/149641 2017-06-13 Neuroscience CC BY Sparse genetic tracing reveals regionally specific functional organization of mammalian nociceptors William Olson|Ishmail Abdus-Saboor|Lian Cui|Justin Burdge|Tobias Raabe|Minghong Ma|Wenqin Luo University of Pennsylvania
http://dx.doi.org/10.1101/149054 2017-06-13 Microbiology CC BY-NC-ND Multiuse patient monitoring equipment as a risk factor for acquisition of Candida auris Hilary Madder|Ian Moir|Ruth Moroney|Lisa Butcher|Robert Newnham|Mary Sunderland|Tiphanie Clarke|Dona Foster|Peter Hoffman|Ginny Moore|Colin S. Brown|Katie J. M. Jeffery Oxford University Hospitals NHS Foundation Trust;|NIHR Health Protection Unit in Healthcare Assoc. Infections & Antimicrobial Resist. at Oxford;|Public Health England, National Infection Service, Colindale, London;|Public Health England, Porton Down, Salisbury
http://dx.doi.org/10.1101/147959 2017-06-13 Biophysics CC BY eIF4A is stimulated by the pre-initiation complex and enhances recruitment of mRNAs regardless of structural complexity Paul Yourik|Colin Echeverria Aitken|Fujun Zhou|Neha Gupta|Alan G. Hinnebusch|Jon R. Lorsch National Institutes of Health
http://dx.doi.org/10.1101/149229 2017-06-13 Neuroscience Differing strategies used by motor neurons and glia to achieve robust development of an adult neuropil in Drosophila Jonathan Enriquez|Laura Quintana Rio|Richard Blazeski|Carol Mason|Richard S. Mann Columbia University
http://dx.doi.org/10.1101/147561 2017-06-13 Biochemistry CC BY-NC Intrinsically disordered regions contribute promiscuous interactions to RNP granule assembly David S. W. Protter|Bhalchandra S. Rao|Briana Van Treeck|Yuan Lin|Laura Mizoue|Michael K. Rosen|Roy Parker University of Colorado, Boulder; Howard Hughes Medical Institute;|University of Texas Southwestern Medical Center; Howard Hughes Medical Institute;|University of Texas Southwestern Medical Center;|University of Colorado Boulder; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/149583 2017-06-13 Bioinformatics CC BY Dissecting super-enhancer hierarchy based on chromatin interactions Jialiang Huang|Kailong Li|Wenqing Cai|Xin Liu|Yuannyu Zhang|Stuart H. Orkin|Jian Xu|Guo-Cheng Yuan Dana-Farber Cancer Institute;|University of Texas Southwestern Medical Center;|Boston Children's Hospital
http://dx.doi.org/10.1101/149526 2017-06-13 Neuroscience Genetic networks of the oxytocin system in the human brain: A gene expression and large-scale fMRI meta-analysis study Daniel S. Quintana|Jaroslav Rokicki|Dennis van der Meer|Dag Alnaes|Tobias Kaufmann|Aldo Cordova Palomera|Ingrid Dieset|Ole A. Andreassen|Lars T. Westlye University of Oslo
http://dx.doi.org/10.1101/149591 2017-06-13 Developmental Biology CC BY An optimized pipeline for parallel image-based quantification of gene expression and genotyping after in situ hybridization Tomasz Dobrzycki|Monika Krecsmarik|Florian Bonkhofer|Roger K Patient|Rui Monteiro Molecular Haematology Unit, MRC Weatherall Institute of Molecular Medicine, University of Oxford
http://dx.doi.org/10.1101/149518 2017-06-13 Bioinformatics CC BY-NC-ND NetMHCpan 4.0: Improved peptide-MHC class I interaction predictions integrating eluted ligand and peptide binding affinity data Vanessa Isabell Jurtz|Sinu Paul|Massimo Andreatta|Paolo Marcatili|Bjoern Peters|Morten Nielsen Technical University of Denmark;|La Jolla Institute for Allergy and Immunology;|Universidad Nacional de San Martin
http://dx.doi.org/10.1101/149534 2017-06-13 Synthetic Biology CC BY-NC-ND Simple, single-step, and scar-free mutagenesis of bacterial genes Joakim Nasvall Uppsala University
http://dx.doi.org/10.1101/149419 2017-06-13 Bioinformatics CC BY Compositional Mediation Analysis for Microbiome Studies Michael B. Sohn|Hongzhe Li University of Pennsylvania
http://dx.doi.org/10.1101/149450 2017-06-13 Neuroscience CC BY-NC-ND A functional role for the epigenetic regulator ING1 in activity-induced gene expression in primary cortical neurons Laura Leighton|Qiongyi Zhao|Xiang Li|Chuanyang Dai|Paul Robert Marshall|Sha Liu|Yi Wang|Esmi Lau Zajaczkowski|Nitin Khandelwal|Arvind Kumar|Timothy William Bredy|Wei Wei The University of Queensland;|Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/149427 2017-06-13 Biophysics Predicting DNA Hybridization Kinetics from Sequence Jinny X. Zhang|John Z. Fang|Wei Duan|Lucia Wu|Angela Zhang|Neil Dalchau|Boyan Yordanov|Rasmus Petersen|Andrew Phillips|David Zhang Rice University;|Microsoft Research
http://dx.doi.org/10.1101/149567 2017-06-13 Neuroscience CC BY-NC-ND Beyond Consensus: Embracing Heterogeneity in Neuroimaging Meta-Analysis Gia H. Ngo|Simon B. Eickhoff|Peter T. Fox|R. Nathan Spreng|B. T. Thomas Yeo National University of Singapore;|Heinrich Heine University;|University of Texas Health Science Center at San Antonio;|McGill University
http://dx.doi.org/10.1101/149435 2017-06-13 Neuroscience CC BY-NC-ND Synaptic mechanisms of interference in working memory Zachary P. Kilpatrick University of Colorado - Boulder
http://dx.doi.org/10.1101/146258 2017-06-14 CC BY-NC-ND Intrinsic and Modifiable Contributors to Distal Radius Microstructure, Macrostructure and Strength in Premenopausal Women Megan E. Mancuso|Joshua E. Johnson|Sabahat Ahmed|Tiffiny A. Butler|Karen L. Troy Worcester Polytechnic Institute
http://dx.doi.org/10.1101/149898 2017-06-14 CC BY-NC An extinct hummingbird species that never was: a cautionary tale about sampling issues in molecular phylogenetics Jorge L. Perez-Eman|Jhoniel Perdigon Ferreira|Natalia Gutierrez-Pinto|Andres M. Cuervo|Laura N. Cespedes|Christopher C. Witt|Carlos Daniel Cadena Universidad Central de Venezuela;|Universidad de los Andes;|Insitituto Alexander von Humboldt;|University of New Mexico
http://dx.doi.org/10.1101/149948 2017-06-14 CC BY K-mer clustering algorithm using a MapReduce framework: application to the parallelization of the Inchworm module of Trinity Chang Sik Kim|Martyn Winn|Vipin Sachdeva|Kirk Jordan The Hartree Centre, STFC Daresbury Laboratory, Warrington, WA4 4AD, UK;|Computational Science Center, IBM T. J. Watson Research, Cambridge, MA, USA
http://dx.doi.org/10.1101/149872 2017-06-14 Dissecting the Causal Mechanism of X-Linked Dystonia-Parkinsonism by Integrating Genome and Transcriptome Assembly Tatsiana Aneichyk|William Hendriks|Rachita Yadav|David Shin|Dadi Gao|Christine A. Vaine|Ryan L. Collins|Alexei Stortchevoi|Benjamin Currall|Harrison Brand|Carrie Hanscom|Caroline Antolik|Marisela Dy|Ashok Ragavendran|Patrick Acuna|Criscely Go|Yechiam Sapir|Brian J. Wainger|Daniel Henderson|Jyotsna Dhakal|Naoto Ito|Neil Weisenfeld|David Jaffe|Nutan Sharma|Xandra O. Breakefield|Laurie J. Ozelius|D. Cristopher Bragg|Michael E. Talkowski Massachusetts General Hospital;|Jose R. Reyes Memorial Medical Center;|Broad Institute
http://dx.doi.org/10.1101/149955 2017-06-14 CC BY Neural stem cells induce the formation of their physical niche during organogenesis Ali Seleit|Isabel Kramer|Bea Riebesehl|Elizabeth Mayela Ambrosio|Julian Stolper|Nicolas Dross|Colin Lischik|Lazaro Centanin Centre for Organismal Studies, COS Heidelberg;|University of Heidelberg
http://dx.doi.org/10.1101/149559 2017-06-14 Scientific Communication and Education CC BY-NC-ND Research Synergy and Drug Development: Bright Stars in Neighboring Constellations Samet Keserci|Eric B. Livingston|Lingtian Wan|Alexander R. Pico|George Chacko NET ESolutions Corporation;|Elsevier Inc.;|Facebook Inc.;|Gladstone Institutes
http://dx.doi.org/10.1101/149997 2017-06-14 Genomics CC BY-NC-ND High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell Todd P. Michael|Florian Jupe|Felix Bemm|Stanley T. Motley|Justin P. Sandoval|Olivier Loudet|Detlef Weigel|Joseph R. Ecker J. Craig Venter Institute;|The Salk Institute for Biological Studies;|Max Planck Institute for Developmental Biology;|Institut Jean-Pierre Bourgin, INRA, AgroParisTech, CNRS;|Howard Hughes Medical Institute,The Salk Institute for Biological Studies
http://dx.doi.org/10.1101/150003 2017-06-14 Developmental Biology Egr1 deficiency induces browning of inguinal subcutaneous white adipose tissue in mice Cecile Milet|Marianne Bleher|Kassandra Allbright|Mickael Orgeur|Fanny Coulpier|Delphine Duprez|Emmanuelle Havis IBPS/CNRS/UPMC;|University of Pittsburgh;|IBPS/UPMC/CNRS;|IBENS
http://dx.doi.org/10.1101/149930 2017-06-14 Microbiology CC BY-ND Distribution and inheritance of a gene cluster encoding a sulfated tyrosine peptide in Xanthomonas spp. Megan McDonald|Benjamin Schwessinger|Valley Stewart|Pamela Ronald Australian National University;|UC Davis
http://dx.doi.org/10.1101/150011 2017-06-14 Ecology CC BY-NC-ND Kin competition as driver of range expansions Katrien Hilde Petra Van Petegem|Felix Moerman|Maxime Dahirel|Emanuel A. Fronhofer|Martijn Vandegehuchte|Thomas Van Leeuwen|Nicky Wybouw|Robby Stoks|Dries Bonte Ghent University;|EAWAG Zurich;|University Rennes 1;|Eawag: Swiss Federal Institute of Aquatic Science and Technology;|University Amsterdam;|Leuven University
http://dx.doi.org/10.1101/149146 2017-06-14 Bioinformatics CC BY-NC-ND GARFIELD-NGS: Genomic vARiants FIltering by dEep Learning moDels in NGS Viola Ravasio|Edoardo Giacopuzzi Dept. of Molecular and Translational Medicine, University of Brescia
http://dx.doi.org/10.1101/149989 2017-06-14 Bioinformatics CC BY-NC Inferring synteny between genome assemblies: a systematic evaluation Dang Liu|Martin Hunt|Isheng Jason Tsai Biodiversity Research Center, Academia Sinica;|European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge
http://dx.doi.org/10.1101/149971 2017-06-14 Microbiology Enterococcus faecalis and pathogenic streptococci inactivate daptomycin by releasing phospholipids Elizabeth V. K. Ledger|Vera Pader|Andrew M. Edwards Imperial College London
http://dx.doi.org/10.1101/149849 2017-06-14 Neuroscience CC BY-NC-ND Dopamine, Inference, and Uncertainty Samuel J. Gershman Harvard University
http://dx.doi.org/10.1101/148890 2017-06-14 Neuroscience Dark Control: A Unified Account of Default Mode Function by Control Theory and Reinforcement Learning Elvis Dohmatob|Guillaume Dumas|Danilo Bzdok INRIA, CEA, Parietal Team, Saclay, France;|Institut Pasteur, Human Genetics and Cognitive Functions Unit, Paris;|Department of Psychiatry, Psychotherapy & Psychosomatics, RWTH Aachen University
http://dx.doi.org/10.1101/149765 2017-06-14 Microbiology CC BY Controlling microbial communities: a theoretical framework Marco Tulio Angulo|Claude H. Moog|Yang-Yu Liu Institute of Mathematics, UNAM and National Council for Science and Technology, Mexico;|Laboratoire des Sciences du Numrique de Nantes;|Channing Div. of Network Medicine, Brigham & Women's Hospital; Harvard Medical School
http://dx.doi.org/10.1101/149864 2017-06-14 Bioinformatics CC BY LIONS: Analysis Suite for Detecting and Quantifying Transposable Element Initiated Transcription from RNA-seq Artem Babaian|Jake Lever|Liane Gagnier|Dixie L Mager University of British Columbia;|BC Cancer Agency
http://dx.doi.org/10.1101/148809 2017-06-14 Microbiology CC BY-NC-ND Reduced chlorhexidine and daptomycin susceptibility arises in vancomycin-resistant Enterococcus faecium after serial chlorhexidine exposure Pooja Bhardwaj|Amrita Hans|Kinnari Ruikar|Ziqiang Guan|Kelli L. Palmer University of Texas at Dallas;|Duke University Medical Center
http://dx.doi.org/10.1101/149732 2017-06-14 Microbiology CC BY-NC-ND Saccharomyces cerevisiae strain YH166: a novel wild yeast for the production of tropical fruit sensory attributes in fermented beverages Kara Osburn|Robert Caputo|Justin Miller|Matthew L. Bochman Indiana University;|Wild Pitch Yeast
http://dx.doi.org/10.1101/149815 2017-06-14 Genetics CC BY Collaborations between CpG sites in DNA methylation You Song|Honglei Ren|Jinzhi Lei Beihang Univeristy;|Beihang University;|Tsinghua University
http://dx.doi.org/10.1101/149740 2017-06-13 Genomics CC BY-NC-ND Mutational sequencing for accurate count and long-range assembly Vijay Kumar|Julie Rosenbaum|Zihua Wang|Talitha Forcier|Michael Ronemus|Michael Wigler|Dan Levy Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/148312 2017-06-13 Ecology CC BY-NC-ND Phytoplankton functional types: A trait perspective Andrew J. Irwin|Zoe Finkel Mount Allison University
http://dx.doi.org/10.1101/149799 2017-06-13 Cancer Biology CC BY-NC-ND The polyploid state plays a tumor suppressive role in the liver Shuyuan Zhang|Kejin Zhou|Xin Luo|Lin Li|Liem Nguyen|Yu Zhang|Branden Tarlow|Daniel Siegwart|Hao Zhu UT Southwestern Medical Center
http://dx.doi.org/10.1101/149823 2017-06-13 Biochemistry CC BY-NC-ND Conserved lipid and small molecule modulation of COQ8 reveals regulation of the ancient UbiB family Andrew Reidenbach|Zachary Kemmerer|Deniz Aydin|Adam Jochem|Molly McDevitt|Paul Hutchins|Emily Wilkerson|Jaime Stark|Jonathan Stefely|Isabel Johnson|Craig Bingman|John Markley|Joshua Coon|Matteo Dal Peraro|David Pagliarini Morgridge Institute for Research;|University of Wisconsin-Madison;|Ecole Polytechnique Federale de Lausanne
http://dx.doi.org/10.1101/149781 2017-06-13 Systems Biology CC BY-NC-ND Guanine-nucleotide Exchange Modulator, GIV/Girdin, Serves as a Tunable Valve for Growth Factor-Stimulated Cyclic AMP Signals Michael Getz|Lee Swanson|Debashish Sahoo|Pradipta Ghosh|Padmini Rangamani University of California San Diego
http://dx.doi.org/10.1101/149831 2017-06-13 Bioengineering Standing balance assessment using a head-mounted wearable device Joseph P Salisbury|Neha U Keshav|Anthony D Sossong|Ned T Sahin Brain Power, LLC;|Harvard Medical School
http://dx.doi.org/10.1101/149724 2017-06-13 Cancer Biology CC BY-NC The likelihood of heterogeneity or additional mutation in KRAS or associated oncogenes to compromise targeting of oncogenic KRAS G12C Vincent L. Cannataro|Stephen G. Gaffney|Carly Stender|Zi-Ming Zhao|Mark Philips|Andrew Greenstein|Jeffrey P. Townsend Yale University;|New York University School of Medicine;|Gilead Sciences
http://dx.doi.org/10.1101/149856 2017-06-13 Genomics CC BY-NC-ND Drivers of genetic diversity in secondary metabolic gene clusters in a fungal population Abigail L Lind|Jennifer H Wisecaver|Catarina Lameiras|Fernando Rodrigues|Gustavo H Goldman|Antonis Rokas Vanderbilt University Medical Center;|Vanderbilt University;|Portuguese Oncology Institute of Porto;|University of Minho;|Universidade de Sao Paulo
http://dx.doi.org/10.1101/150276 2017-06-14 CC BY-NC Reducing resistance allele formation in CRISPR gene drives Jackson Champer|Jingxian Liu|Suh Yeon Oh|Riona Reeves|Anisha Luthra|Nathan Oakes|Andrew G. Clark|Philipp W. Messer Cornell University
http://dx.doi.org/10.1101/150086 2017-06-14 CC BY Assessing tACS-induced phosphene perception using closed-loop Bayesian optimization Romy Lorenz|Laura E. Simmons|Ricardo P. Monti|Joy L. Arthur|Severin Limal|Ilkka Laakso|Robert Leech|Ines R. Violante Imperial College London;|University College London;|Aalto University
http://dx.doi.org/10.1101/150250 2017-06-14 CC BY Astrocytes release prostaglandin E2 to modify respiratory network activity David Forsberg|Thomas Ringstedt|Eric Herlenius Karolinska Institutet
http://dx.doi.org/10.1101/150219 2017-06-14 CC BY-ND Imputation-Based Genomic Coverage Assessments of Current Genotyping Arrays: Illumina HumanCore, OmniExpress, Multi-Ethnic global array and sub-arrays, Global Screening Array, Omni2.5M, Omni5M, and Affymetrix UK Biobank Sarah C. Nelson|Jane M. Romm|Kimberly F. Doheny|Elizabeth W. Pugh|Cathy C. Laurie University of Washington;|Center for Inherited Disease Research, Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/149880 2017-06-14 CC BY Sparse coding and dimensionality reduction in cortex Michael Beyeler|Emily Rounds|Kristofor Carlson|Nikil Dutt|Jeffrey L. Krichmar University of Washington;|University of California, Irvine;|Sandia National Laboratories
http://dx.doi.org/10.1101/150193 2017-06-14 Interhemispheric specialization in the rodent hippocampus: Implications for storage and retrieval of short- and long-term memories Jake T. Jordan|Carolyn L. Pytte Graduate Center, CUNY;|Queens College, CUNY
http://dx.doi.org/10.1101/150177 2017-06-14 CC BY-NC-ND Space, Time and Episodic Memory: the Hippocampus is all over the Cognitive Map Arne Ekstrom|Charan Ranganath UC Davis Center for Neuroscience
http://dx.doi.org/10.1101/150243 2017-06-14 Evolution and genetics of precocious burrowing behavior in Peromyscus mice Hillery C. Metz|Nicole L. Bedford|Linda Pan|Hopi E. Hoekstra Harvard/HHMI
http://dx.doi.org/10.1101/150045 2017-06-14 Data-driven re-referencing of intracranial EEG based on independent component analysis (ICA) Sebastian Michelmann|Matthias S Treder|Benjamin J Griffiths|Casper Kerren|Frederic Roux|Maria Wimber|David Rollings|Vijay Sawlani|Ramesh Chelvarajah|Stephanie Gollwitzer|Gernot Kreiselmeyer|Hajo Hamer|Howard Bowman|Bernhard Staresina|Simon Hanslmayr University of Birmingham;|Queen Elizabeth Hospital Birmingham;|University Hospital Erlangen;|University of Birmingham, University of Kent at Canterbury
http://dx.doi.org/10.1101/150078 2017-06-14 CC BY-NC-ND Ecophysiology of freshwater Verrucomicrobia inferred from genomes recovered through time-series metagenomics Shaomei He|Sarah LR Stevens|Leong-Keat Chan|Stefan Bertilsson|Tijana Glavina del Rio|Susannah G Tringe|Rex R Malmstrom|Katherine McMahon University of Wisconsin Madison;|Department of Energy Joint Genome Institute;|Uppsala University;|University of Wisconsin MAdison
http://dx.doi.org/10.1101/150102 2017-06-14 Maternal loading of a small heat shock protein increases embryo thermal tolerance in Drosophila melanogaster Brent L. Lockwood|Cole R. Julick|Kristi L. Montooth University of Vermont;|University of Nebraska, Lincoln
http://dx.doi.org/10.1101/150201 2017-06-14 CC BY-NC-ND Modeling of cytometry data in logarithmic space: when is a bimodal distribution not bimodal? Amir Erez|Robert Vogel|Andrew Mugler|Andrew Belmonte|Gregoire Altan-Bonnet National Institutes of Health;|IBM T. J. Watson Research Center;|Purdue University;|Pennsylvania State University
http://dx.doi.org/10.1101/149674 2017-06-14 CC BY-NC-ND Approximate inference of gene regulatory network models from RNA-Seq time series data Thomas Thorne Imperial College London
http://dx.doi.org/10.1101/149682 2017-06-14 CC BY-NC-ND Loss of CaMKI function disrupts salt aversive learning in C. elegans Jana P. Lim|Holger Fehlauer|Dominique Glauser|Anne Brunet|Miriam B. Goodman Stanford University;|University of Fribourg
http://dx.doi.org/10.1101/150128 2017-06-14 CC BY-NC-ND Data-based, synthesis-driven: setting the agenda for computational ecology Timothee Poisot|Richard Labrie|Erin Larson|Anastasia Rahlin Universite de Montreal;|Cornell University;|Illinois Natural History Survey
http://dx.doi.org/10.1101/148114 2017-06-14 CC BY-NC-ND RecoverY : K-mer based read classification for Y-chromosome specific sequencing and assembly Samarth Rangavittal|Robert S. Harris|Monika Cechova|Marta Tomaszkiewicz|Rayan Chikhi|Kateryna Makova|Paul Medvedev The Pennsylvania State University;|CNRS - CRIStAL
http://dx.doi.org/10.1101/150151 2017-06-14 CC BY-NC-ND In spoken word recognition the future predicts the past Laura Gwilliams|Tal Linzen|David Poeppel|Alec Marantz New York University;|LSCP & IJN, CNRS, EHESS and ENS, PSL Research University
http://dx.doi.org/10.1101/150052 2017-06-14 CC BY-NC-ND Bayesian Comparison of Explicit and Implicit Causal Inference Strategies in Multisensory Heading Perception Luigi Acerbi|Kalpana Dokka|Dora E. Angelaki|Wei Ji Ma New York University;|Baylor College of Medicine
http://dx.doi.org/10.1101/148007 2017-06-14 CC BY-NC Discrete anatomical coordinates for speech production and synthesis M Florencia Assaneo|Daniela Ramirez Butavand|Marcos A Trevisan|Gabriel B Mindlin New York University;|University of Buenos Aires;|Universidad de Buenos Aires
http://dx.doi.org/10.1101/149963 2017-06-14 CC BY-NC-ND Stability-based sorting: The forgotten process behind (not only) biological evolution Jaroslav Flegr|Jan Toman Faculty of Science, Charles University in Prague
http://dx.doi.org/10.1101/150144 2017-06-14 CC BY-NC-ND High fidelity detection of crop biomass QTL from low-cost imaging in the field Darshi Banan|Rachel Paul|Max J. Feldman|Mark Holmes|Hannah Schlake|Ivan Baxter|Andrew D. B. Leakey University of Illinois Urbana Champaign;|Donald Danforth Plant Science Center;|University of Illinois;|USDA-ARS
http://dx.doi.org/10.1101/149294 2017-06-14 Developmental Biology CC BY-ND Cell code: the evolving arrangement of molecules that perpetuates life Antony M. Jose University of Maryland College Park
http://dx.doi.org/10.1101/147579 2017-06-14 Synthetic Biology CC BY-NC-ND Human to yeast pathway transplantation: cross-species dissection of the adenine de novo pathway regulatory node Neta Agmon|Jasmine Temple|Zuojian Tang|Tobias Schraink|Maayan Baron|Jun Chen|Paolo Mita|James A. Martin|Benjamin P. Tu|Itai Yanai|David Fenyo|Jef D. Boeke Institute for Systems Genetics, NYU Langone Medical Center;|Institute for Computational Medicine, NYU Langone Medical Center;|Department of Biochemistry, The University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/150110 2017-06-14 Molecular Biology CC BY-NC-ND Leukocyte counts based on site-specific DNA methylation analysis Joana Frobel|Tanja Bozic|Michael Lenz|Peter Uciechowski|Yang Han|Reinhild Herwartz|Klaus Strathmann|Susanne Isfort|Jens Panse|Andre Esser|Carina Birkhofer|Uwe Gerstenmaier|Thomas Kraus|Lothar Rink|Steffen Koschmieder|Wolfgang Wagner Stem Cell Biology and Cellular Engineering, RWTH Aachen University Medical School;|Joint Research Center for Computational Biomedicine, RWTH Aachen University;|Institute of Immunology, RWTH Aachen University Medical School;|Department of Hematology, RWTH Aachen University Medical School;|Institute for Transfusion Medicine, RWTH Aachen University Medical School;|Institute for Occupational and Social Medicine, RWTH Aachen University Medical School;|Varionostic GmbH, Ulm
http://dx.doi.org/10.1101/150185 2017-06-14 Genetics CC BY-NC-ND Parent of Origin Effects on Quantitative Phenotypes in a Founder Population Sahar V. Mozaffari|Jeanne M. DeCara|Sanjiv J. Shah|Roberto M. Lang|Dan L. Nicolae|Carole Ober University of Chicago;|Northwestern University
http://dx.doi.org/10.1101/150037 2017-06-14 Cell Biology EFA6 regulates selective polarised transport and axon regeneration from the axon initial segment Richard Eva|Hiroaki Koseki|Venkateswarlu Kanamarlapudi|James Fawcett University of Cambridge;|Swansea University
http://dx.doi.org/10.1101/149922 2017-06-14 Developmental Biology CC BY-NC-ND Pericyte ontogeny: the use of chimeras to track a cell lineage of diverse germ line origins Heather Corbett Etchevers INSERM UMR_S910, Aix-Marseille University
http://dx.doi.org/10.1101/150060 2017-06-14 Biochemistry Underwater hyperspectral classification of deep sea corals exposed to a toxic compound Paul Anton Letnes|Ingrid Myrnes Hansen|Lars Martin Aas|Ingvar Eide|Ragnhild Pettersen|Luca Tassara|Justine Receveur|Stephane le Floch|Julien Guyomarch|Lionel Camus|Jenny Byttingsvik Ecotone AS;|Statoil ASA;|Akvaplan-niva AS;|Centre de documentation, de recherche et dexperimentations sur les pollutions accidentelles des eaux
http://dx.doi.org/10.1101/149906 2017-06-14 Neuroscience CC BY-NC-ND Simultaneous spike-time locking to multiple frequencies Fabian H. Sinz|Carolin Sachgau|Jorg Henninger|Jan Benda|Jan Grewe Baylor College of Medicine, Houston, Texas, USA;|University of Waterloo, Ontario, Canada;|Charité, Medical School of Humboldt University, Berlin, Germany;|Dept. Neuroethology, Institute for Neuroscience, Eberhard Karls University Tübingen, Germany
http://dx.doi.org/10.1101/149773 2017-06-14 Epidemiology CC BY-ND Unintended Consequences and the Paradox of Control: Management of Emerging Pathogens with Age-Specific Virulence Spencer Carran|Matthew Ferrari|Timothy Reluga Pennsylvania State University
http://dx.doi.org/10.1101/149914 2017-06-14 Epidemiology CC BY-NC-ND An outbreak of Pseudomonas aeruginosa infection linked to a Black Friday piercing event Peter MacPherson|Katherine Valentine|Victoria Chadderton|Evdokia Dardamissis|Ian Doige|Andrew Fox|Sam Ghebrehewet|Thomas Hampton|Ken Mutton|Claire Sherratt|Catherine M. McCann University of Liverpool;|Public Health England North West;|Wirral Council;|Public Health England, Food Water and Environmental Laboratory;|Wirral University Teaching Hospital NHS Foundation Trust;|Wirral Community NHS Foundation Trust;|Public Health England Field Epidemiology Service North West
http://dx.doi.org/10.1101/148619 2017-06-14 Epidemiology CC BY-NC-ND Death of the assumption that "latent period" is fixed over the course of a plant disease epidemic Suffert Frederic INRA
http://dx.doi.org/10.1101/124263 2017-06-14 Clinical Trials CC BY A multicenter, randomized study of decitabine as epigenetic priming with induction chemotherapy in children with AML Lia Gore|Timothy J. Triche|Jason E. Farrar|Daniel Wai|Christophe Legendre|Gerald C. Gooden|Winnie S. Liang|John Carpten|David W. Lee|Frank Alvaro|Margaret E. Macy|Carola Arndt|Philip Barnette|Todd Cooper|Laura Martin|Aru Narendran|Jessica Pollard|Soheil Meshinchi|Jessica Boklan|Robert J. Arceci|Bodour Salhia Childrens Hospital Colorado and University of Colorado School of Medicine, Aurora, CO;|Jane Anne Nohl Division of Hematology, Keck School of Medicine of USC, Los Angeles, CA;|Winthrop P. Rockefeller Cancer Institute, University of Arkansas for Medical Sciences;|Ron Matricaria Institute of Molecular Medicine, Phoenix, AZ;|Translational Genomics Research Institute, Phoenix, AZ;|Sidney Kimmel Comprehensive Cancer Center at Johns Hopkins University, Baltimore, MD;|John Hunter Hospital, New South Wales, Australia;|Mayo Clinic, Rochester, MN;|Primary Childrens Medical Center and the University of Utah, Salt Lake City, UT;|Childrens Healthcare of Atlanta, Atlanta, GA;|Nationwide Childrens Hospital, Columbus, OH;|Alberta Childrens Hospital and University of Calgary, Calgary, AB, Canada;|Seattle Childrens Hospital, Seattle, WA;|Fred Hutchinson Cancer Research Center, Seattle, WA;|Phoenix Childrens Hospital, Phoenix, AZ
http://dx.doi.org/10.1101/149625 2017-06-14 Epidemiology Transfer entropy as a tool for inferring causality from observational studies in epidemiology Nasir Ahmad Aziz Leiden University Medical Center
http://dx.doi.org/10.1101/149237 2017-06-14 Epidemiology CC BY Serology reflects a decline in the prevalence of trachoma in two regions of The Gambia Stephanie J. Migchelsen|Nuno Sepulveda|Diana Martin|Gretchen Cooley|Sarah Gwyn|Harry Pickering|Hassan Joof|Pateh Makalo|Robin Bailey|Sarah E. Burr|David C. W. Mabey|Anthony W. Solomon|Chrissy h. Roberts London School of Hygiene & Tropical Medicine;|Centers for Disease Control and Prevention;|Medical Research Council, The Gambia Unit
http://dx.doi.org/10.1101/147066 2017-06-14 Epidemiology CC BY-ND On the relative role of different age groups during influenza A epidemics in Germany, 2002-2017 Edward Goldstein Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/150227 2017-06-15 Microbiology CC BY-NC-ND Bacteria defend against phages through type IV pilus glycosylation Hanjeong Harvey|Joseph Bondy-Denomy|Helene Marquis|Kristina M. Sztanko|Alan R. Davidson|Lori L. Burrows McMaster University;|University of California-San Francisco;|Cornell University;|University of Toronto
http://dx.doi.org/10.1101/150367 2017-06-15 Biophysics Hemodynamic forces can be accurately measured in vivo with optical tweezers Sebastien Harlepp|Fabrice Thalmann|Gautier Follain|Jacky G. Goetz IPCMS, Strasbourg;|ICS, Strasbourg;|INSERM U1109
http://dx.doi.org/10.1101/150425 2017-06-15 Evolutionary Biology Effects of DNA oxidation on the evolution of genomes Michael Sheinman|Rutger Hermsen Utrecht University, Biology Department, Theoretical Biology Group, Padualaan 8, Utrecht
http://dx.doi.org/10.1101/150730 2017-06-15 CC BY An evolutionary young defense metabolite influences the root growth of plants via the ancient TOR signaling pathway Frederikke Gro Malinovsky|Marie-Louise Thomsen|Sebastian J. Nintemann|Lea Mller Jagd|Baptiste Bourgine|Meike Burow|Daniel J. Kliebenstein University of Copenhagen;|University of Lausanne;|University of California, Davis
http://dx.doi.org/10.1101/150755 2017-06-15 Karyotype stability and unbiased fractionation in the paleo-allotetraploid Cucurbita genomes Honghe Sun|Shan Wu|Guoyu Zhang|Chen Jiao|Shaogui Guo|Yi Ren|Jie Zhang|Haiying Zhang|Guoyi Gong|Zhangcai Jia|Fan Zhang|Jiaxing Tian|William J. Lucas|Jeff J. Doyle|Haizhen Li|Zhangjun Fei|Yong Xu National Engineering Research Center for Vegetables;|Boyce Thompson Institute, Cornell University;|Department of Plant Biology, College of Biological Sciences, University of California, Davis;|Section of Plant Breeding & Genetics, School of Integrated Plant Sciences, Cornell University
http://dx.doi.org/10.1101/144972 2017-06-15 Unexpected Early Proteomic Changes in Alzheimer's Disease Model Mice Synaptosomes Kerri Ball|Addolorata Pisconti|Kelly Grounds|William Old|Michael Stowell University of Colorado
http://dx.doi.org/10.1101/150482 2017-06-15 CC BY-NC-ND Identification And Evolutionary Analysis Of Eight Non-Coding Genomic Elements Regulating Neurodevelopmental Genes Francisco J. Novo University of Navarra
http://dx.doi.org/10.1101/150649 2017-06-15 Mapping the ecological networks of microbial communities from steady-state data Yandong Xiao|Marco Tulio Angulo|Jonathan Friedman|Matthew K. Waldor|Scott T. Weiss|Yang-Yu Liu Channing Div. of Network Medicine, Brigham & Women Hospital and Harvard Medical School;|Institute of Mathematics, UNAM and National Council for Science and Technology;|Physics of Living Systems, Department of Physics, Massachusetts Institute of Technology;|Division of Infectious Diseases, Brigham and Women Hospital and Harvard Medical School
http://dx.doi.org/10.1101/150706 2017-06-15 CC BY-NC-ND Inter-Tools: a toolkit for interactome analysis Hannah Beth Catabia|Caren Smith|Jose Ordovas Boston University;|JMUSDA Human Nutrition Research Center on Aging
http://dx.doi.org/10.1101/150581 2017-06-15 CC BY Phenotypic consequences of RNA polymerase dysregulation in Escherichia coli Paramita Sarkar|Amy Switzer|Christine Peters|Joe Pogliano|Sivaramesh Wigneshweraraj Imperial College London;|University of California, San Diego
http://dx.doi.org/10.1101/150664 2017-06-15 CC BY-ND Triazavirine supramolecular complexes as modifiers of the peptide oligomeric structure Alexey Shvetsov|Yana Zabrodskaya|Peter Nekrasov|Vladimir Egorov Petersburg Nuclear Physics Institute of National Research Centre;|Research Institute of Influenza, Ministry of Healthcare of the Russian Federation
http://dx.doi.org/10.1101/150615 2017-06-15 The genetic overlap between mood disorders and cardio-metabolic diseases: A systematic review of genome wide and candidate gene studies Azmeraw T. Amare|Klaus Oliver Schubert|Sarah Cohen-Woods|Bernhard T. Baune University of Adelaide;|Flinders University
http://dx.doi.org/10.1101/147397 2017-06-15 Genome-wide association study of Alcohol Use Disorder Identification Test (AUDIT) scores in 20,328 research participants of European ancestry Sandra Sanchez-Roige|Pierre Fontanillas|Sarah L. Elson|Joshua C. Gray|Harriet de Wit|Lea K. Davis|James MacKillop|Abraham A. Palmer UCSD;|23andMe, Inc., Mountain View, CA, USA;|-;|Univesity of Georgia/Brown University;|University of Chicago;|Vanderbilt University;|McMaster University/St. Joseph's Healthcare
http://dx.doi.org/10.1101/150722 2017-06-15 CC BY Identification of a novel interspecific hybrid yeast from a metagenomic open fermentation sample using Hi-C Caiti Smukowski Heil|Joshua N. Burton|Ivan Liachko|Anne Friedrich|Noah A. Hanson|Cody L. Morris|Joseph Schacherer|Jay Shendure|James H. Thomas|Maitreya J. Dunham University of Washington;|University of Washington, Current Address: Adaptive Biotechnologies;|University of Washington, Current Address: Phase Genomics;|University of Strasbourg;|Mollusk, Seattle, WA;|University of Washington, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/150771 2017-06-15 CC BY-NC-ND Rapid adaptation with gene flow via a reservoir of chromosomal inversion variation? Qixin He|L. Lacey Knowles University of Chicago;|University of Michigan
http://dx.doi.org/10.1101/150532 2017-06-15 Local differences in neuronal activation level decorrelate spatially coherent global fluctuations in gamma rhythms Kaushik Lakshminarasimhan|Nikos Logothetis|Georgios Keliris Baylor College of Medicine;|Max-Planck Institute for Biological Cybernetics;|University of Antwerp
http://dx.doi.org/10.1101/149302 2017-06-15 CC BY-NC Spatial resource heterogeneity creates local hotspots of evolutionary potential Emily Dolson|Charles Ofria Michigan State University
http://dx.doi.org/10.1101/150680 2017-06-15 Histamine signaling via the metabotropic receptor Trapped in endoderm 1 regulates courtship initiation in Drosophila melanogaster. Sadaf A. Zaki|Jaspal Sandhu|Rachael French San Jose State University
http://dx.doi.org/10.1101/150748 2017-06-15 CC BY-NC-ND Evidence for a causal link between left posterior alpha-beta power decreases and context-driven word production. Vitoria Piai|Joost Rommers|Robert T. Knight Radboud University, Donders Institute for Brain, Cognition and Behaviour;|University of California Berkeley
http://dx.doi.org/10.1101/150607 2017-06-15 Spontaneous cortical activity transiently organises into frequency specific phase-coupling networks Diego Vidaurre|Laurence T. Hunt|Andrew J. Quinn|Benjamin A. E. Hunt|Matthew J. Brookes|Anna C. Nobre|Mark W. Woolrich University of Oxford;|University of Nottingham
http://dx.doi.org/10.1101/150656 2017-06-15 Molecular Biology Inducible, tunable and multiplex human gene regulation using CRISPR-Cpf1-based transcription factors Yu Gyoung Tak|Benjamin P. Kleinstiver|James K. Nunez|Jonathan Y. Hsu|Jingyi Gong|Jonathan S. Weissman|J. Keith Joung Massachusetts General Hospital;|University of California San Francisco
http://dx.doi.org/10.1101/150623 2017-06-15 Neuroscience Amyloid accumulation drives proteome-wide alterations in mouse models of Alzheimers disease like pathology Jeffrey N. Savas|Yi-Zhi Wang|Laura A. DeNardo|Salvador Martinez-Bartolome|Daniel B. McClatchy|Timothy J. Hark|Natalie F. Shanks|Kira A. Cozzolino|Mathieu Lavallee-Adam|Samuel N. Smukowski|Sung Kyu Park|Jeffery W. Kelly|Edward H. Koo|Terunaga Nakagawa|Eliezer Masliah|Anirvan Ghosh|John R. Yates Northwestern University, Feinberg School of Medicine;|Neurobiology Section, Division of Biology, University of California, San Diego;|Department of Chemical Physiology, The Scripps Research Institute, La Jolla, CA;|Department of Neurology, Feinberg School of Medicine, Northwestern University, Chicago, IL;|University of California, San Diego;|Dept. of Biochem., Microbiol. & Immunol.; Ottawa Inst. of Systems Biology, Univ. of Ottawa;|The Skaggs Institute for Chemical Biology, The Scripps Research Institute, La Jolla, CA;|The Scripps Research Institute
http://dx.doi.org/10.1101/149138 2017-06-15 Biophysics CC BY-NC-ND Real-time detection of condensin-driven DNA compaction reveals a multistep binding mechanism Jorine Mirjam Eeftens|Shveta Bisht|Jacob Kerssemakers|Christian Haering|Cees Dekker TU Delft;|EMBL Heidelberg
http://dx.doi.org/10.1101/150235 2017-06-15 Developmental Biology A single cell transcriptional roadmap for cardiopharyngeal fate diversification Wei Wang|Xiang Niu|Estelle Jullian|Robert G. Kelly|Rahul Satija|Lionel Christiaen New York University;|New York Genome Center;|Aix-Marseille University
http://dx.doi.org/10.1101/150292 2017-06-15 Bioinformatics CC BY-NC scmap - A tool for unsupervised projection of single cell RNA-seq data Vladimir Yu. Kiselev|Martin Hemberg Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/150284 2017-06-15 Neuroscience MIMoSA: A Method for Inter-Modal Segmentation Analysis Alessandra Valcarcel|Kristin Linn|Simon Vandekar|Theodore Satterthwaite|Peter Calabresi|Dzung Pham|Russell Shinohara University of Pennsylvania;|The Johns Hopkins University;|Henry M. Jackson Foundation for the Advancement of Military Medicine
http://dx.doi.org/10.1101/150383 2017-06-15 Microbiology CC BY-NC-ND Campylobacter jejuni transcriptome changes during loss of culturability in water Christina Bronowski|Kasem Mustafa|Ian Goodhead|Chloe E. James|Charlotte Nelson|Anita Lucaci|Paul Wigley|Tom J. Humphrey|Nicola J. Williams|Craig Winstanley University of Liverpool;|University of Salford;|University of Swansea
http://dx.doi.org/10.1101/150466 2017-06-15 Neuroscience Isolated from input: Transmodal cortex in the default mode network supports perceptually-decoupled and conceptually-guided cognition Charlotte Murphy|Elizabeth Jefferies|Shirley-Ann Rueschemeyer|Mladen Sormaz|Hao-ting Wang|Daniel Margulies|Jonathan Smallwood University of York;|Res. Grp. for Neuroanat. & Connectivity, Max Planck Instit. for Human Cognition & Brain Sci.
http://dx.doi.org/10.1101/150409 2017-06-15 Genetics Association study of schizophrenia with variants in miR-137 binding sites David Curtis|Warren Emmett University College London
http://dx.doi.org/10.1101/150359 2017-06-15 Ecology CC BY-NC-ND Animal-aided design - using a species life-cycle to improve open space planning and conservation in cities and elsewhere Wolfgang Weisser|Thomas Hauck Technical University of Munich;|University of Kassel
http://dx.doi.org/10.1101/150300 2017-06-15 Microbiology CC BY-NC-ND Generation of Arctic-like Rabies Viruses Containing Chimeric Glycoproteins Enables Serological Potency Studies. Emma Bentley|Ruqiyo Ali|Daniel Horton|Davide Corti|Ashley Banyard|Anthony Fooks|Edward Wright University of Westminster;|University of Surrey;|Humabs BioMed SA;|Animal and Plant Health Agency
http://dx.doi.org/10.1101/151035 2017-06-16 Regulation of Na+,K+-ATPase isoforms and phospholemman (FXYD1) in skeletal muscle fibre types by exercise training and cold-water immersion in men Danny Christiansen|Robyn M. Murphy|James R. Broatch|Jens Bangsbo|Michael J. McKenna|David J. Bishop Victoria University, Melbourne, Australia;|La Trobe University, Melbourne, Australia;|University of Copenhagen, Copenhagen, Denmark
http://dx.doi.org/10.1101/150953 2017-06-16 Less is More: Oligomer extraction and hydrothermal annealing increase PDMS bonding forces for new microfluidics assembly and for biological studies Larry Millet|Anika Jain|Martha Gillette University of Illinois at Urbana-Champaign and Oak Ridge National Lab;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/151050 2017-06-16 CC BY-NC-ND Out-of-equilibrium statistical dynamics of spatial pattern generating cellular automata Eduardo P. Olimpio|Hyun Youk Delft University of Technology & Kavli Institute of Nanoscience
http://dx.doi.org/10.1101/150870 2017-06-16 CC BY-NC-ND Thermodynamic Integration in 3n Dimensions without Biases or Alchemy for Protein Interactions Liao Y. Chen University of Texas San Antonio
http://dx.doi.org/10.1101/151043 2017-06-16 CC BY-NC Platform for rapid nanobody discovery in vitro Conor McMahon|Alexander S Baier|Sanduo Zheng|Roberta Pascolutti|Janice X. Ong|Sarah C. Erlandson|Daniel Hilger|Aaron M. Ring|Aashish Manglik|Andrew C. Kruse Harvard Medical School;|Stanford University;|Yale University
http://dx.doi.org/10.1101/150987 2017-06-16 CC BY-ND Scalable composition frameworks for multicellular logic Sarah Guiziou|Pauline Mayonove|Federico Ulliana|Violaine Moreau|Michel Leclere|Jerome Bonnet Centre de Biochimie Structurale, Montpellier;|LIRMM, Montpellier
http://dx.doi.org/10.1101/150821 2017-06-16 CC BY Costing ‘the’ MTD David C. Norris Precision Methodologies, LLC
http://dx.doi.org/10.1101/150763 2017-06-16 CC BY-NC Selecting among three basic fitness landscape models: additive, multiplicative and stickbreaking Craig R. Miller|James T. Van Leuven|Holly A. Wichman|Paul Joyce University of Idaho
http://dx.doi.org/10.1101/150896 2017-06-16 CC BY-NC-ND GEOracle: Mining perturbation experiments using free text metadata in Gene Expression Omnibus Djordje Djordjevic|Yun Xin Chen|Shu Lun Shannon Kwan|Raymond W. K. Ling|Gordon Qian|Chelsea Y. Y. Woo|Samuel J. Ellis|Joshua W. K. Ho Victor Chang Cardiac Research Institute
http://dx.doi.org/10.1101/150474 2017-06-16 CC BY-ND Impact of domain knowledge on blinded predictions of binding energies by alchemical free energy calculations Antonia S. J. S. Mey|Jordi Juarez-Jimenez|Julien Michel University of Edinburgh
http://dx.doi.org/10.1101/150540 2017-06-16 Environmental factors dominate over host genetics in shaping human gut microbiota composition Daphna Rothschild|Omer Weissbrod|Elad Barkan|Tal Korem|David Zeevi|Paul Igor Costea|Anastasia Godneva|Iris Nati Kalka|Noam Bar|Niv Zmora|Meirav Pevsner-Fischer|David Israeli|Noa Kosower|Gal Malka|Bat Chen Wolf|Tali Avnit-Sagi|Maya Lotan-Pompan|Adina Weinberger|Zamir Halpern|Shai Carmi|Eran Elinav|Eran Segal Weizmann Institute of Science;|Kfar Shaul Hospital, Jerusalem Center for Mental Health;|Tel Aviv Sourasky Medical Center;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/150342 2017-06-16 CC BY Quantifying uncertainty in the inference of generalized coalescents Timothy C. Wallstrom|Jon F. Wilkins|Tanmoy Bhattacharya Los Alamos National Laboratory;|Ronin Institute for Independent Scholarship
http://dx.doi.org/10.1101/150854 2017-06-16 Evolutionary Biology CC BY-ND Mechanisms of transmission ratio distortion at hybrid sterility loci within and between Mimulus species Rachel E. Kerwin|Andrea L. Sweigart University of Georgia, United States
http://dx.doi.org/10.1101/151019 2017-06-16 Neuroscience CC BY-NC-ND Dynamic interactions between top-down expectations and conscious awareness Erik Meijs|Heleen A. Slagter|Floris P. de Lange|Simon van Gaal Radboud University Medical Center, Donders Institute for Brain, Cognition and Behaviour;|University of Amsterdam;|Radboud University, Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/150805 2017-06-16 Plant Biology Arabidopsis U1 snRNP subunit LUC7 functions in alternative splicing and preferential removal of terminal introns Marcella de Francisco Amorim|Eva-Maria Willing|Emese Xochitl Szabo|Irina Droste-Borel|Boris Macek|Korbinian Schneeberger|Sascha Laubinger Centre for Plant Molecular Biology (ZMBP), University of Tuebingen, Tuebingen, Germany;|Max Planck Institute for Plant Breeding Research (MPIPZ), Cologne, Germany;|Proteome Centre, University of Tuebingen, Tuebingen, Germany
http://dx.doi.org/10.1101/150516 2017-06-16 Genomics CC BY-NC-ND Genetic architecture of early childhood growth phenotypes gives insights into their link with later obesity N. Maneka G. De Silva|Sylvain Sebert|Alexessander Couto Alves|Ulla Sovio|Shikta Das|Rob Taal|Nicole M. Warrington|Alexandra M. Lewin|Marika Kaakinen|Diana Cousminer|Elisabeth Thiering|Nicholas J. Timpson|Ville Karhunen|Tom Bond|Xavier Estivill|Virpi Lindi|Jonathan P. Bradfield|Frank Geller|Lachlan J. M. Coin|Marie Loh|Sheila J. Barton|Lawrence J. Beilin|Hans Bisgaard|Klaus Bonnelykke|Rohia Alili|Ida J. Hatoum|Katharina Schramm|Rufus Cartwright|Marie-Aline Charles|Vincenzo Salerno|Karine Clement|Cornelia M. van Duijn|Elena Moltchanova|Johan G. Eriksson|Cathy Elks|Bjarke Feenstra|Claudia Flexeder|Stephen Franks|Timothy M. Frayling|Rachel M. Freathy|Paul Elliott|Elisabeth Widen|Hakon Hakonarson|Andrew T. Hattersley|Alina Rodriguez|Marco Banterle|Joachim Heinrich|Barbara Heude|John W. Holloway|Albert Hofman|Elina Hypponen|Hazel Inskip|Lee M. Kaplan|Asa K. Hedman|Esa Laara|Holger Prokisch|Harald Grallert|Timo A. Lakka|Debbie A. Lawlor|Mads Melbye|Tarunveer S. Ahluwalia|Marcella Marinelli|Iona Y. Millwood|Lyle J. Palmer|Craig E. Pennell|John R. Perry|Susan M. Ring|Markku Savolainen|Kari Stefansson|Gudmar Thorleifsson|Fernando Rivadeneira|Marie Standl|Jordi Sunyer|Carla M. T. Tiesler|Andre G. Uitterlinden|Inga Prokopenko|Karl-Heinz Herzig|George Davey Smith|Paul O'Reilly|Janine F. Felix|Jessica L. Buxton|Alexandra I. F. Blakemore|Ken K. Ong|Struan F. A. Grant|Vincent W. V. Jaddoe|Mark I. McCarthy|Marjo-Riitta Jarvelin Dept. of Epidemiol. & Biostat., MRC-PHE Ctr. for Environment & Health, Imp. College London;|Center for Life Course Health Research, Faculty of Medicine, University of Oulu, Finland;|Department of Obstetrics and Gynaecology, University of Cambridge, UK;|Department of Paediatrics, Erasmus Medical Center, Sophia Childrens Hospital, Rotterdam;|School of Womens and Infants Health, The University of Western Australia, Adelaide;|Department of Mathematics, Brunel University London, UK;|Dept. of Genomics of Common Disease, School of Public Health, Imperial College London;|Division of Human Genetics, The Childrens Hospital of Philadelphia, Pennsylvania;|Inst. of Epidemiol. I, Helmholtz Zentrum Munchen, German Res. Ctr. for Environ. Health;|MRC Integrative Epidemiology Unit at the University of Bristol, UK;|Center for Life Course Health Research, Faculty of Medicine, University of Oulu, Oulu, Finland;|Genomics & Disease Group, Bioinformatics & Genomics Programme, Ctr for Genomic Regul.;|Institute of Biomedicine, Department of Physiology, University of Eastern Finland, Kuopio;|Center for Applied Genomics, Abramson Research Center, Childrens Hospital of Philadelphia;|Department of Epidemiology Research, Statens Serum Institut, Copenhagen, Denmark;|Institute for Molecular Bioscience, The University of Queensland, Brisbane, Australia;|Translational Laboratory in Genetic Medicine, Agency for Science, Technology and Research;|MRC Lifecourse Epidemiology Unit, Univ. of Southampton, Southampton General Hospital;|School of Medicine & Pharmacology, Royal Perth Hospital, The University of Western Australia;|Copenhagen Prospective Studies on Asthma in Childhood, Faculty of Health Sciences;|The Danish Pediatric Asthma Center, Copenhagen University Hospital, Gentofte, Denmark;|CRNH Ile de France, Hopital Pitie-Salpetriere, Paris, France;|Obesity, Metabolism, & Nutrition Institute and Gastrointestinal Unit, Mass. General Hospital;|Inst. of Human Genetics, Helmholtz Center Munich, German Res. Ctr. for Environ. Health;|Inserm, UMR 1153 (CRESS), Villejuif; Paris Descartes University, France;|CRNH Ile de France, Hopital Pitie-Salpetriere, Paris, France.;|Department of Epidemiology, Erasmus Medical Center, Rotterdam, Netherlands;|University of Canterbury, Department of Mathematics & Statistics, Christchurch, New Zealand;|Department of Chronic Disease Prevention, National Institute for Health and Welfare, Helsinki;|MRC Epidemiology Unit, University of Cambridge School of Clinical Medicine;|Institute of Epidemiology I, Helmholtz Zentrum Munchen, German Res. Ctr for Environ. Health;|Institute for Reproductive and Developmental Biology, Imperial College London, UK;|Institute of Biomedical & Clinical Science, University of Exeter Medical School;|Institute of Biomedical and Clinical Science, University of Exeter Medical School;|Institute for Molecular Medicine Finland, University of Helsinki, Finland;|Department of Paediatrics, Perelman School of Medicine, University of Pennsylvania;|School of Psychology, College of Social Science, University of Lincoln Brayford Pool;|Department of Mathematics, Brunel University, London, UK;|Human Genetics and Medical Genomics, Faculty of Medicine, University of Southampton, UK;|The Generation R Study Group, Erasmus Medical Center, Rotterdam, Netherlands;|School of Population Health, University of South Australia, Adelaide;|Department of Medicine, Harvard Medical School, Boston, MA, USA;|Wellcome Trust Centre for Human Genetics, University of Oxford, UK;|Research Unit of Mathematical Sciences, University of Oulu, Finland;|Institute of Human Genetics, Helmholtz Center Munich, German Res. Ctr for Environ. Health;|German Center for Diabetes Research (DZD), Neuherberg, Germany;|Hospital del Mar Medical Research Institute (IMIM), Barcelona, Catalonia, Spain;|Clinical Trial Service Unit and Epidemiological Studies Unit, University of Oxford;|School of Public Health and Robinson Research Institute, University of Adelaide, Australia;|School of Womens and Infants Health, The University of Western Australia, Australia;|School of Social and Community Medicine, University of Bristol;|Division of Internal Medicine, and Biocenter of Oulu, Faculty of Medicine, Oulu University;|deCODE genetics, Reykjavik, Iceland;|Institute of Epidemiology I, Helmholtz Zentrum Munchen, German Res. Ctr. for Environ. Health;|Pompeu Fabra University (UPF), Barcelona, Catalonia, Spain;|Division of Human Genetics, The Childrens Hospital of Philadelphia;|Research Unit of Biomedicine, and Biocenter of Oulu, Oulu University, Finland;|UCL Genetics Inst., Department of Genetics, Evolution & Environment, Univ. College London;|Division of Human Genetics, Childrens Hospital of Philadelphia, Pennsylvania
http://dx.doi.org/10.1101/150375 2017-06-16 Synthetic Biology Hands-free control of heterologous gene expression in batch cultures Olivier Borkowski|Drew Endy|Pakpoom Subsoontorn Bioengineering Department, Stanford University
http://dx.doi.org/10.1101/150789 2017-06-16 Cell Biology The SMuSh pathway is essential for survival during growth-induced compressive mechanical stress Morgan Delarue|Gregory Poterewicz|Ori Hoxha|Jessica Choi|Wonjung Yoo|Jona Kayser|Liam Holt|Oskar Hallatschek New York University Langone Medical Center;|Dpt of Physics and Integrative Biology, University of California, Berkeley
http://dx.doi.org/10.1101/150813 2017-06-16 Cell Biology CC BY-NC-ND Crosslinkers both drive and brake cytoskeletal remodeling and furrowing in cytokinesis Carlos Patino Descovich|Daniel B Cortes|Sean Ryan|Jazmine Nash|Li Zhang|Paul S Maddox|Francois Nedelec|Amy Shaub Maddox University of North Carolina, Chapel Hill;|Institute for Research in Immunology and Cancer, University of Montréal, Montréal;|Cell Biology and Biophysics Unit, EMBL, Heidelberg
http://dx.doi.org/10.1101/150672 2017-06-16 Biochemistry Producing Hfq/Sm Proteins and sRNAs for Structural and Biophysical Studies of Ribonucleoprotein Assembly Kimberly A. Stanek|Cameron Mura University of Virginia
http://dx.doi.org/10.1101/151159 2017-06-16 CC BY-NC-ND simExTargId: An R package for real-time LC-MS metabolomic data analysis, instrument failure/drift notification and MS2 target identification William M. B. Edmands|Stephen M. Rappaport UC Berkeley
http://dx.doi.org/10.1101/151167 2017-06-16 CC BY High-quality de novo genome assembly of the Dekkera bruxellensis UMY321 yeast isolate using Nanopore MinION sequencing Teo Fournier|Jean-Sebastien Gounot|Kelle C. Freel|Corinne Cruaud|Arnaud Lemainque|Jean-Marc Aury|Patrick Wincker|Joseph Schacherer|Anne Friedrich University of Strasbourg;|CEA, Genoscope
http://dx.doi.org/10.1101/151126 2017-06-16 Genomics DNA isolation protocol effects on nuclear DNA analysis by microarrays, droplet digital PCR, and whole genome sequencing, and on mitochondrial DNA copy number estimation Elizabeth Nacheva|Katya Mokretar|Aynur Soenmez|Alan M. Pittman|Colin Grace|Roberto Valli|Ayesha Ejaz|Selina Vattathil|Emanuela Maserati|Henry Houlden|Jan-Willem Taanman|Anthony H. Schapira|Christos Proukakis University College London;|Universita dell Insubria;|The University of Texas MD Anderson Cancer Center;|University dell Insubria
http://dx.doi.org/10.1101/150524 2017-06-16 Bioinformatics CC BY-NC-ND Addressing the looming identity crisis in single cell RNA-seq Megan Crow|Anirban Paul|Sara Ballouz|Z. Josh Huang|Jesse Gillis Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/151076 2017-06-16 Neuroscience CC BY-NC-ND Dynamic interhemispheric coordination in face processing Zhengang Lu|Bingbing Guo|Ming Meng Johns Hopkins University;|South China Normal University;|Dartmouth College
http://dx.doi.org/10.1101/150904 2017-06-16 Genomics CC BY-NC-ND Ambiguous specification of EGFR mutations compounded by nil or negligible fragmented gene counts and erroneous application of the Kappa statistic reiterates doubts on the veracity of the TEP-study Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/151100 2017-06-16 Physiology Post-exercise cold-water immersion increases Na+,K+-ATPase α2-isoform mRNA content in parallel with elevated Sp1 expression in human skeletal muscle Danny Christiansen|Robyn M. Murphy|James R. Broatch|Jens Bangsbo|Michael J. McKenna|Jujiao Kuang|David J. Bishop Victoria University;|La Trobe University, Melbourne, Australia;|Victoria University, Melbourne, Australia;|University of Copenhagen, Copenhagen, Denmark
http://dx.doi.org/10.1101/151241 2017-06-16 Cancer Biology CC BY RNA-mediated Genomic Arrangements in Mammalian Cells Sachin Kumar Gupta|Liming Luo|Laising Yen Baylor College of Medicine, United States
http://dx.doi.org/10.1101/151191 2017-06-16 Biochemistry CC BY-NC The Neuron Specific Formin Delphilin Nucleates Actin Filaments but Does Not Enhance Elongation William T. Silkworth|Kristina L. Kunes|Grace C. Nickel|Martin L. Phillips|Margot E. Quinlan|Christina L. Vizcarra UCLA;|Barnard College
http://dx.doi.org/10.1101/151258 2017-06-16 Systems Biology CC BY-NC-ND ProbAnnoWeb and ProbAnnoPy: probabilistic annotation and gap-filling of metabolic reconstructions Brendan King|Terry Farrah|Matthew Richards|Michael Mundy|Evangelos Simeonidis|Nathan D. Price Institute for Systems Biology;|Mayo Clinic
http://dx.doi.org/10.1101/151233 2017-06-16 Physiology CC BY-NC Evolution of steroid specificity in human, chicken, alligator, frog and zebrafish mineralocorticoid receptors: Allosteric interactions affect steroid specificity Yoshinao Katsu|Kaori Oka|Michael E. Baker Hokkaido University;|University of California, San Diego
http://dx.doi.org/10.1101/151464 2017-06-17 CC BY-NC-ND CGRP signaling mediates prolonged meningeal afferent activation evoked by brief local K+ stimulation but not cortical spreading depression-induced afferent sensitization Jun Zhao|Dan Levy BIDMC/harvard Medical School
http://dx.doi.org/10.1101/131490 2017-06-17 CC BY-NC-ND A descending pathway through electrical coupling facilitates undulatory wave propagation in C. elegans Tianqi Xu|Jing Huo|Shuai Shao|Michelle Po|Taizo Kawano|Yangning Lu|Min Wu|Mei Zhen|Quan Wen University of Science and Technology of China;|University of Toronto
http://dx.doi.org/10.1101/151472 2017-06-17 CC BY-NC-ND Suppression of non-homologous end joining does not rescue DNA repair defects in Fanconi anemia patient cells Supawat Thongthip|Brooke A. Conti|Francis P. Lach|Agata Smogorzewska The Rockefeller University
http://dx.doi.org/10.1101/151399 2017-06-17 CC BY-NC-ND Astrin-SKAP complex reconstitution reveals its kinetochore interaction with microtubule-bound Ndc80 David Kern|Elizabeth Wilson-Kubalek|Iain Cheeseman Whitehead Institute/MIT;|The Scripps Research Institute;|Whitehead Institute
http://dx.doi.org/10.1101/151316 2017-06-17 Microbiology CC BY EsaB is a core component of the Staphylococcus aureus Type VII secretion system M. Guillermina Casabona|Grant Buchanan|Martin Zoltner|Catriona P. Harkins|Matthew T. G. Holden|Tracy Palmer University of Dundee;|University of St. Andrews
http://dx.doi.org/10.1101/151274 2017-06-18 CC BY FactorNet: a deep learning framework for predicting cell type specific transcription factor binding from nucleotide-resolution sequential data Daniel Quang|Xiaohui Xie University of California, Irvine
http://dx.doi.org/10.1101/151282 2017-06-18 CC BY-NC-ND Construction of soil defined media using quantitative exometabolomic analysis of soil metabolites Stefan Jenkins|Tami L Swenson|Rebecca Lau|Andrea Rocha|Alex Aaring|Terry C Hazen|Romy Chakraborty|Trent R Northen Lawrence Berkeley National Laboratory;|Oak Ridge National Laboratory; Geosyntec Consultants;|Oak Ridge National Laboratory; University of Tennessee;|Lawrence Berkeley National Laboratory; Joint Genome Institute
http://dx.doi.org/10.1101/151613 2017-06-18 Dual role of E-cadherin in the regulation of invasive collective migration of mammary carcinoma cells Yair Elisha|Vyacheslav Kalchenko|Yuri Kuznetsov|Benjamin Geiger Weizmann Institute
http://dx.doi.org/10.1101/151217 2017-06-18 CC BY-NC-ND A robust statistical framework to detect multiple sources of hidden variation in single-cell transcriptomes Donghyung Lee|Anthony Cheng|Duygu Ucar The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/151407 2017-06-18 CC BY-NC-ND High Performance Virtual Screening by Targeting a High-resolution RNA Dynamic Ensemble Laura R. Ganser|Janghyun Lee|Bharathwaj Sathyamoorthy|Aman D. Kansal|Dawn K. Merriman|Hashim M. Al-Hashimi Duke University School of Medicine;|University of Michigan;|Duke University
http://dx.doi.org/10.1101/151605 2017-06-18 Ecology Computational Complex Predator-Prey Dynamics Adwitiya Chaudhuri|Sk. Sarif Hassan Pingla Thana Mahavidyalaya
http://dx.doi.org/10.1101/151480 2017-06-18 Cancer Biology CC BY-NC-ND Impairment of mitochondrial respiratory function as an early biomarker of apoptosis induced by growth factor removal Helene Lemieux|Patrick Subarsky|Christine Doblander|Martin Wurm|Jakob Troppmair|Erich Gnaiger University of Alberta, Edmonton;|Oroboros Instruments;|Medical University Innsbruck
http://dx.doi.org/10.1101/151555 2017-06-18 Cell Biology Genome Architecture Leads a Bifurcation in Cell Identity Sijia Liu|Haiming Chen|Scott Ronquist|Laura Seaman|Nicholas Ceglia|Walter Meixner|Lindsey A. Muir|Pin-Yu Chen|Gerald Higgins|Pierre Baldi|Steve Smale|Alfred Hero|Indika Rajapakse University of Michigan;|University of California-Irvine;|IBM T. J. Watson Research Center;|University of California, Berkeley
http://dx.doi.org/10.1101/146340 2017-06-18 Bioinformatics CC BY-NC-ND Biological classification with RNA-Seq data: Can alternative splicing enhance machine learning classifier? Nathan T. Johnson|Andi Dhroso|Katelyn J. Hughes|Dmitry Korkin Worcester Polytechnic Institute
http://dx.doi.org/10.1101/151225 2017-06-18 Genomics High Frequency Actionable Pathogenic Exome Mutations in an Average-Risk Cohort Shannon Rego|Orit Dagan-Rosenfeld|Wenyu Zhou|M. Reza Sailani|Patricia Limcaoco|Elizabeth Colbert|Monika Avina|Jessica Wheeler|Colleen Craig|Denis Salins|Hannes L. Rost|Jessilyn Dunn|Tracey McLaughlin|Lars M. Steinmetz|Jonathan A. Bernstein|Michael P. Snyder Stanford University;|Stanford University/European Molecular Biology Laboratory
http://dx.doi.org/10.1101/151290 2017-06-18 Genomics CC BY-ND The value of DNA methylation profiling in characterizing preeclampsia and intrauterine growth restriction Samantha L Wilson|Katherine Leavey|Brian Cox|Wendy P Robinson University of British Columbia;|University of Toronto;
http://dx.doi.org/10.1101/151175 2017-06-18 Evolutionary Biology Punctuated evolution shaped modern vertebrate diversity Michael Landis|Joshua G. Schraiber Yale University;|Temple University
http://dx.doi.org/10.1101/151894 2017-06-19 Genetics CC BY-NC-ND Cross-species Y chromosome function between malaria vectors of the Anopheles gambiae species complex Federica Bernardini|Roberto Galizi|Mariana Wunderlich|Chrysanthi Taxiarchi|Nace Kranjc|Kyros Kyrou|Andrew Hammond|Tony Nolan|Mara Lawniczak|Philippos Aris Papathanos|Andrea Crisanti|Nikolai Windbichler Imperial College London;|University of Perugia;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/151787 2017-06-19 Bioinformatics CC BY-NC A RESTful API to serve BAM file with OAuth2 compatible authorization Julien Delafontaine|Sylvain Pradervand University Hospital, Lausanne (CHUV)
http://dx.doi.org/10.1101/151779 2017-06-19 Systems Biology Transcription Factor Target Gene Network governs the Logical Abstraction Analysis of the Synthetic Circuit in Leishmaniasis Milsee Mol|Dipali Kosey|Ramanamurthy Bopanna|Shailza Singh NCCS
http://dx.doi.org/10.1101/151860 2017-06-19 Physiology CC BY-NC-ND Significant metabolic improvement by a water extract of olives: animal and human evidence Nikolaos Peroulis|Vasilis P. Androutsopoulos|George Notas|Stella Koinaki|Elsa Giakoumaki|Apostolos Spyros|Efstathia Manolopoulou|Sophia Kargaki|Maria Tzardi|Eleni Moustou|Euripides G. Stephanou|Efstathia Bakogeorgou|Niki Malliaraki|Maria Niniraki|Christos Lionis|Elias Castanas|Marilena Kampa University of Crete, School of Medicine;|Cretafarms S. A.;|University of Crete, Department of Chemistry;|University Hospital of Heraklion Crete, Clinical Chemistry;|University Hospital of Heraklion Crete, Experimental Endocrinology and Clinical Immunology;|Univeristy of Crete, School of Medicine
http://dx.doi.org/10.1101/151795 2017-06-19 Neuroscience Restoring wild type-like network dynamics and behaviour during adulthood in a mouse model of schizophrenia Thomas Marissal|Rodrigo F. Salazar|Cristina Bertollini|Sophie Mutel|Mathias De Roo|Ivan Rodriguez|Dominique Muller|Alan Carleton CMU;|University of Geneva
http://dx.doi.org/10.1101/151910 2017-06-19 Evolutionary Biology Intrinsic adaptive value and early fate of gene duplication revealed by a bottom-up approach Guillermo Rodrigo|Mario Fares I2SysBio (CSIC-UV)
http://dx.doi.org/10.1101/151829 2017-06-19 Cancer Biology CC BY-ND The anticancer activity and immune modulating properties of combinatorial ensemble complementary (antisense) microRNA (fRNA) in combination with the immunomodulator - glycoproteid lectin from B. subtilis B-7025 Artur Martynov|Gennady Didenko|Boris Farber|Sophya Farber|Olena Cruts Mechnikov Institute of Microbiology and Immunology;|Kavetsky Institute of Experimental Pathology, Oncology and Radiobiology;|Noigel LLC, R & D Department
http://dx.doi.org/10.1101/151852 2017-06-19 Cell Biology CC BY-NC-ND Cross-inhibition of JNK by p38 visualized by multiplexed fluorescence imaging Haruko Miura|Michiyuki Matsuda|Kazuhiro Aoki Graduate School of Biostudies, Kyoto University;|National Institutes of Natural Sciences, National Institute for Basic Biology
http://dx.doi.org/10.1101/151761 2017-06-19 Cell Biology CC BY-ND Cargo crowding at actin-rich regions along axons causes local traffic jams in neurons Parul Sood|Kausalya Murthy|T. Vinod Kumar|Michael L. Nonet|Gautam I. Menon|Sandhya P. Koushika TATA Institute of Fundamental Research, Mumbai;|National Centre for Biological Sciences, Bengaluru;|The Institute of Mathematical Sciences, Chennai;|Washington University School of Medicine, St. Louis
http://dx.doi.org/10.1101/149484 2017-06-19 Evolutionary Biology A dead gene walking: convergent degeneration of a clade of MADS-box genes in Brassicaceae Andrea Hoffmeier|Lydia Gramzow|Amey S. Bhide|Nina Kottenhagen|Andreas Greifenstein|Olesia Schubert|Klaus Mummenhoff|Annette Becker|Guenter Theissen Department of Genetics, Friedrich-Schiller-University Jena;|Friedrich-Schiller-University Jena;|Plant Developmental Biology Group, Justus-Liebig-University Giessen;|Department of Biology/Botany, University of Osnabrueck
http://dx.doi.org/10.1101/151423 2017-06-19 Genetics Fine-mapping identifies causal variants for RA and T1D in DNASE1L3, SIRPG, MEG3, TNFAIP3 and CD28/CTLA4 loci Harm-Jan Westra|Marta Martinez Bonet|Suna Onengut|Annette Lee|Yang Luo|Nikola Teslovich|Jane Worthington|Javier Martin|Tom Huizinga|Lars Klareskog|Solbritt Rantapaa-Dahlqvist|Wei-Min Chen|Aaron Quinlan|John A. Todd|Stephen Eyre|Peter Nigrovic|Peter Gregersen|Stephen Rich|Soumya Raychaudhuri Brigham and Women's Hospital, Broad Institute, Harvard Medical School;|Brigham and Women's Hospital, Harvard Medical School;|University of Virginia;|The Feinstein Institute for Medical Research, Northwell Health;|University of Manchester;|Instituto de Parasitologiay Biomedicina Lopez-Neyra;|Leiden University Medical Centre;|Karolinska Institutet;|Umea University;|University of Utah;|University of Oxford
http://dx.doi.org/10.1101/151753 2017-06-19 Ecology CC BY-NC-ND In vitro evaluation of antagonism by Trichoderma spp. towards Phellinus noxius associated with rain tree (Samanea saman) and Senegal mahogany (Khaya senegalensis) Daniel C. Burcham|Jia Yih Wong|Nelson V. Abarrientos|Mohamed Ismail Mohamed Ali|Yok King Fong|Francis W. M. R. Schwarze National Parks Board;|Agri-Food & Veterinary Authority;|Empa Swiss Federal Laboratories for Science and Technology
http://dx.doi.org/10.1101/151738 2017-06-19 Cancer Biology CC BY-NC-ND A simple open-source method for highly multiplexed imaging of single cells in tissues and tumours Jia-Ren Lin|Benjamin Izar|Shaolin Mei|Shu Wang|Parin Shah|Peter Sorger Harvard Medical School, Laboratory of Systems Pharmacology;|Department of Medical Oncology Dana-Farber Cancer Institute;|Laboratory of Systems Pharmacology, Harvard Medical School;|Laboratory of Systems Pharmacology, Harvard Harvard Medical School
http://dx.doi.org/10.1101/151431 2017-06-19 Evolutionary Biology CC BY-ND Comparative transcriptomics reveals lineage specific evolution of cold response in Pooideae Lars Groenvold|Marian Schubert|Simen R. Sandve|Siri Fjellheim|Torgeir R. Hvidsten Norwegian University of Life Sciences
http://dx.doi.org/10.1101/151639 2017-06-19 Evolutionary Biology CC BY-NC-ND An Eigenvalue Test for spatial Principal Component Analysis Valeria Montano|Thibaut Jombart University of St. Andrews;|Imperial College London
http://dx.doi.org/10.1101/151571 2017-06-18 Physiology CC BY IFNα, a potential biomarker for stress vitiligo risk Huali Wu|Ting Wang|Minxuan Cai|Mengsi Fu|Fengfeng Ping|Ling He|Xiaohong An|Zhixiang Shi|Zhenjiang Xia|Jing Shang China Pharmaceutical University;|Southeast University;|Chinese Academy of Sciences
http://dx.doi.org/10.1101/151670 2017-06-18 Cell Biology CC BY-NC-ND Distinct roles of the polarity factors Boi1 and Boi2 in the control of exocytosis and abscission in budding yeast Aina Masgrau|Andrea Battola|Trinidad Sanmartin|Leszek P. Pryszcz|Toni Gabaldon|Manuel Mendoza Centre for Genomic Regulation (CRG);|Center for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/150391 2017-06-18 Neuroscience Embryonic Exposure to Valproic Acid Disrupts Social Predispositions in Newly-Hatched Chicks Paola Sgado|Orsola Rosa-Salva|Elisabetta Versace|Giorgio Vallortigara University of Trento, Center for Mind/Brain Sciences
http://dx.doi.org/10.1101/151530 2017-06-18 Plant Biology Photosynthesis is heavily chlororespiration-sensitive under fluctuating light conditions Wojciech Nawrocki|Felix Buchert|Pierre Joliot|Fabrice Rappaport|Benjamin Bailleul|Francis-Andre Wollman UMR7141 (CNRS/UPMC), Institut de Biologie Physico-Chimique, Paris, France
http://dx.doi.org/10.1101/151514 2017-06-18 Animal Behavior and Cognition Endogenous Oxytocin, Vasopressin and Aggression in Domestic Dogs Evan MacLean|Laurence Gesquiere|Margaret Gruen|Barbara Sherman|W. Lance Martin|C. Sue Carter University of Arizona;|Duke University;|NC State College of Veterinary Medicine;|Martin-Protean LLC;|Indiana University
http://dx.doi.org/10.1101/151563 2017-06-18 Biophysics CC BY-NC-ND Bridging the dynamics and organization of chromatin domains by mathematical modeling Soya Shinkai|Tadasu Nozaki|Kazuhiro Maeshima|Yuichi Togashi Research Center for the Mathematics on Chromatin Live Dynamics, Hiroshima University;|Structural Biology Center, National Institute of Genetics
http://dx.doi.org/10.1101/151662 2017-06-18 Neuroscience CC BY-NC-ND Fibroblast Growth Factor Signaling Instructs Ensheathing Glia Wrapping of Drosophila Olfactory Glomeruli Bing Wu|Jiefu Li|Ya-Hui Chou|David Luginbuhl|Liqun Luo Howard Hughes Medical Institute, Department of Biology, Stanford University;|Institute of Cellular and Organismal Biology, Academia Sinica, Taipei
http://dx.doi.org/10.1101/151498 2017-06-18 Neuroscience CC BY-ND Risk of vascular events or death in different manifestations of cerebral small vessel disease: a 2-year follow-up study with a control group Jacek Staszewski|Renata Piusinska-Macoch|Bogdan Brodacki|Ewa Skrobowska|Katarzyna Macek|Adam Stepien Military Institute of Medicine
http://dx.doi.org/10.1101/151688 2017-06-18 Neuroscience Language and cognitive impairment associated to a novel p.Cys63Arg change in the MED13L gene Maria Salud Jimenez-Romero|Pilar Carrasco-Salas|Antonio Benitez-Burraco University of Cordoba;|Juan Ramon Jimenez Hospital;|University of Huelva
http://dx.doi.org/10.1101/151522 2017-06-18 Animal Behavior and Cognition Validation of Salivary Oxytocin and Vasopressin as Biomarkers in Domestic Dogs Evan MacLean|Laurence Gesquiere|Nancy Gee|Kerinne Levy|W. Lance Martin|C. Sue Carter University of Arizona;|Duke University;|State University of New York, Fredonia & WALTHAM Centre for Pet Nutrition;|Canine Companions for Independence;|Martin-Protean LLC;|Indiana University
http://dx.doi.org/10.1101/151365 2017-06-18 Neuroscience CC BY-NC-ND A rational theory of the limitations of working memory and attention Ronald van den Berg|Wei Ji Ma University of Uppsala;|New York University
http://dx.doi.org/10.1101/151324 2017-06-18 Neuroscience CC BY-NC-ND Moment-to-moment fluctuations in neuronal excitability bias subjective perception rather than decision-making Luca Iemi|Niko A. Busch Berlin School of Mind and Brain;|Westfaelische Wilhelms-Universitaet Muenster
http://dx.doi.org/10.1101/151506 2017-06-18 Animal Behavior and Cognition Effects of Human-Animal Interaction on Dog Salivary and Plasma Oxytocin and Vasopressin Evan MacLean|Laurence Gesquiere|Nancy Gee|Kerinne Levy|W. Lance Martin|C. Sue Carter University of Arizona;|Duke University;|State University of New York, Fredonia & WALTHAM Centre for Pet Nutrition;|Canine Companions for Independence;|Martin-Protean LLC;|Indiana University
http://dx.doi.org/10.1101/151548 2017-06-18 Neuroscience CC BY Gaze-stabilizing central vestibular neurons project asymmetrically to extraocular motoneuron pools David Schoppik|Isaac H. Bianco|David A. Prober|Adam D. Douglass|Drew N. Robson|Jennifer M. B. Li|Joel S. F. Greenwood|Edward Soucy|Florian Engert|Alexander F. Schier NYU Langone School of Medicine;|University College London;|Caltech;|University of Utah;|Rowland Institute;|Harvard University
http://dx.doi.org/10.1101/151308 2017-06-18 Evolutionary Biology CC BY The coalescent for prokaryotes with homologous recombination from external source Tetsuya Akita|Shohei Takuno|Hideki Innan National Research Institute of Far Seas Fisheries, Japan;|SOKENDAI, Japan
http://dx.doi.org/10.1101/151654 2017-06-18 Bioengineering CC BY-NC-ND A platform for efficient transgenesis in Macrostomum lignano, a flatworm model organism for stem cell research Jakub Wudarski|Daniil Simanov|Kirill Ustyantsev|Katrien de Mulder|Margriet Grelling|Magda Grudniewska|Frank Beltman|Lisa Glazenburg|Turan Demircan|Julia Wunderer|Weihong Qi|Dita B. Vizoso|Philipp M. Weissert|Daniel Olivieri|Stijn Mouton|Victor Guryev|Aziz Aboobaker|Lukas Scharer|Peter Ladurner|Eugene Berezikov ERIBA, University of Groningen, University Medical Center Groningen, The Netherlands;|Institute of Cytology and Genetics, Novosibirsk, Russia;|Hubrecht Institute-KNAW and University Medical Centre Utrecht, The Netherlands;|Institute of Zoology, University of Innsbruck, Austria;|Functional Genomics Center Zurich, Switzerland;|Evolutionary Biology, Zoological Institute, University of Basel, Switzerland;|Department of Zoology, University of Oxford, UK
http://dx.doi.org/10.1101/151621 2017-06-18 Bioinformatics Application of High-Dimensional Statistics and Network based Visualization techniques on Arab Diabetes and Obesity data Raghvendra Mall|Reda Rawi|Ehsan Ullah|Khalid Kunji|Abdelkrim Khadir|Ali Tiss|Jehad Abubaker|Mohammed Dehbi|Halima Bensmail Qatar Computing Research Institute, Hamad Bin Khalifa University;|National Institute of Allergy and Infectious Diseases, National Institutes of Health;|Dasman Diabetes Institute, Kuwait;|Dasman Diabetes Institute, Kwait;|Qatar BioMedical Research Institute;|Qatar Computing Research Institute, Hamad BIn Khalifa University
http://dx.doi.org/10.1101/152066 2017-06-19 CC BY-NC-ND A computational model that explores the effect of environmental geometries on grid cell representations Samyukta Jayakumar|Rukhmani Narayanamurthy|Reshma Ramesh|Karthik Soman|Vignesh Muralidharan|Srinivasa Chakravarthy Rajalakshmi Engineering College;|Indian Institute of Technology Madras
http://dx.doi.org/10.1101/152140 2017-06-19 A Positive Feedback Loop Ensures Propagation of ROS Production and JNK Signaling Throughout Drosophila Tissue Regeneration Sumbul Jawed Khan|Syeda Nayab Fatima Abidi|Andrea Skinner|Yuan Tian|Rachel K. Smith-Bolton University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/151902 2017-06-19 CC BY-NC-ND APRIL and BAFF increase breast cancer cell stemness Vasiliki Pelekanou|George Notas|Paraskevi Athanasouli|Konstantinos Alexakis|Fotini Kiagiadaki|Nikolaos Peroulis|Konstantina Kalyvianaki|Errika Kampouri|Hara Polioudaki|Panayiotis Theodoropoulos|Andreas Tsapis|Elias Castanas|Marilena Kampa University of Crete, School of Medicine;|Univeristy of Crete
http://dx.doi.org/10.1101/152223 2017-06-19 CC BY Free-living human cells reconfigure their chromosomes in the evolution back to uni-cellularity Jin Xu|Xinxin Peng|Yuxin Chen|Yuezheng Zhang|Qing Ma|Liang Liang|Ava C. Carter|Xuemie Lu|Chung-I Wu Stanford;|Beijing Institute of Genomics, Chinese Academy of Sciences;|School of Life Sciences, Sun Yat-Sen University;|University of Chicago
http://dx.doi.org/10.1101/152199 2017-06-19 CC BY Silver microwires from treating tooth decay with silver diamine fluoride Jong Seto|Jeremy A. Horst|Dilworth Y. Parkinson|John C. Frachella|Joseph L. DeRisi UC San Francisco;|Advanced Light Source, Lawrence Berkeley National Laboratory;|Advantage Dental Services
http://dx.doi.org/10.1101/152058 2017-06-19 The Caenorhabditis elegans RAD-51 isoform A is required for the induction of DNA-damage-dependent apoptosis Marcello Germoglio|Adele Adamo Consiglio Nazionale delle Ricerche
http://dx.doi.org/10.1101/152124 2017-06-19 CC BY-NC-ND A single point mutation in a TssB/VipA homolog disrupts sheath formation in the type VI secretion system of Proteus mirabilis Christina C. Saak|Martha A. Zepeda-Rivera|Karine A. Gibbs Harvard University
http://dx.doi.org/10.1101/152173 2017-06-19 Biochemistry IMPDH polymers accommodate both catalytically active and inactive conformations Sajitha Anthony|Anika L. Burrell|Matthew C. Johnson|Krisna C. Duong-Ly|Kuo Yin-Ming|Peter Michener|Andrew Andrews|Justin M. Kollman|Jeffrey R. Peterson Fox Chase Cancer Center;|University of Washington;|Drexel University
http://dx.doi.org/10.1101/151977 2017-06-19 Cancer Biology CC BY-NC-ND Expanding discovery from cancer genomes by integrating protein network analyses with in vivo tumorigenesis assays Heiko Horn|Michael S. Lawrence|Candace R. Chouinard|Yashaswi Shrestha|Jessica Xin Hu|Elizabeth Worstell|Emily Shea|Nina Ilic|Eejung Kim|Atanas Kamburov|Alireza Kashani|Joshua D. Campbell|William C. Hahn|Jesse S. Boehm|Gad Getz|Kasper Lage Department of Surgery, Massachusetts General Hospital, Harvard Medical School;|Department of Pathology and MGH Cancer Center, Massachusetts General Hospital;|Broad Institute of MIT and Harvard, Cambridge, Cancer Program;|Department of Medical Oncology, Dana-Farber Cancer Institute;|Department of Medicine, Boston University School of Medicine
http://dx.doi.org/10.1101/152017 2017-06-19 Animal Behavior and Cognition CC BY-NC-ND Reflected stochastic differential equation models for constrained animal movement Ephraim Hanks|Mevin Hooten|Devin Johnson Penn State University;|U.S. Geological Survey;|National Oceanographic and Atmospheric Administration
http://dx.doi.org/10.1101/151944 2017-06-19 Evolutionary Biology Evolution of gene expression after whole-genome duplication: new insights from the spotted gar genome Jeremy Pasquier|Ingo Braasch|Peter Batzel|Cedric Cabau|Jerome Montfort|Thaovi Nguyen|Elodie Jouanno|Camille Berthelot|Christophe Klopp|Laurent Journot|John Postlethwait|Yann Guiguen|Julien Bobe INRA, UR1037 LPGP;|Michigan State University;|University of Oregon;|INRA SIGENAE;|IBENS;|INRA, SIGENAE;|MGX, CNRS;|INRA, UR1037 LPGP Fish Physiology and Genomics
http://dx.doi.org/10.1101/152025 2017-06-19 Biophysics Partitioning and Enhanced Self-Assembly of Actin in Polypeptide Coacervates Patrick M McCall|Samanvaya Srivastava|Sarah L Perry|David R Kovar|Margaret L Gardel|Matthew V Tirrell University of Chicago;|University of Chicago, Institute for Molecular Engineering; Argonne National Laboratory;|University of Chicago, Institute for Molecular Engineering;|University of Chicago, Department of Molecular Genetic and Cell Biology & Department of BMB;|U of Chicago, Department of Physics; James Franck Institute; Institute for Biophysical Dynamics
http://dx.doi.org/10.1101/151928 2017-06-19 Neuroscience CC BY YASS: Yet Another Spike Sorter JinHyung Lee|David Carlson|Hooshmand Shokri|Weichi Yao|Georges Goetz|Espen Hagen|Eleanor Batty|EJ Chichilnisky|Gaute Einevoll|Liam Paninski Columbia University;|Duke University;|Stanford University;|University of Oslo;|Norwegian University of Life Sciences
http://dx.doi.org/10.1101/152074 2017-06-19 Developmental Biology Inter-organ regulation of Drosophila intestinal stem cell proliferation by a hybrid organ boundary zone Jessica Sawyer|Erez Cohen|Donald Fox Duke University
http://dx.doi.org/10.1101/152041 2017-06-19 Cell Biology CC BY-NC Feedback inhibition of Ras activity coordinates cell fusion with cell-cell contact Laura Merlini|Bita Khalili|Omaya Dudin|Laetitia Michon|Vincent Vincenzetti|Sophie G Martin University of Lausanne;|University of Lausanne; Lehigh University
http://dx.doi.org/10.1101/151951 2017-06-19 Microbiology Zika Virus in Salivary Glands of Five Different Species of Wild-Caught Mosquitoes from Mexico Darwin Elizondo-Quiroga|Aaron Medina-Sanchez|Jorge M Sanchez-Gonzalez|Kristen Allison Eckert|Erendira Villalobos-Sanchez|Antonio Rigoberto Navarro-Zuniga|Gustavo Sanchez-Tejeda|Fabian Correa-Morales|Cassandra Gonzalez-Acosta|Armando E Elizondo-Quiroga Centro de Investigacion y Asistencia en Tecnologia y Diseno del Estado de Jalisco A.C.;|Secretaria de Salud Jalisco, Guadalajara, Jalisco, Mexico;|Independent consultant in Ajijic, Jalisco, Mexico;|Centro Nacional de Programas Preventivos y Control de Enfermedades;|-
http://dx.doi.org/10.1101/151993 2017-06-19 Neuroscience CC BY-NC Evaluating 35 Methods to Generate Structural Connectomes Using Pairwise Classification Dmitry M Petrov|Alexander Ivanov|Joshua Faskowitz|Boris Gutman|Daniel Moyer|Julio Villalon|Neda Jahanshad|Paul Thompson Imaging Genetics Center, University of Southern California, Los Angeles;|The Institute for Information Transmission Problems, Moscow;|Indiana University, Bloomington
http://dx.doi.org/10.1101/151381 2017-06-19 Neuroscience CC BY Weighted integration of short term memory and sensory signals in the oculomotor system Nicolas Deravet|Gunnar Blohm|Jean-Jacques Orban de Xivry|Philippe Lefevre Université catholique de Louvain;|Queen's University
http://dx.doi.org/10.1101/152645 2017-06-20 Cell Biology Lis1 has two opposing modes of regulating cytoplasmic dynein Morgan E. DeSantis|Michael A. Cianfrocco|Zaw M. Htet|Phuoc T. Tran|Samara L. Reck-Peterson|Andres E. Leschziner University of California, San Diego
http://dx.doi.org/10.1101/152603 2017-06-20 Cancer Biology Gelsolin regulates proliferation, apoptosis and invasion in NK/T-cell lymphoma cells through the PI3K/Akt signaling pathway Yanwei Guo|Hongqiao Zhang|Xin Xing|Lijuan Wang|Jian Zhang|Lin Yan|Xiaoke Zheng|Mingzhi Zhang The First Affiliated Hospital of Zhengzhou University;|The Fifth Affiliated Hospital of Zhengzhou University
http://dx.doi.org/10.1101/152496 2017-06-20 Synthetic Biology Engineering Cell Sensing and Responses Using a GPCR-Coupled CRISPR-Cas System P. C. Dave P. Dingal|Nathan H. Kipniss|Louai Labanieh|Yuchen Gao|Lei S. Qi Stanford University
http://dx.doi.org/10.1101/152033 2017-06-20 Cell Biology CC BY-NC-ND A urine-dependent human urothelial organoid offers a viable alternative to rodent models of infection Harry Horsley|Dhanuson Dharmasena|James Malone-Lee|Jennifer L. Rohn University College London
http://dx.doi.org/10.1101/152298 2017-06-20 Neuroscience Neural Correlates Of The Natural Observation Of An Emotionally Loaded Video Melanni Nanni|Joel Martinez-Soto|Leopoldo Gonzalez-Santos|Fernando A. Barrios Universidad Nacional Autonoma de Mexico, Queretaro, Mexico;|Universidad de Guanajuato, Mexico
http://dx.doi.org/10.1101/152330 2017-06-20 Genomics A ′phenotypic hangover′: the predictive adaptive response and multigenerational effects of altered nutrition on the transcriptome of Drosophila melanogaster Amy J Osborne|Peter K Dearden University of Otago
http://dx.doi.org/10.1101/145185 2017-06-19 Biophysics Modeling the Mechanism of CLN025 Beta-Hairpin Formation Keri A McKiernan|Brooke E Husic|Vijay S Pande Stanford University
http://dx.doi.org/10.1101/152272 2017-06-19 Biochemistry CC BY t-Darpp is an elongated monomer that binds to calcium and is phosphorylated by cyclin-dependent kinases 1 and 5 Jamil Momand|Patrycja Magdziarz|You Feng|Dianlu Jiang|Elizabeth Parga|Arianna Celis|Erin Denny|Xiaoying Wang|Martin L. Phillips|Estuardo Monterroso|Susan E. Kane|Feimeng Zhou California State University Los Angeles;|Beckman Research Institute at City of Hope;|University of California Los Angeles;|Beckman Research Institute of City of Hope
http://dx.doi.org/10.1101/152306 2017-06-19 Cancer Biology CC BY-NC-ND JQ1 reduces Epstein-Barr virus-associated lymphoproliferative disease in mice without sustained oncogene repression Amanda He|JJ L. Miranda University of California, San Francisco
http://dx.doi.org/10.1101/152348 2017-06-19 Cell Biology CC BY-NC The Drosophila Formin Fhod Nucleates Actin Filaments Aanand A Patel|Zeynep A Oztug Durer|Aaron P van Loon|Margot E Quinlan UCLA;|Acibadem University School of Medicine
http://dx.doi.org/10.1101/150490 2017-06-20 CC BY-ND Evidence for "inter- and intraspecific horizontal genetic transfers" between anciently asexual bdelloid rotifers is explained by cross-contamination Christopher G Wilson|Reuben W Nowell|Timothy G Barraclough Imperial College London
http://dx.doi.org/10.1101/152991 2017-06-20 CC BY-NC-ND Architecture and dynamics of overlapped RNA regulatory networks Christopher P Lapointe|Melanie A Preston|Daniel Wilinski|Harriet A. J. Saunders|Zachary T. Campbell|Marvin Wickens University of Wisconsin-Madison
http://dx.doi.org/10.1101/152975 2017-06-20 CC BY Opposing spatial gradients of inhibition and neural activity in mouse olfactory cortex Adam M. Large|Nathan W. Vogler|Martha B. Canto|Paul Schick|Anne-Marie M. Oswald University of Pittsburgh
http://dx.doi.org/10.1101/152520 2017-06-20 CC BY-NC-ND Proximity labeling reveals an extensive steady-state stress granule interactome and insights to neurodegeneration Sebastian Markmiller|Sahar Soltanieh|Kari Server|Raymond Mak|Wenhao Jin|Enching Luo|Florian Krach|Mark W. Kankel|Anindya Sen|Eric J. Bennett|Eric Lecuyer|Gene Yeo University of California, San Diego;|Institut de Recherches Cliniques de Montreal, Montreal, Canada;|Molecular Engineering Laboratory, A*STAR, Singapore;|Neurodegeneration and Repair, Biogen, Cambridge, Massachusetts, USA
http://dx.doi.org/10.1101/152355 2017-06-20 CC BY-NC A rapid and accurate approach for prediction of interactomes from co-elution data (PrInCE) R. Greg Stacey|Michael A. Skinnider|Nichollas E. Scott|Leonard J. Foster University of British Columbia;|The Peter Doherty Institute for Infection and Immunity
http://dx.doi.org/10.1101/152769 2017-06-20 CC BY-NC Unique genomic features and deeply-conserved functions of long non-coding RNAs in the Cancer LncRNA Census (CLC) Joana Carlevaro-Fita|Andres Arturo Lanzos Camaioni|Lars Feuerbach|Chen Hong|David Mas-Ponte|Roderic Guigo|Jakob Skou Pedersen|Rory Johnson University of Bern;|Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology;|German Cancer Research Center (DKFZ);|-;|Aarhus University Hospital
http://dx.doi.org/10.1101/152728 2017-06-20 An adder behavior in mammalian cells achieves size control by modulation of growth rate and cell cycle duration Clotilde Cadart|Sylvain Monnier|Jacopo Grilli|Rafaele Attia|Emmanuel Terriac|Buzz Baum|Marco Cosentino-Lagomarsino|Matthieu Piel Institut Curie;|University Claude Bernard Lyon;|University of Chicago;|INM-Leibniz Institute for New Materials;|University College London;|University Pierre et Marie Curie
http://dx.doi.org/10.1101/152934 2017-06-20 CC BY-NC-ND Emergent properties in complex synthetic bacterial promoters Lummy Maria Oliveira Monteiro|Leticia Magalhaes Arruda|Rafael Silva-Rocha FMRP-USP
http://dx.doi.org/10.1101/152421 2017-06-20 CC BY Fine scale mapping of genomic introgressions within the Drosophila yakuba clade David A. Turissini|Daniel R. Matute University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/152884 2017-06-20 Inferring single-trial neural population dynamics using sequential auto-encoders Chethan Pandarinath|Daniel J. O'Shea|Jasmine Collins|Rafal Jozefowicz|Sergey D. Stavisky|Jonathan C. Kao|Eric M. Trautmann|Matthew T. Kaufman|Stephen I. Ryu|Leigh R. Hochberg|Jaimie M. Henderson|Krishna V. Shenoy|Larry F. Abbott|David Sussillo Emory University & Georgia Institute of Technology;|Stanford University;|Google Brain;|University of California, Los Angeles;|Cold Spring Harbor Laboratory;|Palo Alto Medical Foundation;|Department of Veterans Affairs Medical Center;|Columbia University
http://dx.doi.org/10.1101/152942 2017-06-20 Mechanical mismatch between Ras transformed and untransformed epithelial cells. Corinne Gullekson|Gheorghe Cojoc|Mirjam Schurmann|Jochen Guck|Andrew Pelling University of Ottawa;|Technische Universitat Dresden
http://dx.doi.org/10.1101/152694 2017-06-20 The evolutionary history of Nebraska deer mice: local adaptation in the face of strong gene flow Susanne P. Pfeifer|Stefan Laurent|Vitor C. Sousa|Catherine R. Linnen|Matthieu Foll|Laurent Excoffier|Hopi E. Hoekstra|Jeffrey D. Jensen Ecole Polytechnique Federale de Lausanne, Switzerland & Arizona State University, USA;|Ecole Polytechnique Federale de Lausanne, Switzerland;|University of Berne, Switzerland & Universidade de Lisboa, Portugal;|University of Kentucky, USA;|University of Berne, Switzerland;|Harvard University, USA
http://dx.doi.org/10.1101/152553 2017-06-20 CC BY-ND Project MinE: study design and pilot analyses of a large-scale whole-genome sequencing study in amyotrophic lateral sclerosis Wouter Van Rheenen|Sara L Pulit|Annelot M Dekker|Ahmad Al Khleifat|William J Brands|Alfredo Iacoangeli|Kevin P Kenna|Ersen Kavak|Maarten Kooyman|Russell L McLaughlin|Bas Middelkoop|Matthieu Moisse|Raymond D Schellevis|Aleksey Shatunov|William Sproviero|Gijs HP Tazelaar|Rick AA Van der Spek|Perry TC Van Doormal|Kristel R Van Eijk|Joke Van Vugt|A. Nazli Basak|Jonathan D Glass|Orla Hardiman|Winston Hide|John E Landers|Jesus S Mora|Karen E Morrison|Stephen Newhouse|Wim Robberecht|Christopher E Shaw|Pamela J Shaw|Phillip Van Damme|Michael A Van Es|Ammar Al-Chalabi|Leonard H Van den Berg|Jan H Veldink -;|Department of Neurology, Brain Center Rudolf Magnus, University Medical Center Utrecht, Utrecht, NL;|Maurice Wohl Clinical Neuroscience Institute, Kings College London;|Dept of Biostatistics and Health Informatics, Kings College London, London, UK.;|Department of Neurology, University of Massachusetts Medical School, Worcester, MA, USA.;|Genomize Inc. Bogazici University, Technology Transfer Region, ETAB, Istanbul, Turkey.;|SURFsara, Amsterdam, the Netherlands.;|Population Genetics Laboratory, Smurfit Institute of Genetics, Trinity College Dublin, Ireland.;|University of Leuven, Dept of Neurosciences, Experimental Neurology, Belgium;|Neurodegeneration Research Laboratory, Bogazici University, Istanbul, Turkey.;|Department Neurology, Emory University School of Medicine, Atlanta, GA, USA.;|Academic Unit of Neurology, Trinity College Dublin, Trinity Biomedical Sciences Ins, Dublin, Ireland;|Biostatistics Department, Harvard School of Public Health, Boston, Massachusetts, USA.;|Department of Neurology, Hospital San Rafael, Madrid, Spain.;|Faculty of Medicine, University of Southampton, Southampton, UK.;|Sheffield Institute for Translational Neuroscience (SITraN), University of Sheffield, Sheffield, UK.
http://dx.doi.org/10.1101/152744 2017-06-20 CC BY Specter: linear deconvolution as a new paradigm for targeted analysis of data-independent acquisition mass spectrometry proteomics Ryan Peckner|Samuel A. Myers|Jarrett D. Egertson|Richard S. Johnson|Steven A. Carr|Michael J. MacCoss|Jacob D. Jaffe Broad Institute;|University of Washington, Seattle
http://dx.doi.org/10.1101/152488 2017-06-20 CC BY-ND Control of recollection by slow gamma dominating medium gamma in hippocampus CA1 Dino Dvorak|Basma Radwan|Fraser Todd Sparks|Zoe Nicole Talbot|Andre Antonio Fenton New York University
http://dx.doi.org/10.1101/152892 2017-06-20 RAPGEF5 regulates nuclear transport of β-catenin John Noel Griffin|Florencia del Viso|Anna R. Duncan|Andrew Robson|Saurabh Kulkarni|Karen J. Liu|Mustafa K. Khokha Yale School of Medicine;|King's College London
http://dx.doi.org/10.1101/152736 2017-06-20 Olfactory learning modulates the expression of molecular chaperones in C. elegans Felicia K. Ooi|Veena Prahlad University of Iowa
http://dx.doi.org/10.1101/152918 2017-06-20 Striatal fast-spiking interneurons drive habitual behavior Justin O'Hare|Haofang Li|Namsoo Kim|Erin Gaidis|Kristen Ade|Jeffrey Beck|Henry Yin|Nicole Calakos Duke
http://dx.doi.org/10.1101/152819 2017-06-20 Spontaneous Phase Separation of Cocultured Cell Mixtures In vitro Sebastian Vasilis Hadjiantoniou|Maxime Leblanc-Latour|Maxime Ignacio|Cory Lefevbre|Gary Slater|Andrew E. Pelling University of Ottawa
http://dx.doi.org/10.1101/152801 2017-06-20 CC BY Sex-biased transcriptomic response of the reproductive axis to stress Rebecca Calisi|Suzanne Austin|Andrew S. Lang|Matthew D. MacManes University of California, Davis;|University of New Hampshire
http://dx.doi.org/10.1101/152249 2017-06-20 Honey Bee (Apis mellifera) Exposomes and Biological Pathways Associated with Nosema ceranae Infection Robert L. Broadrup|Christopher Mayack|Sassicaia J. Schick|Elizabeth J. Eppley|Helen K. White|Anthony Macherone Haverford College;|Swarthmore College;|Agilent Technologies
http://dx.doi.org/10.1101/151811 2017-06-20 CC BY A guide to robust statistical methods in neuroscience Rand R. Wilcox|Guillaume A. Rousselet University of Southern California;|University of Glasgow
http://dx.doi.org/10.1101/152777 2017-06-20 CC BY-NC Reference Quality Assembly of the 3.5 Gb genome of Capsicum annuum from a Single Linked-Read Library Amanda M. Hulse-Kemp|Shamoni Maheshwari|Kevin Stoffel|Theresa A. Hill|David Jaffe|Stephen Williams|Neil Weisenfeld|Srividya Ramakrishnan|Vijay Kumar|Preyas Shah|Michael C. Schatz|Deanna M. Church|Allen Van Deynze USDA-ARS;|University of California, Davis;|10x Genomics, Inc.;|Johns Hopkins University
http://dx.doi.org/10.1101/152868 2017-06-20 Microbiology Viral and Bacterial Communities of Colorectal Cancer Geoffrey D. Hannigan|Melissa B. Duhaime|Mack T. Ruffin|Charlie C. Koumpouras|Patrick D. Schloss University of Michigan;|Pennsylvania State University Hershey Medical Center
http://dx.doi.org/10.1101/152686 2017-06-20 Bioinformatics CC BY-ND ORIGAMI: A Software Suite for Activated Ion Mobility Mass Spectrometry (aIM-MS) Applied To Multimeric Protein Assemblies Lukasz G. Migas|Aidan France|Bruno Bellina|Perdita Barran University of Manchester
http://dx.doi.org/10.1101/152389 2017-06-20 Neuroscience CC BY-NC-ND Combining images and anatomical knowledge to improve automated vein segmentation in MRI Phillip G. D. Ward|Nicholas J. Ferris|Parnesh Raniga|David L. Dowe|Amanda C. L. Ng|David G. Barnes|Gary F. Egan Monash University;|Monash Health;|CSIRO Health and Biosecurity;|The University of Melbourne
http://dx.doi.org/10.1101/151712 2017-06-20 Plant Biology CC BY-NC-ND Persistent homology demarcates a leaf morphospace Mao Li|Hong An|Ruthie Angelovici|Clement Bagaza|Albert Batushansky|Lynn Clark|Viktoriya Coneva|Michael Donoghue|Erika Edwards|Diego Fajardo|Hui Fang|Margaret Frank|Timothy Gallaher|Sarah Gebken|Theresa Hill|Shelley Jansky|Baljinder Kaur|Philip Klahs|Laura Klein|Vasu Kuraparthy|Jason Londo|Zoe Migicovsky|Allison Miller|Rebekah Mohn|Sean Myles|Wagner Otoni|J. Chris Pires|Edmond Riffer|Sam Schmerler|Elizabeth Spriggs|Christopher Topp|Allen Van Deynze|Kuang Zhang|Linglong Zhu|Braden M. Zink|Daniel H. Chitwood Donald Danforth Plant Science Center;|University of Missouri-Columbia;|Iowa State University;|Yale University;|Brown University;|National Center for Genome Resources;|North Carolina State University;|University of California-Davis;|USDA-Agricultural Research Service, University of Wisconsin-Madison;|Saint Louis University;|USDA-Agricultural Research Service;|Dalhousie University;|Miami University;|Universidade Federal de Vicosa;|Brown University, American Museum of Natural History;|Independent Researcher
http://dx.doi.org/10.1101/152397 2017-06-20 Plant Biology CC BY-NC-ND Allele specific expression analysis identifies regulatory variation associated with stress-related genes in the Mexican highland maize landrace Palomero Toluqueño M. Rocio Aguilar-Rangel|Ricardo A. Chavez Montes|Eric Gonzalez-Segovia|Jeffrey Ross-Ibarra|June Simpson|Ruairidh J. H. Sawers LANGEBIO-CINVESTAV;|UC Davis;|CINVESTAV
http://dx.doi.org/10.1101/152181 2017-06-20 Neuroscience CC BY-ND Large nuisance modulation has little impact on IT target match performance Noam Roth|Nicole C. Rust University of Pennsylvania
http://dx.doi.org/10.1101/152447 2017-06-20 Bioinformatics CC BY-NC Reconstructing cancer karyotypes from short read data: the half full and half empty glass Rami Eitan|Ron Shamir Tel Aviv University
http://dx.doi.org/10.1101/152538 2017-06-20 Neuroscience CC BY-NC-ND A Longitudinal Model for Functional Connectivity Using Resting-State fMRI Brian Hart|Ivor Cribben|Mark Fiecas University of Minnesota;|University of Alberta School of Business
http://dx.doi.org/10.1101/152611 2017-06-20 Genetics CC BY-NC-ND Copy Number Variation Analysis of 100 Twin Pairs Enriched for Neurodevelopmental Disorders Sofia Stamouli|Britt-Marie Anderlid|Charlotte Willfors|Bhooma Thiruvahindrapuram|John Wei|Steve Berggren|Ann Nordgren|Stephen Scherer|Paul Lichtenstein|Kristiina Tammimies|Sven Bolte Karolinska Institutet;|Centre for Applied Genomics, Hospital for Sick Children, Toronto, Canada
http://dx.doi.org/10.1101/152637 2017-06-20 Genomics CC BY Epidermal Wnt signalling regulates transcriptome heterogeneity and proliferative fate in neighbouring cells Arsham Ghahramani|Giacomo Donati|Nicholas M. Luscombe|Fiona M. Watt The Francis Crick Institute;|University of Turin;|King's College London
http://dx.doi.org/10.1101/152702 2017-06-20 Plant Biology CC BY Combining semi-automated image analysis techniques with machine learning algorithms to accelerate large scale genetic studies Jonathan A. Atkinson|Guillaume Lobet|Manuel Noll|Patrick E. Meyer|Marcus Griffiths|Darren M. Wells University of Nottingham;|Forschungszentrum Juelich/Universite catholique de Louvain;|Universite de Liege
http://dx.doi.org/10.1101/152314 2017-06-20 Animal Behavior and Cognition CC BY-NC-ND Born to be asocial: newly-hatched tortoises spontaneously avoid unfamiliar individuals Elisabetta Versace|Silvia Damini|Matteo Caffini|Gionata Stancher Center for Mind/Brain Sciences, University of Trento;|University of Padua;|University of Trento;|Rovereto Civic Museum Foundation
http://dx.doi.org/10.1101/152462 2017-06-20 Neuroscience CC BY-ND Normal CA1 place fields but discoordinated network discharge in a Fmr1-null mouse model of fragile X syndrome Fraser Todd Sparks|Zoe Nicole Talbot|Dino Dvorak|Bridget Mary Curran|Juan Marcos Alarcon|Andre Antonio Fenton New York University;|SUNY, Downstate Medical Center
http://dx.doi.org/10.1101/152512 2017-06-20 Genetics Epigenetic regulation of genome integrity by a prion-based mechanism James Samuel Byers|David M. Garcia|Dan F. Jarosz Stanford University School of Medicine
http://dx.doi.org/10.1101/151340 2017-06-20 Microbiology CC BY-NC-ND Increased ParB level affects expression of stress response, adaptation and virulence operons and potentiates repression of promoters adjacent to the high affinity binding sites parS3 and parS4 in Pseudomonas aeruginosa Adam Kawaek|Krzysztof Gabski|Aneta Agnieszka Bartosik|Anna Fogtman|Grazyna Jagura-Burdzy Institute of Biochemistry and Biophysics, Polish Academy of Sciences
http://dx.doi.org/10.1101/152405 2017-06-20 Cancer Biology Complex polymorphisms in endocytosis genes suggest alpha-cyclodextrin against metastases in breast cancer Knut M. Wittkowski|Christina Dadurian|Han Sang Kim|Ayuko Hoshino|David Lyden The Rockefeller University;|Weill Cornell Medical College
http://dx.doi.org/10.1101/152470 2017-06-20 Genetics Genetic and Environmental Influences on Pubertal Hormones in Human Hair across Development Andrew D. Grotzinger|Daniel A. Briley|Laura E. Engelhardt|Frank D. Mann|Megan W. Patterson|Jennifer L. Tackett|Elliot M. Tucker-Drob|K. Paige Harden The University of Texas at Austin;|Northwestern University
http://dx.doi.org/10.1101/152579 2017-06-20 Bioinformatics CC BY The proBAM and proBed standard formats: enabling a seamless integration of genomics and proteomics data. Gerben Menschaert|Xioajing Wang|Andrew R. Jones|Fawaz Ghali|David Fenyo|Volodimir Olexiouk|Bing Zhang|Eric W. Deutsch|Tobias Ternent|Juan Antonio Vizcaino Ghent University, Ghent, Belgium;|Baylor College of Medicine, Houston, Texas, US;|University of Liverpool, Liverpool, United Kingdom;|Manchester Metropolitan University, Manchester, United Kingdom;|New York University School of Medicine, New York, New York, USA;|Baylor College of Medicine, Houston, Texas, USA;|Institute for Systems Biology, Seattle, WA, USA;|EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge, United Kingdom
http://dx.doi.org/10.1101/151027 2017-06-20 Plant Biology CC BY-NC TET-mediated epimutagenesis of the Arabidopsis thaliana methylome Lexiang Ji|William T. Jordan|Xiuling Shi|Lulu Hu|Chuan He|Robert J. Schmitz University of Georgia;|University of Chicago
http://dx.doi.org/10.1101/152082 2017-06-20 Bioinformatics CC BY-NC Comparative analyses of venom-associated genes from an Old World viper, Daboia russelii Neeraja M. Krishnan|Binay Panda Ganit Labs, Bio-IT Centre
http://dx.doi.org/10.1101/152595 2017-06-20 Biophysics Impact of fluorescent protein fusions on the bacterial flagellar motor Minyoung Heo|Ashley L. Nord|Delphine Chamousset|Erwin van Rijn|Bertus J. E. Beaumont|Francesco Pedaci Single-molecule Biophysics Dept., Centre de Biochimie Stucturale, CNRS;|Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology
http://dx.doi.org/10.1101/152652 2017-06-20 Neuroscience CC BY-NC-ND Sex differences in gene regulation in the dorsal root ganglion after nerve injury Kimberly E. Stephens|Weiqiang Zhou|Zhicheng Ji|Shaoqiu He|Hongkai Ji|Yun Guan|Sean D. Taverna Johns Hopkins University
http://dx.doi.org/10.1101/152504 2017-06-20 Biochemistry MicroED Structures from Micrometer Thick Protein Crystals Michael Martynowycz|Calina Glynn|Jennifer Miao|M. Jason de la Cruz|Johan Hattne|Dan Shi|Duilio Cascio|Jose Rodriguez|Tamir Gonen HHMI;|UCLA
http://dx.doi.org/10.1101/152660 2017-06-20 Neuroscience CC BY-NC-ND Towards a unified theory of efficient, predictive and sparse coding Matthew Chalk|Olivier Marre|Gasper Tkacik IST Austria;|Institut de la Vision
http://dx.doi.org/10.1101/143503 2017-06-20 Bioinformatics CC BY Experimenting with reproducibility in bioinformatics Yang-Min Kim|Jean-Baptiste Poline|Guillaume Dumas Institut Pasteur;|University of California, Berkeley
http://dx.doi.org/10.1101/152207 2017-06-20 Pharmacology and Toxicology CC BY Silver fluoride as a treatment for the disease dental caries Jeremy A. Horst|Jong Seto UC San Francisco
http://dx.doi.org/10.1101/152587 2017-06-20 Biophysics CC BY Molecular insights into conformational dynamics associated with the open-closed-phosphorylated states of PITPα Chaithanya Kotyada Indian Institute of Science
http://dx.doi.org/10.1101/153106 2017-06-21 Biochemistry A high-throughput assay to identify robust inhibitors of dynamin GTPase activity Aparna Mohanakrishnan|Triet Vincent M, Tran|Meera Kumar|Hong Chen|Bruce A. Posner|Sandra L. Schmid UT Southwestern Medical Center;|Bellbrook Labs
http://dx.doi.org/10.1101/153007 2017-06-21 Neuroscience Differential roles of sleep spindles and sleep slow oscillations in memory consolidation Yina Wei|Giri P. Krishnan|Maxim Komarov|Maxim Bazhenov University of San Diego;|University of California, San Diego
http://dx.doi.org/10.1101/150847 2017-06-21 Neuroscience Developmental dynamics of cross-modality in mouse visual cortex Ryoma Hattori|Takao K Hensch Harvard University
http://dx.doi.org/10.1101/153668 2017-06-21 CC BY-NC-ND Alpha power reflects suppression of Pavlovian bias during social reinforcement learning James C. Thompson|Margaret L. Westwater George Mason University;|University of Cambridge
http://dx.doi.org/10.1101/153684 2017-06-21 CC BY-NC Representational dynamics of task context and its influence on visual object processing Martin N. Hebart|Brett B. Bankson|Assaf Harel|Chris I. Baker|Radoslaw M. Cichy National Institute of Mental Health;|Wright State University;|Free University Berlin
http://dx.doi.org/10.1101/153189 2017-06-21 CC BY-ND The Decision Decoding ToolBOX (DDTBOX) - A multivariate pattern analysis toolbox for event-related potentials Stefan Bode|Daniel Feuerriegel|Daniel Bennett|Phillip M. Alday University of Melbourne;|Princeton University;|Max Planck Institute for Psycholinguistics
http://dx.doi.org/10.1101/153130 2017-06-21 Viral apoptosis evasion via the MAPK pathway by use of a host long noncoding RNA Samantha Barichievy|Jerolen Naidoo|Mikael Boulle|Janine Scholefield|Suraj P. Parihar|Anna K. Coussens|Frank Brombacher|Alex Sigal|Musa M. Mhlanga Council for Scientific & Industrial Research, South Africa;|KwaZulu-Natal Research Institute for TB-HIV (K-RITH), South Africa;|IDM & SAMRC, University of Cape Town, South Africa
http://dx.doi.org/10.1101/153692 2017-06-21 CC BY-NC-ND Analysis of RAS as a tumor suppressor Chelsey Kenney|Edward Stites Translational Genomics Research Institute;|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/153569 2017-06-21 Dynamic balance between vesicle transport and microtubule growth enables neurite growth Arjun Singh Yadaw|Mustafa Siddiq|Vera Rabinovich|Ravi Iyengar|Jens Hansen Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/153734 2017-06-21 CC BY-NC-ND Habits are negatively regulated by HDAC3 in the dorsal striatum Melissa Malvaez|Venuz Y. Greenfield|Dina P. Matheos|Nicolas Angelillis|Michael D. Murphy|Pamela J. Kennedy|Marcelo A. Wood|Kate Wassum UCLA;|UCI
http://dx.doi.org/10.1101/153700 2017-06-21 CC BY FUCCI tracking shows that Neurog3 levels vary with cell-cycle phase in endocrine-biased pancreatic progenitors Matthew Edward Bechard|Eric D. Bankaitis|Alessandro Ustione|David Piston|Mark A. Magnuson|Christopher V. E. Wright Vanderbilt University;|University of North Carolina School of Medicine;|University of Washington in St. Louis;|Washington University;|Vanderbilt University Medical Center
http://dx.doi.org/10.1101/153726 2017-06-21 CC BY-NC-ND A computational panel of pathological RAS mutants with implications for personalized medicine and genetic medicine Chelsey Kenney|Edward Stites Translational Genomics Research Institute;|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/153742 2017-06-21 CC BY Global Efficiency of Retinal Networks shows Robustness and Degenerate States Camilo Miguel Signorelli Universidad Pompeu Fabra, Sorbonne Universites, CINV Universidad de Valparaiso
http://dx.doi.org/10.1101/153551 2017-06-21 CC BY Faster than the brain's speed of light: Retinocortical interactions differ in high frequency activity when processing darks and lights Britta U. Westner|Sarang S. Dalal University of Konstanz;|Aarhus University
http://dx.doi.org/10.1101/153254 2017-06-21 Targeted dynein inhibition generates flagellar beating Jianfeng Lin|Daniela Nicastro University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/153486 2017-06-21 CC BY-NC-ND Mapping in vivo genetic interactomics through Cpf1 crRNA array screening Ryan D. Chow|Guangchuan Wang|Adan Codina|Lupeng Ye|Sidi Chen Yale
http://dx.doi.org/10.1101/153338 2017-06-21 The experimental design and data interpretation in ‘Unexpected mutations after CRISPR Cas9 editing in vivo’ by Schaefer et al. are insufficient to support the conclusions drawn by the authors Christopher J. Wilson|Tim Fennell|Anne Bothmer|Morgan L. Maeder|Deepak Reyon|Cecilia Cotta-Ramusino|Cecilia A. Fernandez|Eugenio Marco|Luis A. Barrera|Hariharan Jayaram|Charles F. Albright|Gerald F. Cox|George M. Church|Vic E. Myer Editas Medicine;|Fulcrum Genomics;|Harvard Medical School
http://dx.doi.org/10.1101/151142 2017-06-21 Deep Residual Network Reveals a Nested Hierarchy of Distributed Cortical Representation for Visual Categorization Haiguang Wen|Junxing Shi|Wei Chen|Zhongming Liu Purdue University;|University of Minnesota Medical School
http://dx.doi.org/10.1101/153577 2017-06-21 CC BY-NC-ND Varying water deficit stress (WDS) tolerance in grain amaranths involves multifactorial shifts in WDS-related responses America Tzitziki Gonzalez-Rodriguez|Ismael Cisneros-Hernandez|Norma A. Martinez-Gallardo|Erika Mellado-Mojica|Mercedes Lopez-Perez|Enrique Ramirez-Chavez|Jorge Molina-Torres|John Paul Delano-Frier Centro de Investigación y de Estudios Avanzados del I. P. N., Unidad Irapuato;|Centro de Investigacién y de Estudios Avanzados del I. P. N., Unidad Irapuato
http://dx.doi.org/10.1101/153593 2017-06-21 Neuroscience CC BY-NC-ND Lack of evidence for sex differences in higher cognitive function in macaques Jamie R. J. Nagy|Christienne G. Damatac|Mark G. Baxter|Peter H. Rudebeck|Paula L. Croxson Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/153536 2017-06-21 Microbiology CC BY-NC-ND Metagenomic characterization of the effect of feed additives on the gut microbiome and antibiotic resistome of feedlot cattle Milton Thomas|Megan Webb|Sudeep Ghimire|Amanda Blair|Kenneth Olson|Gavin John Fenske|Alex Thomas Fonder|Jane Christopher-Hennings|Derek Brake|Joy Scaria South Dakota State University
http://dx.doi.org/10.1101/153478 2017-06-21 Biophysics CC BY-NC-ND Molecular chaperones maximize the native state yield per unit time by driving substrates out of equilibrium Shaon Chakrabarti|Changbong Hyeon|Xiang Ye|George Lorimer|D. Thirumalai Harvard;|Korea Institute for Advanced Study;|University of Pennsylvania;|University of Maryland, College Park;|University of Texas at Austin
http://dx.doi.org/10.1101/153395 2017-06-21 Biophysics A method to minimize condenser lens-induced hysteresis effects in a JEOL JEM-3200FSC microscope to enable stable cryoEM low-dose operations M. Jason de la Cruz|Michael Martynowycz|Johan Hattne|Dan Shi|Tamir Gonen HHMI
http://dx.doi.org/10.1101/152983 2017-06-21 Genomics De novo draft assembly of the Botrylloides leachii genome provides further insight into tunicate evolution. Simon Blanchoud|Kim Rutherford|Lisa Zondag|Neil Gemmell|Megan J. Wilson University of Otago
http://dx.doi.org/10.1101/153494 2017-06-21 Evolutionary Biology CC BY TreeTime: maximum likelihood phylodynamic analysis Pavel Sagulenko|Vadim Puller|Richard Neher Max Planck Institute for Developmental Biology;|Biozentrum, University of Basel
http://dx.doi.org/10.1101/153510 2017-06-21 Cancer Biology CC BY-NC-ND LPP3 mediates self-generation of chemotactic LPA gradients by melanoma cells Olivia Susanto|Yvette Koh|Nick Morrice|Sergey Tumanov|Peter Thomason|Matt Neilson|Luke Tweedy|Andrew Muinonen-Martin|Jurre Kamphorst|Gillian Mackay|Robert H. Insall Beatson Institute;|Sciex;|York Teaching Hospital;|Beatson Institute for Cancer Research
http://dx.doi.org/10.1101/153361 2017-06-21 Developmental Biology WDR5 stabilizes actin architecture to promote multiciliated cell formation Saurabh S. Kulkarni|John N. Griffin|Karel F. Liem|Mustafa K. Khokha Yale University School of Medicine
http://dx.doi.org/10.1101/153445 2017-06-21 Developmental Biology CC BY Natural variation in stochastic photoreceptor specification and color preference in Drosophila Caitlin Anderson|India Reiss|Cyrus Zhou|Annie Cho|Haziq Siddiqi|Benjamin Mormann|Cameron M. Avelis|Alan Bergland|Elijah Roberts|James Taylor|Daniel Vasiliauskas|Robert J Johnston Johns Hopkins University, United States;|New York University, United States;|University of Virginia, United States;|Institut Jacques Monod, United States
http://dx.doi.org/10.1101/152850 2017-06-21 Biochemistry A conserved homo-dimerization interface in human IFIT1 provides insights into IFIT interactome assembly Yazan M. Abbas|Saul Martinez-Montero|Regina Cencic|Jerry Pelletier|Peter D. Pawelek|Masad J. Damha|Bhushan Nagar McGill University;|Concordia University
http://dx.doi.org/10.1101/153197 2017-06-21 Genetics A set of Columbia-0-specific single nucleotide polymorphism markers for the genetic analysis of natural variation in Arabidopsis thaliana Ulrich Lutz|Claus Schwechheimer Plant Systems Biology Technical University Munich
http://dx.doi.org/10.1101/153049 2017-06-21 Bioinformatics CC BY-NC-ND A Bayesian approach to multivariate and multilevel modelling with non-random missingness for hierarchical clinical proteomics data Irene Suilan Zeng|Thomas Lumley|Kathy Ruggiero|Martin Middleditch University of Auckland
http://dx.doi.org/10.1101/152157 2017-06-21 Bioinformatics CC BY Epigenome-Based Drug Repositioning in Acute Myeloid Leukemia Adam S. Brown|Chirag J. Patel Harvard Medical School
http://dx.doi.org/10.1101/153056 2017-06-21 Neuroscience Predator-secreted sulfolipids induce fear-like defense responses in C. elegans Zheng Liu|Maro J. Kariya|Christopher D. Chute|Amy K. Pribadi|Sarah G. Leinwand|Ada Tong|Kevin P. Curran|Neelanjan Bose|Frank C. Schroeder|Jagan Srinivasan|Sreekanth Chalasani The Salk Institute for Biological Studies;|Cornell University;|Worcester Polytechnic Institute;|University of California, San Diego
http://dx.doi.org/10.1101/153353 2017-06-21 Biochemistry CC BY-ND Second-generation method for analysis of chromatin binding using formaldehyde crosslinking kinetics Hussain Zaidi|Elizabeth A. Hoffman|Savera J. Shetty|Stefan Bekiranov|David T. Auble University of Virginia;|University of Virginia Health System
http://dx.doi.org/10.1101/153387 2017-06-21 Neuroscience CC BY-NC-ND Characterising the short-term habituation of event-related evoked potentials Flavia Mancini|Alessia Pepe|Giulia Di Stefano|Andre Mouraux|Gian Domenico Iannetti University of Cambridge;|University of Rome ‘La Sapienza’;|Université catholique de Louvain;|University College London
http://dx.doi.org/10.1101/153304 2017-06-21 Cell Biology The Centrosome Controls the Number and Spatial Distribution of Microtubules by Negatively Regulating Alternative MTOCs Maria P. Gavilan|Pablo Gandolfo|Fernando R. Balestra|Francisco Arias|Michel Bornens|Rosa M. Rios Cell Dynamics and Signaling Department, CABIMER-CSIC/US/UPO, 41092-Seville, Spain;|UMR144 CNRS-Institut Curie, Paris Cedex 05, France
http://dx.doi.org/10.1101/153247 2017-06-21 Neuroscience CC BY Exclusive functional subnetworks of intracortical projection neurons in primary visual cortex Mean-Hwan Kim|Petr Znamenskiy|Maria Florencia Iacaruso|Thomas D. Mrsic-Flogel Biozentrum, University of Basel;|University of Basel;|University of Oxford
http://dx.doi.org/10.1101/153098 2017-06-21 Biochemistry CC BY Live-cell mapping of organelle-associated RNAs via proximity biotinylation combined with protein-RNA crosslinking Pornchai Kaewsapsak|David Michael Shechner|William Mallard|John L. Rinn|Alice Y. Ting Massachusetts Institute of Technology;|Harvard University;|Stanford University
http://dx.doi.org/10.1101/153023 2017-06-21 Bioengineering CC BY-ND Construction and Operation of an Affordable Laboratory Photobioreactor System for Simultaneous Cultivation of up to 12 Independent 1 L Cyanobacterial Cultures Ryan L. Clark|Laura L. McGinley|Daniel F. Quevedo|Thatcher W. Root|Brian F. Pfleger University of Wisconsin - Madison;|University of Michigan
http://dx.doi.org/10.1101/153080 2017-06-21 Systems Biology CC BY-NC-ND Determining controllability of sepsis using genetic algorithms on a proxy agent-based model of systemic inflammation Chase Cockrell|Gary An University of Chicago
http://dx.doi.org/10.1101/153148 2017-06-21 Genomics CC BY-ND Transcriptome analysis of the quantitative distribution of the Cyrtotrachelus buqueti population in two cities in China Chaobing Luo|Anxuan Liu|Wencong Long|Hong Liao|Yaojun Yang Bamboo Diseases & Pests Control and Resources Develop. Key Lab. of Sichuan Prov., Lesh
http://dx.doi.org/10.1101/153122 2017-06-21 Neuroscience Targeting neuronal activity-regulated neuroligin-3 dependency for high-grade glioma therapy Humsa S. Venkatesh|Lydia T. Tam|Pamelyn J. Woo|Surya Nagaraja|Shawn M. Gillespe|James Lennon|Jing Ni|Damien Y. Duveau|Patrick J. Morris|Jean J. Zhao|Craig J. Thomas|Michelle Monje Stanford University;|DFCI;|NIH
http://dx.doi.org/10.1101/152678 2017-06-21 Physiology Identification of uterine pacemaker regions at the myometrial-placental interface E. Josiah Lutton|Wim J. E. P. Lammers|Sean James|Hugo A. van den Berg|Andrew M. Blanks University of Warwick;|Auckland University;|University Hospital Coventry and Warwickshire
http://dx.doi.org/10.1101/153072 2017-06-21 Plant Biology CC BY Deriving C4 photosynthesis parameters by fitting intensive A/Ci curves Haoran Zhou|Erol Akcay|Brent Helliker University of Pennsylvania
http://dx.doi.org/10.1101/153205 2017-06-21 Biochemistry CC BY-ND Slowing ageing using drug synergy in C. elegans Tesfahun Dessale|Krishna Chaithanya Batchu|Diogo Barardo|Li Fang Ng|Vanessa Yuk Man Lam|Markus R. Wenk|Nicholas S. Tolwinski|Jan Gruber Dept. of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore;|Science Divisions, Yale-NUS College, Singapore;|Science Divisions, Yale-NUS College, Singapore and Dept. of Biochemistry, YLL SOM, NUS;|Yale-NUS, Science Divison and Dept. of Biological Sciences, National University of Singapore
http://dx.doi.org/10.1101/153320 2017-06-21 Neuroscience CC BY-NC-ND Low dimensional morphospace of topological motifs in human fMRI brain networks Sarah E. Morgan|Sophie Achard|Maite Termenon|Edward T. Bullmore|Petra E. Vertes University of Cambridge;|GIPSA-lab
http://dx.doi.org/10.1101/153379 2017-06-21 Neuroscience CC BY-NC-ND Hippocampal Spike-Timing Correlations Lead to Hexagonal Grid Fields Mauro M. Monsalve-Mercado|Christian Leibold Ludwig-Maximilians-Universitaet Muenchen
http://dx.doi.org/10.1101/152785 2017-06-21 Microbiology VipA N-terminal linker and VipB-VipB interaction modulate the contraction of Type VI secretion system sheath Maximilian Brackmann|Jing Wang|Marek Basler University of Basel
http://dx.doi.org/10.1101/153288 2017-06-21 Plant Biology Cyclic electron flow in Chlamydomonas reinhardtii Wojciech Nawrocki|Benjamin Bailleul|Pierre Cardol|Fabrice Rappaport|Francis-Andre Wollman|Pierre Joliot UMR7141 (CNRS/UPMC), Institut de Biologie Physico-Chimique, Paris, France;|Lab. de Genetique et Physiologie des Microalgues, Institut de Botanique, Universite de Liege
http://dx.doi.org/10.1101/153213 2017-06-21 Genomics CC BY-NC-ND An integrative strategy to identify the entire protein coding potential of prokaryotic genomes by proteogenomics Ulrich Omasits|Adithi R. Varadarajan|Michael Schmid|Sandra Goetze|Damianos Melidis|Marc Bourqui|Olga Nikolayeva|Maxime Quebatte|Andrea Patrignani|Christoph Dehio|Juerg E. Frey|Mark D. Robinson|Bernd Wollscheid|Christian H. Ahrens Agroscope & SIB Swiss Institute of Bioinformatics;|ETH Zurich;|University of Zurich & SIB Swiss Institute of Bioinformatics;|University of Basel;|Functional Genomics Center Zurich;|Agroscope
http://dx.doi.org/10.1101/153619 2017-06-22 Bioinformatics Mapping-free variant calling using haplotype reconstruction from k-mer frequencies Peter Audano|Shashidhar Ravishankar|Fredrik Vannberg Georgia Institute of Technology
http://dx.doi.org/10.1101/153437 2017-06-22 Evolutionary Biology Evolutionary proteomics uncovers ciliary signaling components Monika Abedin Sigg|Tabea Menchen|Jeffery Johnson|Chanjae Lee|Semil P. Choksi|Galo Garcia|Henriette Busengdal|Gerard Dougherty|Petra Pennekamp|Claudius Werner|Fabian Rentzsch|Nevan Krogan|John B. Wallingford|Heymut Omran|Jeremy F. Reiter University of California, San Francisco;|University of Muenster;|Gladstone Institute of Cardiovascular Disease & Gladstone Institute of Virology and Immunol.;|University of Texas at Austin;|Sars International Centre for Marine Molecular Biology;|Gladstone Institute; University of California, San Francisco
http://dx.doi.org/10.1101/153601 2017-06-22 Evolutionary Biology CC BY-NC-ND Bridging multilocus species delimitation and DNA barcoding through target enrichment of UCEs: A case study with Mexican highland frogs Eugenia Zarza|Elizabeth M. Connors|James M. Maley|Whitney L. E. Tsai|Peter Heimes|Moises Kaplan|John E. McCormack Occidental College;|N/A
http://dx.doi.org/10.1101/153650 2017-06-22 Neuroscience CC BY-NC Quantifying the importance of guessing, decision noise, and variable precision in explaining behavioral variability in visual perception Shan Shen|Wei Ji Ma Baylor College of Medicine;|New York University
http://dx.doi.org/10.1101/154054 2017-06-22 Cell Biology Ectopic activation of the Spindle Assembly Checkpoint reveals its biochemical design and physiological operation Chu Chen|Ian P. Whitney|Anand Banerjee|Palak Sekhri|David Kern|Adrienne Fontan|John J. Tyson|Iain M. Cheeseman|Ajit P. Joglekar Biophysics, University of Michigan;|Whitehead Institute for Biomedical Research, and Department of Biology, MIT;|Department of Biological Sciences, Virginia Polytechnic Institute & State University;|Comprehensive Cancer Center, Ohio State University;|University of Michigan;|Cell & Developmental Biology, University of Michigan Medical School
http://dx.doi.org/10.1101/153676 2017-06-22 Neuroscience CC BY Dual learning mechanisms drive adaptive inhibitory control Kyle Dunovan|Timothy Verstynen Carnegie Mellon University, United States
http://dx.doi.org/10.1101/153957 2017-06-22 Evolutionary Biology 150 million years of sustained increase in pterosaur flight efficiency Chris Venditti|Joanna Baker|Michael J. Benton|Andrew Meade|Stuart Humphries University of Reading;|University of Bristol;|University of Lincoln
http://dx.doi.org/10.1101/153270 2017-06-22 Genomics CC BY The grayling genome reveals selection on gene expression regulation after whole genome duplication Srinidhi Varadharajan|Simen R. Sandve|Ole K. Trresen|Sigbjrn Lien|Leif Asbjrn Vollestad|Sissel Jentoft|Alexander J. Nederbragt|Kjetill S. Jakobsen Department of Biosciences, University of Oslo;|Norwegian University of Life Sciences
http://dx.doi.org/10.1101/153411 2017-06-22 Neuroscience CC BY-NC-ND Resting-State fMRI Dynamics and Null Models: Perspectives, Sampling Variability, and Simulations Robyn L. Miller|Tulay Adali|Yuri Levin-Schwartz|Vince D. Calhoun The Mind Research Network;|University of Maryland Baltimore County
http://dx.doi.org/10.1101/153783 2017-06-22 Bioinformatics CC BY-ND CD-HIT-OTU-MiSeq, an Improved Approach for Clustering and Analyzing Paired End MiSeq 16S rRNA Sequences Weizhong Li|Yuanyuan Chang J Craig Venter Institute
http://dx.doi.org/10.1101/154039 2017-06-22 Genetics Fitness effects of cis-regulatory variants in the Saccharomyces cerevisiae TDH3 promoter Fabien Duveau|William Toubiana|Patricia J. Wittkopp University of Michigan;|Institut de Genomique Fonctionnelle de Lyon, ENS de Lyon
http://dx.doi.org/10.1101/153833 2017-06-22 Genetics CC BY-NC-ND Variants at the ADAMTS13, BGALT5, SSBP2 and TKT Loci are associated with Post-term birth. William Schierding|Jisha Antony|Ville Karhunen|Marja Vaarasmaki|Steve Franks|Paul Elliot|Eero Kajantie|Sylvian Sebert|Alex Blakemore|Julia A. Horsfield|Marjo-Ritta Jarvelin|Justin O'Sullivan|Wayne S. Cutfield University of Auckland;|University of Otago;|University of Oulu;|Imperial College London;|The University of Auckland
http://dx.doi.org/10.1101/154047 2017-06-22 Evolutionary Biology CC BY-NC-ND Microevolutionary processes underlying macroevolutionary patterns of electric signal diversity in mormyrid fish Jason R. Gallant|Joshua Sperling|Catherine Cheng|Matthew E. Arnegard|Bruce Carlson|Carl Hopkins Michigan State University;|Cornell University;|Fred Hutchinson Cancer Research Center;|Washington University in St. Louis
http://dx.doi.org/10.1101/153874 2017-06-22 Genomics Genome reconstruction and characterisation of extensively drug-resistant bacterial pathogens through direct metagenomic sequencing of human faeces Andre Mu|Jason C. Kwong|Nicole S. Isles|Anders Goncalves da Silva|Mark B. Schultz|Susan A. Ballard|Glen P. Carter|Deborah A. Williamson|Torsten Seemann|Timothy P. Stinear|Benjamin P. Howden University of Melbourne
http://dx.doi.org/10.1101/153460 2017-06-22 Systems Biology Direct in vivo mapping of functional suppressors in glioblastoma genome Ryan Chow|Christopher Guzman|Guangchuan Wang|Florian Schmidt|Mark Youngblood|Lupeng Ye|Youssef Errami|Matthew Dong|Michael Martinez|Sensen Zhang|Paul Renauer|Kaya Bilguvar|Murat Gunel|Phillip Sharp|Feng Zhang|Randall Platt|Sidi Chen Yale University;|ETH Zurich;|MIT
http://dx.doi.org/10.1101/153825 2017-06-22 Cancer Biology Genomic variations in paired normal controls for lung adenocarcinomas Li-Wei Qu|Bo Zhou|Gui-Zhen Wang|Ying Chen|Guang-Biao Zhou Institute of Zoology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/153940 2017-06-22 Bioinformatics CC BY-NC zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs Swati Parekh|Christoph Ziegenhain|Beate Vieth|Wolfgang Enard|Ines Hellmann Ludwig-Maximilians-University Munich
http://dx.doi.org/10.1101/153809 2017-06-22 Cancer Biology Distinct gut microbiome patterns associate with consensus molecular subtypes of colorectal cancer Rachel Violet Purcell|Martina Visnovska|Patrick J. Biggs|Sebastian Schmeier|Frank A. Frizelle University of Otago;|Massey University
http://dx.doi.org/10.1101/150862 2017-06-22 Genomics CC BY-NC-ND MIP-MAP: High-Throughput Mapping of Caenorhabditis elegans Temperature Sensitive Mutants via Molecular Inversion Probes Calvin Mok|Vinci Au|Owen Thompson|Mark Edgley|Louis Gevirtzman|John Yochem|Joshua Lowry|Nadin Memar|Matthew Wallenfang|Dominique Rasoloson|Bruce Bowerman|Ralf Schnabel|Geraldine Seydoux|Donald G. Moerman|Robert H. Waterston University of Washington;|University of British Columbia;|University of Oregon;|Ludwig-Maximilians-Universitat Munchen;|Johns Hopkins University School of Medicine;|TU Braunschweig
http://dx.doi.org/10.1101/153817 2017-06-22 Biochemistry Low-complexity domains adhere by reversible amyloid-like interactions between kinked β-sheets Michael P. Hughes|Michael R. Sawaya|Lukasz Goldschmidt|Jose A. Rodriguez|Duilio Cascio|Tamir Gonen|David S. Eisenberg UCLA;|HHMI;|HHMI, UCLA
http://dx.doi.org/10.1101/153643 2017-06-22 Systems Biology Pooled AAV-CRISPR Screen with Targeted Amplicon Sequencing Guangchuan Wang|Ryan Chow|Lupeng Ye|Christopher Guzman|Xiaoyun Dai|Matthew Dong|Feng Zhang|Phillip Sharp|Randall Platt|Sidi Chen Yale University;|MIT;|ETH Zurich
http://dx.doi.org/10.1101/153932 2017-06-22 Cell Biology PARP inhibition causes premature loss of cohesion in cancer cells Eva Kukolj|Tanja Kaufmann|Amalie E. Dick|Robert Zeillinger|Daniel W. Gerlich|Dea Slade University of Vienna;|Institute of Molecular Biotechnology of the Austrian Academy of Sciences;|Medical University of Vienna
http://dx.doi.org/10.1101/153585 2017-06-22 Neuroscience CC BY Analysis of hippocampal transcriptomic responses to technical and biological perturbations Rayna M. Harris|Hsin-Yi Kao|Juan Marcos Alarcon|Hans A. Hofmann|Andre Fenton The University of Texas at Austin; Marine Biological Laboratory;|New York University; Marine Biological Laboratory;|SUNY Downstate Medical Center, Brooklyn; Marine Biological Laboratory;|New York University; SUNY Downstate Medical Center; Marine Biological Lab
http://dx.doi.org/10.1101/153759 2017-06-22 Neuroscience CC BY Neural Networks for Efficient Bayesian Decoding of Natural Images from Retinal Neurons Nikhil Parthasarathy|Eleanor Batty|William Falcon|Thomas Rutten|Mohit Rajpal|E.J. Chichilnisky|Liam Paninski Stanford University;|Columbia University
http://dx.doi.org/10.1101/153635 2017-06-21 Systems Biology CC BY-NC-ND A quantitative systems pharmacology analysis of KRAS G12C covalent inhibitors Edward C. Stites|Andrey S. Shaw Salk Institute for Biological Studies;|Genentech
http://dx.doi.org/10.1101/153767 2017-06-21 Neuroscience CC BY-NC-ND Preferential targeting of lateral entorhinal inputs onto newly integrated granule cells Nicolas I Woods|Christopher E Vaaga|Christina Chatzi|Jaimie D Adelson|Matthew F Collie|Julia V Perederiy|Kenneth R Tovar|Gary L Westbrook University of California San Francisco;|Oregon Health and Science University
http://dx.doi.org/10.1101/151720 2017-06-21 Cell Biology A novel mathematical method for disclosing oscillations in gene transcription: a comparative study Athanasios C. Antoulas|Bokai Zhu|Qiang Zhang|Brian York|Bert W. O'Malley|Clifford Dacso Rice University;|Baylor College of Medicine
http://dx.doi.org/10.1101/154096 2017-06-22 Transcriptome-wide analysis of roles for tRNA modifications in translational regulation Hsin-Jung Chou|Elisa Donnar|H. Tobias Gustafsson|Manuel Garber|Oliver Rando University of Massachusetts Medical School
http://dx.doi.org/10.1101/154179 2017-06-22 CC BY Coral Symbiodinium community composition across the Belize Mesoamerican Barrier Reef System is driven by host species and environmental variability Justin Baumann|Sarah W. Davies|Hannah E. Aichelman|Karl D. Castillo UNC Chapel Hill;|Boston University;|Old Dominion University
http://dx.doi.org/10.1101/153015 2017-06-22 CC BY-NC-ND Online, Interactive Tutorials Provide Effective Instruction in Science Process Skills Maxwell Kramer|Dalay Olson|J.D. Walker University of Minnesota
http://dx.doi.org/10.1101/153858 2017-06-22 Bioinformatics Positional effects revealed in Illumina Methylation Array and the impact on analysis Chuan Jiao|Chunling Zhang|Rujia Dai|Yan Xia|Kangli Wang|Gina Giase|Chao Chen|Chunyu Liu Central South University;|University of Chicago;|University of Illinois at Chicago
http://dx.doi.org/10.1101/151985 2017-06-22 Bioinformatics CC BY Correction of copy number induced false positives in CRISPR screens Antoine de Weck|Javad Golji|Michael D. Jones|Joshua M. Korn|Eric Billy|E. Robert McDonald|Tobias Schmelzle|Hans Bitter|Audrey Kauffmann Novartis Institute for BioMedical Research
http://dx.doi.org/10.1101/153973 2017-06-22 Animal Behavior and Cognition Scaffolding imagination: A role for medial frontal cortex in the expression of off-task thought Mladen Sormaz|Hao-Ting Wang|Theodoros Karapanagiotidis|Charlotte Murphy|Mark Hymers|Daniel Margulies|Elizabeth Jefferies|Jonathan Smallwood University of York;|Max Plack Institute Leipzig
http://dx.doi.org/10.1101/154005 2017-06-22 Microbiology CC BY-NC-ND c-di-GMP-linked phenotypes are modulated by the interaction between a diguanylate cyclase and a polar hub protein Gianlucca Goncalves Nicastro|Gilberto Hideo Kaihami|Andre Arashiro Pulschen|Jacobo Hernandez-Montelongo|Ana Laura Boechat|Thays de Oliveira Pereira|Eliezer Stefanello|Pio Colepicolo|Christophe Bordi|Regina Baldini Universidade de Sao Paulo;|Unicamp;|French National Centre for Scientific Research
http://dx.doi.org/10.1101/153999 2017-06-22 Biophysics CC BY Fractional Field Theory Approach to Protein Folding Dynamics Hosein Nasrolahpour Tarbiat Modares University
http://dx.doi.org/10.1101/154021 2017-06-22 Microbiology CC BY-NC-ND Bacteria facilitate viral co-infection of mammalian cells and promote genetic recombination Andrea K. Erickson|Palmy R. Jesudhasan|Melinda J. Mayer|Arjan Narbad|Sebastian E. Winter|Julie K. Pfeiffer University of Texas Southwestern Medical Center;|Quadram Institute Bioscience
http://dx.doi.org/10.1101/153916 2017-06-22 Evolutionary Biology CC BY UFBoot2: Improving the Ultrafast Bootstrap Approximation Diep Thi Hoang|Olga Chernomor|Arndt von Haeseler|Bui Quang Minh|Vinh Sy Le University of Engineering and Technology, Vietnam National University, Hanoi, Vietnam;|Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories, University of Vienna;|Center for Integrative Bioinformatics Vienna
http://dx.doi.org/10.1101/153981 2017-06-22 Systems Biology CC BY-NC-ND Drug treatment efficiency depends on the initial state of activation in nonlinear pathways Victoria Lucia Doldan-Martelli|David Miguez Gomez Universidad Autonoma da Madrid
http://dx.doi.org/10.1101/154468 2017-06-23 CC BY Multivariate Heteroscedasticity Models for Functional Brain Connectivity Christof Seiler|Susan Holmes Stanford University
http://dx.doi.org/10.1101/154559 2017-06-23 CC BY-ND Coupling of replisome movement with nucleosome dynamics can contribute to the parent-daughter information transfer Tripti Bameta|Dibyendu Das|Ranjith Padinhateeri UM-DAE Center for Excellence in Basic Sciences, University of Mumbai;|Dept. of Physics, Indian Institute of Technology, Bombay, Powai, Mumbai-400 076, India;|Dept. of Biosciences & Bioengineering, Indian Institute of Technology Bombay, Powai, Mumbai
http://dx.doi.org/10.1101/154385 2017-06-23 CC BY Distinct representations of planned reach trajectories in human premotor and posterior parietal cortex Art Pilacinski|Axel Lindner Hertie Institute for Clinical Brain Research
http://dx.doi.org/10.1101/153965 2017-06-23 Rapid whole genome amplification and sequencing of low cell numbers in a bacteraemia model Catherine Anscombe|Raju Misra|Saheer Gharbia Oxford University Clinical Research Unit;|Public Health England
http://dx.doi.org/10.1101/154435 2017-06-23 CC BY-NC-ND Spatiotemporal relationships defining the adaptive gating of the bacterial mechanosensitive channel MscS Ugur Cetiner|Sergei Sukharev University of Maryland, College Park
http://dx.doi.org/10.1101/153924 2017-06-23 CC BY-NC-ND Diffusion MRI of white matter microstructure development in childhood and adolescence: Methods, challenges and progress Christian K. Tamnes|David R. Roalf|Anne-Lise Goddings|Catherine Lebel University of Oslo;|University of Pennsylvania;|University College London;|University of Calgary
http://dx.doi.org/10.1101/151456 2017-06-23 CC BY-NC The decline of malaria in Vietnam, 1991-2014 Sandra M. Goldlust|Phung Duc Thuan|Dang Duy Hoang Giang|Ngo Duc Thang|Guy E. Thwaites|Jeremy Farrar|Ngo Viet Thanh|Tran Dang Nguyen|Bryan T. Grenfell|Maciej F. Boni|Tran Tinh Hien Georgetown University;|Oxford University Clinical Research Unit;|National Institutes for Malariology, Parasitology, and Entomology;|Oxford University Clinical Research Unit; University of Oxford;|Oxford University Clinical Research Unit; The Wellcome Trust;|Princeton University;|Oxford University Clinical Research Unit; University of Oxford; Pennsylvania State University
http://dx.doi.org/10.1101/154427 2017-06-23 Head-on replication-transcription collisions lead to formation of life threatening R-loops Kevin S. Lang|Ashley N. Hall|Christopher N. Merrikh|Mark Ragheb|Houra Merrikh University of Washington
http://dx.doi.org/10.1101/152280 2017-06-23 Epidemiology CC BY-NC International risk of yellow fever spread from the ongoing outbreak in Brazil Ilaria Dorigatti|Arran Hamlet|Ricardo Aguas|Lorenzo Cattarino|Anne Cori|Christl A. Donnelly|Tini Garske|Natsuko Imai|Neil M. Ferguson Imperial College London;|University of Oxford
http://dx.doi.org/10.1101/151068 2017-06-23 Epidemiology Trade-off between intra- and interannual scales in the evolution of aggressiveness in a local plant pathogen population Frederic Suffert|Henriette Goyeau|Ivan Sache|Florence Carpentier|Sandrine Gelisse|David Morais|Ghislain Delestre INRA;|AgroParisTech
http://dx.doi.org/10.1101/125005 2017-06-23 Bioengineering CC BY-NC A correlation analysis framework for localization-based super-resolution microscopy Joerg Schnitzbauer|Yina Wang|Matthew Bakalar|Baohui Chen|Tulip Nuwal|Shijie Zhao|Bo Huang University of California, San Francisco;|University of California, Berkeley;|Peking University
http://dx.doi.org/10.1101/154674 2017-06-23 Biochemistry Computational Investigation of O2 Diffusion Through an Intra-molecular Tunnel in AlkB; Influence of Polarization on O2 Transport Hedieh Torabifard|G. Andres Cisneros Department of Chemistry, Wayne State University;|University of North Texas
http://dx.doi.org/10.1101/154351 2017-06-23 Biochemistry The structural basis for regulation of the nucleo-cytoplasmic distribution of Bag6 by TRC35 Jee-Young Mock|Yue Xu|Yihong Ye|William Clemons Caltech;|NIH
http://dx.doi.org/10.1101/154419 2017-06-23 Molecular Biology Histone demethylation and c-MYC activation enhance translational capacity in response to amino acid restriction Chen Cheng|Trent Su|Marco Morselli|Siavash Kurdistani Department of Biological Chemistry, David Geffen School of Medicine, UCLA;|Department of Molecular, Cell and Developmental Biology, UCLA
http://dx.doi.org/10.1101/154500 2017-06-23 Developmental Biology wingless is a positive regulator of eyespot color patterns in Bicyclus anynana butterflies Nesibe Ozsu|Qian Yi Chan|Bin Chen|Mainak Das Gupta|Antonia Monteiro National University of Singapore;|Chongqing Normal University
http://dx.doi.org/10.1101/154344 2017-06-23 Cancer Biology CC BY-NC-ND Homeodomain interacting protein kinase promotes tumorigenesis and metastatic cell behavior Jessica A. Blaquiere|Kenneth Kin Lam Wong|Stephen D. Kinsey|Jin Wu|Esther M. Verheyen Simon Fraser University
http://dx.doi.org/10.1101/153718 2017-06-23 Scientific Communication and Education Structural brain development: a review of methodological approaches and best practices Nandita Vijayakumar|Kathryn L. Mills|Aaron Alexander-Bloch|Christian K. Tamnes|Sarah Whittle Department of Psychology, University of Oregon;|Department of Psychiatry, Yale University School of Medicine;|Department of Psychology, University of Oslo;|Melbourne Neuropsychiatry Centre, Department of Psychiatry, The University of Melbourne
http://dx.doi.org/10.1101/154211 2017-06-23 Bioinformatics CC BY-NC-ND EMHP: An accurate automated hole masking algorithm for single-particle cryo-EM image processing Zachary Berndsen|Charles Bowman|Haerin Jang|Andrew B. Ward The Scripps Research Institute
http://dx.doi.org/10.1101/154294 2017-06-23 Genomics Natural selection shaped the rise and fall of passenger pigeon genomic diversity Gemma G. R. Murray|Andre E. R. Soares|Ben J. Novak|Nathan K. Schaefer|James A. Cahill|Allan J. Baker|John R. Demboski|Andrew Doll|Rute R. Da Fonseca|Tara L. Fulton|M. Thomas P. Gilbert|Peter D. Heintzman|Brandon Letts|George McInstosh|Brendan L. O'Connell|Mark Peck|Marie-Lorraine Pipes|Edward S. Rice|Kathryn M. Santos|A. Gregory Sohrweide|Samuel H. Vohr|Russell B. Corbett-Detig|Richard E. Green|Beth Shapiro Department of Ecology and Evolutionary Biology, University of Santa Cruz;|Department of Ecology and Evolutionary Biology, University of California Santa Cruz;|Department of Biomolecular Engineering, University of California Santa Cruz;|Department of Natural History, Royal Ontario Museum;|Department of Zoology, Denver Museum of Nature and Science;|Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen;|Environment and Climate Change Canada;|Tromsø University Museum, UiT - The Arctic University of Norway;|Department of Biology, The Pennsylvania State University;|Collections Department, Rochester Museum & Science Center;|Department of Zoology, Denver Museum of Nature & Science;|Zooarchaeologist Consultant, Victor, NY;|Collections Department, Rochester Museum & Science Center, Rochester;|DDS, Baldwinsville, NY
http://dx.doi.org/10.1101/154310 2017-06-23 Developmental Biology CC BY-NC The chromatin factor Gon4l regulates embryonic axis extension by promoting mediolateral cell polarity and notochord boundary formation through negative regulation of cell adhesion Margot L. K. Williams|Atsushi Sawada|Terin Budine|Chunyue Yin|Paul Gontarz|Lilianna Solnica-Krezel Washington University School of Medicine;|Cincinnati Children's Hospital
http://dx.doi.org/10.1101/154104 2017-06-23 Plant Biology Elevated ozone reduces photosynthetic carbon gain by accelerating leaf senescence of inbred and hybrid maize in a genotype-specific manner Craig R. Yendrek|Gorka Erice|Christopher M. Montes|Tiago Tomaz|Crystal A. Sorgini|Patrick J. Brown|Lauren M. McIntyre|Andrew D. B. Leakey|Elizabeth A. Ainsworth University of Illinois at Urbana Champaign;|University of Florida;|USDA ARS
http://dx.doi.org/10.1101/154153 2017-06-23 Evolutionary Biology CC BY RNA interference pathways display high rates of adaptive protein evolution across multiple invertebrates William H. Palmer|Jarrod Hadfield|Darren J. Obbard University of Edinburgh
http://dx.doi.org/10.1101/154286 2017-06-23 Biochemistry A model-free method for measuring dimerization free energies of CLC-ec1 in lipid bilayers Rahul Chadda|Lucy Cliff|Marley Brimberry|Janice L. Robertson The University of Iowa;|The University of Iowa & The University of Bath
http://dx.doi.org/10.1101/154203 2017-06-23 Physiology CC BY-NC Fluid administration rate for uncontrolled intraabdominal hemorrhage in pigs Ujwal R. Yanala|Jason M. Johanning|Iraklis I. Pipinos|Robin R. High|Gustavo Larsen|William H. Velander|Mark Carlson University of Nebraska Medical Center;|University of Nebraska Lincoln
http://dx.doi.org/10.1101/154229 2017-06-23 Evolutionary Biology CC BY-NC-ND Recruitment of CRISPR-Cas systems by Tn7-like transposons Joseph E. Peters|Kira S. Makarova|Sergey Shmakov|Eugene V. Koonin Department of Microbiology, Cornell University;|National Center for Biotechnology Information, NIH
http://dx.doi.org/10.1101/154278 2017-06-23 Ecology CC BY-NC-ND Soil community assembly varies across body sizes in a tropical forest Lucie Zinger|Pierre Taberlet|Heidy Schimann|Aurelie Bonin|Frederic Boyer|Marta De Barba|Philippe Gaucher|Ludovic Gielly|Charline Giguet-Covex|Amaia Iribar|Maxime Rejou-Mechain|Gilles Raye|Delphine Rioux|Vincent Schilling|Blaise Tymen|Jerome Viers|Cyril Zouiten|Wilfried Thuiller|Eric Coissac|Jerome Chave Ecole Normale Superieure de Paris;|CNRS;|INRA;|Universite Grenoble Alpes;|CIRAD;|Universite Toulouse III Paul Sabatier
http://dx.doi.org/10.1101/154120 2017-06-23 Genomics CC BY-NC-ND Genetic context and proliferation determine contrasting patterns of copy number amplification and loss for 5S and 45S ribosomal DNA arrays in cancer Meng Wang|Bernardo Lemos Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/154138 2017-06-23 Neuroscience Functional selectivity for face processing in the temporal voice area of early deaf individuals Stefania Benetti|Markus J. van Ackeren|Giuseppe Rabini|Joshua Zonca|Valentina Foa|Francesca Baruffaldi|Mohamed Rezk|Francesco Pavani|Bruno Rossion|Olivier Collignon CIMeC, University of Trento;|Ente Nazionale Sordi, Trento;|CIMeC, University of Trento; Institute of Neuroscience, University of Louvain;|CIMeC, University of Trento; IMPACT, Centre de Recerche en Neuroscience de Lyon;|Institute of Research in Psychology, University of Louvain;|Institute of Neuroscience, University of Louvain; CIMeC, University of Trento
http://dx.doi.org/10.1101/154070 2017-06-23 Biophysics CC BY-NC-ND Quantum Calculations Of A Large Section Of The Voltage Sensing Domain Of The Kv1.2 Channel Show That Proton Transfer, Not S4 Motion, Provides The Gating Current Alisher M. Kariev|Michael E. Green CCNY
http://dx.doi.org/10.1101/154245 2017-06-23 Ecology CC BY-NC-ND Red wood-ant nests are traps for fault-related CH4 micro-seepage Gabriele Berberich|Aaron Ellison|J. Hartmann|Martin Berberich|A. Grumpe|A. Becker|Christian Wohler Technical University of Dortmund;|Harvard University;|Universität Heidelberg;|IT-Consulting Berberich
http://dx.doi.org/10.1101/153528 2017-06-23 Bioinformatics CC BY Twelve Elements of Visualization and Analysis for Tertiary and Quaternary Structure of Biological Molecules Philippe Youkharibache National Institutes of Health
http://dx.doi.org/10.1101/153791 2017-06-23 Genetics Genome-wide analysis reveals distinct genetic mechanisms of diet-dependent lifespan and healthspan in D. melanogaster Kenneth A. Wilson|Christopher S. Nelson|Jennifer N. Beck|Rachel B. Brem|Pankaj Kapahi Buck Institute for Research on Aging
http://dx.doi.org/10.1101/154088 2017-06-23 Genetics CC BY A genetic investigation of sex bias in the prevalence of attention deficit hyperactivity disorder Joanna Martin|Raymond K. Walters|Ditte Demontis|Manuel Mattheisen|S. Hong Lee|Elise Robinson|Isabell Brikell|Laura Ghirardi|Henrik Larsson|Paul Lichtenstein|Nicholas Eriksson|Thomas Werge|Preben Bo Mortensen|Marianne Girtz Pedersen|Ole Mors|Merete Nordentoft|David M. Hougaard|Jonas Bybjerg-Grauholm|Naomi Wray|Barbara Franke|Stephen V. Faraone|Michael C. O'Donovan|Anita Thapar|Anders D. Brglum|Benjamin M. Neale Cardiff University/Karolinska Institutet/Broad Institute;|Massachusetts General Hospital/Broad Institute;|iPSYCH/Aarhus University;|iPSYCH/Aarhus University/Karolinska Institutet;|The University of Queensland/University of New England;|Karolinska Institutet;|Karolinska Institutet/Orebro University;|23andMe, Inc.;|-;|iPSYCH/Mental Health Services Copenhagen/University of Copenhagen;|iPSYCH/Aarhus University Hospital;|iPSYCH/University of Copenhagen;|iPSYCH/Statens Serum Institut;|The University of Queensland;|Donders Institute for Brain, Cognition and Behaviour, Radboud University Medical Center;|SUNY Upstate Medical University/University of Bergen;|Cardiff University
http://dx.doi.org/10.1101/145664 2017-06-23 Cell Biology Endocytosis caused by liquid-liquid phase separation of proteins Louis-Philippe Bergeron-Sandoval|Hossein Khadivi Heris|Adam G. Hendricks|Allen J. Ehrlicher|Paul Francois|Rohit V. Pappu|Stephen W. Michnick Universite de Montreal;|McGill University, Montreal;|Washington University, St. Louis
http://dx.doi.org/10.1101/154161 2017-06-23 Bioengineering A Deep Learning Approach to Estimate Collagenous Tissue Nonlinear Anisotropic Stress-Strain Responses from Microscopy Images Liang Liang|Minliang Liu|Wei Sun Georgia Institute of Technology
http://dx.doi.org/10.1101/154195 2017-06-23 Zoology CC BY-NC-ND Genetic evidences for the impact of anthropogenic factors on honey bee diversity Mert Kukrer|Meral Kence|Aykut Kence Middle East Technical University
http://dx.doi.org/10.1101/154237 2017-06-23 Immunology Intestinal epithelial and intraepithelial T cell crosstalk mediates a dynamic response to infection David P Hoytema van Konijnenburg|Bernardo Sgarbi Reis|Virginia Pedicord|Julia Farache|Gabriel D Victora|Daniel Mucida The Rockefeller University;|University of California San Francisco
http://dx.doi.org/10.1101/154112 2017-06-23 Biochemistry Structure and misfolding of the flexible tripartite coiled coil domain of glaucoma-associated myocilin Shannon E. Hill|Elaine Nguyen|Rebecca K. Donegan|Anthony Hazel|James C. Gumbart|Raquel L. Lieberman Georgia Institute of Technology
http://dx.doi.org/10.1101/152264 2017-06-22 Bioinformatics CC BY Informatics for Cancer Immunotherapy Jeff Hammerbacher|Alexandra Snyder Charen Hammer Lab;|Memorial Sloan Kettering Cancer Center; Weill Cornell Medical College
http://dx.doi.org/10.1101/154690 2017-06-23 Discriminative aversive learning and amygdala responsivity is enhanced in mice with reduced serotonin transporter activity Joao Lima|Trevor Sharp|Amy M Taylor|David M Bannerman|Stephen B Mchugh University of Oxford
http://dx.doi.org/10.1101/154997 2017-06-23 CC BY-NC-ND Neurodegeneration-associated mutant TREM2 proteins abortively cycle between the ER and ER-Golgi intermediate compartment Daniel W. Sirkis|Renan E. Aparicio|Randy Schekman University of California, Berkeley
http://dx.doi.org/10.1101/154765 2017-06-23 CC BY Hippo signaling restricts cells in the second heart field that differentiate into Islet-1-positive atrial cardiomyocytes Hajime Fukui|Takahiro Miyazaki|Hiroyuki Ishikawa|Hiroyuki Nakajima|Naoki Mochizuki National Cerebral and Cardiovascular Center Research Institute;|National Cerebral and Cardiovascular Center Research Instiitute
http://dx.doi.org/10.1101/154922 2017-06-23 CC BY-NC-ND Olfactory and vomeronasal innervation of the olfactory bulbs are not essential for GnRH-1 neuronal migration to the brain. Ed Zandro M. Taroc|Aparna Prasad|Jennifer M. Lin|Paolo Forni University at Albany
http://dx.doi.org/10.1101/154864 2017-06-23 CC BY-NC-ND Dopamine neuron dependent behaviors mediated by glutamate cotransmission Susana Mingote|Nao Chuhma|Abigail Kalmbach|Gretchen M. Thomsen|Yvonne Wang|Andra Mihali|Caroline Sferrazza|Ilana Zucker-Scharff|Anna-Claire Siena|Martha G. Welch|Jose Lizardi-Ortiz|David Sulzer|Holly Moore|Inna Gaisler-Salomon|Stephen Rayport Columbia University;|University of Haifa
http://dx.doi.org/10.1101/154823 2017-06-23 CC BY-NC-ND Tolloid cleavage activates latent GDF8 by priming the pro-complex for dissociation Viet Q. Le|Roxana E. Iacob|Yuan Tian|William McConaughy|Yang Su|Bo Zhao|John R. Engen|Michelle Pirruccello-Straub|Timothy A. Springer Boston Children's Hospital and Harvard Medical School;|Northeastern University;|Scholar Rock
http://dx.doi.org/10.1101/154732 2017-06-23 CC BY Bottled aqua incognita: Microbiota assembly and dissolved organic matter diversity in natural mineral waters Celine C. Lesaulnier|Craig W. Herbold|Claus Pelikan|David Berry|Cedric Gerard|Xavier Le Coz|Sophie Gagnot|Jutta Niggemann|Thorsten Dittmar|Gabriel A. Singer|Alexander Loy University of Vienna;|Nestec Ltd.;|University of Oldenburg;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries
http://dx.doi.org/10.1101/152439 2017-06-23 CC BY-NC-ND In silico identification of non-coding RNAs in Halobacterium salinarum NRC-1 model archeon organism Marcos A. S. Fonseca|Ricardo Z. N. Vencio University of São Paulo
http://dx.doi.org/10.1101/154914 2017-06-23 CC BY Corticocortical signaling drives activity in a downstream area rapidly and scalably Xiaojian Li|Naoki Yamawaki|John Martin Barrett|Konrad P. Kording|Gordon M. G. Shepherd Northwestern University
http://dx.doi.org/10.1101/153403 2017-06-23 CC BY Structure of the human pro-myostatin precursor and determinants of growth factor latency Thomas R. Cotton|Gerhard Fischer|Xuelu Wang|Jason C. McCoy|Madgalena Czepnik|Thomas B. Thompson|Marko Hyvonen University of Cambridge;|University of Cincinnati
http://dx.doi.org/10.1101/154880 2017-06-23 Dual functions of Discoidin domain receptor coordinate cell-matrix adhesion and collective polarity in migratory cardiopharyngeal progenitors Yelena Y. Bernadskaya|Saahil Brahmbhatt|Stephanie E. Gline|Wei Wang|Lionel Christiaen New York University
http://dx.doi.org/10.1101/154682 2017-06-23 Ludicrous Speed Linear Mixed Models for Genome-Wide Association Studies Carl M. Kadie|David Heckerman Microsoft Research;|Human Longevity, Inc.
http://dx.doi.org/10.1101/154948 2017-06-23 CC BY Distinct Solubility and Cytotoxicity Regimes of Paclitaxel-Loaded Cationic Liposomes at Low and High Drug Content Revealed by Kinetic Phase Behavior and Cancer Cell Viability Studies Victoria M. Steffes|Meena M. Murali|Yoonsang Park|Bretton J. Fletcher|Kai Ewert|Cyrus R. Safinya University of California at Santa Barbara
http://dx.doi.org/10.1101/154807 2017-06-23 Reflective imaging improves resolution, speed, and collection efficiency in light sheet microscopy Yicong Wu|Abhishek Kumar|Corey Smith|Evan Ardiel|Panagiotis Chandris|Ryan Christensen|Ivan Rey-Suarez|Min Guo|Harshad Vishwasrao|Jiji Chen|Jianyong Tang|Arpita Upadhyaya|Patrick La Riviere|Hari Shroff Section on High Res. Optical Imaging, Natl Inst. of Biomed. Imaging and Bioengineering, NIH;|Dept. of Radiology, University of Chicago, Chicago, IL, USA;|Biophysics Program, University of Maryland, College Park, MD, USA;|Advanced Imaging and Microscopy Resource, National Institutes of Health, Bethesda, MD;|J. T. Scientific Consulting, LLC, North Potomac, MD, USA
http://dx.doi.org/10.1101/154815 2017-06-23 CC BY Analysis of Copy Number Loss of the ErbB4 Receptor Tyrosine Kinase in Glioblastoma DeAnalisa Chanel Jones|Adriana Scanteianu|Matthew DiStefano|Mehdi Bouhaddou|Marc R. Birtwistle Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/154799 2017-06-23 The Molecular Genetic Basis of Herbivory between Butterflies and their Host-Plants Sumitha Nallu|Jason Hill|Kristine Don|Carlos Sahagun|Wei Zhang|Camille Meslin|Emilie Snell-Rood|Nathan L. Clark|Nathan I. Morehouse|Joy Bergelson|Christopher W. Wheat|Marcus R. Kronforst University of Chicago;|Stockholm University;|University of Pittsburgh;|University of Minnesota;|University of Cincinnati
http://dx.doi.org/10.1101/154856 2017-06-23 CC BY-NC-ND mRNA processing in mutant zebrafish lines generated by chemical and CRISPR-mediated mutagenesis produces potentially functional transcripts Jennifer L. Anderson|Timothy S. Mulligan|Meng-Chieh Shen|Hui Wang|Catherine M. Scahill|Shao J. Du|Elisabeth M. Busch-Nentwich|Steven A. Farber Carnegie Institution for Science, Department of Embryology;|College of Animal Science and Technology, Shandong Agricultural University;|Wellcome Trust Sanger Institute;|University of Maryland School of Medicine, Dept. of Biochemistry and Molecular Biology
http://dx.doi.org/10.1101/154724 2017-06-23 Draft genome of the Reindeer (Rangifer tarandus) Zhipeng Li|Zeshan Lin|Lei Chen|Hengxing Ba|Yongzhi Yang|Kun Wang|Wen Wang|Qiang Qiu|Guangyu Li Institute of Special Animal and Plant Sciences, Chinese Academy of Agricultural Sciences;|Center for Ecological and Environmental Sciences, Northwestern Polytechnical University
http://dx.doi.org/10.1101/154831 2017-06-23 Spectrin is a mechanoresponsive protein shaping the architecture of intercellular invasion Rui Duan|Ji Hoon Kim|Khurts Shilagardi|Eric Schiffhauer|Sungmin Son|Donghoon Lee|Shuo Li|Claire Thomas|Tianzhi Luo|Daniel A. Fletcher|Douglas N. Robinson|Elizabeth H. Chen Johns Hopkins University School of Medicine;|University of California at Berkeley;|UT Southwestern Medical Center;|Penn State University;|University of Science and Technology of China
http://dx.doi.org/10.1101/154641 2017-06-23 CC BY-ND Patterns of conservation and diversification in the fungal polarization network Eveline T Diepeveen|Valerie Pourquie|Thies Gehrmann|Thomas Abeel|Liedewij Laan Delft University of Technology
http://dx.doi.org/10.1101/154450 2017-06-23 CC BY-NC-ND Response to Editas: Unexpected mutations after CRISPR-Cas9 editing in vivo Kellie A. Schaefer|Wen-Hsuan Wu|Diana F. Colgan|Stephen H. Tsang|Alexander G. Bassuk|Vinit B. Mahajan Stanford University;|Columbia University;|University of Iowa
http://dx.doi.org/10.1101/154872 2017-06-23 CC BY-NC-ND Rhodosporidium toruloides: A new platform organism for conversion of lignocellulose into terpene biofuels and bioproducts Junko Yaegashi|James Kirby|Masakazu Ito|Jian Sun|Tanmoy Dutta|Mona Mirsiaghi|Eric Sundstrom|Alberto Rodriguez|Edward Baidoo|Deepti Tanjore|Todd Pray|Kenneth Sale|Seema Singh|Jay Keasling|Blake Simmons|Steven Singer|Jon Magnuson|Adam Arkin|Jeffrey Skerker|John Gladden Joint BioEnergy Institute;|Energy Bioscience Institute;|Lawrence Berkeley National Laboratory;|Sandia National Laboratory;|Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/153262 2017-06-23 Biochemistry Type III CRISPR-Cas systems generate cyclic oligoadenylate second messengers to activate Csm6 RNases Ole Niewoehner|Carmela Garcia-Doval|Jakob T. Rostol|Christian Berk|Frank Schwede|Laurent Bigler|Jonathan Hall|Luciano Marraffini|Martin Jinek University of Zurich;|The Rockefeller University;|ETH Zurich;|BIOLOG Life Science Institute GmbH
http://dx.doi.org/10.1101/154757 2017-06-23 Bioinformatics Prediction of peptide binding to MHC Class I proteins in the age of deep learning Rohit Bhattacharya|Collin Tokheim|Ashok Sivakumar|Violeta Beleva Guthrie|Valsamo Anagnostou|Victor E. Velculescu|Rachel Karchin Johns Hopkins University;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/154708 2017-06-23 Neuroscience A convergent depression vulnerability pathway encoded by emergent spatiotemporal dynamics Rainbo Hultman|Kyle Ulrich|Benjamin Sachs|Cameron Blount|David Carlson|Nkemdilim Ndubuizu|Rosemary Bagot|Eric Parise|Mai-Anh Vu|Joyce Wang|Alcino Silva|Karl Deisseroth|Stephen Mague|Marc Caron|Eric Nestler|Lawrence Carin|Kafui Dzirasa Duke University;|Villanova;|McGill;|Mt. Sinai;|Duke;|MIT;|UCLA;|Stanford
http://dx.doi.org/10.1101/153163 2017-06-23 Plant Biology CC BY-NC-ND ATP sensing in living plant cells reveals tissue gradients and stress dynamics of energy physiology Valentina De Col|Philippe Fuchs|Thomas Nietzel|Marlene Elsaesser|Chia Pao Voon|Alessia Candeo|Ingo Seeliger|Mark Fricker|Christopher Grefen|Ian Max Moller|Andrea Bassi|Boon Leong Lim|Marco Zancani|Andreas Meyer|Alex Costa|Stephan Wagner|Markus Schwarzlaender University of Udine;|University of Bonn;|University of Hong Kong;|Politecnico di Milano;|University of Oxford;|University of Tuebingen;|Aarhus University;|Universita degli Studi di Milano
http://dx.doi.org/10.1101/154666 2017-06-23 Cell Biology CC BY-NC-ND TRIM9-dependent ubiquitination of DCC constrains kinase signaling, exocytosis, and axon branching Melissa Plooster|Shalini Menon|Cortney C. Winkle|Fabio L. Urbina|Caroline Monkiewicz|Kristen D. Phend|Richard J. Weinberg|Stephanie L. Gupton University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/154518 2017-06-23 Developmental Biology Insm1a regulates motor neuron development in zebrafish Jie Gong|Xin Wang|Chenwen Zhu|Xiaohua Dong|Qinxin Zhang|Xiaoning Wang|Xuchu Duan|Fuping Qian|Yu Gao|Qingshun Zhao|Renjie Chai|Dong Liu Nantong University;|Nanjing University;|Southeast University
http://dx.doi.org/10.1101/154534 2017-06-23 Evolutionary Biology CC BY Aerobiosis Decreases the Genomic GC content in Prokaryotes by Guanine Oxidation Sidra Aslam|Xin-Ran Lan|Deng-Ke Niu Beijing Normal University
http://dx.doi.org/10.1101/154401 2017-06-23 Systems Biology CC BY-NC-ND Predicting single-cell transcription dynamics even when the central limit theorem fails Brian Munsky|Guoliang Li|Zachary Fox|Douglas P. Shepherd|Gregor Neuert Colorado State University;|Vanderbilt University;|University of Colorado Denver
http://dx.doi.org/10.1101/154526 2017-06-23 Ecology Mammal extinctions and the increasing isolation of humans on the tree of life Sandrine Pavoine|Michael Bonsall|Jonathan Davies|Shelly Masi National Museum of Natural History, Paris;|University of Oxford;|McGill University, Montreal
http://dx.doi.org/10.1101/154393 2017-06-23 Molecular Biology Interplay between mitochondria and diet mediates pathogen and stress resistance in C. elegans Alexey Revtovich|Ryan Lee|Natalia Kirienko Rice University
http://dx.doi.org/10.1101/154542 2017-06-23 Evolutionary Biology Boosting Felsenstein Phylogenetic Bootstrap Frederic Lemoine|Jean-Baka Domelevo Entfellner|Eduan Wilkinson|Tulio De Oliveira|Olivier Gascuel Institut Pasteur;|University of Western Cape;|University of Durban;|CNRS & Institut Pasteur
http://dx.doi.org/10.1101/154492 2017-06-23 Genomics CC BY-NC-ND Genome-wide population diversity in Hymenoscyphus fraxineus points to an eastern Russian origin of European Ash dieback. Jrn Henrik Snsteb|Adam Vivian-Smith|Kalev Adamson|Rein Drenkhan|Halvor Solheim|Ari Hietala Norwegian Institute of Bioeconomy Research;|Institute of Forestry and Rural Engineering (IFRE), Estonian University of Life Sciences
http://dx.doi.org/10.1101/154609 2017-06-23 Genetics CC BY-NC-ND Data Resource Profile: Generation Scotland Electronic Health Record Shona M Kerr|Archie Campbell|Jonathan Marten|Veronique Vitart|Andrew M McIntosh|David J Porteous|Caroline Hayward MRC Human Genetics Unit, University of Edinburgh;|University of Edinburgh;|University if Edinburgh
http://dx.doi.org/10.1101/154658 2017-06-23 Bioinformatics CC BY-NC-ND Vasomotor Symptoms Monitoring with a Commercial Activity Tracking Watch Darrell O. Ricke MIT Lincoln Laboratory
http://dx.doi.org/10.1101/153775 2017-06-23 Epidemiology CC BY-NC-ND A National Estimate of the Health and Cost Burden of Escherichia coli Bacteraemia in the Hospital Setting: The Importance of Antibiotic Resistance. Nichola R Naylor|Koen B Pouwels|Russell Hope|Nathan Green|Katherine L Henderson|Gwenan M Knight|Rifat Atun|Julie V Robotham|Sarah Deeny Imperial College London;|Public Health England;|Harvard University;|The Health Foundation
http://dx.doi.org/10.1101/152926 2017-06-23 Epidemiology CC BY-NC-ND Mitochondrial genome of Plasmodium vivax/simium detected in an endemic region for malaria in the Atlantic Forest of Espirito Santo state, Brazil: do mosquitoes, simians and humans harbor the same parasite? Julyana Cerqueira Buery|Priscila Thihara Rodrigues|Licia Natal|Lais Camoese Salla|Ana Carolina Loss|Creuza Rachel Vicente|Helder Ricas Rezende|Ana Maria Ribeiro de Castro Duarte|Blima Fux|Rosely dos Santos Malafronte|Aloisio Falqueto|Crispim Cerutti Junior Unidade de Medicina Tropical, Universidade Federal do Espirito Santo;|Departamento de Parasitologia, Universidade de Sao Paulo;|Instituto de Medicina Tropical de Sao Paulo, Universidade de Sao Paulo;|Laboratorio de Mastozoologia e Biogeografia, Universidade Federal do Espirito Santo;|Nucleo de Entomologia e Malacologia, Secretaria de Estado de Saude do Espirito Santo;|Superintendencia de Controle de Endemias, Secretaria de Estado de Saude de Sao Paulo
http://dx.doi.org/10.1101/154443 2017-06-23 Developmental Biology CC BY Sonic hedgehog is required for neural crest-dependent patterning of the intrinsic tongue musculature Shigeru Okuhara|Anahid Ahmadi Birjandi|Hadeel Adel Al-Lami|Tomoko Sagai|Takanori Amano|Toshihiko Shiroishi|Karen J. Liu|Martyn Cobourne|Sachiko Iseki Graduate School of Tokyo Medical and Dental University;|King's College London Dental Institute;|King's College London;|National Institute of Genetics
http://dx.doi.org/10.1101/154567 2017-06-23 Animal Behavior and Cognition CC BY Welfare of zebra finches used in research Homare Yamahachi|Anja T. Zai|Ryosuke O. Tachibana|Anna E. Stepien|Diana I. Rodrigues|Sophie Cave-Lopez|Gagan Narula|Juneseung Lee|Ziqiang Huang|Heiko Horster|Daniel During|Richard H. R. Hahnloser Institute of Neuroinformatics, University of Zurich and ETH Zurich, 8057 Zurich, Switzerland
http://dx.doi.org/10.1101/154377 2017-06-23 Evolutionary Biology Estimates of Introgression as a Function of Pairwise Distances Bastian Pfeifer|Durrell D. Kapan Institute for Computer Science, Heinrich Heine University, Duesseldorf, Germany;|Institute for Biodiversity & Sustainability Science, California Acad. of Sciences, San Francisco
http://dx.doi.org/10.1101/154716 2017-06-24 CC BY-NC-ND Computational approaches for discovery of mutational signatures in cancer Adrian Baez-Ortega|Kevin Gori University of Cambridge
http://dx.doi.org/10.1101/154989 2017-06-24 A dementia-associated risk variant near TMEM106B alters chromatin architecture and gene expression Michael Gallagher|Marijan Posavi|Peng Huang|Travis Unger|Yosef Berlyand|Analise Gruenewald|Alessandra Chesi|Elisabetta Manduchi|Andrew Wells|Struan Grant|Gerd Blobel|Christopher Brown|Alice Chen-Plotkin University of Pennsylvania
http://dx.doi.org/10.1101/155192 2017-06-24 CC BY-NC-ND Whole genome sequencing-based detection of antimicrobial resistance and virulence in non-typhoidal Salmonella enterica isolated from wildlife Milton Thomas|Gavin John Fenske|Sudeep Ghimire|Ronald Welsh|Akhilesh Ramachandran|Joy Scaria South Dakota State University;|Oklahoma State University
http://dx.doi.org/10.1101/155168 2017-06-24 CC BY-NC-ND An improved experimental model of cystic hydatid disease in liver resembling natural infection route with stable growing dynamics and immune reaction Ruiqing Zhang|Xinhua Chen|Hao Wen Xinjiang Medical University;|Zhejiang University
http://dx.doi.org/10.1101/155069 2017-06-24 CC BY-NC-ND Xolik: finding cross-linked peptides with maximum paired scores in linear time Jiaan Dai|Wei Jiang|Fengchao Yu|Weichuan Yu Dept. of Electronic & Computer Engineering, Hong Kong University of Science & Technology
http://dx.doi.org/10.1101/155119 2017-06-24 High-quality genome assemblies uncover caste-specific long non-coding RNAs in ants Emily J. Shields|Roberto Bonasio University of Pennsylvania
http://dx.doi.org/10.1101/154963 2017-06-24 A new genus of horse from Pleistocene North America Peter D Heintzman|Grant D Zazula|Ross DE MacPhee|Eric Scott|James A Cahill|Brianna K McHorse|Joshua D Kapp|Mathias Stiller|Matthew J Wooller|Ludovic Orlando|John R Southon|Duane G Froese|Beth Shapiro Tromso University Museum, UiT - The Arctic University of Norway;|Yukon Palaeontology Program, Government of Yukon;|Department of Mammalogy, Division of Vertebrate Zoology, American Museum of Natural History;|Dr. John D. Cooper Archaeological and Palaeontological Center, California State University Fullerton;|Department of Ecology and Evolutionary Biology, University of California Santa Cruz;|Department of Organismal and Evolutionary Biology, Harvard University;|Dept. of Translational Skin Cancer Research, German Consortium for Translational Cancer Research;|College of Fisheries and Ocean Sciences, University of Alaska Fairbanks;|Centre for GeoGenetics, Natural History Museum of Denmark;|Keck-CCAMS Group, Earth System Science Department, University of California Irvine;|Department of Earth and Atmospheric Sciences, University of Alberta
http://dx.doi.org/10.1101/154013 2017-06-24 CC BY-NC-ND The Genetic Epidemiology of Developmental Dysplasia of the Hip: A Genome-Wide Association Study Harnessing National Clinical Audit Data Konstantinos Hatzikotoulas|Andreas Roposch|Karan Shah|Matthew Clark|Selina Bratherton|Vasanti Limbani|Julia Steinberg|Eleni Zengini|Kaltuun Warsame|Madhushika Ratnayake|Maria Tselepi|Jeremy Schwartzentruber|John Loughlin|Deborah Eastwood|Eleftheria Zeggini|Jeremy Mark Wilkinson Wellcome Trust Sanger Institute;|University College London;|University of Sheffield;|Royal National Orthopaedic Hospital;|Newcastle University
http://dx.doi.org/10.1101/155085 2017-06-24 CC BY-NC-ND Spatiotemporal organization of whole-body muscle activity during upright reaching movements in various directions: modularity or not modularity? Pauline M. Hilt|Ioannis Delis|Thierry Pozzo|Bastien Berret Italian Institute of Technology;|Columbia University;|Universite de Bourgogne-Franche-Comte;|Univ. Paris-Sud, Universite Paris-Saclay
http://dx.doi.org/10.1101/155184 2017-06-24 CC BY-NC-ND Natural Genetic Variation Shapes Root System Responses to Phytohormones in Arabidopsis Daniela Ristova|Kristina Metesch|Wolfgang Busch Gregor Mendel Institute (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC);|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/155226 2017-06-24 A cerebellar mechanism for learning prior distributions of time intervals Devika Narain|Mehrdad Jazayeri Massachusetts Institute of Technology
http://dx.doi.org/10.1101/155077 2017-06-24 CC BY-NC-ND Input-specific NMDAR-dependent potentiation of dendritic GABAergic inhibition Chiayu Q. Chiu|James S. Martenson|Maya Yamazaki|Rie Natsume|Kenji Sakimura|Susumu Tomita|Steven J. Tavalin|Michael J. Higley Universidad de Valparaiso;|Yale School of Medicine;|Niigata University;|Yale School of Medicince;|University of Tennessee Health Science Center
http://dx.doi.org/10.1101/155234 2017-06-24 CC BY-NC-ND Parallel evolution of two clades of a major Atlantic endemic Vibrio parahaemolyticus pathogen lineage by independent acquisition of related pathogenicity islands Feng Xu|Narjol Gonzalez-Escalona|Kevin P. Drees|Robert P. Sebra|Vaughn S. Cooper|Stephen H. Jones|Cheryl A. Whistler University of New Hampshire;|Center for Food Safety and Applied Nutrition, Food and Drug Administration, College Park;|Icahn Institute; Dept. of Genetics & Genomic Sciences, Icahn School of Medicine at Mt. Sinai;|Microbiology and Molecular Genetics, University of Pittsburgh School of Medicine
http://dx.doi.org/10.1101/155010 2017-06-24 Resident Macrophages are Locally Programmed for Silent Clearance of Apoptotic Cells Allison W Roberts|Bettina L Lee|Jacques Deguine|Shinu John|Mark Shlomchik|Gregory M Barton University of California, Berkeley;|Yale University School of Medicine;|University of Pittsburgh
http://dx.doi.org/10.1101/155101 2017-06-24 CC BY-NC A pipeline for interrogating and engineering single-subunit oligosaccharyltransferases Thapakorn Jaroentomeechai|Xiaolu Zheng|Jasmine Hershewe|Jessica C. Stark|Michael C. Jewett|Matthew P. DeLisa Cornell University;|Northwestern University
http://dx.doi.org/10.1101/155093 2017-06-24 Cell Biology SWELL1 is a glucose sensor required for β-cell excitability and insulin secretion Chen Kang|Susheel K. Gunasekar|Anil Mishra|Litao Xie|Yanhui Zhang|Saachi Pai|Yiwen Gao|Andrew W. Norris|Samuel B. Stephens|Rajan Sah University of Iowa
http://dx.doi.org/10.1101/155143 2017-06-24 Genetics CC BY-NC mRNA detection in budding yeast with single fluorophores Gable Wadsworth|Rasesh Parikh|John Choy|Harold Kim Georgia Institute of Technology;|Catholic University of America
http://dx.doi.org/10.1101/155044 2017-06-24 Biochemistry CC BY-NC-ND Multi-omic mitoprotease profiling defines a role for Oct1p in coenzyme Q production Mike Veling|Andrew Reidenbach|Elyse Freiberger|Nicholas Kwiecien|Paul Hutchins|Michael Drahnak|Adam Jochem|Arne Ulbrich|Matthew Rush|Joshua Coon|Dave Pagliarini University of Wisconsin-Madison;|Morgridge Institute for Research
http://dx.doi.org/10.1101/155374 2017-06-25 CC BY A trapped double bond-photoisomerization intermediate in a bacterial photoreceptor Xiuling Xu|Astrid Hoppner|Kai-Hong Zhao|Wolfgang Gartner Max Planck Institute for Chemical Energy Conversion;|University of Duesseldorf;|Huazhong Agricultural University;|University of Leipzig
http://dx.doi.org/10.1101/155432 2017-06-25 CC BY-NC-ND Systematic identification of novel regulatory interactions controlling biofilm formation in the bacterium Escherichia coli Gerardo Ruiz Amores|Aitor de las Heras|Ananda Sanches Medeiros|Alistair Elfick|Rafael Silva-Rocha FMRP-USP;|University of Edinburgh
http://dx.doi.org/10.1101/155176 2017-06-25 CC BY-NC-ND Speciation as a sieve for ancestral polymorphism Rafael Guerrero|Matthew W. Hahn Indiana University
http://dx.doi.org/10.1101/154898 2017-06-25 CC BY-NC-ND The independent influences of age and education on functional brain networks and cognition in healthy older adults Alistair Perry|Wei Wen|Nicole Kochan|Anbupalam Thalamuthu|Perminder S. Sachdev|Michael Breakspear QIMR Berghofer Medical Research Institute;|Centre for Healthy Brain Ageing (CHeBA)
http://dx.doi.org/10.1101/155416 2017-06-25 Positively Selected Enhancer Elements Endow Tumor Cells with Metastatic Competence James J. Morrow|Ian Bayles|Alister Funnell|Tyler Miller|Alina Saiakhova|Michael Lizardo|Cynthia Bartels|Maaike Kapteijn|Stevephen Hung|Arnulfo Mendoza|Daniel Chee|Jay Myers|Frederick Allen|Marco Gambarotti|Alberto Righi|Analisa DiFeo|Brian Rubin|Alex Huang|Paul Meltzer|Lee Helman|Piero Picci|Henri Versteeg|John Stamatoyannopoulos|Chand Khanna|Peter Scacheri Case Western Reserve University;|Altius Institute for Biomedical Sciences;|NCI;|LUMC;|University of Washington;|Istituto Ortopedico Rizzoli;|Cleveland Clinic
http://dx.doi.org/10.1101/155218 2017-06-25 CC BY-NC-ND Molecular evolution, diversity and adaptation of H7N9 influenza A viruses in China Jing Lu|Jayna Raghwani|Jie Wu|Rhys Pryce|Thomas A. Bowden|Julien Theze|Shanqian Huang|Yingchao Song|Lirong Zou|Lijun Liang|Ru Bai|Yi Jin|Pingping Zhou|Min Kang|Lina Yi|Oliver G. Pybus|Changwen Ke Guangdong Provincial Center for Disease Control and Prevention;|Department of Zoology, University of Oxford;|Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford;|Beijing Normal University
http://dx.doi.org/10.1101/155390 2017-06-25 Flexible control of speed of cortical dynamics Jing Wang|Devika Narain|Eghbal Hosseini|Mehrdad Jazayeri Massachusetts Institute of Technology
http://dx.doi.org/10.1101/154773 2017-06-25 CC BY-NC-ND Genomic evidence of globally widespread admixture from polar bears into brown bears during the last ice age James A. Cahill|Peter D. Heintzman|Kelley Harris|Matthew Teasdale|Joshua Kapp|Andre E. Rodrigues Soares|Ian Stirling|Daniel Bradley|Ceiridwen J. Edwards|Aliaksandr A. Kisleika|Alexander V. Malev|Nigel Monaghan|Richard E. Green|Beth Shapiro University of California, Santa Cruz;|Univ. of California, Santa Cruz; Tromsø University Museum, Arctic University of Norway;|Stanford University;|Trinity College;|University of Alberta;|University of Huddersfield;|Kurils Nature Reserve;|Kazan Zoobotanical Garden;|National Museum of Ireland
http://dx.doi.org/10.1101/155325 2017-06-25 CC BY-NC-ND PARP mediated chromatin unfolding is coupled to long-range enhancer activation Nezha S. Benabdallah|Iain Williamson|Robert S. Illingworth|Shelagh Boyle|Graeme R. Grimes|Pierre Therizols|Wendy Bickmore MRC Human Genetics Unit, University of Edinburgh;|UMR INSERM 944, CNRS 7212, Batiment Jean Bernard, Hopital Saint Louis, Paris
http://dx.doi.org/10.1101/155382 2017-06-25 CC BY-NC Distinct contributions of three GABAergic interneuron populations to a mouse model of Rett Syndrome. James Mossner|Renata Batista-Brito|Rima Pant|Jessica Cardin Yale University
http://dx.doi.org/10.1101/155408 2017-06-25 Epidermal stem cells self-renew upon neighboring differentiation Kailin R. Mesa|Kyogo Kawaguchi|David G. Gonzalez|Katie Cockburn|Jonathan Boucher|Tianchi Xin|Allon M. Klein|Valentina Greco Department of Genetics, Yale School of Medicine;|Department of Systems Biology, Harvard Medical School
http://dx.doi.org/10.1101/155242 2017-06-25 Genetics CC BY Mapping the drivers of within-host pathogen evolution using massive data sets Duncan S. Palmer|Isaac Turner|Sarah Fidler|John Frater|Philip Goulder|Dominique Goedhals|Kuan-Hsiang Gary Huang|Annette Oxenius|Rodney Phillips|Roger Shapiro|Cloete van Vuuren|Angela R. McLean|Gil McVean University of Oxford;|Imperial College;|University of the Free State;|Einstein Medical Center;|Swiss Federal Institute of Technology Zurich;|Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/155358 2017-06-25 Bioinformatics CC BY Evaluating Metagenome Assembly on a Simple Defined Community with Many Strain Variants Sherine Awad|Luiz Irber|C. Titus Brown UC Davis
http://dx.doi.org/10.1101/155291 2017-06-25 Biochemistry Buffering Agent Induced Lactose Content Increases via Growth Hormone-Mediated Activation of Gluconeogenesis in Lactating Goats Lin Li|MeiLin He|Ying Liu|Yuanshu Zhang Nanjing Agricultural University
http://dx.doi.org/10.1101/155150 2017-06-25 Bioinformatics Not All Experimental Questions Are Created Equal: Accelerating Biological Data to Knowledge Transformation (BD2K) via Science Informatics, Active Learning and Artificial Intelligence Simon Kasif|Stanley Letovsky|Richard J. Roberts|Martin Steffen Boston University;|New England BioLabs
http://dx.doi.org/10.1101/155309 2017-06-25 Cancer Biology CC BY Synthetic lethality between the cohesin subunits STAG1 and STAG2 in diverse cancer contexts Petra van der Lelij|Simone Lieb|Julian Jude|Gordana Wutz|Catarina P. Santos|Katrina Falkenberg|Andreas Schlattl|Jozef Ban|Raphaela Schwentner|Thomas Hoffmann|Heinrich Kovar|Francisco X. Real|Todd Waldman|Mark Pearson|Norbert Kraut|Jan-Michael Peters|Johannes Zuber|Mark Paul Petronczki IMP Research Institute of Molecular Pathology;|Boehringer Ingelheim RCV;|Centro Nacional de Investigaciones Oncológicas;|IMP Research Institute of Molecular Pathology;|Children's Cancer Research Institute;|Spanish National Cancer Research Centre;|Lombardi Comprehensive Cancer Center, Georgetown University School of Medicine;|Boehringer Ingelheim Austria GmbH
http://dx.doi.org/10.1101/155341 2017-06-25 Biophysics CC BY-NC-ND Adsorption and conformation of lysozyme and α-lactalbumin at water-octane interface David Cheung National University of Ireland Galway
http://dx.doi.org/10.1101/155028 2017-06-25 Systems Biology CC BY-NC-ND Learning Edge Rewiring in EMT from Single Cell Data Smita Krishnaswamy|Nevena Zivanovic|Roshan Sharma|Dana Pe'er|Bernd Bodenmiller Yale University;|Columbia University;|Memorial Sloan Kettering Cancer Center;|University of Zurich
http://dx.doi.org/10.1101/155275 2017-06-25 Biophysics Binding Thermodynamics and Kinetics Calculations Using Chemical Host and Guest: A Comprehensive Picture of Molecular Recognition Zhiye Tang|Chia-en Chang UC, Riverside
http://dx.doi.org/10.1101/155317 2017-06-25 Immunology CC BY-NC TCR-peptide contact profile determines immunogenicity in pathogen/tumor-derived MHC-I epitopes Masato Ogishi|Hiroshi Yotsuyanagi National Center for Global Health and Medicine Hospital;|Advanced Clinical Research Center, The Institute of Medical Science, The University of Tokyo
http://dx.doi.org/10.1101/154930 2017-06-25 Neuroscience Synaptic homeostasis at the Drosophila neuromuscular junction is a reversible signaling process that is sensitive to high temperature Catherine J. Yeates|C. Andrew Frank University of Iowa
http://dx.doi.org/10.1101/153031 2017-06-25 Neuroscience CC BY-NC-ND Effects of LSD on music-evoked brain activity Mendel Kaelen|Romy Lorenz|Frederick S. Barrett|Leor Roseman|Csaba Orban|Andre Santos-Ribeiro|Matthew B. Wall|Amanda Feilding|David Nutt|Suresh Muthukumaraswamy|Robin Carhart-Harris|Robert Leech Imperial College London;|Johns Hopkins School of Medicine;|Imanova Centre for Imaging Sciences;|The Beckley Foundation;|University of Auckland
http://dx.doi.org/10.1101/155267 2017-06-25 Systems Biology CC BY-NC-ND Linearly changing stress environment causes cellular growth phenotype Guoliang Li|Benjamin K. Kesler|Alexander Thiemicke|Dustin C. Rogers|Gregor Neuert Vanderbilt University
http://dx.doi.org/10.1101/151704 2017-06-26 Microbiology Metagenomics reveals niche partitioning within the phototrophic zone of a microbial mat Jackson Z. Lee|R. Craig Everroad|Ulas Karaoz|Angela M. Detweiler|Jennifer Pett-Ridge|Peter K. Weber|Leslie Prufert-Bebout|Brad M. Bebout Exobiology Branch, NASA Ames Research Center, Moffett Field, CA, USA;|Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA;|Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory
http://dx.doi.org/10.1101/155846 2017-06-26 Systems Biology CC BY-NC-ND Molecular analysis of the midbrain dopaminergic niche during neurogenesis Enrique M. Toledo|Gioele La Manno|Pia Rivetti di Val Cervo|Daniel Gyllborg|Saiful Islam|Carlos Villaescusa|Sten Linnarsson|Ernest Arenas Karolinska Institutet
http://dx.doi.org/10.1101/155796 2017-06-26 Genetics CC BY-NC-ND Mitochondrial DNA heteroplasmy is shared between human liver lobes Manja Wachsmuth|Alexander Huebner|Roland Schroeder|Mingkun Li|Anna Maria Eis-Huebinger|Burkhard Madea|Mark Stoneking Max Planck Institute for Evolutionary Anthropology;|Fondation Merieux;|Institute of Virology, University of Bonn Medical Centre;|Institut fuer Rechtsmedizin, University of Bonn Medical Centre
http://dx.doi.org/10.1101/155481 2017-06-26 Genomics CC BY A Bayesian Framework for Multiple Trait Colocalization from Summary Association Statistics Claudia Giambartolomei|Jimmy Zhenli Liu|Wen Zhang|Mads Hauberg|Huwenbo Shi|James Boocock|Joe Pickrell|Andrew E. Jaffe|Bogdan Pasaniuc|Panos Roussos UCLA;|New York Genome Center;|Icahn School of Medicine at Mount Sinai;|Icahn School of Medicine at Mount Sinai, New York; Aarhus University, Denmark;|Johns Hopkins Medical Campus, Baltimore, MD;|-;|Icahn School of Medicine at Mount Sinai; James J. Peters VA Medical Center
http://dx.doi.org/10.1101/155697 2017-06-26 Systems Biology CC BY Novel ‘housekeeping’ genes and an unusually heterogeneous distribution of transporter expression profiles in human tissues and cell lines, assessed using the Gini coefficient Steve O'Hagan|Marina Wright Muelas|Philip J. Day|Emma Lundberg|Douglas B. Kell The University of Manchester;|SciLife Lab
http://dx.doi.org/10.1101/155911 2017-06-26 Developmental Biology CC BY A zebrafish model of developmental joint dysplasia: Manipulating the larval mechanical environment to drive the malformation and recovery of joint shape Karen A. Roddy|Roddy E. H. Skinner|Lucy H. Brunt|Erika Kague|Stephen Cross|Emily J. Rayfield|Chrissy L. Hammond School of Physiology, Pharmacology and Neuroscience, University of Bristol;|Wolfson Bioimaging Centre, University of Bristol;|School of Earth Sciences, University of Bristol
http://dx.doi.org/10.1101/155762 2017-06-26 Physiology CC BY-NC Imaging seminiferous tubules - a 9.4T MRI mouse model Mari Herigstad|Sofia Granados-Aparici|Allan Pacey|Martyn Paley|Steven Reynolds University of Sheffield
http://dx.doi.org/10.1101/155812 2017-06-26 Neuroscience Regulation of somatosensory mechanotransduction by Annexin A6 Ramin Raouf|Stephane Lolignier|Jane E. Sexton|Queensta Millet|Sonia Santana-Varela|Anna Biller|Alice M. Fuller|Vanessa Pereira|Jyoti Choudhary|Mark Collins|Stephen E. Moss|Julie Tordo|Michael Linden|John N. Wood Kings College London;|Universite Clermont Auvergne;|University College London;|Wellcome Genome Campus;|The University of Sheffield
http://dx.doi.org/10.1101/155705 2017-06-26 Neuroscience CC BY-NC-ND Wakefulness state modulates conscious access: Suppression of auditory detection in the transition to sleep Valdas Noreika|Andres Canales-Johnson|William J. Harrison|Amy Johnson|Aurina Arnatkeviciute|Justin Koh|Srivas Chennu|Tristan A. Bekinschtein University of Cambridge;|MRC Cognition and Brain Sciences Unit;|University of Kent
http://dx.doi.org/10.1101/155507 2017-06-26 Genetics CC BY High-Resolution Maps of Mouse Reference Populations Petr Simecek|Jiri Forejt|Robert W. Williams|Toshihiko Shiroishi|Toyoyuki Takada|Lu Lu|Thomas E. Johnson|Beth Bennett|Christian F. Deschepper|Marie-Pier Scott-Boyer|Gary A. Churchill|Fernando Pardo-Manuel de Villena The Jackson Laboratory;|Institute of Molecular Genetics;|The University of Tennessee Health Science Center;|National Institute of Genetics;|Institute for Behavorial Genetics, University of Colorado at Boulder;|Institut De Recherches Cliniques De Montreal;|Lineberger Comprehensive Cancer Center, UNC-Chapel Hill
http://dx.doi.org/10.1101/155663 2017-06-26 Physiology CC BY-NC-ND Resting heart rate rapid reduction by moderate exercise evolutionarily encoded Gabor Pavlik|Eva Bakacs|Eszter Csajagi|Tibor Bakacs|Judit Noe|Robert Kirschner University of Physical Education, Department of Health and Sport Sciences;|Olgahospital/Frauenklinik, Klinikum Stuttgart;|Alfred Renyi Institute of Mathematics, Hungarian Academy of Sciences;|Somogy Country Institute of Education, Pedagogical Institute;|5th Department of Internal Medicine, Flor Ferenc Hospital of Pest County, Hungary
http://dx.doi.org/10.1101/155614 2017-06-26 Biochemistry Molecular characterization of latent GDF8 reveals mechanisms of activation Ryan G. Walker|Jason C. McCoy|Magdalena Czepnik|Melanie J. Mills|Adam Hagg|Kelly L. Walton|Thomas Cotton|Marko Hyvonen|Richard T. Lee|Paul Gregorevic|Craig A. Harrison|Tom Thompson University of Cincinnati;|Harvard University;|Monash University;|University of Cambridge
http://dx.doi.org/10.1101/155440 2017-06-26 Genomics CC BY-NC-ND Worldwide genetic variation of the IGHV and TRBV immune receptor gene families in humans Shishi Luo|Jane A. Yu|Heng Li|Yun S. Song University of California, Berkeley;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/155457 2017-06-26 Molecular Biology Nuclease escape elements protect messenger RNA against cleavage by multiple viral endonucleases Mandy Muller|Britt Aspen Glaunsinger UC Berkeley
http://dx.doi.org/10.1101/155689 2017-06-26 Bioinformatics CC BY-NC-ND Combining Semantic Similarity and GO Enrichment for Computation of Functional Similarity Wenting Liu|Jianjun Liu|Jagath Chandana Rajapakse Genome Institute of Singapore;|Genomic Institute of Singapore;|Nanyang Technological University
http://dx.doi.org/10.1101/154591 2017-06-26 Genetics CC BY CLAPO syndrome: Identification of somatic activating PIK3CA mutations and delineation of the natural history and phenotype Lara Rodriguez-Laguna|Kristina Ibanez|Gema Gordo|Sixto Garcia-Minaur|Fernando Santos-Simarro|Noelia Agra|Elena Vallespin|Victoria E. Fernandez-Montano|Ruben Martin-Arenas|Angela del Pozo|Hector Gonzalez-Pecellin|Rocio Mena|Inmaculada Rueda-Arenas|Maria V. Gomez|Cristina Villaverde|Ana Bustamante|Carmen Ayuso|Victor L. Ruiz-Perez|Julian Nevado|Pablo Lapunzina|Juan C. Lopez-Gutierrez|Victor Martinez-Glez Inst. of Medical & Molecular Genetics, INGEMM-CIBERER-IdiPAZ, Hospital La Paz, Madrid;|Department of Genetics, IIS-Fundacion Jimenez Diaz UAM, Madrid, 28040, Spain;|Instituto de Investigaciones Biomedicas Alberto Sols, CSIC-UAM, Madrid, 28029, Spain;|Vascular Anomalies Center, Plastic Surgery, Hospital Universitario La Paz, Madrid, Spain
http://dx.doi.org/10.1101/155556 2017-06-26 Neuroscience CC BY-NC-ND Tonic Inhibition is Abolished in GABAA Receptor γ2R43Q Knock-in Mice with Absence Epilepsy and Febrile Seizures. Kile P. Mangan|Wyatt B. Potter|Aaron B. Nelson|Steven Petrou|Stephen M. Johnson|Avtar Roopra|Chiara Cirelli|Mathew V. Jones University of Wisconsin-Madison;|University of Melbourne
http://dx.doi.org/10.1101/155473 2017-06-26 Genomics CC BY-ND Chromatin accessibility dynamics of myogenesis at single cell resolution Hannah Pliner|Jonathan Packer|Jose McFaline-Figueroa|Darren Cusanovich|Riza Daza|Sanjay Srivatsan|Xiaojie Qiu|Dana Jackson|Anna Minkina|Andrew Adey|Frank Steemers|Jay Shendure|Cole Trapnell University of Washington;|Illumina, Inc.
http://dx.doi.org/10.1101/155333 2017-06-26 Cancer Biology CC BY A compendium of co-regulated protein complexes in breast cancer reveals collateral loss events Colm J. Ryan|Susan Kennedy|Ilirjana Bajrami|David Matallanas|Christopher J. Lord University College Dublin;|Institute of Cancer Research
http://dx.doi.org/10.1101/156026 2017-06-26 CC BY-NC-ND Towards a Global Framework for Estimating Acclimation and Thermal Breadth that Predicts Risk from Climate Change Jason Robert Rohr|David J. Civitello|Jeremy M. Cohen|Elizabeth A. Roznik|Barry Sinervo|Anthony I. Dell University of South Florida;|Emory University;|UC Santa Cruz;|National Great Rivers Research and Education Centre
http://dx.doi.org/10.1101/156075 2017-06-26 CC BY-NC-ND Modulation of Ether-à-go-go related gene (ERG) current governs intrinsic persistent activity in rodent neocortical pyramidal cells Edward D Cui|Ben Strowbridge Case Western Reserve University
http://dx.doi.org/10.1101/155465 2017-06-26 Activation of Somatostatin Inhibitory Neurons by Lypd6-nAChRα2 System Restores Juvenile-like Plasticity in Adult Visual Cortex Masato Sadahiro|Michael P. Demars|Poromendro Burman|Priscilla Yevoo|Milo R. Smith|Andreas Zimmer|Hirofumi Morishita Icahn School of Medicine at Mount Sinai;|University of Bonn
http://dx.doi.org/10.1101/155978 2017-06-26 DNA Replication Modulates R-loop Levels to Maintain Genome Stability Stephan Hamperl|Joshua C. Saldivar|Michael J. Bocek|Karlene A. Cimprich Stanford University School of Medicine, Department of Chemicals & Systems Biology
http://dx.doi.org/10.1101/154369 2017-06-26 CC BY-NC-ND FOXS1 is a Master Regulator of Pathological Epithelial to Mesenchymal Transition in Human Epithelia Timothy A Blenkinsop|Thomasz Swigut|Nathan Boles|Rajini Srinivasan|Alvaro Rada-Iglesias|Qingjie Wang|Jeffrey Stern|Joanna Wysocka|Sally Temple Icahn School of Medicine at Mount Sinai;|Stanford University;|Neural Stem Cell Institute;|University of Cologne
http://dx.doi.org/10.1101/156232 2017-06-26 CC BY-NC-ND Characterization of SID-1-dependent and independent intergenerational RNA transport pathways in Caenorhabditis elegans Eddie Wang|Craig P. Hunter Harvard University
http://dx.doi.org/10.1101/156109 2017-06-26 Neural mechanisms driving hunger-induced changes in sensory perception and behavior in Caenorhabditis elegans Hiu E. Lau|Zachary T. Cecere|Zheng Liu|Claire J. Yang|Tatyana O. Sharpee|Sreekanth Chalasani University of California, San Diego;|The Salk Institute for Biological Studies
http://dx.doi.org/10.1101/156125 2017-06-26 CRISPR-Cpf1 mediates efficient homology-directed repair and temperature-controlled genome editing Miguel A. Moreno-Mateos|Juan P. Fernandez|Romain Rouet|Maura A. Lane|Charles E. Vejnar|Emily Mis|Mustafa K. Khokha|Jennifer A. Doudna|Antonio J. Giraldez Yale University;|University of California, Berkeley
http://dx.doi.org/10.1101/155937 2017-06-26 Fluidic Microactuation of Flexible Electrodes for Neural Recording Flavia Vitale|Daniel G. Vercosa|Alexander V. Rodriguez|Sushma Sri Pamulapati|Frederik Seibt|Eric Lewis|J. Stephen Yan|Krishna Badhiwala|Mohammed Adnan|Gianni Royer-Carfagni|Michael Beierlein|Caleb Kemere|Matteo Pasquali|Jacob T. Robinson Rice University;|McGovern Medical School at UTHealth;|University of Parma
http://dx.doi.org/10.1101/156257 2017-06-26 CC BY-NC-ND Cell-type selective deletion of RSK2 reveals insights into altered signaling in Coffin-Lowry Syndrome Hu Zhu|Ryan T. Strachan|Daniel Urban|Martilias Farrell|Wesley K. Kroeze|Justin G. English|Reid H. J. Olsen|Bryan L. Roth UNC Chapel Hill;|UNC Chapel Hill School of Medicine
http://dx.doi.org/10.1101/156216 2017-06-26 CC BY-NC-ND An insula-central amygdala circuit for behavioral inhibition Hillary C. Schiff|Anna Lien Bouhuis|Kai Yu|Mario A. Penzo|Haohong Li|Maio He|Bo Li Stony Brook University;|Cold Spring Harbor Laboratory;|NIH;|Huazhong University of Science & Technology;|Fudan University
http://dx.doi.org/10.1101/156018 2017-06-26 CC BY-NC-ND A pesticide paradox: Fungicides indirectly increase fungal infections Jason Robert Rohr|Jenise Brown|William A. Battaglin|Taegan A. McMahon|Rick A. Relyea University of South Florida;|USGS;|University of Tampa;|Rensselaer Polytechnic Institute
http://dx.doi.org/10.1101/156224 2017-06-26 Cofilin Drives Rapid Turnover and Fluidization of Entangled F-actin Patrick M. McCall|Frederick C. MacKintosh|David R. Kovar|Margaret L. Gardel University of Chicago, Department of Physics;|Rice University;|University of Chicago
http://dx.doi.org/10.1101/156083 2017-06-26 Variation in the oxidative burst in response to wounding and bacterial infection among native and invading genotypes of yellow starthistle (Centaurea solstitialis) Angela M. Kaczowka|Patricia Lu-Irving|David A. Baltrus|Katrina M. Dlugosch University of Arizona
http://dx.doi.org/10.1101/156182 2017-06-26 CC BY 48-spot single-molecule FRET setup with periodic acceptor excitation Antonino Ingargiola|Maya Segal|Angelo Gulinatti|Ivan Rech|Ivan Labanca|Piera Maccagnani|Massimo Ghioni|Shimon Weiss|Xavier Michalet UCLA;|Politecnico di Milano;|Istituto per la Microelettronica e Microsistemi, IMM-CNR, Bologna, Italy
http://dx.doi.org/10.1101/155895 2017-06-26 CC BY-NC-ND Systems-Level Annotation of Metabolomics Data Reduces 25,000 Features to Fewer than 1,000 Unique Metabolites Nathaniel G. Mahieu|Gary J. Patti Washington University
http://dx.doi.org/10.1101/156166 2017-06-26 CC BY Competition of Charge-Mediated and Specific Binding by Peptide-Tagged Cationic Liposome-DNA Nanoparticles In Vitro and In Vivo Emily Wonder|Lorena Simon-Gracia|Pablo Scodeller|Ramsey N. Majzoub|Venkata Ramana Kotamraju|Kai Ewert|Tambet Teesalu|Cyrus R. Safinya University of California at Santa Barbara;|University of Tartu;|Sanford Burnham Prebys Medical Discovery Institute;|University of California;|University of Tartu and Sanford Burnham Prebys Medical Discovery Institute
http://dx.doi.org/10.1101/156265 2017-06-26 CC BY-ND Global DNA methylation, as estimated in blood samples, does not correlate with variations of body condition, anatomical features and hematological parameters in American bullfrogs (Lithobates catesbeianus) kept captive under distinct environmental conditions. Braulio Ayala-Garcia|Alma Lilia Fuentes-Farias|Gabriel Gutierrez-Ospina Instituto de Investigaciones Biomedicas, Universidad Nacional Autonoma de Mexico;|Departamento de Zoologia, INIRENA, U. Michoacana de San Nicolas de Hidalgo, Morelia
http://dx.doi.org/10.1101/155952 2017-06-26 CC BY-NC-ND Delineating the macroscale areal organization of the macaque cortex in vivo Ting Xu|Arnaud Falchier|Elinor Sullivan|Gary Linn|Julian Ramirez|Deborah Ross|Eric Feczko|Alexander Opitz|Jennifer Bagley|Darrick Sturgeon|Eric Earl|Oscar Miranda-Domingue|Anders Perrone|Cameron Craddock|Charles Schroeder|Stan Colcombe|Damien Fair|Michael Milham Child Mind Institute;|Nathan Kline Institute for Psychiatric Research;|Oregon National Primate Research Center;|Oregon Health & Science University;|National Primate Research Center;|Columbia University College of Physicians and Surgeons
http://dx.doi.org/10.1101/156000 2017-06-26 The Drosophila Y chromosome affects heterochromatin integrity genome-wide Emily Brown|Doris Bachtrog University of California, Berkeley
http://dx.doi.org/10.1101/156042 2017-06-26 The Y chromosome contributes to sex-specific aging in Drosophila Emily Brown|Doris Bachtrog University of California, Berkeley
http://dx.doi.org/10.1101/156174 2017-06-26 CC BY-NC-ND Resistome SNP Calling via Read Colored de Bruijn Graphs Bahar Alipanahi|Martin D. Muggli|Musa Jundi|Noelle Noyes|Christina Boucher University of Florida;|Colorado State University
http://dx.doi.org/10.1101/156067 2017-06-26 CC BY BPG: Seamless, Automated and Interactive Visualization of Scientific Data Christine P'ng|Jeffrey Green|Lauren C. Chong|Daryl Waggott|Stephenie D. Prokopec|Mehrdad Shamsi|Francis Nguyen|Denise Y. F. Mak|Felix Lam|Marco A. Albuquerque|Ying Wu|Esther H. Jung|Maud H. W. Starmans|Michelle A. Chan-Seng-Yue|Cindy Q. Yao|Bianca Liang|Emilie Lalonde|Syed Haider|Nicole A. Simone|Dorota Sendorek|Kenneth C. Chu|Nathalie C. Moon|Natalie S. Fox|Michal R. Grzadkowski|Nicholas J. Harding|Clement Fung|Amanda R. Murdoch|Kathleen E. Houlahan|Jianxin Wang|David R. Garcia|Richard de Borja|Ren X. Sun|Xihui Lin|Gregory M. Chen|Aileen Lu|Yu-Jia Shiah|Amin Zia|Ryan Kearns|Paul Boutros Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/156091 2017-06-26 CC BY-NC-ND Single-molecule FISH in Drosophila muscle reveals location dependent mRNA composition of megaRNPs Akiko Noma|Carlas S. Smith|Maximillian Huisman|Robert M. Martin|Melissa J. Moore|David Grunwald UMass Medical School;|Faculdade de Medicina, Universidade de Lisboa
http://dx.doi.org/10.1101/155929 2017-06-26 Neuroscience Combined social and spatial coding in a descending projection from the prefrontal cortex Malavika Murugan|Michelle Park|Josh Taliaferro|Hee Jae Jang|Julia Cox|Nathan Parker|Varun Bhave|Alexander Nectow|Jonathan Pillow|Ilana Witten Princeton Neuroscience Institute;|Princeton University;|Columbia University
http://dx.doi.org/10.1101/155945 2017-06-26 Cell Biology CC BY-NC-ND Rap1, AF6 and Pak4 cooperate with Par3 to promote ZA assembly and remodeling in the fly photoreceptor Rhian F Walther|Mubarik Burki|Noelia Pinal Seoane|Clare Rogerson|Franck Pichaud MRC LMCB, UCL;|Randall Division of Cell and Molecular Biophysics, Kings College London, London, SE1 1UL, UK;|Centro de Biologia Molecular, CSIC-UAM, Madrid, Spain.
http://dx.doi.org/10.1101/155721 2017-06-26 Ecology CC BY-NC-ND Metabarcoding for the parallel identification of several hundred predators and their preys: application to bat species diet analysis Maxime Galan|Jean-Baptiste Pons|Orianne Tournayre|Eric Pierre|Maxime Leuchtmann|Dominique Pontier|Nathalie Charbonnel INRA;|Lyon University;|Nature Environnement
http://dx.doi.org/10.1101/155804 2017-06-26 Evolutionary Biology Hydra, a model system for deciphering the mechanisms of aging and resistance to aging Quentin Schenkelaars|Szymon Tomczyk|Yvan Wenger|Kazadi Ekundayo|Victor Girard|Wanda Buzgariu|Steve Austad|Brigitte Galliot University of Geneva;|University of Alabama at Birmingham
http://dx.doi.org/10.1101/155820 2017-06-26 Evolutionary Biology Legionella becoming a mutualist: adaptive processes shaping the genome of symbiont in the louse Polyplax serrata Jana Rihova|Eva Novakova|Filip Husnik|Vaclav Hypsa University of South Bohemia
http://dx.doi.org/10.1101/155499 2017-06-26 Ecology Taking the short- or long-chain route: conversion efficiency of alpha linolenic acid to long-chain omega-3 fatty acids in aerial insectivore chicks Cornelia W. Twining|Peter Lawrence|David W. Winkler|Alexander S. Flecker|J. Thomas Brenna Cornell University
http://dx.doi.org/10.1101/155903 2017-06-26 Evolutionary Biology CC BY The genetic basis and evolution of red blood cell sickling in deer Alexander Esin|L. Therese Bergendahl|Vincent Savolainen|Joseph A. Marsh|Tobias Warnecke MRC London Institute of Medical Sciences;|Institute of Genetics and Molecular Medicine;|Imperial College London
http://dx.doi.org/10.1101/155713 2017-06-26 Physiology CC BY-NC-ND Modelling of the cardiopulmonary responses to maximal aerobic exercise in patients with cystic fibrosis Craig A. Williams|Kyle C. A. Wedgwood|Hossein Mohammadi|Owen W. Tomlinson|Krasimira Tsaneva-Atanasova University of Exeter
http://dx.doi.org/10.1101/155531 2017-06-26 Animal Behavior and Cognition An integral role for timing in interception Chia-Jung Chang|Mehrdad Jazayeri MIT
http://dx.doi.org/10.1101/155788 2017-06-26 Animal Behavior and Cognition General sexual desire, but not desire for uncommitted sexual relationships, tracks changes in women's hormonal status Benedict Jones|Amanda Hahn|Claire Fisher|Hongyi Wang|Michal Kandrik|Lisa DeBruine University of Glasgow;|Humboldt State University
http://dx.doi.org/10.1101/155523 2017-06-26 Microbiology Suppressor screen connects HAD protein function to metabolic control in Plasmodium falciparum Ann M. Guggisberg|Aakash Y. Gandhi|Samuel J. Erlinger|Emilio F. Merino|Maria Belen Cassera|Audrey Ragan Odom John Washington University School of Medicine;|University of Georgia
http://dx.doi.org/10.1101/155994 2017-06-26 Cell Biology CC BY A transgenic toolkit for visualizing and perturbing microtubules reveals unexpected functions in the epidermis Andrew Muroyama|Terry Lechler Duke University Medical Center, United States
http://dx.doi.org/10.1101/155853 2017-06-26 Genomics CC BY Comparative transcriptomics of THP-1 monocytes in response to different pathogens Ernst Thuer|Toni Gabaldon Centre for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/155879 2017-06-26 Evolutionary Biology CC BY-NC-ND On the dynamics of reproductive values and phenotypic traits in class-structured populations Sebastien Lion Centre d'Ecologie Fonctionnelle et Evolutive - CNRS UMR 5175
http://dx.doi.org/10.1101/155622 2017-06-26 Microbiology CC BY-NC-ND Modelling Phototaxis as a Collective Phenomenon in Cyanobacterial Colonies P. Varuni|Shakti N. Menon|Gautam I. Menon Institute of Mathematical Sciences
http://dx.doi.org/10.1101/156034 2017-06-26 Physiology CC BY-NC-ND The effect of chronic and acute stressors, and their interaction, on gonadal function: an experimental test during gonadal recrudescence Mikus Abolins-Abols|Rachel Hanauer|Kimberly Rosvall|Mark Peterson|Ellen Ketterson Indiana University;|Life-Science Innovations
http://dx.doi.org/10.1101/155754 2017-06-26 Neuroscience CC BY-NC-ND Neurobehavioral dynamics of drowsiness Valdas Noreika|Marc R. Kamke|Andres Canales-Johnson|Srivas Chennu|Jason B. Mattingley|Tristan A. Bekinschtein University of Cambridge;|University of Queensland;|University of Kent
http://dx.doi.org/10.1101/155127 2017-06-26 Plant Biology CC BY-NC-ND Development of Gene-Specific Real-Time PCR Screening Method for Detection of cp4-epsps Gene in GM Crops Solmaz Khosravi|Masoud Tohidfar|Parisa Koobaz ABRII
http://dx.doi.org/10.1101/156414 2017-06-27 Mitotic progression following DNA damage enables pattern recognition within micronuclei Shane M. Harding|Joseph L. Benci|Jerome Irianto|Dennis E. Discher|Andy J. Minn|Roger A. Greenberg University of Pennsylvania, Perelman School of Medicine;|University of Pennsylvania
http://dx.doi.org/10.1101/156422 2017-06-27 Neuroscience Artificial anion-conducting channelrhodopsins with tuned spectra, modified kinetics and enhanced light sensitivity Jonas Wietek|Silvia Rodriguez-Rozada|Janine Tutas|Federico Tenedini|Christiane Grimm|Thomas Oertner|Peter Soba|Peter Hegemann|J. Simon Wiegert Humboldt-University Berlin;|Center for Molecular Neurobiology Hamburg
http://dx.doi.org/10.1101/156406 2017-06-27 Bioinformatics CC BY-NC A dual transcript-discovery approach to improve the delimitation of gene features from RNA-seq data in the chicken model Mickael Orgeur|Marvin Martens|Stefan T Borno|Bernd Timmermann|Delphine Duprez|Sigmar Stricker Freie Universität Berlin, Berlin, Germany;|IBPS-Developmental Biology Laboratory, Paris, France;|Max Planck Institute for Molecular Genetics, Berlin, Germany
http://dx.doi.org/10.1101/154781 2017-06-27 CC BY-NC-ND Community dynamics in parallelized, aerobic, single carbon-source enrichments Theodore Matthew Flynn|Jason C. Koval|Stephanie M. Greenwald|Sarah M. Owens|Kenneth M. Kemner|Dionysios A. Antonopoulos Biosciences Division, Argonne National Laboratory
http://dx.doi.org/10.1101/156240 2017-06-27 Habitat preference of an herbivore shapes the habitat distribution of its host plant Nicolas M Alexandre|Parris T Humphrery|Joseph Frazier|Andrew D Gloss|Jimmy Lee|Henry A Affeldt|Noah K Whiteman University of California, Berkeley;|Harvard University;|Rocky Mountain Biological Laboratory;|University of Chicago
http://dx.doi.org/10.1101/156349 2017-06-27 Cell Biology Replacing reprogramming factors with antibodies selected from autocrine antibody libraries Joel W. Blanchard|Jia Xie|Nadja El-Mecharrafie|Simon Gross|Sohyon Lee|Richard Lerner|Kristin K. Baldwin Scripps Research Institute
http://dx.doi.org/10.1101/156356 2017-06-27 Microbiology CC BY Evolution with a seed bank: the population genetic consequences of microbial dormancy Will R. Shoemaker|Jay T. Lennon Indiana University
http://dx.doi.org/10.1101/156489 2017-06-27 Neuroscience Voltage-gating of mechanosensitive PIEZO channels Mirko Moroni|Martha Rocio Servin-Vences|Raluca Fleischer|Gary R. Lewin Max Delbrueck Center for Molecular Medicine
http://dx.doi.org/10.1101/155887 2017-06-27 Cancer Biology CD55 regulates self-renewal and cisplatin resistance in endometrioid tumors Caner Saygin|Andrew Wiechert|Vinay S. Rao|Ravi Alluru|Elizabeth Connor|Praveena S. Thiagarajan|James S. Hale|Yan Li|Anastasia Chumakova|Awad Jarrar|Yvonne Parker|Daniel J. Lindner|Anil B. Nagaraj|J. Julie Kim|Analisa DiFeo|Fadi W. Abdul-Karim|Chad Michener|Peter G. Rose|Robert DeBernardo|Haider Mahdi|Keith R. McCrae|Feng Lin|Justin D. Lathia|Ofer Reizes Cleveland Clinic Foundation;|Case Western Reserve University SOM;|Northwestern University School of Medicine
http://dx.doi.org/10.1101/156307 2017-06-27 CC BY Engagement of spinal- vs prefrontal-projecting locus coeruleus neurons parses analgesia from aversion & anxiety in rats Stefan Hirschberg|Yong Li|Andrew Randall|Eric J Kremer|Anthony E Pickering University of Bristol, United Kingdom;|University of Exeter, United Kingdom;|CNRS, United Kingdom
http://dx.doi.org/10.1101/156398 2017-06-27 Evolutionary Biology CC BY-NC-ND Mutation rates in seeds and seed-banking influence substitution rates across the angiosperm phylogeny Marcel Dann|Sidonie Bellot|Sylwia Schepella|Hanno Schaefer|Aurelien Tellier Technical University of Munich
http://dx.doi.org/10.1101/156380 2017-06-27 CC BY-NC-ND An evaluation of the efficacy, reliability, and sensitivity of motion correction strategies for resting-state functional MRI Linden Parkes|Ben D. Fulcher|Murat Yucel|Alex Fornito Monash University
http://dx.doi.org/10.1101/156315 2017-06-27 Neuroscience CC BY-NC-ND MELD: Mixed Effects for Large Datasets Dylan M. Nielson|Per B. Sederberg National Institute of Mental Health;|The Ohio State University
http://dx.doi.org/10.1101/155572 2017-06-27 Neuroscience CC BY-NC-ND Video rate volumetric Ca2+ imaging across cortical layers using Seeded Iterative Demixing (SID) microscopy Tobias Noebauer|Oliver Skocek|Alejandro J. Pernia-Andrade|Lukas Weilguny|Francisca Martinez Traub|Maxim I. Molodtsov|Alipasha Vaziri Rockefeller University;|Research Institute of Molecular Pathology;|Rockefeller University & Research Institute of Molecular Pathology
http://dx.doi.org/10.1101/156299 2017-06-27 Plant Biology Genetic variants affecting plant size and chemical defenses jointly shape herbivory in Arabidopsis Andrew D Gloss|Benjamin Brachi|Mitchell J Feldmann|Simon C Groen|Claudia Bartoli|Jerome Gouzy|Erika R LaPlante|Christopher G Meyer|Hoon S Pyon|Sarah C Rogan|Fabrice Roux|Joy Bergelson|Noah K Whiteman University of Arizona & University of Chicago;|University of Chicago & INRA;|University of Arizona;|University of Arizona & New York University;|INRA;|University of Arizona & University of California;|University of Chicago;|University of California
http://dx.doi.org/10.1101/156455 2017-06-27 Immunology Aging-associated dysbiosis increases susceptibility to enteric viral infection in Drosophila Christine Sansone|Jonathan Cohen|Beth Gold|Wenhan Zhu|Ana M. Misic|Daniel P. Beiting|Sebastian E. Winter|Sara Cherry University of Pennslyvania;|University of Pennsylvania;|University of Texas Southwestern
http://dx.doi.org/10.1101/156059 2017-06-27 Genetics CC BY-NC A comprehensive portrait of cilia and ciliopathies from a CRISPR-based screen for Hedgehog signaling David K. Breslow|Sascha Hoogendoorn|Adam R. Kopp|David W. Morgens|Brandon K. Vu|Kyuho Han|Amy Li|Gaelen T. Hess|Michael C. Bassik|James K. Chen|Maxence V. Nachury Yale University;|Stanford University
http://dx.doi.org/10.1101/156331 2017-06-27 Genetics CC BY-ND Polygenic hazard scores in preclinical Alzheimer's disease Chin Hong Tan|Leo P. Sugrue|Iris J. Broce|Elizabeth Tong|Jacinth Tan|Christopher P. Hess|William P. Dillon|Luke W. Bonham|Jennifer S. Yokoyama|Gil D. Rabinovici|Howard J. Rosen|Bruce L. Miller|Bradley T. Hyman|Gerald D. Schellenberg|Lilah M. Besser|Walter A. Kukull|Celeste M. Karch|James B. Brewer|Karolina Kauppi|Linda K. McEvoy|Ole A. Andreassen|Anders M. Dale|Chun Chieh Fan|Rahul S. Desikan University of California, San Francisco;|Massachusetts General Hospital;|University of Pennsylvania;|University of Washington;|Washington University in St. Louis;|University of California, San Diego;|University of Oslo
http://dx.doi.org/10.1101/153882 2017-06-27 Bioinformatics CC BY MoMo: Discovery of post-translational modification motifs Alice Cheng|Charles Grant|Timothy L. Bailey|William Noble University of Washington;|University of Nevada, Reno
http://dx.doi.org/10.1101/156133 2017-06-27 Evolutionary Biology Unravelling the genomic basis and evolution of the pea aphid male wing dimorphism Binshuang Li|Ryan D. Bickel|Benjamin J. Parker|Neetha N. Vellichirammal|Mary Grantham|Jean-Christophe Simon|David L. Stern|Jennifer A. Brisson University of Rochester;|University of Nebraska Medical Center;|INRA, UMR1349, Institute of Genetics, Environment and Plant Protection;|Janelia Research Campus
http://dx.doi.org/10.1101/150714 2017-06-26 Cell Biology CC BY Multi-BRCT domain protein Brc1 links Rhp18/Rad18 and γH2A to maintain genome stability during S-phase Michael Reubens|Sophie Rozenzhak|Paul Russell The Scripps Research Institute
http://dx.doi.org/10.1101/156190 2017-06-26 Cell Biology CC BY-NC-ND Widespread translational remodeling during human neuronal differentiation John D Blair|Dirk Hockemeyer|Jennifer A Doudna|Helen S Bateup|Stephen N Floor University of California, Berkeley;|UC Berkeley/HHMI;|University of California, San Francisco
http://dx.doi.org/10.1101/156539 2017-06-27 CC BY Mapping Loci that Control Tuber and Foliar Symptoms Caused by PVY in Autotetraploid Potato (Solanum tuberosum L.) Washington L. da Silva|Jason T. Ingram|Christine A. Hackett|Joseph J. Coombs|David Douches|Glenn Bryan|Walter De Jong|Stewart Gray Cornell University, United States;|The James Hutton Institute, United States;|Michigan State University, United Kingdom;|Cornell University/USDA, ARS, Emerging Pests & Pathogens Research Unit, United States
http://dx.doi.org/10.1101/156562 2017-06-27 CFTR Modulates Wnt/β-Catenin Signaling and Stem Cell Proliferation in Murine Intestine Ashlee M Strubberg|Jinghua Liu|Nancy M Walker|Casey D Stefanski|R John MacLeod|Scott T Magness|Lane L Clarke Washington University;|University of Missouri;|Queen's University;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/156653 2017-06-27 Mice use robust and common strategies to discriminate natural scenes Yiyi Yu|Riichiro Hira|Jeffrey N. Stirman|Waylin Yu|Ikuko T. Smith|Spencer L. Smith UNC-Chapel Hill
http://dx.doi.org/10.1101/156638 2017-06-27 CC BY-NC-ND Is it possible to keep the exoskeleton of the crab Callinectes ornatus soft for several days? Diogo Barbalho Hungria|Ubirata Silva|Leandro Pereira|Ariana Cella-Ribeiro|Antonio Ostrensky Universidade Federal do Parana;|Instituto Federal do Parana;|Federal University of Rondonia
http://dx.doi.org/10.1101/152215 2017-06-27 CC BY Evolutionarily younger and faster diversifying plants are more threatened by extinction Andrew J. Tanentzap|Javier Igea|Matthew G. Johnston University of Cambridge
http://dx.doi.org/10.1101/156810 2017-06-27 CC BY Chemical-microstructural-nanomechanical variations in the structural units of the cuttlebone of Sepia officinalis Laura North|David Labonte|Michelle Oyen|Mark P. Coleman|H. Burak Caliskan|Richard Johnston Materials Research Centre, College of Engineering, Swansea University, Swansea, UK;|Cambridge University Engineering Department, Trumpington Street, Cambridge, UK
http://dx.doi.org/10.1101/156588 2017-06-27 CC BY-NC Scikit-ribo: Accurate estimation and robust modeling of translation dynamics at codon resolution Han Fang|Yi-Fei Huang|Aditya Radhakrishnan|Adam Siepel|Gholson J. Lyon|Michael C. Schatz Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory;|Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine;|Stanley Institute for Cognitive Genomics, Cold Spring Harbor Laboratory;|Departments of Computer Science and Biology, Johns Hopkins University
http://dx.doi.org/10.1101/156554 2017-06-27 CC BY Selection constrains high rates of satellite DNA mutation in Daphnia pulex Jullien M. Flynn|Ian Caldas|Melania E. Cristescu|Andrew G. Clark Cornell University, United States;|McGill University, United States
http://dx.doi.org/10.1101/156729 2017-06-27 Detecting repeated cancer evolution in human tumours from multi-region sequencing data Giulio Caravagna|Ylenia Giarratano|Daniele Ramazzotti|Trevor A. Graham|Guido Sanguinetti|Andrea Sottoriva University of Edinburgh;|Stanford University;|Barts Cancer Institute, QMUL;|The Institute of Cancer Research
http://dx.doi.org/10.1101/156836 2017-06-27 CC BY-NC-ND IndeCut evaluates performance of network motif discovery algorithms Mitra Ansariola|Molly Megraw|David Koslicki Oregon State University
http://dx.doi.org/10.1101/156372 2017-06-27 Activity based checkpoints ensure circuit stability in the olfactory system Kiely N. James|Benjamin T. Throesch|Weston Davini|Kevin T. Eade|Sulagna Ghosh|Sohyon Lee|Nina Torabi-Rander|Kristin Baldwin The Scripps Research Institute
http://dx.doi.org/10.1101/156786 2017-06-27 CC BY Robustness of spike deconvolution for calcium imaging of neural spiking Marius Pachitariu|Carsen Stringer|Kenneth D. Harris University College London
http://dx.doi.org/10.1101/155861 2017-06-27 Multilocus DNA barcoding - Species Identification with Multilocus Data Junning Liu|Jiamei Jiang|Shuli Song|Luke Tornabene|Ryan Chabarria|Gavin JP Naylor|Chenhong Li Key Laboratory of Exploration and Utilization of Aquatic Genetic Resources, Shanghai Ocean Univ.;|School of Aquatic and Fisheries Sciences, University of Washington, Seattle, WA 98195, USA;|College of Science & Engineering, Texas A&M University - Corpus Christi, Corpus Christi, TX, USA;|Hollings Marine Laboratory, College of Charleston, Charleston, SC 29412, USA
http://dx.doi.org/10.1101/156760 2017-06-27 CC BY Diffusion as a ruler: modeling kinesin diffusion as a length sensor for intraflagellar transport Nathan L. Hendel|Matthew Thomson|Wallace F. Marshall UCSF;|Caltech
http://dx.doi.org/10.1101/156778 2017-06-27 CC BY-NC-ND Germline Cas9 Expression Yields Highly Efficient Genome Engineering in a Major Worldwide Disease Vector, Aedes aegypti Ming Li|Michelle Bui|Ting Yang|Bradley White|Omar Akbari University of California, Riverside
http://dx.doi.org/10.1101/156620 2017-06-27 CC BY ADAGE signature analysis: differential expression analysis with data-defined gene sets Jie Tan|Matthew Huyck|Dongbo Hu|Rene A. Zelaya|Deborah A. Hogan|Casey S. Greene Geisel School of Medicine at Dartmouth;|Perelman School of Medicine, University of Pennsylvania
http://dx.doi.org/10.1101/153866 2017-06-27 Widespread Negative Frequency-Dependent Selection Maintains Diversity in the Legume-Rhizobia Symbiosis: Balancing nodulation may explain the paradox of rhizobium diversity Eleanor Siler|Maren L. Friesen Michigan State University
http://dx.doi.org/10.1101/156596 2017-06-27 Genetics CC BY Conserved noncoding transcription and core promoter regulatory code in early Drosophila development Philippe J. Batut|Thomas R. Gingeras Princeton University;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/156703 2017-06-27 Genetics CC BY-NC-ND SID-1 domains important for dsRNA import in C. elegans Jennifer S. Whangbo|Alexandra S. Weisman|Jiajie Lu|Jeiwook Chae|Craig P. Hunter Harvard University
http://dx.doi.org/10.1101/156919 2017-06-28 Genomics CC BY-NC-ND Comprehensive Benchmarking and Ensemble Approaches for Metagenomic Classifiers Alexa McIntyre|Rachid Ounit|Ebrahim Afshinnekoo|Robert Prill|Elizabeth Henaff|Noah Alexander|Sam Minot|David Danko|Jonathan Foox|Sofia Ahsanuddin|Scott Tighe|Nur A Hasan|Poorani Subramanian|Kelly Moffat|Shawn Levy|Stefano Lonardi|Nick Greenfield|Rita Colwell|Gail Rosen|Christopher E Mason Weill Cornell Medicine;|UC-Riverside;|IBM;|OneCodex;|University of Vermont;|CosmosID;|HudsonAlpha;|Drexel University
http://dx.doi.org/10.1101/155002 2017-06-28 Genetics CC BY-NC-ND Melanism patches up the defective cuticular morphological traits through promoting the up-regulation of cuticular protein-coding genes in Bombyx mori Liang Qiao|Ri-xin Wang|You-jin Hao|Hai Hu|Gao Xiong|Song-zhen He|Jiang-bo Song|Kun-peng Lu|James Mallet|Ya-qun Xin|Bin Chen|Fang-yin Dai Chongqing Normal University;|Southwest University;|Harvard University;|Ludwig Maximilian University of Munich
http://dx.doi.org/10.1101/156364 2017-06-28 Neuroscience CC BY-NC Blind sparse deconvolution for inferring spike trains from fluorescence recordings Jerome Tubiana|Sebastien Wolf|Georges Debregeas Ecole Normale Supérieure, Paris, France;|Sorbonne Universités, Université Pierre et Marie Curie Paris 06, Paris, France
http://dx.doi.org/10.1101/156430 2017-06-28 Animal Behavior and Cognition Hormonal correlates of pathogen disgust: Testing the Compensatory Prophylaxis Hypothesis Benedict Jones|Amanda Hahn|Claire Fisher|Hongyi Wang|Michal Kandrik|Joshua Tybur|Lisa DeBruine University of Glasgow;|Humboldt State University;|VU Amsterdam
http://dx.doi.org/10.1101/156968 2017-06-28 Biophysics CC BY Partial Unwinding of Transmembrane Helices Facilitates Alternating Access in the Neurotransmitter:Sodium Symporter LeuT Patrick Sascha Merkle|Kamil Gotfryd|Michel A. Cuendet|Katrine Z. Leth-Espensen|Ulrik Gether|Claus J. Loland|Kasper D. Rand University of Copenhagen;|Swiss Institute of Bioinformatics;|Faculty of Health and Medical Sciences, University of Copenhagen
http://dx.doi.org/10.1101/156901 2017-06-28 Cell Biology CC BY Caspase-8, RIPK1, and RIPK3 Coordinately Regulate Retinoic Acid-Induced Cell Differentiation and Necroptosis Masataka Someda|Shunsuke Kuroki|Makoto Tachibana|Shin Yonehara Kyoto University;|The University of Tokushima
http://dx.doi.org/10.1101/156992 2017-06-28 Developmental Biology Xbra and Smad-1 response elements cooperate in PV.1 promoter to inhibit the early neurogenesis in Xenopus embryos Shiv Kumar|Zobia Umair|Jaeho Yoon|Unjoo Lee|SungChan Kim|Jae-Bong Park|Jae-Yong Lee|Jaebong Kim Institute of Cell Differentiation and Aging;|Department of Electrical Engineering
http://dx.doi.org/10.1101/138412 2017-06-28 Cancer Biology Miniring approach for high-throughput drug screenings in 3D tumor models Nhan Phan|Bobby Tofig|Deanna Janzen|Jessica Huang|Sanaz Memarzadeh|Robert Damoiseaux|Alice Soragni UCLA
http://dx.doi.org/10.1101/156679 2017-06-27 Bioinformatics CC BY-NC GrapHi-C: Graph-based visualization of Hi-C Datasets Kimberly MacKay|Anthony Kusalik|Christopher H. Eskiw University of Saskatchewan
http://dx.doi.org/10.1101/152546 2017-06-27 Neuroscience More Highly Myelinated White Matter Tracts are Associated with Faster Processing Speed in Healthy Adults Sidhant Chopra|Marnie Shaw|Thomas Shaw|Perminder S Sachdev|Kaarin J Anstey|Nicolas Cherbuin Centre for Research on Ageing Health and Wellbeing, Australian National University;|Centre for Healthy Brain Ageing, School of Psychiatry, University of New South Wales
http://dx.doi.org/10.1101/156448 2017-06-27 Cell Biology CC BY-NC Characterization of a spectrally diverse set of fluorescent proteins as FRET acceptors for mTurquoise2 Marieke Mastop|Daphne S. Bindels|Nathan C. Shaner|Marten Postma|Theodorus W. J. Gadella|Joachim Goedhart University of Amsterdam;|The Scintillon Institute
http://dx.doi.org/10.1101/156828 2017-06-27 Molecular Biology CC BY HyperTRIBE identifies many in vivo targets of a RNA-binding protein Weijin Xu|Reazur Rahman|Michael Rosbash Department of Biology, HHMI and National Center for Behavioral Genomics, Brandeis University
http://dx.doi.org/10.1101/156687 2017-06-27 Neuroscience CC BY-NC Estimating short-term synaptic plasticity from pre- and postsynaptic spiking Abed Ghanbari|Aleksey Malyshev|Maxim Volgushev|Ian Stevenson University of Connecticut;|Institute of Higher Nervous Activity and Neurophysiology, Russian Academy of Science
http://dx.doi.org/10.1101/155580 2017-06-27 Bioinformatics De novo discovery of structural motifs in RNA 3D structures through clustering Ping Ge|Shahidul Islam|Cuncong Zhong|Shaojie Zhang University of Central Florida;|University of Kansas
http://dx.doi.org/10.1101/156513 2017-06-27 Cell Biology Tension-dependent stretching and folding of ZO-1 controls the localization of its interactors Domenica Spadaro|Shimin Le|Thierry Laroche|Isabelle Mean|Lionel Jond|Jie Yan|Sandra Citi University of Geneva;|University of Singapore;|EPFL
http://dx.doi.org/10.1101/156505 2017-06-27 Physiology Repeated-ischaemic exercise enhances mitochondrial and ion transport gene adaptations in human skeletal muscle: Role of muscle redox state and AMPK Danny Christiansen|Robyn M. Murphy|Jens Bangsbo|Christos Stathis|David J. Bishop Victoria University;|La Trobe University;|University of Copenhagen;|Victoria University, Melbourne, Australia
http://dx.doi.org/10.1101/130807 2017-06-27 Bioinformatics Ultrafast comparison of personal genomes Gustavo Glusman|Denise E. Mauldin|Leroy E. Hood|Max Robinson Institute for Systems Biology
http://dx.doi.org/10.1101/157263 2017-06-28 CC BY Inferring multi-scale neural mechanisms with brain network modelling Michael Schirner|Anthony Randal McIntosh|Viktor Jirsa|Gustavo Deco|Petra Ritter Charité;|Baycrest Centre;|Aix-Marseille Université;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/155747 2017-06-28 CC BY-NC-ND Myocardial injury in critically ill patients with community-acquired pneumonia Jos F. Frencken|Lottie van Baal|Teus H. Kappen|Dirk W. Donker|Janneke Horn|Tom van der Poll|Wilton A. van Klei|Marc J. M. Bonten|Olaf L. Cremer University Medical Center Utrecht;|Academic Medical Center
http://dx.doi.org/10.1101/157297 2017-06-28 CC BY Estimating the footprint of pollution on coral reefs using models of species turn-over Christopher Brown|Richard Hamilton Griffith University;|The Nature Conservancy
http://dx.doi.org/10.1101/157230 2017-06-28 CC BY-NC-ND Scalable and efficient single-cell DNA methylation sequencing by combinatorial indexing. Ryan M Mulqueen|Dmitry Pokholok|Steve Norberg|Andrew J Fields|Duanchen Sun|Kristof A Torkenczy|Jay Shendure|Cole Trapnell|Brian J O'Roak|Zheng Xia|Frank J Steemers|Andrew C Adey Oregon Health & Science University;|Illumina Inc.;|University of Washington
http://dx.doi.org/10.1101/156497 2017-06-28 CC BY-NC-ND Quantifying the Risk and Cost of Active Monitoring for Infectious Diseases Nicholas G. Reich|Justin Lessler|Jay K. Varma|Neil M. Vora University of Massachusetts Amherst;|Johns Hopkins Bloomberg School of Public Health;|New York City Dept. of Health & Mental Hygiene; Centers for Disease Control & Prevention
http://dx.doi.org/10.1101/157271 2017-06-28 Ruxolitinib partially reverses functional NK cell deficiency in patients with STAT1 gain-of-function mutations Alexander Vargas Hernandez|Emily M Mace|Ofer Zimmerman|Christa Zerbe|Alexandra Freeman|Sergio Rosenzweig|Jennifer W. Leiding|Troy Torgerson|Matthew C. Altman|Edith Schussler|Charlotte Cunningham-Rundles|Ivan K Chinn|Imelda C. Hanson|Nicholas L Rider|Steven M Holland|Jordan S Orange|Lisa R Forbes Baylor College of Medicine;|National Institutes of Health;|University of South Florida;|University of Washington;|Icahn School of Medicine at Mount Sinai;|National Institues of Health
http://dx.doi.org/10.1101/155739 2017-06-28 CC BY Investigating the role of insulin in increased adiposity: Bi-directional Mendelian randomization study Rebecca Richmond|Kaitlin Wade|Laura Corbin|Jack Bowden|Gibran Hemani|Nicholas Timpson|George Davey Smith University of Bristol
http://dx.doi.org/10.1101/157198 2017-06-28 CC BY-NC-ND A Genome-wide Association and Admixture Mapping Study of Bronchodilator Drug Response in African Americans with Asthma Melissa L. Spear|Donglei Hu|Maria Pino-Yanes|Scott Huntsman|Celeste Eng|Albert M. Levin|Marquitta J. White|Meghan E. McGarry|Neeta Thakur|Joshua M. Galanter|Angel C. Y. Mak|Sam S. Oh|Adam Davis|Rajesh Kumar|Harold J. Farber|Kelly Meade|Pedro C. Avila|Denise Serebrisky|Michael A. Lenoir|Emerita A. Brigino-Buenaventura|William Rodriquez Cintron|Shannon M. Thyne|Jose R. Rodriguez-Santana|Jean G. Ford|Rocio Chapela|Andres Moreno Estrada|Karla Sandoval|Max A. Seibold|L. Keoki Williams|Cheryl A. Winkler|Dara G. Torgerson|Ryan D. Hernandez|Esteban G. Burchard University of California San Francisco;|Universidad de La Laguna;|Henry Ford Health System;|UCSF Benioff Childrens Hospital Oakland;|Ann & Robert H. Lurie Childrens Hospital of Chicago;|Baylor College of Medicine and Texas Childrens Hospital;|Northwestern University Feinberg School of Medicine;|Jacobi Medical Center; Albert Einstein College of Medicine;|Bay Area Pediatrics;|Kaiser Permanente-Vallejo Medical Center;|Veterans Caribbean Health System;|David Geffen School of Medicine at ULCA, Olive View-UCLA Medical Center;|Centro de Neumologia Pediatrica;|Columbia University;|Instituto Nacional de Enfermedades Respiratorias;|National Laboratory of Genomics for Biodiversity (LANGEBIO);|National Jewish Health;|Frederick National Laboratory
http://dx.doi.org/10.1101/157073 2017-06-28 CC BY-NC-ND A model for sheath formation coupled to motility in Leptothrix ochracea James Vesenka|James Havu|David Emerson University of New England;|Florida Institute of Technology;|Bigelow Laboratory
http://dx.doi.org/10.1101/157222 2017-06-28 Specific patterns of bold variability associated with the processing of pain stimuli Tommaso Costa|Andrea Nani|Jordi Manuello|Ugo Vercelli|Karina Tatu|Franco Cauda University of Turin
http://dx.doi.org/10.1101/157123 2017-06-28 CC BY Superior Colliculus Neuronal Ensemble Activity Signals Optimal Rather Than Subjective Confidence Brian Odegaard|Piercesare Grimaldi|Seong Hah Cho|Megan A. K. Peters|Hakwan Lau|Michele A. Basso University of California-Los Angeles
http://dx.doi.org/10.1101/157040 2017-06-28 Nanopore-based single molecule sequencing of the D4Z4 array responsible for facioscapulohumeral muscular dystrophy Satomi Mitsuhashi|So Nakagawa|Mahoko Ueda|Tadashi Imanishi|Hiroaki Mitsuhashi Yokohama City University;|Tokai University;|Tokai University School of Medicine
http://dx.doi.org/10.1101/157115 2017-06-28 CC BY-ND Instantaneous Brain Dynamics Mapped to a Continuous State Space Jacob Billings|Alessio Medda|Sadia Shakil|Xiaohong Shen|Amrit Kashyap|Shiyang Chen|Anzar Abbas|Xiaodi Zhang|Maysam Nezafati|Wen-Ju Pan|Gordon Berman|Shella Keilholz Emory University;|Georgia Tech Research Institute;|Institute of Space Technology;|Shandong University of Finance and Economics of China;|Georgia Institute of Technology;|Georgia Institute of Technology and Emory University
http://dx.doi.org/10.1101/157149 2017-06-28 CC BY-NC-ND Variation in neuronal activity state, axonal projection target, and position principally define the transcriptional identity of individual neocortical projection neurons. Maxime A. Chevee|Johanna D. Robertson|Gabrielle H. Cannon|Solange P. Brown|Loyal A. Goff Johns Hopkins University
http://dx.doi.org/10.1101/152793 2017-06-28 Linkage mapping of yeast cross protection connects gene expression variation to a higher-order organismal trait Tara N. Stuecker|Amanda N. Scholes|Jeffrey A. Lewis University of Arkansas
http://dx.doi.org/10.1101/157164 2017-06-28 Transit and integration of extracellular mitochondria in human heart cells Douglas B. Cowan|Rouan Yao|Jerusha K. Thedsanamoorthy|David Zurakowski|Pedro J. del Nido|James D. McCully Boston Children's Hospital
http://dx.doi.org/10.1101/157099 2017-06-28 CC BY-NC-ND Systems Therapeutics for Axonal Regeneration in the Central Nervous System Mustafa M. Siddiq|Yana Zorina|Jens Hansen|Arjun Yadaw|Vera Rabinovich|Sarah M. Gregorich|Yuguang Xiong|Ehud Kaplan|Robert D. Blitzer|Marie T. Filbin|Christopher L. Passaglia|Ravi Iyengar Icahn School of Medicine at Mount Sinai;|USF Tampa;|Hunter College
http://dx.doi.org/10.1101/156612 2017-06-28 CC BY Origin of pest lineages of the Colorado potato beetle, Leptinotarsa decemlineata Victor Izzo|Yolanda H. Chen|Sean D. Schoville|Cong Wang|David J. Hawthorne Department of Plant and Soil Science, University of Vermont, Burlington, VT, USA;|Department of Entomology, University of Wisconsin, Madison, WI, USA;|Department of Entomology, University of Maryland, College Park, MD, USA
http://dx.doi.org/10.1101/157180 2017-06-28 CC BY Hypoosmolar dose-dependent swelling occurs in both pyramidal neurons and astrocytes in acute hippocampal slices Thomas R. Murphy|David Davila|Nicholas Cuvelier|Leslie R. Young|Kelli Lauderdale|Devin K. Binder|Todd A. Fiacco University of California, Riverside
http://dx.doi.org/10.1101/157057 2017-06-28 Universal Microfluidic System for Analysis and Control of Cell Dynamics Ce Zhang|Hsiung-Lin Tu|Gengjie Jia|Tanzila Mukhtar|Verdon Taylor|Andrey Rzhetsky|Savas Tay University of Chicago;|University of Basel
http://dx.doi.org/10.1101/157131 2017-06-28 CC BY-NC-ND Sign of selection on mutation rate modifiers depends on population size Yevgeniy Raynes|C. Scott Wylie|Paul D. Sniegowski|Daniel M. Weinreich Brown University;|University of Pennsylvania
http://dx.doi.org/10.1101/156935 2017-06-28 Neuroscience CC BY-NC-ND Increased prefrontal activity with aging reflects nonspecific neural responses rather than compensation Alexa M. Morcom|Richard N. Henson University of Edinburgh;|-;|MRC Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/156976 2017-06-28 Neuroscience The Mouse Cortical Interareal Network Reveals Well Defined Connectivity Profiles and an Ultra Dense Cortical Graph Razvan Gamanut|Henry Kennedy|Zoltan Toroczkai|David Van Essen|Kenneth Knoblauch|Andreas Burkhalter Univ de Lyon, Univ Claude Bernard Lyon 1, Inserm U1208, Bron, France;|Interdisc. Ctr. for Network Science & Applications, Dept. of Physics, Univ. of Notre Dame;|Department of Neuroscience, Washington University School of Medicine, St. Louis, MO
http://dx.doi.org/10.1101/156646 2017-06-28 Cancer Biology Distinct epigenetic shift in a subset of Glioma CpG island methylator phenotype (G-CIMP) during tumor recurrence Camila F. de Souza|Thais S. Sabedot|Tathiane M. Malta|Lindsay Stetson|Olena Morozova|Artem Sokolov|Peter W. Laird|Maciej Wiznerowicz|Antonio Iavarone|James Snyder|Ana C. deCarvalho|Zachary Sanborn|Kerrie L. McDonald|William A. Friedman|Daniela Tirapelli|Laila Poisson|Tom Mikkelsen|Carlos G. Carlotti|Steven N. Kalkanis|Jean C. Zenklusen|Sofie R. Salama|Jill S. Barnholtz-Sloan|Houtan Noushmehr Department of Neurosurgery, Henry Ford Health System;|Case Comprehensive Cancer Center, Case Western Reserve University School of Medicine;|UC Santa Cruz Genomics Institute and Howard Hughes Medical Institute;|Laboratory of Systems Pharmacology, Harvard Medical School;|Center for Epigenetics, Van Andel Research Institute;|Department of Cancer Immunology, Poznan University of Medical Sciences;|Department of Pathology, Columbia University;|NantOmics, LLC;|Cure Brain Cancer Biomarkers and Translational Research Laboratory;|University of Florida;|Department of Surgery and Anatomy, Ribeirao Preto Medical School;|Henry Ford Health System;|National Cancer Institute
http://dx.doi.org/10.1101/157032 2017-06-28 Neuroscience CC BY-NC Discrete and coordinated encoding of punishment contingent on rewarded actions by prefrontal cortex and VTA Junchol Park|Bita Moghaddam Janelia Research Center, Howard Hughes Medical Institute;|Oregon Health and Science University
http://dx.doi.org/10.1101/156851 2017-06-28 Microbiology CC BY-NC-ND Bacterial community profiles and Vibrio parahaemolyticus abundance in individual oysters and their association with estuarine ecology Ashley L. Marcinkiewicz|Brian M. Schuster|Stephen H. Jones|Vaughn S. Cooper|Cheryl A. Whistler University of New Hampshire;|University of Pittsburgh
http://dx.doi.org/10.1101/156927 2017-06-28 Bioengineering Genetic-metabolic coupling for targeted metabolic engineering Stefano Cardinale|Felipe Gonzalo Tueros Farfan|Morten Otto Alexander Sommer Technical University of Denmark
http://dx.doi.org/10.1101/157016 2017-06-28 Evolutionary Biology Human-specific changes in two functional enhancers of FOXP2 Antonio Benitez-Burraco|Raul Torres-Ruiz|Pere Gelabert Xirinachs|Carles Lalueza-Fox|Sandra Rodriguez-Perales|Paloma Garcia-Bellido University of Huelva;|CNIO;|CSIC/Pompeu Fabra University;|University of Oxford
http://dx.doi.org/10.1101/156802 2017-06-28 Neuroscience CC BY Neural Responses to Heartbeats of Physically Trained and Sedentary Young Adults Pandelis Perakakis|Antonio Luque-Casado|Luis F. Ciria|Plamen Ch. Ivanov|Daniel Sanabria University of Granada;|Boston University
http://dx.doi.org/10.1101/156984 2017-06-28 Neuroscience Insular cortex sub-region-dependent distribution pattern of α-synuclein immunoreactivity in Parkinson's disease and dementia with Lewy bodies Yasmine Yousri Fathy|Frank Jan de Jong|Anne-Marie van Dam|Annemieke J. M. Rozemuller|Wilma D. J. van de Berg Vrije University Medical Center;|Erasmus Medical Center
http://dx.doi.org/10.1101/156950 2017-06-28 Genetics CC BY CRISPRi is not strand-specific and redefines the transcriptional landscape Francoise S. Howe|Andrew Russell|Afaf El-Sagheer|Anitha Nair|Tom Brown|Jane Mellor University of Oxford
http://dx.doi.org/10.1101/156877 2017-06-28 Molecular Biology The mechanism of transcription start site selection Libing Yu|Jared Winkelman|Chirangini Pukhrambam|Terence Strick|Bryce Nickels|Richard H. Ebright Rutgers University;|Ecole Normale Superieure;|Waksman Institute
http://dx.doi.org/10.1101/156844 2017-06-28 Cell Biology Dynamics of the IFT Machinery at the Ciliary Tip Alexander Chien|Sheng Min Shih|Raqual Bower|Douglas Tritschler|Mary E. Porter|Ahmet Yildiz University of California, Berkeley;|University of Minnesota, Minneapolis
http://dx.doi.org/10.1101/156893 2017-06-28 Cancer Biology A Bulky Glycocalyx Fosters Metastasis Formation by Promoting G1 Cell Cycle Progression Elliot C. Woods|J. Matthew Barnes|Michael W. Pickup|Kayvon Pedram|FuiBoon Kai|Michael J. Hollander|Valerie M. Weaver|Carolyn R. Bertozzi Stanford University;|UCSF
http://dx.doi.org/10.1101/157396 2017-06-29 CC BY-ND Artemisinin mimics nitric oxide to reduce adipose weight by targeting mitochondrial complexes Qian Gao|Jiang He|Tao Liao|Yan-Ping Chen|Li-Li Tan|Ji-Da Zhang|Chang-Qing Li|Qing Zeng|Qi Wang|Shui-Qing Huang|Xin-An Huang|Qin Xu|Qing-Ping Zeng Tropical Medicine Institute, Guangzhou University of Chinese Medicine;|College of Basic Medical Sciences, Zhejiang Chinese Medical University;|College of Pharmacy, Jinan University;|Clinical Pharmacology Institute, Guangzhou University of Chinese Medicine;|Basic Medical Science College, Guangzhou University of Chinese Medicine
http://dx.doi.org/10.1101/157289 2017-06-29 Neuroscience CC BY Classifiers with limited connectivity Lyudmila Kushnir|Stefano Fusi Ecole Normale Superieure;|Columbia University
http://dx.doi.org/10.1101/157438 2017-06-29 Neuroscience Does human primary motor cortex represent sequences of finger movements? Atsushi Yokoi|Spencer A. Arbuckle|Jorn Diedrichsen Osaka University;|Western University
http://dx.doi.org/10.1101/157453 2017-06-29 Neuroscience Spatially dispersed synapses yield sharply-tuned place cell responses through dendritic spike initiation Reshma Basak|Rishikesh Narayanan Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/141721 2017-06-29 Systems Biology CC BY RetroPath2.0: A retrosynthesis workflow for metabolic engineers Baudoin Delepine|Thomas Duigou|Pablo Carbonell|Jean-Loup Faulon CNRS, University Paris-Saclay, CEA, DRF, IG, INRA;|INRA;|University of Manchester;|INRA, University of Manchester, CNRS, University Paris-Saclay, CEA, DRF, IG
http://dx.doi.org/10.1101/157545 2017-06-29 Microbiology Statistics and simulation of growth of single bacterial cells: illustrations with B. subtilis and E. coli Johan H. van Heerden|Hermannus Kempe|Anne Doerr|Timo Maarleveld|Niclas Nordholt|Frank J. Bruggeman Vrije Universiteit Amsterdam;|University of Amsterdam;|TU Delft
http://dx.doi.org/10.1101/157503 2017-06-29 Microbiology Antidiabetic drugs 'gliptin' affect biofilm formation by the cariogenic bacterium Streptococcus mutans through inhibition of the bacterial DPP IV-like enzyme Arpan De|Arianna Pompilio|Jenifer Francis|Iain C. Sutcliffe|Gary W. Black|Giulio Lupidi|Dezemona Petrelli|Luca Agostino Vitali University of Camerino, Italy;|“G. d'Annunzio” University of Chieti-Pescara, Italy;|Northumbria University, Newcastle upon Tyne, UK
http://dx.doi.org/10.1101/156570 2017-06-29 Neuroscience The eardrum moves when the eyes move: A multisensory effect on the mechanics of hearing Kurtis G. Gruters|David L. K. Murphy|David W. Smith|Christopher A. Shera|Jennifer M. Groh Duke University;|University of Florida;|University of Southern California
http://dx.doi.org/10.1101/157511 2017-06-29 Microbiology CC BY-NC-ND Gut microbiota in the burying beetle, Nicrophorus vespilloides, provide colonization resistance against larval bacterial pathogens Yin Wang|Daniel Rozen Institute of Biology, Leiden
http://dx.doi.org/10.1101/157362 2017-06-29 Bioengineering CC BY-NC-ND Recapitulating bone development for tissue regeneration through engineered mesenchymal condensations and mechanical cues Anna M. McDermott|Samuel Herberg|Devon E. Mason|Hope B. Pearson|James H. Dawahare|Joseph M. Collins|Mark W. Grinstaff|Daniel J. Kelly|Eben Alsberg|Joel D. Boerckel University of Pennsylvania;|Case Western Reserve University;|University of Notre Dame;|Boston University;|Trinity College Dublin
http://dx.doi.org/10.1101/157529 2017-06-29 Cell Biology Differential activation of Fyn kinase distinguishes saturated and unsaturated fats in mouse macrophages Elena Tarabra|Ting-Wen A. Lee|Victor A. Zammit|Manu Vatish|Eijiro Yamada|Jeffrey E. Pessin|Claire C. Bastie Albert Einstein Collge of Medicine;|The Valley Hospital;|University of Warwick;|University of Oxford;|Gunma University;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/157347 2017-06-29 Biochemistry CC BY-NC-ND A mannitol/sorbitol receptor stimulates dietary intake in Tribolium castaneum Tomoyuki Takada|Ryoichi Sato|Shingo Kikuta Tokyo University of Agriculture and Technology
http://dx.doi.org/10.1101/157248 2017-06-29 Molecular Biology Proteomic Architecture of Human Coronary and Aortic Atherosclerosis David Herrington|Chunhong Mao|Sarah Parker|Zongming Fu|Guoqiang Yu|Lulu Chen|Vidya Venkatraman|Yi Fu|Yizhi Wang|Tim Howard|Jun Goo|Caroline Zhao|Yongming Liu|Georgia Saylor|Grace Athas|Dana Troxclair|James Hixson|Richard Vander Heide|Yue Wang|Jennifer Van Eyk Wake Forest University School of Medicine;|Virginia Bioinformatics Institute, Virginia Tech;|Adv. Clinical Biosystems Res. Inst.; The Heart Inst.; Dept. of Medicine, Cedars-Sinai Med. Ctr.;|Johns Hopkins Medical Institute;|Dept. of Electrical & Computer Engineering, Virginia Polytechnic Institute and State University;|Center for Genomics and Personalized Medicine Research, Wake Forest School of Medicine;|Dept. of Epidemiol., Human Genet. & Environ. Sci., School of Pub. Health, UT Health Sci Ctr.;|Section on Cardiovascular Medicine, Dept. of Medicine, Wake Forest School of Medicine;|Dept. of Epidemiology, Div. of Public Health Sciences, Wake Forest School of Medicine;|Department of Pathology, Louisiana State Health Science Center
http://dx.doi.org/10.1101/157537 2017-06-29 Developmental Biology CC BY-NC-ND ICM conversion to epiblast by FGF/ERK inhibition is limited in time and requires transcription and protein degradation Sylvain Bessonnard|Sabrina Coqueran|Sandrine Vandormael-Pournin|Alexandre Dufour|Jerome Artus|Michel Cohen-Tannoudji Institut Pasteur
http://dx.doi.org/10.1101/156869 2017-06-29 Ecology Bat Detective - Deep Learning Tools for Bat Acoustic Signal Detection Oisin Mac Aodha|Rory Gibb|Kate Barlow|Ella Browning|Michael Firman|Robin Freeman|Briana Harder|Libby Kinsey|Gary Mead|Stuart Newson|Ivan Pandourski|Stuart Parsons|Jon Russ|Abigel Szodoray-Paradi|Farkas Szodoray-Paradi|Elena Tilova|Mark Girolami|Gabriel Brostow|Kate E. Jones University College London;|Bat Conservation Trust;|Institute of Zoology;|Bellevue WA;|Wickford Essex;|British Trust for Ornithology;|Bulgaria Academy of Sciences;|Queensland University of Technology;|Ridgeway Ecology;|Romanian Bat Protection Association;|Green Balkans;|Imperial College London
http://dx.doi.org/10.1101/155135 2017-06-29 Bioinformatics CC BY-NC-ND Identification and visualization of differential isoform expression in RNA-seq time series Maria Jose Nueda|Jordi Martorell-Marugan|Cristina Marti|Sonia Tarazona|Ana Conesa University of Alicante;|Prince Felipe Research Center
http://dx.doi.org/10.1101/157008 2017-06-29 Ecology CC BY-ND Transcriptomic Resilience of a Coral Holobiont to Low pH Raul Augusto Gonzalez-Pech|Sergio Vargas|Warren Francis|Gert Worheide Dept. of Earth & Environmental Sci., Palaeontology & Geobiology, Ludwig Maximilians Univ.
http://dx.doi.org/10.1101/157313 2017-06-29 Biophysics CC BY The role of traction in membrane curvature generation Haleh Alimohamadi|Ritvik Vasan|Julian Edwin Hassinger|Jeanne Stachowiak|Padmini Rangamani University of California San Diego;|University of California, Berkeley;|University of Texas at Austin
http://dx.doi.org/10.1101/157412 2017-06-29 Biochemistry CC BY Allosteric Logic of the V. vulnificus Adenine Riboswitch Resolved by Four-dimensional Chemical Mapping Siqi Tian|Wipapat Kladwang|Rhiju Das Stanford University, United States
http://dx.doi.org/10.1101/157479 2017-06-29 Physiology The application of deep convolutional neural networks to ultrasound for modelling of dynamic states within human skeletal muscle Ryan J Cunningham|Peter John Harding|Ian Loram Manchester Metropolitan University
http://dx.doi.org/10.1101/157024 2017-06-28 Genomics CC BY-NC-ND Balancing the Local and the Universal in Maintaining Ethical Access to a Genomics Biobank Catherine Heeney|Shona M. Kerr Science, Technology and Innovation Studies, University of Edinburgh;|MRC Human Genetics Unit, University of Edinburgh
http://dx.doi.org/10.1101/157214 2017-06-28 Evolutionary Biology CC BY-NC To increase trust, change the social design behind aggregated biodiversity data Nico Franz|Beckett Sterner Arizona State University
http://dx.doi.org/10.1101/157594 2017-06-29 CC BY Birds have swing: Multifractal analysis reveals expressive rhythm in birdsong. Tina C Roeske|Damian Kelty-Stephen|Sebastian Wallot Max Planck Institute for Empirical Aesthetics;|Grinnell College
http://dx.doi.org/10.1101/157800 2017-06-29 CC BY Tracking Subclonal Mutation Frequencies Throughout Lymphomagenesis Identifies Cancer Drivers in Mouse Models of Lymphoma. Philip Webster|Joanna C. Dawes|Hamlata Dewchand|Katalin Takacs|Barbara Iadarola|Bruce J. Bolt|Juan J. Caceres|Jakub Kaczor|Laurence Game|Thomas Adejumo|James Elliott|Kikkeri Naresh|Ge Tan|Gopuraja Dharmalingam|Alberto Paccanaro|Anthony Uren MRC LMS Imperial College;|Imperial College Healthcare NHS Trust, London;|Royal Holloway
http://dx.doi.org/10.1101/157610 2017-06-29 Genetics CC BY Machine learning analysis identifies Drosophila Grunge/Atrophin as an important learning and memory gene required for memory retention and social learning. Balint Z. Kacsoh|Casey Greene|Giovanni Bosco Dartmouth College Geisel School of Medicine;|University of Pennsylvania
http://dx.doi.org/10.1101/157719 2017-06-29 Biophysics CC BY-NC-ND Pivot-and-bond model explains microtubule bundle formation Marcel Prelogovic|Lora Winters|Ana Milas|Iva Tolic|Nenad Pavin Faculty of Science, University of Zagreb, Croatia;|Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany;|Division of Molecular Biology, Ruder Boskovic Institute, Zagreb, Croatia
http://dx.doi.org/10.1101/157735 2017-06-29 Bioinformatics CC BY GIGGLE: a search engine for large-scale integrated genome analysis Ryan M. Layer|Brent S. Pedersen|Tonya DiSera|Gabor T. Marth|Jason Gertz|Aaron R. Quinlan University of Utah
http://dx.doi.org/10.1101/156695 2017-06-29 Synthetic Biology Designing Anti-Zika Virus Peptides Derived from Predicted Human-Zika Virus Protein-Protein Interactions Tom Kazmirchuk|Kevin Dick|Daniel J. Burnside|Brad Barnes|Houman Moteshareie|Maryam Hajikarimlou|Katayoun Omidi|Duale Ahmed|Andrew Low|Clara Lettl|Mohsen Hooshyar|Andrew Schoenrock|Sylvain Pitre|Mohan Babu|Edana Cassol|Bahram Samanfar|Alex Wong|Frank Dehne|James R. Green|Ashkan Golshani Carleton University;|University of Regina;|Agriculture and Agri-Food Canada
http://dx.doi.org/10.1101/157602 2017-06-29 Microbiology CC BY-NC-ND Identification of Rab18 as an Essential Host Factor for BKPyV Infection Using a Whole Genome RNA Interference Screen Linbo Zhao|Michael Imperiale University of Michigan
http://dx.doi.org/10.1101/157636 2017-06-29 Genetics CC BY-NC-ND Genetic risk for schizophrenia influences substance use in emerging adulthood: an event-level polygenic prediction model Travis Triplett Mallard|K. Paige Harden|Kim Fromme University of Texas at Austin
http://dx.doi.org/10.1101/157750 2017-06-29 Cell Biology Assay to visualize specific protein oxidation reveals spatio-temporal regulation of SHP2 Ryouhei Tsutsumi|Jana Harizanova|Rabea Stockert|Katrin Schroder|Philippe I. H. Bastiaens|Benjamin G. Neel New York University Langone Medical Center;|Department of Systemic Cell Biology, Max Planck Institute of Molecular Physiology;|Institute of Physiology, Goethe University;|Max Planck Institute of Molecular Physiology; Technical University of Dortmund;|Perlmutter Cancer Center, New York University Langone Medical Center
http://dx.doi.org/10.1101/157206 2017-06-29 Genomics CC BY Cost-effective, high-throughput, single-haplotype iterative mapping and sequencing for complex genomic structures Daniel W. Bellott|Ting-Jan Cho|Jennifer F. Hughes|Helen Skaletsky|David C. Page Whitehead Institute;|Whitehead Institue
http://dx.doi.org/10.1101/157966 2017-06-30 SHP2 Is Required for BCR-ABL1-Induced Hematologic Neoplasms Shengqing Gu|Azin Sayad|Gordon Chan|Wentian Yang|Zhibin Lu|Carl Virtanen|Richard A Van Etten|Benjamin G Neel University of Toronto;|Princess Margaret Cancer Center;|Brown University;|University of California, Irvine;|NYU Langone Medical Center
http://dx.doi.org/10.1101/156752 2017-06-30 A benchmarking of workflows for detecting differential splicing and differential expression at isoform level in human RNA-seq studies Gabriela A Merino|Ana Conesa|Elmer A Fernandez CIDIE-CONICET;|Genomic of Gene Expression Lab
http://dx.doi.org/10.1101/157784 2017-06-30 Sensor location optimization and joint angle prediction in hand postures Nayan Bhatt|Varadhan SKM Indian Institute of Technology Madras
http://dx.doi.org/10.1101/157578 2017-06-30 CC BY-ND Widely used commercial ELISA for human Zonulin reacts with Complement C3 rather than pre-Haptoglobin 2 Lucas Scheffler|Alyce Crane|Henrike O. Heyne|Anke Toenjes|Dorit Schleinitz|Christian H. Ihling|Michael Stumvoll|Peter Kovacs|John T. Heiker Leipzig University Medical Center, IFB AdiposityDiseases, Leipzig, Germany;|Divisions of Endocrinology and Nephrology, University of Leipzig, Leipzig, Germany;|Department of Pharmaceutical Chemistry and Bioanalytics, Institute of Pharmacy, MLU Halle;|Inst. of Biochemistry, Faculty of Biosciences, Pharmacy & Psychology, University of Leipzig
http://dx.doi.org/10.1101/157743 2017-06-30 Two phosphoglucomutase paralogs regulate triggered secretion of the Toxoplasma micronemes Sudeshna Saha|Bradley I. Coleman|Tiffany Sansom|Rashmi Dubey|Ira J. Blader|Marc-Jan Gubbels Boston College;|SUNY Buffalo
http://dx.doi.org/10.1101/157859 2017-06-30 CC BY Analysis of behaviour in the Active Allothetic Place Avoidance task based on cluster analysis of the rat movement motifs Tiago V. Gehring|Malgorzata J. Wesierska|Daniel K. Wojcik|Eleni Vasilaki The University of Sheffield;|Nencki Institute of Experimental Biology of Polish Academy of Sciences
http://dx.doi.org/10.1101/157727 2017-06-30 CC BY-ND Obstruction of pilus retraction stimulates bacterial surface sensing Courtney K Ellison|Jingbo Kan|Rebecca S Dillard|David T Kysela|Cheri M. Hampton|Zunlong Ke|Elizabeth R Wright|Nicolas Biais|Ankur B Dalia|Yves V Brun Indiana University;|CUNY Brooklyn College;|Emory University
http://dx.doi.org/10.1101/157958 2017-06-30 CC BY-NC-ND Integration of plasticity mechanisms within a single sensory neuron of C. elegans actuates a memory Josh D. Hawk|Ana C. Calvo|Agustin Almoril-Porras|Ahmad Aljobeh|Maria Luisa Torruella-Suarez|Ivy Ren|Nathan Cook|Joel Greenwood|Linjiao Luo|Aravinthan D.T. Samuel|Daniel Colon-Ramos Yale University School of Medicine;|Harvard University;|Nanjing University;|Yale University
http://dx.doi.org/10.1101/157552 2017-06-30 CC BY-NC-ND Widespread pleiotropy confounds causal relationships between complex traits and diseases inferred from Mendelian randomization Marie Verbanck|Chia-Yen Chen|Benjamin Neale|Ron Do Icahn School of Medicine at Mount Sinai;|Massachusetts General Hospital
http://dx.doi.org/10.1101/157685 2017-06-30 Cryptography for genetic material Sterling Sawaya GeneInfoSec LLC
http://dx.doi.org/10.1101/143636 2017-06-30 Burst Ensemble Multiplexing: A Neural Code Connecting Dendritic Spikes with Microcircuits Richard Naud|Henning Sprekeler University of Ottawa;|Technische Universitaet
http://dx.doi.org/10.1101/157925 2017-06-30 Questioning unexpected CRISPR off-target mutations in vivo Sang-Tae Kim|Jeongbin Park|Daesik Kim|Kyoungmi Kim|Sangsu Bae|Matthias Schlesner|Jin-Soo Kim Institute for Basic Science;|Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ);|Department of Chemistry, Seoul National University;|Center for Genome Engineering, Institute for Basic Science;|Department of Chemistry, Hanyang University;|Bioinformatics and Omics Data Analytics, German Cancer Research Center (DKFZ);|Seoul National University
http://dx.doi.org/10.1101/157776 2017-06-30 GWAS of epigenetic ageing rates in blood reveals a critical role for TERT Ake T. Lu|Luting Xue|Elias L. Salfati|Brian H. Chen|Luigi Ferrucci|Daniel Levy|Roby Joehanes|Joanne M. Murabito|Douglas P. Kiel|Pei-Chien Tsai|Idil Yet|Jordana T. Bell|Massimo Mangino|Toshiko Tanaka|Allan McRae|Riccardo E. Marioni|Peter M. Visscher|Naomi R. Wray|Ian J. Deary|Morgan E. Levine|Austin Quach|Themistocles L. Assimes|Philip S. Tsao|Devin Absher|James D. Stewart|Yun Li|Alex P. Reiner|Lifang Hou|Andrea A. Baccarelli|Eric A. Whitsel|Abraham Aviv|Alexia Cardona|Felix R. Day|John R. B. Perry|Ken K. Ong|Kenneth Raj|Kathryn L. Lunetta|Steve Horvath Department of Human Genetics, UCLA;|Boston University School of Public Health;|Stanford University School of Medicine;|National Institute on Aging, National Institutes of Health;|Clinical Research Branch, National Institute on Aging;|National Heart, Lung and Blood Institute;|Harvard Medical School;|Department of Twin Research and Genetic Epidemiology, King's College London;|King's College London;|National Institute on Aging;|University of Queensland;|University of Edinburgh;|The University of Queensland;|UCLA;|Stanford University;|HudsonAlpha Institute for Biotechnology;|University of North Carolina;|Fred Hutchinson Cancer Research Center;|Northwestern University;|Columbia University;|University of Medicine and Dentistry, New Jersey Medical School;|University of Cambridge;|Public Health England;|Boston University
http://dx.doi.org/10.1101/147587 2017-06-30 CC BY-NC LINE-1 and the cell cycle: protein localization and functional dynamics Paolo Mita|Aleksandra Wudzinska|Xiaoji Sun|Joshua Andrade|Shruti Nayak|David Kahler|Sana Badri|John LaCava|Beatrix Ueberheide|Chi Yun|David Fenyo|Jef Boeke Institute of Systems Genetics (ISG), Dpt.Biochemistry and Molecular Pharmacology, NYULMC;|Proteomics laboratory, NYU Langone Medical Center, New York NY 10016;|High Throughput Biology (HTB) Laboratory, NYU Langone Medical Center;|Center for Health Informatics and Bioinformatics, NYU Langone Medical Center;|Laboratory of Cellular and Structural Biology, The Rockefeller University, New York;|High Throughput Biology (HTB) Laboratory, NYU Langone Medical Center, New York
http://dx.doi.org/10.1101/157826 2017-06-30 CC BY-NC The Latent Semantic Space and Corresponding Brain Regions of the Functional Neuroimaging Literature via NeuroSynth Fahd Alhazmi|Derek Beaton|Herve Abdi School of Behavioral and Brain Sciences, The University of Texas at Dallas;|Rotman Research Institute, Baycrest Health Sciences
http://dx.doi.org/10.1101/157842 2017-06-30 CC BY Morphometrics of complex cell shapes: Lobe Contribution Elliptic Fourier Analysis (LOCO-EFA) Yara E. Sanchez-Corrales|Matthew Hartley|Jop van Rooij|Stan F. M. Maree|Veronica Grieneisen MRC-Laboratory of Molecular Biology;|Computational and Systems Biology, John Innes Centre
http://dx.doi.org/10.1101/157883 2017-06-30 Parent-progeny imputation from pooled samples for cost-efficient genotyping in plant breeding Frank Technow|Justin Gerke DuPont Pioneer
http://dx.doi.org/10.1101/157560 2017-06-30 Genomics Genomic footprints of activated telomere maintenance mechanisms in cancer Lina Sieverling|Chen Hong|Sandra D. Koser|Philip Ginsbach|Kortine Kleinheinz|Barbara Hutter|Delia M. Braun|Isidro Cortes-Ciriano|Ruibin Xi|Rolf Kabbe|Peter J. Park|Roland Eils|Matthias Schlesner|Karsten Rippe|David T. W. Jones|Benedikt Brors|Lars Feuerbach German Cancer Research Center (DKFZ);|German Cancer Research Center (DKFZ); BIOQUANT;|Harvard Medical School; University of Cambridge; Ludwig Center at Harvard;|Peking University;|Harvard Medical School; Ludwig Center at Harvard;|German Cancer Research Center (DKFZ); Inst. for Pharmacy & Molec. Biotechnol; BIOQUANT;|German Cancer Research Center (DKFZ); German Cancer Consortium (DKTK)
http://dx.doi.org/10.1101/157628 2017-06-30 Neuroscience CC BY Compressive Temporal Summation in Human Visual Cortex Jingyang Zhou|Noah C Benson|Kendrick Kay|Jonathan Winawer NYU;|University of Minnesota
http://dx.doi.org/10.1101/157081 2017-06-30 Genomics CC BY-ND Analysis of the Aedes albopictus C6/36 genome provides insight into cell line adaptations to in vitro viral propagation Jason R. Miller|Sergey Koren|Kari A. Dilley|Vinita Puri|David M. Brown|Derek M. Harkins|Francoise Thibaud-Nissen|Benjamin Rosen|Xiao-Guang Chen|Zhijian Tu|Igor V. Sharakhov|Maria V. Sharakhova|Robert Sebra|Timothy B. Stockwell|Nicholas H. Bergman|Granger G. Sutton|Adam M. Phillippy|Peter M. Piermarini|Reed S. Shabman JCVI;|NHGRI;|NCBI;|USDA;|SMU Guangzhou;|Virginia Tech;|MSSM;|NBACC;|Ohio State University;|ATCC
http://dx.doi.org/10.1101/157677 2017-06-30 Bioengineering The Influence of Aging and Mechanical Stretch in Alveolar Epithelium ER Stress and Inflammation Michael S Valentine|Joseph A. Herbert|Patrick A. Link|Franck J Kamga Gninzeko|Matthew B. Schneck|Keerthana Shankar|Jewel Nkwocha|Angela M. Reynolds|Rebecca L. Heise Virginia Commonwealth University
http://dx.doi.org/10.1101/157701 2017-06-30 Animal Behavior and Cognition CC BY-NC-ND Semantic Networks Generated from Early Linguistic Input Andrei Amatuni|Elika Bergelson Duke University
http://dx.doi.org/10.1101/158014 2017-06-30 Neuroscience On the Origins of the Cerebral IVIM Signal Hannah V. Hare|Robert Frost|James A. Meakin|Daniel P. Bulte University of Oxford;|Harvard University;|RadboudUMC
http://dx.doi.org/10.1101/157404 2017-06-30 Cell Biology CC BY-NC-ND The tumor suppressor APC is an attenuator of spindle-pulling forces during C. elegans asymmetric cell division Kenji Sugioka|Lars-Eric Fielmich|Kota Mizumoto|Bruce Bowerman|Sander van den Heuvel|Akatsuki Kimura|Hitoshi Sawa University of Oregon, USA;|Utrecht University, Netherlands;|University of British Columbia, Canada;|National Institute of Genetics, Japan
http://dx.doi.org/10.1101/157818 2017-06-30 Molecular Biology CC BY-NC-ND Dissection of purified LINE-1 reveals distinct nuclear and cytoplasmic intermediates Kelly R Molloy|Martin S. Taylor|Ilya Altukhov|Paolo Mita|Hua Jiang|Emily M Adney|Aleksandra Wudzinska|Dmitry Ischenko|Kathleen H Burns|David Fenyo|Brian T. Chait|Dmitry Alexeev|Michael P Rout|Jef Boeke|John LaCava The Rockefeller University;|Massachusetts General Hospital;|Moscow Institute of Physics and Technology;|New York University School of Medicine;|Johns Hopkins University School of Medicine;|Novosibirsk State University
http://dx.doi.org/10.1101/157644 2017-06-30 Neuroscience CC BY-NC-ND From curiosity relief to epistemic surprise: complementary roles of the prefrontal cortex and the ventral striatum in the neural valuation of knowledge Romain Ligneul|Martial Mermillod|Tiffany Morisseau Donders Center for Cognitive Neuroimaging, Radboud University, Nijmegen;|University Pierre Mendes France, LPNC, Grenoble, France;|Central European University, Budapest
http://dx.doi.org/10.1101/157974 2017-06-30 Ecology Selfing species exhibit diminished niche breadth over time. Daniel S. Park|Aaron M. Ellison|Charles C. Davis Harvard University;|Harvard University Herbaria
http://dx.doi.org/10.1101/157693 2017-06-30 Genomics CC BY-NC-ND TECPR2 a positive regulator of autophagy is implicated in healthy brain ageing John Alexander|Thomas Stroebel|Marianthi Georgitsi|Michael Schuster|Thomas Penz|Christoph Bock|Selma Honigschnabl|Angelika Reiner|Peter Fischer|Peristera Paschou|Gabor Kovacs Department of Molecular Biology and Genetics, Democritus University of Thrace;|Institute of Neurology, Medical University Vienna;|Medical School, Aristotle University of Thessaloniki;|CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences;|Institute of Pathology, Danube Hospital Vienna;|Psychiatric Department, Medical Research Society Vienna, D.C., Danube Hospital;|Purdue University
http://dx.doi.org/10.1101/157768 2017-06-30 Evolutionary Biology PHYLOSCANNER: Analysing Within- and Between-Host Pathogen Genetic Diversity to Identify Transmission, Multiple Infection, Recombination and Contamination Chris Wymant|Matthew Hall|Oliver Ratmann|David Bonsall|Tanya Golubchik|Mariateresa de Cesare|Astrid Gall|Marion Cornelissen|Christophe Fraser University of Oxford;|Big Data Institute, Nuffield Department of Medicine, University of Oxford, UK;|Department of Infectious Disease Epidemiology, Imperial College London, UK;|Wellcome Trust Centre for Human Genetics, Nuffield Dept. of Medicine, University of Oxford;|Department of Veterinary Medicine, University of Cambridge, UK;|Dept. of Medical Microbiology, Academic Medical Center of the University of Amsterdam;|-
http://dx.doi.org/10.1101/158071 2017-06-30 Neuroscience Sleep deprivation negatively impacts reproductive output in Drosophila melanogaster Sheetal Potdar|Danita K Daniel|Femi A Thomas|Shraddha Lall|Vasu Sheeba Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/157834 2017-06-30 Developmental Biology CC BY-ND Synthesizing developmental trajectories Paul Villoutreix|Joakim Anden|Bomyi Lim|Hang Lu|Ioannis G. Kevrekidis|Amit Singer|Stanislav Y. Shvartsman Princeton University;|Georgia Institute of Technology
http://dx.doi.org/10.1101/157917 2017-06-30 Neuroscience CC BY-NC-ND Impact of different intensities of intermittent theta burst stimulation on the cortical properties during TMS-EEG and working memory performance Sung Wook Chung|Nigel C. Rogash|Kate E. Hoy|Caley M. Sullivan|Robin F. H. Cash|Paul B. Ftizgerald Monash University
http://dx.doi.org/10.1101/157941 2017-06-30 Neuroscience Taking off the training wheels: Measuring auditory P3 during outdoor cycling using an active wet EEG system Joanna E. M. Scanlon|Kimberley A. Townsend|Danielle L. Cormier|Jonathan W. P. Kuziek|Kyle Mathewson University of Alberta
http://dx.doi.org/10.1101/158063 2017-06-30 Evolutionary Biology Cell type-specific expression profiling sheds light on the development of a peculiar neuron, housing a complex organelle Kartik Sunagar|Yaara Columbus-Shenkar|Arie Fridrich|Nadya Gutkovitch|Reuven Aharoni|Yehu Moran The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/157875 2017-06-30 Genetics CC BY-ND Immune-related genetic enrichment in frontotemporal dementia Iris J. Broce|Celeste M. Karch|Natalie Wen|Chun C. Fan|Yunpeng Wang|Chin Hong Tan|Naomi Kouri|Owen A. Ross|Gunter U. Hoglinger|Ulrich Muller|John Hardy|Parastoo Momeni|Christopher P. Hess|William P. Dillon|Zachary A. Miller|Luke W. Bonham|Gil D. Rabinovici|Howard J. Rosen|Gerard D. Schellenberg|Andre Franke|Tom H. Karlsen|Jan H. Veldink|Raffaele Ferrari|Jennifer S. Yokoyama|Bruce L. Miller|Ole A. Andreassen|Anders M. Dale|Rahul S. Desikan|Leo P. Sugrue University of California, San Francisco;|Washington University;|University of California, San Diego;|Oslo University Hospital;|Mayo Clinic College of Medicine;|Technical University of Munich;|Justus-Liebig-Universität;|University College London;|-;|Texas Tech University Health Science Center;|University of Pennsylvania Perelman School of Medicine;|Christian-Albrechts-University Kiel;|University Medical Center Utrecht
http://dx.doi.org/10.1101/157891 2017-06-30 Physiology CC BY-ND Physiological factors of importance for load carriage Manne Godhe|Torbjoern Helge|C. Mikael Mattsson|Oerjan Ekblom|Bjoern Ekblom The Swedish School of Sport and Health Sciences
http://dx.doi.org/10.1101/156281 2017-06-30 Bioinformatics CC BY Patchwork of contrasting medication cultures across the USA Rachel D. Melamed|Andrey Rzhetsky University of Chicago
http://dx.doi.org/10.1101/155986 2017-06-30 Plant Biology CC BY-ND Correlated evolution of self and interspecific incompatibly across the range of a Texas wildflower Federico Roda|Robin Hopkins Harvard University
http://dx.doi.org/10.1101/157495 2017-06-30 Biochemistry CC BY-NC Evolution of an enzyme from a solute-binding protein Ben E. Clifton|Joe A. Kaczmarski|Paul D. Carr|Monica L. Gerth|Nobuhiko Tokuriki|Colin J. Jackson Australian National University;|University of Otago;|University of British Columbia
http://dx.doi.org/10.1101/157867 2017-06-30 Genetics Highly efficient site-specific mutagenesis in Malaria mosquitoes using CRISPR Ming Li|Omar Akbari|Bradley White University of California Riverside
http://dx.doi.org/10.1101/158212 2017-06-30 CC BY PEPA test: fast and powerful differential analysis from relative quantitative proteomics data using shared peptides Laurent Jacob|Florence Combes|Thomas Burger CNRS; Universite de Lyon;|CEA
http://dx.doi.org/10.1101/157305 2017-06-30 CC BY Sequential interactions with Mre11-Rad50-Nbs1 activate ATM/Tel1 at DNA double-strand breaks and telomeres Oliver Limbo|Yoshiki Yamada|Paul Russell The Scripps Research Institute
http://dx.doi.org/10.1101/158246 2017-06-30 Engineering post-translational proofreading to discriminate non-standard amino acids Aditya M Kunjapur|Devon A Stork|Erkin Kuru|Oscar Vargas-Rodriguez|Matthieu Landon|Dieter Soll|George M Church Department of Genetics, Harvard Medical School;|Department of Molecular Biophysics and Biochemistry, Yale University
http://dx.doi.org/10.1101/158170 2017-06-30 CC BY Unification of Countermanding and Perceptual Decision-making Paul G. Middlebrooks|Bram Zandbelt|Gordon D. Logan|Thomas J. Palmeri|Jeffrey D. Schall Vanderbilt University
http://dx.doi.org/10.1101/157792 2017-06-30 CC BY-NC-ND Detecting known repeat expansions with standard protocol next generation sequencing, towards developing a single screening test for neurological repeat expansion disorders Rick M. Tankard|Martin B. Delatycki|Paul J. Lockhart|Melanie Bahlo The Walter and Eliza Hall Institute of Medical Research;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/158329 2017-06-30 CC BY-NC-ND Evolutionary Action of de novo missense variants across pathways prioritizes genes linked to autism and predicts patient phenotypic severity Amanda Koire|Christie Buchovecky|Panagiotis Katsonis|Young Won Kim|Stephen J. Wilson|Olivier Lichtarge Baylor College of Medicine;|Colombia University
http://dx.doi.org/10.1101/158337 2017-06-30 CC BY-NC-ND The emergence, maintenance and demise of diversity in a spatially variable antibiotic regime Alanna Molly Leale|Rees Kassen University of Ottawa
http://dx.doi.org/10.1101/158303 2017-06-30 CC BY-NC-ND Ribosome profiling reveals post-translational signaling mechanisms drive the retrograde enhancement of presynaptic efficacy Xun Chen|Dion Dickman University of Southern California
http://dx.doi.org/10.1101/158352 2017-06-30 Single-cell replication profiling reveals stochastic regulation of the mammalian replication-timing program. Vishnu Dileep|David M. Gilbert Florida State University
http://dx.doi.org/10.1101/158238 2017-06-30 CC BY Colorectal cancer susceptibility loci as predictive markers of rectal cancer prognosis after surgery Yue Hu|Jochen Gaedcke|Georg Emons|Tim Beissbarth|Marian Grade|Peter Jo|Meredith Yeager|Stephen Chanock|Hendrik Wolff|Jordi Camps|Michael B Ghadimi|Thomas Ried National Cancer Institute;|University Medical Center Gottingen
http://dx.doi.org/10.1101/119859 2017-06-30 CC BY-NC-ND Circuit-level Mechanisms of EtOH-dependent dopamine release. Matteo DiVolo|Ekaterina Morozova|Christopher Lapish|Alexey Kuznetsov|Boris Gutkin EITN;|Department of Physics, Indiana University, Bloomington, Indiana;|ddiction Neuroscience Program, Indiana University - Purdue University, Indianapolis, Indiana, United;|Department of Mathematical sciences, Indiana University - Purdue University, Indianapolis, Indiana;|Ecole Normale Superieure
http://dx.doi.org/10.1101/158295 2017-06-30 CC BY Kinome rewiring reveals AURKA is a molecular barrier to the efficacy of PI3K/mTOR-pathway inhibitors in breast cancer Hayley J. Donnella|James T. Webber|Rebecca S. Levin|Roman Camarda|Olga Momcilovic|Nora Bayani|Khyati N. Shah|James Korkola|Kevan M. Shokat|Andrei Goga|John Gordan|Sourav Bandyopadhyay Dept. of Bioengineering and Therapeutic Sciences, University of California, San Francisco;|Department of Cellular & Molecular Pharmacology, University of California, San Francisco;|Department of Medicine, University of California, San Francisco;|Center for Spatial Systems Biology, Oregon Health and Sciences University;|Depts. of Cellular & Molecular Pharmacology and Medicine, Univ. of California, San Francisco
http://dx.doi.org/10.1101/158220 2017-06-30 Identification of β-synuclein on secretory granules in chromaffin cells and the effects of α- and β-synuclein on BDNF discharge following fusion Mary A. Bittner|Kevin P. Bohannon|Daniel Axelrod|Ronald W. Holz University of Michigan
http://dx.doi.org/10.1101/158287 2017-06-30 Transient telomerase inhibition alters cell cycle kinetics Connor A. H. Thompson|Alice Y. M. Gu|Sunny Y. Yang|Veena Mathew|Helen Fleisig|Judy M. Y. Wong University of British Columbia;|British Columbia Cancer Agency
http://dx.doi.org/10.1101/158113 2017-06-30 Epidemiology CC BY-NC-ND ukbtools: An R package to manage and query UK Biobank data Ken B Hanscombe|Jonathan R I Coleman|Matthew Traylor|Cathryn M Lewis King's College London;|University of Cambridge
http://dx.doi.org/10.1101/147413 2017-06-30 CC BY-NC Combining Ensemble Learning Techniques and G-Computation to Investigate Chemical Mixtures in Environmental Epidemiology Studies Youssef Oulhote|Marie-Abele Bind|Brent Coull|Chirag J. Patel|Philippe Grandjean Harvard T. H. Chan School of Public Health;|Harvard University;|Harvard Medical School
http://dx.doi.org/10.1101/158162 2017-06-30 Biochemistry CC BY-NC Methods for the Refolding of Disulfide-Rich Proteins. Christopher Neil Haggarty-Weir|Roma Galloway|William Godfrey University of Edinburgh and Melbourne;|Imperial College;|University of Queensland
http://dx.doi.org/10.1101/158139 2017-06-30 Genomics Immuno-Detection by sequencing (ID-seq) enables large-scale high-dimensional phenotyping in cells. Jessie A. van Buggenum|Jan P. Gerlach|Sabine E.J. Tanis|Mark Hogeweg|Pascal W.T.C. Jansen|Jesse Middelwijk|Ruud van der Steen|Michiel Vermeulen|Cornelis A. Albers|Klaas W. Mulder Department of Molecular Developmental Biology, Radboud University;|Department of Molecular Biology, Radboud University;|Biolegio BV;|Donders Institute for Brain, Cognition and Behaviour, Radboud University Medical Center
http://dx.doi.org/10.1101/158006 2017-06-30 Cancer Biology CC BY-NC-ND Neutral tumor evolution? Maxime Tarabichi|Inigo Martincorena|Moritz Gerstung|Florian Markowetz|Paul T Spellman|Quaid D Morris|Ole Christian Lingjaerde|David C Wedge|Peter Van Loo The Francis Crick Institute;|Wellcome Trust Sanger Institute;|European Bioinformatics Institute EMBL-EBI;|University of Cambridge;|OHSU;|University of Toronto;|Department of Informatics and Centre for Cancer Biomedicine, University of Oslo, Oslo, Norway;|Big Data Institute, University of Oxford, Oxford, United Kingdom;|The Francis Crick Institute; Department of Human Genetics, University of Leuven, Leuven, Belgium;|-
http://dx.doi.org/10.1101/158121 2017-06-30 CD18-mediated adhesion is required for lung inflammation induced by mononuclear cell-derived extracellular vesicles Tommaso Neri|Valentina Scalise|Ilaria Passalacqua|Ilaria Giusti|Cristina Balia|Delfo D'Alessandro|Stefano Berrettini|Roberto Pedrinelli|Pierluigi Paggiaro|Vincenza Dolo|Alessandro Celi University of Pisa;|University of L'Aquila;|University of L'aquila
http://dx.doi.org/10.1101/157982 2017-06-30 Bioinformatics CC BY zingeR: unlocking RNA-seq tools for zero-inflation and single cell applications Koen Van den Berge|Charlotte Soneson|Michael I. Love|Mark D. Robinson|Lieven Clement Department of Applied Mathematics, Computer Science and Statistics, Ghent University;|Institute of Molecular Life Sciences, University of Zurich;|Department of Biostatistics, University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/158022 2017-06-30 Biochemistry Mass spectrometry based qualification of antibodies for plasma proteomics. Claudia Fredolini|Sanna Bystrom|Laura Sanchez-Rivera|Marina Ioannou|Davide Tamburro|Rui M Branca|Janne Lehtio|Peter Nilsson|Jochen M Schwenk Affinity Proteomics,Science for Life Laboratory, KTH - Royal Institute of Technology;|Cancer Proteomics, Dept. of Oncology-Pathology, Science for Life Laboratory , Karolinska Institute;|Affinity Proteomics, Science for Life Laboratory, KTH - Royal Institute of Technology
http://dx.doi.org/10.1101/158030 2017-06-30 Ecology A systematic survey of regional multitaxon biodiversity: evaluating strategies and coverage Ane Kirstine Brunbjerg|Hans Henrik Bruun|Lars Broendum|Aimee T Classen|Kaare Fog|Tobias G Froeslev|Irina Goldberg|Morten D.D. Hansen|Toke Thomas Hoeye|Thomas Laessoee|Gregory Newman|Lars Skipper|Ulrik Soechting|Rasmus Ejrnaes Aarhus University;|Copenhagen University;|Natural History Museum, Aarhus;|University of Vermont;|Veksoe;|University of Copenhagen;|Natural History Museum Aarhus
http://dx.doi.org/10.1101/158089 2017-06-30 Immunology CC BY-NC-ND Decreased intra-lymphocyte cytokines measurement in septic shock patients: a proof of concept study in whole blood Wilfried Letessier|Julie Demaret|Morgane Gossez|Camille Allam|Fabienne Venet|Thomas Rimmele|Guillaume Monneret Lyon1 University;|HCL;|hospices civils de lyon
http://dx.doi.org/10.1101/158402 2017-07-01 Biophysics Activation and desensitization mechanism of AMPA receptor-TARP complex by cryo-EM Eric Gouaux|Shanshuang Chen|Yan Zhao|Yuhang Steven Wang|Mrinal Shekhar|Emad Tajkhorshid Howard Hughes Medical Institute, Oregon Health & Science University;|Vollum Institute, Oregon Health & Science University;|NIH Center for Macromolecular Modeling and Bioinformatics, Department of Biochemistry, Center for Bi
http://dx.doi.org/10.1101/158410 2017-07-01 Molecular Biology uvCLAP: a fast, non-radioactive method to identify in vivo targets of RNA-binding proteins Daniel Maticzka|Ibrahim Avsar Ilik|Tugce Aktas|Rolf Backofen|Asifa Akhtar Bioinformatics Group, Department of Computer Science, University of Freiburg, Freiburg, Germany;|Max Planck Institute of Immunobiology and Epigenetics, 79108 Freiburg im Breisgau, Germany
http://dx.doi.org/10.1101/158501 2017-07-01 Molecular Biology Dynamic expression of tRNA-derived small RNAs define cellular states Daniel Yim|Srikar Krishna|Vairavan Lakshmanan|Judice Koh|Jung Eun Park|Jit Kong Cheong|Joo Leng Low|Michelle Lim|Junyu Ip|Jie Min Nah|Iain Tan|N. Gopalakrishna Iyer|Huili Guo|Siu Kwan Sze|Srikala Raghavan|Dasaradhi Palakodeti|Ramanuj DasGupta Genome Institute of Singapore;|Institute for Stem Cell Biology and Regenerative Medicine, Bangalore, India;|Nanyang Technological University, Singapore;|Duke-NUS Medical School, Singapore;|Institute of Molecular and Cell Biology, Singapore;|National Cancer Centre Singapore, Singapore
http://dx.doi.org/10.1101/158766 2017-07-02 CC BY-NC-ND Robust diagnosis of Ewing sarcoma by immunohistochemical detection of super-enhancer-driven EWSR1-ETS targets Michaela C. Baldauf|Martin F. Orth|Marlene Dallmayer|Aruna Marchetto|Julia S. Gerke|Rebeca Alba Rubio|Merve M. Kiran|Julian Musa|Maximilian M. L. Knott|Shunya Ohmura|Jing Li|Nusret Akpolat|Ayse N. Akatli|Ozlem Ozen|Uta Dirksen|Wolfgang Hartmann|Enrique de Alava|Daniel Baumhoer|Giuseppina Sannino|Thomas Kirchner|Thomas G. P. Grunewald Max-Eder Research Group for Pediatric Sarcoma Biol., Inst. of Pathology of the LMU Munich;|Ankara Yıldırım Beyazıt University, Medical Faculty, Dept. of Pathol.;|Department of Pathology, Turgut Ozal Medical Center, Inonu University, Malatya, Turkey;|Başkent University Hospital, Turkey;|Department of Pediatric Hematology and Oncology, University Hospital Essen, Germany;|Gerhard-Domagk-Institute for Pathol., University Hospital Muenster, Westfalian Wilhelms Univ.;|Institute of Biomedicine of Seville (IBiS), Spain;|Bone Tumour Reference Center, Institute of Pathology, University Hospital Basel;|Institute of Pathology of the LMU Munich, Munich, Germany
http://dx.doi.org/10.1101/158709 2017-07-02 CC BY-NC-ND Selection in response to community diversity alters plant performance in newly assembled test communities Sofia J. van Moorsel|Marc W. Schmid|Terhi Hahl|Debra Zuppinger-Dingley|Bernhard Schmid University of Zurich
http://dx.doi.org/10.1101/154476 2017-07-02 sNucDrop-Seq: Dissecting cell-type composition and neuronal activity state in mammalian brains by massively parallel single-nucleus RNA-Seq Peng Hu|Emily Fabyanic|Zhaolan Zhou|Hao Wu University of Pennsylvania
http://dx.doi.org/10.1101/158592 2017-07-02 CC BY Transferable tICA-Metadynamics: Efficient sampling of protein mutants by transferring information from the wild type's Markov state model Mohammad Muneeb Sultan|Vijay Pande Stanford University
http://dx.doi.org/10.1101/158782 2017-07-02 Fibronectin type III and intracellular domains of Toll-like receptor 4 interactor with leucine-rich repeats (Tril) are required for developmental signaling Hyung-Seok Kim|Autumn McKnite|Yuanyuan Xie|Jan L. Christian University of Utah
http://dx.doi.org/10.1101/158386 2017-07-02 CC BY-NC-ND Continuous generation of tandem transposable elements in Drosophila populations provides a substrate for the evolution of satellite DNA Michael P McGurk|Daniel A Barbash Cornell University;|Cornell Univ.
http://dx.doi.org/10.1101/158733 2017-07-02 CC BY-NC-ND Spring frost controls spring tree phenology along elevational gradients on the southeastern Tibetan Plateau Yafeng Wang|Bradley Case|Sergio Rossi|Liping Zhu|Eryuan Liang|Aaron Ellison Institute of Tibetan Plateau Research, Chinese Academy of Sciences;|Auckland University of Technology;|University of Quebec at Chicoutimi;|Institute of Tibetan Plateau Research;|Harvard University
http://dx.doi.org/10.1101/158626 2017-07-02 CC BY-NC-ND Nonpolio enteroviruses can also be recovered from non-reproducible cytopathology in L20B cell line. Johnson A. Adeniji|Ukeme I. Ibok|Olaitan T. Ayinde|Arthur O. Oragwa|Uwem E. George|Temitope O. C. Faleye|Moses O. Adewumi WHO National Polio Laboratory, Ibadan, Nigeria;|University of Ibadan, Nigeria;|University of Jos, Plateau State, Nigeria;|Ekiti State University, Nigeria
http://dx.doi.org/10.1101/158741 2017-07-02 CC BY-NC Linking Normative Models of Natural Tasks to Descriptive Models of Neural Response Priyank Jaini|Johannes Burge University of Waterloo;|University of Pennsylvania
http://dx.doi.org/10.1101/158253 2017-07-02 Sensitivity to sequential regularities in risky decision making Andrea Kobor|Adam Takacs|Karolina Janacsek|Zsofia Kardos|Valeria Csepe|Dezso Nemeth Hungarian Academy of Sciences;|Institute of Neuroscience and Psychology, University of Glasgow, Glasgow, UK;|Eotvos Lorand University
http://dx.doi.org/10.1101/158634 2017-07-02 CC BY-ND Energy metabolites mediated cross-protection to heat, drought and starvation induced plastic responses in tropical D. ananassae of wet-dry seasons Chanderkala Lambhod|Ankita Pathak|Ashok K. Munjal|Ravi Parkash Maharshi Dayanand University, Rohtak, India;|Barkatullah University, Bhopal, India
http://dx.doi.org/10.1101/158360 2017-07-02 CC BY-NC-ND Cortical circuits implement optimal context integration Ramakrisnan Yier|Stefan Mihalas Allen Institute for Brain Science
http://dx.doi.org/10.1101/158436 2017-07-02 Cerebral ischemia-induced genes are increased in acute schizophrenia: An opportunity for clinical translation of genomic research findings Hans W. Moises|Moritz Hess|Harald Binder University of Kiel Hospital, Germany;|Institute of Medical Biostatistics, Epidemiology and Informatics (IMBEI), Mainz, Germany;|Institute for Medical Biometry and Statistics, Freiburg, Germany
http://dx.doi.org/10.1101/158493 2017-07-02 CC BY-NC Deconstructing multivariate decoding for the study of brain function Martin N. Hebart|Chris I. Baker National Institute of Mental Health
http://dx.doi.org/10.1101/158485 2017-07-02 Race Model for the Stop Signal Paradigm Revisited: Perfect Negative Dependence Hans Colonius|Adele Diederich Oldenburg University;|Jacobs University Bremen
http://dx.doi.org/10.1101/158543 2017-07-02 CC BY-NC Genome-wide association mapping and genomic prediction unravels CBSD resistance in a Manihot esculenta breeding population Siraj Ismail Kayondo|Dunia Pino Del Carpio|Roberto Lozano|Alfred Ozimati|Marnin D. Wolfe|Yona Baguma|Vernon Gracen|Offei Samuel|Morag Ferguson|Robert Kawuki|Jean-Luc Jannink National Crop Resources Research Institute, NaCRRI;|Cornell University;|WACCI, Cornell University;|West Africa Center for Crop Improvement, (WACCI);|International Institute for Tropical Agriculture (IITA), Nairobi;|USDA-ARS, Cornell University
http://dx.doi.org/10.1101/158279 2017-07-02 NanoJ-SQUIRREL: quantitative mapping and minimisation of super-resolution optical imaging artefacts Sian Culley|David Albrecht|Caron Jacobs|Pedro Matos Pereira|Christophe Leterrier|Jason Mercer|Ricardo Henriques University College London;|Aix Marseille Université, CNRS, CRN2M UMR7286, 13344 cedex 15, Marseille, France
http://dx.doi.org/10.1101/158683 2017-07-02 Immunology CC BY-NC-ND Using mathematical modeling to define kinetic properties of HIV-specific CD8+ T-cell responses Yiding Yang|Vitaly V. Ganusov University of Tennessee
http://dx.doi.org/10.1101/158527 2017-07-02 Plant Biology CC BY The genetic architecture of recurrent segregation distortion in Arabidopsis thaliana Danelle K. Seymour|Eunyoung Chae|Burak I. Arioz|Daniel Koenig|Detlef Weigel MPI for Developmental Biology
http://dx.doi.org/10.1101/158576 2017-07-02 Plant Biology CC BY-NC-ND The plant circadian clock influences rhizosphere community structure and function Charley Hubbard|Marcus T. Brock|Linda van Diepen|Lois Maignien|Brent Ewers|Cynthia Weinig University of Wyoming;|Universite de Bretagne Occidentale
http://dx.doi.org/10.1101/158428 2017-07-02 Ecology Host Microbiome Richness Predicts Resistance to Disturbance by Pathogenic Infection in a Vertebrate Host Xavier A. Harrison|Stephen J. Price|Kevin Hopkins|William T. M. Leung|Chris Sergeant|Trent Garner Zoological Society of London;|University College London
http://dx.doi.org/10.1101/158774 2017-07-02 Systems Biology Receptor-Based Mechanism of Relative Sensing in Mammalian Signaling Networks Eugenia Lyashenko|Mario Niepel|Purushottam Dixit|Sang Kyun Lim|Peter Sorger|Dennis Vitkup Columbia University;|Harvard University
http://dx.doi.org/10.1101/158477 2017-07-02 Genomics CC BY-NC-ND Long non-coding RNA repertoire and regulation by nuclear exosome, cytoplasmic exonuclease and RNAi in fission yeast Sophie R. Atkinson|Samuel Marguerat|Danny A. Bitton|Maria Rodriguez-Lopez|Charalampos Rallis|Jean-Francois Lemay|Cristina Cotobal|Michal Malecki|Juan Mata|Francois Bachand|Jurg Bahler UCL;|Université de Sherbrooke;|University of Cambridge
http://dx.doi.org/10.1101/158394 2017-07-02 Systems Biology CC BY-NC Integration of multiple data sources for gene network inference using genetic perturbation data Xiao Liang|William Chad Young|Ling-Hong Hung|Adrian E Raftery|Ka Yee Yeung University of Washington Tacoma;|University of Washington
http://dx.doi.org/10.1101/158659 2017-07-02 Genomics CC BY-ND Repeat associated mechanisms of genome evolution and function revealed by the Mus caroli and Mus pahari genomes David Thybert|Masa Roller|Fabio C. P. Navarro|Ian Fiddes|Ian Streeter|Christine Feig|David Martin-Galvez|Mikhail Kolmogorov|Vaclav Janousek|Wasiu Akanni|Bronwen Aken|Sarah Aldridge|Varshith Chakrapani|William Chow|Laura Clarke|Carla Cummins|Anthony Doran|Matthew Dunn|Leo Goodstadt|Kerstin Howe|Matthew Howell|Ambre-Aurore Josselin|Robert C. Karn|Christina M. Laukaitis|Lilue Jingtao|Fergal Martin|Matthieu Muffato|Michael A. Quail|Cristina Sisu|Mario Stanke|Klara Stefflova|Cock Van Oosterhout|Frederic Veyrunes|Ben Ward|Fengtang Yang|Golbahar Yazdanifar|Amonida Zadissa|David Adams|Alvis Brazma|Mark Gerstein|Benedict Paten|Son Pham|Thomas Keane|Duncan T. Odom|Paul Flicek Earlham Institute;|EMBL-EBI;|Yale University;|UCSC;|University of Cambridge, CRUK CI;|UCSD;|Charles University;|Wellcome Trust Sanger Institute;|Oxford University;|University of Arizona;|University of Greifswald;|University of Cambridge CRUK CI;|Université Montpellier;|Bioturing Inc.;|European Bioinformatics Institute
http://dx.doi.org/10.1101/157354 2017-07-02 Cell Biology CC BY Lingering single-strand breaks trigger Rad51-independent homology-directed repair of collapsed replication forks in polynucleotide kinase/phosphatase mutant of fission yeast Arancha Sanchez|Mariana C. Gadaleta|Oliver Limbo|Paul Russell The Scripps Research Institute
http://dx.doi.org/10.1101/158618 2017-07-02 Cell Biology A Cautionary Tail: Changes in Integrin Behavior with Labeling Catherine G. Galbraith|Michael W. Davidson|James A. Galbraith Oregon Health and Science University;|Florida State University
http://dx.doi.org/10.1101/144766 2017-07-02 Bioinformatics CC BY Resources For Interpreting Variants In Precision Genomic Oncology Applications Hsinyi Tsang|KanakaDurga Addepalli|Sean R. Davis NCI;|NIH
http://dx.doi.org/10.1101/158816 2017-07-03 Animal Behavior and Cognition CC BY-NC-ND Facultative adjustment of paternal care in the face of female infidelity in dunnocks Eduardo S. A. Santos|Shinichi Nakagawa Universidade de Sao Paulo;|University of New South Wales
http://dx.doi.org/10.1101/158865 2017-07-03 Neuroscience Cortical circuit based lossless neural integrator for perceptual decision-making Jung H. Lee|Joji Tsunada|Sujith Vijayan|Yale E. Cohen Allen Institute for Brain Science;|Perelman School of Medicine at the University of Pennsylvania;|Virginia Tech
http://dx.doi.org/10.1101/156943 2017-07-03 Biochemistry MS Western, a method of multiplexed absolute protein quantification is a practical alternative to western blotting Mukesh Kumar|Shai R. Joseph|Martina Augsburg|Aliona Bogdanova|David Drechsel|Nadine L. Vastenhouw|Frank Buchholz|Marc Gentzel|Andrej Shevchenko Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany;|Medical Systems Biology, UCC, Medical Faculty Carl Gustav Carus, TU Dresden, Germany;|Center for Molecular and Cellular Bioengineering, TU Dresden, Germany
http://dx.doi.org/10.1101/158832 2017-07-03 Bioinformatics CC BY-ND PHASIS: A computational suite for de novo discovery and characterization of phased, siRNA-generating loci and their miRNA triggers Atul Kakrana|Pingchuan Li|Parth Patel|Reza Hammond|Deepti Anand|Sandra Mathioni|Blake Meyers Center for Bioinformatics and Computational Biology, University of Delaware, Newark;|Morden Research and Development Centre, Agriculture and Agri-Food Canada;|Department of Biological Sciences, University of Delaware, Newark;|Donald Danforth Plant Science Center, St. Louis, MO
http://dx.doi.org/10.1101/158469 2017-07-03 Neuroscience Motor expertise facilitates the precision of state extrapolation in perception Nicolas Ludolph|Jannis Ploger|Martin A. Giese|Winfried Ilg CIN, HIH, IMPRS, University of Tübingen;|CIN, HIH, University of Tübingen
http://dx.doi.org/10.1101/158915 2017-07-03 Pathology A mouse model of necrotic biliary pancreatitis induced by combining gallstone formation and ligation of the biliary-pancreatic duct Zuobiao Yuan|Junyuan Zheng|Zhu Mei|Guoyong Hu|Yue Zeng Shanghai General Hospital;|Shanghai General Hosptial
http://dx.doi.org/10.1101/158188 2017-07-03 Neuroscience CC BY-NC-ND Reliability of fMRI time series: Similarity of neural processing during movie viewing Ralf Schmaelzle|Martin A. Imhof|Clare Grall|Tobias Flaisch|Harald T. Schupp Michigan State University;|Universitaet Konstanz
http://dx.doi.org/10.1101/159186 2017-07-03 CC BY-NC-ND Is obesity a genetic disease? Human obese transcriptome analysis in monozygotic twins Francesc Font-Clos|Stefano Zapperi|Caterina A. M. La Porta ISI Foundation;|Center for Complexity and Biosystems
http://dx.doi.org/10.1101/159202 2017-07-03 Deep convolution neural networks allow analysis of cell motility during stem cell differentiation and neoplastic transformation Jacob Kimmel|Andrew Brack|Wallace F. Marshall University of California San Francisco
http://dx.doi.org/10.1101/159194 2017-07-03 Cas Adaptor Proteins Coordinate Sensory Axon Fasciculation Tyler A. Vahedi-Hunter|Martin M. Riccomagno University of California, Riverside
http://dx.doi.org/10.1101/158105 2017-07-03 CC BY-NC-ND Risk factor analysis of equine strongyle resistance to anthelmintics Guillaume Salle|Jacques Cortet|Isoline Bois|Chloe Dubes|Quitterie Guyot-Sionest|Caroline Larrieu|Vivien Landrin|Guilhem Majorel|Sonia Wittreck|Emmanuel Woringer|Anne Courouce-Malblanc|Jacques Guillot|Philippe Jacquiet|Fabrice Guegnard|Alexandra Blanchard|Agnes Leblond INRA;|ENV Toulouse/INRA;|ONIRIS;|ENV Maisons-Alfort;|INRA/VetAgroSup;|Merial;|Zoetis
http://dx.doi.org/10.1101/158907 2017-07-03 CC BY-NC-ND Comparison of fine-scale recombination maps in fungal plant pathogens reveals dynamic recombination landscapes and intragenic hotspots Eva Holtgrewe Stukenbrock|Julien Y. Dutheil Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/159152 2017-07-03 Signatures of the evolution of parthenogenesis and cryptobiosis in the genomes of panagrolaimid nematodes Philipp H. Schiffer|Etienne Danchin|Ann M. Burnell|Anne-Marike Schiffer|Chris Creevey|Simon Wong|Ilona Dix|Georgina O'Mahony|Bridget A. Culleton|Corinne Rancurel|Gary Stier|Elizabeth A. Martinez-Salazar|Aleksandra Marconi|Urmi Trivedi|Michael Kroiher|Michael A. S. Thorne|Einhard Schierenberg|Thomas Wiehe|Mark Blaxter University College London;|INRA, Universite Cote d'Azur, CNRS;|Maynooth University Department of Biology, National University of Ireland Maynooth;|Department of Life Science, Brunel University London;|Irish Centre for High-End Computing;|Megazyme, Bray, Ireland;|University of Cologne, Koeln;|Unidad Academica de Ciencias Biologicas, Universidad Autonoma de Zacatecas;|Institute of Evolutionary Biology, The University of Edinburgh;|Edinburgh Genomics, School of Biological Sciences, University of Edinburgh;|Zoologisches Institut, University of Cologne, Koeln;|British Antarctic Survey, Cambridge;|Institute for Genetics, University of Cologne, Koeln
http://dx.doi.org/10.1101/159053 2017-07-03 MCE domain proteins: conserved inner membrane lipid-binding proteins required for outer membrane homeostasis Georgia Isom|Nathaniel Davies|Zhi-Soon Chong|Jack Bryant|Mohammed Jamshad|Maria Sharif|Adam Cunningham|Timothy Knowles|Shu-Sin Chng|Jeffrey Cole|Ian Henderson University of Birmingham;|National University of Singapore
http://dx.doi.org/10.1101/158923 2017-07-03 Complex genetic patterns in human arise from a simple range-expansion model over continental landmasses Ricardo Kanitz|Elsa Guillot|Sylvain Antoniazza|Samuel Neuenschwander|Jerome Goudet Department of Ecology and Evolution, University of Lausanne, Switzerland;|Swiss Orthonological Institute, Switzerland
http://dx.doi.org/10.1101/158964 2017-07-03 CC BY-NC-ND Reinforcement learning over time: spaced versus massed training establishes stronger value associations G. Elliott Wimmer|Russell A. Poldrack Stanford University
http://dx.doi.org/10.1101/158857 2017-07-03 The pomegranate (Punica granatum L.) genome provides insights into fruit quality and ovule developmental biology Zhaohe Yuan|Yanming Fang|Taikui Zhang|Zhangjun Fei|Fengming Han|Cuiyu Liu|Min Liu|Wei Xiao|Wenjing Zhang|Mengwei Zhang|Youhui Ju|Huili Xu|He Dai|Yujun Liu|Yanhui Chen|Lili Wang|Jianqing Zhou|Dian Guan|Ming Yan|Yanhua Xia|Xianbin Huang|Dongyuan Liu|Hongmin Wei|Hongkun Zheng Nanjing Forestry University;|Cornell University;|Biomarker Technologies Corporation;|Beijing Forestry University;|Henan Agricultural University
http://dx.doi.org/10.1101/158998 2017-07-03 Widespread intronic polyadenylation diversifies immune cell transcriptomes Irtisha Singh|Shih-Han Lee|Mehmet K Samur|Yu-Tzu Tai|Nikhil Munshi|Christine Mayr|Christina Leslie Memorial Sloan Kettering Cancer Institute;|Memorail Sloan Kettering Cancer Institute;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/158931 2017-07-03 Genomics Mapping transcription factor occupancy using minimal numbers of cells in vitro and in vivo Luca Tosti|James Ashmore|Boon Siang Nicholas Tan|Benedetta Carbone|Tapan K. Mistri|Valerie Wilson|Simon R. Tomlinson|Keisuke Kaji University of Edinburgh;|Lovely Professional University
http://dx.doi.org/10.1101/159111 2017-07-03 Genomics CC BY The first near-complete assembly of the hexaploid bread wheat genome, Triticum aestivum Aleksey V. Zimin|Daniela Puiu|Richard Hall|Sarah Kingan|Steven L. Salzberg Johns Hopkins University;|Pacific Biosciences
http://dx.doi.org/10.1101/158899 2017-07-03 Neuroscience Optical inhibition of zebrafish behavior with anion channelrhodopsins Gadisti Aisha Mohamed|Ruey-Kuang Cheng|Joses Ho|Seetha Krishnan|Farhan Mohammad|Adam Claridge-Chang|Suresh Jesuthasan Lee Kong Chian School of Medicine, Nanyang Technological University;|Institute of Molecular and Cell Biology;|National University of Singapore;|Duke-NUS Graduate Medical School, Singapore;|Duke-NUS Graduate School of Medicine;|Lee Kong Chian School of Medicine
http://dx.doi.org/10.1101/158881 2017-07-03 Microbiology Mechanisms of surface antigenic variation in the human pathogenic fungus Pneumocystis jirovecii Emanuel Schmid-Siegert|Sophie Richard|Amanda Luraschi|Konrad Muehlethaler|Marco Pagni|Philippe Hauser Vital-IT Group, SIB Swiss Institute of Bioinformatics, Lausanne;|Institute of Microbiology, Lausanne University Hospital;|Institut fuer Infektionskrankheiten, Universitaet Bern
http://dx.doi.org/10.1101/158840 2017-07-03 Genomics CC BY-NC-ND Magic pools: parallel assessment of transposon delivery vectors in bacteria Hualan Liu|Morgan Price|Robert Jordan Waters|Jayashree Ray|Hans K. Carlson|Jacob S. Lamson|Romy Chakraborty|Adam P. Arkin|Adam M. Deutschbauer Environmental Genomics & Systems Biology Division, Lawrence Berkeley National Laboratory;|Earth and Environmental Sciences Area, Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/159145 2017-07-03 Bioinformatics CC BY-NC-ND KinFin: Software for taxon-aware analysis of clustered protein sequences Dominik R Laetsch|Mark L Blaxter University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/159079 2017-07-03 Bioinformatics CC BY-NC-ND Column subset selection for single-cell RNA-Seq clustering Shannon McCurdy|Vasilis Ntranos|Lior Pachter UC Berkeley;|U.C. Berkeley;|California Institute of Technology
http://dx.doi.org/10.1101/131953 2017-07-03 Bioinformatics MassBlast: A workflow to accelerate RNA-seq and DNA database analysis Andre Verissimo|Jean-Etienne Bassard|Alice Julien-Laferriere|Marie-France Sagot|Susana Vinga IDMEC, Instituto Superior Técnico, Universidade de Lisboa;|Copenhagen Plant Science Center, Plant Biochemistry Laboratory, Department of Plant and Environment;|INRIA & Lab. Biométrie et Biologie Évolutive, Université Claude Bernard
http://dx.doi.org/10.1101/158147 2017-07-03 Systems Biology CC BY Molecular structures enumeration and virtual screening in the chemical space with RetroPath2.0 Mathilde Koch|Thomas Duigou|Pablo Carbonell|Jean-Loup Faulon Institut Micalis, INRA, AgroParisTech, Paris Saclay;|University of Manchester
http://dx.doi.org/10.1101/159129 2017-07-03 Animal Behavior and Cognition The quality of social relationships affects male health in a complex bird society Claudia A.F. Wascher|Hugo Robles|Daniela Canestrari|Vittorio Baglione Anglia Ruskin University;|University of Antwerp;|University of Oviedo;|University of Valladolid
http://dx.doi.org/10.1101/158642 2017-07-03 Genetics CC BY-NC-ND Type 2 Diabetes Risk Alleles Reveal a Role for Peptidylglycine Alpha-amidating Monooxygenase in Beta Cell Function Anne Raimondo|Soren K Thomsen|Benoit Hastoy|Mahesh M Umapathysivam|Xiao-Qing Dai|Jocelyn E Manning Fox|Amy Barrett|Christopher J Groves|Austin Bautista|Nicola L Beer|Anne Clark|Patrick E MacDonald|Patrik Rorsman|Anna L Gloyn University of Oxford;|University of Alberta
http://dx.doi.org/10.1101/159038 2017-07-03 Animal Behavior and Cognition CC BY-NC-ND Do Sigmoidal Acquisition Curves Indicate Conformity? Paul E Smaldino|Lucy M Aplin|Damien R Farine University of California, Merced;|University of Oxford;|Max Planck Institute for Ornithology
http://dx.doi.org/10.1101/157446 2017-07-03 Developmental Biology CC BY-ND Hes1 oscillations synchronize and refine condensation formation and patterning of the avian limb skeleton Ramray Bhat|Tilmann Glimm|Marta Linde-Medina|Cheng Cui|Stuart Newman Indian Institute of Science;|Western Washington University;|University of California San Francisco;|Kansas University Medical Center;|New York Medical College
http://dx.doi.org/10.1101/158808 2017-07-03 Genomics CC BY-NC-ND Porcine commensal Escherichia coli: A reservoir for class 1 integrons associated with IS26 Cameron J. Reid|Ethan R. Wyrsch|Piklu Roy Chowdhury|Tiziana Zingali|Michael Liu|Aaron E. Darling|Toni A. Chapman|Steven P. Djordjevic The i3 institute, University of Technology Sydney;|NSW Department of Primary Industries, EMAI
http://dx.doi.org/10.1101/158758 2017-07-03 Neuroscience Saccades phase-locked to alpha oscillations in the occipital and medial temporal lobe enhance memory encoding Tobias Staudigl|Elisabeth Hartl|Soheyl Noachtar|Christian F. Doeller|Ole Jensen Donders Inst. for Brain, Cognition & Behaviour, Radboud Univ., Nijmegen, The Netherlands;|Epilepsy Center, Department of Neurology, University of Munich, Munich, Germany;|Epilepsy Center, Department of Neurology, University of Munich, Germany;|Kavli Institute for Systems Neuroscience, Centre for Neural Computation, Trondheim, Norway;|Centre for Human Brain Health, School of Psychology, University of Birmingham, UK
http://dx.doi.org/10.1101/159004 2017-07-03 Biophysics A Fluorogenic Array Tag for Temporally Unlimited Single Molecule Tracking Rajarshi P Ghosh|Matthew J Franklin|Will E Draper|Quanming Shi|Jan T Liphardt Stanford University
http://dx.doi.org/10.1101/158519 2017-07-03 Genomics CC BY-NC-ND Whippet: an efficient method for the detection and quantification of alternative splicing reveals extensive transcriptomic complexity Timothy Sterne-Weiler|Robert J. Weatheritt|Andrew Best|Kevin C. H. Ha|Benjamin J. Blencowe Donnelly Centre, University of Toronto;|Department of Molecular Genetics, University of Toronto
http://dx.doi.org/10.1101/158980 2017-07-03 Pharmacology and Toxicology Light-dependent decomposition of FICZ, an endogenous ligand of the aryl hydrocarbon receptor Cunyu Zhang|Katrina L Creech|William J Zuercher|Timothy M Willson GlaxoSmithKline;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/159087 2017-07-03 Microbiology CC BY-NC Small subsets of highly connected taxa predict compositional change in microbial communities Cristina Herren|Katherine D. McMahon University of Wisconsin - Madison;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/152835 2017-07-03 Cell Biology Changes in extracellular matrix cause RPE cells to make basal deposits and activate the alternative complement pathway. Rosario Fernandez-Godino|Kinga M. Bujakowska|Eric A. Pierce Ocular Genomics Institute, Massachusetts Eye And Ear Infirmary, Harvard Medical School
http://dx.doi.org/10.1101/158956 2017-07-03 Biochemistry Biochemical characterization and essentiality of Plasmodium fumarate hydratase Vijay Jayaraman|Arpitha Suryavanshi|Pavithra Kalale|Jothirmayi Kunala|Hemalatha Balaram Jawaharlal Nehru Centre for Advanced Scientific Research
http://dx.doi.org/10.1101/159392 2017-07-04 Evolutionary Biology ShapeRotator: an R package for standardised rigid rotations of articulated Three-Dimensional structures with application for geometric morphometrics Marta Vidal-Garcia|Lashi Bandara|J. Scott Keogh The Australian National University;|University of Technology and University of Gothenburg
http://dx.doi.org/10.1101/159285 2017-07-04 Cell Biology Biomechanical control of lysosomal secretion via the VAMP7 hub: a tug-of-1 war mechanism between VARP and LRRK1 Guan Wang|Sebastien Nola|Simone Bovio|Maite Coppey-Moisan|Frank Lafont|Thierry Galli Membrane Traffic in Health & Disease, Institut Jacques Monod;|Cellular Microbiology and Physics of Infection Group, Institut Pasteur de Lille;|Mechanotransduction: from Cell Surface to Nucleus, Institut Jacques Monod
http://dx.doi.org/10.1101/159301 2017-07-04 Developmental Biology Three-dimensional cell neighbourhood impacts differentiation in the inner mass cells of the mouse blastocyst Sabine C. Fischer|Elena Corujo-Simon|Joaquin Lilao-Garzon|Ernst H. K. Stelzer|Silvia Munoz-Descalzo Physikalische Biologie, Buchmann Inst. for Molecular Life Sciences, Goethe Universität;|Dept. of Biology and Biochemistry, University of Bath
http://dx.doi.org/10.1101/159376 2017-07-04 Cell Biology CC BY Context-dependent deposition and regulation of mRNAs in P-bodies Congwei Wang|Fabian Schmich|Julie Weidner|Niko Beerenwinkel|Anne Spang University of Basel;|ETH Zurich;|Univerisity of Basel;|ETH Zurich
http://dx.doi.org/10.1101/159244 2017-07-04 Developmental Biology Physiological tolerance of the early life history stages of fresh water prawn (Macrobrachium rosenbergii De Man, 1879) to environmental stress Jojy John|Vinu S. Siva|Amit Kumar|Vinitha Ebenezer|Philimon Raika|Umer Khalifa|Subramoniam Thanumalya|Prakash Sanjeevi Sathyabama University
http://dx.doi.org/10.1101/158972 2017-07-04 Evolutionary Biology Tracheophyte genomes keep track of the deep evolution of the Caulimoviridae Seydina Diop|Andrew D. W. Geering|Francoise Alfama-Depauw|Mikael Loaec|Pierre-Yves Teycheney|Florian Maumus URGI, INRA, Université Paris-Saclay;|Queensland Alliance for Agriculture and Food Innovation, The University of Queensland;|UMR AGAP, CIRAD, INRA, SupAgro
http://dx.doi.org/10.1101/159210 2017-07-04 Evolutionary Biology CC BY Fixed effect variance and the estimation of the heritability: Issues and solutions Pierre de Villemereuil|Michael B. Morrissey|Shinichi Nakagawa|Holger Schielzeth University of Auckland;|University of St. Andrews;|UNSW;|Friedrich Schiller University
http://dx.doi.org/10.1101/146696 2017-07-04 Genomics Functional dissection of the enhancer repertoire in human embryonic stem cells Tahsin Stefan Barakat|Florian Halbritter|Man Zhang|Andre Figueiredo Rendeiro|Christoph Bock|Ian Chambers MRC Centre for Regenerative Medicine, Institute for Stem Cell Research, Univ. of Edinburgh;|CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences
http://dx.doi.org/10.1101/159228 2017-07-04 Bioinformatics CC BY STRetch: detecting and discovering pathogenic short tandem repeats expansions Harriet Dashnow|Monkol Lek|Belinda Phipson|Andreas Halman|Mark Davis|Phillipa Lamont|Nigel Laing|Daniel MacArthur|Alicia Oshlack Murdoch Children's Research Institute;|Broad Institute of MIT and Harvard;|PathWest Laboratory Medicine, QEII Medical Centre, Nedlands, WA, Australia;|Royal Perth Hospital, Perth, WA, Australia;|University of Western Australia, Nedlands, WA, Australia;|Massachusetts General Hospital, Boston
http://dx.doi.org/10.1101/159236 2017-07-04 Bioinformatics Anti-HIV activity prediction and enrichment identify novel human targets for Anti-HIV therapy Shao-Xing Dai|Wen-Xing Li|Hui-Juan Li|Jia-Qian Liu|Jun-Juan Zheng|Qian Wang|Bi-Wen Chen|Yue-Dong Gao|Gong-Hua Li|Jing-Fei Huang Kunming Institute of Zoology, Chinese Academy of Sciences;|Kunming Biological Diversity Regional Center of Instruments, Kunming Institute of Zoology
http://dx.doi.org/10.1101/158444 2017-07-04 Neuroscience CC BY-NC-ND Action potential counting at giant mossy fiber terminals gates information transfer in the hippocampus Simon Chamberland|Yulia Timofeeva|Alesya Evstratova|Kirill Volynski|Katalin Toth CERVO Brain Research Centre, Universite Laval;|University of Warwick;|CERVO Brain Research Centre;|University College London
http://dx.doi.org/10.1101/159137 2017-07-04 Genomics Single nucleus analysis of the chromatin landscape in mouse forebrain development Sebastian Preissl|Rongxin Fang|Yuan Zhao|Ramya Raviram|Yanxiao Zhang|Brandon C. Sos|Hui Huang|David U. Gorkin|Veena Afzal|Diane E. Dickel|Samantha Kuan|Axel Visel|Len A. Pennacchio|Kun Zhang|Bing Ren Ludwig Institute for Cancer Reserach;|Ludwig Institute for Cancer Research;|Department of Bioengineering, UCSD;|Ludwig Institute for Cancer Research; UCSD;|Functional Genomics Department, Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/159269 2017-07-04 Cell Biology C3G dynamically associates with Nuclear speckles and regulates mRNA splicing Dhruv Kumar Shakyawar|Muralikrishna Bhattiprolu|Vegesna Radha Centre for Cellular Molecular Biology
http://dx.doi.org/10.1101/159350 2017-07-04 CC BY Genome-wide identification of intrasplicing events in the human transcriptome and hints to their regulatory potential Maximilian Radtke|Ismet Srndic|Renee Schroeder Max F. Perutz Laboratories;|University of Vienna
http://dx.doi.org/10.1101/159475 2017-07-04 SParticle, an algorithm for the analysis of filamentous microorganisms in submerged cultures Joost Willemse|Ferhat Buke|Dino van Dissel|Sanne Grevink|Dennis Claessen|Gilles P. van Wezel Leiden University
http://dx.doi.org/10.1101/159517 2017-07-04 CC BY-ND CRISPR/Cas9-APEX-mediated proximity labeling enables discovery of proteins associated with a predefined genomic locus in living cells Samuel A. Myers|Jason Wright|Feng Zhang|Steven A. Carr Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/159558 2017-07-04 CC BY Zinc storage granules in the Malpighian tubules of Drosophila melanogaster Carlos Tejeda-Guzman|Abraham Rosas-Arellano|Thomas Kroll|Samuel M. Webb|Martha Barajas-Aceves|Beatriz Osorio|Fanis Missirlis Cinvestav;|SLAC National Accelerator Laboratory
http://dx.doi.org/10.1101/159509 2017-07-04 Morphology-driven downscaling of Streptomyces lividans to micro-cultivation Dino van Dissel|Gilles van Wezel Leiden University
http://dx.doi.org/10.1101/159459 2017-07-04 RXFP1 expression is regulated by miR-144-3p in Fibroblasts from Patients with Idiopathic Pulmonary Fibrosis Harinath Bahudhanapati|Jiangning Tan|Justin A Dutta|Stephen B Strock|Yingze Zhang|Daniel J Kass University of Pittsburgh
http://dx.doi.org/10.1101/159491 2017-07-04 Evidence of compensation in the brain networks of Lewy body dementia and Alzheimer's disease patients Luis R Peraza|Ruth Cromarty|Xenia Kobeleva|Michael J Firbank|Alison Killen|Sara Graziadio|Alan J Thomas|John T O'Brien|John-Paul Taylor Newcastle University;|University Hospital Bonn;|Cambridge University
http://dx.doi.org/10.1101/159939 2017-07-05 Effects of autozygosity and schizophrenia polygenic risk on cognitive and brain developmental trajectories Aldo Cordova-Palomera|Tobias Kaufmann|Francesco Bettella|Yunpeng Wang|Nhat Trung Doan|Dennis van der Meer|Dag Alnaes|Jaroslav Rokicki|Torgeir Moberget|Ida Elken Sonderby|Ole A Andreassen|Lars T Westlye University of Oslo
http://dx.doi.org/10.1101/159897 2017-07-05 CC BY Gated Coupling of Dopamine and Neuropeptide Signaling Underlies Perceptual Processing of Appetitive Odors in Drosophila Yuhan Pu|Melissa Megan Masserant Palombo|Yiwen Zhang|Ping Shen University of Georgia
http://dx.doi.org/10.1101/159889 2017-07-05 Dynamics of venom composition across a complex life cycle Yaara Y. Columbus-Shenkar|Maria Y. Sachkova|Arie Fridrich|Vengamanaidu Modepalli|Kartik Sunagar|Yehu Moran The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/159954 2017-07-05 CC BY-NC-ND Toward A Scalable Exploratory Framework for Complex High-Dimensional Phenomics Data M. Kamruzzaman|Ananth Kalyanaraman|Bala Krishnamoorthy|Patrick S Schnable Washington State University;|Iowa State University
http://dx.doi.org/10.1101/159855 2017-07-05 CC BY-NC-ND Invasion and migration of self-limiting gene drives: a comparative analysis Sumit Dhole|Michael R. Vella|Alun L. Lloyd|Fred Gould North Carolina State University
http://dx.doi.org/10.1101/159871 2017-07-05 CRF1 receptor-dependent increases in irritability-like behavior during abstinence from chronic intermittent ethanol vapor exposure Adam Kimbrough|Giordano de Guglielmo|Jenni Kononoff|Marsida Kallupi|Eric P. Zorrilla|Olivier George The Scripps Research Institute
http://dx.doi.org/10.1101/159442 2017-07-05 Epidemiology CC BY-ND Improving the accuracy of two-sample summary data Mendelian randomization: moving beyond the NOME assumption Jack Bowden|Fabiola Del Greco M|Cosetta Minelli|Debbie Lawlor|Nuala Sheehan|John Thompson|George Davey Smith University of Bristol;|EURAC;|Imperial College, London;|University of Leicester
http://dx.doi.org/10.1101/158568 2017-07-05 Epidemiology Phenology supports the eco-environmental hypothesis for Ebola spillover events Katharina C. Wollenberg Valero|Raphael Isokpehi|Noah E. Douglas|Seenith Sivasundaram|Brianna Johnson|Kiara Wootson|Ayana McGill University of Hull;|Bethune-Cookman University
http://dx.doi.org/10.1101/158691 2017-07-05 Epidemiology Increased risk of many early-life diseases after surgical removal of adenoids and tonsils in childhood Sean G. Byars|Stephen C. Stearns|Jacobus J. Boomsma The University of Melbourne;|Yale University;|Copenhagen University
http://dx.doi.org/10.1101/158550 2017-07-05 Epidemiology CC BY-NC-ND Despite egg-adaptive mutations, the 2012-13 H3N2 influenza vaccine induced comparable antibody titers to the intended strain Sarah Cobey|Kaela Parkhouse|Benjamin S. Chambers|Hildegund C. Ertl|Kenneth E. Schmader|Rebecca A. Halpin|Xudong Lin|Timothy B. Stockwell|Suman R. Das|Emily Landon|Vera Tesic|Ilan Youngster|Benjamin Pinsky|David E. Wentworth|Scott E. Hensley|Yonatan H. Grad Department of Ecology & Evolution, University of Chicago;|Department of Microbiology, Perelman School of Medicine, The University of Pennsylvania;|Division of Geriatrics, Duke University Medical Center;|Department of Infectious Disease, J. Craig Venter Institute, Rockville, MD;|Department of Medicine, The University of Chicago, Chicago, IL;|Department of Pathology, The University of Chicago, Chicago, IL;|Division of Pediatrics and the Center for Microbiome Research, Assaf Harofeh Medical Center;|Depts. of Pathology and Medicine, Stanford University School of Medicine, Stanford, CA;|Dept. of Immunology and Infectious Diseases, Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/159756 2017-07-05 Bioinformatics CC BY Privacy-preserving generative deep neural networks support clinical data sharing Brett K. Beaulieu-Jones|Zhiwei Steven Wu|Chris Williams|Casey S. Greene Perelman School of Medicine, University of Pennsylvania;|School of Engineering and Applied Sciences, University of Pennsylvania
http://dx.doi.org/10.1101/159814 2017-07-05 Biophysics Single-cell absolute contact probability detection reveals that chromosomes are organized by modulated stochasticity Diego I. Cattoni|Andres M. Cardozo Gizzi|Mariya Georgieva|Marco Di Stefano|Alessandro Valeri|Delphine Chamousset|Christophe Houbron|Stephanie Dejardin|Jean-Bernard Fiche|Marc A. Marti-Renom|Frederic Bantignies|Giacomo Cavalli|Marcelo Nollmann Centre de Biochimie Structurale (CBS), INSERM, CNRS, Universite de Montpellier;|CNAG-CRG, Centre for Genomic Regulation (CRG);|CNAG-CRG, Centre for Genomic Regulation, Barcelona Institute of Science and Technology;|Institut de Genetique Humaine, CNRS UMR 9002, Universite de Montpellier
http://dx.doi.org/10.1101/159848 2017-07-05 Developmental Biology CC BY-NC-ND Nuclear androgen receptor regulates testes organization and oocyte maturation in zebrafish Camerron M. Crowder|Christopher S. Lassiter|Daniel A. Gorelick University of Alabama at Birmingham;|Roanoke College
http://dx.doi.org/10.1101/159707 2017-07-05 Molecular Biology CC BY-NC-ND “Unexpected mutations after CRISPR-Cas9 editing in vivo” are most likely pre-existing sequence variants and not nuclease-induced mutations Caleb Lareau|Kendell Clement|Jonathan Y. Hsu|Vikram Pattanayak|J. Keith Joung|Martin J. Aryee|Luca Pinello Harvard University;|Massachusetts General Hospital
http://dx.doi.org/10.1101/159772 2017-07-05 Neuroscience CC BY-NC-ND Neurocalcin acts in a clock- and light-modulated dopaminergic pathway to promote night sleep in Drosophila Ko-Fan Chen|Angelique Lamaze|Patrick Kratschmer|James E.C Jepson UCL Institute of Neurology
http://dx.doi.org/10.1101/159780 2017-07-05 Genetics CC BY Gene family information facilitates variant interpretation and identification of disease-associated genes Dennis Lal|Patrick May|Kaitlin Samocha|Jack Kosmicki|Elise B. Robinson|Rikke Moller|Roland Krause|Peter Nuernberg|Sarah Weckhuysen|Peter De Jonghe|Renzo Guerrini|Lisa-Marie Neupert|Juliana Du|Eduardo Perez-Palma|Carla Marini|James Ware|Mitja Kurki|Padhraig Gormley|Sha Tang|Sitao Wu|Saskia Biskup|Annapura Poduri|Bernd Neubauer|Bobby Koeleman|Katherine Helbig|Yvonne Weber|Ingo Helbig|Amit Majithia|Aarno Palotie|Mark J. Daly Broad Institute of Harvard and M.I.T.;|Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette;|Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA;|Harvard University;|Massachusetts General Hospital;|The Danish Epilepsy Centre, Dianalund, Denmark;|Cologne Center for Genomics;|Division of Neurology, Antwerp University Hospital, Antwerp, Belgium;|Pediatric Neurology Unit, A. Meyer Pediatric Hospital, Florence, Italy;|Cologne Center for Genomics, University of Cologne, Cologne, Germany;|-;|National Heart & Lung Inst. and MRC London Inst. of Medical Sci., Imperial College London;|Division of Clinical Genomics, Ambry Genetics, Aliso Viejo, California, USA;|Dept. of Neurology & Epileptology, Hertie Inst. for Clinical Brain Research, Univ. of Tuebingen;|Epilepsy Genetics Program, Boston Children's Hospital, Boston, MA, USA;|Department of Neuropediatrics UKGM, University of Giessen, Germany;|Department of Genetics, University Medical Center Utrecht, Utrecht, The Netherlands;|Division of Neurology, The Children's Hospital of Philadelphia, Pennsylvania, USA;|Diabetes Research Center, Diabetes Unit, Dept. of Medicine, Massachusetts General Hospital;|Psychiatric & Neurodevelopmental Genetics Unit, Dept. of Psychiatry, Mass. General Hospital
http://dx.doi.org/10.1101/159822 2017-07-05 Developmental Biology CC BY Abelson tyrosine-protein kinase 2 Regulates Myoblast Proliferation and Controls Muscle Fiber Length Steven J Burden|Jennifer K Lee Skirball Institute of Biomolecular Medicine, NYU Medical Center, United States;|NYU Medical Center, United States
http://dx.doi.org/10.1101/148551 2017-07-05 Neuroscience Striatal cholinergic receptor activation causes a rapid, selective, & state-dependent rise in corticostriatal β activity. Benjamin Rafael Pittman-Polletta|Allison Quach|Ali I. Mohammed|Michael Romano|Krishnakanth Kondabolou|Nancy J. Kopell|Xue Han|Michelle M. McCarthy Boston University
http://dx.doi.org/10.1101/159798 2017-07-05 Bioinformatics CC BY riboSeed: leveraging prokaryotic genomic architecture to assemble across ribosomal regions Nicholas R. Waters|Florence Abram|Fiona Brennan|Ashleigh Holmes|Leighton Pritchard National University of Galway, Ireland; James Hutton Institute, Dundee, Scotland;|National University of Ireland, Galway;|Teagasc, Johnstown Castle, Wexford, Ireland; National University of Ireland, Galway;|James Hutton Institute, Dundee, Scotland
http://dx.doi.org/10.1101/159723 2017-07-05 Systems Biology Quantifying 35 transcripts in a single tube: Model-based calibration of the GeXP RT-PCR assay Pauline Marquardt|Britta Werthmann|Viktoria Raetzel|Markus Haas|Wolfgang Marwan Otto-von-Guericke Universitaet
http://dx.doi.org/10.1101/159681 2017-07-05 Neuroscience CC BY Mind-wandering in people with hippocampal amnesia Cornelia McCormick|Clive R. Rosenthal|Thomas D. Miller|Eleanor Maguire University College London;|University of Oxford
http://dx.doi.org/10.1101/159632 2017-07-05 Systems Biology CC BY-NC-ND Efficient strategies for screening large-scale genetic interaction networks Raamesh Deshpande|Justin Nelson|Scott William Simpkins|Michael Costanzo|Jeff S. Piotrowski|Sheena C. Li|Charlie Boone|Chad L. Myers University of Minnesota;|University of Minnesota - Twin Cities;|University of Toronto;|Yumanity Theraputics;|RIKEN
http://dx.doi.org/10.1101/158949 2017-07-05 Neuroscience CC BY Data-driven subtyping of behavioural problems associated with ADHD in children Joe Bathelt|Joni Holmes|Duncan E. Astle MRC Cognition and Brain Sciences Unit, University of Cambridge;|-
http://dx.doi.org/10.1101/159590 2017-07-05 Neuroscience CC BY-NC-ND A Model of Temporal Scaling Correctly Predicts that Weber′s Law is Speed-dependent Nicholas F Hardy|Vishwa Goudar|Juan L Romero-Sosa|Dean Buonomano University of California, Los Angeles
http://dx.doi.org/10.1101/149260 2017-07-05 Neuroscience CC BY-ND Improved accuracy of lesion to symptom mapping with multivariate sparse canonical correlations Dorian Pustina|Brian Avants|Olufunsho Faseyitan|John Medaglia|H. Branch Coslett University of Pennsylvania
http://dx.doi.org/10.1101/159384 2017-07-05 Genomics CC BY-NC-ND Quartz-Seq2: a high-throughput single-cell RNA-sequencing method that effectively uses limited sequence reads Yohei Sasagawa|Hiroki Danno|Hitomi Takada|Masashi Ebisawa|Tetsutaro Hayashi|Akira Kurisaki|Itoshi Nikaido Advanced Center for Computing and Communication, RIKEN;|Nara Institute of Science and Technology
http://dx.doi.org/10.1101/159293 2017-07-05 Microbiology CC BY Mapping-based all-RNA-information sequencing analysis (ARIseq) pipeline simultaneously revealed taxonomic composition, gene expression, and their correlation in an acidic stream ecosystem Arisa Tsuboi|Misao Itouga|Yuichi Hongoh|Shigeharu Moriya Tokyo Institute of Technology;|RIKEN Institute
http://dx.doi.org/10.1101/159673 2017-07-05 Developmental Biology CC BY In vivo Imaging β-cell Function Reveals Two Waves of β-cell Maturation Jia Zhao|Weijian Zong|Yi Wu|Jiayu Shen|Dongzhou Gou|Yiwen Zhao|Runlong Wu|Fuzeng Niu|Xu Wang|Xuan Zheng|Aimin Wang|Yunfeng Zhang|Jing-Wei Xiong|Liangyi Chen|Yanmei Liu Institute of Molecular Medicine;|School of Software and Microelectronics;|School of Electronics Engineering and Computer Science;|Peking University
http://dx.doi.org/10.1101/159533 2017-07-05 Bioinformatics Network simulations of interneuron circuits in the honeybee primary auditory center Ajayrama Kumaraswamy|Aynur Maksutov|Kazuki Kai|Hiroyuki Ai|Hidetoshi Ikeno|Thomas Wachtler Ludwig-Maximilians Universitaet Muenchen;|Moscow Institute of Physics and Technology;|Fukuoka University;|University of Hyogo
http://dx.doi.org/10.1101/159608 2017-07-06 Genomics CC BY-ND A reanalysis of Schaefer et al. does not indicate extensive CRISPR/Cas9 mediated off-target editing events Reynald M. Lescarbeau|Bradley A. Murray|Thomas M. Barnes|Nessan Bermingham Intellia Therapeutics
http://dx.doi.org/10.1101/159640 2017-07-06 Genetics CC BY-NC-ND Unleashing meiotic crossovers in hybrid plants Joiselle B. Fernandes|Mathilde Seguela-Arnaud|Cecile Larcheveque|Andrew H. Lloyd|Raphael Mercier INRA
http://dx.doi.org/10.1101/160085 2017-07-06 Bioinformatics CC BY-NC RNA Transcriptome Mapping with GraphMap Kresimir Krizanovic|Ivan Sovic|Ivan Krpelnik|Mile Sikic University of Zagreb Faculty of Electrical Engineering and Computing;|Rudjer Boskovic Institute
http://dx.doi.org/10.1101/156547 2017-07-06 Cancer Biology Dissecting targeted therapy resistance: Integrating models to quantify environment mediated drug resistance Noemi Picco|Erik Sahai|Philip Maini|Alexander Anderson University of Oxford;|The Francis Crick Institute;|H. Lee Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/160226 2017-07-06 Evolutionary Biology CC BY-NC-ND The global impact of Wolbachia on mitochondrial diversity and evolution Marie Cariou|Laurent Duret|Sylvain Charlat University of Namur, Department of Biology;|CNRS - Unieversité Lyon 1 - Laboratoire de Biométrie & Biologie Evolutive
http://dx.doi.org/10.1101/159731 2017-07-06 Neuroscience CC BY Non-linear Auto-Regressive Models for Cross-Frequency Coupling in Neural Time Series Tom Dupre la Tour|Lucille Tallot|Laetitia Grabot|Valerie Doyere|Virginie van Wassenhove|Yves Grenier|Alexandre Gramfort Telecom ParisTech;|Neuroscience Paris Seine;|Cognitive Neuroimaging Unit;|Neuro-PSI;|Inria Parietal
http://dx.doi.org/10.1101/159905 2017-07-06 Cancer Biology Ponatinib shows potent antitumor activity in small cell carcinoma of the ovary hypercalcemic type (SCCOHT) through multi-kinase inhibition Jessica D. Lang|William P. D. Hendricks|Holly Yin|Jeffrey Kiefer|Pilar Ramos|Ritin Sharma|Patrick Pirrotte|Elizabeth A. Raupach|Chris Sereduk|Nanyun Tang|Winnie S. Liang|Megan Washington|Salvatore J. Facista|Victoria L. Zismann|Emily M. Cousins|Michael B. Major|Yemin Wang|Anthony N. Karnezis|Krystal A. Orlando|Aleksandar Sekulic|Ralf Hass|Barbara C. Vanderhyden|Kesavannair Praveen|Bernard E. Weissman|David G. Huntsman|Jeffrey M. Trent TGen (Translational Genomics Research Institute);|University of North Carolina;|University of British Columbia;|Hannover Medical School;|Ottawa Hospital Research Institute;|Molecular Response
http://dx.doi.org/10.1101/159830 2017-07-06 Physiology CC BY-NC-ND Common Piezo1 allele in African populations causes xerocytosis and attenuates Plasmodium infection Shang Ma|Stuart Cahalan|Rakhee Lohia|Gregory LaMonte|Weizheng Zeng|Swetha Murthy|Emma Paytas|Nathan D. Grubaugh|Ramya Gamini|Laurence Berry|Viktor Lukacs|Tess Whitwam|Meaghan Loud|Andrew I. Su|Kristian G. Andersen|Elizabeth A. Winzeler|Eric Honore|Kai Wengelnik|Ardem Patapoutian Howard Hughes Medical Institute, Dorris Neuroscience Center, TSRI;|Vertex Pharmaceuticals, Inc.;|DIMNP, CNRS, INSERM, Univ. Montpellier, Montpellier, France;|Division of Host-Microbe Systems & Therapeutics, Department of Pediatrics, UCSD;|Department of Immunology and Microbiology, The Scripps Research Institute, La Jolla;|Department of Integrative, Structural and Computational Biology, Scripps Research Institute;|DIMNP, CNRS, INSERM, Univ Montpellier, Montpellier, France;|Division of Host-Microbe Systems & Therapeutics, Department of Pediatrics, UCSD, La Jolla;|Universite Cote d Azur, Centre National de la Recherche Scientifique, France
http://dx.doi.org/10.1101/159657 2017-07-06 Genetics CC BY-NC-ND FIGL1 and its novel partner FLIP form a conserved complex that regulates homologous recombination. Joiselle Fernandes|Marine Duhamel|Mathilde Seguela-Arnaud|Nicole Froger|Chloe Girard|Sandrine Choinard|Nancy De Winne|Geert De Jaeger|Kris Gevaert|Raphael Guerois|Rajeev Kumar|Raphael Mercier INRA;|VIB;|Ghent University;|CEA
http://dx.doi.org/10.1101/160044 2017-07-06 Genetics Using Structural Equation Modeling to Jointly Estimate Maternal and Foetal Effects on Birthweight in the UK Biobank Nicole Warrington|Rachel Freathy|Michael C. Neale|David M. Evans University of Queensland;|Institute of Biomedical and Clinical Science, University of Exeter Medical School;|Depts. of Psychiatry and Human & Molecular Genetics, Virginia Commonwealth University;|University of Queensland Diamantina Institute, Translational Research Institute
http://dx.doi.org/10.1101/159764 2017-07-06 Genetics Massive crossover elevation via combination of HEI10 and recq4a recq4b during Arabidopsis meiosis Heidi Serra|Christophe Lambing|Catherine H. Griffin|Stephanie D. Topp|Mathilde Seguela-Arnaud|Joiselle Fernandes|Raphael Mercier|Ian R. Henderson University of Cambridge;|Institue Jean-Pierre Bourgin, INRA
http://dx.doi.org/10.1101/160051 2017-07-06 Plant Biology Metabolic process of raffinose family oligosacharrides during cold stress and recovery in cucumber leaves Man Lu|Zhiping Zhang|Jinjin Xu|Wenhua Cao|Minmin Miao Yangzhou University
http://dx.doi.org/10.1101/160010 2017-07-06 Developmental Biology Repeated co-option of a conserved gene regulatory module underpins the evolution of the crustacean carapace, insect wings and other flat outgrowths Yasuhiro Shiga|Yasuhiko Kato|Yuko Aragane-Nomura|Takayuki Haraguchi|Theodora Saridaki|Hajime Watanabe|Taisen Iguchi|Hideo Yamagata|Michalis Averof Tokyo University of Pharmacy and Life Sciences;|Osaka University;|Institute of Molecular Biology and Biotechnology;|Yokohama City University;|Institut de Genomique Fonctionnelle de Lyon
http://dx.doi.org/10.1101/159913 2017-07-06 Bioinformatics CC BY-NC Uncovering genomic trajectories with heterogeneous genetic and environmental backgrounds across single-cells and populations Kieran Campbell|Christopher Yau University of Oxford;|University of Birmingham
http://dx.doi.org/10.1101/159921 2017-07-06 Microbiology CC BY-NC Reactive Oxygen Species-Dependent Essential Genes in Salmonella Typhimurium Sardar Karash|Young Min Kwon University of Arkansas, Fayetteville
http://dx.doi.org/10.1101/160143 2017-07-06 Adaptive gain control in the human dorsal anterior cingulate cortex Vickie Li|Elizabeth Michael|Jan Balaguer|Santiago Herce Castanon|Christopher Summerfield University of Oxford;|University of Cambridge
http://dx.doi.org/10.1101/160036 2017-07-06 Enhanced proofreading governs CRISPR-Cas9 targeting accuracy Janice S. Chen|Yavuz S. Dagdas|Benjamin P. Kleinstiver|Moira M. Welch|Lucas B. Harrington|Samuel H. Sternberg|J. Keith Joung|Ahmet Yildiz|Jennifer A. Doudna University of California, Berkeley;|Massachusetts General Hospital;|Caribou Biosciences, Inc.;|UC Berkeley/HHMI
http://dx.doi.org/10.1101/160374 2017-07-06 CC BY-NC-ND Robust and Bright Genetically Encoded Fluorescent Markers for Highlighting Structures and Compartments in Mammalian Cells Anna O Chertkova|Marieke Mastop|Marten Postma|Nikki van Bommel|Sanne van der Niet|Kevin L. Batenburg|Linda Joosen|Theodorus W.J. Gadella|Yasushi Okada|Joachim Goedhart UvA;|RIKEN;|University of Amsterdam
http://dx.doi.org/10.1101/160382 2017-07-06 CC BY-NC-ND Disorder and the neural representation of complex odors: smelling in the real world Kamesh Krishnamurthy|Ann M Hermundstad|Thierry Mora|Aleksandra M Walczak|Vijay Balasubramanian David Rittenhouse and Richards Laboratories, University of Pennsylvania;|Janelia Research Campus, Howard Hughes Medical Institute;|Laboratoire de Physique Statistique, UPMC and Ecole Normale Superieure;|Laboratoire de Physique Theorique, UPMC and Ecole Normale Superieure
http://dx.doi.org/10.1101/160218 2017-07-06 CC BY-NC-ND High Resolution Mitochondrial DNA Analysis Sheds Light On Human Diversity, Cultural Interactions And Population Mobility In Northwestern Amazonia Leonardo Arias|Chiara Barbieri|Guillermo Barreto|Mark Stoneking|Brigitte Pakendorf Max Planck Institute for Evolutionary Anthropology;|Max Planck Institute for the Science of Human History;|Laboratorio de Genetica Molecular Humana, Universidad del Valle, Cali, Colombia;|Dynamique du Langage, UMR5596, CNRS & Universite Lyon 2
http://dx.doi.org/10.1101/160317 2017-07-06 CC BY-NC-ND Classifying smartphone-based accelerometer data to obtain validated measures of subject activity status, step count, and gait speed Yong Jun Kwon|Thawda Aung|Sarah M Synovec|Anthony D Oberle|Cassia Rye-Hanton|Jackie Whittington|Evan H. Goulding|Bradley C. Witbrodt|Stephen B|A Katrin Schenk Randolph College;|University of Nebraska Medical Center;|Northwestern University;|Emory University
http://dx.doi.org/10.1101/160234 2017-07-06 CC BY-NC-ND The Neurocognitive Architecture of Individual Differences in Math Anxiety in Typical Children Charlotte Emily Hartwright|Chung Yen Looi|Francesco Sella|Alberto Inuggi|Flavia Heloisa Santos|Carmen Gonzalez-Salinas|Jose M. Garcia Santos|Roi Cohen Kadosh|Luis J. Fuentes Aston University, UK;|University of Bristol, UK;|University of Oxford, UK;|Istituto Italiano de Tecnologia, Genova, Italia;|Universidad de Murcia, Spain;|Hospital Morales Meseguer, Murcia, Spain
http://dx.doi.org/10.1101/160176 2017-07-06 Building a high-resolution in vivo minimum deformation average model of the human hippocampus Nina Jacobsen|Julie Broni Munk|Maciej Plocharski|Lasse Riis Ostergaard|Lars Marstaller|David Reutens|Markus Barth|Andrew Janke|Steffen Bollmann Aalborg University;|Swansea University;|The University of Queensland
http://dx.doi.org/10.1101/160119 2017-07-06 Psychosis and the level of mood incongruence in Bipolar Disorder are related to genetic liability for Schizophrenia Judith Allardyce|Ganna Leonenko|Marian Hamshere|Antonio Pardinas|Liz Forty|Sarah Knott|Katherine Gordon-Smith|David Porteous|Caroline Hayward|Arianna Di Florio|Lisa Jones|Andrew McIntosh|Michael J. Owen|Peter Holmans|James Walters|Nicholas Craddock|Ian Jones|Michael C. O'Donovan|Valentina Escott-Price Cardiff University;|University of Worcester;|University of Edinburgh;|Uniiversity of Worcester
http://dx.doi.org/10.1101/160366 2017-07-06 CC BY-NC-ND Enhanced neuronal regeneration in the CAST/Ei mouse strain is linked to expression of differentiation markers after injury Veronique Lisi|Bhagat Singh|Michel Giroux|Elmer Guzman|Michio W Painter|Yung-Chih Cheng|Eric W Huebner|Giovanni Coppola|Michael Costigan|Clifford J Woolf|Kenneth S Kosik UCSB;|Boston Children's Hospital and Harvard Medical School, Boston, MA 02115, USA;|University of California, Santa Barbara, Santa Barbara, CA 93106, USA;|David Geffen School of Medicine, University of California, Los Angeles, Los Angeles, CA 90095, USA;|University of California, Santa Barbara, Santa Barbara, CA 93106, USA
http://dx.doi.org/10.1101/158204 2017-07-06 CC BY Diverse Streptococcus pneumoniae strains drive a MAIT cell response through MR1-dependent and cytokine-driven pathways Ayako Kurioka|Bonnie van Wilgenburg|Reza Rezaei Javan|Ryan Hoyle|Andries J. van Tonder|Caroline L. Harrold|Tianqi Leng|Prabhjeet Phalora|Lauren J. Howson|Dawn Shepherd|Vincenzo Cerundolo|Angela B. Brueggemann|Paul Klenerman University of Oxford
http://dx.doi.org/10.1101/160416 2017-07-06 In vivo calcium imaging visualizes peripheral neuron sensitization in murine osteoarthritis Rachel Miller|Yu Shin Kim|Phuong B. Tran|Xinzhong Dong|Richard J. Miller|Anne-Marie Malfait Rush University Medical Center;|University of Texas Medical Branch;|Johns Hopkins University;|Northwestern University
http://dx.doi.org/10.1101/160127 2017-07-06 Distinctive desmoplastic 3D morphology associated with BRAFV600E in papillary thyroid cancers Maxime Tarabichi|Aline Antoniou|Soazig Le Pennec|David Gacquer|Nicolas de Saint Aubain|Ligia Craciun|Thierry Cielen|Ioanna Laios|Denis Larsimont|Guy Andry|Jacques E. Dumont|Carine Maenhaut|Vincent Detours Universite Libre de Bruxelles (ULB);|Jules Bordet Institute - Universite Libre de Bruxelles (ULB)
http://dx.doi.org/10.1101/160267 2017-07-06 SLFL Genes Participate in the Ubiquitination and Degradation of S-RNase in Self-Compatible Chinese Peach Qiuju Chen|Dong Meng|Wei Li|Zhaoyu Gu|Hui Yuan|Xuwei Duan|Qing Yang|Yang Li|Tianzhong Li China Agricultural University;|Cornell University
http://dx.doi.org/10.1101/160028 2017-07-06 CC BY-NC-ND Mechanics of Hydra Detachment from Subrates: The Role of Substrate Rigidity and Starvation Neha Khetan|Shagun Maheshwari|Chaitanya A. Athale IISER Pune
http://dx.doi.org/10.1101/160150 2017-07-06 Neuroscience CC BY-NC-ND Recurrent excitation between motoneurones propagates across segments and is purely glutamatergic Gardave Singh Bhumbra|Marco Beato UCL
http://dx.doi.org/10.1101/160333 2017-07-06 Genotype, nitrogen and herbivory shape plant defense: the case of a vitamin-enriched maize Agnes Ardanuy|Victoria Pastor|Gaetan Glauser|Paul Christou|Ted Turlings|Ramon Albajes Universitat de Lleida;|University Jaume I;|University of Neuchâtel;|ICREA- University of Lleida;|University of Lleida
http://dx.doi.org/10.1101/160184 2017-07-06 Bioinformatics CC BY-NC JASPAR RESTful API: accessing JASPAR data from any programming language Aziz Khan|Anthony Mathelier Centre for Molecular Medicine Norway (NCMM);|Centre for Molecular Medicine Norway (NCMM)
http://dx.doi.org/10.1101/160101 2017-07-06 CC BY-NC-ND Versatile approach for functional analysis of human proteins and efficient stable cell line generation using FLP-mediated recombination system Roman J. Szczesny|Katarzyna Kowalska|Kamila Klosowska-Kosicka|Aleksander Chlebowski|Ewelina P. Owczarek|Zbigniew Warkocki|Tomasz M. Kulinski|Dorota Adamska|Kamila Affek|Agata Jedroszkowiak|Anna V. Kotrys|Dominik Cysewski|Rafal Tomecki|Pawel S. Krawczyk|Lukasz S. Borowski|Andrzej Dziembowski Institute of Biochemistry and Biophysics, PAS; University of Warsaw, Faculty of Biology;|Institute of Biochemistry and Biophysics, PAS
http://dx.doi.org/10.1101/160168 2017-07-06 Genomics CC BY The most developmentally truncated fishes show extensive Hox gene loss and miniaturized genomes Martin Malmstrom|Ralf Britz|Michael Matschiner|Ole Kristian Torresen|Renny Kurnia Hadiaty|Norsham Yaakob|Heok Hui Tan|Kjetill Sigurd Jakobsen|Walter Salzburger|Lukas Ruber Department of Biosciences, University of Oslo;|Department of Life Sciences, Natural History Museum, London;|University of Basel;|Indonesian Institute of Sciences, Museum Zoologicum Bogoriense, Cibinong;|Forest Research Institute Malaysia, Kuala Lumpur;|Lee Kong Chian Natural History Museum, National University of Singapore;|Naturhistorisches Museum der Burgergemeinde Bern
http://dx.doi.org/10.1101/160689 2017-07-07 Genomics Ancestrally Shared Regenerative Mechanisms Across the Metazoa: A Transcriptomic Case Study in the Demosponge Halisarca caerulea Nathan James Kenny|Jasper M. de Goeij|Didier M. de Bakker|Casey G. Whalen|Eugene Berezikov|Ana Riesgo Natural History Museum, London;|Department of Freshwater and Marine Science, University of Amsterdam;|European Research Institute for the Biology of Ageing
http://dx.doi.org/10.1101/160580 2017-07-07 Evolutionary Biology Solution structure of sperm lysin yields novel insights into molecular dynamics of rapid protein evolution Damien B. Wilburn|Lisa M. Tuttle|Rachel E. Klevit|Willie J. Swanson University of Washington
http://dx.doi.org/10.1101/160655 2017-07-07 Neuroscience CC BY-NC A Novel, Fast and Efficient Single-Sensor Automatic Sleep-Stage Classification Based on Complementary Cross-Frequency Coupling Estimates Stavros I. Dimitriadis|Christos Salis|David E. Linden School of Medicine, Cardiff University, UK;|Univ. of Western Macedonia Dept. of Informatics & Telecomm. Engineering, Kozani, Greece;|Neuroscience and Mental Health Research Institute (NMHRI) Psychology, Cardiff, UK
http://dx.doi.org/10.1101/160291 2017-07-07 Genetics A combined analysis of genetically correlated traits identifies 107 loci associated with intelligence William D. Hill|Gail Davies|Andrew M. McIntosh|Catharine R. Gale|Ian J. Deary University of Edinburgh
http://dx.doi.org/10.1101/160424 2017-07-07 Developmental Biology Cortical area and subcortical volume mediate the effect of parental education and adverse experiences on cognitive performance in youth Chintan M. Mehta|Jeffrey G. Malins|Kimberly G. Noble|Jeffrey R. Gruen Yale University;|Columbia University
http://dx.doi.org/10.1101/160465 2017-07-07 Bioinformatics CC BY-NC Flexible Analysis of Electronic Medical Record Data with Composite Mixture Models Michael Benjamin Mayhew|Brenden K. Petersen|Ana Paula Sales|John D. Greene|Vincent X. Liu|Todd S. Wasson Lawrence Livermore National Laboratory;|Kaiser Permanente Northern California
http://dx.doi.org/10.1101/160705 2017-07-07 Genomics CC BY-NC-ND Assessing Runs of Homozygosity: A comparison of SNP Array and Whole Genome Sequence low coverage data Francisco C. Ceballos|Scott Hazelhurst|Michele Ramsay Sydney Brenner Institute for Molecular Bioscience University of the Witwatersrand
http://dx.doi.org/10.1101/160572 2017-07-07 Biochemistry CC BY-NC-ND Association of Vancomycin with Lipid Vesicles Xiaohui Hu|Kin Yep Tam University of Macau
http://dx.doi.org/10.1101/160440 2017-07-07 Neuroscience Toward leveraging big data in human functional connectomics: Generalization of brain graphs across scanners, sessions, and paradigms Hengyi Cao|Sarah McEwen|Carrie Bearden|Jean Addington|Bradley Goodyear|Kristin Cadenhead|Heline Mirzakhanian|Barbara Cornblatt|Doreen Olvet|Daniel Mathalon|Thomas McGlashan|Diana Perkins|Aysenil Belger|Larry Seidman|Heidi Thermenos|Ming Tsuang|Theo van Erp|Elaine Walker|Stephan Hamann|Scott Woods|Tyrone Cannon Yale University;|UCLA;|University of Calgary;|UCSD;|Zucker Hillside Hospital;|UCSF;|University of North Carolina;|Harvard Medical School;|UCI;|Emory University
http://dx.doi.org/10.1101/160614 2017-07-07 Bioinformatics CC BY-NC Completing bacterial genome assemblies with multiplex MinION sequencing Ryan R. Wick|Louise M. Judd|Claire L. Gorrie|Kathryn E. Holt The University of Melbourne
http://dx.doi.org/10.1101/160499 2017-07-07 Genomics CC BY-NC Whole Genome Sequencing in Psychiatric Disorders: the WGSPD Consortium Stephan J. Sanders|Benjamin M. Neale|Hailiang Huang|Donna M. Werling|Joon-Yong An|Shan Dong|Goncalo Abecasis|P. Alexander Arguello|John Blangero|Michael Boehnke|Mark Daly|Kevin Eggan|Daniel H. Geschwind|David Glahn|David B. Goldstein|Raquel E. Gur|Robert E. Handsaker|Steven A. McCarroll|Roel A. Ophoff|Aarno Palotie|Carlos Pato|Chiara Sabatti|Matthew W. State|A. Jeremy Willsey|Steven E. Hyman|Anjene Addington|Thomas Lehner|Nelson B. Freimer UCSF;|Massachusetts General Hospital;|MGH;|-;|University of Michigan;|NIMH;|University of Texas;|Harvard University;|UCLA;|Yale University;|Columbia University;|University of Pennsylvania;|Stanley Center;|Massachusetts General Hospital and The Broad Institute;|University of Southern California;|Stanford;|University of California, Los Angeles
http://dx.doi.org/10.1101/158055 2017-07-07 Neuroscience A common neural network among state, trait, and pathological anxiety from whole-brain functional connectivity Yu Takagi|Yuki Sakai|Yoshinari Abe|Seiji Nishida|Ben J. Harrison|Ignacio Martinez-Zalacain|Carles Soriano-Mas|Jin Narumoto|Saori C. Tanaka Graduate School of Information Science, Nara Institute of Science and Technology, Japan;|Graduate School of Medical Science, Kyoto Prefectural University of Medicine, Kyoto, Japan;|Department of Psychiatry, The University of Melbourne and Melbourne Health, Australia;|Department of Psychiatry, Bellvitge Biomedical Research Institute-IDIBELL, Barcelona, Spain;|ATR Brain Information Communication Research Laboratory Group, Kyoto, Japan
http://dx.doi.org/10.1101/160259 2017-07-07 Neuroscience CC BY Imaging and dynamic causal modelling reveal brain-wide changes in effective connectivity and synaptic dynamics during epileptic seizures. Richard E Rosch|Paul Hunter|Torsten Baldeweg|Karl Friston|Martin Meyer University College London;|King's College London
http://dx.doi.org/10.1101/160473 2017-07-07 Pharmacology and Toxicology Predicting serious rare adverse reactions of novel chemicals Aleksandar Poleksic|Lei Xie University of Northern Iowa;|Hunter College, CUNY
http://dx.doi.org/10.1101/160564 2017-07-07 Ecology Measuring the gut microbiome in birds: comparison of faecal and cloacal sampling Elin Videvall|Maria Strandh|Anel Engelbrecht|Schalk Cloete|Charlie K. Cornwallis Lund University;|Western Cape Department of Agriculture
http://dx.doi.org/10.1101/160523 2017-07-07 Ecology CC BY-NC-ND Intraspecific variation in indirect plant-soil feedbacks as a driver of a wetland plant invasion Warwick J. Allen|Laura A. Meyerson|Andrew J. Flick|James T. Cronin Lincoln University;|University of Rhode Island;|Louisiana State University
http://dx.doi.org/10.1101/160606 2017-07-07 Bioinformatics CC BY Axe: rapid, competitive sequence read demultiplexing using a trie Kevin D. Murray|Justin O. Borevitz Australian National University
http://dx.doi.org/10.1101/159806 2017-07-07 Evolutionary Biology CC BY-NC-ND Divergence times in demosponges (Porifera): first insights from new mitogenomes and the inclusion of fossils in a birth-death clock model Astrid Schuster|Sergio Vargas|Ingrid Knapp|Shirley A. Pomponi|Robert J. Toonen|Dirk Erpenbeck|Gert Woerheide Ludwig-Maximilians-Universitaet Muenchen;|Hawaii Institute of Marine Biology;|Harbor Branch Oceanographic Institute
http://dx.doi.org/10.1101/160671 2017-07-07 Animal Behavior and Cognition CC BY-NC-ND Bayesian inference and simulation approaches improve the assessment of Elo-scores in the analysis of social behaviour Adeelia S. Goffe|Julia Fischer|Holger Sennhenn-Reulen Cognitive Ethology Laboratory, German Primate Center - Leibniz Institute for Primate Research;|Leibniz Science Campus Goettingen 'Primate Cognition', Goettingen, Germany
http://dx.doi.org/10.1101/159988 2017-07-07 Synthetic Biology CC BY-ND Cell-free and in vivo characterization of Lux, Las, and Rpa quorum activation systems in E. coli Andrew Halleran|Richard M. Murray California Institute of Technology
http://dx.doi.org/10.1101/160432 2017-07-07 Neuroscience An aggrecan fragment drives osteoarthritis pain through Toll-like receptor 2 Rachel Miller|Richard J. Miller|Shingo Ishihara|Phuong B. Tran|Suzanne B. Golub|Karena Last|Amanda J. Fosang|Anne-Marie Malfait Rush University Medical Center;|Northwestern University;|University of Melbourne
http://dx.doi.org/10.1101/160309 2017-07-07 Neuroscience CC BY NMDA-receptor antibodies alter cortical microcircuit dynamics Richard E Rosch|Sukhvir Wright|Gerald Cooray|Margarita Papadopoulou|Sushma Goyal|Ming Lim|Angela Vincent|Louise A Upton|Torsten Baldeweg|Karl J Friston University College London;|Aston University;|Karolinska Institute;|University of Toulouse;|Guy's and St. Thomas' NHS Foundation Trust;|University of Oxford
http://dx.doi.org/10.1101/160341 2017-07-07 Animal Behavior and Cognition Orb-web spider color polymorphism through the eyes of multiple prey and predators Nathalia Ximenes Goncalves|Felipe M. Gawryszewski Universidade Federal de Goias
http://dx.doi.org/10.1101/160887 2017-07-07 CC BY Combining multiple functional annotation tools increases completeness of metabolic annotation Marc Griesemer|Jeffrey A Kimbrel|Carol E Zhou|Ali Navid|Patrik D'haeseleer Lawrence Livermore National Laboratory
http://dx.doi.org/10.1101/160721 2017-07-07 CC BY-NC Learning of Active Binocular Vision in a Biomechanical Model of the Oculomotor System Lukas Klimmasch|Alexander Lelais|Alexander Lichtenstein|Bertram Emil Shi|Jochen Triesch Frankfurt Institute for Advanced Studies;|Hong Kong University of Science and Technology
http://dx.doi.org/10.1101/160747 2017-07-07 Rapid, parallel identification of pathways for catabolism of lignin-derived aromatic compounds Jacob H. Cecil|Joshua Michener Oak Ridge National Lab
http://dx.doi.org/10.1101/160762 2017-07-07 CC BY Pavement cells and the topology puzzle Ross Carter|Yara Elena Sanchez-Corrales|Veronica A. Grieneisen|Athanasius F. M. Maree John Innes Centre
http://dx.doi.org/10.1101/160556 2017-07-07 A broad role for YBX1 in defining the small non-coding RNA composition of exosomes Matthew J. Shurtleff|Jun Yao|Yidan Qin|Ryan M. Nottingham|Morayma Temoche-Diaz|Randy Schekman|Alan Lambowitz University of California, Berkeley;|University of Texas, Austin
http://dx.doi.org/10.1101/160895 2017-07-08 Neuroscience CC BY-NC-ND A random-matrix theory of the number sense Thomas Hannagan|Andreas Nieder|Pooja Viswanathan|Stanislas Dehaene CEA DSV/I2BM, INSERM, Universite Paris-Sud, Universite Paris-Saclay;|University of Tubingen;|College de France, CEA DSV/I2BM, INSERM, Universite Paris-Sud, Universite Paris-Saclay
http://dx.doi.org/10.1101/160929 2017-07-08 Genomics Epigenetic activation of meiotic recombination in Arabidopsis centromeres via loss of H3K9me2 and non-CG DNA methylation Charles J. Underwood|Kyuha Choi|Christophe Lambing|Xiaohui Zhao|Heidi Serra|Filipe Borges|Joe Simorowski|Evan Ernst|Yannick Jacob|Ian R. Henderson|Robert A. Martienssen Cold Spring Harbor Laboratory;|University of Cambridge
http://dx.doi.org/10.1101/160770 2017-07-08 Genomics CC BY-NC-ND A large-scale genome-wide enrichment analysis identifies new trait-associated genes, pathways and tissues across 31 human phenotypes Xiang Zhu|Matthew Stephens University of Chicago
http://dx.doi.org/10.1101/160911 2017-07-08 Genomics Nucleosomes and DNA methylation shape meiotic DSB frequency in Arabidopsis transposons and gene regulatory regions Kyuha Choi|Xiaohui Zhao|Christophe Lambing|Charles J. Underwood|Thomas J. Hardcastle|Heidi Serra|Andrew J. Tock|Piotr A. Ziolkowski|Nataliya E. Yelina|Robert A. Martienssen|Ian R. Henderson University of Cambridge;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/160812 2017-07-08 Evolutionary Biology CC BY-NC-ND Procedures for enumerating and uniformly sampling transmission trees for a known phylogeny Matthew David Hall University of Oxford
http://dx.doi.org/10.1101/160937 2017-07-08 Bioinformatics CC BY-NC Gene isoforms as expression-based biomarkers predictive of drug response in vitro Zhaleh Safikhani|Kelsie L. Thu|Jennifer Silvester|Petr Smirnov|Mathieu Lupien|Tak W. Mak|David Cescon|Benjamin Haibe-Kains Princess Margaret Cancer Centre, University Health Network;|University Health Network
http://dx.doi.org/10.1101/160952 2017-07-08 Evolutionary Biology CC BY-NC-ND The genomic architecture of a rapid island radiation: mapping chromosomal rearrangements and recombination rate variation in Laupala Thomas Blankers|Kevin P. Oh|Aureliano Bombarely|Kerry L. Shaw Cornell University;|Virginia Tech
http://dx.doi.org/10.1101/160960 2017-07-08 Genomics CC BY-ND Pan-cancer analysis reveals complex tumor-specific alternative polyadenylation Zhuyi Xue|Rene L. Warren|Ewan A. Gibb|Daniel MacMillan|Johnathan Wong|Readman Chiu|Stewart Austin Hammond|Catherine A. Ennis|Abigail Hahn|Sheila Reynolds|Inanc Birol BC Cancer Agency, Genome Sciences Centre;|Institute for Systems Biology
http://dx.doi.org/10.1101/160879 2017-07-08 Cancer Biology Translational and HIF1α-dependent metabolic reprograming underpin oncometabolome plasticity and synergy between oncogenic kinase inhibitors and biguanides. Laura Hulea|Simon-Pierre Gravel|Masahiro Morita|Marie Cargnello|Oro Uchenunu|Young Kyuen Im|Shannon McLaughlan|Ola Larsson|Michael Ohh|Tiago Ferreira|Celia Greenwood|Gaelle Bridon|Daina Avizonis|Josie Ursini-Siegel|Julie St-Pierre|Michael Pollak|Ivan Topisirovic McGill University;|University of Texas Health Science Center at San Antonio;|INSERM, Toulouse, France;|Lady Davis Institute, JGH, Montreal, Canada;|Karolinska Institutet, Stockholm, Sweden;|University of Toronto
http://dx.doi.org/10.1101/160754 2017-07-08 Physiology CC BY-NC-ND Versatile open software to quantify cardiomyocyte and cardiac muscle contraction in vitro and in vivo Luca Sala|Berend J. van Meer|Leon G. J. Tertoolen|Jeroen Bakkers|Milena Bellin|Richard Davis|Chris Denning|Michel A. E. Dieben|Thomas Eschenhagen|Elisa Giacomelli|Catarina Grandela|Arne Hansen|Eduard R. Holman|Monique R. M. Jongbloed|Sarah M. Kamel|Charlotte D. Koopman|Quentin Lachaud|Ingra Mannhardt|Mervyn P. H. Mol|Valeria V. Orlova|Robert Passier|Marcelo C. Ribeiro|Umber Saleem|Godfrey L. Smith|Christine L. Mummery|Francis L. Burton Leiden University Medical Center;|Hubrecht Institute;|University of Nottingham;|UKE Universitatsklinikum Hamburg-Eppendorf;|University of Glasgow;|University of Twente
http://dx.doi.org/10.1101/160853 2017-07-08 Systems Biology CC BY-NC-ND Improving Designer Glycan Production in Escherichia coli through Model-Guided Metabolic Engineering Joseph A Wayman|Cameron Glasscock|Thomas Mansell|Matthew P DeLisa|Jeffrey Varner Cornell University
http://dx.doi.org/10.1101/161166 2017-07-08 CC BY-NC Cyanobacterial Growth on Municipal Wastewater Requires Low Temperatures Travis C. Korosh|Andrew Dutcher|Brian F. Pfleger|Katherine McMahon University of Wisconsin - Madison
http://dx.doi.org/10.1101/161133 2017-07-08 CC BY Positive Feedback Between Contractile Ring Myosin and Ring-Directed Cortical Flow Drives Cytokinesis Renat Khaliullin|Rebecca Green|Linda Shi|Michael Berns|J. Sebastian Gomez-Cavazos|Arshad Desai|Karen Oegema Ludwig Institute for Cancer Research, UCSD;|Department of Bioengineering & Institute of Engineering in Medicine, UCSD;|University of California, San Diego
http://dx.doi.org/10.1101/160994 2017-07-08 CC BY-NC No cause for pause: new analyses of ramping and stepping dynamics in LIP (Rebuttal to Response to Reply to Comment on Latimer et al. 2015) Kenneth W. Latimer|Alexander C. Huk|Jonathan W. Pillow University of Washington;|The University of Texas at Austin;|Princeton University
http://dx.doi.org/10.1101/161000 2017-07-08 CC BY-NC-ND SMELL-S and SMELL-R: olfactory tests not influenced by odor-specific insensitivity or prior olfactory experience Julien Wen Hsieh|Andreas Keller|Michele Wong|Rong-San Jiang|Leslie B. Vosshall The Rockefeller University;|Taichung Veterans General Hospital
http://dx.doi.org/10.1101/161091 2017-07-09 CC BY-NC-ND Habitat diversification promotes environmental selection in planktonic prokaryotes and ecological drift in microbial eukaryotes Ramiro Logares|Sylvie V. M. Tesson|Bjorn Canback|Mikael Pontarp|Katarina Hedlund|Karin Rengefors Institute of Marine Sciences (ICM), CSIC, Barcelona, Spain;|Dept. of Chemistry & Molecular Biology, University of Gothenburg, Göteborg, Sweden;|Department of Biology, Lund University, Lund, Sweden;|Dept. of Ecology & Environmental Science, Umeå University, Umeå, Sweden
http://dx.doi.org/10.1101/161109 2017-07-09 Precision genome editing using synthesis-dependent repair of Cas9-induced DNA breaks Alexandre Paix|Andrew Folkmann|Daniel H. Goldman|Heather Kulaga|Michael Grzelak|Dominique Rasoloson|Supriya Paidemarry|Rachel Green|Randall Reed|Geraldine Seydoux Dept. of Molecular Biology and Genetics, HHMI, Johns Hopkins University, School of Medicine
http://dx.doi.org/10.1101/160986 2017-07-09 Coexistence of complete competitors with fitness inequality Lev Kalmykov|Vyacheslav Kalmykov Inst. of Theoretical and Experimental Biophysics, Russian Academy of Sciences, Pushchino, Moscow;|Institute of Cell Biophysics of Russian Academy of Sciences, Pushchino, Moscow Region 142290, Russia
http://dx.doi.org/10.1101/161182 2017-07-09 CC BY Speed breeding: a powerful tool to accelerate crop research and breeding Amy Watson|Sreya Ghosh|Matthew Williams|William S. Cuddy|James Simmonds|Maria-Dolores Rey|M. Asyraf Md Hatta|Alison Hinchliffe|Andrew Steed|Daniel Reynolds|Nikolai Adamski|Andy Breakspear|Andrey Korolev|Tracey Rayner|Laura E. Dixon|Adnan Riaz|William Martin|Merrill Ryan|David Edwards|Jacqueline Batley|Harsh Raman|Christian Rogers|Claire Domoney|Graham Moore|Wendy Harwood|Paul Nicholson|Mark J. Dieters|Ian H. DeLacy|Ji Zhou|Cristobal Uauy|Scott A. Boden|Robert F. Park|Brande B. H. Wulff|Lee T. Hickey The University of Queensland;|John Innes Centre;|The University of Sydney;|Earlham Institute, Norwich Research Park;|Queensland Department of Agriculture and Fisheries;|School of Plant Biology, The University of Western Australia;|Wagga Wagga Agricultural Institute;|Plant Breeding Institute, The University of Sydney
http://dx.doi.org/10.1101/161265 2017-07-09 A computational modelling framework to quantify the effects of passaging cell lines Wang Jin|Catherine J. Penington|Scott W. McCue|Matthew J. Simpson Queensland University of Technology
http://dx.doi.org/10.1101/161356 2017-07-09 Comprehensive Molecular Characterization of Mitochondrial Genomes in Human Cancers Yuan Yuan|Young Seok Ju|Youngwook Kim|Jun Li|Yumeng Wang|Yang Yang|Inigo Martincorena|Chad Creighton|John N. Weinstein|Yanxun Xu|Leng Han|Hyung-Lae Kim|Hidewaki Nakagawa|Keunchil Park|Peter J. Campbell|Han Liang The University of Texas MD Anderson Cancer Center;|Wellcome Trust Sanger Institute;|Sungkyunkwan University School of Medicine;|Baylor College of Medicine;|The University of Texas Health Science Center at Houston;|Johns Hopkins University;|The University of Texas Health Science Center;|Ewha Womans University School of Medicine;|RIKEN Center for Integrative Medical Sciences;|Samsung Medical Center;|-
http://dx.doi.org/10.1101/162685 2017-07-12 Consensus on Molecular Subtypes of Ovarian Cancer Gregory M. Chen|Lavanya Kannan|Ludwig Geistlinger|Victor Kofia|Zhaleh Safikhani|Deena M. A. Gendoo|Giovanni Parmigiani|Michael Birrer|Benjamin Haibe-Kains|Levi Waldron Princess Margaret Cancer Centre, Toronto, Ontario, Canada;|City University of New York School of Public Health, New York, New York, U.S.A.;|Dana-Farber Cancer Institute; Harvard Medical School, Boston, MA;|Center for Cancer Research, Massachusetts General Hospital, Boston, MA;|Harvard School of Public Health
http://dx.doi.org/10.1101/148221 2017-07-12 CC BY-NC-ND The rumen microbiome: an underexplored resource for novel antimicrobial discovery Linda Boniface Oyama|Susan Girdwood|Alan Cookson|Narcis Fernandez-Fuentes|Florence Prive|Hannah Vallin|Toby Wilkinson|Peter Golyshin|Olga Golyshina|Ralf Mikut|Kai Hilpert|Jennifer Richards|Mandy Wootton|Joan Edwards|Marc Maresca|Josette Perrier|Fionnuala Lundy|Yu Luo|Mei Zhou|Matthias Hess|Hilario Mantovani|Chris Creevey|Sharon Ann Huws IBERS, Aberystwyth University;|Bangor University;|Karlsruhe Institute of Technology;|St. George's University Hospital, London;|Public Health Wales;|Wageningen University, Netherlands;|University Marseille;|Queens University Belfast;|UC Davis;|Universidade de Vicosa, Brazil
http://dx.doi.org/10.1101/162750 2017-07-12 CC BY-NC-ND Blazing Signature Filter: a library for fast pairwise similarity comparisons Joon-Yong Lee|Grant M. Fujimoto|Ryan Wilson|H. Steven Wiley|Samuel H. Payne Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/162859 2017-07-12 CRAVAT 4: Cancer-Related Analysis of Variants Toolkit David Masica|Christopher Douville|Collin Tokheim|Rohit Bhattacharya|RyangGuk Kim|Kyle Moad|Michael C. Ryan|Rachel Karchin Johns Hopkins University;|In Silico Solutions
http://dx.doi.org/10.1101/162784 2017-07-12 CC BY-ND Pan-cancer analysis of whole genomes Peter J. Campbell|Gad Getz|Joshua M. Stuart|Jan O. Korbel|Lincoln D. Stein Wellcome Trust Sanger Institute;|Broad Institute;|University of California, Santa Cruz;|European Molecular Biology Laboratory;|Ontario Institute for Cancer Research;|-
http://dx.doi.org/10.1101/162800 2017-07-12 CC BY-NC-ND Polioviruses that bind a chimeric Pvr-nectin-2 protein identify capsid residues involved in receptor interaction Yi Lin|Vincent R. Racaniello Columbia University College of Physicans & Surgeons
http://dx.doi.org/10.1101/162701 2017-07-12 CC BY-ND Sequanix: A Dynamic Graphical Interface for Snakemake Workflows Dimitri Desvillechabrol|Rachel Legendre|Claire Rioualen|Christiane Bouchier|Jacques van Helden|Sean Kennedy|Thomas Cokelaer Institut Pasteur;|Inserm;|Aix-Marseille University
http://dx.doi.org/10.1101/162545 2017-07-12 CC BY-NC-ND Vaccination and the evolution of seasonal influenza Frank Tian Wen|Anup Malani|Sarah Cobey University of Chicago
http://dx.doi.org/10.1101/162776 2017-07-12 SQUID: Transcriptomic Structural Variation Detection from RNA-seq Cong Ma|Mingfu Shao|Carl Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/162735 2017-07-12 Toward Rapid Sequenced-Based Detection and Characterization of Causative Agents of Bacteremia F. Curtis Hewitt|Stephanie L. Guertin|Krista L. Ternus|Kathleen Schulte|Dana R. Kadavy Signature Science, LLC
http://dx.doi.org/10.1101/162727 2017-07-12 CC BY-NC-ND Phylogenetic turnover during subtropical forest succession across environmental and phylogenetic scales Oliver Purschke|Stefan G. Michalski|Helge Bruelheide|Walter Durka German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig;|Helmholtz Centre for Environmental Research - UFZ;|Martin Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/162867 2017-07-12 Sensory discrimination by isolated feeding tentacles in Sanderia malayensis Kazuo Mori|Matthew Sullivan|Joseph Ayers Northeastern University;|Schlumberger-Doll Research
http://dx.doi.org/10.1101/162263 2017-07-12 CC BY-NC Why Does the Neocortex Have Layers and Columns, A Theory of Learning the 3D Structure of the World Jeff Hawkins|Subutai Ahmad|Yuwei Cui Numenta, Inc.
http://dx.doi.org/10.1101/162677 2017-07-12 The non-homologous end joining factor Ku orchestrates replication fork resection and fine-tunes Rad51-mediated fork restart Ana Teixeira-Silva|Anissia Ait Saada|Ismail Iraqui|Marina Charlotte Nocente|Karine Freon|Julien Hardy|Sarah Lambert Institut Curie
http://dx.doi.org/10.1101/162834 2017-07-12 Long-term adaptive evolution of genomically recoded Escherichia coli Timothy M. Wannier|Aditya Mohan Kunjapur|Daniel Paul Rice|Michael J. McDonald|Michael M. Desai|George M. Church Department of Genetics, Harvard Medical School;|Department of Organismic and Evolutionary Biology, Harvard University
http://dx.doi.org/10.1101/162719 2017-07-12 CC BY-NC-ND AMP-activated protein kinase protects against anoxia in Drosophila melanogaster Justin J. Evans|Chengfeng Xiao|Mel Robertson Queen's University
http://dx.doi.org/10.1101/162768 2017-07-12 Rapid and scalable preparation of bacterial lysates for cell-free gene expression Andriy Didovyk|Taishi Tonooka|Lev Tsimring|Jeff Hasty University of California San Diego
http://dx.doi.org/10.1101/162743 2017-07-12 CC BY cAMP Signaling Regulates DNA Demethylation by Augmenting the Intracellular Labile Ferrous Iron Pool Vladimir Camarena|David W. Sant|Tyler Huff|Sushimita Mustafi|Ryan K. Muir|Adam R. Renslo|Paula Monje|Gaofeng Wang University of Miami;|University of California, San Francisco
http://dx.doi.org/10.1101/161695 2017-07-12 Evolutionary Biology CC BY-NC-ND The origin of animal multicellularity and cell differentiation Thibaut Brunet|Nicole King University of California, Berkeley;|UC Berkeley
http://dx.doi.org/10.1101/162636 2017-07-12 Collective excitability in a mesoscopic neuronal model of epileptic activity Maciej Jedynak|Antonio Javier Pons|Jordi Garcia-Ojalvo Universitat Politecnica de Catalunya; Universitat Pompeu Fabra;|Departament de Física, Universitat Politecnica de Catalunya;|Department of Experimental and Health Sciences, Universitat Pompeu Fabra
http://dx.doi.org/10.1101/162156 2017-07-12 CRISPR/Cas9-mediated Knock-in of an Optimized TetO Repeat for Live Cell Imaging of Endogenous Loci Ipek Tasan|Gabriela Sustackova|Liguo Zhang|Jiah Kim|Mayandi Sivaguru|Mohammad HamediRad|Yuchuan Wang|Justin Genova|Jian Ma|Andrew S. Belmont|Huimin Zhao University of Illinois at Urbana-Champaign;|Carnegie Mellon University
http://dx.doi.org/10.1101/162594 2017-07-12 CC BY-NC Utilising a Cohort Study of Hepatitis B Virus (HBV) Vaccine-Mediated Immunity in South African Children to Model Infection Dynamics: Can We Meet Global Targets for Elimination by 2030? Anna McNaughton|Jose Lourenco|Louise Hattingh|Emily Adland|Samantha Daniels|Anriette van Zyl|Connie S. Akiror|Susan Wareing|Katie Jeffery|Azim Ansari|Paul Klenerman|Philip Goulder|Sunetra Gupta|Pieter Jooste|Philippa C. Matthews University of Oxford, UK;|Kimberley Hospital, South Africa;|Global Healthcare Public Foundation, Kampala, Uganda;|Oxford University Hospitals NHS Foundation Trust, Oxford, UK
http://dx.doi.org/10.1101/162610 2017-07-12 CC BY-NC-ND New insights from Thailand into the maternal genetic history of Mainland Southeast Asia Wibhu Kutanan|Jatupol Kampuansai|Andrea Brunelli|Silvia Ghirotto|Pittayawat Pittayaporn|Sukhum Ruangchai|Roland Schroder|Enrico Macholdt|Metawee Srikummool|Daoroong Kangwanpong|Alexander Hubner|Leonardo Arias Alvis|Mark Stoneking Khon Kaen University, Thailand; Max Planck Institute for Evolutionary Anthropology, Germany;|Chiang Mai University, Thailand;|University of Ferrara, Italy;|Chulalongkorn University, Thailand;|Khon Kaen University, Thailand;|Max Planck Institute for Evolutionary Anthropology, Germany;|Naresuan University, Thailand
http://dx.doi.org/10.1101/162537 2017-07-12 Working memory implements distinct maintenance mechanisms depending on task goals Johannes J. Fahrenfort|Jonathan van Leeuwen|Joshua Foster|Edward Awh|Christian N. L. Olivers International Institute for Brain and Behavior (iBBA), Vrije Universiteit Amsterdam;|Department of Psychology and Institute for Mind and Biology, University of Chicago
http://dx.doi.org/10.1101/161711 2017-07-12 Evolutionary Biology CC BY Adaptive evolution of proteins expressed in late and post-embryonic development in animals Jialin Liu|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/162305 2017-07-12 Biochemistry CC BY-ND A Careful Consideration of the Influence of Structure, Partial charges and Basis Sets on Collision Cross Sections of Monosaccharides when Comparing Values from DFT Calculated Conformers to those Obtained Experimentally Lukasz G. Migas|Christopher J. Gray|Sabine Flitsch|Perdita E. Barran University of Manchester
http://dx.doi.org/10.1101/161679 2017-07-12 Evolutionary Biology CC BY Developmental constraints on genome evolution in four bilaterian model species Jialin Liu|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/162388 2017-07-12 CC BY-NC-ND Rapid isolation of functionally intact nuclei from the yeast Saccharomyces Mario Niepel|Julia Farr|Michael P. Rout|Caterina Strambio De Castillia Ribon Therapeutics, Inc.;|The Rockefeller Univeristy;|The Rockefeller University;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/162529 2017-07-12 CC BY A Comparison of Methods for Estimating Substitution Rates from Ancient DNA Sequence Data K. Jun Tong|David A. Duchene|Sebastian Duchene|Jemma L. Geohegan|Simon Y.W. Ho University of Sydney;|University of Melbourne;|Macquarie University
http://dx.doi.org/10.1101/162511 2017-07-12 The relationship between the spatial scaling of biodiversity and ecosystem stability Robin Delsol|Michel Loreau|Bart Haegeman CNRS
http://dx.doi.org/10.1101/162479 2017-07-12 CC BY-NC A Strategy for Large-Scale Systematic Pan-Cancer Germline Rare Variation Analysis Mykyta Artomov|Vijai Joseph|Grace Tiao|Tinu Thomas|Kasmintan Schrader|Robert Klein|Adam Kiezun|Namrata Gupta|Lauren Margolin|Alexander J. Stratigos|Ivana Kim|Kristen Shannon|Leif W. Ellisen|Daniel Haber|Gad Getz|Hensin Tsao|Steven Lipkin|David Altshuler|Kenneth Offit|Mark J. Daly Analytic and Translational Genetics Unit, Massachusetts General Hospital;|Memorial Sloan Kettering Cancer Center;|Broad Institute;|Andreas Syros Hospital;|Massachusetts Eye and Ear Infirmary;|Massachusetts General Hospital;|Weill-Cornell Medicine
http://dx.doi.org/10.1101/162578 2017-07-12 CC BY-NC Assembly of hundreds of microbial genomes from the cow rumen reveals novel microbial species encoding enzymes with roles in carbohydrate metabolism Robert Stewart|Marc Auffret|Amanda Warr|Tim Snelling|Richard Dewhurst|Alan Walker|Rainer Roehe|Mick Watson The Roslin Institute;|SRUC;|The Rowett Institute
http://dx.doi.org/10.1101/162081 2017-07-12 5-Hydroxymethylcytosine signatures in cell-free DNA provide information about tumor types and stages Chun-Xiao Song|Senlin Yin|Li Ma|Amanda Wheeler|Yu Chen|Yan Zhang|Bin Liu|Junjie Xiong|Weihan Zhang|Jiankun Hi|Zongguang Zhou|Biao Dong|Zhiqi Tian|Stefanie S Jeffrey|Mei-Sze Chua|Samuel So|Weimin Li|Yuquan Wei|Jiajie Diao|Dan Xie|Stephen R. Quake Stanford University;|Sichuan University;|Stanford University School of Medicine;|University of Cincinnati College of Medicine
http://dx.doi.org/10.1101/162438 2017-07-12 CC BY-NC-ND Paper based microfluidic aptasensor for food safety Xuan Weng|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/162446 2017-07-12 Chitozyme: First Peroxidase-like Activity of Chitosan for Multiplexed Visual Detection of H2O2, Glucose and Lactate on Paper-based Device Syed Rahin Ahmed|Xuan Weng|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/162362 2017-07-12 Human activities influence the direction and magnitude of local biodiversity change over time Jillian C. Dunic|Robin Elahi|Marc J. S. Hensel|Patrick J. Kearns|Mary I. O'Connor|Daniel Acuna|Aaron Honig|Alexa R. Wilson|Jarrett E. K. Byrnes Simon Fraser University;|Hopkins Marine Station, Stanford University;|University of Massachusetts Boston;|Northeastern University;|University of British Columbia
http://dx.doi.org/10.1101/162313 2017-07-12 CC BY-NC-ND The Evolution of Fair Offers with Low Rejection Thresholds in the Ultimatum Game Jeffrey C. Schank|Matthew L. Miller|Paul E. Smaldino University of California, Davis;|University of California, Merced
http://dx.doi.org/10.1101/162412 2017-07-12 CC BY-NC-ND Self-assembled Star-shaped Chiroplasmonic Gold Nanoparticles for Ultrasensitive Chiro-immunosensor of Viruses Syed Rahin Ahmed|Eva Nagy|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/162396 2017-07-12 CC BY-ND Rapid Detection of Norovirus Using Paper-based Microfluidic Device Xuan Weng|Suresh Neethirajan University of Guelph
http://dx.doi.org/10.1101/162495 2017-07-12 CC BY-NC-ND Laterality of the frontal aslant tract (FAT) explains externalizing behaviors through its association with executive function. Dea Garic|Iris Broce|Paulo Graziano|Aaron Mattfeld|Anthony Steven Dick Florida International University;|University of California, San Francisco
http://dx.doi.org/10.1101/161976 2017-07-12 CC BY Isoflurane reduces feedback in the fruit fly brain Dror Cohen|Bruno van Swinderen|Naotsugu Tsuchiya Monash university;|Queensland Brain Institute;|Monash University
http://dx.doi.org/10.1101/162297 2017-07-11 GPS2 regulates mitochondria biogenesis via mitochondrial retrograde signaling and chromatin remodeling of nuclear-encoded mitochondrial genes Maria Dafne Cardamone|Bogdan Tanasa|Carly Cederquist|Jiawen Huang|Kiana Mahdaviani|Wembo Li|Michael G. Rosenfeld|Marc Liesa|Valentina Perissi Boston University;|UCSF;|UTHealth McGovern Medical School;|UCSD;|UCLA
http://dx.doi.org/10.1101/162248 2017-07-11 Detecting environment-dependent diversification from phylogenies: a simulation study and some empirical illustrations Eric Lewitus|Helene Morlon Ecole Normale Superieure
http://dx.doi.org/10.1101/162107 2017-07-11 CC BY-NC-ND Sex- and genotype-effects on nutrient-dependent fitness landscapes in Drosophila melanogaster M. Florencia Camus|Kevin Fowler|Matthew W. D. Piper|Max Reuter University College London;|Monash University
http://dx.doi.org/10.1101/161802 2017-07-11 Conformational locking of Ufm1 upon binding to the Ufm1-interacting sequence of Uba5 Ryan T. Kelly|Walaa Oweis|Reuven Wiener|Christopher E. Berndsen James Madison Univeristy;|Institute for Medical Research Israel-Canada, Hebrew University-Hadassah Medical School
http://dx.doi.org/10.1101/161950 2017-07-11 Curvature regulates subcellular organelle location to control intracellular signal propagation Rhodora Cristina Calizo|Amit Ron|Mufeng Hu|Smiti Bhattacharya|William G. M. Janssen|James Hone|Suzanne Scarlata|Padmini Rangamani|Ravi Iyengar Dept. of Pharmacological Sciences & Systems Biology Center NY, Icahn School of Medicine;|Department of Mechanical Engineering, Columbia University, New York, NY 10027;|Dept. of Chemistry and Biochemistry, Worcester Polytechnic Institute, Worcester, MA 01609;|Dept. of Mechanical & Aerospace Engineering, University of California San Diego, La Jolla, CA
http://dx.doi.org/10.1101/161687 2017-07-11 CC BY Discrete dynamical model of mechanisms determining the relations of biodiversity and stability at different levels of organization of living matter Yuri Bespalov|Konstantin Nosov|Petr Kabalyants V.N. Karazin Kharkiv National University
http://dx.doi.org/10.1101/161943 2017-07-11 CC BY-NC-ND Feedback regulation of steady-state epithelial turnover and organ size Jackson Liang|Shruthi Balachandra|Sang Ngo|Lucy Erin O'Brien Stanford University
http://dx.doi.org/10.1101/161562 2017-07-11 The evolutionary history of 2,658 cancers Moritz Gerstung|Clemency Jolly|Ignaty Leshchiner|Stefan C. Dentro|Santiago Gonzalez|Thomas J. Mitchell|Yulia Rubanova|Pavana Anur|Daniel Rosebrock|Kaixan Yu|Maxime Tarabichi|Amit Deshwar|Jeff Wintersinger|Kortine Kleinheinz|Ignacio Vazquez-Garcia|Kerstin Haase|Subhajit Sengupta|Geoff Macintyre|Salem Malikic|Nilgun Donmez|Dimitri G. Livitz|Marek Cmero|Jonas Demeulemeester|Steve Schumacher|Yu Fan|Xiaotong Yao|Juhee Lee|Matthias Schlesner|Paul C. Boutros|David D. Bowtell|Hongtu Zhu|Gad Getz|Marcin Imielinski|Rameen Beroukhim|S. Cenk Sahinalp|Yuan Ji|Martin Peifer|Florian Markowetz|Ville Mustonen|Ke Yuan|Wenyi Wang|Quaid D. Morris|Paul T. Spellman|David C. Wedge|Peter Van Loo European Molecular Biology Laboratory, European Bioinformatics Institute, Cambridge, UK;|The Francis Crick Institute, London, United Kingdom;|Broad Institute of MIT and Harvard, Cambridge, MA, USA;|Wellcome Trust Sanger Institute;|University of Toronto, Toronto, Canada;|Molecular and Medical Genetics, Oregon Health and Science University, Portland, OR, USA;|The University of Texas MD Anderson Cancer Center, Houston, TX, USA;|German Cancer Research Center (DKFZ), Heidelberg, Germany;|NorthShore University HealthSystem, Evanston, IL, USA;|Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK;|Simon Fraser University, Vancouver, Canada;|University of Melbourne, Melbourne, Australia;|Weill Cornell Medicine, New York, NY, USA;|University of California Santa Cruz, Santa Cruz, CA, USA;|Peter MacCallum Cancer Centre, Melbourne, VIC 3052, Australia;|Indiana University, Bloomington, IN, USA;|University of Cologne, Cologne, Germany;|University of Helsinki, Helsinki, Finland;|University of Glasgow, Glasgow G12 8RZ, United Kingdom;|Big Data Institute, University of Oxford, Oxford, United Kingdom;|-
http://dx.doi.org/10.1101/162230 2017-07-11 CC BY-NC-ND The maternal genetic history of the Angolan Namib Desert: a key region for understanding the peopling of southern Africa Sandra Oliveira|Anne-Maria Fehn|Teresa Aco|Fernanda Lages|Magdalena Gaya-Vidal|Brigitte Pakendorf|Mark Stoneking|Jorge Rocha CIBIO/InBIO: Research Centre in Biodiversity and Genetic Resources, University of Porto, Portugal;|Centro de Estudos do Deserto (CEDO), Namibe, Angola;|ISCED/Huíla: Instituto Superior de Ciências da Educação, Lubango, Angola;|Laboratoire Dynamique du Langage, UMR5596, CNRS & Univ Lyon, Lyon, France;|Department of Evolutionary Genetics, MPI for Evolutionary Anthropology, Leipzig, Germany
http://dx.doi.org/10.1101/162214 2017-07-11 Common Garlic (Allium sativum) has Potent Anti-Bacillus anthracis Activity among Various Commonly Used Spices and Herbs Rajinder Kaur|Atul Tiwari|Manish Manish|Indresh K Maurya|Rakesh Bhatnagar|Samer Singh Panjab University;|Jawaharlal Nehru University
http://dx.doi.org/10.1101/162255 2017-07-11 CC BY-NC-ND Synthetically Engineered Medea Gene Drive System in the Worldwide Crop Pest, D. suzukii Anna Buchman|John Marshall|Dennis Ostrovski|Ting Yang|Omar S Akbari University of California, Riverside;|University of California, Berkeley
http://dx.doi.org/10.1101/162222 2017-07-11 CC BY-NC-ND The effect of depth variation on disparity tasks in natural scenes Arvind V Iyer|Johannes D Burge University of Pennsylvania
http://dx.doi.org/10.1101/162206 2017-07-11 Biophysics Traction force screening enabled by compliant PDMS elastomers Haruka Yoshie|Newsha Koushki|Rosa Kaviani|Kavitha Rajendran|Quynh Dang|Amjad Husain|Sean Yao|Chuck Li|John K. Sullivan|Magali Saint-Geniez|Ramaswamy Krishnan|Allen Ehrlicher McGill University;|Beth Israel Deaconess Medical Center;|Amgen Inc.;|Schepens Eye Research Institute at Massachusetts Eye and Ear
http://dx.doi.org/10.1101/162198 2017-07-11 Physiology CC BY-NC Chill coma in the locust, Locusta migratoria, is initiated by spreading depolarization in the central nervous system Mel Robertson|Kristin E. Spong|Phinyaphat Srithiphaphirom Queen's University
http://dx.doi.org/10.1101/162180 2017-07-11 Cancer Biology TumorFusions: an integrative resource for reporting cancer-associated transcript fusions in 33 tumor types Xin Hu|Qianghu Wang|Floris P. Barthel|Ming Tang|Samirkumar Amin|Kosuke Yoshihara|Frederick M. Lang|Soo Hyun Lee|Siyuan Zheng|Roel Verhaak University of Texas MD Anderson Cancer Center;|The Jackson Laboratory for Genomic Medicine;|Niigata University Graduate School of Medical and Dental Sciences
http://dx.doi.org/10.1101/162016 2017-07-11 Discovery-oriented teaching: The use of chimeric proteorhodopsins for the development of a lab curriculum in marine microbiology and for the discovery of natural red-shifted proteorhodopsins Alina Pushkarev|Gur Hevroni|Sheila Roitman|Jin-gon Shim|Ahreum Choi|Kwang-Hwan Jung|Oded Beja Technion - Israel Institute of Technology;|Technion;|Sogang University
http://dx.doi.org/10.1101/161984 2017-07-11 CC BY-NC-ND Reducing Pyrrolysine tRNA Copy Number Improves the Performance of Genetic Code Expansion in Live Cell Imaging of Bioorthogonally Labeled Proteins Noa Aloush|Tomer Schvartz|Andres Konig|Sarit Cohen|Dikla Nachmias|Oshrit Ben-David|Natalie Elia|Eyal Arbely Ben Gurion University of the Negev
http://dx.doi.org/10.1101/162008 2017-07-11 CC BY-NC A dual-mode mobile phone microscope using integrated and ambient light Antony Orth|Emma Wilson|Jeremy Thompson|Brant C. Gibson Centre of Excellence for Nanoscale BioPhotonics, RMIT University;|Centre of Excellence for Nanoscale BioPhotonics,The University of Adelaide;|Centre of Excellence for Nanoscale BioPhotonics
http://dx.doi.org/10.1101/162024 2017-07-11 Flat-to-curved transition during clathrin-mediated endocytosis correlates with a change in clathrin-adaptor ratio and is regulated by membrane tension Delia Bucher|Felix Frey|Kem A. Sochacki|Susann Kummer|Jan-Philip Bergeest|William J. Godinez|Hans-Georg Kraeusslich|Karl Rohr|Justin W. Taraska|Ulrich S. Schwarz|Steeve Boulant Department of Infectious Diseases, Virology, University Hospital Heidelberg;|Institute for Theoretical Physics, Heidelberg University, BioQuant;|National Heart Lung and Blood Institute, National Institutes of Health, Bethesda, U.S.A.;|Department of Bioinformatics and Functional Genomics, Heidelberg University;|Institute for Theoretical Physics, Heidelberg University, Germany
http://dx.doi.org/10.1101/162099 2017-07-11 CC BY Text mining of 15 million full-text scientific articles David Westergaard|Hans-Henrik Strfeldt|Christian Tnsberg|Lars Juhl Jensen|Sren Brunak University of Copenhagen;|Technical University of Denmark
http://dx.doi.org/10.1101/162115 2017-07-11 CC BY-NC-ND Multi-method brain imaging reveals impaired representations as well as altered connectivity in adults with dyscalculia Jessica Bulthe|Jellina Prinsen|Jolijn Vanderauwera|Stefanie Duyck|Nicky Daniels|Celine R. Gillebert|Dante Mantini|Hans P. Op de Beeck|Bert De Smedt KU Leuven
http://dx.doi.org/10.1101/161968 2017-07-11 Sympathetic Transmitters Controlling Thermogenic Efficacy of Brown Adipocytes by Modulating Mitochondrial Complex V Tao-Rong Xie|Chun-Feng Liu|Jian-Sheng Kang Institute for Nutritional Sciences
http://dx.doi.org/10.1101/160242 2017-07-11 Bending of the BST-2 coiled-coil during viral budding Kadir A. Ozcan|Christopher Berndsen James Madison Univeristy
http://dx.doi.org/10.1101/162131 2017-07-11 CC BY-NC-ND Methyl donor deficient diets cause distinct alterations in lipid metabolism but are poorly representative of human NAFLD Marcus J. Lyall|Jessy Cartier|James A. Richards|Diego Cobice|John P. Thomson|Richard R. Meehan|Stephen M. Anderton|Amanda J. Drake University of Edinburgh;|University of Ulster
http://dx.doi.org/10.1101/161919 2017-07-11 When rarity has costs: coexistence under positive frequency-dependence and environmental stochasticity Sebastian Schreiber|Masato Yamamichi|Sharon Strauss University of California, Davis;|Kyoto University
http://dx.doi.org/10.1101/161935 2017-07-11 CC BY-ND 2-Way k-Means as a Model for Microbiome Samples Weston J. Jackson|Ipsita Agarwal|Itsik Pe'er Columbia University
http://dx.doi.org/10.1101/161901 2017-07-11 CC BY-NC-ND Agrochemical pollution increases risk of human exposure to schistosome parasites Neal Halstead|Christopher Hoover|Arathi Arakala|David J Civitello|Giulio De Leo|Manoj Gambhir|Steven A Johnson|Kristin A Loerns|Taegan A McMahon|Karena Nguyen|Thomas R Raffel|Justin V Remais|Susanne H Sokolow|Jason R Rohr University of South Florida;|UC Berkeley;|Monash University;|Emory University;|Stanford University;|University of Florida;|University of Tampa;|Oakland University
http://dx.doi.org/10.1101/161893 2017-07-11 CC BY-ND Personalized intrinsic network topography mapping and functional connectivity deficits in Autism Spectrum Disorder Erin W Dickie|Stephanie H Ameis|Joseph D Viviano|Dawn E Smith|Navona Calarco|Saba Shahab|Aristotle Voineskos Centre for Addiction and Mental Health, Toronto;|University of Toronto
http://dx.doi.org/10.1101/161877 2017-07-11 omniCLIP: Bayesian identification of protein-RNA interactions from CLIP-Seq data Philipp Drewe-Boss|Hans-Hermann Wessels|Uwe Ohler Max Delbrueck Center for Molecular Medicine in the Helmholtz Association
http://dx.doi.org/10.1101/161828 2017-07-10 A Synthetic Microbial Operational Amplifier Ji Zeng|Jaewook Kim|Areen Banerjee|Rahul Sarpeshkar Dartmouth College
http://dx.doi.org/10.1101/161240 2017-07-10 CC BY-NC The causal direction in the association between Parkinson's disease and cigarette or nicotine use Nikodem Grzesiak University of Pennsylvania
http://dx.doi.org/10.1101/161067 2017-07-10 CC BY-NC-ND Pediatric hospitalizations associated with respiratory syncytial virus (RSV) and influenza, and the frequency of asthma as a secondary diagnosis Edward Goldstein Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/148155 2017-07-10 CC BY-NC-ND Diabetes and dementia incidence in Latin America; a 10/66 population-based cohort study Aquiles Salas|Daisy M. Acosta|Mariella Guerra|Yueqin Huang|Ivonne Z. Jimenez-Velazquez|Juan J. Llibre Rodriguez|Ana Luisa Sosa|Michael E. Dewey|Ciro Gaona|Maelenn M. Guerchet|Loida M. Gonzalez|Zhaorui Liu|Jose A. Luchsinger|A. M. Lopez Medina|Rosa M. Salinas|Martin James Prince Universidad Central de Venezuela, Caracas, Venezuela;|Universidad Nacional Pedro Henriquez Urena UNPHU, Santo Domingo, Dominican Republic;|Instituto de la Memoria Depresion y Enfermedades de Riesgo IMEDER, Lima, Peru;|Institute of Mental Health, Peking University, Beijing, China;|University of Puerto Rico School of Medicine;|Medical University of Havana, Havana, Cuba;|Laboratory of Dementias, National Institute of Neurology and Neurosurgery of Mexico;|King's College London, Institute of Psychiatry, Psychology and Neuroscience;|Clinica Loira, El Paraiso. Caracas, Venezuela;|Laboratorio Nacional de Salud Publica Dr. Defillo, Santo Domingo, DR;|Institute of Mental Health, Peking University;|Columbia University Medical Centre, New York, NY, USA;|Policlinico 19 de abril, Plaza, La Habana, Cuba;|National Institute of Neurology and Neurosurgery of Mexico, Mexico City, Mexico
http://dx.doi.org/10.1101/161851 2017-07-10 CC BY-NC-ND Sequential regulatory activity prediction across chromosomes with convolutional neural networks David R. Kelley|Yakir A. Reshef Calico Labs;|Harvard University
http://dx.doi.org/10.1101/161653 2017-07-10 CC BY Climate-driven shifts in sediment chemistry enhance methane production in northern lakes Erik JS Emilson|Michael A Carson|Kurt M Yakimovich|John M Gunn|Nadia CS Mykytczuk|Nate Basiliko|Andrew J Tanentzap University of Cambridge;|Laurentian University
http://dx.doi.org/10.1101/160788 2017-07-10 CC BY-NC-ND Geospatial statistics of high field functional MRI reveal topographical clustering for binocular stereo depth in early visual cortex Andrew J. Parker|Gaelle Coullon|Rosa Sanchez-Panchuelo|Susan Francis|Stuart Clare|David Kay|Eugene Duff|Loredana Minini|Saad Jbabdi|Denis Schluppeck|Holly Bridge Oxford University;|Nottingham University
http://dx.doi.org/10.1101/161786 2017-07-10 CC BY-NC-ND Parallel use of a shared genomic island of speciation in clinal and mosaic hybrid zones between cryptic seahorse lineages Florentine Riquet|Cathy Liautard-Haag|Lucy Woodall|Carmen Bouza|Patrick Louisy|Bojan Hamer|Francisco Otero-Ferrer|Philippe Aublanc|Vickie Beduneau|Olivier Briard|Tahani El Ayari|Sandra Hochscheid|Khalid Belkhir|Sophie Arnaud-Haond|Pierre-Alexandre Gagnaire|Nicolas Bierne Institut des Sciences de l'Evolution de Montpellier, University of Montpellier;|Natural History Museum of London;|Universidade de Santiago de Compostela;|University of Nice Sophia Antipolis;|Center for Marine Research, Ruder Boskovic Institute;|Universidad de Las Palmas de Gran Canaria;|Institut oceanographique Paul Ricard;|Ocearium du Croisic;|Aquarium de Biarritz;|Stazione Zoologica Anton Dohrn;|Ifremer
http://dx.doi.org/10.1101/161752 2017-07-10 CC BY-NC-ND Sexually divergent DNA methylation programs with hippocampal aging Dustin Masser|Niran Hadad|Hunter Porter|Colleen Mangold|Archana Unnikrishnan|Matthew Ford|Cory Giles|Constantin Georgescu|Mikhail Dozmorov|Jonthan Wren|Arlan Richardson|David Stanford|Willard Freeman University of Oklahoma Health Sciences Center;|Penn State University;|Oregon National Primate Research Center;|Oklahoma Medical Research Foundation;|Virginia Commonwealth University School of Medicine
http://dx.doi.org/10.1101/161612 2017-07-10 shRNA mediated inhibition of Cdc42 gene expression in Calu-6 lung cancer cells Zohreh Ghambari|Mohammad Nabiuni|Hanieh Jalali|Latifeh Karimzadeh Dept. of Cell & Molecular Biology, Faculty of Biological Sciences, Kharazmi University, Tehran;|Department of Animal Biology, Faculty of Biological Science, Kharazmi University, Tehran, Iran
http://dx.doi.org/10.1101/161661 2017-07-10 CC BY Beta-Band Oscillations without Pathways: the opposing Roles of D2 and D5 Receptors Jean F. Lienard|Ignasi Cos|Benoit Girard ISIR - UMR 7222, Paris, France;|ISIR - UMR 7222, Paris, France; Universitat Pompeu Fabra, Barcelona, Spain
http://dx.doi.org/10.1101/161646 2017-07-10 CC BY-NC-ND Transcriptional responses of Escherichia coli during recovery from inorganic or organic mercury exposure Stephen P. LaVoie|Anne O. Summers University of Georgia
http://dx.doi.org/10.1101/161638 2017-07-10 Large-Scale Uniform Analysis of Cancer Whole Genomes in Multiple Computing Environments Christina K. Yung|Brian D. O'Connor|Sergei Yakneen|Junjun Zhang|Kyle Ellrott|Kortine Kleinheinz|Naoki Miyoshi|Keiran M. Raine|Romina Royo|Gordon B. Saksena|Matthias Schlesner|Solomon I. Shorser|Miguel Vazquez|Joachim Weischenfeldt|Denis Yuen|Adam P. Butler|Brandi N. Davis-Dusenbery|Roland Eils|Vincent Ferretti|Robert L. Grossman|Olivier Harismendy|Youngwook Kim|Hidewaki Nakagawa|Steven J. Newhouse|David Torrents|Lincoln D. Stein Ontario Institute for Cancer Research;|European Molecular Biology Laboratory;|Oregon Health and Science University;|German Cancer Research Center (DKFZ);|University of Tokyo;|Wellcome Trust Sanger Institute;|Barcelona Supercomputing Center;|Broad Institute of MIT and Harvard;|Centro Nacional de Investigaciones Oncologicas;|Seven Bridges;|University of Chicago;|University of California San Diego;|Sungkyunkwan University;|RIKEN Center for Integrative Medical Sciences;|European Molecular Biology Laboratory, European Bioinformatics Institute;|-
http://dx.doi.org/10.1101/161778 2017-07-10 Neurotropism of enterovirus D68 isolates is independent of sialic acid and is not a recently acquired phenotype Amy B. Rosenfeld|Audrey L. Warren|Vincent R. Racaniello Columbia University College of Physicans & Surgeons
http://dx.doi.org/10.1101/161729 2017-07-10 CC BY-NC-ND Socio-affective touch expression database Haemy Lee Masson|Hans Op de Beeck KU Leuven
http://dx.doi.org/10.1101/161737 2017-07-10 CC BY-NC-ND Investigating the occurrence of E. coli O157:H7 in the final effluents of two wastewater treatment plants Olayinka Osuolale|Anthony I. Okoh Elizade University;|University of Fort Hare
http://dx.doi.org/10.1101/160663 2017-07-10 CC BY Dissecting causal pathways using Mendelian randomization with summarized genetic data: application to age at menarche and risk of breast cancer Stephen Burgess|Deborah J. Thompson|Jessica M. B. Rees|Felix R. Day|John R. Perry|Ken K. Ong University of Cambridge
http://dx.doi.org/10.1101/160861 2017-07-10 CC BY-NC Computational correction of copy-number effect improves specificity of CRISPR-Cas9 essentiality screens in cancer cells Robin M. Meyers|Jordan G. Bryan|James M. McFarland|Barbara A. Weir|Ann E. Sizemore|Han Xu|Neekesh V. Dharia|Phillip G. Montgomery|Glenn S. Cowley|Sasha Pantel|Amy Goodale|Yenarae Lee|Levi D. Ali|Guozhi Jiang|Rakela Lubonja|William F. Harrington|Matthew Strickland|Ting Wu|Derek C. Hawes|Victor A. Zhivich|Meghan R. Wyatt|Zohra Kalani|Jaime J. Chang|Michael Okamoto|Todd R. Golub|Jesse S. Boehm|Francisca Vazquez|David E. Root|William C. Hahn|Aviad Tsherniak Broad Institute of MIT and Harvard;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/156141 2017-07-10 CC BY-ND Science Game Lab: tool for the unification of biomedical games with a purpose Benjamin Good|Sarah Santini|Margaret Wallace|Nicholas Fortugno|John Szeder|Patrick Mooney|Jerome Waldispuhl|Ginger Tsueng|Andrew I. Su The Scripps Research Institute;|Playmatics;|McGill University
http://dx.doi.org/10.1101/161208 2017-07-10 GEM: A manifold learning based framework for reconstructing spatial organizations of chromosomes Guangxiang Zhu|Wenxuan Deng|Hailin Hu|Rui Ma|Sai Zhang|Jinglin Yang|Jian Peng|Tommy Kaplan|Jianyang Zeng Institute for Interdisciplinary Information Science, Tsinghua University;|Department of Biostatistics, Yale University;|School of Medicine, Tsinghua University;|Department of Computer Science, University of Illinois at Urbana-Champaign;|School of Computer Science and Engineering, The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/161380 2017-07-10 CC BY-NC-ND Why are tropical mountain passes 'low' for some species? Genetic and stable-isotope tests for differentiation, migration, and expansion in elevational generalist songbirds Chauncey R. Gadek|Seth D. Newsome|Elizabeth J. Beckman|Andrea C. Chavez|Spencer C. Galen|Emil Bautista|Christopher C. Witt University of New Mexico;|University of Montana;|Bureau of Land Management;|Sackler Institute for Comparative Genomics, American Museum of Natural History;|Centro de Ornitologia y Biodiversidad (CORBIDI)
http://dx.doi.org/10.1101/161547 2017-07-10 CropQuant: An automated and scalable field phenotyping platform for crop monitoring and trait measurements to facilitate breeding and digital agriculture Ji Zhou|Daniel Reynolds|Danny Websdale|Thomas Le Cornu|Oscar Gonzalez-Navarro|Clare Lister|Simon Orford|Stephen Laycock|Graham Finlayson|Tim Stitt|Matt Clark|Mike Bevan|Simon Griffiths Earlham Institute, John Innes Centre;|Earlham Institute;|Earlham Institute, University of East Anglia;|John Innes Centre;|University of East Anglia
http://dx.doi.org/10.1101/161596 2017-07-10 Love, not food, could have paved the path for dog domestication: A lesson from free-ranging dogs Debottam Bhattacharjee|Shubhra Sau|Jayjit Das|Anindita Bhadra Indian Institute of Science Education and Research, Kolkata
http://dx.doi.org/10.1101/161422 2017-07-10 CC BY-NC-ND Improving Phenotypic Measurements in High-Content Imaging Screens D. Michael Ando|Cory McLean|Marc Berndl Google Inc.
http://dx.doi.org/10.1101/161158 2017-07-10 CC BY Maize Phyllosphere Microbial Community Niche Development Across Stages of Host Leaf Growth Heather Manching|Kara Carlson|Sean Kosowsky|C. Tyler Smitherman|Ann E. Stapleton University of North Carolina - Wilmington
http://dx.doi.org/10.1101/161521 2017-07-10 Disrupted modular organization of primary sensory brain areas in schizophrenics Cecile Bordier|Carlo Nicolini|Angelo Bifone Istituto Italiano di Tecnologia
http://dx.doi.org/10.1101/155671 2017-07-10 CC BY-NC-ND Whole exome sequencing study of colorectal cancer in Chinese population reveals novel prevalently mutated genes and decreased mutation frequency of APC and Wnt signaling in lymph node positive cancer Zhe Liu|Chao Yang|Min Yang|Yong Zhou|Xiangchun Li|Wen Luo|Bhaskar Roy|Teng Xiong|Xiuqing Zhang|Huanming Yang|Jian Wang|Zhenhao Ye|Yang Chen|Xiaodong Fang|Jie Du Beijing Anzhen Hospital, Capital Medical University;|BGI Genomics, BGI-Shenzhen, Shenzhen 518083, China;|Traditional Chinese Medicine Hospital of Guangdong Province
http://dx.doi.org/10.1101/161604 2017-07-10 CC BY-ND LM6-M: a high avidity rat monoclonal antibody to pectic α-1,5-L-arabinan Valerie Cornuault|Fanny Buffetto|Susan E. Marcus|Marie-Jeanne Crepeau|Fabienne Guillon|Marie-Christine Ralet|Paul Knox University of Leeds;|INRA
http://dx.doi.org/10.1101/161331 2017-07-10 CC BY-ND Relevance learning via inhibitory plasticity and its implications for schizophrenia Nathan Insel|Blake Richards University of Montana;|University of Toronto - Scarborough
http://dx.doi.org/10.1101/161430 2017-07-10 CC BY Overcoming insecticide resistance through computational inhibitor design Galen Correy|Daniel Zaidman|Silvia Carvalho|Peter D. Mabbitt|Peter J. James|Andrew C. Kotze|Nir London|Colin J. Jackson Australian National University;|The Weizmann Institute of Science;|The University of Queensland;|CSIRO Agriculture and Food
http://dx.doi.org/10.1101/161463 2017-07-10 De novo organelle biogenesis in the cyanobacterium TDX16 released from the green alga Haematococcus pluvialis Qing-lin Dong|Xiang-ying Xing|Yang Han|Xiao-lin Wei|Shuo Zhang Hebei University of Technology
http://dx.doi.org/10.1101/161513 2017-07-10 CC BY Gene flow between divergent cereal- and grass-specific lineages of the rice blast fungus Magnaporthe oryzae Pierre Gladieux|Bradford Condon|Sebastien Ravel|Darren Soanes|Joao Leodato Nunes Maciel|Antonio Nhani|Ryohei Terauchi|Marc-Henri Lebrun|Didier Tharreau|Thomas Mitchell|Kerry F. Pedley|Barbara Valent|Nicholas Talbot|Mark Farman|Elisabeth Fournier INRA;|University of Kentucky;|CIRAD;|University of Exeter;|Embrapa;|Iwate Biotechnology Research Center;|Ohio State University;|USDA-ARS;|Kansas State University
http://dx.doi.org/10.1101/161497 2017-07-10 The Acquisition of Resistance to Carbapenem and Macrolide-mediated Quorum Sensing Inhibition by Pseudomonas aeruginosa via a Novel Integrative and Conjugative Element ICETn43716385 Yichen Ding|Jeanette Teo|Daniela I. Drautz-Moses|Stephan C. Schuster|Michael Givskov|Liang Yang Nanyang Technological University;|National University Hospital, Singapore;|University of Copenhagen
http://dx.doi.org/10.1101/161570 2017-07-10 Toxicity of 2 pg ethynylestradiol in brown trout embryos (Salmo trutta) Lucas Marques da Cunha|Anshu Uppal|Emily Seddon|David Nusbaumer|Etienne Vermeirssen|Claus Wedekind University of Lausanne;|Swiss Centre for Applied Ecotoxicology Eawag-EPFL
http://dx.doi.org/10.1101/161448 2017-07-10 CC BY-NC SRSF shape analysis for sequencing data reveal new differentiating patterns Sergiusz Wesolowski|Daniel Vera|Wei Wu Florida State University, Mathematics;|Florida State University, Center of Genomics;|Florida State University, Statistics
http://dx.doi.org/10.1101/161232 2017-07-10 CC BY Virtual Reality system for freely-moving rodents. Nicholas A. Del Grosso|Justin J. Graboski|Weiwei Chen|Eduardo Blanco Hernandez|Anton Sirota Ludwig-Maximilians-Universität München
http://dx.doi.org/10.1101/160200 2017-07-10 CC BY-NC-ND Molluscs community associated with the brown algae of the genus Cystoseira in the Gulf of Naples (South Tyrrhenian Sea) Antonia Chiarore|Sara Fioretti|Angela Meccariello|Giuseppe Saccone|Francesco Paolo Patti Stazione Zoologica Anton Dohrn, Integrative Marine Ecology Department;|Department of Biology, University of Naples
http://dx.doi.org/10.1101/161471 2017-07-10 Imprinted loci may be more widespread in humans than previously appreciated and enable limited assignment of parental allelic transmissions in unrelated individuals Gabriel Cuellar Partida|Charles Laurin|Susan Ring|Tom R. Gaunt|Caroline L. Relton|George Davey Smith|David Evans Diamantina Institute, The University of Queensland;|Med. Research Council Integrative Epidemiology Unit, School of Social & Community Med.;|University of Bristol
http://dx.doi.org/10.1101/161554 2017-07-10 CC BY-NC Drosophila PLP forms centriolar-clouds that promote centriole stability, cohesion and MT nucleation Helio Roque|Metta Pratt|Errin Johnson|Jordan Raff Sir William Dunn School of Pathology, Oxford
http://dx.doi.org/10.1101/160648 2017-07-10 CC BY-NC-ND Development and molecular characterization of wheat-Aegilops peregrina Introgression Lines with resistance to leaf rust and stripe rust Deepika Narang|Satinder Kaur|Jyoti Saini|Parveen Chhuneja School of Agricultural Biotechnology, Punjab Agricultural University, Ludhiana, Punjab, India
http://dx.doi.org/10.1101/160739 2017-07-10 FAM192A/PIP30 regulates Cajal body dynamics by antagonizing PA28γ/coilin interaction Beata Jonik-Nowak|Didier Fesquet|Veronique Baldin|Francisca Mechali|Catherine Bonne-Andrea|Sylvain De Rossi|Angus I. Lamond|Severine Boulon|Olivier Coux CRBM UMR5237 CNRS-University of Montpellier;|Montpellier Ressources Imagerie facility, Biocampus UMS3426, CNRS, Montpellier;|University of Dundee
http://dx.doi.org/10.1101/161125 2017-07-10 CC BY Scientific Theories and Artificial Intelligence Philippe Desjardins-Proulx|Timothee Poisot|Dominique Gravel Université de Sherbrooke;|Université de Montréal
http://dx.doi.org/10.1101/161349 2017-07-09 Genome-wide Association Study of Clinical Features in the Schizophrenia Psychiatric Genomics Consortium: Confirmation of Polygenic Effect on Negative Symptoms Tim Bigdeli|Roseann Peterson|Stephan Ripke|Silviu-Alin Bacanu|Richard Amdur|Pablo Gejman|Douglas Levinson|Brien Riley|David St. Clair|Marcella Rietschel|James Walters|Roel Ophoff|Andrew McQuillin|Hugh Gurling|Dan Rujescu|Patrick Sullivan|George Kirov|Michele Pato|Carlos Pato|Ole Andreassen|Michael Owen|Michael O'Donovan|Aiden Corvin|Anil Malhotra|Bryan Mowry|Tonu Esko|Thomas Werge|Kenneth Kendler|Ayman Fanous SUNY Downstate Medical Center;|Virginia Institute for Psychiatric and Behavioral Genetics, Virginia Commonwealth University;|Analytic and Translational Genetics Unit, Massachusetts General Hospital, Boston, MA, USA;|Washington VA Medical Center;|Dept. of Psychiatry & Behavioral Sciences, NorthShore University HealthSystem, Evanston, IL;|Department of Psychiatry and Behavioral Sciences, Stanford University, Stanford, CA, USA;|University of Aberdeen, Institute of Medical Sciences, Aberdeen, Scotland, UK;|University of Heidelberg;|Cardiff University;|Semel Institute for Neuroscience and Human Behavior, University of California;|Molecular Psychiatry Laboratory, Division of Psychiatry, University College London;|University of Halle;|Department of Genetics, University of North Carolina, Chapel Hill;|State University of New York Downstate Medical Center;|Oslo University Hospital;|Trinity College Dublin;|The Zucker Hillside Hospital;|Queensland Centre for Mental Health Research, University of Queensland;|Estonian Genome Center, University of Tartu;|Department of Clinical Medicine, University of Copenhagen;|-
http://dx.doi.org/10.1101/161364 2017-07-09 CC BY-NC-ND Skin photoreceptors in the leopard frog George Wald|Stephen Rayport Harvard University
http://dx.doi.org/10.1101/160549 2017-07-09 CC BY-NC Adaptations of an RNA virus to increasing thermal stress Sonia Singhal|Cierra M. Leon Guerrero|Stella G. Whang|Erin M. McClure|Hannah G. Busch|Benjamin Kerr University of Washington, Seattle
http://dx.doi.org/10.1101/161257 2017-07-09 DddY is a bacterial dimethylsulfoniopropionate lyase representing a new cupin enzyme superfamily with unknown primary function Lei Lei|Uria Alcolombri|Dan S. Tawfik Weizmann Institute of Science;|Swiss Federal Institute of Technology
http://dx.doi.org/10.1101/161398 2017-07-09 CC BY Ecological suicide in microbes Christoph Ratzke|Jonas Sebastian Denk|Jeff Gore MIT;|Ludwig-Maximilians-Universitaet Muenchen
http://dx.doi.org/10.1101/161117 2017-07-09 CC BY-NC-ND Revisiting the phylogeny of Zoanthidea (Cnidaria: Anthozoa): staggered alignment of hypervariable sequences improves species tree inference Timothy D. Swain Northwestern University
http://dx.doi.org/10.1101/161059 2017-07-09 CC BY Additive Dose Response Models: Explicit Formulations and the Loewe Additivity Consistency Condition Simone Lederer|Tjeerd M. H. Dijkstra|Tom Heskes Radboud University;|Max Planck Institute for Developmental Biology
http://dx.doi.org/10.1101/161075 2017-07-09 Investigating termite nest thermodynamics using a quick-look method and the heat equation Remi Gouttefarde|Richard Bon|Vincent Fourcassie|Patrick Arrufat|Ives Haifig|Christophe Baehr|Christian Jost Toulouse 3 University - Paul Sabatier;|Federal University of Uberlandia;|Toulouse 3 University - Paul Sabatier; Météo-France
http://dx.doi.org/10.1101/161034 2017-07-09 CC BY-NC Facilitation between plants shapes pollination networks Gianalberto Losapio|Miguel Fortuna|Jordi Bascompte|Bernhard Schmid|Richard Michalet|Rainer Neumeyer|Leopoldo Castro|Pierfilippo Cerretti|Christoph Germann|Jean-Paul Haenni|Seraina Klopfstein|Javier Ortiz|Adrian C. Pont|Pascal Rousse|Jurg Schmid|Daniele Sommaggio|Christian Schob University of Zurich;|University of Bordeaux;|N/A;|Università di Roma La Sapienza;|Naturmuseum Solothurn;|Muséum national d'Histoire naturelle;|Naturhistorisches Museum der Burgergemeinde Bern;|Universidad de Almeria;|Oxford University Museum of Natural History;|ANSES;|University of Bologna
http://dx.doi.org/10.1101/160408 2017-07-09 CC BY-ND Adhesion of dry and wet cribellate capture silk Herve Elettro|Sebastien Neukirch|Arnaud Antkowiak|Fritz Vollrath Universidad de Santiago de Chile;|Universite Pierre et Marie Curie/CNRS;|Universite Pierre et Marie Curie;|University of Oxford
http://dx.doi.org/10.1101/161141 2017-07-09 CC BY-NC-ND Episodic, Semantic, Pavlovian, and Procedural Cognitive Maps Jose J. F. Ribas Fernandes|Clay B. Holroyd University of Victoria
http://dx.doi.org/10.1101/160978 2017-07-09 CC BY-NC-ND Accurate Immune Repertoire Sequencing Reveals Malaria Infection Driven Antibody Lineage Diversification in Young Children Ben S. Wendel|Chenfeng He|Mingjuan Qu|Di Wu|Stefany M. Hernandez|Ke-Yue Ma|Eugene W. Liu|Jun Xiao|Peter D. Crompton|Susan K. Pierce|Pengyu Ren|Keke Chen|Ning Jiang McKetta Department of Chemical Engineering, University of Texas at Austin;|Department of Biomedical Engineering, University of Texas at Austin;|Institute for Cellular and Molecular Biology, University of Texas at Austin;|National Institute of Allergy and Infectious Diseases, National Institutes of Health;|ImmuDX, LLC, Austin, TX 78750, USA;|Department of Computer Science and Engineering, Wright State University
http://dx.doi.org/10.1101/161372 2017-07-09 Automated Parameterization of Predictive Kinetic Metabolic Models from Sparse Datasets for Efficient Optimization of Many-Enzyme Heterologous Pathways Sean M. Halper|Iman Farasat|Howard M. Salis Pennsylvania State University
http://dx.doi.org/10.1101/162925 2017-07-13 CC BY-ND Anterolateral entorhinal-hippocampal imbalance in older adults disrupts object pattern separation Zachariah M. Reagh|Jessica A. Noche|Nicholas Tustison|Derek Delisle|Elizabeth A. Murray|Michael A. Yassa University of California, Irvine;|University of Virginia
http://dx.doi.org/10.1101/163063 2017-07-13 CC BY-ND Phylogenomics of the olive tree (Olea europaea) disentangles ancient allo- and autopolyploidizations in Lamiales. Irene Julca|Marina Marcet-Houben|Pablo Vargas|Toni Gabaldon Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology;|Real Jardin Botanico de Madrid
http://dx.doi.org/10.1101/162875 2017-07-13 Network Curvature as a Hallmark of Brain Structural Connectivity Hamza Farooq|Yongxin Chen|Tryphon T. Georgiou|Allen R. Tannenbaum|Christophe Lenglet University of Minnesota;|Department of Medical Physics, Memorial Sloan Kettering Cancer Center, NY;|Department of Mechanical and Aerospace Engineering, University of California, Irvine, CA;|Stony Brook University;|Center for Magnetic Resonance Research, University of Minnesota, MN
http://dx.doi.org/10.1101/163170 2017-07-13 Qinichelins, novel catecholate-hydroxamate siderophores synthesized via a multiplexed convergent biosynthesis pathway Jacob Gubbens|Changsheng Wu|Hua Zhu|Dmitri V. Filippov|Bogdan I. Florea|Sebastien Rigali|Hermen S. Overkleeft|Gilles P. van Wezel Hogeschool Leiden;|Rockefeller University, NY;|Leiden University;|University of Liege
http://dx.doi.org/10.1101/163055 2017-07-13 CC BY-NC-ND Principal Metabolic Flux Mode Analysis Sahely Bhadra|Peter Blomberg|Sandra Castillo|Juho Rousu Indian Institute of Technology, Palakkad;|VTT Technical Research Centre of Finland, Espoo, Finland;|Helsinki institute for Information Technology, Dept. of Computer Science, Aalto University
http://dx.doi.org/10.1101/163048 2017-07-13 CC BY-NC-ND The path to re-evolve cooperation is constrained in Pseudomonas aeruginosa Elisa T. Granato|Rolf Kummerli University of Zurich
http://dx.doi.org/10.1101/162941 2017-07-13 CC BY-NC-ND A Radically New Theory of how the Brain Represents and Computes with Probabilities Rod Rinkus Neurithmic Systems
http://dx.doi.org/10.1101/163188 2017-07-13 CC BY-NC The WYL domain of the Thermotoga elfii PIF1 helicase is an accessory single-stranded DNA binding module Nicholas M. Andis|Christopher W. Sausen|Ashna Alladin|Matthew Bochman Indiana University
http://dx.doi.org/10.1101/162693 2017-07-13 Evolutionary Biology CC BY The amount of nitrogen used for photosynthesis governs molecular evolution in plants Steven Kelly University of Oxford
http://dx.doi.org/10.1101/162966 2017-07-13 CC BY-NC Environmental engineering is an emergent feature of diverse ecosystems and drives community structure Madhu Advani|Guy Bunin|Pankaj Mehta Harvard University;|Technion-Israel Institute of Technology;|Boston University
http://dx.doi.org/10.1101/163162 2017-07-13 CC BY-NC-ND TriPoly: a haplotype estimation approach for polyploids using sequencing data of related individuals Ehsan Motazedi|Dick de Ridder|Richard Finkers|Chris Maliepaard Wageningen University and Research
http://dx.doi.org/10.1101/159335 2017-07-13 A mental number line in human newborns Rosa Rugani|Marco Lunghi|Elisa Di Giorgio|Lucia Regolin|Beatrice Dalla Barba|Giorgio Vallortigara|Francesca Simion Department of General Psychology, University of Padova, Padova, Italy;|Department of Developmental and Social Psychology, University of Padova, Padova, Italy;|Pediatric Clinic, University of Padova, Padova, Italy;|Center for Mind/Brain Sciences, University of Trento, Rovereto (Trento), Italy
http://dx.doi.org/10.1101/162909 2017-07-13 Homeostatic normalization of sensory gain in auditory corticofugal feedback neurons Meenakshi Asokan|Ross S. Williamson|Kenneth E. Hancock|Daniel B. Polley Harvard University, Division of Medical Sciences;|Massachusetts Eye and Ear Infirmary;|Harvard Medical School
http://dx.doi.org/10.1101/162982 2017-07-13 Genetics CC BY A comprehensive map of genetic variation in the world's largest ethnic group - Han Chinese Charleston W. K. Chiang|Serghei Mangul|Christopher R. Robles|Warren W. Kretzschmar|Na Cai|Kenneth S. Kendler|Sriram Sankararam|Jonathan Flint University of California, Los Angeles;|University of Oxford;|European Molecular Biology Laboratory, European Bioinformatics Institute;|Virginia Commonwealth University
http://dx.doi.org/10.1101/163089 2017-07-13 CC BY-ND Resequencing the Escherichia coli genome by GenoCare single molecule sequencing platform Luyang Zhao|Liwei Deng|Gailing Li|Huan Jin|Jinsen Cai|Huan Shang|Yan Li|Andrew Xiang Yang|Fang Chen|Zhi Zhao|Guanjie Xu|Wuxing Liu|Siyu Liu|Guobing Xiang|Bin Liu|Weibin Xu|Lidong Zeng|Renli Zhang|Huan Zhao|Ping Wu|Zhiliang Zhou|Jiao Zheng|Pierre Ezanno|Weiyue Chen|Qin Yan|Michael Deem|Jun Yu|Jiankui He Direct Genomics Co., Ltd;|Department of Biology, South University of Science and Technology of China;|Reproductive Med. Ctr. of Guangdong Gen. Hospital & Guangdong Acad. of Medical Sciences;|Shenzhen Armed Police Hospital Reproductive Center;|Departments of Bioengineering and Physics & Astronomy, Rice University;|CAS Key Laboratory of Genome Sciences and Information, Chinese Academy of Sciences;|South University of Science and Technology of China
http://dx.doi.org/10.1101/162917 2017-07-13 HECIL: A Hybrid Error Correction Algorithm for Long Reads with Iterative Learning Olivia Choudhury|Ankush Chakrabarty|Scott Emrich University of Notre Dame;|Harvard University
http://dx.doi.org/10.1101/163006 2017-07-13 CC BY-NC The Detection of Phase Amplitude Coupling During Sensory Processing Robert A. Seymour|Gina Rippon|Klaus Kessler Aston Brain Centre
http://dx.doi.org/10.1101/163220 2017-07-13 Bioinformatics CC BY-NC An exact transformation of convolutional kernels applied directly to DNA/RNA sequences Yang Ding|Jingyi Li|Meng Wang|Ge Gao Peking University
http://dx.doi.org/10.1101/163097 2017-07-13 CC BY Wide sampling of natural diversity identifies novel molecular signatures of C4 photosynthesis Steven Kelly|Sarah Covshoff|Samart Wanchana|Vivek Thakur|Paul Quick|Yu Wang|Martha Ludwig|Richard Bruskiewich|Alisdair Fernie|Rowan Sage|Zhijian Tian|Zixian Yan|Jun Wang|Yong Zhang|Xin-Guang Zhu|Gane Ka-Shu Wong|Julian Hibberd University of Oxford;|University of Cambridge;|International Rice Research Institute;|University of Illinois at Urbana-Champaign;|University of Western Australia;|Max-Planck-Institut fur Molekulare Pflanzenphysiologie;|University of Toronto;|BGI-Shenzhen;|University of Alberta;|Chinese Academy of Sciences
http://dx.doi.org/10.1101/163204 2017-07-13 DNA 5-Hydroxymethylcytosines from Cell-free Circulating DNA as Diagnostic Biomarkers for Human Cancers Wenshuai Li|Xu Zhang|Xingyu Lu|Lei You|Yanqun Song|Zhongguang Luo|Jun Zhang|Ji Nie|Wanwei Zheng|Diannan Xu|Yaping Wang|Yuanqiang Dong|Shulin Yu|Jun Hong|Jianping Shi|Hankun Hao|Fen Luo|Luchun Hua|Peng Wang|Xiaoping Qian|Fang Yuan|Lianhuan Wei|Ming Cui|Taiping Zhang|Quan Liao|Menghua Dai|Ziwen Liu|Ge Chen|Katherine Meckel|Sarbani Adhikari|Guifang Jia|Marc B. Bissonnette|Xinxiang Zhang|Yupei Zhao|Wei Zhang|Chuan He|Jie Liu Huashan Hospital, Fudan University;|University of Illinois;|Shanghai Epican Genetech, Co. Ltd.;|Peking Union Medical College Hospital;|Shanghai Epican Genetech, Co. Ltd;|The University of Chicago;|Fudan University;|Nanjing University Medical School;|Peking University;|Northwestern University Feinberg School of Medicine;|Howard Hughes Medical Institute, The University of Chicago, Peking University
http://dx.doi.org/10.1101/163071 2017-07-13 Non-cell autonomous Otx2 homeoprotein regulates visual cortex plasticity through Gadd45b Jessica Apulei|Namsuk Kim|Damien Testa|Jerome Ribot|Clemence Bernard|Ariel A. Di Nardo|Alain Prochiantz Collège de France
http://dx.doi.org/10.1101/163030 2017-07-13 CC BY-NC-ND Key role of piRNAs in telomeric chromatin maintenance and telomere nuclear positioning in Drosophila germline Elizaveta Radion|Valeriya Morgunova|Sergei Ryazansky|Natalia Akulenko|Sergey Lavrov|Yuri Abramov|Ivan Olovnikov|Alla Kalmykova Institute of Molecular Genetics, Russian Academy of Sciences, Moscow 123182, Russia
http://dx.doi.org/10.1101/162974 2017-07-13 CC BY An Algorithm for Cellular Reprogramming Scott Ronquist|Geoff Patterson|Markus Brown|Stephen Lindsly|Haiming Chen|Lindsey Muir|Max Wicha|Anthony Bloch|Roger Brockett|Indika Rajapakse University of Michigan;|IXL Learning;|University of Maryland;|Harvard University
http://dx.doi.org/10.1101/163113 2017-07-13 CC BY-NC Thrombopoietin signaling to chromatin elicits rapid and pervasive epigenome remodeling within poised chromatin architectures Federico Comoglio|Hyun Jung Park|Stefan Schoenfelder|Iros Barozzi|Daniel Bode|Peter Fraser|Anthony R Green University of Cambridge;|The Babraham Institute;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/162560 2017-07-13 CC BY-NC-ND A comprehensive characterization of cis-acting splicing-associated variants in human cancer Yuichi Shiraishi|Keisuke Kataoka|Kenichi Chiba|Ai Okada|Yasunori Koure|Hiroko Tanaka|Seishi Ogawa|Satoru Miyano Laboratory of DNA Information Analysis, Human Genome Center, University of Tokyo;|Kyoto University;|The University of Tokyo
http://dx.doi.org/10.1101/162958 2017-07-13 Soluble Syntaxin 3 Functions as a Transcription Regulator Adrian J. Giovannone|Christine Winterstein|Pallavi Bhattaram|Elena Reales|Seng Hui Low|Julie E. Baggs|Mimi Xu|Matthew A. Lalli|John B. Hogenesch|Thomas Weimbs University of California Santa Barbara;|University of Pennsylvania;|Cincinnati Childrens Hospital Medical Center
http://dx.doi.org/10.1101/163014 2017-07-13 Self-organization mechanism of distinct microtubule orientations in axons and dendrites Honda Naoki|Katsuhiro Uegaki|Shin Ishii Kyoto University
http://dx.doi.org/10.1101/162883 2017-07-13 Aether: Leveraging Linear Programming For Optimal Cloud Computing In Genomics Jacob M. Luber|Braden T. Tierney|Evan M. Cofer|Chirag J. Patel|Aleksandar D. Kostic Harvard Medical School;|Joslin Diabetes Center
http://dx.doi.org/10.1101/162644 2017-07-13 Plant Biology Ancestral Reconstruction and C3 Bundle Sheath Transcript Abundance in the Paniceae Grasses Indicate the Foundations for all Three Biochemical C4 Sub-Types Were Likely Present in the Most Recent Ancestor Jacob D. Washburn|Satya S. Kothapalli|Julia M. Brose|Sarah Covshoff|Julian M. Hibberd|Gavin C. Conant|J. Chris Pires University of Missouri;|University of Cambridge;|North Carolina State University
http://dx.doi.org/10.1101/163410 2017-07-13 CellNetVis: a web tool for visualization of biological networks using force-directed layout constrained by cellular components Henry Heberle|Marcelo Falsarella Carazzolle|Guilherme P. Telles|Gabriela Vaz Meirelles|Rosane Minghim University of São Paulo;|University of Campinas;|Biosciences National Laboratory
http://dx.doi.org/10.1101/163360 2017-07-13 CC BY-NC-ND DUSP1 promotes apoptosis and suppresses cell migration, while leaving the JIP1-protected cytokine production intact, during paramyxovirus infection. Alexa C. Robitaille|Elise Caron|Nicolas Zucchini|Esperance Mukawera|Damien Adam|Melissa K. Mariani|Anais Gelinas|Audray Fortin|Emmanuelle Brochiero|Nathalie Grandvaux Université de Montréal;|Centre de recherche du CHUM
http://dx.doi.org/10.1101/163402 2017-07-13 CC BY-ND Heterogeneous Responses of Hematopoietic Stem Cells to Inflammatory Stimuli are Altered with Age Mati Mann|Arnav Mehta|Carl de Boer|Monika S. Kowalczyk|Kevin Lee|Daneyal Farouq|Aviv Regev|David Baltimore California Institute of Technology;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/163378 2017-07-13 Forward Genetic ENU Mutagenesis Screen for Mouse Models of Chronic Fatigue Identifies a Novel Mutation in Slc2a4 (GLUT4) Marleen H. M. de Groot|Carlos M. Castorena|Vivek Kumar|Jennifer A. Mohawk|Newaz I. Ahmed|Joseph S. Takahashi University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/143933 2017-07-13 CC BY-ND The Multiple Sclerosis Genomic Map: Role of peripheral immune cells and resident microglia in susceptibility Nikolaos Patsopoulos|Sergio E. Baranzini|Adam Santaniello|Parisa Shoostari|Chris Cotsapas|Garrett Wong|Ashley H. Beecham|Tojo James|Joseph Replogle|Ioannis Vlachos|Cristin McCabe|Tune Pers|Aaron Brandes|Charles White|Brendan Keenan|Maria Cimpean|Phoebe Winn|Ioannis-Pavlos Panteliadis|Allison Robbins|Till F. M. Andlauer|Onigiusz Zarzycki|Benedicte Dubois|An Goris|Helle Bach Sondergaard|Finn Sellebjerg|Per Soelberg Sorensen|Henrik Ullum|Lise Wegner Thoerner|Janna Saarela|Isabelle Cournu-Rebeix|Vincent Damotte|Bertrand Fontaine|Lena Guillot-Noel|Mark Lathrop|Sandra Vukusik|Achim Berthele|Viola Biberacher|Dorothea Buck|Christiane Gasperi|Christiane Graetz|Verena Grummel|Bernhard Hemmer|Muni Hoshi|Benjamin Knier|Thomas Korn|Christina M Lill|Felix Luessi|Mark Muhlau|Frauke Zipp|Efthimios Dardiotis|Cristina Agliardi|Antonio Amoroso|Nadia Barizzone|Maria Donata Benedetti|Luisa Bernardinelli|Paola Cavalla|Ferdinando Clarelli|Giancarlo Comi|Daniele Cusi|Federica Esposito|Laura Ferre|Daniela Galimberti|Clara Guaschino|Maurizio A. Leone|Vittorio Martinelli|Lucia Moiola|Marco Salvetti|Melissa Sorosina|Domizia Vecchio|Andrea Zauli|Silvia Santoro|Miriam Zuccala|Julia Mescheriakova|Cornelia van Duijn|Steffan D. Bos|Elisabeth G. Celius|Anne Spurkland|Manuel Comabella|Xavier Montalban|Lars Alfredsson|Izaura L. Bomfim|David Gomez-Cabrero|Jan Hillert|Maja Jagodic|Magdalena Linden|Fredrik Piehl|Ilijas Jelcic|Roland Martin|Mireia Sospedra|Amie Baker|Maria Ban|Clive Hawkins|Pirro Hysi|Seema Kalra|Fredrik Karpe|Jyoti Khadake|Genevieve Lachance|Paul Molyneux|Matthew Neville|John Thorpe|Elizabeth Bradshaw|Stacy J. Caillier|Peter Calabresi|Bruce A. C. Cree|Anne Cross|Mary F. Davis|Paul de Bakker|Silvia Delgado|Marieme Dembele|Keith Edwards|Kate Fitzgerald|Irene Y. Frohlich|Pierre-Antoine Gourraud|Jonathan L. Haines|Hakon Hakonarson|Dorlan Kimbrough|Noriko Isobe|Ioanna Konidari|Ellen Lathi|Michelle H. Lee|Taibo Li|David An|Andrew Zimmer|Albert Lo|Lohith Madireddy|Clara P. Manrique|Mitja Mitrovic|Marta Olah|Ellis Patrick|Margaret A. Pericak-Vance|Laura Piccio|Cathy Schaefer|Howard Weiner|Kasper Lage|Alastair Compston|David Hafler|Hanne F. Harbo|Stephen L. Hauser|Graeme Stewart|Sandra D'Alfonso|Georgios Hadjigeorgiou|Bruce Taylor|Lisa F. Barcellos|David Booth|Rogier Hintzen|Ingrid Kockum|Filippo Martinelli-Boneschi|Jacob L. McCauley|Jorge R. Oksenberg|Annette Oturai|Stephen Sawcer|Adrian J. Ivinson|Tomas Olsson|Philip L. De Jager -;|Brigham & Women's Hospital, Harvard Medical School;|Department of Neurology, University of California at San Francisco, USA;|Department of Neurology, Yale University School of Medicine, New Haven, CT 06520, USA;|John P. Hussman Institute for Human Genomics, Univ. of Miami, Miller School of Medicine;|Department of Clinical Neuroscience, Karolinska Institutet, Stockholm, Sweden;|Department of Neurology, Columbia University Medical Center, New York, NY, USA;|Program in Medical & Population Genetics, Broad Inst. of Harvard Univand MIT, Cambridge;|Faculty of Health and Medical Sciences, University of Copenhagen, Denmark;|Max Planck Institute of Psychiatry, 80804 Munich, Germany;|Laboratory for Neuroimmunology, Section of Experimental Neurology, KU Leuven;|Danish Multiple Sclerosis Center, Dept. of Neurology, Rigshospitalet, Univ. of Copenhagen;|Department of Clinical Immunology, Rigshospitalet, University of Copenhagen;|Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland;|INSERM UMR S 975 CRICM, UPMC, Dept. de Neurologie Pitie-Salpetriere, AP-HP 75013;|Commissariat a l'Energie Atomique, Institut Genomique, Centre National de Genotypage;|Department of Neurology, Klinikum rechts der Isar, Technische Universitat Munchen, Germany;|Johannes Gutenberg University-Medical Center, Mainz, Germany;|Neurology Dept., Neurogenetics Lab, University Hospital of Larissa, Greece;|Don C. Gnocchi Foundation ONLUS, IRCCS S. Maria Nascente, Milan, Italy;|Department of Medical Sciences, Torino University, Turin, Italy;|University of Eastern Piedmont, Novara, Italy;|Centro Regionale Sclerosi Multipla, Neurologia B, AOUI Verona, Italy;|Medical Research Council Biostatistics Unit, Robinson Way, Cambridge CB2 0SR, UK;|A.O. Citta della Salute e della Scienza di Torino & University of Turin, Torino, Italy;|Division of Neuroscience, San Raffaele Scientific Institute, Italy;|University of Milan, Dept. of Health Sciences, San Paolo Hospital and Filarete Foundation;|Neurology Unit, Dept. of Pathophysiology and Transplantation, University of Milan;|Department of Neurology, Ospedale Maggiore, Novara, Italy;|Neurology & Dept. of Neurosciences, Mental Health & Sensory Organs, Universita La Sapienza;|Department of Neurology, Erasmus MC, Rotterdam, Netherlands;|Department of Neurology, Institute of Clinical Medicine, University of Oslo, Norway;|Department of Neurology, Oslo University Hospital, Ulleval, Oslo, Norway;|Institute of Basic Medical Sciences, University of Oslo, Oslo, Norway;|Hospital Universitari Vall d'Hebron, Universitat Autonoma de Barcelona, Barcelona, Spain;|Institute of Environmental Medicine, Karolinska Institutet, Stockholm, Sweden;|Neuroimmunology and MS Research, Neurology Clinic, University Hospital Zurich;|University of Cambridge, Department of Clinical Neurosciences, Addenbrooke's Hospital, UK;|Keele University Medical School, University Hospital of North Staffordshire, UK;|Keele University Medical School, University Hospital of North Midlands, Stoke-on-Trent, UK;|Radcliffe Department of Medicine, University of Oxford, UK;|NIHR BioResource, Univ. of Cambridge and Cambridge University Hospitals NHS Foundation;|Department of Twin Research and Genetic Epidemiology, King's College London, UK;|Department of Neurology, Peterborough City Hospital, Edith Cavell Campus, Bretton Gate;|Multiple Sclerosis Center, Department of Neurology, Columbia University Medical Center, NY;|Dept. of Neurology, University of California at San Francisco, Sandler Neurosciences Center;|Department of Neurology, Johns Hopkins University School of Medicine, Baltimore, MD;|Department of Neurology, School of Medicine, Washington University St. Louis, St. Louis, MO;|Center for Human Genetics Research, Vanderbilt University Medical Center, USA;|Multiple Sclerosis Division, Dept. of Neurology, University of Miami, Miller School of Medicine;|MS Center of Northeastern NY, Latham, NY 12110;|Columbia University Medical Center, New York, NY, USA;|Department of Epidemiology and Biostatistics, Case Western Reserve University, USA;|Center for Applied Genomics, The Children's Hospital of Philadelphia, USA;|Department of Neurology, Brigham & Women's Hospital, Boston, 02115 MA, USA;|John P. Hussman Inst. for Human Genomics, University of Miami, Miller School of Medicine;|The Elliot Lewis Center, Wellesley, MA, 02481;|Broad Institute of Harvard University and MIT, Cambridge, 02142 MA, USA;|Mt. Sinai Rehab Hospital, Mandell MS Center, Hartford, CT 06112, USA;|Kaiser Permanente Divison of Research, Oakland, CA;|Depts. of Neurology and Immunobiology, Yale Univ. School of Medicine, New Haven, CT USA;|Department of Neurology, Oslo University Hospital, Oslo, Norway;|Westmead Millennium Institute, University of Sydney, New South Wales, Australia;|Menzies Research Institute Tasmania, University of Tasmania;|UC Berkeley School of Public Health and Center for Computational Biology;|Depts. of Neurology and Immunology, Erasmus MC, Rotterdam, Netherlands;|Division of Neuroscience, San Raffaele Scientific Institute, Via Olgettina 58, 20132, Milan, Italy;|Brigham & Women's Hospital, Boston, 02115 MA, USA
http://dx.doi.org/10.1101/163345 2017-07-13 CC BY-NC-ND Hemagglutinin Glycan Clock Guides Human Influenza A Virus Evolution Meghan O. Altman|Matthew Angel|Ivan Kosik|James S. Gibbs|Nidia S Trovao|Martha I. Nelson|Jonathan W. Yewdell Cellular Biology Section, Laboratory of Viral Diseases NIAID, NIH, Bethesda MD 20892;|Div. of International Epidemiology and Population Studies, Fogarty International Center, NIH
http://dx.doi.org/10.1101/155036 2017-07-13 CC BY-NC Proposal for minimum information guidelines to report and reproduce results of particle tracking and motion analysis Alessandro Rigano|Caterina Strambio De Castillia University of Massachusetts Medical School
http://dx.doi.org/10.1101/163352 2017-07-13 CC BY Incomplete inhibition of HIV infection results in more HIV infected lymph node cells by reducing cell death Laurelle Jackson|Jessica Hunter|Sandile Cele|Isabella Markham Ferreira|Andrew Young|Farina Karim|Rajhmun Madansein|Kaylesh J. Dullabh|Chih-Yuan Chen|Noel J. Buckels|Yashica Ganga|Khadija Khan|Mikael Boulle|Gila Lustig|Richard A. Neher|Alex Sigal Africa Health Research Institute;|KwaZulu-Natal Research Institute for TB-HIV;|Massachusetts General Hospital;|University of KwaZulu-Natal;|University of Basel
http://dx.doi.org/10.1101/163303 2017-07-13 Membrane bending begins at any stage of clathrin-coat assembly and defines endocytic dynamics Brandon L. Scott|Kem A. Sochacki|Shalini T. Low-Nam|Elizabeth M. Bailey|QuocAhn Luu|Amy Hor|Andrea M. Dickey|Steve Smith|Jason G. Kerkvliet|Justin W. Taraska|Adam D. Hoppe South Dakota State University;|Laboratory of Molecular Biophysics, National Heart Lung and Blood Institute, NIH;|University of California Berkeley;|South Dakota School of Mines and Technology
http://dx.doi.org/10.1101/163295 2017-07-13 Immature HIV-1 Lattice Assembly Dynamics are Regulated by Scaffolding from Nucleic Acid and the Plasma Membrane Alexander J. Pak|John M. A. Grime|Prabuddha Sengupta|Antony K. Chen|Aleksander E. P. Durumeric|Anand Srivastava|Mark Yeager|John A. G. Briggs|Jennifer Lippincott-Schwartz|Gregory A. Voth University of Chicago;|Howard Hughes Medical Institute;|Peking University;|Indian Institute of Science;|University of Virginia School of Medicine;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/163238 2017-07-13 Mixtures are more salient stimuli in olfaction Ho Ka Chan|Thomas Nowotny University of Sussex
http://dx.doi.org/10.1101/162503 2017-07-13 CC BY The Reconstruction of 2,631 Draft Metagenome-Assembled Genomes from the Global Oceans Benjamin J. Tully|Elaina D. Graham|John F. Heidelberg University of Southern California
http://dx.doi.org/10.1101/159368 2017-07-13 Functionally Convergent B Cell Receptor Sequences in Transgenic Rats Expressing a Human B Cell Repertoire in Response to Tetanus Toxoid and Measles Antigens Jean-Philippe Buerckert|Axel R. S. X. Dubois|William J. Faison|Sophie Farinelle|Emilie Charpentier|Regina Sinner|Anke Wienecke-Baldacchino|Claude P. Muller Luxembourg Institute of Health
http://dx.doi.org/10.1101/162347 2017-07-13 Cadmium Disrupts Vestibular Function by Interfering with Otolith Formation Adrian J. Green|Carolyn J. Mattingly|Antonio Planchart NC State University
http://dx.doi.org/10.1101/163212 2017-07-13 CC BY-NC-ND Capture and Purification of Plant Genomic DNA on a Readily-available Cellulose Matrix Megan Thompson|Estelle Hrabak University of New Hampshire
http://dx.doi.org/10.1101/163436 2017-07-14 CC BY-ND Intragenic differential expression in archaea transcriptomes revealed by computational analysis of tiling microarrays Atlas Khan|Ricardo Z. N. Vencio University of Sao Paulo
http://dx.doi.org/10.1101/163444 2017-07-14 CC BY-NC-ND Duplex Proximity Sequencing (Pro-Seq): A method to improve DNA sequencing accuracy without the cost of molecular barcoding redundancy Joel Pel|Wendy W. Y. Choi|Amy O. Leung|Gosuke Shibahara|Laura Gelinas|Milenko Despotovic|W. Lloyd Ung|Andre Marziali Boreal Genomics;|UBC, Boreal Genomics
http://dx.doi.org/10.1101/163501 2017-07-14 CC BY-ND Mechanism of genome interrogation: How CRISPR RNA-guided Cas9 proteins locate specific targets on DNA Alexey Shvets|Anatoly Kolomeisky Massachusetts Institute of Technology, Cambridge;|Rice University, Houston
http://dx.doi.org/10.1101/163709 2017-07-14 CC BY Subgenual anterior cingulate cortex controls sadness-induced modulations of cognitive and emotional network hubs Juan P. Ramirez-Mahaluf|Joan Perramon|Begonya Otal|Pablo Villoslada|Albert Compte Institut d'Investigacions Biomediques August Pi i Sunyer (IDIBAPS)
http://dx.doi.org/10.1101/163535 2017-07-14 HAM-TBS: High accuracy methylation measurements via targeted bisulfite sequencing Simone Roeh|Nadine Provencal|Tobias Wiechmann|Maik Koedel|Susann Sauer|Elisabeth B. Binder Max Planck Institute of Psychiatry;|Simon Fraser University
http://dx.doi.org/10.1101/163154 2017-07-14 Picky: a simple method designer for targeted proteomics Henrik Zauber|Matthias Selbach MDC Berlin
http://dx.doi.org/10.1101/153452 2017-07-14 A mutation in the LMOD1 actin-binding domain segregating with disease in a large British family with thoracic aortic aneurysms and dissections Yui Bong Alexander Wan|Michael A. Simpson|Jose Antonio Aragon-Martin|Daniel P. S. Osborn|Ellen S. Regalado|Dongchuan Guo|Catherine Boileau|Guilleame Jondeau|Louise Benarroch|Yukiko Isekame|Jaipreet Bharj|James Sneddon|Elizabeth M. Fisher|John Dean|Maria Teresa Tome Esteban|Anand Saggar|Dianna Milewicz|Marjan Jahangiri|Elijah Raphael Behr|Alberto Smith|Anne H. Child Molecular and Clinical Sciences Research Institute, St. Georges, University of London, UK;|Division of Genetics and Molecular Medicine, Kings College London, United Kingdom;|Cell Biology and Genetics Research Centre, St. Georges, University of London, UK;|Department of Internal Medicine, University of Texas, USA;|Laboratory of Vascular Translational Science, INSERM, Paris, France;|East Surrey Hospital, Redhill, United Kingdom;|The Park Surgery, Albion Way, Horsham, United Kingdom;|Clinical Genetics, NHS Grampian, Foresterhill, Aberdeen, United Kingdom;|Cardiology Academic Group, Cardiology Department, St. Georges Hospital, United Kingdom;|Clinical Genetics Unit, St. Georges, University of London, United Kingdom;|Department of Cardiothoracic Surgery, St. Georges Healthcare NHS Trust, London, UK;|Acad. Dept. of Vasc. Surg., Cardiovasc. Div., BHF Ctr. of Res. Excellence, Kings Coll. London
http://dx.doi.org/10.1101/163659 2017-07-14 Genetics CC BY-NC Targeted re-sequencing of coding DNA sequences for SNP discovery in non-model species Daniel Foerster|James K. Bull|Dorina Lenz|Marijke Autenrieth|Johanna L. A. Paijmans|Robert H. S. Kraus|Carsten Nowak|Helmut Bayerl|Ralph Kuehn|Alexander P. Saveljev|Magda Sindicic|Michael Hofreiter|Krzysztof Schmidt|Joerns Fickel Leibniz Institute for Zoo and Wildlife Research;|Department of Evolutionary Genetics, Leibniz Institute for Zoo and Wildlife Research;|Institute for Biochemistry and Biology, University of Potsdam;|University of Konstanz, Department of Biology;|Senckenberg Research Institute and Natural History Museum Frankfurt;|Molecular Zoology Unit, Research Department Animal Sciences, Technical University Munich;|Russian Research Institute of Game Management & Fur Farming, Dept. of Animal Ecology;|Faculty of Veterinary Medicine, University of Zagreb;|Mammal Research Institute, Polish Academy of Sciences
http://dx.doi.org/10.1101/163634 2017-07-14 Bioinformatics CC BY-NC C-State: An interactive web app for simultaneous multi-gene visualization and comparative epigenetic pattern search Divya Tej Sowpati|Surabhi Srivastava|Jyotsna Dhawan|Rakesh K. Mishra Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/163717 2017-07-14 Biophysics HtrA1 activation is driven by an allosteric mechanism of inter-monomer communication Alvaro Cortes Cabrera|Esther Melo|Doris Roth|Andreas Topp|Frederic Delobel|Corinne Stucki|Chia-yi Chen|Peter Jakob|Balazs Banfai|Tom Dunkley|Oliver Schilling|Sylwia Huber|Roberto Iacone|Paula Petrone F. Hoffmann-La Roche;|Institute of Molecular Medicine and Cell Research, University of Freiburg
http://dx.doi.org/10.1101/163550 2017-07-14 Biochemistry Multiplexed Gene Synthesis in Emulsions for Exploring Protein Functional Landscapes Calin Plesa|Angus M. Sidore|Nathan Lubock|Di Zhang|Sriram Kosuri University of California, Los Angeles;|Washington University
http://dx.doi.org/10.1101/163576 2017-07-14 Rice TSV3 Encoding Obg-like GTPase Protein is Essential for Chloroplast Development during the Early Leaf Stage under Cold Stress Dongzhi Lin|Quan Jiang|Xiaojing Ma|Kailun Zheng|Xiaodi Gong|Sheng Teng|Jianlong Xu|Yanjun Dong Shanghai Normal University;|Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;|The Institute of Crop Sciences, Chinese Academy of Agricultural Sciences
http://dx.doi.org/10.1101/163642 2017-07-14 CC BY Specification of the germline by Nanos-dependent down-regulation of the somatic synMuvB transcription factor LIN-15B Chih-Yung Sean Lee|Tu Lu|Geraldine Seydoux Johns Hopkins University, United States;|Howard Hughes Medical Institute, Johns Hopkins University School of Medicine, United States
http://dx.doi.org/10.1101/163923 2017-07-14 CC BY-NC-ND Temperature and Light Effects on Germination of Peronospora effusa Sporangia Robin A. Choudhury|Neil McRoberts University of Florida;|University of California, Davis
http://dx.doi.org/10.1101/163329 2017-07-14 Platform for Closed Loop Neuromodulation Based on Dual Mode Biosignals Khalid B. Mirza|Nishanth Kulasekeram|Simon C. Cork|Steve Bloom|Konstantin Nikolic|Chris Toumazou Imperial College London
http://dx.doi.org/10.1101/163873 2017-07-14 CC BY Light and growth form interact to shape stomatal ratio among British angiosperms Christopher D. Muir University of British Columbia
http://dx.doi.org/10.1101/163469 2017-07-14 CC BY-NC-ND ScreenCube: A 3D Printed System For Rapid and Cost-Effective Chemical Screening in Adult Zebrafish Adrian T. Monstad-Rios|Claire J. Watson|Ronald Y. Kwon University of Washington
http://dx.doi.org/10.1101/162990 2017-07-14 Comparing Caenorhabditis elegans gentle and harsh touch response behavior using a multiplexed hydraulic microfluidic device Patrick McClanahan|Joyce Xu|Christopher Fang-Yen University of Pennsylvania
http://dx.doi.org/10.1101/163584 2017-07-14 Multi-scale immune selection and the transmission-diversity feedback of Plasmodium falciparum malaria Thomas Holding|John Joseph Valletta|Mario Recker University of Exeter
http://dx.doi.org/10.1101/163949 2017-07-14 CC BY Genomic architecture of codfishes featured by expansions of innate immune genes and short tandem repeats Ole K. Trresen|Marine S. O. Brieuc|Monica H. Solbakken|Elin Srhus|Alexander J. Nederbragt|Kjetill S. Jakobsen|Sonnich Meier|Rolf B. Edvardsen|Sissel Jentoft University of Oslo;|Institute of Marine Research, Bergen
http://dx.doi.org/10.1101/163907 2017-07-14 CC BY-NC-ND Online resources for PCAWG data exploration, visualization, and discovery Mary Goldman|Junjun Zhang|Nuno A. Fonseca|Qian Xiang|Brian Craft|Elena Pineiro|Brian O'Connor|Wojciech Bazant|Elisabet Barrera|Alfonso Munoz|Robert Petryszak|Anja Fullgrabe|Fatima Al-Shahrour|Maria Keays|David Haussler|John Weinstein|Wolfgang Huber|Alfonso Valencia|Irene Papatheodorou|Jingchun Zhu|Vincent Ferreti|Miguel Vazquez UC Santa Cruz Genomics Institute;|Ontario Institute for Cancer Research;|EMBL-EBI;|Centro Nacional de Investigaciones Oncológicas (CNIO);|UC Santa Cruz;|UT MD Anderson Cancer Center;|European Molecular Biology Laboratory;|-
http://dx.doi.org/10.1101/163766 2017-07-14 CC BY-NC-ND Advanced processing and analysis of conventional confocal microscopy generated scanning FCS data Dominic Waithe|Falk Schneider|Jakub Chojnacki|Dilip Shrestha|Jorge Bernardino de la Serna|Christian Eggeling University of Oxford;|Research Complex at Harwell
http://dx.doi.org/10.1101/161489 2017-07-14 CC BY-NC-ND Characterising maize viruses associated with maize lethal necrosis symptoms in sub Saharan Africa Ian Adams|Luke Braidwood|Francesca Stomeo|Noah Phiri|Beatrice Uwumukiza|Berhanu Feyissa|George Mahuku|Anne Wangai|Julian Smith|Rick Mumford|Neil Boonham Fera Science Ltd;|University of Cambridge;|BecA-ILRI;|CABI;|Ministry of Agriculture and Animal Resources;|Ethiopian Institute of Agricultural Research;|International Institute of Tropical Agriculture;|Kenya Agricultural and Livestock Research Organization
http://dx.doi.org/10.1101/163022 2017-07-14 CC BY-NC-ND Reconfiguration of brain network architectures between resting state and complexity-dependent cognitive reasoning Luke J. Hearne|Luca Cocchi|Andrew Zalesky|Jason B. Mattingley Queensland Brain Institute;|QIMR Berghofer Medical Research Institute;|Melbourne Neuropsychiatry Centre
http://dx.doi.org/10.1101/163675 2017-07-14 CC BY-NC-ND confFuse: high-confidence fusion gene detection across tumor entities Zhiqin Huang|David T. W. Jones|Yonghe Wu|Peter Lichter|Marc Zapatka German Cancer Research Center
http://dx.doi.org/10.1101/161885 2017-07-14 A naturalistic assay for measuring behavioral responses to aversive stimuli at millisecond timescale Carl E. Schoonover|Andrew J. P. Fink|Richard Axel Columbia University; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/163519 2017-07-14 Genome-wide identification and analysis of transcribed enhancers during macrophage polarization Elena Denisenko|Reto Guler|Musa Mhlanga|Harukazu Suzuki|Frank Brombacher|Sebastian Schmeier Massey University, Institute of Natural and Mathematical Sciences, Auckland, New Zealand;|University of Cape Town, Cape Town, South Africa;|RIKEN Center for Life Science Technologies, Yokohama, Japan
http://dx.doi.org/10.1101/163261 2017-07-14 CC BY-NC-ND Noise Gated by Dendrosomatic Interactions Increases Information Transmission Richard Naud|Alexandre Payeur|Andre Longtin University of Ottawa
http://dx.doi.org/10.1101/163667 2017-07-14 Connectome-harmonic decomposition of human brain activity reveals dynamical repertoire re-organisation under LSD Selen Atasoy|Leor Roseman|Mendel Kaelen|Morten L. Kringelbach|Gustavo Deco|Robin Carhart-Harris Center of Brain and Cognition, Universitat Pompeu Fabra, Barcelona, Spain;|Division of Brain Sciences, Imperial College London;|Dept. of Psychiatry, University of Oxford; Center for Music in the Brain, Aarhus University;|Universitat Pompeu Fabra, Center for Brain and Cognition
http://dx.doi.org/10.1101/163600 2017-07-14 CC BY-NC-ND Bifurcation analysis of metabolic pathways: an illustration from yeast glycolysis Gosse Overal|Bas Teusink|Frank J. Bruggeman|Josephus Hulshof|Robert Planque Dept. of Mathematics, Vrije Universiteit Amsterdam;|Systems Bioinformatics, Amsterdam Inst. for Molecules, Medicines & Systems, Vrije Univ.
http://dx.doi.org/10.1101/157461 2017-07-14 CC BY-NC-ND Disentangling metabolic functions of bacteria in the honey bee gut Lucie Kesnerova|Ruben A. T. Mars|Kirsten M. Ellegaard|Michael Troilo|Uwe Sauer|Philipp Engel University of Lausanne;|ETH Zurich
http://dx.doi.org/10.1101/163394 2017-07-14 Inert and seed-competent tau monomers elucidate the structural origins of aggregation Hilda Mirbaha|Olga A. Morozova|Kiersten M. Ruff|Apurwa Sharma|Rohit V. Pappu|David W. Colby|Hamid Mirzaei|Lukasz A. Joachimiak|Marc I. Diamond University of Texas Southwestern Medical Center;|University of Delaware;|Washington University in St. Louis
http://dx.doi.org/10.1101/163568 2017-07-14 CC BY-NC-ND Cell Type Specific Survey of Epigenetic Modifications by Tandem Chromatin Immunoprecipitation Sequencing Mari Mito|Mitsutaka Kadota|Kaori Tanaka|Yasuhide Furuta|Kuniya Abe|Shintaro Iwasaki|Shinichi Nakagawa RIKEN;|Hokkaido University
http://dx.doi.org/10.1101/163733 2017-07-14 CC BY-ND Interplay between antibiotic efficacy and drug-induced lysis underlie enhanced biofilm formation at subinhibitory drug concentrations Wen Yu|Kelsey Hallinen|Kevin Wood University of Michigan
http://dx.doi.org/10.1101/163311 2017-07-15 CC BY-NC-ND IW-Scoring: an Integrative Weighted Scoring framework for annotating and prioritizing genetic variations in the noncoding genome Jun Wang|Dayem Ullah|Claude Chelala Barts Cancer Institute
http://dx.doi.org/10.1101/163790 2017-07-15 Fast and accurate edge orientation processing during object manipulation J. Andrew Pruszynski|J. Randall Flanagan|Roland S. Johansson Western University;|Queen's University;|Umea University
http://dx.doi.org/10.1101/164178 2017-07-15 CC BY-NC-ND Characterization of a set of abdominal neuroendocrine cells that regulate stress physiology using colocalized diuretic peptides in Drosophila Meet Zandawala|Richard Marley|Shireen A. Davies|Dick R. Nassel Stockholm University;|University of Glasgow
http://dx.doi.org/10.1101/164129 2017-07-15 Dependence of Intravoxel Incoherent Motion MR threshold b-value selection for separating perfusion and diffusion compartment and liver fibrosis diagnostic performance. Yao Li|Pu-Xuan Lu|Hua Huang|Jason Leung|Weitian Chen|Yi-Xiang Wang The Chinese University of Hong Kong;|Shenzhen Center for Chronic Disease Control;|The Shenzhen No. 3 People's Hospital
http://dx.doi.org/10.1101/164160 2017-07-15 Physical activity unveils the relationship between mitochondrial energetics, muscle quality and physical function in older adults Giovanna Distefano|Robert A. Standley|Xiaolei Zhang|Elvis A. Carnero|Fanchao Yi|Heather H. Cornnell|Paul M. Coen Florida Hospital
http://dx.doi.org/10.1101/164152 2017-07-15 CC BY-NC-ND Cytosolic proteins can exploit membrane localization to trigger functional assembly Osman N. Yogurtcu|Margaret E. Johnson Johns Hopkins University
http://dx.doi.org/10.1101/164046 2017-07-15 Environmental DNA metabarcoding of rivers: Not all eDNA is everywhere, and not all the time Jan-Niklas Macher|Florian Leese University of Duisburg-Essen
http://dx.doi.org/10.1101/163881 2017-07-15 Three-dimensional single cell patterning for mid- to high-throughput studies of tumor cell and extracellular matrix heterogeneity Xiangyu Gong|Kristen L. Mills Rensselaer Polytechnic Institute
http://dx.doi.org/10.1101/164137 2017-07-15 CC BY-NC-ND A mathematical model relates intracellular TLR4 oscillations to sepsis progression Razvan Stan|Francisco Soriano|Maristela M. Camargo Institute of Biomedical Sciences, University of Sao Paulo;|University Hospital, University of Sao Paulo
http://dx.doi.org/10.1101/164145 2017-07-15 CC BY-NC-ND A phylogenetic and evolutionary analysis of antimycin biosynthesis Rebecca Joynt|Ryan F. Seipke University of Leeds
http://dx.doi.org/10.1101/163832 2017-07-15 CC BY-NC-ND A Resource For The Allele-Specific Analysis Of DNA Methylation At Multiple Genomically Imprinted Loci In Mice Jadiel A. Wasson|Onur Birol|David Katz Harvard University;|Emory University
http://dx.doi.org/10.1101/163980 2017-07-15 CC BY-NC-ND Dark period transcriptomic and metabolic profiling of two diverse Eutrema salsugineum accessions Jie Yin|Michael J. Gosney|Brian Dilkes|Michael Mickelbart Purdue University
http://dx.doi.org/10.1101/163998 2017-07-15 Interferon Regulatory Factor 5 (IRF5) Interacts with the Translation Initiation Complex and Promotes mRNA Translation During the Integrated Stress Response to Amino Acid Deprivation James D. Warner|Mandi Wiley|Ying-Yu Wu|Feng Wen|Michael Kinter|Akiko Yanagiya|Kandice L. Tessneer|Patrick M. Gaffney Oklahoma Medical Research Foundation;|McGill University
http://dx.doi.org/10.1101/164103 2017-07-15 Exploration of Western Himalayan region for identification of gold nanoparticles synthesizing bacteria Rajni Kant Thakur|Poonam Shirkot Dr. Y. S. Parmar University, Solan
http://dx.doi.org/10.1101/164111 2017-07-16 CC BY-ND Prognostic biomarkers in oral squamous cell carcinoma: a systematic review Cesar Rivera|Ana Karina de Oliveira|Rute Alves Pereira e Costa|Tatiane De Rossi|Adriana Franco Paes Leme Universidad de Talca, Talca, Chile;|Brazilian Biosciences National Laboratory (LNBio), Campinas, Sao Paulo, Brazil
http://dx.doi.org/10.1101/164053 2017-07-15 CC BY-NC-ND Resting-state connectivity and its association with cognitive performance, educational attainment, and household income in UK Biobank (N = 3,950) Xueyi Shen|Simon R. Cox|Mark J. Adams|David M. Howard|Stephen M. Lawrie|Stuart J. Ritchie|Mark E. Bastin|Ian J. Deary|Andrew M. McIntosh|Heather C. Whalley Division of Psychiatry, School of Clinical Sciences, The University of Edinburgh;|Ctr. for Cognitive Ageing & Cognitive Epidemiology, Univ. of Edinburgh; Dept. of Psychology;|Division of Psychiatry, University of Edinburgh;|Ctr. for Cognitive Ageing & Cognitive Epidemiology; Brain Res. Imaging Ctr., Univ. of Edinburgh;|Ctr. for Cognitive Ageing & Cognitive Epidemiology, Univ. of Edinburgh; Division of Psychiatry
http://dx.doi.org/10.1101/164012 2017-07-15 CC BY-NC-ND β-catenin has both conserved and novel functions in the sponge Ephydatia muelleri Klaske J. Schippers|Scott A. Nichols EMBL;|University of Denver
http://dx.doi.org/10.1101/163824 2017-07-15 CC BY-NC-ND Histopathological Effects of Therapeutic Doses of Combined XO-Inhibitors and ACE-Inhibitors on the Expression of VEGF-A in the Myocardium and Renal Cortex in Chronic Hypertensive Albino Rats Hassan M. Rezk|Afaf Ibraheim Mansoura University, Faculty of Medicine, Anatomy and Embryology Department;|Mansoura University, Faculty of Medicine, Pathology Department
http://dx.doi.org/10.1101/163196 2017-07-15 Using Arterial Spin Labelling to Investigate Spontaneous and Evoked Ongoing Musculoskeletal Pain Karolina A. Wartolowska|Daniel P. Bulte|Michael A. Chappell|Mark Jenkinson|Thomas W. Okell|Matthew Webster|Andrew J. Carr University of Oxford
http://dx.doi.org/10.1101/164038 2017-07-15 CC BY Paleophenotype Reconstruction Of Carbon Fixation Proteins As A Window Into Historic Biological States Betul Kacar|Lionel Guy|Eric Smith|John A. Baross Harvard University;|Uppsala University;|Santa Fe Institute;|University of Washington
http://dx.doi.org/10.1101/164020 2017-07-15 CC BY-NC-ND Tissue Folding by Mechanical Compaction of the Mesenchyme Alex J. Hughes|Hikaru Miyazaki|Maxwell C. Coyle|Jesse Zhang|Matthew T. Laurie|Daniel Chu|Zuzana Vavrusova|Richard A. Schneider|Ophir D. Klein|Zev J. Gartner University of California, San Francisco;|Foldscope Instruments, Inc.
http://dx.doi.org/10.1101/161281 2017-07-15 CC BY-NC-ND Seeing spots: Measuring, quantifying heritability, and assessing fitness consequences of coat pattern traits in a wild population of giraffes (Giraffa camelopardalis) Derek E. Lee|Douglas R. Cavener|Monica L. Bond Wild Nature Institute;|Pennsylvania State University
http://dx.doi.org/10.1101/163899 2017-07-15 Disequilibrium of fire-prone forests sets the stage for a rapid decline in conifer dominance during the 21st century Josep M. Serra-Diaz|Charles Maxwell|Melissa S. Lucash|Robert Scheller|Danelle M. Laflower|Adam Miller|Alan Tepley|Howie Epstein|Kristina Anderson-Teixeira|Jonathan R. Thompson Harvard University;|Portland State University;|Smithsonian;|University of Virginia
http://dx.doi.org/10.1101/163741 2017-07-15 CC BY-NC-ND Selection and neutral mutations drive pervasive mutability losses in long-lived B cell lineages Marcos Costa Vieira|Daniel Zinder|Sarah Cobey University of Chicago
http://dx.doi.org/10.1101/163774 2017-07-15 Ecological selection of siderophore-producing microbial taxa in response to heavy metal contamination Elze Hesse|Siobhan O'Brien|Nicolas Tromas|Florian Bayer|Adela Lujan|Eleanor van Veen|Dave Hodgson|Angus Buckling University of Exeter;|ETH Zuerich;|University of Montreal;|University of Cordoba;|Camborne School of Mines
http://dx.doi.org/10.1101/163931 2017-07-15 CC BY-NC Repeated regime shifts in a desert rodent community Erica Christensen|David Harris|Morgan Ernest University of Florida
http://dx.doi.org/10.1101/164087 2017-07-15 CC BY-NC-ND Quantius: Generic, high-fidelity human annotation of scientific images at 105-clicks-per-hour Alex Hughes|Joseph D. Mornin|Sujoy K. Biswas|David P. Bauer|Simone Bianco|Zev J. Gartner University of California, San Francisco;|Independent Researcher;|IBM Almaden Research Center
http://dx.doi.org/10.1101/163808 2017-07-15 Repeated translocation of a gene cassette drives sex chromosome turnover in strawberries Jacob A. Tennessen|Na Wei|Shannon Straub|Rajanikanth Govindarajulu|Aaron Liston|Tia-Lynn Ashman Oregon State University;|University of Pittsburgh;|Hobart and William Smith Colleges;|West Virginia University
http://dx.doi.org/10.1101/163816 2017-07-15 CC BY The prevalence and impact of transient species in ecological communities Sara Snell|Brian Evans|Ethan White|Allen Hurlbert University of North Carolina, Chapel Hill;|Migratory Bird Center, Smithsonian Conservation Biology Institute;|University of Florida
http://dx.doi.org/10.1101/164319 2017-07-16 Conformational changes in Arp2/3 complex induced by ATP, WASp-VCA and actin filaments Sofia Espinoza Sanchez|Lauren Ann Metskas|Steven Z. Chou|Elizabeth Rhoades|Thomas D. Pollard Department of Molecular Biophysics and Biochemistry, Yale University;|Department of Molecular, Cellular and Developmental Biology, Yale University;|Department of Chemistry, University of Pennsylvania
http://dx.doi.org/10.1101/164210 2017-07-16 Voltage-gated sodium channels in neocortical pyramidal neurons display Cole-Moore activation kinetics Mara Almog|Tal Barkai|Angelika Lampert|Alon Korngreen Bar-Ilan University;|RWTH Aachen University
http://dx.doi.org/10.1101/164327 2017-07-16 CC BY-NC-ND Intraclass correlation: improved modeling approaches and applications for neuroimaging Gang Chen|Paul A. Taylor|Simone P. Haller|Katharina Kircanski|Joel Stoddard|Daniel S. Pine|Ellen Leibenluft|Melissa A. Brotman|Robert W. Cox National Institutes of Health;|National Institute of Mental Health, National Institutes of Health;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/161224 2017-07-16 Effect of the Sex Chromosomes on Trait Dominance in the Shape of the Copulatory System in Drosophila virilis x D. lummei Progenies Alex Kulikov|Svetlana Sorokina|Anton Melnikov|Nick Gornostaev|Oleg Lazebny Koltsov Institute of Developmental Biology RAS
http://dx.doi.org/10.1101/164194 2017-07-16 CC BY-NC-ND Additive genetic and environmental contributions to the longitudinal association between violent victimization and depression Nicholas A. Kavish|Eric J. Connolly|Brian B. Boutwell Sam Houston State University;|Saint Louis University
http://dx.doi.org/10.1101/164236 2017-07-16 CC BY-NC-ND Complexity-Entropy maps as a tool for the characterization of the clinical electrophysiological evolution of patients under pharmacological treatment with psychotropic drugs Juan M. Diaz|Diego M. Mateos|Carina Boyallian Instituto Argentino de Ciencias de la Conducta (IACCo), Cordoba, Argentina;|Neuroscience and Mental Health Programme, Division of Neurology, Hospital for Sick Children;|CIEM-FAMAF, Universidad Nacional de Cordoba, Cordoba, Argentina
http://dx.doi.org/10.1101/164301 2017-07-16 CC BY Intrinsically disordered linkers determine the interplay between phase separation and gelation in multivalent proteins Tyler S. Harmon|Alex S. Holehouse|Michael K. Rosen|Rohit V. Pappu Washington University in St. Louis;|University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/164244 2017-07-16 CC BY-NC-ND The activation loop residue serine 173 of S.pombe Chk1 kinase is critical for the response to DNA replication stress Naomi Coulton|Thomas Caspari Bangor University
http://dx.doi.org/10.1101/164202 2017-07-16 An efficient experiment design helps to identify differential expressed genes (DEGs) in RNA-seq data in studies of plant qualitative traits Xingfeng Li|Zhenqiao Song|Yinguang Bao|Honggang Wang Shandong Agricultural University
http://dx.doi.org/10.1101/164285 2017-07-16 CC BY-NC siRNA biogenesis, DNA methylation and target locus silencing are distinct and separable Pol IV sub-functions differentially dependent on the largest subunit's CTD Jered Wendte|Jeremy Haag|Olga Pontes|Jasleen Singh|Sara Metcalf|Craig S. Pikaard Indiana University, United States;|Washington University, United States
http://dx.doi.org/10.1101/164483 2017-07-17 Reconstruction and visualization of large-scale volumetric models of neocortical circuits for physically-plausible in silico optical studies Marwan Abdellah|Juan Hernando|Nicolas Antille|Stefan Eilemann|Henry Markram|Felix Schurmann Ecole polytechnique federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/163964 2017-07-17 Genome-wide Association Studies Reveal Similar Genetic Architecture with Shared and Unique QTL for Bacterial Cold Water Disease Resistance in Two Rainbow Trout Breeding Populations Roger L. Vallejo|Guangtu Gao|Sixin Liu|Breno O. Fragomeni|Alvaro G. Hernandez|James E. Parsons|Kyle E. Martin|Jason P. Evenhuis|Timothy J. Welch|Timothy D. Leeds|Gregory D. Wiens|Yniv Palti NCCCWA-ARS-USDA;|University of Georgia;|University of Illinois;|Troutlodge, Inc.
http://dx.doi.org/10.1101/164459 2017-07-17 CC BY-NC Mitochondrial genomes infer phylogenetic relationships among the oldest extant winged insects (Palaeoptera) Sereina Rutschmann|Ping Chen|Changfa Zhou|Michael T. Monaghan University of Vigo;|The Key Laboratory of Jiangsu Biodiversity and Biotechnology;|Leibniz Institute of Freshwater Ecology and Inland Fisheries
http://dx.doi.org/10.1101/164368 2017-07-17 CC BY-NC-ND Rapid DNA Replication Origin Licensing Protects Stem Cell Pluripotency Jacob Peter Matson|Raluca Dumitru|Phillip Coryell|Ryan M. Baxley|Weili Chen|Kirk Twaroski|Beau R. Webber|Jakub Tolar|Anja-Katrin Bielinsky|Jeremy Purvis|Jeanette Gowen Cook University of North Carolina at Chapel Hill;|University of Minnesota;|Stem Cell Institute at the University of Minnesota;|Stem Cell Institute at the University of Minnessota;|The University of Minnesota
http://dx.doi.org/10.1101/164392 2017-07-17 CC BY-NC Collective membrane dynamics emerging from curvature-dependent spatial coupling Zhanghan Wu|Maohan Su|Cheesan Tong|Min Wu|Jian Liu Biochemistry and Biophysics Center, National Heart, Lung, and Blood Institute, NIH;|Dept. of Biological Sciences, Centre for Bioimaging Sciences, National University of Singapore
http://dx.doi.org/10.1101/164293 2017-07-17 CC BY-NC Model-based analysis of experimental hut data elucidates multifaceted effects of a volatile chemical on Aedes aegypti mosquitoes Quirine A. ten Bosch|Fanny Castro-Llanos|Hortance Manda|Amy C. Morrison|John P. Grieco|Nicole L. Achee|Alex Perkins Institut Pasteur - Paris;|United States Naval Medical Research Unit No. 6;|Uniformed Services University of the Health Sciences;|University of California;|University of Notre Dame
http://dx.doi.org/10.1101/164186 2017-07-17 CC BY-NC-ND Cell-nonautonomously tunable actomyosin flows orient distinct cell division axes Kenji Sugioka|Bruce Bowerman University of Oregon
http://dx.doi.org/10.1101/164418 2017-07-17 Genealogical properties of subsamples in highly fecund populations Bjarki Eldon|Fabian Freund|Alison M. Etheridge MfN Berlin;|University of Hohenheim;|University of Oxford
http://dx.doi.org/10.1101/162552 2017-07-17 CC BY pyABC: distributed, likelihood-free inference Emmanuel Klinger|Dennis Rickert|Jan Hasenauer Max Planck Institute for Brain Research;|Institute of Computational Biology, Helmholtz Zentrum Munchen
http://dx.doi.org/10.1101/139642 2017-07-17 CC BY-NC-ND A High HIV-1 Strain Variability in London, UK, Revealed by Full-Genome Analysis: Results from the ICONIC Project Gonzalo Yebra|Dan Frampton|Tiziano Gallo Cassarino|Jade Raffle|Jonathan Hubb|Bridget Ferns|Zisis Kozlakidis|Andrew Hayward|Paul Kellam|Deenan Pillay|Duncan Clark|Eleni Nastouli|Andrew J. Leigh Brown University of Edinburgh;|University College London;|UCL Hospital NHS Foundation Trust;|Barts Health NHS Trust;|Imperial College London
http://dx.doi.org/10.1101/164400 2017-07-17 Genomics of Mesolithic Scandinavia reveal colonization routes and high-latitude adaptation Torsten Gunther|Helena Malmstrom|Emma Svensson|Ayca Omrak|Federico Sanchez-Quinto|Gulsah M Klnc|Maja Krzewinska|Gunilla Eriksson|Magdalena Fraser|Hanna Edlund|Arielle R. Munters|Alexandra Coutinho|Luciana G. Simoes|Mario Vicente|Anders Sjolander|Berit Jansen Sellevold|Roger Jrgensen|Peter Claes|Mark D. Shriver|Cristina Valdiosera|Mihai G. Netea|Jan Apel|Kerstin Liden|Birgitte Skar|Jan Stora|Anders Gotherstrom|Mattias Jakobsson Uppsala University;|Stockholm University;|Middle East Technical University;|Uppsala University-Campus Gotland;|Norwegian Institute for Cultural Heritage Research;|Tromsø University Museum;|KU Leuven;|Penn State University;|La Trobe University;|Radboud University;|Lund University;|NTNU University Museum;|Uppsala Universitet
http://dx.doi.org/10.1101/164434 2017-07-17 CC BY-NC-ND Evolutionary rewiring of the human regulatory network by waves of genome expansion Davide Marnetto|Federica Mantica|Ivan Molineris|Elena Grassi|Igor Pesando|Paolo Provero University of Turin;|San Raffaele Hospital, Milan;|Humanitas University, Milan;|INFN, Turin
http://dx.doi.org/10.1101/164442 2017-07-17 CC BY-NC-ND Compensation For Chronic Oxidative Stress In ALADIN Null Mice Ramona Juhlen|Mirko Peitzsch|Sebastian Gartner|Dana Landgraf|Graeme Eisenhofer|Angela Huebner|Katrin Koehler Technische Universität Dresden;|Helmholtz-Zentrum Dresden-Rossendorf
http://dx.doi.org/10.1101/164467 2017-07-17 Sub-kb resolution Hi-C in D. melanogaster reveals conserved characteristics of TADs between insect and mammalian cells Qi Wang|Qiu Sun|Daniel M. Czajkowsky|Zhifeng Shao Shanghai Center for Systems Biomedicine, Shanghai Jiao Tong University;|State Key Lab. for Oncogenes & Bio-ID Ctr., School of Biomed. Eng., Shanghai Jiao Tong Univ.
http://dx.doi.org/10.1101/164228 2017-07-17 CC BY-NC Songbird organotypic culture as an in vitro model for interrogating sparse sequencing networks Jun Shen|Todd Blute|William A. Liberti|William Yen|Derek C. Liberti|Darrell N. Kotten|Alberto Cruz-Martin|Timothy Gardner Boston University
http://dx.doi.org/10.1101/163626 2017-07-17 CC BY-NC-ND Comparative genomic analyses highlight the contribution of pseudogenized protein-coding genes to human lincRNAs Wan-Hsin Liu|Zing Tsung-Yeh Tsai|Huai-Kuang Tsai Institute of Information Science, Academia Sinica; Bioinformatics Program, Taiwan International Grad;|Institute of Information Science, Academia Sinica;Department of Plant Biology, Michigan State Unive;|Institute of Information Science, Academia Sinica
http://dx.doi.org/10.1101/164343 2017-07-17 GAS Power Calculator: web-based power calculator for genetic association studies Jennifer Li Johnson|Goncalo R Abecasis University of Michigan School of Public Health
http://dx.doi.org/10.1101/164772 2017-07-17 CC BY-ND ShinyGPAS: Interactive genomic prediction accuracy simulator based on deterministic formulas Gota Morota University of Nebraska-Lincoln
http://dx.doi.org/10.1101/164947 2017-07-17 CC BY-NC-ND Cortical Tonic Inhibition Regulates the Expression of Spike-and-Wave Discharges Associated with Absence Epilepsy. Kile P Mangan|Aaron B Nelson|Steven Petrou|Chiara Cirelli|Mathew V Jones Univ. Wisconsin;|Univ. Melbourne
http://dx.doi.org/10.1101/164897 2017-07-17 The RacGAP βChimaerin is essential for cerebellar granule cell migration Jason A. Estep|Wenny Wong|Yiu-Cheung E. Wong|Brian M. Loui|Martin M. Riccomagno University of California, Riverside
http://dx.doi.org/10.1101/164848 2017-07-17 CC BY-NC-ND Narrow-sense heritability estimation of complex traits using identity-by-descent information. Luke Evans|Rasool Tahmasbi|Matthew Jones|Scott Vrieze|Goncalo Abecasis|Sayantan Das|Doug Bjelland|Teresa deCandia|Jian Yang|Michael Goddard|Peter Visscher|Matthew Keller Institute for Behavioral Genetics, University of Colorado;|University of Colorado;|University of Minnesota;|University of Michigan;|-;|University of Queensland;|Biosciences Research, Department of Economic Development, Jobs, Transport and Resources, Victoria
http://dx.doi.org/10.1101/164954 2017-07-17 Neural network models of the tactile system develop first-order units with spatially complex receptive fields Charlie W. Zhao|Mark J. Daley|J. Andrew Pruszynski Yale University;|Western University
http://dx.doi.org/10.1101/164863 2017-07-17 CC BY-NC-ND Integrating movement behavior with sexual selection in the lizard Anolis sagrei. Ambika Kamath|Jonathan Losos University of California Santa Barbara;|Harvard University
http://dx.doi.org/10.1101/164988 2017-07-17 A Mixed Periodic Paralysis & Myotonia Mutant, P1158S, Imparts pH Sensitivity in Skeletal Muscle Voltage-gated Sodium Channels Mohammad-Reza Ghovanloo|Mena Abdelsayed|Colin H Peters|Peter C Ruben Simon Fraser University
http://dx.doi.org/10.1101/164517 2017-07-17 Degradation of benzene by the heavy-metal resistant bacterium Cupriavidus metallidurans CH34 reveals its catabolic potential for aromatic compounds Felipe A Millacura|Franco Cardenas|Valentina Mendez|Michael Seeger|Luis A Rojas School of Biological Sciences, University of Edinburgh, Edinburgh, EH9 3JQ, UK.;|Chemistry Department, Federico Santa Maria Technical University, Valparaiso, Chile;|Chemistry Department, Faculty of Sciences, Universidad Catolica del Norte, Antofagasta, Chile
http://dx.doi.org/10.1101/164681 2017-07-17 DNA barcoding British Euphrasia reveals deeply divergent polyploids but lack of species-level resolution Xumei Wang|Galina Gussarova|Markus Ruhsam|Natasha de Vere|Chris Metherell|Peter M Hollingsworth|Alex D Twyford Xi'an Jiaotong University;|Tromso University Museum;|Royal Botanic Garden Edinburgh;|National Botanic Garden of Wales;|Botanical Society of Britain and Ireland;|The University of Edinburgh
http://dx.doi.org/10.1101/164590 2017-07-17 CC BY-ND Resolving systematic errors in widely-used enhancer activity assays in human cells enables genome-wide functional enhancer characterization Felix Muerdter|ukasz M Boryn|Ashley R Woodfin|Christoph Neumayr|Martina Rath|Muhammad A Zabidi|Michaela Pagani|Vanja Haberle|Tomas Kazmar|Rui R Catarino|Katharina Schernhuber|Cosmas D Arnold|Alexander Stark Research Institute of Molecular Pathology (IMP)
http://dx.doi.org/10.1101/164715 2017-07-17 Resilience mechanisms of small intestinal lactobacilli to the toxicity of soybean oil fatty acids Sara C. Di Rienzi|Juliet Jacobson|Elizabeth A. Kennedy|M. Elizabeth Bell|Qiaojuan Shi|Jillian L. Waters|Peter Lawrence|J. Thomas Brenna|Jens Walter|Ruth E. Ley Cornell University;|University of Alberta;|Max Planck Institute for Developmental
http://dx.doi.org/10.1101/164939 2017-07-17 CC BY Estimating inflation in GWAS summary statistics due to variance distortion from cryptic relatedness Dominic Holland|Chun-Chieh Fan|Oleksandr Frei|Alexey A Shadrin|Olav B Smeland|V. S. Sundar|Ole A Andreassen|Anders M Dale UCSD;|University of California, San Diego;|U of Oslo
http://dx.doi.org/10.1101/164657 2017-07-17 The Cryo-Electron Microscopy Structure of the Type 1 Chaperone-Usher Pilus Rod Manuela K Hospenthal|Tiago RD Costa|Adam Redzej|James Lillington|Gabriel Waksman Institute of Structural and Molecular Biology, University College London and Birkbeck
http://dx.doi.org/10.1101/164749 2017-07-17 CC BY Questioning the role of selected somatic PIK3C2B mutations in squamous non-small cell lung cancer oncogenesis. Marcus Kind|Jolanta Klukowska-Rotzler|Sabina Berezowska|Alexandre Arcaro|Roch-Philippe Charles University of Bern
http://dx.doi.org/10.1101/164921 2017-07-17 CC BY-NC-ND TASI: A software tool for spatial-temporal quantification of tumor spheroid dynamics Yue Hou|Jessica Konen|Daniel J Brat|Adam I Marcus|Lee AD Cooper Emory University
http://dx.doi.org/10.1101/164640 2017-07-17 CC BY-NC-ND Dissecting Population Substructure in India via Correlation Optimization of Genetics and Geodemographics Aritra Bose|Daniel E. Platt|Laxmi Parida|Peristera Paschou|Petros Drineas Purdue University;|IBM TJ Watson Research Center
http://dx.doi.org/10.1101/164525 2017-07-17 CC BY Mechanosensing of Integrin α6 and EGFR Converges at Calpain 2 Alyssa D Schwartz|Christopher L Hall|Lauren E Barney|Courtney C Babbitt|Shelly R Peyton University of Massachusetts Amherst;|University of Massachustts Amherst
http://dx.doi.org/10.1101/164756 2017-07-17 Double-strand breaks are not the main cause of spontaneous sister chromatid exchange in wild-type yeast cells Clemence Claussin|David Porubsky|Diana C.J. Spierings|Nancy Halsema|Stefan Rentas|Victor Guryev|Peter Lansdorp|Michael Chang European Research Institute for the Biology of Ageing;|Terry Fox Laboratory, BC Cancer Agency
http://dx.doi.org/10.1101/164665 2017-07-17 CC BY Evolution within the fungal genus Verticillium is characterized by chromosomal rearrangement and gene loss Xiaoqian Shi|Luigi Faino|Grardy van den Berg|Bart Thomma|Michael Seidl Wageningen University
http://dx.doi.org/10.1101/164509 2017-07-17 Transition metal binding selectivity in proteins and its correlation with the phylogenomic classification of the cation diffusion facilitator protein family Shiran Barber-Zucker|Boaz Shaanan|Raz Zarivach Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/164475 2017-07-17 Exact graph-based analysis of scientific articles on clinical trials Ilya Levin Tula State University
http://dx.doi.org/10.1101/164426 2017-07-17 CC BY Meta-analysis of exome array data identifies six novel genetic loci for lung function Victoria E Jackson|Jeanne C Latourelle|Louise V Wain|Albert Vernon Smith|Megan L Grove|Traci M Bartz|Ma'en Obeidat|Michael A Province|Wei Gao|Beenish Qaiser|David J Porteous|Patricia A Cassano|Tarunveer S Ahluwalia|Niels Grarup|Jin Li|Elisabeth Altmaier|Jonathan Marten|Sarah E Harris|Ani Manichaikul|Tess D Pottinger|Ruifang Li-Gao|Allan Lind-Thomsen|Anubha Mahajan|Lies Lahousse|Medea Imboden|Alexander Teumer|Bram Prins|Leo-Pekka Lyytikainen|Gudny Eiriksdottir|Nora Franceschini|Colleen M Sitlani|Jennifer A Brody|Yohan Bosse|Wim Timens|Alsi Kraja|Anu Loukola|Wenbo Tang|Yongmei Liu|Jette Bork-Jensen|Johanne M Justesen|Allan Linneberg|Leslie A Lange|Rajesh Rawal|Stephan Karrasch|Jennifer E Huffman|Blair H Smith|Gail Davies|Kristin M Burkart|Josyf C Mychaleckyj|Tobias N Bonten|Stefan Enroth|Lars Lind|Guy G Brusselle|Ashish Kumar|Beate Stubbe|Mika Kahonen|Annah B Wyss|Bruce M Psaty|Susan R Heckbert|Ke Hao|Taina Rantanen|Stephen B Kritchevsky|Kurt Lohman|Tea Skaaby|Charlotta Pisinger|Torben Hansen|Holger Schulz|Ozren Polasek|Archie Campbell|John M Starr|Stephen S Rich|Dennis O Mook-Kanamori|Asa Johansson|Erik Ingelsson|Andre G Uitterlinden|Stefan Weiss|Olli T Raitakari|Vilmundur Gudnason|Kari E North|Sina A Gharib|Don D Sin|Kent D Taylor|George T O'Conner|Jaakko Kaprio|Tamara B Harris|Oluf Pederson|Henrik Vestergaard|James G Wilson|Konstantin Strauch|Caroline Hayward|Shona Kerr|Ian J Deary|R Graham Barr|Renee de Mutsert|Ulf Gyllensten|Andrew P Morris|M Arfan Ikram|Nicole M Probst-Hensch|Sven Glaser|Eleftheria Zeggini|Terho Lehtimaki|David P Strachan|Josee Dupuis|Alanna C Morrison|Ian P Hall|Martin D Tobin|Stephanie J London Department of Health Sciences, University of Leicester;|Department of Neurology, Boston University school of Medicine;|Icelandic Heart Association;|Human Genetics Center, The University of Texas Health Science Center at Houston;|Cardiovascular Health Research Unit, University of Washington;|The University of British Columbia Centre for Heart Lung Innovation;|Department of Genetics, Washington University School of Medicine;|Department of Biostatistics, Boston University School of Public Health;|Institute for Molecular Medicine Finland (FIMM), University of Helsinki;|Centre for Genomic & Experimental Medicine, University of Edinburgh;|Division of Nutritional Sciences, Cornell University;|The Novo Nordisk Foundation Center for Basic Metabolic Research, University of Copenhagen;|Department of Medicine, Division of Cardiovascular Medicine, Stanford University School of Medicine;|Research Unit of Molecular Epidemiology, Institute of Epidemiology II, Helmholtz Zentrum Munchen;|Medical Research Council Human Genetics Unit, University of Edinburgh;|Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh;|Center for Public Health Genomics, Department of Public Health Sciences, University of Virginia;|Department of Medicine, College of Physicians and Surgeons, Columbia University;|Department of Clinical Epidemiology, Leiden University Medical Center;|Department of Immunology, Genetics, and Pathology, Biomedical Center, SciLifeLab Uppsala;|Wellcome Trust Centre for Human Genetics, University of Oxford;|Respiratory Medicine, Ghent University Hospital;|Swiss Tropical and Public Health Institute;|Institute for Community Medicine, University Medicine Greifswald;|Human Genetics, Wellcome Trust Sanger Institute;|Department of Clinical Chemistry, Fimlab Laboratories;|Department of Epidemiology, Gillings School of Global Public Health, University of North Carolina;|Cardiovascular Health Research Unit, Department of Medicine, University of Washington;|Institut universitaire de cardiologie et de pneumologie de Quebec, Laval University;|University of Groningen, University Medical Center Groningen;|Wake Forest School of Medicine;|Research Centre for Prevention and Health;|Department of Medicine, Division of Bioinformatics and Personalized Medicine, University of Colorado;|Institute of Epidemiology I, Helmholtz Zentrum Munchen;|Division of Population Health Sciences, Ninewells Hospital and Medical School, University of Dundee;|Department of Pulmonology, Leiden University Medical Center;|Department of Medical Sciences, Uppsala University Hospital;|guy.brusselle@ugent.be;|Internal Medicine B, University Medicine Greifswald;|-;|Department of Clinical Physiology, Tampere University Hospital;|Epidemiology Branch, National Institute of Environmental Health Sciences, NIH;|Cardiovascular Health Research Unit, University of Washington;|Department of Genetics and Genomic Sciences , Icahn School of Medicine at Mount Sinai;|Department of Health Sciences, University of Jyvaskyla;|Sticht Center on Aging, Wake Forest School of Medicine;|Wake Forest School of Medicine, Winston-Salem;|Faculty of Medicine, University of Split;|Department of Medical Sciences, Uppsala University;|Internal Medicine, Erasmus Medical Center;|Interfaculty Institute for Genetics and Functional Genomics, University Medicine Greifswald;|Department of Clinical Physiology and Nuclear Medicine, Turku University Hospital;|Department of Epidemiology and Carolina Center for Genome Sciences, University of North Carolina;|Computational Medicine Core, Center for Lung Biology, University of Washington;|The University of British Columbia Centre for Heart Lung Innovation, St Pauls Hospital, Vancouver;|Los Angeles Biomedical Research Institute at Harbor-UCLA Medical Center;|Pulmonary Center, Department of Medicine, Boston University School of Medicine;|National Institute on Aging, National Institute of Health;|Department of Physiology and Biophysics, University of Mississippi Medical Center;|Institute of Genetic Epidemiology, Helmholtz Zentrum Munchen;|Department of Biostatistics, University of Liverpool, Liverpool;|Epidemiology, Erasmus Medical Center;|Population Health Research Institute, St Georges, University of London;|Division of Respiratory Medicine, University of Nottingham
http://dx.doi.org/10.1101/164889 2017-07-18 CC BY-NC-ND Integrated analysis of single cell transcriptomic data across conditions, technologies, and species Andrew Butler|Rahul Satija New York Genome Center
http://dx.doi.org/10.1101/164574 2017-07-18 CC BY-NC-ND Innovative assembly strategy contributes to the understanding of evolution and conservation genetics of the critically endangered Solenodon paradoxus from the island of Hispaniola Kirill Grigorev|Sergey Kliver|Pavel Dobrynin|Aleksey Komissarov|Walter Wolfsberger|Ksenia Krasheninnikova|Yashira M Afanador-Hernandez|Liz A Paulino|Rosanna Carreras|Luis E Rodriguez|Adrell Nunez|Filipe Silva|David Hernandez-Martich|Audrey J Majeske|Agostinho Antunes|Alfred L Roca|Stephen J O'Brien|Juan Carlos Martinez-Cruzado|Taras K Oleksyk University of Puerto Rico at Mayagüez;|Theodosius Dobzhansky Center for Genome Bioinformatics, St. Petersburg State University;|Instituto Tecnologico de Santo Domingo;|Department of Conservation and Science, Parque Zoologico Nacional (ZOODOM), Santo Domingo;|Interdisciplinary Centre of Marine and Environmental Research, University of Porto;|Instituto de Investigaciones Botanicas y Zoologicas, Universidad Autonoma de Santo Domingo;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/165142 2017-07-18 Juxtacap Nucleotide Sequence Modulates eIF4E Binding and Translation Heather R Keys|David M Sabatini Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/165019 2017-07-18 CC BY-NC-ND Drones count wildlife more accurately and precisely than humans Jarrod C Hodgson|Rowan Mott|Shane M Baylis|Trung T Pham|Simon Wotherspoon|Adam D Kilpatrick|Ramesh Raja Segaran|Ian Reid|Aleks Terauds|Lian Pin Koh University of Adelaide;|Monash University;|University of Tasmania;|Australian Antarctic Division
http://dx.doi.org/10.1101/164996 2017-07-18 Mono-ubiquitination of syntaxin 3 leads to retrieval from the basolateral plasma membrane and facilitates cargo recruitment to exosomes Adrian J Giovannone|Elena Reales|Pallavi Bhattaram|Alberto Fraile-Ramos|Thomas Weimbs University of California Santa Barbara;|Universidad Complutense de Madrid
http://dx.doi.org/10.1101/165092 2017-07-18 CC BY-NC-ND Full-length mRNA sequencing uncovers a widespread coupling between transcription and mRNA processing Seyed Yahya Anvar|Guy Allard|Elizabeth Tseng|Gloria M. Sheynkman|Eleonora de Klerk|Martijn Vermaat|Raymund H. Yin|Hans E. Johansson|Yavuz Ariyurek|Johan T. den Dunnen|Stephen W. Turner|Peter A.C. 't Hoen Leiden University Medical Center;|Pacific Biosciences;|Dana-Farber Cancer Institute;|University of California San Francisco;|LGC Biosearch Technologies
http://dx.doi.org/10.1101/164673 2017-07-18 CC BY-NC-ND Atrazine and amphibians: Data re-analysis and a summary of the controversy Jason Robert Rohr University of South Florida, Department of Integrative Biology
http://dx.doi.org/10.1101/164566 2017-07-18 A floristic survey of Fair Isle Camila V. Quinteros Penafiel|Nick J. Riddiford|Alex D Twyford Royal Botanic Garden Edinburgh;|Schoolton, Fair Isle, Shetland ZE2 9JU;|University of Edinburgh
http://dx.doi.org/10.1101/165118 2017-07-18 CC BY-NC Correcting batch effects in single-cell RNA sequencing data by matching mutual nearest neighbours. Laleh Haghverdi|Aaron T. L. Lun|Michael D. Morgan|John C. Marioni European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI);|Cancer Research UK Cambridge Institute, University of Cambridge;|Wellcome Trust Sanger Institute, Wellcome Genome Campus
http://dx.doi.org/10.1101/165076 2017-07-18 Isolation and characterization of BpL1, a broad acting lytic bacteriophage against Brucella Vimlesh Gupta|Hari Mohan Saxena Guru Angad Dev Veterinary and Animal Sciences University, Ludhiana, India
http://dx.doi.org/10.1101/165001 2017-07-18 CC BY-NC-ND Conditionally rare taxa contribute but do not account for prokaryotic community changes in soils Rachel Kaminsky|Sergio E. Morales University of Otago
http://dx.doi.org/10.1101/165050 2017-07-18 CC BY-NC-ND Sensitive and robust assessment of ChIP-seq read distribution using a strand-shift profile Ryuichiro Nakato|Katsuhiko Shirahige The University of Tokyo
http://dx.doi.org/10.1101/164616 2017-07-18 CC BY-NC-ND Phylogenomics illuminates the backbone of the Myriapoda Tree of Life and reconciles morphological and molecular phylogenies Rosa Fernandez|Gregory D Edgecombe|Gonzalo Giribet Harvard University;|The Natural History Museum
http://dx.doi.org/10.1101/165100 2017-07-18 CC BY-NC VolcanoR - web service to produce volcano plots and do basic enrichment analysis Vladimir Naumov|Ivan Balashov|Vadim Lagutin|Pavel Borovikov|Alexey Alexeev Research Center for Obstetrics, Gynecology and Perinatology
http://dx.doi.org/10.1101/165027 2017-07-18 CC BY-NC Multimodal Sensorimotor System in Unicellular Zoospores of a Fungus Andrew Swafford|Todd Oakley University of California Santa Barbara
http://dx.doi.org/10.1101/164384 2017-07-18 Engineered CRISPR-Cas9 system enables noiseless, fine-tuned and multiplexed repression of bacterial genes Antoine Vigouroux|Enno Oldewurtel|Lun Cui|Sven van Teeffelen|David Bikard Institut Pasteur
http://dx.doi.org/10.1101/164541 2017-07-18 CC BY Principles of transcription factor traffic on folded chromatin Ruggero Cortini|Guillaume Filion Center for Genomic Regulation
http://dx.doi.org/10.1101/164723 2017-07-18 CC BY A central role for boom-bust cycles in maintaining genetic variation in fluctuating environments Jason Bertram|Joanna Masel University of Arizona
http://dx.doi.org/10.1101/164814 2017-07-18 CC BY-NC-ND Thermal mismatches explain how climate change and infectious disease drove widespread amphibian extinctions Jeremy Cohen|David J Civitello|Matthew D Venesky|Taegan A McMahon|Jason Robert Rohr University of South Florida;|Emory University;|Allegheny College;|University of Tampa
http://dx.doi.org/10.1101/164806 2017-07-18 CC BY-NC-ND A global synthesis of phenological responses to climate change Jeremy Cohen|Marc Lajeunesse|Jason Robert Rohr University of South Florida
http://dx.doi.org/10.1101/164798 2017-07-18 CC BY-NC-ND The influence of higher-order epistasis on biological fitness landscape topography Daniel M Weinreich|Yinghong Lan|Jacob Jaffe|Robert B Heckendorn Brown University;|Brown Univeristy;|University of Idaho
http://dx.doi.org/10.1101/164731 2017-07-18 CC BY Imaging of neural oscillations with embedded inferential and group prevalence statistics. Peter W Donhauser|Esther Florin|Sylvain Baillet McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University;|Institute of Clinical Neuroscience and Medical Psychology, Heinrich Heine University
http://dx.doi.org/10.1101/162289 2017-07-18 CC BY-NC-ND Three Decades as an NSF REU Site: Lessons and Recommendations Andrew L. McDevitt|Manisha V. Patel|Aaron Ellison University of Colorado Denver;|Harvard University
http://dx.doi.org/10.1101/164780 2017-07-18 CC BY In Rift Valley settings with a feedback loop, assortative mating for versatility predicts hominin brain enlargement in some detail William H. Calvin University of Washington
http://dx.doi.org/10.1101/164533 2017-07-18 CC BY PIK3CAH1047R-induced paradoxical ERK activation results in resistance to BRAFV600E specific inhibitors in BRAFV600E PIK3CAH1047R double mutant thyroid tumors. Matthias A Roelli|Dorothee Ruffieux-Daidie|Amandine Stooss|Oussame ElMokh|Wayne A Phillips|Matthias S Dettmer|Roch-Philippe Charles University of Bern;|Peter MacCallum Cancer Centre, Melbourne
http://dx.doi.org/10.1101/164491 2017-07-18 CC BY Hepatitis B Virus Infection as a Neglected Tropical Disease Geraldine A O'Hara|Anna L McNaughton|Tongai Maponga|Pieter Jooste|Ponsiano Ocama|Roma Chilengi|Jolynne Mokaya|Mitchell I Liyayi|Tabitha Wachira|David Gikungi|Lela Burbridge|Denise O'Donnell|Connie S Akiror|Derek Sloan|Judith Torimiro|Louis-Marie Yindom|Robert Walton|Monique Andersson|Kevin Marsh|Robert Newton|Philippa C Matthews London School of Hygiene and Tropical Medicine, UK;|University of Oxford, UK;|University of Stellenbosch, South Africa;|Kimberley Hospital, South Africa;|MRC/UVRI Uganda Research Unit, Uganda;|Centre for Infectious Disease Research in Zambia, Lusaka, Zambia;|KEMRI Wellcome Trust Research Programme, Kilifi, Kenya;|Family Health International, Baringo County Referral Hospital, Baringo, Kenya;|Machakos Level 5 Hospital, Machakos, Kenya;|Garissa County Referral Hospital, Garissa, Kenya;|Patient & Public Involvement Committee, Translational Gastroenterology, Oxford University Hospitals;|Oxford University Hospitals NHS Foundation Trust, Oxford, UK;|Global Healthcare Public Foundation, Kampala, Uganda;|University of St Andrews, Scotland;|Chantal Biya International Reference Centre for Research on HIV/AIDS, Yaounde, Cameroon;|Univerisity of Oxford, UK;|Warwick Medical School, UK;|Oxford University Hospitals, Oxford, UK;|Africa-Oxford (AfOx) Initiative, University of Oxford;|University of York, UK
http://dx.doi.org/10.1101/163972 2017-07-18 OPUS-CSF: A C-atom-based Scoring Function for Ranking Protein Structural Models Gang Xu|Tianqi Ma|Tianwu Zang|Qinghua Wang|Jianpeng Ma Tsinghua University;|Rice University;|Baylor College of Medicine
http://dx.doi.org/10.1101/164699 2017-07-18 CC BY-NC-ND Defining the synaptic mechanisms that tune CA3-CA1 reactivation during sharp-wave ripples. Paola Malerba|Matt W Jones|Maxim Bazhenov University of California San Diego;|University of Bristol
http://dx.doi.org/10.1101/165258 2017-07-18 CC BY-NC-ND l1kdeconv: an R package for peak calling analysis with LINCS L1000 data Zhao Li|Jin Li|Peng Yu Texas A&M University
http://dx.doi.org/10.1101/165456 2017-07-18 Drosophila Kruppel homolog 1 represses lipolysis through interaction with dFOXO Ping Kang|Kai Chang|Ying Liu|Mark Bousk|Galina Karashchuk|Rachel Thakore|Wenjing Zheng|Stephanie Post|Colin Brent|Sheng Li|Marc Tatar|Hua Bai Iowa State University;|Brown University;|U.S. Department of Agriculture, U.S. Arid Land Agricultural Research Center;|Shanghai Institutes for Biological Sciences
http://dx.doi.org/10.1101/165415 2017-07-18 CC BY-NC-ND Prodomain-Growth Factor Swapping in the Structure of pro-TGF-β1 Bo Zhao|Shutong Xu|Xianchi Dong|Chafen Lu|Timothy A Springer Childrens Hospital Boston and Department of Biological Chemistry and Molecular Pharmacology Harvard;|Department of Medical Oncology and Department of Cancer Biology Dana-Farber Cancer Institute Harvard
http://dx.doi.org/10.1101/165449 2017-07-18 CC BY-NC-ND Comparison of whole-genome bisulfite sequencing library preparation strategies identifies sources of biases affecting DNA methylation data Nelly Olova|Felix Krueger|Simon Andrews|David Oxley Oxley|Miguel R. Branco|Wolf Reik Epigenetics Programme, The Babraham Institute, Cambridge, CB22 3AT, UK;|Bioinformatics Group, The Babraham Institute, Cambridge, CB22 3AT, UK;|Mass Spectrometry Facility, The Babraham Institute, Cambridge, CB22 3AT, UK;|Blizard Institute, Barts and The London School of Medicine and Dentistry, Queen Mary University of L
http://dx.doi.org/10.1101/165381 2017-07-18 Cellular reductase activity in uncultivated Thiomargarita spp. assayed using a redox-sensitive dye Jake Bailey|Beverly Flood|Elizabeth Ricci|Nathalie Delherbe University of Minnesota
http://dx.doi.org/10.1101/165480 2017-07-18 CC BY-NC-ND Widespread sampling biases in herbaria revealed from large-scale digitization Barnabas H. Daru|Daniel S. Park|Richard Primack|Charles G. Willis|David S Barrington|Timothy J. S. Whitfeld|Tristram G Seidler|Patrick W. Sweeney|David R. Foster|Aaron M. Ellison|Charles C. Davis Harvard University;|Boston University;|University of Vermont;|Brown University;|University of Massachusetts;|Yale University
http://dx.doi.org/10.1101/165183 2017-07-18 CC BY-NC-ND Modeling positional effects of regulatory sequences with spline transformations increases prediction accuracy of deep neural networks Ziga Avsec|Mohammadamin Barekatain|Jun Cheng|Julien Gagneur Technical University of Munich
http://dx.doi.org/10.1101/164764 2017-07-18 CC BY A functional connectome phenotyping dataset including cognitive state and personality measures Natacha Mendes|Sabine Oligschlaeger|Mark E. Lauckner|Johannes Golchert|Julia M. Huntenburg|Marcel Falkiewicz|Melissa Ellamil|Sarah Krause|Blazej M. Baczkowski|Roberto Cozatl|Anastasia Osoianu|Deniz Kumral|Jared Pool|Laura Golz|Maria Dreyer|Philipp Haueis|Rebecca Jost|Yelyzaveta Kramarenko|Haakon Engen|Katharina Ohrnberger|Krzysztof J. Gorgolewski|Nicolas Farrugia|Anahit Babayan|Andrea Reiter|H. Lina Schaare|Janis Reinelt|Josefin Roebbig|Marie Uhlig|Miray Erbey|Michael Gaebler|Jonathan Smallwood|Arno Villringer|Daniel S. Margulies Max Planck Institute for Human Cognitive and Brain Sciences;|Stanford University;|LabSTICC-IMT Atlantique-campus de Brest;|University of York
http://dx.doi.org/10.1101/165308 2017-07-18 CC BY-NC-ND Unexpected Properties of Short Genomic Tandem Repeats Irina Glotova|Michael Molla|Arthur L Delcher|Simon Kasif SBGD Inc.;|Joslin Diabetes Center and Harvard Medical School;|Johns Hopkins University School of Medicine;|Boston University
http://dx.doi.org/10.1101/163725 2017-07-18 CC BY Exploring the limits of learning: segregation of information integration and response selection is required for learning a serial reversal task Camilo Juan Mininni|Bonifacio Silvano Zanutto Instituto de Ingeniería Biomédica - UBA;|Instituto de Biología y Medicina Experimental
http://dx.doi.org/10.1101/163915 2017-07-18 Bayesian Unidimensional Scaling for visualizing uncertainty in high dimensional datasets with latent ordering of observations Lan Huong Nguyen|Susan Holmes Stanford University
http://dx.doi.org/10.1101/165175 2017-07-18 CC BY-NC-ND unitas: the universal tool for annotation of small RNAs Daniel Gebert|Charlotte Hewel|David Rosenkranz Johannes Gutenberg University
http://dx.doi.org/10.1101/165332 2017-07-18 CC BY Dynamic cortical representations of perceptual filling-in for missing acoustic rhythm Francisco Cervantes Constantino|Jonathan Z Simon University of Maryland
http://dx.doi.org/10.1101/165282 2017-07-18 CC BY-NC-ND Are the adverse effects of stressors on amphibians mediated by their effects on stress hormones? Caitlin Gabor|Sarah Knutie|Elizabeth Roznik|Jason Robert Rohr Texas State University, San Marcos;|University of South Florida
http://dx.doi.org/10.1101/165316 2017-07-18 Abnormal Speech Motor Control in Individuals with 16p11.2 Deletions Carly Demopoulos|Hardik Kothare|Danielle Mizuiri|Jennifer Henderson-Sabes|Brieana Fregeau|Jennifer Tjernagel|John Houde|Elliott Sherr|Srikantan S Nagarajan UCSF;|(4)Simons Foundation Autism Research Initiative
http://dx.doi.org/10.1101/165266 2017-07-18 The genetics of the human face: identification of large effect single gene variants Daniel JM Crouch|Bruce Winney|Willem P Koppen|William J Christmas|Katarzyna Hutnik|Tammy Day|Devendra Meena|Abdelhamid Boumertit|Pirro Hysi|Ayrun Nessa|Tim D Spector|Josef Kittler|Walter F Bodmer University of Oxford;|University of Surrey;|King's College London
http://dx.doi.org/10.1101/165159 2017-07-18 CC BY Wikipedia as a gateway to biomedical research: The relative distribution and use of citations in the English Wikipedia Lauren A Maggio|John Willinsky|Ryan Steinberg|Daniel Mietchen|Joe Wass|Ting Dong Uniformed Services University;|Stanford University;|University of Virginia;|Crossref
http://dx.doi.org/10.1101/165225 2017-07-19 CC BY Dynamics of brain activity reveal a unitary recognition memory signal Christoph T. Weidemann|Michael J. Kahana Swansea University;|University of Pennsylvania
http://dx.doi.org/10.1101/164608 2017-07-19 LINE-1 repression attenuates degeneration in adult dopaminergic neurons Francois-Xavier Blaudin de The|Hocine Rekaik|Eugenie Peze-Heidsieck|Olivia Massiani-Beaudoin|Rajiv L. Joshi|Julia Fuchs|Alain Prochiantz Center for Interdisciplinary Research in Biology (CIRB), College de France
http://dx.doi.org/10.1101/165522 2017-07-19 CC BY Collaborative environmental DNA sampling from petal surfaces of flowering cherry Cerasus × yedoensis 'Somei-yoshino' across the Japanese archipelago Tazro Ohta|Takeshi Kawashima|Natsuko O. Shinozaki|Akito Dobashi|Satoshi Hiraoka|Tatsuhiko Hoshino|Keiichi Kanno|Takafumi Kataoka|Shuichi Kawashima|Motomu Matsui|Wataru Nemoto|Suguru Nishijima|Natsuki Suganuma|Haruo Suzuki|Y-h. Taguchi|Yoichi Takenaka|Yosuke Tanigawa|Momoka Tsuneyoshi|Kazutoshi Yoshitake|Yukuto Sato|Riu Yamashita|Kazuharu Arakawa|Wataru Iwasaki Database Center for Life Science;|National Institute of Genetics;|Division of Biomedical Information Analysis, Tohoku University Graduate School of Medicine;|The Cancer Institute, Japanese Foundation for Cancer Research;|Graduate School of Frontier Sciences, The University of Tokyo;|Kochi Institute for Core Sample Research, Japan Agency for Marine-Earth Science and Technology;|Graduate School of Agricultural Science, Tohoku University;|Center for Environmental Biology and Ecosystem Studies, National Institute for Environmental Studies;|Graduate School of Science, The University of Tokyo;|Division of Life Science and Engineering, School of Science and Engineering, Tokyo Denki University;|Institute of Health Sciences, Ezaki Glico Co. Ltd.;|Institute for Advanced Biosciences, Keio University;|Department of Physics, Chuo University;|Faculty of Informatics, Kansai University;|Faculty of Science, The University of Tokyo;|Frontier Research Labs, Institute For Innovation, Ajinomoto Co.;|Japan Software Management Co.;|Tohoku Medical Megabank Organization, Tohoku University
http://dx.doi.org/10.1101/165530 2017-07-19 Immunology RhlR, but not RhlI, allows P. aeruginosa bacteria to evade Drosophila Tep4- mediated opsonization Samantha Haller|Adrien Franchet|Abdul Hakkim|Jing Chen|Eliana Drenkard|Shen Yu|Stefanie Schirmeier|Zi Li|Frederick M Ausubel|Samuel Liegeois|Dominique Ferrandon Buck Institute for Research on Aging;|Universite de Strasbourg CNRS UPR9022;|Department of Genetics, Harvard Medical School, Boston;|Sino-French Hoffman Institute, Guangzhou Medical University;|Institut fur Neuro- und Verhaltensbiologie, Badestrasse 9, D-48149 Munster;|Sino-French Hoffmann Institute, Guangzhou Medical University, Guangzhou, P. R. China;|Department of Genetics, Harvard Medical School, Boston, MA 02115 USA;|Universite de Strasbourg, CNRS, RIDI UPR 9022, F-67000 Strasbourg, France
http://dx.doi.org/10.1101/165209 2017-07-19 Genetics Polygenic Risk Score of Sporadic Late Onset Alzheimer Disease Reveals a Shared Architecture with the Familial and Early Onset Forms Jorge L Del Aguila|Benjamin Saef|Kathleen Black|Maria-Victoria Fernandez|John John Budde|Laura Ibanez|Manav Kapoor|Giuseppe Tosto|Richard P Mayeux|David M Holtzman|Anne M Fagan|John C Morris|Randall J Bateman|Alison M Goate|Carlos Cruchaga|Oscar Harari Washington University School of Medicine;|Mount Sinai School of Medicine;|Columbia University College of Physicians and Surgeons;|Washington University in St Louis
http://dx.doi.org/10.1101/165290 2017-07-19 Systems Biology Integrative meta-analysis reveals that most yeast proteins are very stable Keira Wiechecki|Sandhya Manohar|Gustavo Silva|Konstantine Tchourine|Samson Jacob|Angelo Valleriani|Christine Vogel New York University;|Harvard University;|Max Planck Institute for Colloids and Interfaces, Germany
http://dx.doi.org/10.1101/146092 2017-07-18 CC BY-NC TDCPP exposure affects the concentrations of thyroid hormones in zebrafish Jingxin Song Jianhan University
http://dx.doi.org/10.1101/165506 2017-07-18 CC BY ssbio: A Python Framework for Structural Systems Biology Nathan Mih|Elizabeth Brunk|Ke Chen|Edward Catoiu|Anand Sastry|Erol Kavvas|Jonathan M Monk|Zhen Zhang|Bernhard O Palsson University of California, San Diego
http://dx.doi.org/10.1101/165373 2017-07-18 CC BY-ND Polygenic hazard score: an enrichment marker for Alzheimer's associated amyloid and tau deposition Chin Hong Tan|Chun Chieh Fan|Elizabeth C Mormino|Leo P Sugrue|Iris J Broce|Christopher P Hess|William P Dillion|Luke W Bonham|Jennifer S Yokoyama|Celeste M Karch|James B Brewer|Gil D Rabinovici|Bruce L Miller|Gerald D Schellenberg|Karolina Kauppi|Howard A Feldman|Dominic Holland|Linda K McEvoy|Bradley T Hyman|Ole A Andreassen|Anders M Dale|Rahul S Desikan University of California, San Francisco;|University of California, San Diego;|Stanford University;|Washington University in St. Louis;|University of Pennsylvania;|Massachusetts General Hospital;|University of Oslo
http://dx.doi.org/10.1101/165498 2017-07-18 CC BY-NC-ND Analysis of Ultrafast Transient Absorption Spectroscopy Data using Integrative Data Analysis Platform: 1. Data Processing, Fitting, and Model Selection Evgenii L Kovrigin Marquette University
http://dx.doi.org/10.1101/165043 2017-07-18 CC BY-NC-ND The largest SWI/SNF polyglutamine domain is a pH sensor Juan Ignacio Gutierrez|Gregory Brittingham|Xuya Wang|David Fenyo|Liam J Holt UC Berkeley;|New York University Langone Medical Center
http://dx.doi.org/10.1101/165969 2017-07-20 Evolutionary Biology CC BY-NC-ND Multinucleotide mutations cause false inferences of positive selection Aarti Venkat|Matthew W. Hahn|Joseph W. Thornton University of Chicago;|Indiana University
http://dx.doi.org/10.1101/164962 2017-07-20 Plant Biology CC BY Elemental Accumulation in Kernels of the Maize Nested Association Mapping Panel Reveals Signals of Gene by Environment Interactions Gregory Ziegler|Philip Kear|Di Wu|Cathrine Ziyomo|Alexander Lipka|Michael Gore|Owen Hoekenga|Ivan Baxter USDA-ARS;|Cornell University;|Pioneer Hybrid;|University of Illinois Champaign-Urbana;|Cayuga Genetics Consulting Group LLC
http://dx.doi.org/10.1101/166009 2017-07-20 Bioinformatics CC BY-ND HTSSIP: an R package for analysis of high throughput sequencing data from nucleic acid stable isotope probing (SIP) experiments Nicholas D Youngblut|Samuel E Barnett|Daniel H Buckley Max Planck Institute;|Cornell University
http://dx.doi.org/10.1101/165878 2017-07-20 Bioinformatics CC BY-NC-ND MediSyn: uncertainty-aware visualization of multiple biomedical datasets to support drug treatment selection Chen He|Luana Micallef|Zia-ur-Rehman Tanoli|Samuel Kaski|Tero Aittokallio|Giulio Jacucci University of Helsinki;|Aalto University;|Institute for Molecular Medicine Finland;|Aalto Univ.
http://dx.doi.org/10.1101/165837 2017-07-20 Developmental Biology CC BY-NC Genome-wide strategies identify molecular niches regulated by connective tissue-associated transcription factors Mickael Orgeur|Marvin Martens|Georgeta Leonte|Sonya Nassari|Marie-Ange Bonnin|Stefan T Borno|Bernd Timmermann|Jochen Hecht|Delphine Duprez|Sigmar Stricker Freie Universität Berlin, Berlin, Germany;|IBPS-Developmental Biology Laboratory, Paris, France;|Max Planck Institute for Molecular Genetics, Berlin, Germany;|Centre for Genomic Regulation, Barcelona, Spain
http://dx.doi.org/10.1101/166017 2017-07-20 CC BY-NC-ND Allele-specific multi-sample copy number segmentation Edith M Ross|Kerstin Haase|Peter Van Loo|Florian Markowetz Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK;|The Francis Crick Institute, London, UK;|The Francis Crick Institute, London, UK; Department of Human Genetics, University of Leuven, Belgium
http://dx.doi.org/10.1101/165894 2017-07-20 CC BY-NC-ND SANe: The Seed Active Network For Mining Transcriptional Regulatory Programs of Seed Development Chirag Gupta|Arjun Krishnan|Eva Collakova|Pawel Wolinski|Andy Pereira University of Arkansas;|Michigan State University;|Virginia Tech
http://dx.doi.org/10.1101/165985 2017-07-20 Shifts in temperature influence how Batrachochytrium dendrobatidis infects amphibian larvae Paul W Bradley|Michael D Brawner|Thomas R Raffel|Jason R Rohr|Deanna H Olson|Andrew R Blaustein University of San Diego;|Oregon State University;|Oakland University;|University of South Florida;|USDA Forest Service
http://dx.doi.org/10.1101/166033 2017-07-20 Whole genome bisulfite sequencing reveals a sparse, but robust pattern of DNA methylation in the Dictyostelium discoideum genome Jacob Steenwyk|James St. Denis|Jacqueline Dresch|Denis Larochelle|Robert Drewell Vanderbilt University;|Clark University
http://dx.doi.org/10.1101/165860 2017-07-20 Epidemiology Autistic traits and suicidal thoughts, plans and self-harm in late adolescence: population based cohort study Iryna Culpin|Becky Mars|Rebecca M Pearson|Jean Golding|Jon Heron|Isidora Bubak|Peter Carpenter|Cecilia Magnusson|David J Gunnell|Dheeraj Rai University of Bristol;|Karolinska Institutet;|BASS Autism Services for Adults, Avon & Wiltshire Partnership NHS Trust
http://dx.doi.org/10.1101/164079 2017-07-20 Epidemiology Practical unidentifiability of a simple vector-borne disease model: implications for parameter estimation and intervention assessment Yu-Han Kao|Marisa C. Eisenberg University of Michigan
http://dx.doi.org/10.1101/159483 2017-07-20 Epidemiology CC BY-NC Reverse immunodynamics: a new method to identifying targets of protective immunity. Katrina J Spensley|Jose Lourenco|Paul S Wikramaratna|Bridget S Penman|Andrew Walker|Adrian L Smith|Oliver G Pybus|Letitia Jean|Sunetra Gupta University of Oxford;|University of Edinburgh
http://dx.doi.org/10.1101/166041 2017-07-20 Evolutionary Biology CC BY Inherited chromosomally integrated human herpesvirus 6 genomes are ancient, intact and potentially able to reactivate from telomeres Enjie J Zhang|Adam J Bell|Gavin S Wilkie|Nicolas M Suarez|Chiara Batini|Colin D Veal|Isaac Armendariz-Castillo|Rita Neumann|Victoria E Cotton|Yan Huang|David J Porteous|Ruth F Jarrett|Andrew J Davison|Nicola J Royle University of Leicester;|University of Glasgow;|University of Edinburgh
http://dx.doi.org/10.1101/166074 2017-07-20 PI3Kδ inhibition supports memory T cells with enhanced antitumor fitness Jacob S Bowers|Kinga Majchrzak|Michelle H Nelson|Bulent Arman Aksoy|Megan M Wyatt|Aubrey S Smith|Stefanie R Bailey|Lillian Neal|Jeff Hammerbacher|Chrystal M Paulos Medical University of South Carolina;|Warsaw University of Life Sciences;|Icahn School of Medicine at Mt Sinai
http://dx.doi.org/10.1101/166066 2017-07-20 CC BY-NC-ND The cis-regulatory dynamics of embryonic development at single cell resolution Darren A. Cusanovich|James P. Reddington|David A. Garfield|Riza Daza|Raquel Marco-Ferreres|Lena Christiansen|Xiaojie Qiu|Frank Steemers|Cole Trapnell|Jay Shendure|Eileen E.M. Furlong Department of Genome Sciences, University of Washington;|European Molecular Biology Laboratory, Genome Biology Unit;|Illumina
http://dx.doi.org/10.1101/165357 2017-07-19 CC BY A model-based clustering method to detect infectious disease transmission outbreaks from sequence variation Rosemary M McCloskey|Art Poon BC Centre for Excellence in HIV/AIDS;|Western University
http://dx.doi.org/10.1101/165795 2017-07-19 CC BY-NC-ND Effects of agrochemicals on disease severity of Acanthostomum burminis infections (Digenea: Trematoda) in the Asian common toad, Duttaphrynus melanostictus Uthpala A. Jayawardena|Jason Robert Rohr|Priyanie H. Amerasinghe|Ayanthi N. Navaratne|Rupika S. Rajakaruna Department of Zoology, University of Peradeniya, Peradeniya, Sri Lanka;|University of South Florida;|International Water Management Institute;|Department of Chemistry, University of Peradeniya, Peradeniya, Sri Lanka
http://dx.doi.org/10.1101/165951 2017-07-19 CC BY-NC Cooperating yet distinct brain networks engaged during naturalistic paradigms: A meta-analysis of functional MRI results Katherine L Bottenhorn|Jessica S Flannery|Emily R Boeving|Michael C Riedel|Simon B Eickhoff|Matthew T Sutherland|Angela R Laird Florida International University;|Heinrich-Heine University Dusseldorf
http://dx.doi.org/10.1101/165647 2017-07-19 CC BY Same law, different results: comparative analysis of Endangered Species Act consultations by two federal agencies Megan Evansen|Ya-Wei Li|Jacob Malcom University of Maryland;|Defenders of Wildlife
http://dx.doi.org/10.1101/165589 2017-07-19 The electron transport chain sensitises Staphylococcus aureus and Enterococcus faecalis to the oxidative burst Kimberley L Painter|Alexander Hall|Kam Pou Ha|Andrew M Edwards Imperial College London
http://dx.doi.org/10.1101/165597 2017-07-19 CC BY-NC-ND Zebra diel migrations reduce encounter risk with lions over selection for safe habitats Nicolas Courbin|Andrew Loveridge|Herve Fritz|David Macdonald|Remi Patin|Marion Valeix|Simon Chamaille-Jammes CNRS - CEFE;|Oxford University - WildCRU;|CNRS - LBBE
http://dx.doi.org/10.1101/164335 2017-07-19 An Augmented Reality Social Communication Aid for Children and Adults with Autism: User and caregiver report of safety and lack of negative effects. Ned T. Sahin|Neha U. Keshav|Joseph P. Salisbury|Arshya Vahabzadeh Brain Power
http://dx.doi.org/10.1101/165514 2017-07-19 Preliminary Report on the Impact of Smartglasses-based Behavioral and Social Communication Aid on Hyperactivity in Children and Adults with Autism. Arshya Vahabzadeh|Neha U. Keshav|Joseph P. Salisbury|Ned T. Sahin Brain Power
http://dx.doi.org/10.1101/165712 2017-07-19 CC BY-NC-ND Optimal Point Process Filtering for Birth-Death Model Estimation Kris Varun Parag|Oliver Pybus University of Oxford
http://dx.doi.org/10.1101/165738 2017-07-19 CC BY Are Caenorhabditis elegans magnetoreceptive? David A Keays|Lukas Landler|Simon Nimpf|Gregory Nordmann|Artemis Papadaki-Anastasopoulou|Tobias Hochstoeger Research Institute for Molecular Pathology
http://dx.doi.org/10.1101/165696 2017-07-19 Extent of adaptation is not limited by unpredictability of the environment in laboratory populations of Escherichia coli Shraddha Madhav Karve|Devika Bhave|Sutirth Dey Indian Institute of Science Education and Research, Pune;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/166058 2017-07-19 CC BY-NC-ND Chemotherapeutic dose scheduling based on tumor growth rates: the case for low dose metronomic high entropy therapies Jeffrey West|Paul K Newton University of Southern California
http://dx.doi.org/10.1101/165563 2017-07-19 CC BY-NC-ND High-alpha band synchronization across frontal, parietal and visual cortex mediates behavioral and neuronal effects of visuospatial attention Muriel Lobier|J. Matias Palva|Satu Palva University of Helsinki
http://dx.doi.org/10.1101/164376 2017-07-19 But will they even wear it? Exploring the tolerability of social communication coaching smartglasses in children and adults with autism. Neha U. Keshav|Joseph P. Salisbury|Arshya Vahabzadeh|Ned T. Sahin Brain Power
http://dx.doi.org/10.1101/165613 2017-07-19 CC BY-NC-ND Dendritic processing of spontaneous neuronal sequences for one-shot learning Tatsuya Haga|Tomoki Fukai RIKEN Brain Science Institute
http://dx.doi.org/10.1101/165472 2017-07-19 CC BY-NC-ND Measurement Error Correction of Genome-Wide Polygenic Scores in Prediction Samples Elliot M. Tucker-Drob University of Texas at Austin
http://dx.doi.org/10.1101/165779 2017-07-19 CC BY-NC-ND The Influence of Pesticide Use on Amphibian Chytrid Fungal Infections Varies with Host Life Stage Samantha Rumschlag|Jason R Rohr University of South Florida;|University of South Florida, Department of Integrative Biology
http://dx.doi.org/10.1101/165654 2017-07-19 CC BY-NC-ND Systematic selection of reference genes for normalization of circulating RNA transcripts in pregnant women based on RNA-seq data Stephen S.C. Chim|Karen K.W. Wong|Claire Y.L. Chung|Stephanie K.W. Lam|Jamie S.L. Kwok|Chit-Ying Lai|Yvonne K.Y. Cheng|Annie S.Y. Hui|Meng Meng|Oi-Ka Chan|Stephen K.W. Tsui|Keun-Young Lee|Ting-Fung Chan|Tak-Yeung Leung The Chinese University of Hong Kong
http://dx.doi.org/10.1101/165670 2017-07-19 Dethroning the Fano Factor: a flexible, model-based approach to partitioning neural variability Adam S Charles|Mijung Park|J. Patrick Weller|Gregory D. Horwitz|Jonathan W. Pillow Princeton Neuroscience Institute;|Gatsby Computational Neuroscience Unit, University College London;|Department of Physiology and Biophysics, University of Washington
http://dx.doi.org/10.1101/165571 2017-07-19 Pseudopaline, a staphylopine-like metallophore involved in zinc and nickel uptake in Pseudomonas aeruginosa Sebastien Lhospice|Nicolas Oswaldo Gomez|Laurent Ouerdane|Catherine Brutesco|Ghassan Ghssein|Christine Hajjar|Ahmed Liratni|Shuanglong Wang|Pierre Richaud|Sophie Bleves|Genevieve Ball|Elise borezee-durant|Ryszard Lobinski|David Pignol|Pascal Arnoux|Rome Voulhoux CNRS;|Univ. Pau;|CEA;|INRA
http://dx.doi.org/10.1101/165605 2017-07-19 CC BY-NC-ND Integrated Human-Virus Metabolic Modelling Predicts Host-Based Antiviral Targets Against Chikungunya, Dengue and Zika Viruses Sean Aller|Andrew E Scott|Mitali Sarkar-Tyson|Orkun Soyer University of Warwick;|Defence Science and Technology Laboratory;|University of Western Australia;|university of warwick
http://dx.doi.org/10.1101/165977 2017-07-19 CC BY-NC-ND Wisdom of artificial crowds feature selection in untargeted metabolomics: An application to the development of a blood-based diagnostic test for thrombotic myocardial infarction Patrick J. Trainor|Roman V. Yampolskiy|Andrew P. DeFilippis University of Louisville
http://dx.doi.org/10.1101/165464 2017-07-19 Optimization of Alginante- poly-L-lysine Microencapsules Strength by Box-Behnken Model for CHO Culture in Stirred Tank Bioreactor Yu Wang|Na Li|Dongsheng Sun|Shengnan He|Lisha Mou Shenzhen Second People's Hospital
http://dx.doi.org/10.1101/165902 2017-07-19 Electroencephalographic markers of brain development during sevoflurane anesthesia in children aged 0 to 3 years old Laura Cornelissen|Seong-Eun Kim|Johanna M Lee|Patrick L Purdon|Emery N Brown|Charles B Berde Boston Children's Hospital & Harvard Medical School;|Massachusetts Institute of Technology;|Boston Children's Hospital & Massachusetts Institute of Technology;|Massachusetts General Hospital;|Massachusetts General Hospital & Massachusetts Institute of Technology
http://dx.doi.org/10.1101/165761 2017-07-19 CC BY A parametric texture model based on deep convolutional features closely matches texture appearance for humans Thomas S A Wallis|Christina M Funke|Alexander S Ecker|Leon A Gatys|Felix A Wichmann|Matthias Bethge Eberhard Karls University Tuebingen
http://dx.doi.org/10.1101/165191 2017-07-19 CC BY-NC-ND SnakeChunks: modular blocks to build Snakemake workflows for reproducible NGS analyses Claire Rioualen|Lucie Charbonnier-Khamvongsa|Jacques van Helden Aix Marseille Univ, INSERM, TAGC, UMR\_S 1090, 163, Avenue de Luminy, Marseille, 13288, France
http://dx.doi.org/10.1101/165753 2017-07-19 CC BY-NC-ND Structure of the deactive state of mammalian respiratory complex I James N Blaza|Kutti R Vinothkumar|Judy Hirst University of Cambridge;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/166025 2017-07-19 Compositional shifts in the root microbiota track the life-cycle of field-grown rice plants Joseph Edwards|Christian Santos-Medellin|Zachary Liechty|Bao Nguyen|Eugene Lurie|Shane Eason|Gregory Phillips|Venkatesan Sundaresan University of California, Davis;|Arkansas State University
http://dx.doi.org/10.1101/165639 2017-07-19 CC BY-NC-ND Transcription start site profiling uncovers divergent transcription and enhancer-associated RNAs in Drosophila melanogaster Michael P. Meers|Karen Adelman|Robert J Duronio|Brian D Strahl|Daniel J McKay|A. Gregory Matera University of North Carolina;|Harvard University School of Medicine
http://dx.doi.org/10.1101/165340 2017-07-19 Orientation-dependent Dxz4 contacts shape the 3D structure of the inactive X chromosome Giancarlo Bonora|Xinxian Deng|He Fang|Vijay Ramani|Ruolan Qui|Joel Berletch|Gala N Filippova|Zhijun Duan|Jay Schendure|William S Noble|Christine M Disteche University of Washington
http://dx.doi.org/10.1101/165811 2017-07-19 CC BY-NC-ND Single-Cell RNAseq analysis of infiltrating neoplastic cells at the migrating front of human glioblastoma Spyros Darmanis|Steven A. Sloan|Derek Croote|Marco Mignardi|Sophia Chernikova|Peyman Samghababi|Ye Zhang|Norma Neff|Mark Kowarsky|Christine Caneda|Gordon Li|Steven Chang|Ian David Connolly|Yingmei Li|Ben Barres|Melanie Hayden Gephart|Stephen R. Quake Stanford University
http://dx.doi.org/10.1101/165167 2017-07-19 Genetics and genomics of social behaviour in a chicken model Martin Johnsson|Rie Henriksen|Jesper Fogelholm|Andrey Hoglund|Per Jensen|Dominic Wright Linköping University
http://dx.doi.org/10.1101/165399 2017-07-19 CC BY Serial dependence transfers between perceptual objects Greg Huffman|Jay Pratt|Christopher J Honey University of Toronto;|Johns Hopkins University
http://dx.doi.org/10.1101/165233 2017-07-19 Causal role of beta oscillations in time estimation Martin Wiener|Alomi Parikh|Arielle Krakow|H Branch Coslett George Mason University;|University of Pennsylvania;|Johns Hopkins University
http://dx.doi.org/10.1101/165217 2017-07-19 CC BY-NC-ND Revelation of the Genetic Basis for Convergent Innovative Anal Fin Pigmentation Patterns in Cichlid Fishes Langyu Gu|Chao Zhang|Canwei Xia Basel University;|VU Amsterdam;|Beijing Normal University
http://dx.doi.org/10.1101/166298 2017-07-20 Genome-wide genetic data on ~500,000 UK Biobank participants Clare Bycroft|Colin Freeman|Desislava Petkova|Gavin Band|Lloyd T Elliott|Kevin Sharp|Allan Motyer|Damjan Vukcevic|Olivier Delaneau|Jared O'Connell|Adrian Cortes|Samantha Welsh|Gil McVean|Stephen Leslie|Peter Donnelly|Jonathan Marchini Wellcome Trust Center for Human Genetics, University of Oxford, UK;|Department of Statistics, University of Oxford, UK;|The University of Melbourne;|Department of Genetic Medicine and Development, University of Geneva;|Illumina Ltd;|UK Biobank;|Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, University of Oxford
http://dx.doi.org/10.1101/166181 2017-07-20 CC BY-NC-ND A genetic-based algorithm for recovery: A pilot study Craig Pickering|John Kiely|Bruce Suraci|Charlie Quigley|Jake Watson University of Central Lancashire;|Suraci Consultancy;|University of Portsmouth
http://dx.doi.org/10.1101/166124 2017-07-20 An Automated Approach to the Quantitation of Vocalizations and Vocal Learning in the Songbird David Gavin Mets|Michael S Brainard UCSF\HHMI;|UCSF/HHMI
http://dx.doi.org/10.1101/166322 2017-07-20 CC BY Fusion detection and quantification by pseudoalignment Pall Melsted|Shannon Hateley|Isaac Charles Joseph|Harold Pimentel|Nicolas L Bray|Lior Pachter University of Iceland;|Department of Molecular and Cell Biology, University of California, Berkeley;|Graduate Program in Computational Biology, University of California, Berkeley;|UC Berkeley;|Innovative Genomics Initiative, University of California, Berkeley;|Division of Biology and Biological Engineering, California Institute of Technology, Pasadena
http://dx.doi.org/10.1101/166405 2017-07-20 CC BY-NC Common neural responses to narrative speech in disorders of consciousness Ivan Iotzov|Brian C Fidali|Agustin Petroni|Mary M Conte|Nicholas D Schiff|Lucas C Parra City College of New York;|The Feil Family Brain and Mind Research Institute, Weill Cornell Medicine, New York, NY;|Department of Biomedical Engineering, City College of New York, New York, NY
http://dx.doi.org/10.1101/166520 2017-07-20 Language evolution to revolution: from a slowly developing finite communication system with many words to infinite modern language Andrey Vyshedskiy Boston University
http://dx.doi.org/10.1101/165936 2017-07-20 CC BY-NC Evolutionary origins and diversification of testis-specific short histone H2A variants in mammals Antoine Molaro|Janet M. Young|Harmit Singh Malik Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/166108 2017-07-20 CC BY Context-dependent Requirements for FimH and Other Canonical Virulence Factors in Gut Colonization by Extraintestinal Pathogenic Escherichia coli Colin W. Russell|Brittany A Fleming|Alan T Stenquist|Morgan A Wambaugh|Mary P Bronner|Matthew A Mulvey University of Utah School of Medicine
http://dx.doi.org/10.1101/166140 2017-07-20 CC BY-NC-ND Two Chinese medicine species constants and the accurate identification of Chinese medicines huabin zou shandong university
http://dx.doi.org/10.1101/166231 2017-07-20 Genome expansion and lineage-specific genetic innovations in the world's largest organisms (Armillaria) Gyorgy Sipos|Arun N Prasanna|Mathias C Walther|Eoin O'Connor|Balazs Balint|Krisztina Krizsan|Brigitta Kiss|Jaqueline Hess|Jason Slot|Robert Riley|Bettina Boka|Daniel Rigling|Kerrie Barry|Juna Lee|Sirma Mihaltseva|Kurt Labutti|Anna Lipzen|Rose Waldron|Nicola Moloney|Christoph Sperisen|Laszlo Kredics|Csaba Vagvolgyi|Andrea Patrigniani|David Fitzpatrick|Istvan Nagy|Sean Doyle|James B Anderson|Igor V Grigoriev|Ulrich Guldener|Martin Munsterkotter|Torda Varga|Laszlo G Nagy University of West Hungary;|Biological Research Center, Synthetic and Systems Biology Unit;|Department of Genome-oriented Bioinformatics, University of Muenchen;|Department of Biology, Maynooth University;|Seqomics Ltd;|Department of Botany and Biodiversity Research, University of Vienna;|Department of Plant Pathology, Ohio State University;|US Department of Energy (DOE) Joint Genome Institute;|Department of Microbiology, University of Szeged;|Swiss Federal Research Institute WSL;|Functional Genomics Center, ETH and University of Zurich;|Seqomics Ltd.;|Department of Biology, University of Toronto;|Department of Genome-oriented Bioinformatics, University if Muenchen
http://dx.doi.org/10.1101/166629 2017-07-20 CC BY-NC Spatial and temporal distribution of genome divergence among California populations of Aedes aegypti. Yoosook Lee|Travis C Collier|William R Conner|Mark J Hanemaaijer|Chelsea T Smartt|Montgomery Slatkin|Joanna C Chiu|Gregory C Lanzaro|F. Steve Mulligan|Anthony J Cornel UC Davis;|University of Florida, Florida Medical Entomology Laboratory;|UC Berkeley;|Consolidated Mosquito Abatement District
http://dx.doi.org/10.1101/166215 2017-07-20 CC BY-NC A geography aware reconciliation method to investigate host/parasite cospeciation Vincent Berry|Francois Chevenet|Jean-Philippe Doyon|Emmanuelle Jousselin Institut de Biologie Computationnelle, LIRMM, UMR 5506 CNRS, Universite de Montpellier, France;|MIVEGEC, CNRS 5290, IRD 224, Universite de Montpellier, France;|INRA
http://dx.doi.org/10.1101/165852 2017-07-20 Pitch discrimination performance of ferrets and humans on a go/no-go task. Kerry MM Walker|Amelia Davies|Jennifer Kim Bizley|Jan WH Schnupp|Andrew J King University of Oxford;|University College london;|City University of Hong Kong
http://dx.doi.org/10.1101/166355 2017-07-20 Use of a Sibling Subtraction Method (SSM) for Identifying Causal Mutations in C. elegans by Whole-Genome Sequencing Braveen B. Joseph|Nicolas A Blouin|David S Fay University of Wyoming;|Dr.
http://dx.doi.org/10.1101/166223 2017-07-20 CC BY-NC-ND GDSCTools for Mining Pharmacogenomic Interactions in Cancer Thomas Cokelaer|Elizabeth Chen|Francesco Iorio|Michael P Menden|Howard Lightfoot|Julio Saez-Rodriguez|Garnett J Mathew Institut Pasteur;|Wellcome Trust Sanger Institute;|EMBL-EBI;|Oncology Innovative Medicines and early Development, AstraZeneca;|RWTH Aachen, Faculty of Medicine
http://dx.doi.org/10.1101/166264 2017-07-20 CC BY-NC-ND Distinct roles of cohesin-SA1 and cohesin-SA2 in 3D chromosome organization Aleksandar Kojic|Cuadrado Ana|Magali De Koninck|Gonzalo Gomez-Lopez|Miriam Rodriguez-Corsino|Francois Le Dily|Marc Marti-Renom|Ana Losada CNIO;|CRG;|CNAG-CRG
http://dx.doi.org/10.1101/166256 2017-07-20 CC BY Regulatory coiled-coil domains promote head-to-head assemblies of AAA+ chaperones essential for tunable activity control Axel Mogk Zentrum für Molekulare Biologie der Universität Heidelberg
http://dx.doi.org/10.1101/166116 2017-07-20 CC BY-ND The Emergence of Egalitarianism in a Model of Early Human Societies Guillaume Calmettes|James Weiss University of California, Los Angeles
http://dx.doi.org/10.1101/166348 2017-07-20 CC BY-NC-ND Vermont: a multi-perspective visual interactive platform for mutational analysis Alexandre Fassio|Pedro Martins|Samuel Guimaraes|Socrates Junior|Vagner Ribeiro|Raquel de Melo-Minardi|Sabrina Silveira Federal University of Minas Gerais;|Federal University of Vicosa
http://dx.doi.org/10.1101/166306 2017-07-20 CC BY Optimal decision making using grid cells under spatial uncertainty Tobias Navarro Schroeder|Benjamin W Towse|Neil Burgess|Caswell Barry|Christian F Doeller Kavli Institute for Systems Neuroscience, NTNU;|UCL Institute of Neurology; UCL Research Department of Cell and Developmental Biology;|UCL Institute of Neurology; UCL Institute of Cognitive Neuroscience;|UCL Research Department of Cell and Developmental Biology, University College London, London, UK
http://dx.doi.org/10.1101/166165 2017-07-20 Molecular Biology SOD1A4V aggregation alters ubiquitin homeostasis in ALS Natalie E Farrawell|Isabella Lambert-Smith|Kristen Mitchell|Jessie McKenna|Luke McAlary|Prajwal Ciryam|Kara L Vine|Darren Saunders|Justin J Yerbury University of Wollongong;|University of NSW;|University of British Columbia;|Columbia University
http://dx.doi.org/10.1101/165928 2017-07-20 Genomics CC BY-NC Fantastic beasts and how to sequence them: genomic approaches for obscure model organisms. Mikhail V Matz University of Texas at Austin
http://dx.doi.org/10.1101/165548 2017-07-20 Ecology CC BY-NC-ND Spores and soil from six sides: interdisciplinarity and the environmental biology of anthrax (Bacillus anthracis) Colin J. Carlson|Wayne Getz|Kyrre Kausrud|Carrie Cizauskas|Jason Blackburn|Fausto A Bustos Carrillo|Rita Colwell|W. Ryan Easterday|Holly Ganz|Pauline Kamath|Ole Andreas Okstad|Wendy Turner|Anne-Brit Kolsto|Nils C. Stenseth University of California, Berkeley;|University of California at Berkeley;|University of Oslo;|University of Florida;|University of Maryland, College Park;|University of California, Davis;|University of Maine;|SUNY Albany
http://dx.doi.org/10.1101/166173 2017-07-20 Genomics Whole genome optical mapping reveals multiple fusion events chained by large novel sequences in cancer Eva K.F. Chan|Desiree C Petersen|Ruth J Lyons|Benedetta F Baldi|Tony T Papenfuss|David M Thomas|Vanessa M Hayes Garvan Institute of Medical Research;|Melbourne;|Garvan Insitute of Medical Research
http://dx.doi.org/10.1101/166207 2017-07-20 Bioinformatics CC BY Functional network community detection can disaggregate and filter multiple underlying pathways in enrichment analyses Lia X Harrington|Gregory P Way|Jennifer A Doherty|Casey S Greene Geisel School of Medicine at Dartmouth;|University of Pennsylvania;|Huntsman Cancer Institute, Population Health Sciences, University of Utah
http://dx.doi.org/10.1101/166199 2017-07-20 Cancer Biology CC BY Fibroblasts cell lines misclassified as cancer cell lines Antoine de Weck|Hans Bitter|Audrey Kauffmann Novartis Institute for BioMedical Research
http://dx.doi.org/10.1101/162842 2017-07-20 Biochemistry Monomerization of Far-Red Fluorescent Proteins Timothy M Wannier|Sarah Gillespie|Nicholas Hutchins|R Scott McIsaac|Kevin S Brown|Stephen L Mayo California Institute of Technology;|University of Connecticut
http://dx.doi.org/10.1101/166090 2017-07-20 Bioinformatics Phenotypic associations of consensus driver genes in hepatocellular carcinoma Kumardeep Chaudhary|Liangqun Lu|Olivier B Poirion|Travers Ching|Lana X Garmire University of Hawaii Cancer Center
http://dx.doi.org/10.1101/166082 2017-07-20 Evolutionary Biology CC BY-NC-ND Selection on non-antigenic gene segments of seasonal influenza A virus and its impact on adaptive evolution Jayna Raghwani|Robin Thompson|Katia Koelle University of Oxford;|Duke University
http://dx.doi.org/10.1101/166538 2017-07-21 Developmental Biology Linguistically deprived children: meta-analysis of published research underlines the importance of early syntactic language use for normal brain development Andrey Vyshedskiy|Shreyas Mahapatra|Rita Dunn Boston University;|ImagiRation
http://dx.doi.org/10.1101/165555 2017-07-21 Genetics CC BY-NC-ND Coat color allele and mtDNA haplotype distributions in Russian cat populations: a citizen-science research Yakov A. Tsepilov|Olga Zaytseva|Ekaterina Yudayeva|Artem Kasianov|Ivan Kulakovskiy|Maria Logacheva|Daria Belayeva|Anna Gracheva|Ksenia Homenko|Anastasia Knyazeva|Ekaterina Kolesnikova|Daria Nikolayeva|Mariana Bevova|Pavel Borodin|Yurii Aulchenko Institute of Cytology And Genetics SB RAS;|Institute of Cytology and Genetics SD RAS, Novosibirsk, Russia, 630090;|Summer School for Molecular and Theoretical Biology, Pushino, Russia, 142290;|Vavilov Institute of General Genetics, Russian Academy of Sciences, Moscow, Russia, 119991;|Moscow State University, Moscow, Russia, 119991;|European Research Institute for the Biology of Ageing, Univ of Groningen, University Medical Ctr
http://dx.doi.org/10.1101/166587 2017-07-21 Paleontology Three-dimensional mobility and muscle attachments in the pectoral limb of the Triassic cynodont Massetognathus pascuali Phil H Lai|Stephanie Pierce|Andrew Biewener Harvard University
http://dx.doi.org/10.1101/166496 2017-07-21 Neuroscience CC BY-NC-ND Machine Learning for Large-Scale Quality Control of 3D Shape Models in Neuroimaging Dmitry M Petrov|Boris A. Gutman|Shih-Hua (Julie) Yu|Theo G. M. van Erp|Jessica A. Turner|Lianne Schmaal|Dick Veltman|Lei Wang|Kathryn Alpert|Dmitry Isaev|Artemis Zavaliangos-Petropulu|Christopher R. K. Ching|Vince Calhoun|David Glahn|Ted Sattertwaite|Ole Andreas Andreasen|Stefan Borgwardt|Fleur Howells|Nynke Groenewold|Aristotle Voineskos|Joaquim Radua|Steven G. Potkin|Benedicto Crespo-Facorro|Diana Tordesillas-Gutierrez|Li Shen|Irina Lebedeva|Gianfranco Spalletta|Gary Donohoe|Peter Kochunov|Pedro G. P. Rosa|Anthony James|Udo Dannlowski|Bernhardt T. Baune|Andre Aleman|Ian H. Gotlib|Henrik Walter|Martin Walter|Jair C. Soares|Ruben C. Gur|N. Trung Doan|Ingrid Agartz|Lars T. Westlye|Fabienne Harrisberger|Anita Riecher-Rossler|Anne Uhlmann|Dan J. Stein|Erin W. Dickie|Edith Pomarol-Clotet|Paola Fuentes-Claramonte|Erick Jotge Canales-Rodriguez|Raymond Salvador|Alexander J. Huang|Roberto Roiz-Santianez|Shan Cong|Alexander Tomyshev|Fabrizio Piras|Daniela Vecchio|Nerisa Banaj|Valentina Ciullo|Elliot Hong|Geraldo Busatto|Marcus V. Zanetti|Mauricio H. Serpa|Simon Cervenka|Sinead Kelly|Dominik Grotegerd|Matthew D. Sacchet|Ilya M. Veer|Meng Li|Mon-Ju Wu|Benson Irungu|Paul M. Thompson Imaging Genetics Center, University of Southern California;|Imaging Genetics Center, University of Southern California, Los Angeles;|University of California, Irvine;|The Mind Research Network, Albuquerque;|Orygen, The National Centre of Excellence in Youth Mental Health, Melbourne, Australia;|Department of Psychiatry, VU University Medical Center, Amsterdam, The Netherlands;|Department of Psychiatry, Northwestern University, Chicago;|Yale University School of Medicine;|University of Pennsylvania;|KG Jebsen Centre for Psychosis Research, Oslo University Hospital;|Department of Psychiatry, University of Basel;|Department of Psychiatry and Mental Health, University of Cape Town, Cape Town;|Centre for Addiction and Mental Health, Toronto;|FIDMAG Germanes Hospitalaries Research Foundation, Barcelona, Spain;|University Hospital Marques de Valdecilla, IDIVAL;|Dept. of Radiology and Imaging Sciences, Indiana University;|Mental Health Research Center, Moscow;|Neuropsychiatry Laboratory, Sta Lucia Foundation, Rome;|School of Psychology, NUI Galway;|Maryland Psychiatric Research Center, University of Maryland School of Medicine, Baltimore;|Department of Psychiatry, Faculty of Medicine, University of Sao Paulo, Sao Paulo, Brazil;|University of Oxford, Oxford, United Kingdom;|Department of Psychiatry and Psychotherapy, University of Munster, Germany;|Discipline of Psychiatry, Adelaide Medical School, The University of Adelaide;|University of Groningen, Department of Neuroscience, University Medical Center Groningen;|Stanford University;|Charite - Universitatsmedizin Berlin;|Otto von Guericke University Magdeburg;|University of Texas Health Science Center at Houston;|Maryland Psychiatric Research Center, University of Maryland School of Medicine, Baltimore;|Department of Clinical Neuroscience, Karolinska Institutet, Stockholm;|Brigham and Womens hospital, Harvard Medical School
http://dx.doi.org/10.1101/166447 2017-07-21 Microbiology CC BY-NC-ND Dramatic expansion of microbial groups that shape the global sulfur cycle Karthik Anantharaman|Sean P Jungbluth|Rose S Kantor|Adi Lavy|Lesley A Warren|Michael S Rappe|Brian C Thomas|Jillian F Banfield University of California, Berkeley;|DOE Joint Genome Institute;|University of Toronto;|University of Hawaii at Manoa
http://dx.doi.org/10.1101/166421 2017-07-21 Neuroscience CC BY-NC-ND Predicting eye movements from deep neural network activity decoded from fMRI responses to natural scenes Thomas P. O'Connell|Marvin Chun Yale University
http://dx.doi.org/10.1101/166470 2017-07-21 Physiology CC BY-NC-ND Frank-Starling Mechanism and Short-Term Adjustment of Cardiac Flow Jose G Chaui-Berlinck|Luiz H A Monteiro Universidade de Sao Paulo;|Escola de Engenharia da Universidade Presbiteriana Mackenzie
http://dx.doi.org/10.1101/166512 2017-07-21 Neuroscience CC BY Temporal transitions of spontaneous brain activity in awake rats Zhiwei Ma|Nanyin Zhang The Pennsylvania State University, United States
http://dx.doi.org/10.1101/166637 2017-07-21 Bioinformatics CC BY-NC-ND PaSD-qc: Quality control for single cell whole-genome sequencing data using power spectral density estimation Maxwell A Sherman|Alison R Barton|Michael Lodato|Carl Vitzthum|Michael Coulter|Christopher Walsh|Peter Park Harvard Medical School;|Boston Children's Hospital
http://dx.doi.org/10.1101/166611 2017-07-21 Neuroscience When the ostrich-algorithm fails: Blanking method affects spike train statistics Soheil Mottaghi|Kevin Joseph|Olaf Christ|Thomas J Feuerstein|Ulrich G Hofmann Medical Center-University of Freiburg
http://dx.doi.org/10.1101/166660 2017-07-21 Neuroscience Asymmetric compression of representational space for object animacy categorization under degraded viewing conditions Tijl Grootswagers|J. Brendan Ritchie|Susan Wardle|Andrew Heathcote|Thomas A Carlson University of Sydney;|KU Leuven;|Macquarie University;|University of Tasmania
http://dx.doi.org/10.1101/166603 2017-07-21 Bioinformatics CC BY-NC-ND Enhancing the Representational Similarity Between Execution and Imagination of Movement Using Network-Based Brain Computer Interfacing Neda Kordjazi|Amineh Koravand|Heidi Sveistrup The Brain and Mind Institute, University of Western Ontario;|Faculty of Health Sciences, University of Ottawa
http://dx.doi.org/10.1101/166371 2017-07-21 Biophysics CC BY-NC-ND Quantifying cell adhesion dynamics using a custom-made fluid shear device: experiments and model Renu Maan|Gautam I Menon|Pramod A Pullarkat Raman Research Institute;|The Institute of Mathematical Sciences
http://dx.doi.org/10.1101/166561 2017-07-21 Bioinformatics CC BY Automated analysis of internally programmed grooming behavior in Drosophila using a k-nearest neighbors classifier Bing Qiao|Chiyuan Li|Victoria Allen|Mimi M Shirasu-Hiza|Sheyum Syed University of Miami;|Columbia University
http://dx.doi.org/10.1101/166645 2017-07-21 Plant Biology Zinc availability modulates plant growth and immune responses via AZI1 Nadia Bouain|Santosh B. Satbhai|Chorpet Saenchai|Guilhem Desbrosses|Pierre Berthomieu|Wolfgang Busch|Hatem Rouached Biochemistry and Plant Molecular Physiology- Montpellier. France;|Plant Molecular And Cellular Biology Laboratory, Salk Institute for Biological Studies, La Jolla, CA
http://dx.doi.org/10.1101/166553 2017-07-21 Immunology CC BY-NC-ND ISG15 induces IL-10 production in human monocytes and is a biomarker of disease severity during active tuberculosis Paula Fernandes dos Santos|Johan Van Weyenbergh|Murilo Delgobo|Daniel de Oliveira Patricio|Brian J Ferguson|Rodrigo Guabiraba|Tim Dierckx|Soraya Maria Menezes|Andre Bafica|Daniel S Mansur Universidade Federal de Santa Catarina;|University of Leuven;|University of Cambridge;|INRA, Universite Francois Rabelais de Tours
http://dx.doi.org/10.1101/166389 2017-07-21 Physiology CC BY Loss of CHIP Expression Perturbs Glucose Homeostasis and Leads to Type II Diabetes through Defects in Microtubule Polymerization and Glucose Transporter Localization Holly McDonough|Kaitlin C Lenhart|Sarah M Ronnebaum|Chunlian Zhang|Jie An|Andrea Portbury|Christopher B Newgard|Monte S Willis|Cam Patterson|Jonathan C Schisler The University of North Carolina at Chapel Hill;|Duke University;|Presbyterian Hospital/Weill-Cornell Medical Center
http://dx.doi.org/10.1101/166678 2017-07-21 Synthetic Biology Screening and directed evolution of transporters to improve xylodextrin utilization in the yeast Saccharomyces cerevisiae Chenlu Zhang|Ligia Acosta-Sampson|Vivian Y Yu|Jamie H D Cate Tsinghua University;|University of California, Berkeley;|UC Berkeley
http://dx.doi.org/10.1101/166462 2017-07-21 Bioengineering Time-gated detection of protein-protein interactions with transcriptional readout Min Woo Kim|Wenjing Wang|Mateo I. Sanchez|Robert Coukos|Mark Von Zastrow|Alice Ting Stanford University;|University of California, San Francisco
http://dx.doi.org/10.1101/166579 2017-07-21 Neuroscience Locomotor and Reinforcing Effects of Pentedrone, Pentylone and Methylone in Rats Mehrak Javadi-Paydar|Jacques D Nguyen|Sophia A Vandewater|Tobin J Dickerson|Michael A Taffe The Scripps Research Institute
http://dx.doi.org/10.1101/166744 2017-07-21 Spatiotemporal DNA Methylome Dynamics of the Developing Mammalian Fetus Yupeng He|Manoj Hariharan|David U Gorkin|Diane E Dickel|Chongyuan Luo|Rosa G Castanon|Joseph R Nery|Ah Young Lee|Brian A Williams|Diane Trout|Henry Amrhein|Rongxin Fang|Huaming Chen|Bin Li|Axel Visel|Len A Pennacchio|Bing Ren|Joseph R Ecker Genomic Analysis Laboratory, The Salk Inst. for Biological Studies; Bioinformatics, UC San Diego;|Genomic Analysis Laboratory, The Salk Institute for Biological Studies, La Jolla, CA;|Ludwig Institute for Cancer Research, 9500 Gilman Drive, La Jolla, CA 92093-0653, USA;|Functional Genomics Department, Lawrence Berkeley National Laboratory, Berkeley, CA;|Genomic Analysis Laboratory and Howard Hughes Medical Institute, Salk Inst. for Biological Studies;|Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA;|Ludwig Institute for Cancer Research and Bioinformatics Program, Univ. of California, San Diego
http://dx.doi.org/10.1101/167163 2017-07-21 Printed Droplet Microfluidics for on demand dispensing of picoliter droplets and cells Russell H Cole|Shi-Yang Tang|Christian A Siltanen|Payam Shahi|Jesse Q Zhang|Sean Poust|Zev J Gartner|Adam R Abate University of California, San Francisco
http://dx.doi.org/10.1101/167205 2017-07-21 CC BY-NC Understanding the dynamics of scaffold-mediated signaling Ryan Suderman|Addison Schauer|Eric Deeds University of Kansas
http://dx.doi.org/10.1101/167197 2017-07-21 Systems-level identification of transcription factors critical for mouse embryonic development Kai Zhang|Mengchi Wang|Ying Zhao|Wei Wang University of California San Diego;|UC San Diego
http://dx.doi.org/10.1101/167171 2017-07-21 CC BY-NC-ND Maximal growth rate requires minimal metabolic complexity Daan Hugo de Groot|Robert Planque|Coco van Boxtel|Frank J. Bruggeman|Bas Teusink VU University Amsterdam
http://dx.doi.org/10.1101/166983 2017-07-21 CC BY-NC-ND BRG1/BRM-associated factor complex subunit diversity promotes temporally distinct gene expression programs in cardiogenesis Swetansu Hota|Jeffrey Johnson|Erik Verschueren|Yiwen Zhu|Xin Sun|Len Pennacchio|Janet Rossant|Nevan Krogan|Benoit Bruneau Gladstone Institutes;|UCSF;|LBL/JGI;|Hospital for Sick Children;|Gladstone Institutes/UCSF
http://dx.doi.org/10.1101/166868 2017-07-21 CC BY-ND BGP: Branched Gaussian processes for identifying gene-specific branching dynamics in single cell data Alexis Boukouvalas|James Hensman|Magnus Rattray University of Manchester;|prowler.io
http://dx.doi.org/10.1101/166702 2017-07-21 CC BY-NC Progesterone regulates hypothalamic-pituitary-thyroid axis Chunyun Zhong|Kewen Xiong|Xin Wang Third Hospital of Shanxi University
http://dx.doi.org/10.1101/167056 2017-07-21 CC BY-NC-ND Regulating the UAS/GAL4 system in adult Drosophila with Tet-off GAL80 transgenes Taylor Barwell|Brian DeVeale|Luc Poirier|Jie Zheng|Frederique Seroude|Laurent Seroude Queen's University
http://dx.doi.org/10.1101/166835 2017-07-21 CC BY Fast and memory-efficient noisy read overlapping with KD-trees Dmitri Parkhomchuk|Andreas Bremges|Alice Carolyn McHardy Helmholtz Centre for Infection Research
http://dx.doi.org/10.1101/166785 2017-07-21 CC BY-NC-ND Computational Foundations of Natural Intelligence Marcel van Gerven Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/167080 2017-07-21 Conformational Dynamics and Energy Landscapes of Ligand Binding in RyR1 Ali Dashti|Danya Ben Hail|Ghoncheh Mashayekhi|Peter Schwander|Amedee des Georges|Joachim Frank|Abbas Ourmazd Department of Physics, University of Wisconsin Milwaukee, 3135 N. Maryland Ave, Milwaukee, WI 53211;|Structural Biology Initiative, CUNY Advanced Science Research Center, City University of New York;|Department of Biochemistry and Molecular Biophysics, Columbia University
http://dx.doi.org/10.1101/167007 2017-07-21 Endophyte Chaetomium globosum D38 and its elicitors promote tanshinones accumulation of Salvia miltiorrhiza Xin Zhai|Dong Luo|Xiu Qing Li|Ting Han|Zhou Yang Kong|Jia Cheng Ji|Lu Ping Qin|Cheng Jian Zheng Department of Pharmacognosy, School of Pharmacy, Second Military Medical University
http://dx.doi.org/10.1101/166827 2017-07-21 De Novo Genes are "Frozen Accidents" which Escaped Rapid Turnover of Pervasively Transcribed ORFs Jonathan F Schmitz|Kristian Ullrich|Erich Bornberg-Bauer Institute for Evolution and Biodiversity, University of Muenster, Muenster, Germany;|Max-Planck Institute for Evolutionary Biology, Ploen, Germany
http://dx.doi.org/10.1101/167031 2017-07-21 CC BY-ND Effective normalization for copy number variation in Hi-C data Nicolas Servant|Nelle Varoqaux|Edith Heard|Jean-Philippe Vert|Barillot Emmanuel Insitut Curie, INSERM U900, Mines Paris Tech;|University of California, Berkeley;|Institut Curie, CNRS UMR3215, INSERM U934
http://dx.doi.org/10.1101/167122 2017-07-21 Switchable amplification of fluoresence from a photosynthetic microbe Anirban Bose|Sufi O Raja|Rajdeep Chowdhury|Somen Nandi|Sanhita Ray|Kankan Bhattacharyya|ANJAN Kr DASGUPTA University of Calcutta;|Institute for Stem Cell Biology and Regenerative Medicine, NCBS, Bengaluru;|Indian Association for the Cultivation of Science, Jadavpur, Kolkata
http://dx.doi.org/10.1101/167015 2017-07-21 CC BY-NC Using MinION to characterize dog skin microbiota through full-length 16S rRNA gene sequencing approach Anna Cusco|Joaquim Vines|Sara D'Andreano|Francesca Riva|Joaquim Casellas|Armand Sanchez|Olga Francino Vetgenomics;|Universitat Autonoma de Barcelona
http://dx.doi.org/10.1101/166801 2017-07-21 CC BY-NC Limited genetic variation for male mating success reveals low evolutionary potential for thermal plasticity in Drosophila melanogaster John Thomas Waller|Anna Kell|Mireia Ballesta|Aude Giraud|Jessica Abbott|Erik Svensson Lund University;|The University of Manchester
http://dx.doi.org/10.1101/165845 2017-07-21 The effect of an 8-week mindful eating intervention on anticipatory reward responses in the midbrain Lieneke K Janssen|Iris Duif|Anne EM Speckens|Ilke van Loon|Jeanne HM de Vries|Roshan Cools|Esther Aarts Radboud University, Donders Institute for Brain, Cognition and Behavior;|Department of Psychiatry, Radboud University Medical Center;|Division of Human Nutrition, Wageningen University;|Radboud University, Donders Institute for Brain, Cognition and Behavior; Department of Psychiatry
http://dx.doi.org/10.1101/167098 2017-07-21 Multiple Geographical Origins of Environmental Sex Determination enhanced the diversification of Darwins Favourite Orchids Oscar Alejandro Perez-Escobar|Guillaume Chomicki|Fabien L. Condamine|Jurriaan M. de Vos|Aline C. Martins|Eric Smidt|Bente B. Klitgaard|Gunter Gerlach|Jochen Heinrichs Royal Botanic Gardens Kew;|Ludwig-Maximilians Universitaet;|Institut des Sciences de l'Evolution;|Federal University of Parana;|Munich Botanic Garden;|Ludwig Maximilians-Universitaet
http://dx.doi.org/10.1101/166892 2017-07-21 CC BY-ND Persistent patterns of high alpha and low beta diversity in tropical parasitic and free-living protists Guillaume Lentendu|Frederic Mahe|David Bass|Sonja Rueckert|Thorsten Stoeck|Micah Dunthorn University of Kaiserslautern;|The Natural History Museum London;|Edinburgh Napier University
http://dx.doi.org/10.1101/166884 2017-07-21 Biomass increase under zinc deficiency caused by delay of early flowering in Arabidopsis Xiaochao Chen|Uwe Ludewig University of Hohenheim
http://dx.doi.org/10.1101/167155 2017-07-21 CC BY Probing tissue-scale deformation by in vivo force application reveals a fast tissue softening during early embryogenesis Arturo D'Angelo|Kai Dierkes|Carlo Carolis|Guillaume Salbreux|Jerome Solon Center for Genomic Regulation, Spain;|Max Planck Institute for the Physics of Complex Systems, Spain
http://dx.doi.org/10.1101/167072 2017-07-21 CC BY Inter-subject phase synchronization and the dynamics of human cognition Taylor S Bolt|Jason Nomi|Shruti Vij|Catie Chang|Lucina Uddin University of Miami;|National Institutes of Health
http://dx.doi.org/10.1101/167064 2017-07-21 Age-related changes in the neural networks supporting semantic cognition: A meta-analysis of 47 functional neuroimaging studies Paul Hoffman|Alexa M Morcom University of Edinburgh
http://dx.doi.org/10.1101/166736 2017-07-21 CC BY-NC-ND Varying-Censoring Aware Matrix Factorization for Single Cell RNA-Sequencing F. William Townes|Stephanie C Hicks|Martin J Aryee|Rafael A Irizarry Harvard T.H. Chan School of Public Health;|Dana-Farber Cancer Institute;|Massachusetts General Hospital
http://dx.doi.org/10.1101/166934 2017-07-21 CC BY-ND Chromatin loop anchors are associated with genome instability in cancer and recombination hotspots in the germline. Vera B Kaiser|Colin A Semple MRC Human Genetics Unit
http://dx.doi.org/10.1101/166991 2017-07-21 CC BY-ND Developmental transcriptomics of the brittle star Amphiura filiformis reveals gene regulatory network rewiring in echinoderm larval skeleton evolution David V Dylus|Liisa M Blowes|Anna Czarkwiani|Maurice R Elphick|Paola Oliveri University College Londo;|Queen Mary University of London;|University College London
http://dx.doi.org/10.1101/166959 2017-07-21 CC BY Large scale in vivo recording of sensory neuron activity with GCaMP6 Kim Imogen Chisholm|Nikita Khovanov|Douglas M Lopes|Federica La Russa|Stephen B McMahon King's College London
http://dx.doi.org/10.1101/166967 2017-07-21 CC BY Modelling glioblastoma tumour-host cell interactions using adult brain organotypic slice co-culture Maria Angeles Marques|Ester Gangoso|Steven Pollard University of Edinburgh
http://dx.doi.org/10.1101/166710 2017-07-21 CC BY-NC-ND Identification of 55,000 Replicated DNA Methylation QTL Allan McRae|Riccardo E Marioni|Sonia Shah|Jian Yang|Joseph E Powell|Sarah E Harris|Jude Gibson|Anjali K Henders|Lisa Bowdler|Jodie N Painter|Lee Murphy|Nicholas G Martin|John M Starr|Naomi R Wray|Ian J Deary|Peter M Visscher|Grant W Montgomery Queensland Institute of Medical Research;|University of Edinburgh, Edinburgh, UK;|The University of Queensland, Brisbane, QLD, Australia;|QIMR Berghofer Medical Research Institute, Brisbane, QLD, Australia
http://dx.doi.org/10.1101/166694 2017-07-21 CC BY-NC-ND RECoN: Rice Environment Coexpression Network for Systems Level Analysis of Abiotic-Stress Response Arjun Krishnan|Chirag Gupta|Madana M.R. Ambavaram|Andy Pereira Michigan State University;|University of Arkansas;|Virginia Tech
http://dx.doi.org/10.1101/166819 2017-07-21 CC BY-NC Competition for a limited supply of synaptic building blocks predicts multiplicative synaptic normalization and heterosynaptic plasticity Jochen Triesch|Anne-Sophie Hafner Frankfurt Institute for Advanced Studies;|Max-Planck Institute for Brain Research
http://dx.doi.org/10.1101/166652 2017-07-21 CC BY-NC Systematic mapping of chromatin state landscapes during mouse development David Gorkin|Iros Barozzi|Yanxiao Zhang|Ah Young Lee|Bin Lee|Yuan Zhao|Andre Wildberg|Bo Ding|Bo Zhang|Mengchi Wang|J. Seth Strattan|Jean M Davidson|Yunjiang Qiu|Veena Afzal|Jennifer A Akiyama|Ingrid Plajzer-Frick|Catherine S Pickle|Momoe Kato|Tyler H Garvin|Quan T Pham|Anne N Harrington|Brandon J Mannion|Elizabeth A Lee|Yoko Fukuda-Yuzawa|Yupeng He|Sebastian Preissl|Sora Chee|Brian A Williams|Diane Trout|Henry Amrhein|Hongbo Yang|J. Michael Cherry|Yin Shen|Joseph R Ecker|Wei Wang|Diane E Dickel|Axel Visel|Len A Pennacchio|Bing Ren Ludwig Institute for Cancer Research, 9500 Gilman Drive, La Jolla, CA 92093-0653, USA;|Functional Genomics Department, Lawrence Berkeley National Laboratory, Berkeley, CA;|University of California, San Diego School of Medicine, 9500 Gilman Drive, La Jolla, CA 92093-0653;|Dept. of Biochemistry and Molecular Biology, Penn State School of Medicine;|Stanford University School of Medicine, Department of Genetics, Stanford, California, USA;|Bioinformatics and Systems Biology Graduate Program, University of California, San Diego, La Jolla;|Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA;|Institute for Human Genetics and Department of Neurology, University of California, San Francisco;|Genomic Analysis Laboratory and Howard Hughes Medical Institute, Salk Inst. for Biological Studies
http://dx.doi.org/10.1101/166413 2017-07-21 Neuroscience CC BY-NC-ND Decision and navigation in mouse parietal cortex Michael Krumin|Kenneth D Harris|Matteo Carandini University College London
http://dx.doi.org/10.1101/124388 2017-07-21 Genomics CC BY Large scale and significant expression from pseudogenes in Sodalis glossinidius - a facultative bacterial endosymbiont Ian Goodhead|Frances Blow|Philip Brownridge|Margaret Hughes|John Kenny|Ritesh Krishna|Lynn MacLean|Pisut Pongchaikul|Rob Beynon|Alistair C Darby University of Salford;|Cornell University;|University of Liverpool;|pisut.pongchaikul@gmail.com
http://dx.doi.org/10.1101/166488 2017-07-21 Evolutionary Biology CC BY Metagenomic sequencing suggests arthropod antiviral RNA interference is highly derived, and identifies novel viral small RNAs in a mollusc and a brown alga Fergal M Waldron|Graham N Stone|Darren J Obbard Institute of Evolutionary Biology
http://dx.doi.org/10.1101/166272 2017-07-21 Neuroscience CC BY-ND Naked mole-rat acid-sensing ion channel 3 forms non-functional homomers, but functional heteromers Laura-Nadine Schuhmacher|Shyam Srivats|Gerard Callejo|Ewan St. John Smith University of Cambridge
http://dx.doi.org/10.1101/164624 2017-07-21 Bioinformatics CC BY A real-time compression library for microscopy images Balint Balazs|Joran Deschamps|Marvin Albert|Jonas Ries|Lars Hufnagel European Molecular Biology Laboratory
http://dx.doi.org/10.1101/163758 2017-07-21 Neuroscience CC BY-NC-ND Structural covariance networks are coupled to expression of genes enriched in supragranular layers of the human cortex Rafael Romero Garcia|Kirstie Whitaker|Frantisek Vasa|Jakob Seidlitz|Maxwell Shinn|Peter Fonagy|Raymond Dolan|Peter Jones|Ian Goodyer|Edward Bullmore|Petra Vertes Department of Psychiatry, University of Cambridge;|The Alan Turing Institute for Data Science;|Research Department of Clinical, Educational and Health Psychology, University College London;|Wellcome Trust Centre for Neuroimaging, UCL Institute of Neurology, University College London
http://dx.doi.org/10.1101/166793 2017-07-21 Ecology CC BY A MODULAR PHOTOSYNTHETIC MICROBIAL FUEL CELL WITH INTERCHANGEABLE ALGAE SOLAR COMPARTMENTS Daniel Fleury John Marshall
http://dx.doi.org/10.1101/166249 2017-07-21 Developmental Biology CC BY-NC-ND Differential epigenetic landscapes and transcription factors explain X-linked gene behaviours during X-chromosome reactivation in the mouse inner cell mass Maud Borensztein|Ikuhiro Okamoto|Laurene Syx|Guillaume Guilbaud|Christel Picard|Katia Ancelin|Rafael Galupa|Patricia Dianbangouaya|Nicolas Servant|Emmanuel Barillot|Azim Surani|Mitinori Saitou|Chong-Jian Chen|Konstantinos Anastassiadis|Edith Heard Wellcome Trust Cancer Research UK Gurdon Institute;|Kyoto University;|Curie Institute;|Medical Research Council Laboratory of Molecular Biology;|Institut Curie;|Gurdon Institute;|Annoroad Gene Technology Co;|Biotechnology Center, Technische Universitat Dresden
http://dx.doi.org/10.1101/167239 2017-07-22 Molecular Biology The transcriptionally permissive chromatin state of ES cells is acutely tuned to translational output Aydan Bulut-Karslioglu|Trisha A Macrae|Juan A Oses-Prieto|Sergio Covarrubias|Michelle Percharde|Gregory Ku|Aaron Diaz|Michael T McManus|Alma L Burlingame|Miguel Ramalho-santos UCSF
http://dx.doi.org/10.1101/167213 2017-07-22 Immunology CC BY-ND Maternal obesity alters uterine NK cell activity through a functional KIR2DL1/S1 imbalance Barbara Castellana|Sofie Perdu|Yoona Kim|Kathy Chan|Jawairi Atif|Megan Marziali|Alexander G Beristain British Columbia Children's Hospital Research Institute;|University of British Columbia
http://dx.doi.org/10.1101/166900 2017-07-22 Bioinformatics CC BY-NC-ND Hierarchical Analysis of Multi-mapping RNA-Seq Reads Improves the Accuracy of Allele-specific Expression Narayanan Raghupathy|Kwangbom Choi|Matthew J Vincent|Glen L Beane|Keith Sheppard|Steven C Munger|Ron Korstanje|Fernando Pardo Manuel de Villena|Gary A Churchill The Jackson Laboratory;|University of North Carolina;|The Jackson Lab
http://dx.doi.org/10.1101/156794 2017-07-22 Cell Biology CC BY-NC-ND HID-1 controls cargo sorting and dense core formation by influencing trans- Golgi network acidification in neuroendocrine cells Blake H Hummer|Noah F de Leeuw|Bethany Hosford|Christian Burns|Matthew S Joens|James AJ Fitzpatrick|Cedric S Asensio University of Denver;|Washington University Center for Cellular Imaging
http://dx.doi.org/10.1101/152629 2017-07-22 Bioinformatics CC BY-NC-ND Learning RNA secondary structure (only) from structure probing data Chuan-Sheng Foo|Cristina Pop Stanford University;|Google Inc.
http://dx.doi.org/10.1101/167189 2017-07-22 CC BY-NC-ND Cytosine methylation within marine sediment microbial communities: potential epigenetic adaptation to the environment Ian M Rambo|Adam Marsh|Jennifer F Biddle University of Delaware
http://dx.doi.org/10.1101/167338 2017-07-22 Experimental evolution of Candida albicans under hypoxia and heat shock reveals nuclear genome variants and mitochondrial methylome alterations Thais F Bartelli|Danielle C Bruno|Flavio Lichtenstein|Marcelo RS Briones Federal University of Sao Paulo, Brazil
http://dx.doi.org/10.1101/161760 2017-07-22 CC BY-NC-ND Langevin Dynamics Simulation of AKAP-PKA Complex: Re-Envisioning the Local Concentration Mechanism for Directing PKA Phosphorylation Marc Rigatti|Paul J Michalski|Kimberly L Dodge-Kafka|Ion Moraru UConn Health;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/167411 2017-07-22 ESCRT-Independent Surface Receptor And Transporter Protein Degradation By The ILF Pathway Erin Kate McNally|Christopher Brett Concordia University
http://dx.doi.org/10.1101/167437 2017-07-22 CC BY-NC-ND The mitotic spindle is chiral due to torques generated by motor proteins Maja Novak|Bruno Polak|Juraj Simunic|Zvonimir Boban|Barbara Kuzmic|Andreas Thomae|Iva M Tolic|Nenad Pavin Faculty of Science, University of Zagreb, Bijenička cesta 32, 10000 Zagreb, Croatia;|Division of Molecular Biology, Rudjer Boskovic Inst, Bijenička cesta 54, 10000 Zagreb, Croatia;|Walter Brendel Centre of Experimental Medicine and Core Facility Bioimaging at the Biomedical Center
http://dx.doi.org/10.1101/167379 2017-07-22 CC BY-NC-ND Functional Diversification of Tripeptidylpeptidase and Endopeptidase Sedolisins in Fungi Facundo Orts|Arjen ten Have IIB-CONICET-UNMdP
http://dx.doi.org/10.1101/167346 2017-07-22 CC BY-NC-ND A novel flatworm-specific gene family implicated in reproduction in Macrostomum lignano Magda Grudniewska|Stijn Mouton|Margriet Grelling|Anouk H. G. Wolters|Jeroen Kuipers|Ben N. G. Giepmans|Eugene Berezikov ERIBA, University of Groningen, University Medical Center Groningen, Groningen, The Netherlands;|Department of Cell Biology, University Medical Center Groningen, Groningen, The Netherlands;|European Research Institute for the Biology of Ageing
http://dx.doi.org/10.1101/167270 2017-07-22 CC BY-NC-ND Modest static pressure suppresses columnar epithelial cell proliferation in association with cell shape and cytoskeletal modifications Man Hagiyama|Norikazu Yabuta|Daisuke Okuzaki|Takao Inoue|Yasutoshi Takashima|Ryuichiro Kimura|Aritoshi Ri|Akihiko Ito Kindai University;|Osaka University
http://dx.doi.org/10.1101/167304 2017-07-22 CC BY-ND Correlated gene expression and anatomical communication support synchronized brain activity in the mouse functional connectome Brian D Mills|David Grayson|Anandakumar Shunmugavel|Oscar Miranda-Dominguez|Eric Feczko|Eric Earl|Kim Neve|Damien Fair Oregon Health and Science University
http://dx.doi.org/10.1101/167361 2017-07-22 CC BY-NC-ND Repositioning the Sm-binding site in S. cerevisiae telomerase RNA reveals RNP organizational flexibility and Sm-directed 3′-end formation Evan P. Hass|David C. Zappulla Johns Hopkins University
http://dx.doi.org/10.1101/167429 2017-07-23 Systems Biology CC BY-NC Diversity of translation initiation mechanisms across bacterial species is driven by environmental conditions and growth demands Adam J Hockenberry|Aaron J Stern|Luis AN Amaral|Michael C Jewett Northwestern University
http://dx.doi.org/10.1101/162040 2017-07-23 Harmonic brain modes: a unifying framework for linking space and time in brain dynamics Selen Atasoy|Gustavo Deco|Morten L Kringelbach|Joel Pearson Universitat Pompeu Fabra;|UPF;|University of Oxford, University of Aarhus;|University of New South Wales
http://dx.doi.org/10.1101/167221 2017-07-23 CC BY-ND Risk factor profile of different clinical manifestations of cerebral small vessel disease - data from SHEF-CSVD Study. Jacek Staszewski|Ewa Skrobowska|Renata Piusinska-Macoch|Bogdan Brodacki|Adam Stepien Military Institute of Medicine
http://dx.doi.org/10.1101/167528 2017-07-23 Paleo-Oscillomics: Reconstructing Language-Relevant Computational Capacities in Neanderthals from the Molecular Basis of Neural Oscillations Elliot Murphy|Antonio Benitez-Burraco University College London;|University of Seville
http://dx.doi.org/10.1101/165068 2017-07-23 Blockade of insulin-like growth factors increases efficacy of paclitaxel in metastatic breast cancer. Lucy Ireland|Almudena Santos|Fiona Campbell|Carlos Figueiredo|Lesley Ellies|Ulrike Weyer-Czernilofsky|Thomas Bogenrieder|Michael Schmid|Ainhoa Mielgo University of Liverpool;|University of California San Diego;|Boehringer Ingelheim
http://dx.doi.org/10.1101/167452 2017-07-23 CC BY-NC-ND TruePaiR: Software for the Accurate Identification of Complementary piRNA Read Pairs in High-Throughput Sequencing Data Patrick A. Schreiner|Peter W Atkinson University of California, Riverside
http://dx.doi.org/10.1101/167262 2017-07-23 CC BY Dynamic clustering of dynamin-amphiphysin rings regulates membrane constriction and fission coupled with GTP hydrolysis Tetsuya Takeda|Toshio Ando|Kohji Takei|Toshiya Kozai|Daiki Ishikuro|Yusuke Kumagai|Takayuki Uchihashi|Huiran Yang|Kaho Seyama|Tadashi Abe|Hiroshi Yamada Okayama University, Japan;|Kanazawa University, Japan;|Nagoya University, Japan
http://dx.doi.org/10.1101/167478 2017-07-23 The photocycle of orange carotenoid protein conceals distinct intermediates and asynchronous changes in the carotenoid and protein components Eugene G. Maksimov|Nikolai N. Sluchanko|Yury B. Slonimskiy|Alexey V. Stepanov|Evgeny A. Shirshin|Georgy V. Tsoraev|Konstantin E. Klementiev|Olga V. Slatinskaya|Evgeny P. Lukashev|Thomas Friedrich|Vladimir Z. Paschenko|Andrew B. Rubin Lomonosov Moscow State University, Department of Biophysics;|A.N. Bach Institute of Biochemistry, Federal Research Ctr of Biotechnology of the Russian Academy;|M.M. Shemyakin and Yu.A. Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences;|Department of Quantum Electronics, Faculty of Physics, M.V. Lomonosov Moscow State University;|Lomonosov Moscow State University, Department of Biophysics, Faculty of Biology;|Technical University of Berlin
http://dx.doi.org/10.1101/167353 2017-07-23 CC BY-NC-ND Cross-linking BioThings APIs through JSON-LD to facilitate knowledge exploration Jiwen Xin|Cyrus Afrasiabi|Sebastien Lelong|Julee Adesara|Ginger Tsueng|Andrew I Su|Chunlei Wu The Scripps Research Institute;|the Scripps Research Institute
http://dx.doi.org/10.1101/167551 2017-07-23 CC BY-NC Polygenic Adaptation has Impacted Multiple Anthropometric Traits Jeremy J Berg|Xinjun Zhang|Graham Coop Center for Population Biology and Department of Evolution and Ecology, UC Davis;|Department of Anthropology, UC Davis
http://dx.doi.org/10.1101/167460 2017-07-23 CC BY-NC Chance, long tails, and inference: a non-Gaussian, Bayesian theory of vocal learning in songbirds Baohua Zhou|David Hofmann|Itai Pinkoviezky|Samuel J. Sober|Ilya Nemenman Emory University
http://dx.doi.org/10.1101/167502 2017-07-23 CC BY-NC-ND Towards a highly efficient diversity census of the prokaryotic biosphere: a group testing approach Bar Shalem|Amnon Amir|Ely Porat|Noam Shental Bar Ilan University;|UCSD;|The Open University Of Israel
http://dx.doi.org/10.1101/167395 2017-07-23 CC BY-NC-ND The influence of landscape and environmental factors on ranavirus epidemiology in amphibian assemblages Brian J. Tornabene|Andrew R. Blaustein|Cheryl J. Briggs|Dana M. Calhoun|Pieter T.J. Johnson|Travis McDevitt-Galles|Jason R. Rohr|Jason T. Hoverman Purdue University;|Oregon State University;|University of California, Santa Barbara;|University of Colorado at Boulder;|University of South Florida
http://dx.doi.org/10.1101/167403 2017-07-23 Neuroscience CC BY-NC-ND Transmitter Co-Expression Reveals Key Organizational Principles of Local Interneuron Heterogeneity in the Olfactory System Kristyn M Lizbinski|Gary F Marsat|Andrew M Dacks West Virginia Univeristy;|West Virginia University
http://dx.doi.org/10.1101/167627 2017-07-24 Biophysics Conformational dynamics of Cas9 governing DNA cleavage revealed by single molecule FRET Mengyi Yang|Sijia Peng|Ruirui Sun|Jingdi Lin|Nan Wang|Chunlai Chen Tsinghua University
http://dx.doi.org/10.1101/167692 2017-07-24 Ecology CC BY-NC-ND Termite communities along a disturbance gradient in a West African savanna Janine Schyra|Judith Korb University of Osnabrueck;|University of Freiburg
http://dx.doi.org/10.1101/146324 2017-07-24 Genomics CC BY-NC-ND The York Gospels: a one thousand year biological palimpsest Matthew D. Teasdale|Sarah Fiddyment|Jiri Vnoucek|Valeria Mattiangeli|Camilla Speller|Annelise Binois|Martin Carver|Catherine Dand|Timothy P. Newfield|Christopher C. Webb|Daniel G. Bradley|Matthew J. Collins Trinity College Dublin;|University of York;|Université de Paris 1 Panthéon-Sorbonne;|Georgetown University
http://dx.doi.org/10.1101/165787 2017-07-24 Plant Biology CC BY-NC-ND A transcription factor binding atlas for photosynthesis in cereals identifies a key role for coding sequence in the regulation of gene expression Steven J. Burgess|Ivan Reyna-Llorens|Katja Jaeger|Julian M. Hibberd University of Cambridge;|Sainsbury Laboratory, Cambridge University
http://dx.doi.org/10.1101/160697 2017-07-24 Microbiology CC BY-NC-ND Detection and antibiotic susceptibility of pathogenic Escherichia coli isolated from the final effluent of two wastewater treatment plants in the Eastern Cape Province of South Africa Olayinka O. Osuolale|Anthony I. Okoh Elizade University;|University of Fort Hare
http://dx.doi.org/10.1101/166728 2017-07-24 Neuroscience Schizophrenia Exhibits Bi-Directional Brain-Wide Alterations in Cortico-Striato-Cerebellar Circuits Jie Lisa Ji|Caroline Diehl|Charles Schleifer|Godfrey Pearlson|Genevieve Yang|Gina Creatura|John Krystal|Grega Repovs|John D Murray|Anderson Winkler|Alan Anticevic Yale University;|University of Ljubljana;|University of Oxford
http://dx.doi.org/10.1101/167486 2017-07-24 Ecology CC BY-NC-ND Mosquito Mapper: a phone application to map urban mosquitoes Camille S.E Guilbaud|Theophile G.D.P.V Guilbaud Freie Universitat Berlin;|Independent
http://dx.doi.org/10.1101/167577 2017-07-24 Genetics CC BY-NC-ND Genome-wide association analyses identify 44 risk variants and refine the genetic architecture of major depression Naomi R. Wray|Patrick F Sullivan -;|University of Queensland;|University of North Carolina
http://dx.doi.org/10.1101/167593 2017-07-24 Microbiology CC BY-NC-ND Conditionally Redundant Bacteriocin Targeting by Pseudomonas syringae Kevin L Hockett|Meara Clark|Stacey Scott|David A Baltrus The Pennsylvania State University;|University of Arizona
http://dx.doi.org/10.1101/167932 2017-07-24 CC BY-NC-ND Profiling of accessible chromatin regions across multiple plant species and cell types reveals common gene regulatory principles and new control modules Kelsey A. Maher|Marko Bajic|Kaisa Kajala|Mauricio Reynoso|Germain Pauluzzi|Donnelly A. West|Kristina Zumstein|Margaret Woodhouse|Kerry Bubb|Mike Dorrity|Christine Queitsch|Julia Bailey-Serres|Neelima Sinha|Siobhan M. Brady|Roger B. Deal Emory University;|University of California, Davis;|University of California, Riverside;|University of Washington
http://dx.doi.org/10.1101/167957 2017-07-24 CC BY-NC-ND Activated CD8 T cells express two distinct P-Selectin Ligands Douglas A. Carlow|Michelle C. Tra|Hermann J. Ziltener The Biomedical Research Centre, Faculty of Medicine, University of British Columbia
http://dx.doi.org/10.1101/167858 2017-07-24 CC BY-NC-ND Characterizing and Managing Missing Structured Data in Electronic Health Records Brett K. Beaulieu-Jones|Daniel R. Lavage|John W. Snyder|Jason H. Moore|Sarah A. Pendergrass|Christopher R. Bauer University of Pennsylvania;|Geisinger Health System
http://dx.doi.org/10.1101/167924 2017-07-24 CC BY-NC-ND High-depth whole genome sequencing of a large population-specific reference panel: Enhancing sensitivity, accuracy, and imputation Todd Lencz|Jin Yu|Cameron Palmer|Shai Carmi|Danny Ben-Avraham|Nir Barzilai|Susan Bressman|Ariel Darvasi|Judy Cho|Lorraine Clark|Zeynep Gumus|Vijai Joseph|Robert Klein|Steven Lipkin|Kenneth Offit|Harry Ostrer|Laurie Ozelius|Inga Peter|Gil Atzmon|Itsik Pe'er Hofstra Northwell School of Medicine;|Feinstein Institute for Medical Research;|Columbia University;|The Hebrew University of Jerusalem;|Albert Einstein College of Medicine;|Beth Israel Medical Center;|Hebrew University of Jerusalem;|Icahn School of Medicine at Mount Sinai;|Columbia University Medical Center;|Memorial Sloan Kettering Cancer Center;|Weill Cornell Medical College;|Massachusetts General Hospital
http://dx.doi.org/10.1101/167825 2017-07-24 Operating regimes of covalent modification cycles at high enzyme concentrations Ronny Straube Max Planck Institute for Dynamics of Complex Technical Systems
http://dx.doi.org/10.1101/167973 2017-07-24 CC BY-NC-ND Metabolism constrains bird and mammal ranges and predicts shifts in response to climate change Lauren Buckley|Imran Khaliq|David Swanson|Christian Hof University of Washington;|Ghazi University;|University of South Dakota;|Senckenberg Biodiversity and Climate Research Centre
http://dx.doi.org/10.1101/167809 2017-07-24 CC BY-ND Insights into global planktonic diatom diversity: Comparisons between phylogenetically meaningful units that account for time Teofil Nakov|Jeremy Beaulieu|Andrew Alverson University of Arkansas
http://dx.doi.org/10.1101/167916 2017-07-24 Capturing the diversity of biological tuning curves using generative adversarial networks Takafumi Arakaki|Gregory Barello|Yashar Ahmadian University of Oregon
http://dx.doi.org/10.1101/167817 2017-07-24 Temperature selection drives evolution of function-valued traits in a marine diatom Daniel R. O'Donnell|Carolyn R. Hamman|Evan C. Johnson|Christopher A. Klausmeier|Elena Litchman W. K. Kellogg Biological Station; Department of Integrative Biology, Michigan State University;|W. K. Kellogg Biological Station;|W. K. Kellogg Biological Station; Department of Plant Biology, Michigan State University
http://dx.doi.org/10.1101/167999 2017-07-24 CC BY-NC-ND The IFN response in bat cells consists of canonical and non-canonical ISGs with unique temporal expression kinetics Pamela C. De La Cruz-Rivera|Mohammed Kanchwala|Hanquan Liang|Ashwani Kumar|Lin-Fa Wang|Chao Xing|John Schoggins UT Southwestern Medical Center;|Duke-National University of Singapore Medical School;|University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/167619 2017-07-24 CC BY Best Practice Data Life Cycle Approaches for the Life Sciences Philippa C. Griffin|Jyoti Khadake|Kate S. LeMay|Suzanna E. Lewis|Sandra Orchard|Andrew Pask|Bernard Pope|Ute Roessner|Keith Russell|Torsten Seemann|Andrew Treloar|Sonika Tyagi|Jeffrey H. Christiansen|Saravanan Dayalan|Simon Gladman|Sandra B. Hangartner|Helen L. Hayden|William W. H. Ho|Gabriel Keeble-Gagnere|Pasi K. Korhonen|Peter Neish|Priscilla R. Prestes|Mark F. Richardson|Nathan S. Watson-Haigh|Kelly L. Wyres|Neil D. Young|Maria Victoria Schneider EMBL Australia Bioinformatics Resource and Melbourne Bioinformatics;|NIHR Bioresource and Cambridge University Hospitals NHS Foundation Trust;|Australian National Data Service;|Lawrence Berkeley National Laboratory;|European Bioinformatics Institute (EMBL-EBI);|School of BioSciences, The University of Melbourne;|Melbourne Bioinformatics, The University of Melbourne;|Metabolomics Australia, The University of Melbourne;|Australian Genome Research Facility, and Monash Bioinformatics Platform, Monash University;|Queensland Cyber Infrastructure Foundation, University of Queensland;|School of Biological Sciences, Monash University;|Agriculture Victoria;|AgriBio;|Faculty of Veterinary and Agricultural Sciences, The University of Melbourne;|The University of Melbourne;|Faculty of Science and Engineering, Federation University Australia;|Bioinformatics Core Research Group and Centre for Integrative Ecology, Deakin University;|School of Agriculture, Food and Wine, University of Adelaide;|Department of Biochemistry and Molecular Biology, The University of Melbourne;|EMBL Australia Bioinformatics Resource and The University of Melbourne
http://dx.doi.org/10.1101/167387 2017-07-24 CC BY-NC-ND Estimating Muricid abundances from trapping methods used in Mediterranean Tyrian Purple industry Jennifer Coston-Guarini|Jean-Marc Guarini|Frederike Ricarda Boehm|Thomas R. H. Kerkhove|Frances Camille Rivera|Karim Erzini|Francois Charles|Tim Deprez|Laurent Chauvaud University of Western Brittany;|UPMC;|Ghent University;|NF-POGO Center of Excellence of Observational Oceanography;|University of Algarve;|CNRS;|University of Ghent
http://dx.doi.org/10.1101/166777 2017-07-24 CC BY Grid-based computational methods for the design of constraint-based parsimonious chemical reaction networks to simulate metabolite production: GridProd Takeyuki Tamura Kyoto University
http://dx.doi.org/10.1101/167445 2017-07-24 CC BY beachmat: a Bioconductor C++ API for accessing single-cell genomics data from a variety of R matrix types Aaron T. L. Lun|Herve Pages|Mike L. Smith CRUK Cambridge Institute;|Fred Hutchinson Cancer Research Center;|EMBL Heidelberg
http://dx.doi.org/10.1101/167734 2017-07-24 CC BY-NC-ND Temporal expression divergence of network modules Yongjin Park|Tae-Hyuk Kang|Theodore Friedmann|Joel Bader Johns Hopkins University;|Yale University School of Medicine;|University of California, San Diego School of Medicine
http://dx.doi.org/10.1101/167742 2017-07-24 Whole-body single-cell sequencing of the Platynereis larva reveals a subdivision into apical versus non-apical tissues Kaia Achim|Nils Eling|Hernando Martinez Vergara|Paola Yanina Bertucci|Thibaut Brunet|Paul Collier|Vladimir Benes|John C Marioni|Detlev Arendt Developmental Biology Unit, European Molecular Biology Laboratory (EMBL);|EMBL-European Bioinformatics Institute (EMBL-EBI);|Genomics Core Facility, European Molecular Biology Laboratory;|Developmental Biology Unit, European Molecular Biology Laboratory
http://dx.doi.org/10.1101/167684 2017-07-24 CC BY-NC-ND Nonparametric Bayesian inference of transcriptional branching and recombination identifies regulators of early human germ cell development Christopher Andrew Penfold|Anastasiya Sybirna|John Reid|Yun Huang|Lorenz Wernisch|Zoubin Ghahramani|Murray Grant|M. Azim Surani Wellcome/CRUK UK Gurdon Institute, University of Cambridge;|MRC Biostatistics Unit, University of Cambridge;|Department of Engineering, University of Cambridge;|School of Life Sciences, University of Warwick
http://dx.doi.org/10.1101/167874 2017-07-24 Tau Internalization is Regulated by 6-O Sulfation on Heparan Sulfate Proteoglycans (HSPGs) Jennifer Rauch|John J. Chen|Alexander W. Sorum|Gregory M. Miller|Tal Sharf|Stephanie K. See|Linda C. Hsieh-Wilson|Martin Kampmann|Kenneth S. Kosik UCSB;|UCSF;|California Institute of Technology
http://dx.doi.org/10.1101/167676 2017-07-24 Common patterns of gene regulation associated with Cesarean section and the development of islet autoimmunity — indications of immune cell activation Michael Laimighofer|Ramona Lickert|Rainer Furst|Fabian Theis|Christiane Winkler|Ezio Bonifacio|Anette-Gabriele Ziegler|Jan Krumsiek Helmholtz Zentrum Muenchen;|TU Dresden
http://dx.doi.org/10.1101/167940 2017-07-24 CC BY-NC-ND Diagnostic and Prognostic Implications of Ribosomal Protein Transcript Coordination in Human Cancers James M. Dolezal|Arie P. Dash|Edward V. Prochownik Children's Hospital of Pittsburgh of UPMC
http://dx.doi.org/10.1101/167767 2017-07-24 Patient-derived xenografts undergo murine-specific tumor evolution Uri Ben-David|Gavin Ha|Yuen-Yi Tseng|Noah F. Greenwald|Coyin Oh|Juliann Shih|James M. McFarland|Bang Wong|Jesse S. Boehm|Rameen Beroukhim|Todd R. Golub Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/167254 2017-07-24 Ecology CC BY Parasite mediated competition facilitates invasion Senay Yitbarek University of California, Berkeley
http://dx.doi.org/10.1101/167510 2017-07-24 Immunology CC BY Distinct antibody-mediated selection in a narrow-source HIV-1 outbreak among Chinese former plasma donors Sophie M. Andrews|Yonghong Zhang|Tao Dong|Sarah L. Rowland-Jones|Sunetra Gupta|Joakim Esbjornsson Nuffield Department of Medicine, University of Oxford;|Beijing You'an Hospital, Capital Medical University;|Weatherall Institute of Molecular Medicine, University of Oxford;|Department of Zoology, University of Oxford
http://dx.doi.org/10.1101/167650 2017-07-24 Microbiology Cyanophages exhibit rhythmic infection patterns under light-dark cycles Riyue Liu|Yue Chen|Rui Zhang|Yaxin Liu|Nianzhi Jiao|Qinglu Zeng The Hong Kong University of Science and Technology;|Xiamen University
http://dx.doi.org/10.1101/167718 2017-07-24 Neuroscience CC BY-ND The human auditory brainstem response to running speech reveals a subcortical mechanism for selective attention Antonio Forte|Octave Etard|Tobias Jahann D. Reichenbach Imperial College
http://dx.doi.org/10.1101/165910 2017-07-24 Bioinformatics CC BY Correcting for batch effects in case-control microbiome studies Sean Gibbons|Claire Duvallet|Eric J. Alm Massachusetts Institute of Technology
http://dx.doi.org/10.1101/167783 2017-07-24 Molecular Biology CC BY-NC-ND The Correlation between MicroRNA-199a and White Adipose Tissue in C57/BL6J Mice with High-Fat Diet Dan Liu|Xia Wang|Xinying Lin|Baihui Zhang|Shue Wang|Wei Bao Shandong University;|University of Iowa
http://dx.doi.org/10.1101/167130 2017-07-24 Scientific Communication and Education CC BY-NC The CURE for Culturing Fastidious Microbes Arundhati Bakshi|Austen T. Webber|Lorelei E. Patrick|E. William Wischusen|J. Cameron Thrash Louisiana State University
http://dx.doi.org/10.1101/168021 2017-07-25 Ecology CC BY-ND A cross-validation-based approach for delimiting reliable home range estimates Eric R Dougherty|Colin J Carlson|Jason K Blackburn|Wayne M Getz University of California Berkeley;|University of Florida Gainesville
http://dx.doi.org/10.1101/152132 2017-07-25 Bioengineering Bioengineered intestinal muscularis complexes with long-term spontaneous and periodic contractions Qianqian Wang|Ke Wang|R. Sergio Solorzano-Vargas|Po-Yu Lin|Christopher M. Walthers|Anne-Laure Thomas|Martin G. Martin|James C.Y. Dunn University of California Los Angeles;|University of North Carolina at Chapel Hill;|Stanford University
http://dx.doi.org/10.1101/167833 2017-07-25 Ecology CC BY Sonic Kayaks: Environmental monitoring and experimental music by citizens Amber Griffiths|Kirsty Kemp|Kaffe Matthews|Joanne Garrett|David Griffiths FoAM Kernow;|Institute of Zoology, Zoological Society of London;|The Bicrophonic Research Institute;|European Centre for Environment and Human Health, University of Exeter
http://dx.doi.org/10.1101/168039 2017-07-25 Bioengineering CC BY A Biomaterial Screening Approach to Reveal Microenvironmental Mechanisms of Drug Resistance Alyssa D Schwartz|Lauren E Barney|Lauren E Jansen|Thuy V Nguyen|Christopher L Hall|Aaron S Meyer|Shelly Peyton University of Massachusetts, Amherst;|Koch Institute for Integrative Cancer Research at MIT
http://dx.doi.org/10.1101/168203 2017-07-25 Dynamic semantic cognition: Characterising coherent and controlled conceptual retrieval through time using magnetoencephalography and chronometric transcranial magnetic stimulation Catarina Teige|Giovanna Mollo|Rebecca Millman|Nicola Savill|Jonathan Smallwood|Piers Cornelissen|Elizabeth Jefferies Department of Psychology and York Neuroimaging Centre, University of York;|Manchester Centre for Audiology & Deafness, School of Health Sciences, Univ. of Manchester;|Department of Psychology, Northumbria University
http://dx.doi.org/10.1101/168195 2017-07-25 CC BY-NC-ND Flexible, multi-use, PCR-based nucleic acid integrity assays based on the ubiquitin C gene Mario Van Poucke|Luc Peelman Ghent University
http://dx.doi.org/10.1101/168518 2017-07-25 Remodeling of ER-exit sites initiates a membrane supply pathway for autophagosome biogenesis Liang Ge|Min Zhang|Sam Kenny|Dawei Liu|Miharu Maeda|Kota Saito|Anandita Marthur|Ke Xu|Randy Schekman UC Berkeley;|Tokyo University
http://dx.doi.org/10.1101/168211 2017-07-25 CC BY Text mining of disease-lifestyle associations to explain comorbidities in electronic health registries Lars Juhl Jensen University of Copenhagen
http://dx.doi.org/10.1101/168161 2017-07-25 CC BY-NC-ND Probabilistic language models in cognitive neuroscience: promises and pitfalls Kristijan Armeni|Roel M. Willems|Stefan Frank Donders Inst. for Brain, Cognition & Behaviour, Radboud Univ., Nijmegen, The Netherlands;|Centre for Language Studies, Radboud University, Nijmegen, The Netherlands
http://dx.doi.org/10.1101/168369 2017-07-25 Objective, Quantitative, Data-Driven Assessment of Chemical Probes Albert A. Antolin|Joe E. Tym|Angeliki Komianou|Ian Collins|Paul Workman|Bissan Al-Lazikani The Institute of Cancer Research, London, UK
http://dx.doi.org/10.1101/168252 2017-07-25 CC BY-NC-ND A homozygous variant in mitochondrial RNase P subunit PRORP is associated with Perrault syndrome characterized by hearing loss and primary ovarian insufficiency Irit Hochberg|Leigh Ann Mary Demain|Jill E Urquhart|Albert Amberger|Andrea J Deutschmann|Sandra Demetz|Kyle Thompson|James O'Sullivan|Inna A Belyantseva|Melanie Barzik|Simon G Williams|Sanjeev S Bhaskar|Emma M Jenkinson|Nada AlSheqaih|Zeev Blumenfeld|Sergey Yalonetsky|Stephanie Oerum|Walter Rossmanith|Wyatt W Yue|Johannes Zschocke|Robert W Taylor|Thomas B Friedman|Kevin J Munro|Raymond T O'Keefe|William G Newman Rambam Health Care Campus;|University of Manchester;|Innsbruck Medical University;|Newcastle University;|National Institutes of Health;|University of Oxford;|Medical University of Vienna
http://dx.doi.org/10.1101/168153 2017-07-25 Genomic landscape of oxidative DNA damage and repair reveals regioselective protection from mutagenesis Anna R. Poetsch|Simon J. Boulton|Nicholas Luscombe The Francis Crick Institute
http://dx.doi.org/10.1101/168054 2017-07-25 CC BY-NC-ND Imaging action potential in single mammalian neurons by tracking the accompanying sub-nanometer mechanical motion Yunze Yang|Xian-Wei Liu|Hui Yu|Yan Guan|Shaopeng Wang|Nongjian Tao Center for Biosensors and Bioelectronics, Biodesign Institute, Arizona State University;|CAS Key Laboratory of Urban Pollutant Conversion, Univ. of Science & Technology of China
http://dx.doi.org/10.1101/168146 2017-07-25 CC BY-ND An updated infrageneric classification of the oaks: review of previous taxonomic schemes and synthesis of evolutionary patterns Thomas Denk|Guido W. Grimm|Paul S. Manos|Min Deng|Andrew Hipp Swedish Museum of Natural History;|Unaffiliated;|Duke University;|Shanghai Chenshan Plant Science Research Center, Chinese Academy of Sciences;|The Morton Arboretum; The Field Museum
http://dx.doi.org/10.1101/168377 2017-07-25 Computational proteogenomic identification and functional interpretation of translated fusions and micro structural variations in cancer Yen-Yi Lin|Alexander Gawronski|Faraz Hach|Sujun Li|Ibrahim Numanagic|Iman Sarrafi|Swati Mishra|Andrew William McPherson|Colin C Collins|Milan Radovich|Haixu Tang|S. Cenk Sahinalp Simon Fraser University;|Indiana University;|University of British Columbia;|Indiana University, Bloomington;|SFU
http://dx.doi.org/10.1101/168229 2017-07-25 CC BY Impaired social contacts with familiar anesthetized conspecific in CA3-restricted BDNF knockout mice Wataru Ito|Howard Huang|Vanessa Brayman|Alexei Morozov Virginia Tech Carilion Research Institute
http://dx.doi.org/10.1101/168187 2017-07-25 CC BY A large kinome in a large cell: Stentor coeruleus possesses highly expanded kinase families and novel domain architectures Sarah B. Reiff|Wallace F. Marshall UCSF
http://dx.doi.org/10.1101/168435 2017-07-25 CC BY-ND Rare genetic variants in the endocannabinoid system genes CNR1 and DAGLA are associated with neurological phenotypes in humans Douglas R. Smith|Christine M. Stanley|Theodore Foss|Richard G. Boles|Kevin McKernan Courtagen Life Sciences, Inc.
http://dx.doi.org/10.1101/168450 2017-07-25 CC BY-ND Identification of Pathways Associated with Chemosensitivity through Network Embedding Sheng Wang|Edward Huang|Junmei Cairns|Jian Peng|Liewei Wang|Saurabh Sinha University of Illinois at Urbana-Champaign;|Mayo Clinic
http://dx.doi.org/10.1101/168096 2017-07-25 CC BY-NC-ND FaStore - a space-saving solution for raw sequencing data ukasz Roguski|Idoia Ochoa|Mikel Hernaez|Sebastian Deorowicz CNAG-CRG, Spain; 2Universitat Pompeu Fabra (UPF), Barcelona, Spain;|Electrical and Computer Engineering, University of Illinois at Urbana-Champaign, IL, USA;|Carl R. Woese Institute for Genomic Biology, University of Illinois at Urbana-Champaign, IL, USA.;|Institute of Informatics, Silesian University of Technology, Gliwice, Poland
http://dx.doi.org/10.1101/167890 2017-07-25 CC BY Pollen tube growth and guidance: Occam's razor sharpened on a molecular AGP Rosetta Stone Derek T. A. Lamport|Li Tan|Michael Held|Marcia J. Kieliszewski University of Sussex;|Complex Carbohydrate Research Center, University of Georgia, Athens, Georgia 30602-4712;|Department of Chemistry and Biochemistry, Ohio University, Athens, Ohio 45701
http://dx.doi.org/10.1101/168104 2017-07-25 Secretion of redox-active metabolites as a general strategy for iron acquisition in plants Jakub Rajniak|Ricardo F Giehl|Evelyn Chang|Irene Murgia|Nicolaus von Wiren|Elizabeth S Sattely Stanford University;|Leibniz Institute of Plant Genetics and Crop Plant Research (IPK);|Universita degli Studi di Milano;|Stanford Unviversity
http://dx.doi.org/10.1101/168260 2017-07-25 CC BY-NC-ND Convergent evolution as an indicator for selection during acute HIV-1 infection Frederic Bertels|Karin J Metzner|Roland R Regoes Max Planck Institute for Evolutionary Biology;|University Hospital Zurich;|ETH Zurich
http://dx.doi.org/10.1101/168328 2017-07-25 CC BY-NC-ND Introgression patterns between house mouse subspecies and species reveal genomic windows of frequent exchange Kristian Karsten Ullrich|Miriam Linnenbrink|Diethard Tautz MPI for Evolutionary Biology;|Max-Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/168120 2017-07-25 Beyond Homology Transfer: Deep Learning for Automated Annotation of Proteins Mohammad Nauman|Hafeez Ur Rehman|Gianfranco Politano|Alfredo Benso Max Planck Institute for Software Systems;|FAST NUCES Peshawar, Pakistan;|Politecnico di Torino, Italy
http://dx.doi.org/10.1101/167882 2017-07-25 Long-term consolidation switches goal proximity coding from hippocampus to retrosplenial cortex Eva Zita Patai|Amir-Homayoun Javadi|Jason D. Ozubko|Andrew O'Callaghan|Shuman Ji|Jessica Robin|Cheryl Grady|Gordon Winocur|Shayna R. Rosenbaum|Morris Moscovitch|Hugo J. Spiers Institute of Behavioural Neuroscience, University College London, UK;|School of Psychology, University of Kent, UK;|Department of Psychology, SUNY Geneseo, USA;|Institute of Cognitive Neuroscience, University College London, UK;|Department of Psychology, University of Toronto, Canada;|Department of Psychology, York University, Toronto, Canada
http://dx.doi.org/10.1101/168245 2017-07-25 CC BY Overexpression of Channelrhodopsin 2 interferes with the GABAb receptor-mediated depression of GABA release from the somatostatin-containing interneurons of the prefrontal cortex Lei Liu|Wataru Ito|Alexei Morozov Virginia Tech Carilion Research Institut
http://dx.doi.org/10.1101/168336 2017-07-25 CC BY AKT isoforms have distinct hippocampal expression and roles in synaptic plasticity Josien Levenga|Helen Wong|Ryan A. Milstead|Bailey N. Keller|Lauren E. LaPlante|Charles A. Hoeffer University of Colorado, Boulder
http://dx.doi.org/10.1101/168294 2017-07-25 CC BY Extracellular monomeric and aggregated tau efficiently enter human neurons through overlapping but distinct pathways Thomas Wassmer|Lewis Evans|Graham Fraser|James Smith|Michael Perkinton|Andy Billinton|Frederick Livesey Talisman Therapeutics;|University of Cambridge;|AstraZeneca
http://dx.doi.org/10.1101/167981 2017-07-25 Evolutionary Biology CC BY-NC-ND Ancient genomic variation underlies recent and repeated ecological adaptation Thomas C. Nelson|William A. Cresko University of Oregon
http://dx.doi.org/10.1101/168070 2017-07-25 Cell Biology CC BY-NC-ND The cytoplasmic DNA sensor cGAS promotes mitotic cell death Christian Zierhut|Hironori Funabiki The Rockefeller University;|Rockefeller University
http://dx.doi.org/10.1101/167312 2017-07-25 Neuroscience Memory retrieval recruits both innate and learned olfactory processing centres in Drosophila Michael-John Dolan|Ghislain Belliart-Guerin|Yoshinori Aso|Alexander S Bates|Shahar Frechter|Allan Wong|Adnan Hammad|Gerald M. Rubin|Thomas Preat|Pierre-Yves Placais|Gregory S. X. E. Jefferis HHMI Janelia Research Campus;|ESPCI Paris;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/168716 2017-07-26 CC BY Architecture of TAF11/TAF13/TBP complex suggests novel regulatory state in General Transcription Factor TFIID function Kapil Gupta|Aleksandra A. Watson|Tiago Baptista|Elisabeth Scheer|Anna L. Chambers|Christine Koehler|Juan Zou|Ima Obong-Ebong|Eaazhisai Kandiah|Arturo Temblador|Adam Round|Eric Forest|Petr Man|Christoph Bieniossek|Ernest D. Laue|Edward A. Lemke|Juri Rappsilber|Carol V. Robinson|Didier Devys|Laszlo Tora|Imre Berger University of Bristol;|University of Cambridge;|Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC);|European Molecular Biology Laboratory, EMBL;|University of Edinburgh;|Physical and Theoretical Chemistry Laboratory;|CNRS, Université Grenoble Alpes, CEA;|Univ. Grenoble Alpes, IBS, F-38044, CNRS, IBS, F-38044, gCEA, IBS, F-38044;|BioCeV - Institute of Microbiology, Academy of Sciences of the Czech Republic;|EMBL;|University of Oxford;|Institut de Génétique et de Biologie Moléculaire et Cellulaire
http://dx.doi.org/10.1101/168484 2017-07-26 CC BY c-Myc Represses Transcription of the Epstein-Barr Virus Latent Membrane Protein 1 Early After Primary B Cell Infection Alexander M. Price|Joshua E. Messinger|Micah Luftig Duke University School of Medicine
http://dx.doi.org/10.1101/168765 2017-07-26 Systems Biology CC BY-NC-ND Quantifying homologous proteins and proteoforms Dmitry Malioutov|Tianchi Chen|Jacob Jaffe|Edoardo Airoldi|Steven Carr|Bogdan Budnik|Nikolai Slavov T. J. Watson IBM Research Center, 1101 Kitchawan Road, Yorktown Heights, NY 10598 USA;|Department of Bioengineering, Northeastern University, Boston, MA 02115, USA;|Proteomics Platform, Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA;|Department of Statistics, Harvard University, Cambridge, MA 02138, USA;|FAS Center for Systems Biology, Harvard University, Cambridge, MA 02138, USA;|Northeastern University
http://dx.doi.org/10.1101/168534 2017-07-26 Cell Biology CC BY Inferring cell state by quantitative motility analysis reveals a dynamic state system and broken detailed balance Jacob C. Kimmel|Amy Y. Chang|Andrew S. Brack|Wallace F. Marshall Univeristy of California San Francisco;|University of California San Francisco
http://dx.doi.org/10.1101/168468 2017-07-26 Neuroscience A GAL80 collection to nullify transgenes in Drosophila olfactory sensory neurons Jessica Eliason|Ali Afify|Christopher Potter|Ichiro Matsumura Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA;|Solomon H. Snyder Dept. of Neuroscience, Johns Hopkins University School of Medicine;|Dept. of Biochemistry, Emory University School of Medicine, Atlanta, GA
http://dx.doi.org/10.1101/169029 2017-07-26 A human-specific switch of alternatively spliced AFMID isoforms contributes to TP53 mutations and tumor recurrence in hepatocellular carcinoma Kuan-Ting Lin|Wai-Kit Ma|Juergen Scharner|Yun-Ru Liu|Adrian R. Krainer Cold Spring Harbor Laboratory, Cold Spring Harbor, NY 11724, USA;|Joint Biobank, Office of Human Research, Taipei Medical University, Taipei, Taiwan
http://dx.doi.org/10.1101/168997 2017-07-26 CC BY-NC Functional significance of spectrotemporal response functions obtained using magnetoencephalography Francisco Cervantes Constantino|Marisel Villafane-Delgado|Elizabeth Camenga|Katya Dombrowski|Benjamin Walsh|Jonathan Z. Simon University of Maryland, College Park;|University of Maryland
http://dx.doi.org/10.1101/168864 2017-07-26 CC BY-NC-ND Facilitation of motor excitability during listening to spoken sentences is not modulated by noise or semantic coherence Muriel TN Panouilleres|Rowan Boyles|Jennifer Chesters|Kate E Watkins|Riikka Mottonen University of Oxford
http://dx.doi.org/10.1101/168898 2017-07-26 Trade-off and flexibility in the dynamic regulation of the cullin-RING ubiquitin ligase repertoire Ronny Straube|Dietrich Flockerzi|Dieter A. Wolf Max Planck Institute for Dynamics of Complex Technical Systems Magdeburg;|Sanford Burnham Prebys Medical Research Institute
http://dx.doi.org/10.1101/168807 2017-07-26 PFKFB4 control of Akt signaling is essential for premigratory and migratory neural crest formation. Ana Leonor Figueiredo|Frederique Maczkowiak|Caroline Borday|Patrick Pla|Meghane Sittewelle|Caterina Pegoraro|Anne H. Monsoro-Burq Univ. Paris Sud, Institut Curie
http://dx.doi.org/10.1101/169003 2017-07-26 Polar-angle representation of saccadic eye movements in human superior colliculus Ricky R. Savjani|Elizabeth Halfen|Jung Hwan Kim|David Ress Baylor College of Medicine
http://dx.doi.org/10.1101/168773 2017-07-26 CC BY-NC-ND High throughput amplicon sequencing to assess within- and between-host genetic diversity in plant viruses Sylvain Piry|Catherine Wipf-Scheibel|Jean-Francois Martin|Maxime Galan|Karine Berthier INRA;|Supagro
http://dx.doi.org/10.1101/168757 2017-07-26 CC BY-NC-ND CINNA: Deciphering Central Informative Nodes in Network Analysis Minoo Ashtiani|Mohieddin Jafari Pasteur Institute of Iran;|Pasteur Institute of Iran
http://dx.doi.org/10.1101/168955 2017-07-26 Exosomes regulate Neurogenesis and Circuit Assembly in a Model of Rett Syndrome Pranav Sharma|Pinar Mesci|Cassiano Carromeu|Daniel McClatchy|Lucio Schiapparelli|John Yates|Alysson Muotri|Hollis T. Cline The Scripps Research Institute;|UCSD;|TSRI
http://dx.doi.org/10.1101/168849 2017-07-26 GUIDES: sgRNA design for loss-of-function screens Joshua A. Meier|Feng Zhang|Neville Sanjana Broad Institute, MIT, NYGC, and NYU;|Broad Institute and MIT;|New York Genome Center and NYU
http://dx.doi.org/10.1101/168948 2017-07-26 CC BY A compartmentalized, self-extinguishing signaling network mediates crossover control in meiosis Liangyu Zhang|Simone Koehler|Regina Rillo-Bohn|Abby F. Dernburg UC Berkeley and HHMI
http://dx.doi.org/10.1101/168922 2017-07-26 CC BY-NC-ND Low-rank Similarity Matrix Optimization Identifies Subpopulation Structure and Orders Single Cells in Pseudotime Shuxiong Wang|Adam MacLean|Qing Nie University of California, Irvine
http://dx.doi.org/10.1101/168815 2017-07-26 Cytokinin signaling alters acid-fast staining of Mycobacterium tuberculosis Marie I. Samanovic|Hao-Chi Hsu|Marcus B. Jones|Victoria Jones|Michael R. McNeil|Samuel H. Becker|Susan Zhang|Ashley T. Jordan|Miroslav Strnad|Mary Jackson|Huilin Li|K. Heran Darwin New York University School of Medicine;|Van Andel Research Institute;|Human Longevity, Inc.;|Colorado State University;|Institute of Experimental Botany ASCR and Palacky University
http://dx.doi.org/10.1101/167296 2017-07-26 CC BY-NC Evaluation of Topramezone on Zebrafish Retinoid Signaling Haixing Liu|Pengxing Xu|Yu Fan|Weizhi Zhang Hubei University of Technology
http://dx.doi.org/10.1101/168963 2017-07-26 CC BY-NC-ND Avoidance of toxic misfolding does not explain the sequence constrains of highly expressed proteins across organisms German Plata|Dennis Vitkup Columbia University
http://dx.doi.org/10.1101/164855 2017-07-26 Identifying Simultaneous Rearrangements in Cancer Genomes Layla Oesper|Simone Dantas|Benjamin J. Raphael Carleton College;|Fluminense Federal University;|Princeton University
http://dx.doi.org/10.1101/168443 2017-07-26 Molecular Biology CC BY-NC-ND P53 toxicity is a hurdle to CRISPR/CAS9 screening and engineering in human pluripotent stem cells Robert J. Ihry|Kathleen A. Worringer|Max R. Salick|Elizabeth Frias|Dan Ho|Kraig Theriault|Sravya Kommineni|Julie Chen|Marie Sondey|Chaoyang Ye|Ranjit Randhawa|Tripti Kulkarni|Zinger Yang|Gregory McAllister|Carsten Russ|John Reece-Hoyes|William Forrester|Gregory R. Hoffman|Ricardo Dolmetsch|Ajamete Kaykas Novartis Institutes for Biomedical Research
http://dx.doi.org/10.1101/168559 2017-07-26 Bioengineering CC BY-ND Synthetic single domain antibodies for the conformational trapping of membrane proteins Iwan Zimmermann|Pascal Egloff|Cedric Hutter|Peter Stohler|Nicolas Bocquet|Melanie Hug|Martin Siegrist|Lisa Svacha|Jeniffer Gera|Samira Gmuer|Peter Spies|Daniel Gygax|Eric R. Geertsma|Roger J. P. Dawson|Markus A. Seeger University of Zurich;|Roche Innovation Center Basel;|University of Applied Sciences and Arts Northwestern Switzerland;|Goethe University Frankfurt
http://dx.doi.org/10.1101/168690 2017-07-26 Genetics CC BY-NC-ND Causal Associations Between Body Mass Index and Mental Health: A Mendelian Randomization Study Nina van den Broek|Jorien Treur|Junilla Larsen|Maaike Verhagen|Karin Verweij|Jacqueline Vink Behavioral Science Institute, Radboud University
http://dx.doi.org/10.1101/168658 2017-07-26 Genetics Relationships between clans and genetic kin explain cultural similarities over vast distances: the case of Yakutia Vincent Zvenigorosky|Sylvie Duchesne|Patrice Gerard|Anatoly Alexeev|Nikolai Kirianov|Dariya Nikolaeva|Vassili Popov|Christiane Petit|Jean Guilaine|Sergei Kodolesnikov|Michel Petit|Liubomira Romanova|Alexandre Riberon|Annie Geraut|Catherine Cannet|Jean-Luc Fausser|Veronica Pereda|Olga Meniltchuk|Xavier Mata|Catherine Theves|Rozalia Bravina|Ludovic Orlando|Christine Keyser|Bertrand Ludes|Eric Crubezy Laboratoire AMIS, CNRS UMR 5288, Universite de Toulouse, Toulouse, France;|Universite Paul Sabatier/CNRS;|Institut des sciences humaines et des problemes des peuples minoritaires du Nord, Branche Siberienne;|Yakutsk Institute of Foreign Philology and Regional Studies;|MAFSO;|College de France, Paris, France;|Universite Paul Sabatier;|Strasbourg Institute of Legal Medicine;|Natural History Museum of Denmark, University of Copenhagen;|Institut Medico-Legal, Universite Paris Descartes, Paris, France
http://dx.doi.org/10.1101/168740 2017-07-26 Systems Biology Information topology of gene expression profile in dopaminergic neurons Monica Tapia Pacheco|Pierre Baudot|Martial A. Dufour|Christine Formisano-Treziny|Simone Temporal|Manon Lasserre|Jean Gabert|Kazuto Kobayashi|Jean-Marc Goaillard Inserm UMR 1072;|Fukushima Medical University
http://dx.doi.org/10.1101/168641 2017-07-26 Genetics CC BY-NC-ND Noise control is a primary function of microRNAs and post-transcriptional regulation Jorn Schmiedel|Debora S. Marks|Ben Lehner|Nils Bluthgen EMBL-CRG Systems Biology Unit;|Harvard Medical School;|Charite Universitatsmedizin Berlin
http://dx.doi.org/10.1101/168708 2017-07-26 Pharmacology and Toxicology CC BY Antidepressant-like effect of losartan involves TRKB transactivation from angiotensin receptor type 2 (AGTR2) and recruitment of FYN Cassiano Ricardo Alves Faria Diniz|Plinio Casarotto|Senem Merve Fred|Caroline Biojone|Eero Castren|Samia R. L. Joca University of Sao Paulo;|University of Helsinki
http://dx.doi.org/10.1101/168823 2017-07-26 Cancer Biology CC BY-NC-ND Mathematical modeling of tumor-tumor distant interactions supports a systemic control of tumor growth Sebastien Benzekry|Clare Lamont|Dominique Barbolosi|Lynn Hlatky|Philip Hahnfeldt Inria;|Center of Cancer and Systems Biology, Tufts University;|SMARTc, Inserm S_911, Aix-Marseille Universite
http://dx.doi.org/10.1101/165324 2017-07-26 Biochemistry CC BY-NC Dynamical origins of heat capacity changes in enzyme catalysed reactions Marc W. van der Kamp|Erica J. Prentice|Kirsty L. Kraakman|Michael Connolly|Adrian J. Mulholland|Vickery L. Arcus University of Bristol;|University of Waikato
http://dx.doi.org/10.1101/168724 2017-07-27 Genomics CC BY-NC CIDER-Seq: unbiased virus enrichment and single-read, full length genome sequencing Devang Mehta|Matthias Hirsch-Hoffmann|Andrea Patrignani|Wilhelm Gruissem|Herve Vanderschuren ETH Zurich;|Functional Genomics Center Zurich;|University of Liege
http://dx.doi.org/10.1101/169151 2017-07-27 Neuroscience Functional corticostriatal connection topographies predict goal directed behaviour in humans Andre F. Marquand|Koen V. Haak|Christian F. Beckmann Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/169177 2017-07-27 Bioinformatics CC BY-ND SPECTRE: a Suite of PhylogEnetiC Tools for Reticulate Evolution Sarah Bastkowski|Daniel Mapleson|Andreas Spillner|Taoyang Wu|Monika Balvociute|Vincent Moulton Earlham Institute;|None;|University of East Anglia;|University of Tubingen
http://dx.doi.org/10.1101/169144 2017-07-27 Animal Behavior and Cognition CC BY-NC-ND Double-digest RAD sequencing outperforms microsatellite loci at assigning paternity and estimating relatedness: a proof of concept in a highly promiscuous bird Derrick J. Thrasher|Bronwyn G. Butcher|Leonardo Campagna|Michael S. Webster|Irby J. Lovette Cornell Lab of Ornithology
http://dx.doi.org/10.1101/169011 2017-07-27 Microbiology Determining the Specificity of Cascade Binding, Interference, and Priming in vivo Lauren Cooper|Anne Stringer|Joseph Wade Department of Biomedical Sciences, School of Public Health, University at Albany;|Wadsworth Center, New York State Department of Health;|Wadsworth Center
http://dx.doi.org/10.1101/169128 2017-07-27 Molecular Biology INO80 Chromatin Remodelling Coordinates Metabolic Homeostasis with Cell Division Graeme J. Gowans|Alicia N. Schep|Ka Man Wong|Devin A. King|William Greenleaf|Ashby J. Morrison Stanford University
http://dx.doi.org/10.1101/169078 2017-07-27 Genetics CC BY-ND Multiplexed nanopore sequencing of HLA-B locus in Māori and Polynesian samples Kim N. T. Ton|Simone L. Cree|Sabine J. Gronert-Sum|Tony R. Merriman|Lisa K. Stamp|Martin A. Kennedy University of Otago;|JSI medical systems GmbH
http://dx.doi.org/10.1101/169219 2017-07-27 Neuroscience CC BY Comparison of decision-related signals in sensory and motor preparatory responses of neurons in Area LIP S. Shushruth|Mark E. Mazurek|Michael N. Shadlen Columbia University;|Metropolitan State University of Denver
http://dx.doi.org/10.1101/169102 2017-07-27 Neuroscience CC BY-NC-ND Catecholaminergic Manipulation Alters Dynamic Network Topology Across Behavioral States James Shine|Ruud van den Brink|Dennis Hernaus|Sander Nieuwenhuis|Russell Poldrack The University of Sydney;|Leiden University;|University of Maryland;|Stanford University
http://dx.doi.org/10.1101/169185 2017-07-27 Biochemistry VPS18 recruits VPS41 to the human HOPS complex via a RING-RING interaction Morag R. Hunter|Edward J. Scourfield|Edward Emmott|Stephen C. Graham University of Cambridge
http://dx.doi.org/10.1101/168930 2017-07-27 Biochemistry Native or promiscuous? Analyzing putative dimethylsulfoniopropionate lyases using a substrate proofing approach Lei Lei|Kesava Phaneendra Cherukuri|Diana Meltzer|Uria Alcolombri|Dan Tawfik Weizmann Institute of Science
http://dx.doi.org/10.1101/167635 2017-07-27 Systems Biology CC BY-NC-ND Assessment of clonal kinetics reveals multiple trajectories of dendritic cell development Dawn Lin|Andrey Kan|Jerry Gao|Edmund Crampin|Philip D. Hodgkin|Shalin H. Naik WEHI;|University of Melbourne
http://dx.doi.org/10.1101/168526 2017-07-27 Evolutionary Biology CC BY-NC-ND Quartet-based computations of internode certainty provide accurate and robust measures of phylogenetic incongruence Xiaofan Zhou|Sarah Lutteropp|Lucas Czech|Alexandros Stamatakis|Moritz von Looz|Antonis Rokas South China Agriculture University;|The Exelixis Lab, Scientific Computing Group, Heidelberg Institute for Theoretical Studies;|HITS gGmbH;|Dept. of Informatics, Institute of Theoretical Informatics, Karlsruhe Institute of Technology;|Vanderbilt University
http://dx.doi.org/10.1101/168401 2017-07-27 Neuroscience CC BY Reinforced Random Walker meets Spike Timing Dependent Plasticity Mohammad Reza Soltanipour|Hamed Seyed-allaei Physics Department, Sharif University of Technology, Tehran, Iran;|Independent Researcher, Tehran, Iran
http://dx.doi.org/10.1101/168500 2017-07-27 Microbiology Experimental evolution and genome data analysis of Candida albicans reveals cryptic bacteria in single yeast colonies Danielle C. F. Bruno|Thais F. Bartelli|Camila R. Rodrigues|Marcelo R. S. Briones Federal University of Sao Paulo, Brazil
http://dx.doi.org/10.1101/168302 2017-07-27 Neuroscience Mapping Movement, Mood, Motivation, and Mentation in the Subthalamic Nucleus Amritha Gourisankar|Sarah A. Eisenstein|Nicholas T. Trapp|Jonathan M. Koller|Meghan C. Campbell|Mwiza Ushe|Joel S. Perlmutter|Tamara Hershey|Kevin J. Black Washington University in St. Louis;|Washington University School of Medicine
http://dx.doi.org/10.1101/168633 2017-07-27 Bioinformatics CC BY DiGeST: Distributed Computing for Scalable Gene and Variant Ranking with Hadoop/Spark Yann-Ael Le Borgne|Raphael Helaers|Tom Lenaerts|Marc Abramowicz|Guillaume Smits|Gianluca Bontempi Université Libre de Bruxelles;|Université Catholique de Louvain
http://dx.doi.org/10.1101/168492 2017-07-27 Neuroscience CC BY Acute stress induces long-lasting alterations in the dopaminergic system of female mice Romy Wichmann|Caitlin M. Vander Weele|Ariella S. Yosafat|Evelien H. S. Schut|Jeroen P. H. Verharen|Suganya Sridharma|Cody A. Siciliano|Ehsan M. Izadmehr|Kathryn M. Farris|Craig P. Wildes|Eyal Y. Kimchi|Kay M. Tye Massachusetts Institute of Technology;|Picower Institute for Learning and Memory;|Radboud University Medical Center Nijmegen;|Brain Center Rudolf Magnus
http://dx.doi.org/10.1101/168682 2017-07-27 Evolutionary Biology CC BY-ND Effects of population- and seed bank noise on neutral evolution and efficacy of natural selection Lukas Heinrich|Johannes Mueller|Aurelien Tellier|Daniel Zivkovic Technische Universitaet Muenchen
http://dx.doi.org/10.1101/168732 2017-07-27 Genetics CC BY-NC-ND Genome-wide association study of depression phenotypes in UK Biobank (n = 322,580) identifies the enrichment of variants in excitatory synaptic pathways David M. Howard|Mark J. Adams|Masoud Shirali|Toni-Kim Clarke|Riccardo E. Marioni|Gail Davies|Jonathan R. I. Coleman|Clara Alloza|Xueyi Shen|Miruna C. Barbu|Eleanor M. Wigmore|Saskia Hagenaars|Cathryn M. Lewis|Daniel J. Smith|Patrick F. Sullivan|Chris S. Haley|Gerome Breen|Ian J. Deary|Andrew M. McIntosh University of Edinburgh;|King's College London;|University of Glasgow;|University of North Carolina
http://dx.doi.org/10.1101/168310 2017-07-27 Evolutionary Biology CC BY Maternal Effects and Parent-Offspring Conflict Bram Kuijper|Rufus A. Johnstone University of Exeter;|University of Cambridge
http://dx.doi.org/10.1101/168237 2017-07-27 Neuroscience CC BY Is coding a relevant metaphor for the brain? Romain Brette UPMC
http://dx.doi.org/10.1101/168625 2017-07-26 Synthetic Biology An in vivo binding assay for RNA-binding proteins based on repression of a reporter gene Noa Katz|Beate Kaufmann|Roni Cohen|Oz Solomon|Orna Atar|Zohar Yakhini|Sarah Goldberg|Roee Amit Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/168385 2017-07-26 Neuroscience CC BY-NC-ND Modeling mesoscopic cortical dynamics using a mean-field model of conductance-based networks of adaptive exponential integrate-and-fire neurons Yann Zerlaut|Sandrine Chemla|Frederic Chavane|Alain Destexhe UNIC, CNRS, Gif sur Yvette;|INT, CNRS, Marseille
http://dx.doi.org/10.1101/168674 2017-07-26 Genetics CC BY-NC-ND Causal associations between risk factors and common diseases inferred from GWAS summary data Zhihong Zhu|Zhili Zheng|Futao Zhang|Yang Wu|Maciej Trzaskowski|Robert Maier|Matthew Robinson|John McGrath|Peter Visscher|Naomi Wray|Jian Yang The University of Queensland
http://dx.doi.org/10.1101/168617 2017-07-26 Plant Biology CC BY-NC-ND Vacuolar invertase activity shapes photosynthetic stress response of Arabidopsis thaliana and stabilizes central energy supply Jakob Weiszmann|Lisa Fuertauer|Wolfram Weckwerth|Thomas Naegele University of Vienna
http://dx.doi.org/10.1101/166595 2017-07-27 Expanding the Atlas of Functional Missense Variation for Human Genes Jochen Weile|Song Sun|Atina G. Cote|Jennifer Knapp|Marta Verby|Joseph C. Mellor|Yingzhou Wu|Carles Pons|Cassandra Wong|Natascha van Lieshout|Fan Yang|Murat Tasan|Guihong Tan|Shan Yang|Douglas M. Fowler|Robert Nussbaum|Jesse D. Bloom|Marc Vidal|David E. Hill|Patrick Aloy|Frederick P. Roth University of Toronto;|SeqWell Inc.;|Barcelona Institute for Science and Technology;|Invitae Corp;|University of Washington;|Fred Hutchinson Research Center, Seattle;|Harvard Medical School
http://dx.doi.org/10.1101/169375 2017-07-27 CC BY-NC-ND Alpha-synuclein fibrils induce autophagy in microglial cells as a consequence of lysosomal damage. Claudio Bussi|Javier M. Peralta Ramos|Daniela S. Arroyo|Jose I. Gallea|Paolo Ronchi|Androniki Kolovou|Ji M. Wang|Oliver Florey|Maria S. Celej|Yannick Schwab|Nicholas T. Ktistakis|Pablo Iribarren CIBICI-CONICET;|CIQUIBIC-CONICET;|EMCF-EMBL;|NCI-USA;|Babraham Institute;|EMBL
http://dx.doi.org/10.1101/169326 2017-07-27 Trajectory-Based Parameterization of a Coarse-Grained Forcefield for High-Throughput Protein Simulation John M. Jumper|Karl F. Freed|Tobin R. Sosnick University of Chicago
http://dx.doi.org/10.1101/169342 2017-07-27 Enrichment of the HIV reservoir in CD32+ CD4 T cells occurs early in blood and tissue Genevieve Martin|Matthew Pace|John Thornhill|Chansavath Phetsouphanh|Jodi Meyerowitz|Morgane Gossez|Emily Hopkins|Helen Brown|Nicola Robinson|Natalia Olejniczak|Gita Ramjee|Pontiano Kaleebu|Kholoud Porter|Christian Willberg|Paul Klenerman|Nneka Nwokolo|Julie Fox|Sarah Fidler|John Frater University of Oxford;|MRC South Africa;|MRC Uganda;|University College London;|Chelsea and Westminster Hospital;|Guy's and St. Thomas' NHS Trust;|Imperial College
http://dx.doi.org/10.1101/169466 2017-07-27 The ABC transporter Snu drives formation of the lipid-based inward and outward barrier in the skin of Drosophila Renata Zuber|Michaela Norum|Yiwen Wang|Kathrin Oehl|Davide Accardi|Slawomir Bartoszewski|Nicole Gehring|Jurgen Berger|Matthias Flotenmeyer|Bernard Moussian TU Dresden;|University of Tubingen;|MPI of Molecular Cell Biology and Genetics;|University of Rzeszow;|MPI for Developmental Biology
http://dx.doi.org/10.1101/168831 2017-07-27 Using epidemiological principles to explain fungicide resistance management strategies: why do mixtures outperform alternations? James A. D. Elderfield|Francisco J. Lopez-Ruiz|Frank van den Bosch|Nik J. Cunniffe University of Cambridge;|Curtin University;|Rothamsted Research
http://dx.doi.org/10.1101/168047 2017-07-27 CC BY-NC-ND Determining whether a class of random graphs is consistent with an observed contact network Madhurima Nath|Yihui Ren|Yasamin Khorramzadeh|Stephen Eubank Virginia Polytechnic Institute and State University;|Northeastern University;|eubank@vt.edu
http://dx.doi.org/10.1101/167791 2017-07-27 CC BY Maternal alcohol consumption during pregnancy and offspring epigenome-wide DNA methylation: findings from six general population-based birth cohorts Gemma C. Sharp|Ryan Arathimos|Luisa Zuccolo University of Bristol;|-
http://dx.doi.org/10.1101/168476 2017-07-27 CC BY Conjunction of Factors Triggering Waves of Seasonal Influenza Ishanu Chattopadhyay|Emre Kiciman|Joshua Elliott|Jeffrey Shaman|Andrey Rzhetsky University of Chicago;|Microsoft Research;|Columbia University
http://dx.doi.org/10.1101/168989 2017-07-27 Neuroscience CC BY A clinical-anatomical signature of Parkinson's Disease identified with partial least squares and magnetic resonance imaging Yashar Zeighami|Seyed-Mohammad Fereshtehnejad|Mahsa Dadar|D. Louis Collins|Ronald B. Postuma|Bratislav Misic|Alain Dagher Montreal Neurological Institute;|Dept. of Neurology and Neurosurgery, McGill University
http://dx.doi.org/10.1101/169193 2017-07-27 Bioinformatics CC BY-ND Designing an intuitive web application for drug discovery scientists Nikiforos Karamanis|Denise Carvalho-Silva|Jennifer A. Cham|Luca Fumis|Samiul Hasan|David Hulcoop|Gautier Koscielny|Michael Maguire|William Newell|ChuangKee Ong|Eliseo Papa|Andrea Pierleoni|Miguel Pignatelli|Sangya Pundir|Francis Rowland|Jessica Vamathevan|Xavier Watkins|Jeffrey C. Barrett|Ian Dunham European Bioinformatics Institute, Open Targets;|European Bioinformatics Institute;|GlaxoSmithKline;|GlaxoSmithKline, Open Targets;|Tusk Therapeutics Ltd;|Biogen;|Sigma Consulting Solutions;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/169268 2017-07-27 Animal Behavior and Cognition CC BY-NC-ND Insects and incest: field evidence for dangerous liaisons in a parasitoid wasp Marie Collet|Isabelle Amat|Sandrine Sauzet|Alexandra Auguste|Xavier Fauvergue|Laurence Mouton|Emmanuel Desouhant Laboratoire de Biometrie et Biologie Evolutive;|INRA Sophia Antipolis
http://dx.doi.org/10.1101/165746 2017-07-27 Genomics CC BY Development of a targeted sequencing approach to identify prognostic, predictive and diagnostic markers in paediatric solid tumours Elisa Izquierdo|Lina Yuan|Sally George|Michael Hubank|Chris Jones|Paula Proszek|Janet Shipley|Susanne A. Gatz|Caedyn Stinson|Andrew S. Moore|Steven C. Clifford|Debbie Hicks|Janet Lindsey|Rebecca Hill|Thomas S. Jacques|Jane Chalker|Khin Thaway|Simon O'Connor|Lynley Marshall|Lucas Moreno|Andrew D. J. Pearson|Louis Chesler|Brian A. Walker|David Gonzalez De Castro The Institute of Cancer Research and the Royal Marsden NHS Foundation;|The Institute of Cancer Research;|Children's Health Queensland Hospital and Health Service;|Northern Institute for Cancer Research, Newcastle University;|Great Ormond Street Hospital for Children NHS Foundation & UCL GOS Inst. of Child Health;|UCL GOS Institute of Child Health;|Royal Marsden NHS Foundation Trust;|Hospital Universitario Nino Jesus & CNIO;|University of Arkansas for Medical Sciences;|Queen's University Belfast
http://dx.doi.org/10.1101/169276 2017-07-27 Immunology The Generalized Quantitative Model of antibody homeostasis: maintenance of global antibody equilibrium by effector functions Jozsef Prechl Diagnosticum
http://dx.doi.org/10.1101/169201 2017-07-28 CC BY-NC-ND Emphasizing the 'positive' in positive reinforcement: Using non-binary rewarding for training monkeys on cognitive tasks. Benjamin Fischer|Detlef Wegener Brain Research Institute, Center for Cognitive Science, University of Bremen
http://dx.doi.org/10.1101/169680 2017-07-28 Glioma CpG Island Methylator Phenotype (G-CIMP): Biological and Clinical Implications Tathiane M. Malta|Camila F. Souza|Thais S. Sabedot|Tiago C. Silva|Maritza Q. S. Mosella|Steven N. Kalkanis|James Snyder|Ana Valeria B. Castro|Houtan Noushmehr Department of Neurosurgery, Henry Ford Hospital, Detroit, MI, USA;|Henry Ford Health System
http://dx.doi.org/10.1101/169672 2017-07-28 CC BY-NC PhaMers identifies novel bacteriophage sequences from thermophilic hot springs Jonathan Deaton|Feiqiao Yu|Stephen Quake Stanford University
http://dx.doi.org/10.1101/169789 2017-07-28 Very low depth whole genome sequencing in complex trait association studies Arthur Gilly|Karoline Kuchenbaecker|Lorraine Southam|Daniel Suveges|Rachel Moore|Giorgio Melloni|Konstantinos Hatzikotoulas|Aliki-Eleni Farmaki|Graham Ritchie|Jeremy Schwartzentruber|Petr Danecek|Britt Kilian|Martin Pollard|Xiangyu Ge|Heather Elding|William Astle|Tao Jiang|Adam Butterworth|Nicole Soranzo|Emmanouil Tsafantakis|Maria Karaleftheri|George Dedoussis|Eleftheria Zeggini Wellcome Trust Sanger Institute;|Dept. of Nutrition & Dietetics, School of Health Science and Education, Harokopio University;|Department of Public Health and Primary Care, University of Cambridge;|Strangeways Research Laboratory, University of Cambridge;|Anogia Medical Centre, Anogia, Greece;|Echinos Medical Centre, Echinos, Greece
http://dx.doi.org/10.1101/169615 2017-07-28 Cancer Biology CC BY Recasting the cancer stem cell hypothesis: unification using a continuum model of microenvironmental forces Jacob G. Scott|Andrew Dhawan|Anita Hjelmeland|Justin Lathia|Masahiro Hitomi|Alexander G. Fletcher|Philip K. Maini|Alexander R. A. Anderson Cleveland Clinic;|Department of Oncology, University of Oxford;|University of Alabama, Bimingham;|University of Sheffield;|University of Oxford;|Moffitt Cancer Center
http://dx.doi.org/10.1101/169706 2017-07-28 Plant Biology CC BY-NC-ND Parallel loss of symbiosis genes in relatives of nitrogen-fixing non-legume Parasponia Robin Van Velzen|Rens Holmer|Fengjiao Bu|Luuk Rutten|Arjan Van Zeijl|Wei Liu|Luca Santuari|Qingqin Cao|Trupti Sharma|Defeng Shen|Yuda Roswanjaya|Titis Wardhani|Maryam Seifi Kalhor|Joelle Jansen|Johan Van den Hoogen|Berivan Gungor|Marijke Hartog|Jan Hontelez|Jan Verver|Wei-Cai Yang|Elio Schijlen|Rimi Repin|Menno Schilthuizen|Eric Schranz|Renze Heidstra|Kana Miyata|Elena Fedorova|Wouter Kohlen|Ton Bisseling|Sandra Smit|Rene Geurts Wageningen University;|Chinese Academy of Sciences;|Beijing University of Agriculture;|Wageningen UR;|Sabah Parks;|Naturalis
http://dx.doi.org/10.1101/169664 2017-07-28 Cancer Biology CC BY-NC Insulin Does Not Augment In Vitro Tumor Growth Under A Hyperglycemia-Mimicking Milieu And In A Calorie Restriction-Resembling Manner Tao Liao|Xiao-Hui Li|Yan-Ping Chen|Li-Li Tan|Ji-Da Zhang|Xin-An Huang|Qin Xu|Shui-Qing Huang|Chang-Qing Li|Qing-Ping Zeng Guangzhou University of Chinese Medicine;|Zhejiang Chinese Medical University
http://dx.doi.org/10.1101/168906 2017-07-28 Genetics 116 independent genetic variants influence the neuroticism personality trait in over 329,000 UK Biobank individuals. Michelle Luciano|Saskia P. Hagenaars|Gail Davies|William David Hill|Toni-Kim Clarke|Masoud Shirali|Riccardo Marioni|Sarah E. Harris|David C. Liewald|Chloe Fawns-Ritchie|Mark J. Adams|David M. Howard|Cathryn M. Lewis|Catharine R. Gale|Andrew M. McIntosh|Ian J. Deary University of Edinburgh;|King's College London
http://dx.doi.org/10.1101/169383 2017-07-28 Neuroscience Paradoxical Associations Between Higher Familial Warmth, Lower Stress, And Increased Amygdala Reactivity To Interpersonal Threat Madeline J. Farber|Adrienne L. Romer|Justin M. Kim|Annchen R. Knodt|Nourhan Elsayed|Douglas E. Williamson|Ahmad R. Hariri Duke University
http://dx.doi.org/10.1101/169391 2017-07-28 Synthetic Biology CC BY-NC-ND Computational design of Small Transcription Activating RNAs (STARs) for versatile and dynamic gene regulation James Chappell|Alexandra Westbrook|Matthew Verosloff|Julius Lucks Northwestern University;|Cornell University
http://dx.doi.org/10.1101/169623 2017-07-28 Genetics CC BY Genetics of vaccination-related narcolepsy Hanna M. Ollila|Annika Wennerstrom|Markku Partinen|Emmanuel Mignot|Janna Saarela|Turkka Kirjavainen|Christer Hublin|Logan D. Schneider|Sari-Leena Himanen|Outi Saarenpaa-Heikkila|Paivi Saavalainen|Pentti J. Tienari|Outi Vaarala|Markus Perola Stanford Univ. Ctr. for Sleep Sciences & Medicine, Dept. of Psychiatry & Behavioral Sciences;|National Institute for Health and Welfare, Helsinki, Finland;|Helsinki Sleep Clinic, Vitalmed Research Center, Helsinki, Finland;|Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland;|Department of Pediatrics, Childrens Hospital, Helsinki, Finland;|Finnish Institute of Occupational Health, Helsinki, Finland;|Department of Clinical Neurophysiology, Tampere University Hospital, Tampere, Finland;|Department of Pediatrics, Tampere University Hospital, Tampere, Finland;|Research Programs Unit, Immunobiology and Dept. of Med. & Clin. Genet., Univ. of Helsinki;|Research Programs Unit, Molecular Neurology, Biomedicum, University of Helsinki;|Research Programs Unit, Diabetes and Obesity, University of Helsinki, Helsinki, Finland;|National Institute for Health and Welfare, Helsinki, Finland, and University of Tartu, Estonia
http://dx.doi.org/10.1101/169359 2017-07-28 Microbiology CC BY-NC-ND Translational regulation by bacterial small RNAs via an unusual Hfq-dependent mechanism Muhammad S. Azam|Carin K. Vanderpool University of Illinois
http://dx.doi.org/10.1101/169227 2017-07-28 Biophysics CC BY-NC Creating a highly directional anti-tumor immunity Vyacheslav Alexandrovich Buts|Klavdiya Petrovna Skibenko National Science Center
http://dx.doi.org/10.1101/169532 2017-07-28 Biophysics Evaluating the accuracy of the umbrella sampling plots with different dissociation paths, conformational changes, and structure preparation Wanli You|Zhiye Tang|Chia-en Chang University of California, Riverside
http://dx.doi.org/10.1101/169565 2017-07-28 Biophysics A QM/MM Study of Biomimetic Catalysis of Diels-Adler reactions Using Cyclodextrins Wei Chen|Lipeng Sun|Zhiye Tang|Chia-en Chang University of California, Riverside;|Illinois Rocstar LLC
http://dx.doi.org/10.1101/169607 2017-07-28 Biophysics Energy Barriers, Molecular Motions, and Residence Time in Ligand Dissociation: A Computational Study on Type II Inhibitors Binding to CDK8/CycC Zhiye Tang|Chia-en Chang University of California, Riverside
http://dx.doi.org/10.1101/169797 2017-07-28 Systems Biology A Framework to Simulate Cortical microtubule Dynamics in Arbitrary Shaped Plant Cells Bandan Chakrabortty|Ben Scheres|Bela Mulder Wageningen University & Research;|Institute AMOLF
http://dx.doi.org/10.1101/169417 2017-07-28 Plant Biology CC BY Endogenous synthesis of pyrethrins by cannabis Adrian Devitt-Lee|Douglas Smith|David Chen|Kevin McKernan|Simon Groves|Ciaran McCarthy CannaCraft;|Medicinal Genomics;|Sonoma Labworks
http://dx.doi.org/10.1101/169045 2017-07-28 Plant Biology Conventional and hyperspectral time-series imaging of maize lines widely used in field trials Zhikai Liang|Piyush Pandey|Vincent Stoerger|Yuhang Xu|Yumou Qiu|Yufeng Ge|James C. Schnable University of Nebraska-Lincoln
http://dx.doi.org/10.1101/169540 2017-07-28 Ecology Restoration of Eastern oyster populations with positive density dependence Jacob Moore|Sebastian J. Schreiber University of California, Davis
http://dx.doi.org/10.1101/169581 2017-07-28 Biophysics A molecular dynamics investigation of CDK8/CycC and ligand binding: conformational flexibility and implication in drug discovery Wei Chen|Zhiye Tang|Tim Cholko|Chia-en Chang University of California, Riverside
http://dx.doi.org/10.1101/169631 2017-07-28 Molecular Biology CC BY Identification of disease resistance genes from a Chinese wild grapevine (Vitis davidii) by analysing grape transcriptomes and transgenic Arabidopsis Ying Zhang|Jia-Long Yao|Hu Feng|Jianfu Jiang|Xiucai Fan|Haisheng Sun|Yun-Fei Jia|Yanyan Zhu|Ran Wang|Chonghuai Liu Zhengzhou Fruit Research Institute, CAAS, China;|The New Zealand Institute for Plant & Food Research Limited, Auckland, New Zealand
http://dx.doi.org/10.1101/169771 2017-07-28 Bioinformatics CC BY-NC HPCDb: an integrated database of pancreatic cancer Yonggang Tan|Yongqiang Tan|Lin Lu|Heying Zhang|Cheng Sun|Yusi Liang|Juan Zeng|Xianghong Yang|Dan Li|Huawei Zou Shengjing Hospital, China Medical University;|Department of Radiology, Columbia University Medical Center
http://dx.doi.org/10.1101/169409 2017-07-28 Evolutionary Biology CC BY-NC-ND Evolving Bacterial Fitness with an Expanded Genetic Code Drew Tack|Austin Cole|Raghav Shroff|Barrett R. Morrow|Andrew Ellington National Institute for Standards and Technology;|University of Texas at Austin
http://dx.doi.org/10.1101/169441 2017-07-28 Synthetic Biology Rapid and scalable characterization of CRISPR technologies using an E. coli cell-free transcription-translation system Ryan Marshall|Colin S. Maxwell|Scott P. Collins|Michelle L. Luo|Thomas Jacobsen|Chase Beisel|Vincent Noireaux University of Minnesota;|North Carolina State University
http://dx.doi.org/10.1101/169557 2017-07-28 Bioinformatics CC BY-NC-ND Accurate detection of complex structural variations using single molecule sequencing Fritz J Sedlazeck|Philipp Rescheneder|Moritz Smolka|Han Fang|Maria Nattestad|Arndt von Haeseler|Michael Schatz Human Genome Sequencing Center, Baylor College of Medicine;|Center for Integrative Bioinformatics Vienna, Max F. Perutz Laboratories;|Simons Center for Quantitative Biology, Cold Spring Harbor Laboratory;|Departments of Computer Science and Biology, Johns Hopkins University
http://dx.doi.org/10.1101/169516 2017-07-28 Biochemistry CC BY Chemical Gating of the Mechanosensitive Piezo1 Channel by Asymmetric Binding of its Agonist Yoda1 Jerome Jacques Lacroix|Wesley M. Botello-Smith|Yun Luo Western University of Health Sciences
http://dx.doi.org/10.1101/169474 2017-07-28 Genetics CC BY-NC-ND Budding yeast Wpl1p regulates cohesin functions in cohesion, condensation and DNA repair by a common mechanism Michelle S. Bloom|Vincent Guacci|Douglas Koshland University of California, Berkeley
http://dx.doi.org/10.1101/169284 2017-07-28 Neuroscience Convis: A Toolbox To Fit and Simulate Filter-based Models of Early Visual Processing Jacob Huth|Timothee Masquelier|Angelo Arleo Institute of Vision, Paris-Sorbonne Univ., UPMC Univ Paris 06, INSERM, CNRS, Paris, France;|CERCO UMR5549, CNRS, University Toulouse 3, France
http://dx.doi.org/10.1101/168914 2017-07-28 Bioinformatics CC BY Beyond the Hype: Deep Neural Networks Outperform Established Methods Using A ChEMBL Bioactivity Benchmark Set Eelke B. Lenselink|Niels ten Dijke|Brandon Bongers|George Papadatos|Herman W. T. van Vlijmen|Wojtek Kowalczyk|Adriaan P. IJzerman|Gerard J. P. van Westen LACDR, Leiden University;|LIACS, Leiden University;|EMBL-EBI
http://dx.doi.org/10.1101/169433 2017-07-28 Microbiology Mammalian Orthoreovirus Factories Modulate Stress Granule Protein Localization by Interaction with G3BP1 Promisree Choudhury|Luke Bussiere|Cathy L. Miller Iowa State University
http://dx.doi.org/10.1101/169243 2017-07-28 Neuroscience CC BY-NC-ND Discrete confidence levels revealed by sequential decisions Matteo Lisi|Gianluigi Mongillo|Andrei Gorea City University of London;|Université Paris Descartes
http://dx.doi.org/10.1101/169292 2017-07-28 Microbiology CC BY-NC-ND Vibrio cholerae genomic diversity within and between patients Ines Levade|Yves Terrat|Jean-Baptiste Leducq|Ana A. Weil|Leslie M. Mayo-Smith|Fahima Chowdhury|Ashraful I. Khan|Jacques Boncy|Josiane Buteau|Louise C. Ivers|Edward T. Ryan|Richelle C. Charles|Stephen B. Calderwood|Firdausi Qadri|Jason B. Harris|Regina C. LaRocque|B. Jesse Shapiro University of Montreal;|Massachusetts General Hospital;|International Centre for Diarrhoeal Disease Research;|National Public Health Laboratory;|Harvard Medical School
http://dx.doi.org/10.1101/169508 2017-07-28 Genetics CC BY-NC-ND ciRS-7 exonic sequence is embedded in a long-noncoding RNA locus Steven Barrett|Kevin R. Parker|Caroline Horn|Miguel Mata|Julia Salzman Stanford University
http://dx.doi.org/10.1101/169482 2017-07-28 Physiology CC BY-NC-ND Comprehensive Characterization of Toxicity of Fermentative Metabolites on Microbial Growth Brandon Wilbanks|Cong T. Trinh University of Tennessee Knoxville
http://dx.doi.org/10.1101/169110 2017-07-28 Neuroscience CC BY-NC-ND Rule Activation and Ventromedial Prefrontal Engagement Support Accurate Stopping in Self-Paced Learning Sean O'Bryan|Eric Walden|Michael J. Serra|Tyler Davis Texas Tech University
http://dx.doi.org/10.1101/169367 2017-07-28 Genomics CC BY-NC-ND Divergent gene expression levels between diploid and autotetraploid Tolmiea (Saxifragaceae) relative to the total transcriptome, the cell, and biomass Clayton Visger|Gane Ka-Shu Wong|Yong Zhang|Pamela S. Soltis|Douglas E. Soltis California State University, Sacramento;|University of Alberta;|HuaHan Gene Co. Ltd.;|Florida Museum of Natural History;|University of Florida
http://dx.doi.org/10.1101/169524 2017-07-28 Cancer Biology Suppression of Transposable Elements in Leukemic Stem Cells Anthony Richard Colombo|Asif Zubair|Devi Thiagarajan|Sergey Nuzhdin|Timothy J. Triche|Giridharan Ramsingh Keck School of Medicine of University of Southern California;|University of Southern California, Department of Molecular and Computational Biology;|Langone Medical Center of New York University School of Medicine
http://dx.doi.org/10.1101/169425 2017-07-28 Genomics CC BY-NC-ND Experience-dependent translational state defined by cell type-specific ribosome profiling Stephen M. Eacker|Khadijah Crawford|Lars Brichta|Markus Riessland|Nicholas T. Ingolia|Paul Greengard|Ted M. Dawson|Valina L. Dawson Johns Hopkins University School of Medicine;|The Rockefeller University;|University of California, Berekeley;|The Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/169573 2017-07-28 CC BY Identifying the dynamic contact network of infectious disease spread Pratha Sah|Shweta Bansal Georgetown University
http://dx.doi.org/10.1101/169904 2017-07-28 CC BY-NC-ND How evolution draws trade-offs Salome Bourg|Laurent Jacob|Frederic Menu|Etienne Rajon University of Lyon
http://dx.doi.org/10.1101/169805 2017-07-28 CC BY-NC-ND Biphasic, Switch-Like Isothermal DNA Amplification Burcu Ozay|Cara M. Robertus|Jackson L. Negri|Stephanie McCalla Montana State University
http://dx.doi.org/10.1101/169854 2017-07-28 CC BY-NC-ND Efficient hydrogen-dependent carbon dioxide reduction by Escherichia coli Magali Roger|Fraser Brown|William Gabrielli|Frank Sargent University of Dundee;|Ingenza Ltd;|Sasol UK
http://dx.doi.org/10.1101/169847 2017-07-28 CC BY-NC-ND Redesigning chromosomes to optimize conformation capture (Hi-C) assays Heloise Muller|Vittore Scolari|Guillaume Mercy|Nicolas Agier|Stephane Descorps-Declere|Gilles Fischer|Julien Mozziconacci|Romain Koszul Institut Pasteur;|UPMC
http://dx.doi.org/10.1101/169862 2017-07-28 riboWaltz: optimization of ribosome P-site positioning in ribosome profiling data Fabio Lauria|Toma Tebaldi|Paola Bernabo|Ewout J. N. Groen|Thomas H. Gillingwater|Gabriella Viero Institute of Biophysics, CNR Unit at Trento, Italy;|Centre for Integrative Biology, University of Trento, Italy;|Euan MacDonald Centre for Motor Neurone Disease Research, University of Edinburgh, UK
http://dx.doi.org/10.1101/169235 2017-07-28 CC BY-NC-ND Decline of auditory-motor speech processing in older adults with hearing loss Muriel Panouilleres|Riikka Mottonen University of Oxford
http://dx.doi.org/10.1101/169698 2017-07-28 CC BY Neuronal origin of the temporal dynamics of spontaneous BOLD activity correlation Teppei Matsui|Tomonari Murakami|Kenichi Ohki University of Tokyo
http://dx.doi.org/10.1101/169730 2017-07-28 Antisense transcriptional interference mediates condition-specific gene repression in budding yeast Alicia Nevers|Antonia Doyen|Christophe Malabat|Bertrand Neron|Thomas Kergrohen|Alain Jacquier|Gwenael Badis Institut Pasteur; UPMC;|Institut Pasteur;|Institut Pasteur; CNRS
http://dx.doi.org/10.1101/169870 2017-07-28 CC BY-NC-ND Mechanistic view and genetic control of DNA recombination during meiosis Marie-Claude Marsolier-Kergoat|Md. Muntaz Khan|Jonathan Schott|Xuan Zhu|Bertrand Llorente CEA/DRF, SBIGeM, Gif-sur-Yvette, France;|Cancer Research Center of Marseille;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/169912 2017-07-28 The nucleoid as a scaffold for the assembly of bacterial signaling complexes Audrey Moine|Leon Espinosa|Eugenie Martineau|Deborah Byrne|Emanuele G Biondi|Eugenio Notomista|Matteo Brilli|Virginie Molle|Tam Mignot|Emilia MF Mauriello LCB, CNRS-University Aix-Marseille;|Protein Purification Platform, IMM, CNRS;|Dipartimento di Biologia, Universita degli Studi di Napoli Federico II;|Centre for Research and Innovation, Fondazione Edmund Mach;|Laboratoire de Dynamique des Interactions Membranaires Normales et Pathologiques, CNRS
http://dx.doi.org/10.1101/169938 2017-07-28 CC BY-NC-ND Anticipating complexity in the deployment of gene drive insects in agriculture Jennifer Baltzegar|Jessica Cavin Barnes|Johanna E. Elsensohn|Nicole Gutzmann|Michael S. Jones|Sheron King|Jayce Sudweeks North Carolina State University
http://dx.doi.org/10.1101/169953 2017-07-28 CC BY-NC-ND RNA structure inference through chemical mapping after accidental or intentional mutations Clarence Cheng|Wipapat Kladwang|Joseph Yesselman|Rhiju Das Stanford University
http://dx.doi.org/10.1101/169979 2017-07-28 Image velocimetry and spectral analysis enable quantitative characterization of larval zebrafish gut motility Julia Ganz|Ryan P. Baker|M. Kristina Hamilton|Ellie Melancon|Parham Diba|Judith S. Eisen|Raghuveer Parthasarathy Institute of Neuroscience, 1254 University of Oregon, Eugene, OR 97403;|Department of Physics, 1274 University of Oregon, Eugene, OR 97403
http://dx.doi.org/10.1101/169946 2017-07-28 CC BY-NC-ND Intrinsically photosensitive retinal ganglion cell mediated pupil function is impaired in Parkinson's disease Daniel S. Joyce|Beatrix Feigl|Graham Kerr|Luisa Roeder|Andrew J. Zele Queensland University of Technology
http://dx.doi.org/10.1101/169987 2017-07-28 CC BY-NC-ND Assaying uptake of endocrine disruptor compounds in zebrafish embryos and larvae Jaclyn Paige Souder|Daniel A. Gorelick University of Alabama at Birmingham
http://dx.doi.org/10.1101/169748 2017-07-28 Genomics CC BY-ND Genome variation and conserved regulation identify genomic regions responsible for strain specific phenotypes in rat David Martin-Galvez|Denis Dunoyer-de-Segonzac|Man Chun John Ma|Anne E. Kwitek|David Thybert|Paul Flicek European Molecular Biology Laboratory, European Bioinformatics Institute;|University of Iowa;|European Bioinformatics Institute
http://dx.doi.org/10.1101/169961 2017-07-28 Cell Biology CC BY Tropomyosin and a-actinin cooperation inhibits fimbrin association with actin filament networks in fission yeast Jenna Christensen|Kaitlin Homa|Meghan O'Connell|David R. Kovar The University of Chicago
http://dx.doi.org/10.1101/170084 2017-07-29 Biochemistry CC BY Estrogen represses Tgfbr1 and Bmpr1a expression via estrogen receptor beta in MC3T3-E1 cells Hanliang He|Chunqing Wang|Qifeng Tang|Fan Yang|Youjia Xu Department of Orthopaedics, the Second Affiliated Hospital of Soochow University;|Department of Orthopaedics, the Affiliated Hospital of Guizhou Medical University;|The Benq Medical Center of Suzhou
http://dx.doi.org/10.1101/170175 2017-07-29 Cell Biology The Na+(K+)/H+ exchanger Nhx1 controls multivesicular body-vacuolar lysosome fusion Mahmoud Abdul Karim|Christopher Brett Concordia University
http://dx.doi.org/10.1101/170035 2017-07-30 Bioinformatics CC BY-NC-ND De novo Clustering Nanopore Long Reads of Transcriptomics Data by Gene Camille Marchet|Lolita Lecompte|Corinne Da Silva|Corinne Cruaud|Jean Marc Aury|Jacques Nicolas|Pierre Peterlongo IRISA - Rennes 1 University;|IRISA - INRIA;|Genoscope - CEA
http://dx.doi.org/10.1101/170043 2017-07-30 Developmental Biology Drosophila embryonic type II neuroblasts: origin, temporal patterning, and contribution to the adult central complex Kathleen T. Walsh|Chris Q. Doe University of Oregon; HHMI
http://dx.doi.org/10.1101/169060 2017-07-30 CC BY-NC-ND Heterochronic Developmental Shifts Underlie Floral Diversity within Jaltomata (Solanaceae) Jamie L. Kostyun|Jill C. Preston|Leonie C. Moyle Indiana University;|The University of Vermont
http://dx.doi.org/10.1101/170274 2017-07-30 Bioinformatics CC BY Automatic OpenAPI to Bio.tools Conversion Egon Willighagen|Jonathan Melius Maastricht University
http://dx.doi.org/10.1101/170225 2017-07-30 Bioinformatics HapCHAT: Adaptive haplotype assembly for efficiently leveraging high coverage in long reads Stefano Beretta|Murray Patterson|Simone Zaccaria|Gianluca Della Vedova|Paola Bonizzoni University of Milano-Bicocca;|Princeton University
http://dx.doi.org/10.1101/170241 2017-07-30 Genetics CC BY-NC-ND Exploring repositioning opportunities and side-effects of statins: a Mendelian randomization study of HMG-CoA reductase inhibition with 55 complex traits Hon-Cheong So Chinese University of Hong Kong
http://dx.doi.org/10.1101/170258 2017-07-30 Plant Biology CC BY-NC-ND Maize leaf functional responses to drought episode and rewatering He Song|Yibo Li|Li Zhou|Zhenzhu Xu|Guangsheng Zhou Institute of Botany, Chinese Academy of Sciences;|Chinese Academy of Meteorological Sciences, China Meteorological Administration, China
http://dx.doi.org/10.1101/170290 2017-07-30 Biophysics CC BY Single-molecule force spectroscopy of protein-membrane interactions Lu Ma|Yiying Cai|Yanghui Li|Junyi Jiao|Zhenyong Wu|Ben O'Shaughnessy|Erdem Karatekin|Pietro De Camilli|Yongli Zhang Yale University, United States;|Yale School of Medicine, United States;|School of Medicine, Yale University, United States;|Columbia University, United States;|Howard Hughes Medical Institute, Yale University School of Medicine, United States;|Yale University, School of Medicine, United States
http://dx.doi.org/10.1101/170282 2017-07-30 Pharmacology and Toxicology CC BY-NC-ND Harnessing the Cross-talk between Tumor Cells and Tumor-associated Macrophages with a Nano-drug for modulation of Glioblastoma Immune Microenvironment Tong-Fei Li|Ke Li|Chao Wang|Xin Liu|Yu Wen|Yong-Hong Xu|Quan Zhang|Qiu-Ya Zhao|Ming Shao|Yan-Ze Li|Min Han|Naoki Komatsu|Li Zhao|Xiao Chen Department of Pharmacology, School of Basic Medicine, Wuhan University;|Center for Lab Teaching, School of Basic Medicine, Wuhan University;|Departmen of Ophthalmology, Renmin Hospital, Wuhan University;|Division of Nephrology, Tongji Hospital, Tongji Medical College, HUST;|Graduate School of Human and Environmental Studies, Kyoto University;|School of Radiation and Multidisciplinary Science,Medical College, Soochow University
http://dx.doi.org/10.1101/170092 2017-07-30 Biochemistry Chitosan perception in Arabidopsis requires the chitin receptor AtCERK1 suggesting an improved model for receptor structure and function Ekaterina Gubaeva|Airat Gubaev|Rebecca Melcher|Stefan Cord-Landwehr|Ratna Singh|Nour Eddine El Gueddari|Bruno M. Moerschbacher University of Muenster, Institute for Biology and Biotechnology of Plants;|University of Muenster, Institute for Physical Chemistry
http://dx.doi.org/10.1101/170191 2017-07-30 Animal Behavior and Cognition CC BY-NC-ND Social learning strategies for matters of taste Pantelis Pipergias Analytis|Daniel Barkoczi|Stefan M. Herzog Cornell University;|Max Planck Institute for Human Development
http://dx.doi.org/10.1101/170142 2017-07-30 Genomics CC BY-NC-ND Flipping the odds of drug development success through human genomics Aroon Dinesh Hingorani|Valerie Kuan|Chris Finan|Felix A. Kruger|Anna Gaulton|Sandesh Chopade|Reecha Sofat|Raymond J. MacAllister|John Overington|Harry Hemingway|Spiros Denaxas|David Prieto-Merino|Juan Pablo Casas University College London;|Benevolent AI;|European Molecular Biology Laboratory, European Bioinformatics Institute;|Dorset County Hospital NHS Foundation Trust;|Medicines Discovery Catapult
http://dx.doi.org/10.1101/170118 2017-07-30 Systems Biology CC BY Fundamental limits on dynamic inference from single cell snapshots Caleb Weinreb|Samuel Wolock|Betsabeh K. Tusi|Merav Socolovsky|Allon M. Klein Department of Systems Biology, Harvard Medical School;|Department of Molecular, Cell & Cancer Biology, University of Massachusetts Medical School
http://dx.doi.org/10.1101/170209 2017-07-30 Neuroscience CC BY-ND The ANTs Longitudinal Cortical Thickness Pipeline Nicholas J. Tustison|Andrew J. Holbrook|Brian B. Avants|Jared M. Roberts|Philip A. Cook|Zachariah M. Reagh|James R. Stone|Daniel L. Gillen|Michael A. Yassa University of Virginia;|University of California, Irvine;|University of Pennsylvania
http://dx.doi.org/10.1101/170126 2017-07-30 Bioinformatics miRNAtools: advanced training using the miRNA web of knowledge Francisco J. Enguita Instituto de Medicina Molecular, Faculdade de Medicina, Universidade de Lisboa, Portugal
http://dx.doi.org/10.1101/169722 2017-07-30 Microbiology The contribution of genetic variation of Streptococcus pneumoniae to the clinical manifestation of invasive pneumococcal disease Amelieke J. H. Cremers|Fredrick M. Mobegi|Christa van der Gaast-de Jongh|Michelle Van Weert|Fred van Opzeeland|Minna Vehkala|Mirjam J. Knol|Hester J. Bootsma|Niko Valimaki|Jacques F. Meis|Stephen Bentley|Sacha A. F. T. van Hijum|Jukka Corander|Aldert L. Zomer|Gerben Ferwerda|Marien I. de Jonge Radboudumc;|University of Helsinki;|RIVM National Institute for Public Health and the Environment;|Canisius-Wilhelmina Ziekenhuis;|Wellcome Trust Sanger Institute;|University of Oslo;|Utrecht University
http://dx.doi.org/10.1101/170167 2017-07-30 Neuroscience CC BY-NC-ND Thalamocortical transmission of visual information in awake mice involves phase synchronization and spike synchrony at high gamma frequencies Samuel Stuart McAfee|Yu Liu|Mukesh Dhamala|Detlef H. Heck University of Tennessee Health Science Center;|Georgia State University
http://dx.doi.org/10.1101/169755 2017-07-30 Genomics CC BY-ND Nanopore sequencing of full-length BRCA1 mRNA transcripts reveals co-occurrence of known exon skipping events Lucy de Jong|Simone Cree|Vanessa Lattimore|George Wiggins|Amanda Spurdle|Allison Miller|Martin A. Kennedy|Logan C. Walker University of Otago Christchurch;|QIMR Berghofer Institute of Medical Research;|-;|University of Otago
http://dx.doi.org/10.1101/170183 2017-07-30 Neuroscience CC BY-NC-ND Towards an Unconscious Neurotherapy for Common Fears Vincent Taschereau-Dumouchel|Aurelio Cortese|Toshinori Chiba|J. D. Knotts|Mitsuo Kawato|Hakwan Lau University of California, Los Angeles;|Advance Telecommunication Research (ATR) Institute International
http://dx.doi.org/10.1101/170100 2017-07-30 Neuroscience CC BY-ND 3′ UTR Remodelling of Axonal Transcripts in Sympathetic Neurons Catia Andreassi|Raphaelle Luisier|Hamish Crerar|Sasja Franke|Nicholas M. Luscombe|Giovanni Cuda|Marco Gaspari|Antonella Riccio University College London;|Francis Crick Institute;|University Magna Graecia
http://dx.doi.org/10.1101/169839 2017-07-31 CC BY Reconsolidation-disruption diminishes spontaneous and stress-induced cocaine seeking Marc T. J. Exton-McGuinness|Mohamed L. Drame|Charlotte R. Flavell|Jonathan L. C. Lee University of Birmingham
http://dx.doi.org/10.1101/170670 2017-07-31 Evolutionary Biology CC BY Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia Daniel Schrider|Julien Ayroles|Daniel R. Matute|Andrew D. Kern Rutgers University;|Princeton University;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/170605 2017-07-31 Genomics CC BY-NC-ND DNA copy number gains of TCF4 (E2-2) are associated with poor outcome and the activated B-cell-like subtype of diffuse large B-cell lymphoma Keenan Hartert|Saber Tadros|Alyssa Bouska|Dalia Moore|Tayla Heavican|Christine Pak|Chi Long Liu|Andrew Gentles|Elena Hartmann|Robert Kridel|Karin Ekstrom-Smedby|Gunnar Juliusson|David Klinkebiel|Richard Rosenquist|Randy Gascoyne|Andreas Rosenwald|Martin Bast|Julie Vose|Matthew Lunning|Timothy Greiner|Scott Rodig|Javeed Iqbal|Ash Alizadeh|Michael Green University of Nebraska Medical Center;|Brigham and Womens Hospital;|Stanford University;|University of Wuerzburg;|Princess Margaret Cancer Center;|Karolinska Institute;|Lund University;|British Columbia Cancer Center;|University of Wuerzberg;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/170589 2017-07-31 Evolutionary Biology CC BY The dynamics of adaptive genetic diversity during the early stages of clonal evolution Jamie R. Blundell|Katja Schwartz|Danielle Francois|Daniel S. Fisher|Gavin J. Sherlock|Sasha F. Levy University of Cambridge;|Stanford University;|Stony Brook University
http://dx.doi.org/10.1101/170449 2017-07-31 Evolutionary Biology Species composition and environmental adaptation of indigenous Chinese cattle Yahui Gao|Mathieu Gautier|Xiangdong Ding|Hao Zhang|Yachun Wang|Xi Wang|Md. Omar Faruque|Junya Li|Shaohui Ye|Xiao Gou|Jianlin Han|Johannes A. Lenstra|Yi Zhang China Agricultural University;|Institut de Biologie Computationnelle, 95 rue de la Galera, 34095 Montpellier, France;|Institute of Animal Science and Veterinary Medicine, Shanxi Academy of Agricultural Science;|Department of Animal Breeding and Genetics, Bangladesh Agricultural University;|Institute of Animal Science, Chinese Academy of Agricultural Sciences;|College of Animal Science and Technology, Yunnan Agricultural University;|Chinese Academy of Agricultural Sciences;|Faculty of Veterinary Medicine, Utrecht University
http://dx.doi.org/10.1101/170415 2017-07-31 Evolutionary Biology Hidden diversity and macroevolutionary mode of Caulimoviridae uncovered by euphyllophyte paleoviruses Zhen Gong|Guan-Zhu Han Nanjing Normal University
http://dx.doi.org/10.1101/170381 2017-07-31 Neuroscience CC BY-NC-ND Impact of spatial scale and edge weight on predictive power of cortical thickness networks Pradeep Reddy Raamana|Stephen C. Strother Rotman Research Institute, Baycrest Health Sciences
http://dx.doi.org/10.1101/170316 2017-07-31 Neuroscience CC BY-ND Are allocentric spatial reference frames compatible with theories of Enactivism? Sabine U. Konig|Caspar Goeke|Tobias Meilinger|Peter Konig University Osnabrueck;|MPI Biological Cybernetics
http://dx.doi.org/10.1101/170340 2017-07-31 Biochemistry CC BY-NC-ND Using competition assays to quantitatively model cooperative binding by transcription factors and other ligands Jacob Peacock|James B. Jaynes Thomas Jefferson University
http://dx.doi.org/10.1101/170423 2017-07-31 Ecology CC BY Opposing effects of floral visitors and soil conditions on the determinants of competitive outcomes maintain species diversity in heterogeneous landscapes Jose B. Lanuza|Ignasi Bartomeus|Oscar Godoy University of New England;|Estacion Biologica de Donana (EBD-CSIC);|IRNAS-CSIC
http://dx.doi.org/10.1101/170431 2017-07-31 Neuroscience CC BY-NC-ND Improving the quality of combined EEG-TMS neural recordings: Introducing the 'Coil Spacer' Kathy L. Ruddy|Daniel G. Woolley|Dante Mantini|Joshua Balsters|Nicole Wenderoth ETH Zuerich;|KU Leuven
http://dx.doi.org/10.1101/170472 2017-07-31 Neuroscience Activation of serotonin neurons promotes active exploitation in a probabilistic foraging task Eran Lottem|Dhruba Banerjee|Pietro Vertechi|Dario Sarra|Matthijs oude Lohuis|Zachary F. Mainen Champalimaud Research, Champalimaud Centre for the Unknown, Lisbon, Portugal;|School of Medicine, University of California, Irvine, United States;|Swammerdam Institute for Life Sciences, University of Amsterdam, The Netherlands
http://dx.doi.org/10.1101/170563 2017-07-31 Ecology CC BY-ND Population turnover reverses classic island biogeography predictions in river-like landscapes Eric Harvey|Isabelle Gounand|Emanuel A. Fronhofer|Florian Altermatt University of Zurich;|Eawag: Swiss Federal Institute of Aquatic Science and Technology
http://dx.doi.org/10.1101/170639 2017-07-31 Microbiology CC BY-NC-ND The global biogeography of amino acid variants within a single SAR11 population is governed by natural selection Tom O. Delmont|Evan Kiefl|Ozsel Kilinc|Ozcan C. Esen|Ismail Uysal|Michael S. Rappe|Stephen Giovannoni|A. Murat Eren University of Chicago;|University of South Florida;|University of Hawaii;|Oregon State University
http://dx.doi.org/10.1101/170621 2017-07-31 Evolutionary Biology Population and conservation genomics of the world's rarest hyena species, the brown hyena (Parahyena brunnea) Michael Westbury|Stefanie Hartmann|Axel Barlow|Ingrid Wiesel|Viyanna Leo|Rebecca Welch|Daniel M. Parker|Florian Sicks|Arne Ludwig|Love Dalen|Michael Hofreiter University of Potsdam;|Brown Hyena Research Project Trust Fund;|University of New South Wales;|Rhodes University;|Tierpark Berlin;|Leibniz-Institute for Zoo and Wildlife Research;|Swedish Museum of Natural History
http://dx.doi.org/10.1101/170373 2017-07-31 Genomics CC BY-NC-ND Linear Assembly of a Human Y Centromere using Nanopore Long Reads Miten Jain|Hugh E. Olsen|Daniel J. Turner|David Stoddart|Kira V. Bulazel|Benedict Paten|David Haussler|Huntington Willard|Mark Akeson|Karen H. Miga University of California, Santa Cruz;|Oxford Nanopore Technologies, Oxford, UK;|Duke University
http://dx.doi.org/10.1101/170555 2017-07-31 Bioengineering RAPID: Real-time image-based autofocus for all wide-field optical microscopy systems Ludovico Silvestri|Marie Caroline Muellenbroich|Irene Costantini|Antonino Paolo Di Giovanna|Leonardo Sacconi|Francesco Saverio Pavone National Institute of Optics (INO-CNR);|European Laboratory for Non-linear Spectroscopy;|University of Florence
http://dx.doi.org/10.1101/168542 2017-07-31 Pharmacology and Toxicology Anti-mutagenic and synergistic cytotoxic effect of cisplatin and Honey Bee venom on 4T1 invasive mammary carcinoma cell line Faranak Shiassi Arani|Latifeh Karimzadeh|Mohammad Ghafoori|Mohammad Nabiuni Department of Animal Biology, Faculty of Biological Science, Kharazmi University, Tehran, Iran;|Kharazmi University;|Department of Biotechnology, Payame Noor University, Tehran, Iran;|Department of Cell and Molecular Biology, Faculty of Biological Sciences, Kharazmi University
http://dx.doi.org/10.1101/170530 2017-07-31 Immunology Lymphopenic community acquired pneumonia, an unnoticed phenotype associated to mortality in non immuno-suppressed patients: a retrospective cohort study Jesus F. Bermejo-Martin|Catia Cilloniz|Raul Mendez|Raquel Almansa|Albert Gabarrus|Adrian Ceccato|Antoni Torres|Rosario Menendez Group for Biomedical Research in Sepsis, Hospital Clinico Universitario de Valladolid;|Department of Pneumology, Institut Clinic del Torax, Hospital Clinic of Barcelona;|Pulmonology Service, Univ. & Polytechnic Hosp. La Fe, Ciber de Enfermedades Respiratorias
http://dx.doi.org/10.1101/170399 2017-07-31 Biochemistry The High-resolution Timeline of Expression of Ribosomal Protein Genes in Yeast Xueling Li|Gang Chen|Bernard Fongang|Dirar Homouz|Maga Rowicka|Andrzej Kudlicki Dept. of Biochemistry & Molecular Biology, University of Texas Medical Branch, Galveston, TX
http://dx.doi.org/10.1101/170548 2017-07-31 Neuroscience Microbial–host metabolic systems interactions and the gut–brain axis: protective effects of microbial propionate upon the blood–brain barrier Lesley Hoyles|Tom Snelling|Umm-Kulthum Umlai|Jeremy K. Nicholson|Simon R. Carding|Robert C. Glen|Simon McArthur Imperial College London;|Quadram Institute;|Queen Mary University of London
http://dx.doi.org/10.1101/170464 2017-07-31 Neuroscience CC BY-NC-ND Identification of single pair of interneurons for bitter taste processing in the Drosophila brain Ali Asgar Bohra|Benjamin R. Kallman|Heinrich R. Reichert|K. VijayRaghavan National Centre for Biological Sciences;|Department of Molecular and Cell Biology, University of California, Berkeley;|University of Basel
http://dx.doi.org/10.1101/170365 2017-07-31 Evolutionary Biology Ants express risk-adjusted sanitary care Matthias Konrad|Christopher D. Pull|Katharina Seif|Sina Metzler|Anna V. Grasse|Sylvia Cremer IST Austria;|IST Austria; Medical University of Vienna
http://dx.doi.org/10.1101/170407 2017-07-31 Bioinformatics Protein classification using modified n-gram and skip-gram models S. M. Ashiqul Islam|Benjamin J. Heil|Christopher Michel Kearney|Erich J. Baker Baylor University
http://dx.doi.org/10.1101/170027 2017-07-31 Systems Biology CC BY-NC Cell cycle time series gene expression data encoded as cyclic attractors in Hopfield systems Anthony Szedlak|Spencer Sims|Nicholas Smith|Giovanni Paternostro|Carlo Piermarocchi Michigan State University;|Salgomed Inc.;|Sanford Burnham Prebys Medical Discovery Institute
http://dx.doi.org/10.1101/170332 2017-07-31 Bioinformatics Inferring proteome dynamics during yeast cell cycle using gene expression data Krzysztof Kuchta|Joanna Towpik|Anna Biernacka|Jan Kutner|Andrzej Kudlicki|Krzysztof Ginalski|Maga Rowicka Centre of New Technologies, University of Warsaw;|University of Texas Medical Branch at Galveston
http://dx.doi.org/10.1101/170308 2017-07-31 Genomics dropClust: Efficient clustering of ultra-large scRNA-seq data Debajyoti Sinha|Akhilesh Kumar|Himanshu Kumar|Sanghamitra Bandyopadhyay|Debarka Sengupta Indian Statistical Institute, Kolkata;|Indian Institute of Science Education and Research, Bhopal;|Indraprastha Institute of Information Technology, Delhi
http://dx.doi.org/10.1101/157156 2017-07-31 Automated collection of pathogen-specific diagnostic data for real-time syndromic epidemiological studies Lindsay Meyers|Christine C. Ginocchio|Aimie N. Faucett|Frederick S. Nolte|Per H. Gesteland|Amy Leber|Diane Janowiak|Virginia Donovan|Jennifer Dien Bard|Silvia Spitzer|Kathleen A. Stellrecht|Hossein Salimnia|Rangaraj Selvarangan|Stefan Juretschko|Judy A. Daly|Jeremy C. Wallentine|Kristy Lindsey|Franklin Moore|Sharon L. Reed|Maria Aguero-Rosenfeld|Paul D. Fey|Gregory A. Storch|Steve J. Melnick|Camille V. Cook|Robert K. Nelson|Jay D. Jones|Samuel V. Scarpino|Benjamin M. Althouse|Kirk M. Ririe|Bradley A. Malin|Mark A. Poritz BioFire Diagnostics;|Medical University of South Carolina;|University of Utah;|Nationwide Children's Hospital;|South Bend Medical Foundation;|Winthrop University Hospital;|Children's Hospital of Los Angeles;|Stony Brook University Medical Center;|Albany Medical Center;|Detroit Medical Center;|Children's Mercy Hospital;|Northwell Health;|Primary Children's Hospital;|Intermountain Medical Center;|University of Massachusetts Medical School-Baystate;|UC San Diego Health;|New York University Langone Health;|University of Nebraska Medical Center;|Washington University Medical Center;|Nicklaus Children's Hospital;|University of Vermont;|University of Washington;|bioMérieux;|Vanderbilt University;|BioFire Defense
http://dx.doi.org/10.1101/170985 2017-07-31 CC BY-NC A novel unbiased test for molecular convergent evolution and discoveries in echolocating, aquatic and high-altitude mammals Amir Marcovitz|Yatish Turakhia|Michael Gloudemans|Benjamin A Braun|Heidi I Chen|Gill Bejerano Stanford University
http://dx.doi.org/10.1101/170266 2017-07-31 CC BY-NC-ND Social fluidity mobilizes infectious disease in human and animal populations Ewan Colman|Shweta Bansal Georgetown University
http://dx.doi.org/10.1101/170860 2017-07-31 CC BY-NC-ND Prdm9 is an Anti-Speciation Gene Donald R. Forsdyke Queen's University, Canada
http://dx.doi.org/10.1101/170969 2017-07-31 CC BY-NC-ND Forgot what you like? Evidence for hippocampal dependence of value-based decisions Ayse Zeynep Enkavi|Bernd Weber|Iris Zweyer|Jan Wagner|Christian E. Elger|Elke U. Weber|Eric J. Johnson Stanford University;|University of Bonn;|Princeton University;|Columbia University
http://dx.doi.org/10.1101/170977 2017-07-31 Rap1 acts via multiple mechanisms to position Canoe/Afadin and adherens junctions and mediate apical-basal polarity establishment Teresa Bonello|Kia Perez-Vale|Kaelyn Sumigray|Mark Peifer University of North Carolina;|Duke University
http://dx.doi.org/10.1101/170886 2017-07-31 CC BY Kinetic Machine Learning Unravels Ligand-Directed Conformational Change of μ Opioid Receptor Evan N. Feinberg|Amir Barati Farimani|Carlos Xavier Hernandez|Vijay S. Pande Stanford University
http://dx.doi.org/10.1101/170159 2017-07-31 CC BY-NC Euplotid: A Linux-based platform to physically edit the genome Diego Borges|Richard Young Massachusetts Institute of Technology
http://dx.doi.org/10.1101/170910 2017-07-31 CC BY-NC-ND A Prototype for Modular Cell Engineering Brandon Wilbanks|Donovan Layton|Sergio Garcia|Cong Trinh University of Tennessee Knoxville;|University of Tennessee
http://dx.doi.org/10.1101/170712 2017-07-31 CC BY-NC-ND Functional consequences of genetic loci associated with intelligence in a meta-analysis of 87,740 individuals Jonathan Coleman|Julien Bryois|Helena Alexandra Gaspar|Philip Jansen|Jeanne Savage|Nathan Skene|Robert Plomin|Ana Munoz-Manchado|Sten Linnarsson|Greg Crawford|Jens Hjerling Leffler|Patrick Sullivan|Danielle Posthuma|Gerome Breen King's College London;|Karolinska Institutet;|King's College London (Institute of Psychiatry);|Erasmus Medical Center;|VU
http://dx.doi.org/10.1101/170746 2017-07-31 CC BY-NC-ND The Epstein-Barr Virus miR-BHRF1 microRNAs Regulate Viral Gene Expression in cis Brigid Chiyoko Poling|Alexander M. Price|Micah A. Luftig|Bryan R. Cullen Duke University Medical Center;|Duke University School of Medicine
http://dx.doi.org/10.1101/170720 2017-07-31 Refresh my memory: Episodic memory reinstatements intrude on working memory maintenance Abigail Novick Hoskin|Aaron M. Bornstein|Kenneth A. Norman|Jonathan D. Cohen Princeton University
http://dx.doi.org/10.1101/170761 2017-07-31 gkm-DNN: efficient prediction using gapped k-mer features and deep neural networks Zhen Cao|Shihua Zhang Academy of Mathematics and Systems Science, Chinese Academy of Sciences
http://dx.doi.org/10.1101/170878 2017-07-31 Estimating Excitatory and Inhibitory Synaptic Conductances from Spike Trains using a Recursive Bayesian Approach Milad Lankarany Hospital for Sick Children
http://dx.doi.org/10.1101/170829 2017-07-31 CC BY-NC-ND Roles of the Brca2 and Wapl complexes with Pds5 in sister chromatid cohesion, cohesin localization, and gene expression Ziva Misulovin|Michelle Pherson|Maria Gause|Kathie Mihindukulasuriya|Dale Dorsett Saint Louis University School of Medicine
http://dx.doi.org/10.1101/170837 2017-07-31 CC BY-NC-ND Polymodal Allosteric Regulation of Type 1 Serine/Threonine Kinase Receptors via a Conserved Electrostatic Lock Wesley M. Botello-Smith|Abdelaziz Alsamarah|Payal Chatterjee|Chen Xie|Jerome Lacroix|Jijun Hao|Yun Luo Western University of Health Sciences
http://dx.doi.org/10.1101/170696 2017-07-31 Multiple hidden processes complicate phylogenomic inference of deep Basidiomycota relationships Arun N. Prasanna|Daniel Gerber|Kijpornyongpan Teeratas|M. Catherine Aime|Vinson Doyle|Laszlo Nagy Biological Research Center, Synthetic and Systems Biology Unit;|Botany and Plant Pathology, Purdue University;|Department of Plant Pathology and Crop Physiology, Louisiana State University;|Hungarian Academy of Sciences, Biological Research Center
http://dx.doi.org/10.1101/170753 2017-07-31 Small GTPases and BAR domain proteins regulate branched actin to make clathrin and dynamin independent endocytic vesicles Mugdha Sathe|Gayatri Muthukrishnan|James Rae|Andrea Disanza|Mukund Thattai|Giorgio Scita|Robert G. Parton|Satyajit Mayor National Center for Biological Sciences;|Institute for Molecular Bioscience, University of Queensland, QLD 4072, Australia;|IFOM & FIRC; Dept. of Oncology & Hemato-Oncology, University of Milan;|National Centre for Biological Sciences, Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/170803 2017-07-31 PyBoost: A parallelized Python implementation of 2D boosting with hierarchies Peyton G. Greenside|Nadine Hussami|Jessica Chang|Anshul Kundaje Stanford University
http://dx.doi.org/10.1101/170852 2017-07-31 Identification of TMEM230 mutations in familial Parkinson's disease (response to comments) Han-Xiang Deng|Teepu Siddique Northwestern University
http://dx.doi.org/10.1101/170498 2017-07-31 CC BY-NC-ND From neurons to voxels - repetition suppression is best modelled by local neural scaling Arjen Alink|Hunar Abdulrahman|Richard N. Henson University Medical Centre Hamburg-Eppendorf;|MRC Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/170811 2017-07-31 CC BY-NC-ND A synthetic biology approach to probing nucleosome symmetry Yuichi Ichikawa|Caitlin F. Connelly|Alon Appleboim|Hadas Jacobi|Nebiyu A. Abshiru|Hsin-Jung Chou|Yuanyuan Chen|Upasna Sharma|Yupeng Zheng|Paul M. Thomas|Hsiuyi V. Chen|Vineeta Bajaj|Neil L. Kelleher|Nir Friedman|Daniel N. Bolon|Oliver J. Rando|Paul D. Kaufman University of Massachusetts Medical School;|The Hebrew University, Jerusalem;|Northwestern University
http://dx.doi.org/10.1101/170779 2017-07-31 Bayesian Optimisation of Large-Scale Biophysical Networks Jonathan Hadida|Stamatios N. Sotiropoulos|Romesh G. Abeysuriya|Mark W. Woolrich|Saad Jbabdi University of Oxford;|University of Nottingham
http://dx.doi.org/10.1101/170795 2017-08-01 CC BY-ND Both DNA Polymerases δ and ε Contact Active and Stalled Replication Forks Differently Chuanhe Yu|Haiyun Gan|Zhiguo Zhang Mayo Clinic;|Columbia Univeristy;|Columbia University
http://dx.doi.org/10.1101/171090 2017-08-01 Systems Biology Role of duplicate genes in determining the tissue-selectivity of hereditary diseases Ruth Barshir|Idan Hekselman|Netta Shemesh|Moran Sharon|Lena Novack|Esti Yeger-Lotem Ben-Gurion University
http://dx.doi.org/10.1101/171132 2017-08-01 Animal Behavior and Cognition CC BY Navigating infection risk during oviposition and larval foraging in a holometabolous insect Jonathon A. Siva-Jothy|Katy M. Monteith|Pedro F. Vale University of Edinburgh
http://dx.doi.org/10.1101/171124 2017-08-01 Evolutionary Biology CC BY-NC-ND A ticket to ride - Allele delivery by rail in secondary ruderal colonization by Arabidopsis arenosa Pierre Baduel|Ben Hunter|Sarang Yeola|Kirsten Bomblies Harvard University
http://dx.doi.org/10.1101/171108 2017-08-01 Bioinformatics CC BY An algorithm for template-based prediction of secondary structures of individual RNA sequences Josef Panek|Martin Cerny Institute of Microbiology of the Czech Academy of Sciences
http://dx.doi.org/10.1101/170647 2017-08-01 Microbiology CC BY-NC-ND Inhibition of NHEJ repair by type II-A CRISPR-Cas systems Aude Bernheim|Alicia Calvo Villamanan|Clovis Basier|Eduardo P. C. Rocha|Marie Touchon|David Bikard Institut Pasteur;|Institut Pasteur; CNRS
http://dx.doi.org/10.1101/171058 2017-08-01 Cancer Biology CC BY Targeting posttranslational modifications of RioK1 inhibits the progression of colorectal and gastric cancers Xuehui Hong|He Huang|Zhijie Ding|Xing Feng|Yuekun Zhu|Huiqin Zhuo|Jingjing Hou|Wangyu Cai|Xinya Hong|Hongjiang Song|Zhiyong Zhang Zhongshan Hospital of Xiamen University;|Xiangya School of Medicine;|Rutgers Cancer Institute of New Jersey;|The First Affiliated Hospital of Harbin Medical University;|The Third Affiliated Hospital of Harbin Medical University;|Rutgers University
http://dx.doi.org/10.1101/170787 2017-08-01 Molecular Biology Accuracy through Subsampling of Protein EvolutioN: Analyzing and reconstructing protein divergence using an ensemble approach Roman Sloutsky|Kristen M. Naegle Washington University in St. Louis
http://dx.doi.org/10.1101/171041 2017-08-01 Cell Biology Kif2 microtubule depolymerase is required for unequal cell division and localizes to a subdomain of cortical endoplasmic reticulum Vlad Costache|Celine Hebras|Gerard Pruliere|Lydia Besnardeau|Margaux Failla|Richard R. Copley|David Burgess|Janet Chenevert|Alex McDougall Observatoire Oceanologique;|Boston College
http://dx.doi.org/10.1101/171033 2017-08-01 Neuroscience Cool Enough for School: Second Version of Google Glass Rated by Children Facing Challenges to Social Integration as Desirable to Wear at School Ned T. Sahin|Neha U. Keshav|Joseph P. Salisbury|Arshya Vahabzadeh Brain Power, LLC
http://dx.doi.org/10.1101/170951 2017-08-01 Synthetic Biology A synthetic integral feedback controller for robust tunable regulation in bacteria Gabriele Lillacci|Stephanie K. Aoki|David Schweingruber|Mustafa Khammash ETH Zurich
http://dx.doi.org/10.1101/171082 2017-08-01 Systems Biology CC BY Genome-wide characterization of Phytophthora infestans metabolism: a systems biology approach Sander Y. A. Rodenburg|Michael F. Seidl|Dick de Ridder|Francine Govers Wageningen University
http://dx.doi.org/10.1101/170738 2017-08-01 CC BY-NC Oasis2.0: improved online analysis of small RNA-seq data Raza-Ur Rahman|Abhivyakti Gautam|Joern Bethune|Abdul Sattar|Maksims Fiosins|Daniel Sumner Magruder|Vincenzo Capece|Orr Shomroni|Stefan Bonn ZMNH;|DZNE;|Center for Molecular Neurobiology Hamburg
http://dx.doi.org/10.1101/171207 2017-08-01 CC BY-NC-ND Extracranial estimation of neural mass model parameters using the Unscented Kalman Filter Lara Escuain-Poole|Jordi Garcia-Ojalvo|Antonio Javier Pons Rivero Universitat Politecnica de Catalunya;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/171249 2017-08-01 A Tetratricopeptide Repeat Protein Regulates Carotenoid Biosynthesis and Chromoplast Development in Monkeyflowers (Mimulus) Lauren Elizabeth Stanley|Baoqing Ding|Wei Sun|Fengjuan Mou|Connor Hill|Shilin Chen|Yao-Wu Yuan University of Connecticut;|China Academy of Chinese Medical Sciences;|Southwest Forestry University
http://dx.doi.org/10.1101/170944 2017-08-01 Human placental syncytiotrophoblasts restrict Toxoplasma gondii vertical transmission at two distinct stages and induce CCL22 in response to infection Stephanie Ander|Elizabeth Rudzki|Nitin Arora|Yoel Sadovsky|Carolyn B. Coyne|Jon P. Boyle University of Pittsburgh
http://dx.doi.org/10.1101/171181 2017-08-01 CC BY-NC Endosymbiont diversity and evolution across the weevil tree of life Guanyang Zhang|Patrick Browne|Geng Zhen|Andrew Johnston|Hinsby Cadillo-Quiroz|Nico Franz Arizona State University
http://dx.doi.org/10.1101/171173 2017-08-01 CC BY-NC-ND Triple dissociation of attention and decision computations across prefrontal cortex Laurence T. Hunt|W. M. Nishantha Malalasekera|Archy O. de Berker|Bruno Miranda|Simon F. Farmer|Timothy E. J. Behrens|Steven W. Kennerley University of Oxford;|University College London
http://dx.doi.org/10.1101/171298 2017-08-01 CC BY Kernel multitask regression for toxicogenetics Elsa Bernard|Yunlong Jiao|Erwan Scornet|Veronique Stoven|Thomas Walter|Jean-Philippe Vert Memorial Sloan Kettering Cancer Center;|MINES ParisTech, PSL Research University; Institut Curie; INSERM;|Ecole Polytechnique;|MINES ParisTech, PSL Research University; Institut Curie; INSERM; ENS
http://dx.doi.org/10.1101/171017 2017-08-01 Transferring and Generalizing Deep-Learning-based Neural Encoding Models across Subjects Haiguang Wen|Junxing Shi|Wei Chen|Zhongming Liu Purdue University;|Center for Magnetic Resonance Research, University of Minnesota Medical School
http://dx.doi.org/10.1101/171371 2017-08-01 Exploration and generalization in vast spaces Charley M. Wu|Eric Schulz|Maarten Speekenbrink|Jonathan D. Nelson|Bjorn Meder Max Planck Institute for Human Development;|University College London
http://dx.doi.org/10.1101/171280 2017-08-01 CC BY The intrinsically disordered C-terminal linker of FtsZ regulates protofilament dynamics and superstructure in vitro Kousik Sundararajan|Erin D. Goley Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/171199 2017-08-01 CC BY-NC-ND QuimP - Analyzing transmembrane signalling in highly deformable cells Piotr Baniukiewicz|Sharon Collier|Till Bretschneider University of Warwick
http://dx.doi.org/10.1101/171306 2017-08-01 CC BY-NC-ND TRuML: A Translator for Rule-Based Modeling Languages Ryan Suderman|William S. Hlavacek Los Alamos National Laboratory
http://dx.doi.org/10.1101/170217 2017-08-01 Distress tolerance across self-report, behavioral and psychophysiological domains in women with eating disorders and healthy controls Angelina Yiu|Kara Christensen|Eunice Chen Temple University;|Ohio State University
http://dx.doi.org/10.1101/171413 2017-08-01 CC BY-NC-ND Unexpected variation across mitochondrial gene trees and evidence for systematic error: How much gene tree variation is biological? Emilie J. Richards|Jeremy M. Brown|Anthony J. Barley|Rebecca A. Chong|Robert C. Thomson University of North Carolina at Chapel Hill;|Lousiana State University;|University of Hawaii at Manoa;|University of Texas at Austin
http://dx.doi.org/10.1101/171264 2017-08-01 CC BY-NC-ND Weak interactions between groups and physical drivers of community dynamics in coastal phytoplankton Frederic Barraquand|Coralie Picoche|Daniele Maurer|Laure Carassou|Isabelle Auby University of Bordeaux;|Ifremer;|Irstea
http://dx.doi.org/10.1101/171355 2017-08-01 CC BY Genome-reconstruction for eukaryotes from complex natural microbial communities Patrick T. West|Alexander J. Probst|Igor V. Grigoriev|Brian C. Thomas|Jillian F. Banfield UC Berkeley;|Joint Genome Institute
http://dx.doi.org/10.1101/171348 2017-08-01 CC BY-NC Learning causal biological networks with generalized Mendelian randomization Md. Bahadur Badsha|Audrey Q. Fu University of Idaho
http://dx.doi.org/10.1101/171389 2017-08-01 CC BY-NC Development of subcortical volumes across adolescence in males and females: A multisample study of longitudinal changes Megan M. Herting|Cory Johnson|Kathryn L. Mills|Nandita Vijayakumar|Meg Dennison|Chang Liu|Anne-Lise Goddings|Ronald E. Dahl|Elizabeth R. Sowell|Sarah Whittle|Nicholas B. Allen|Christian K. Tamnes University of Southern California;|University of Oregon;|The University of Melbourne;|University College London;|University of California Berkeley;|The University of Melbourne and Melbourne Health;|University of Oslo
http://dx.doi.org/10.1101/171215 2017-08-01 CC BY Sugar intake elicits a small-scale search behavior in flies and honey bees that involves capabilities found in large-scale navigation Axel Brockmann|Satoshi Murata|Naomi Murashima|Ravi Kumar Boyapati|Manal Shakeel|Nikhil G. Prabhu|Jacob J. Herman|Pallab Basu|Teiichi Tanimura National Centre for Biological Sciences, Tata Institute of Fundamental Research;|Kyushu University;|University of Texas at Austin;|International Centre for Theoretical Sciences, Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/171330 2017-08-01 CC BY-NC-ND How Many Females Are There? Cheating and Female Dispersion Can Explain Mating Behavior Evolution Bruna Valerio Gomes|Daniel Menezes Guimaraes|Diego Szczupak|Kleber Neves Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/171231 2017-08-01 CC BY-NC-ND Male-driven reinforcement and cascade reinforcement in darters Rachel L. Moran|Rebecca C. Fuller University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/170902 2017-08-01 CC BY-NC The geometry of heterosis Julie B. Fievet|Thibault Nidelet|Christine Dillmann|Dominique de Vienne AgroParisTech;|INRA;|University Paris-Sud
http://dx.doi.org/10.1101/170845 2017-08-01 Neuroscience CC BY-NC-ND Category learning biases sensory representations in visual cortex. Edward F. Ester|Thomas C. Sprague|John T. Serences Florida Atlantic University;|New York University;|University of California, San Diego
http://dx.doi.org/10.1101/170514 2017-08-01 Zoology Rapid changes in Atlantic grey seal milk from birth to desertion Amanda D. Lowe|Sami Bawazeer|David G. Watson|Suzanne McGill|Richard J. S. Burchmore|Patrick P. Pomeroy|Malcolm W. Kennedy University of Glasgow;|University of Strathclyde;|University of St. Andrews
http://dx.doi.org/10.1101/170522 2017-08-01 Developmental Biology CC BY Live imaging of heart tube development in mouse reveals alternating phases of cardiac differentiation and morphogenesis Kenzo Ivanovitch|Susana Temino|Miguel Torres Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC), Madrid;|Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC);|Spanish National Cardiovascular Centre (CNIC)
http://dx.doi.org/10.1101/171165 2017-08-01 Genomics CC BY Widespread population variability of intron size in evolutionary old genes: implications for gene expression variability Maria Rigau|David Juan|Alfonso Valencia|Daniel Rico Barcelona Supercomputing Center (BSC);|Institut de Biologia Evolutiva, CSIC and Universitat Pompeu Fabra;|Institute of Cellular Medicine, Newcastle University
http://dx.doi.org/10.1101/170928 2017-08-01 Genetics The validity of the coalescent approximation for large samples Andrew Melfi|Divakar Viswanath University of Michigan
http://dx.doi.org/10.1101/171629 2017-08-02 Neuroscience Shaping dendritic NMDA spikes by timed synaptic inhibition: Implications for the I/O properties of cortical neurons Michael Doron|Giuseppe Chindemi|Eilif Muller|Henry Markram|Idan Segev Hebrew University of Jerusalem;|Blue Brain Project
http://dx.doi.org/10.1101/171520 2017-08-02 Bioinformatics CC BY-ND Enhanced Pipeline 'MetaGaAP-Py' for the Analysis of Quasispecies and Non-Model Microbial Populations using Ultra-Deep 'Meta-barcode' Sequencing Christopher Noune|Caroline Hauxwell Queensland University of Technology
http://dx.doi.org/10.1101/171637 2017-08-02 Neuroscience CC BY-NC-ND Predicting motivation: computational models of PFC can explain neural coding of motivation and effort-based decision-making in health and disease Eliana Vassena|James Deraeve|William Alexander Donders Institute for Brain, Cognition and Behaviour;|Ghent University
http://dx.doi.org/10.1101/171645 2017-08-02 Neuroscience CC BY-NC-ND Spatial vision by macaque midbrain Chih-Yang Chen|Lukas Sonnenberg|Simone Weller|Thede Witschel|Ziad M. Hafed Tuebingen University
http://dx.doi.org/10.1101/171561 2017-08-02 Systems Biology CC BY Mechanistic hierarchical population model identifies latent causes of cell-to-cell variability Carolin Loos|Katharina Moeller|Fabian Frohlich|Tim Hucho|Jan Hasenauer Helmholtz Zentrum München;|University Hospital Cologne
http://dx.doi.org/10.1101/171538 2017-08-02 Microbiology CC BY An orphan cbb3-type cytochrome oxidase subunit supports Pseudomonas aeruginosa biofilm growth and virulence Jeanyoung Jo|Krista L. Cortez|William-Cole Cornell|Alexa Price-Whelan|Lars E. P. Dietrich Columbia University
http://dx.doi.org/10.1101/171579 2017-08-02 Ecology CC BY-NC-ND Correlated seed failure as an environmental veto to synchronize reproduction of masting plants Micha Bogdziewicz|Michael A. Steele|Shealyn Marino|Elizabeth E. Crone Adam Mickiewicz University;|Wilkes University;|Tufts University
http://dx.doi.org/10.1101/171454 2017-08-02 Neuroscience CC BY Dissociable neural mechanisms track evidence accumulation for selection of attention versus action Amitai Shenhav|Mark A. Straccia|Jonathan D. Cohen|Matthew M. Botvinick Brown University;|UCLA;|Princeton University;|DeepMind
http://dx.doi.org/10.1101/171611 2017-08-02 Bioinformatics CC BY-NC-ND New barcoded primers for efficient retrieval of cercozoan sequences in high-throughput environmental diversity surveys, with emphasis on worldwide biological soil crusts Anna Maria Fiore-Donno|Christian Rixen|Martin Rippin|Karin Glaser|Elena Samolov|Ulf Karsten|Burkhard Becker|Michael Bonkowski University of Cologne;|Institute for Snow and Avalanche Research SLF;|Institute of Botany, University of Cologne;|University of Rostock, Institute of Biological Sciences;|Inst. of Zoology, Terrestrial Ecology, Cluster of Excellence in Plant Sciences, Univ. of Cologne
http://dx.doi.org/10.1101/171496 2017-08-02 Genomics Accurate estimation of molecular counts in droplet-based single-cell RNA-seq experiments Viktor Petukhov|Jimin Guo|Ninib Baryawno|Nicolas Severe|David Scadden|Peter V. Kharchenko Peter the Great St. Petersburg Polytechnic University, St. Petersburg, Russia;|Harvard Medical School, Boston, MA, USA;|Massachusetts General Hospital, Boston, MA, USA
http://dx.doi.org/10.1101/171660 2017-08-02 Neuroscience Serial representation of items during working memory maintenance at letter-selective cortical sites Ali Bahramisharif|Ole Jensen|Joshua Jacobs|John Lisman Academic Medical Center, Amsterdam;|University of Birmingham;|Columbia University;|Brandeis University
http://dx.doi.org/10.1101/171322 2017-08-02 Genetics CC BY-NC AMELIE accelerates Mendelian patient diagnosis directly from the primary literature Johannes Birgmeier|Maximilian Haeussler|Cole A. Deisseroth|Karthik A. Jagadeesh|Alexander J. Ratner|Harendra Guturu|Aaron M. Wenger|Peter D. Stenson|David N. Cooper|Christopher Re|Jonathan A. Bernstein|Gill Bejerano Stanford University;|University of California Santa Cruz;|Cardiff University;|Stanford School of Medicine
http://dx.doi.org/10.1101/171587 2017-08-02 Neuroscience CC BY-NC-ND Dopaminergic drug effects on probability weighting during risky decision-making Karita E. Ojala|Lieneke K. Janssen|Mahur M. Hashemi|Monique H. M. Timmer|Dirk E. M. Geurts|Niels P. ter Huurne|Roshan Cools|Guillaume Sescousse Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/171462 2017-08-02 Evolutionary Biology CC BY Restricted access to beneficial mutations slows adaptation and biases fixed mutations in diploids Daniel A. Marad|Gregory I. Lang Lehigh University
http://dx.doi.org/10.1101/171314 2017-08-02 Scientific Communication and Education CC BY The GSS is an unreliable indicator of biological sciences postdoc population trends Christopher Pickett|Adriana Bankston|Gary S. McDowell Rescuing Biomedical Research;|The Future of Research
http://dx.doi.org/10.1101/171447 2017-08-02 Biophysics CC BY-NC-ND Single-molecule assay for proteolytic susceptibility using centrifuge force microscopy: force-induced destabilization of collagen's triple helix Michael W. H. Kirkness|Nancy R. Forde Simon Fraser University
http://dx.doi.org/10.1101/171470 2017-08-02 Genomics CC BY-ND Incomplete MyoD-induced transdifferentiation is associated with chromatin remodeling deficiencies Dinesh Manandhar|Lingyun Song|Ami Kabadi|Jennifer Kwon|Lee Edsall|Melanie Ehrlich|Koji Tsumagari|Charlie Gersbach|Gregory Crawford|Raluca Gordan Duke University;|Tulane Hayward Genetics Center
http://dx.doi.org/10.1101/171397 2017-08-02 Bioengineering OptoGap: an optogenetics-enabled assay for quantification of cell-cell coupling in multicellular cardiac tissue Jinzhu Yu|Patrick M. Boyle|Aleksandra Klimas|John C. Williams|Natalia A. Trayanova|Emilia Entcheva Stony Brook University;|Johns Hopkins University;|George Washington University
http://dx.doi.org/10.1101/171603 2017-08-02 Developmental Biology CC BY-NC-ND Embryonic lethality in mice lacking Trim59 due to impaired gastrulation development Xiaomin Su|Chenglei Wu|Xiaoying Ye|Ming Zeng|Zhujun Zhang|Yongzhe Che|Yuan Zhang|Lin Liu|Yushuang Lin|Rongcun Yang Nankai University
http://dx.doi.org/10.1101/171553 2017-08-02 Microbiology CC BY-NC-ND Detection of live mycobacteria with a solvatochromic trehalose probe for point-of-care tuberculosis diagnosis Mireille Kamariza|Peyton Shieh|Frances P. Rodriguez-Rivera|Christopher S. Ealand|Brian Chu|N. Martinson|Bavesh D. Kana|Carolyn R. Bertozzi Stanford University;|University of California, Berkeley;|University of Witwatersrand, Johannesburg, South Africa;|NAIAD, NIH, Johannesburg, South Africa
http://dx.doi.org/10.1101/171223 2017-08-02 CC BY Lessons in effector and NLR biology of plant-microbe systems Aleksandra Bialas|Erin K. Zess|Juan Carlos De la Concepcion|Marina Franceschetti|Helen G. Pennington|Kentaro Yoshida|Jessica L. Upson|Emilie Chanclud|Chih-Hang Wu|Thorsten Langner|Abbas Maqbool|Freya A. Varden|Lida Derevnina|Khaoula Belhaj|Koki Fujisaki|Hiromasa Saitoh|Ryohei Terauchi|Mark J. Banfield|Sophien Kamoun The Sainsbury Laboratory, Norwich Research Park, Norwich, United Kingdom;|Department of Biological Chemistry, John Innes Centre, Norwich, United Kingdom;|Graduate School of Agricultural Science, Kobe University, Kobe, Japan;|Iwate Biotechnology Research Center, Kitakami, Iwate, Japan;
http://dx.doi.org/10.1101/167841 2017-08-02 Optogenetic silencing of primary afferents reduces evoked and ongoing bladder pain Vijay K. Samineni|Aaron D. Mickle|Jangyeol Yoon|Jose G. Grajales-Reyes|Melanie Pullen|Kaitlyn Crawford|Kyung Nim Noh|Graydon Gereau|Sherri Vogt|Henry Lai|John Rogers|Robert Gereau Washington University in St. Louis;|University of Illinois at Urbana-Champaign;|Northwestern University
http://dx.doi.org/10.1101/171793 2017-08-02 CC BY-NC-ND Distinct Laminar Processing of Local and Global Context in Primate Primary Visual Cortex Maryam Bijanzadeh|Lauri Nurminen|Sam Merlin|Alessandra Angelucci University of California San Francisco;|University of Utah, Moran Eye Institute;|Western Sydney University
http://dx.doi.org/10.1101/171801 2017-08-02 CC BY-ND Heterogeneity and Intrinsic Variation in Spatial Genome Organization Elizabeth Finn|Gianluca Pegoraro|Hugo B. Brandao|Anne-Laure Valton|Marlies E. Oomen|Job Dekker|Leonid Mirny|Tom Misteli National Cancer Institute;|Harvard University;|University of Massachusetts Medical School;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/171744 2017-08-02 CC BY-NC-ND Decomposing the neural pathways mediating value-based choice Timothy Richard Koscik|Vincent Man|Andrew Jahn|Christina H. Lee|William A. Cunningham University of Toronto;|Haskins Laboratories;|Ontario Institute for Studies in Education
http://dx.doi.org/10.1101/171710 2017-08-02 Cell Biology The impact of experimental design choices on parameter inference for models of growing cell colonies Andrew Parker|Matthew J. Simpson|Ruth E. Baker University of Oxford;|Queensland University of Technology
http://dx.doi.org/10.1101/171769 2017-08-02 Evolutionary Biology Differences in the genetic control of early egg development and reproduction between C. elegans and its parthenogenetic relative D. coronatus Christopher Kraus|Philipp H. Schiffer|Hiroshi Kagoshima|Hideaki Hiraki|Theresa Vogt|Michael Kroiher|Yuji Kohara|Einhard Schierenberg Zoologisches Institut, University of Cologne;|National Institute of Genetics, Japan
http://dx.doi.org/10.1101/171736 2017-08-02 Neuroscience CC BY-NC-ND Functional histamine H3 and adenosine A2A receptor heteromers in recombinant cells and rat striatum Ricardo Marquez-Gomez|Citlaly Gutierrez-Rodelo|Meridith T. Robins|Juan-Manuel Arias|Jesus-Alberto Olivares-Reyes|Richard M. van Rijn|Jose-Antonio Arias-Montano Cinvestav-IPN;|Purdue University;|Facultad de Estudios Superiores Iztacala UNAM;|Cinvestav IPN
http://dx.doi.org/10.1101/171751 2017-08-02 Bioinformatics CC BY The harmonic mean p-value and model averaging by mean maximum likelihood Daniel John Wilson University of Oxford
http://dx.doi.org/10.1101/171728 2017-08-02 Ecology Evaluating anthropogenic noise impacts on animals in natural areas Alexander C. Keyel|Sarah E. Reed|Kathryn Nuessly|Elizeth Cinto-Meija|Jesse R. Barber|George Wittemyer Colorado State University;|Colorado State University and Wildlife Conservation Society;|U.S. National Park Service;|Boise State University;|Boise State Unviersity
http://dx.doi.org/10.1101/171777 2017-08-02 Genetics Adiposity QTL Adip20 decomposes into at least four loci when dissected using congenic strains Cailu Lin|Brad D. Fesi|Michael Marquis|Natalia P. Bosak|Anna Lysenko|Mohammed Amin Koshnevisan|Fujiko F. Duke|Maria L. Theodorides|Theodore M. Nelson|Amanda H. McDaniel|Mauricio Avigdor|Charles J. Arayata|Lauren Shaw|Alexander A. Bachmanov|Danielle R. Reed Monell Chemical Senses Center
http://dx.doi.org/10.1101/171942 2017-08-03 Bioinformatics Pathway centrality in protein interaction networks identifies functional mediators of pulmonary disease Jisoo Park|Benjamin J. Hescott|Donna K. Slonim Tufts University
http://dx.doi.org/10.1101/171983 2017-08-03 Biophysics CC BY-NC-ND Spot-On: robust model-based analysis of single-particle tracking experiments Anders S. Hansen|Maxime Woringer|Jonathan B. Grimm|Luke D. Lavis|Robert Tjian|Xavier Darzacq UC Berkeley; HHMI;|UC Berkeley; Institut Pasteur; Sorbonne University;|Janelia Research Campus;|UC Berkeley
http://dx.doi.org/10.1101/172056 2017-08-03 Microbiology CC BY-NC-ND Anti-infective potential of a quorum modulatory polyherbal extract (Panchvalkal) against certain pathogenic bacteria Pooja Patel|Chinmayi Joshi|Hanmanthrao Palep|Vijay Kothari Nirma University;|Dr. Palep's Medical Research Foundation
http://dx.doi.org/10.1101/172080 2017-08-03 Neuroscience Heritable cognitive and psychopathology factors in youth are predicted by brain fronto-temporal white matter pathway Dag Alnaes|Tobias Kaufmann|Nhat Trung Doan|Aldo Cordova-Palomera|Yunpeng Wang|Francesco Bettella|Torgeir Moberget|Ole A. Andreassen|Lars T. Westlye Oslo University Hospital
http://dx.doi.org/10.1101/172064 2017-08-03 Genetics Optimization of selective phenotyping and population design for genomic prediction Nicolas Heslot|Vitaliy Feoktistov Limagrain
http://dx.doi.org/10.1101/172197 2017-08-03 Biophysics CC BY Biophysical determinants of mutational robustness in a viral molecular fitness landscape Manasi A. Pethe|Aliza B. Rubenstein|Dmitri Zorine|Sagar D. Khare Rutgers University
http://dx.doi.org/10.1101/171850 2017-08-03 Ecology CC BY-NC-ND Fog and live fuel moisture in coastal California shrublands Nathan Emery|Carla M. D'Antonio|Christopher J. Still Michigan State University;|University of California Santa Barbara;|Oregon State University
http://dx.doi.org/10.1101/172189 2017-08-03 Neuroscience CC BY-NC-ND Convex Optimized Population Receptive Field (CO-pRF) Mapping David Slater|Lester Melie-Garcia|Stanislaw Adaszewski|Kendrick Kay|Antoine Lutti|Bogdan Draganski|Ferath Kherif LREN, Department of Clinical Neurosciences, Lausanne University Hospital, Switzerland;|Department of Radiology, University of Minnesota Twin Cities, Minneapolis, Minnesota, USA
http://dx.doi.org/10.1101/171488 2017-08-03 Neuroscience CC BY Role of KCC2-Dependent Potassium Efflux in 4-Aminopyridine-Induced Epileptiform Synchronization Oscar C Gonzalez|Zahra Shiri|Giri P Krishnan|Timothy L Myers|Sylvian Williams|Massimo Avoli|Maxim Bazhenov University of California, San Diego;|McGill University;|University of California, Riverside;|UC San Diego
http://dx.doi.org/10.1101/172148 2017-08-03 Neuroscience CC BY Seizure epicenter depth and translaminar field potential synchrony underlie complex variations in tissue oxygenation during ictal initiation. Samuel S. Harris|Luke W. Boorman|Aneurin J. Kennerley|Paul S. Sharp|Chris Martin|Peter Redgrave|Theodore H. Schwartz|Jason Berwick University of Sheffield;|Weill Cornell Medical College
http://dx.doi.org/10.1101/172114 2017-08-03 Biochemistry CC BY-NC-ND An improved method for the expression screening of membrane protein-GFP fusions in yeast Darren Baldock|Judith Sheldon|Ravi Tailor|Katherine Green|John Ray|Shradha Singh|Kathryn Brocklehurst Syngenta
http://dx.doi.org/10.1101/172023 2017-08-03 Biophysics Symmetric, explicit numerical integrator for molecular dynamics equations of motion with a generalized friction Ikuo Fukuda Osaka University
http://dx.doi.org/10.1101/171686 2017-08-03 Programming of neural progenitors of the adult subependymal zone towards a glutamatergic identity by neurogenin2 Sophie Peron|Leo M. Miyakoshi|Monika S. Brill|Felipe Ortega|Marisa Karow|Sergio Gascon|Benedikt Berninger University Medical Center Johannes Gutenberg University Mainz;|Ludwig Maximilians University Munich;|Technical University of Munich
http://dx.doi.org/10.1101/172072 2017-08-03 Cell Biology The contributions of the actin machinery to endocytic membrane bending and vesicle formation Andrea Picco|Wanda Kukulski|Hetty E. Manenschijn|Tanja Specht|John A. G. Briggs|Marko Kaksonen University of Geneva;|MRC Laboratory of Molecular Biology;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/172122 2017-08-03 Neuroscience CC BY-NC-ND Midfrontal theta and pupil dilation parametrically track subjective conflict (but also surprise) during intertemporal choice Hause Lin|Blair Saunders|Cendri A. Hutcherson|Michael Inzlicht University of Toronto
http://dx.doi.org/10.1101/171926 2017-08-03 Neuroscience New waves: Rhythmic electrical field stimulation systematically alters spontaneous slow dynamics across mouse neocortex Anastasia Greenberg|Javad Karimi Abadchi|Clayton T. Dickson|Majid Mohajerani University of Alberta;|University of Lethbridge
http://dx.doi.org/10.1101/171892 2017-08-03 Neuroscience CC BY-NC-ND T1 white/gray contrast as a predictor of chronological age, and an index of cognitive performance John D Lewis|Alan C Evans|Jussi Tohka Montreal Neurological Institute;|University of Eastern Finland
http://dx.doi.org/10.1101/171884 2017-08-03 Ecology The structured demography of open populations in fluctuating environments Sebastian Schreiber|Jacob Moore University of California, Davis
http://dx.doi.org/10.1101/172007 2017-08-03 Bioengineering System-level studies of a cell-free transcription-translation platform for metabolic engineering Yong Y. Wu|Hirokazu Sato|Hongjun Huang|Stephanie J. Culler|Julia Khandurina|Harish Nagarajan|Tae Hoon Yang|Stephen Van Dien|Richard M. Murray California Institute of Technology;|Genomatica;|Caltech
http://dx.doi.org/10.1101/171991 2017-08-03 Developmental Biology CC BY-NC-ND Effect of 40Gy irradiation on the ultrastructure, biochemistry, morphology and cytology during spermatogenesis in the southern green stink bug Nezara viridula (Hemiptera: Pentatomidae) Lloyd Stringer|Duane Harland|Jan E. Grant|John Laban|David Suckling The New Zealand Institute for Plant and Food Research Ltd.;|AgResearch;|Better Border Biosecurity;|The Institute of Environmental Science and Research
http://dx.doi.org/10.1101/171835 2017-08-03 Empirical evidence reveals the phase diagram of vegetation patterns in Mediterranean drylands Fernando Meloni|Gilberto Medeiros Nakamura|Cristiano Roberto Fabri Granzotti|Alexandre Souto Martinez FFCLRP - Universidade of Sao Paulo
http://dx.doi.org/10.1101/166975 2017-08-03 Genomics A Model for Genome-First Care: Returning Secondary Genomic Findings to Participants and Their Healthcare Providers in a Large Research Cohort Marci Lynn Barr Schwartz|Cara Zayac McCormick|Amanda L. Lazzeri|D'Andra M. Lindbuchler|Miranda L. G. Hallquist|Kandamurugu Manickam|Adam H. Buchanan|Alanna Kulchak Rahm|Monica A. Giovanni|Lauren Frisbie|Carroll N. Flansburg|F. Daniel Davis|Amy C. Sturm|Christine Nicastro|Matthew S. Lebo|Heather Mason-Suares|Lisa Marie Mahanta|David J. Carey|Janet L. Williams|Marc S. Williams|David H. Ledbetter|W. Andrew Faucett|Michael F. Murray Geisinger Health System;|Laboratory for Molecular Medicine
http://dx.doi.org/10.1101/171975 2017-08-03 Microbiology First Draft Genome Sequence of the Pathogenic Fungus Lomentospora prolificans (formerly Scedosporium prolificans) Ruibang Luo|Aleksey Zimin|Rachael Workman|Yunfan Fan|Geo Pertea|Nina Grossman|Maggie Wear|Bei Jia|Heather Miller|Arturo Casadevall|Winston Timp|Sean Zhang|Steven Salzberg Johns Hopkins University
http://dx.doi.org/10.1101/170993 2017-08-03 Bioinformatics Bioinformatics Core Competencies for Undergraduate Life Sciences Education Melissa A. Wilson Sayres|Charles Hauser|Michael Sierk|Srebrenka Robic|Anne G. Rosenwald|Todd M. Smith|Eric W. Triplett|Jason J. Williams|Elizabeth Dinsdale|William Morgan|James M. Burnette|Sam S. Donovan|Jennifer C. Drew|Sarah C. R. Elgin|Edison R. Fowlks|Sebastian Galindo-Gonzalez|Anya L. Goodman|Neal F. Grandgenett|Carlos C. Goller|John Jungck|Jeffrey D. Newman|William R. Pearson|Elizabeth Ryder|Rafael Tosado-Acevedo|William Tapprich|Tammy C. Tobin|Arlin Toro-Martinez|Lonnie R. Welch|Robin Wright|David Ebenbach|Kimberly C. Olney|Mindy McWilliams|Mark A. Pauley Arizona State University;|St. Edward's University;|Saint Vincent College;|Agnes Scott College;|Georgetown University;|Digital World Biology;|University of Florida;|Cold Spring Harbor Laboratory;|San Diego State University;|College of Wooster;|University of California, Riverside;|University of Pittsburgh;|Washington University in St. Louis;|Hampton University;|California Polytechnic State University;|University of Nebraska at Omaha;|North Carolina State University;|University of Delaware;|Lycoming College;|University of Virginia;|Worcester Polytechnic Institute;|Centers for Disease Control and Prevention;|Susquehanna University;|Inter American University of Puerto Rico, San Germán Campus;|Ohio University;|University of Minnesota
http://dx.doi.org/10.1101/171934 2017-08-03 Microbiology CC BY-NC A dynamic microbial community with high functional redundancy inhabits the cold, oxic subseafloor aquifer Benjamin Tully|Charles Geoff Wheat|Brian T Glazer|Julie Huber University of Southern California;|University of Alaska Fairbanks;|University of Hawaii;|Woods Hole Oceanographic Institution
http://dx.doi.org/10.1101/171694 2017-08-03 Genomics Intra- and inter-chromosomal chromatin interactions mediate genetic effects on regulatory networks Olivier Delaneau|Marianna Zazhytska|Christelle Borel|Cedric Howald|Sunil Kumar|Halit Ongen|Konstantin Popadin|Daniel Marbach|Giovanna Ambrosini|Deborah Bielser|David Hacker|Luciana Romano-Palumbo|Pascal Ribaux|Michael Wiederkehr|Emilie Falconnet|Philipp Bucher|Sven Bergmann|Stylianos Antonarakis|Alexandre Reymond|Emmanouil Dermitzakis Department of Genetic Medicine and Development, Univ. of Geneva, Geneva, Switzerland;|Ctr. for Integrative Genomics, Faculty of Biology & Medicine, Univ. of Lausanne, Switzerland;|Department of Genetic Medicine & Development, University of Geneva, Geneva, Switzerland;|Swiss Institute for Experimental Cancer Research, EPFL, Lausanne, Switzerland;|Department of Computational Biology, University of Lausanne, Switzerland;|Protein Expression Core Facility, School of Life Sciences, EPFL, Lausanne, Switzerland
http://dx.doi.org/10.1101/171819 2017-08-02 Molecular Biology CC BY C-BERST: Defining subnuclear proteomic landscapes at genomic elements with dCas9-APEX2 Xin D. Gao|Li-Chun Tu|Aamir Mir|Job Dekker|Scott A. Shaffer|Lihua Julie Zhu|Scot A. Wolfe|Erik J. Sontheimer UMass Medical School
http://dx.doi.org/10.1101/171868 2017-08-02 Plant Biology Heterologous expression of the immune receptor EFR in Medicago truncatula reduces pathogenic infection, but not rhizobial symbiosis Sebastian Pfeilmeier|Jeoffrey George|Alice Morel|Sonali Roy|Matthew Smoker|Lena Stansfeld|Allan Downie|Nemo Peeters|Jacob Malone|Cyril Zipfel The Sainsbury Laboratory;|INRA, Laboratoire des Interactions Plantes Micro-organismes (LIPM);|John Innes Centre
http://dx.doi.org/10.1101/172270 2017-08-03 CC BY Linear relationship between peak and season-long abundances in insects Ksenia S. Onufrieva|Alexey V. Onufriev Virginia Tech
http://dx.doi.org/10.1101/172296 2017-08-03 CC BY Bots for Software-Assisted Analysis of Image-Based Transcriptomics Marcelo Cicconet|Daniel R. Hochbaum|David Richmond|Bernardo L. Sabatini Harvard Medical School
http://dx.doi.org/10.1101/171918 2017-08-03 CC BY-NC-ND A quantitative chemotherapy genetic interaction map reveals new factors associated with PARP inhibitor resistance Hsien-Ming Hu|Xin Zhao|Swati Kaushik|Lilliane Robillard|Antoine Barthelet|Kevin K. Lin|Andy Simmons|Mitch Raponi|Thomas C. Harding|Sourav Bandyopadhyay University of California, San Francisco;|Clovis Oncology
http://dx.doi.org/10.1101/172049 2017-08-03 CC BY Confidence-dependent accumulation of past decision variables biases perceptual choice Anke Braun|Anne E. Urai|Tobias H. Donner University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/172304 2017-08-03 CC BY-NC-ND Ingredients in Victoria's Secret Bombshell and Ivanka Trump eaux de parfums that repel mosquitoes Fangfang Zeng|Pingxi Xu|Kaiming Tan|Paulo Zarbin|Walter Leal UC Davis;|Universidade Federal do Parana
http://dx.doi.org/10.1101/172320 2017-08-03 CC BY Dissociable components of the reward circuit are involved in appraisal versus choice Amitai Shenhav|Uma R. Karmarkar Brown University;|University of California, San Diego
http://dx.doi.org/10.1101/172239 2017-08-03 Ageing synaptic vesicles are inactivated by contamination with SNAP25 Sven Truckenbrodt|Abhiyan Viplav|Sebastian Jaehne|Angela Vogts|Annette Denker|Hanna Wildhagen|Eugenio F. Fornasiero|Silvio O. Rizzoli University of Goettingen Medical Center;|Leibniz Institute for Baltic Sea Research
http://dx.doi.org/10.1101/116871 2017-08-03 Bioinformatics CC BY-ND Collection and Storage of HLA NGS Genotyping Data for the 17th International HLA and Immunogenetics Workshop Chia-Jung Chang|Kazutoyo Osoegawa|Robert P. Milius|Martin Maiers|Wenzhong Xiao|Marcelo A. Fernandez-Vina|Steven J. Mack Stanford Genome Technology Center, Palo Alto, CA, USA;|Histocompatibility, Immunogenetics & Disease Profiling Laboratory, Stanford Blood Center;|Bioinformatics Research, National Marrow Donor Program, Minneapolis, MN, USA;|Massachusetts General Hospital and Shriners Hospital for Children, Boston, MA, USA;|Department of Pathology, Stanford University Medical Center, Stanford, CA, USA;|Center for Genetics, Children's Hospital Oakland Research Institute, Oakland, CA, USA
http://dx.doi.org/10.1101/172015 2017-08-03 Bioinformatics CC BY Applying expression profile similarity for discovery of patient-specific functional mutations Guofeng Meng CAS-MPG Partner Institute of Computational Biology
http://dx.doi.org/10.1101/172288 2017-08-03 Developmental Biology CC BY Wilms Tumor 1b defines a wound-specific sheath cell subpopulation associated with notochord repair Juan Carlos Lopez-Baez|Zhiqiang Zeng|Witold Rybski|Leonie F. A. Huitema|Alessandro Brombin|Rodney M. Dale|Koichi Kawakami|Christoph Englert|Stefan Schulte-Merker|Nicholas D. Hastie|E. Elizabeth Patton MRC Human Genetics Unit;|Hubrecht Institute;|Loyola University Chicago Quinlan;|National Institute of Genetics;|Department of Molecular Genetics;|Institute for Cardiovascular Organogenesis and Regeneration;|The University of Edinburgh
http://dx.doi.org/10.1101/171900 2017-08-03 Cell Biology Kinesin-6 KIF20B is required for efficient cytokinetic furrowing and timely abscission in human cells Kerstin M Janisch|Katrina C McNeely|Joseph M Dardick|Samuel H Lim|Noelle D Dwyer University of Virginia School of Medicine
http://dx.doi.org/10.1101/172379 2017-08-04 CC BY Protein phosphatase V ensures timely cell cycle remodeling during the mid-blastula transition in Drosophila Boyang Liu|Hung-wei Sung|Ingo Gregor|Arno Muller|Joerg Grosshans Univ. Göttingen;|Univ. Dundee
http://dx.doi.org/10.1101/172536 2017-08-04 Genomics Genomic investigation of an outbreak of carbapenemase-producing Enterobacter cloacae: long-read sequencing reveals the context of blaIMP4 on a widely distributed IncHI2 plasmid Leah W. Roberts|Patrick N. A. Harris|Nouri L. Ben Zakour|Brian M. Forde|Elizabeth Catchpoole|Mitchell Stanton-Cook|Minh-Duy Phan|Hanna Sidjabat|Haakon Bergh|Claire Heney|Jayde A. Gawthorne|Jeffrey Lipman|Anthony Allworth|Kok-Gan Chan|Teik Min Chong|Wai-Fong Yin|Mark A. Schembri|David L. Paterson|Scott Beatson School of Chemistry and Molecular Biosciences, University of Queensland;|The University of Queensland, UQ Centre for Clinical Research;|School of Chemistry and Molecular Biosciences, The University of Queensland;|Pathology Queensland, Central Laboratory, Brisbane, QLD;|Burns Trauma and Critical Care Research Centre, The University of Queensland;|Infectious Disease Unit, Royal Brisbane & Womens Hospital, Brisbane, QLD;|Division of Genetics and Molecular Biology, University of Malaya, Kuala Lumpur, Malaysia;|Wesley Medical Research, The Wesley Hospital, Auchenflower, QLD;|The University of Queensland
http://dx.doi.org/10.1101/172486 2017-08-04 Cancer Biology CC BY SVclone: inferring structural variant cancer cell fraction Marek Cmero|Cheng Soon Ong|Ke Yuan|Jan Schroder|Kangbo Mo|Niall M. Corcoran|Anthony Troy Papenfuss|Christopher M. Hovens|Florian Markowetz|Geoff Macintyre Royal Melbourne Hospital and University of Melbourne, Parkville, Australia;|Data61, Canberra, Australia;|Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge;|The Walter and Eliza Hall Institute of Medical Research;|The University of Melbourne, Parkville, Australia;|-;|University of Cambridge
http://dx.doi.org/10.1101/172601 2017-08-04 Microbiology CC BY Multi-clonal evolution of MDR/XDR M. tuberculosis in a high prevalence setting in Papua New Guinea over three decades Arnold Bainomugisa|Evelyn Lavu|Stenard Hiashiri|Suman Majumdar|Alice Honjepari|Rendi Moke|Paison Dakulala|Grant A. Hill-Cawthorne|Sushil Pandey|Ben J. Marais|Chris Coulter|Lachlan J. M. Coin Institute for Molecular Biosciences, University of Queensland, Brisbane, Australia;|Central Public Health Laboratory, Port Moresby, Papua New Guinea;|Western Province Health office, Western Province, Papua New Guinea;|Burnet Institute, Melbourne, Australia;|National Department of Health, Port Moresby, Papua New Guinea;|School of Public Health, University of Sydney, Sydney, Australia;|Queensland Mycobacterium Reference Laboratory, Pathology Queensland, Brisbane, Australia
http://dx.doi.org/10.1101/172445 2017-08-04 Neuroscience CC BY-NC-ND Domain-Specific Patterns of Activity Support Metacognition in Human Prefrontal Cortex Jorge Morales|Hakwan Lau|Stephen M. Fleming Columbia University;|University of California Los Angeles;|University College London
http://dx.doi.org/10.1101/172213 2017-08-04 Cell Biology Regulation of mesenchymal stem cell function by TGFβ-1 on mast cell extracellular vesicles — role of endosomal retention Yanan Yin|Ganesh Vilas Shelke|Su Chul Jang|Cecilia Lasser|Stefan Wennmalm|Hans Jurgen Hoffmann|Jonas Nilsson|Li Li|Yong Song Gho|Jan Lotvall Laboratory Medicine, Shanghai First Peoples Hospital, Shanghai, China;|Krefting Research Centre, Inst. of Medicine at the Sahlgrenska Academy, Univ. of Gothenburg;|Codiak BioSciences Inc., 500 Technology Square, 9th floor, Cambridge, MA 02139, USA;|Royal Inst. of Technology-KTH, Dept. of Applied Physics, Experimental Biomolecular Physics;|Aarhus University Hospital and Aarhus University;|Department of Surgery, Institute of Clinical Sciences, University of Gothenburg;|Dept. of Life Sciences, Pohang University of Science & Technology, Pohang, Gyeongbuk;|Krefting Research Centre, Institute of Medicine, University of Gothenburg, Sweden
http://dx.doi.org/10.1101/172429 2017-08-04 Developmental Biology ShhN-mediated activation of Smo in the absence of Ptch1/2 function Catalina Casillas|Henk Roelink UC Berkeley
http://dx.doi.org/10.1101/172593 2017-08-04 Cell Biology Clearance of senescent decidual cells by uterine natural killer cells drives endometrial remodeling during the window of implantation Paul J. Brighton|Yojiro Maruyama|Katherine Fishwick|Pavle Vrljicak|Shreeya Tewary|Risa Fujihara|Joanne Muter|Emma S. Lucas|Taihei Yamada|Laura Woods|Raffaella Lucciola|Yie Hou Lee|Satoru Takeda|Sascha Ott|Myriam Hemberger|Siobhan Quenby|Jan J. Brosens University of Warwick;|University of Cambridge;|Duke-NUS Medical School;|Juntendo University
http://dx.doi.org/10.1101/172403 2017-08-04 Bioinformatics Reverse Association Of Single Cells To Rheumatoid Arthritis Accounting For Mixed Effects Identifies An Expanded CD27- HLA-DR+ Effector Memory CD4+ T Cell Population Chamith Y. Fonseka|Deepak A. Rao|Nikola C. Teslovich|Susan K. Hannes|Kamil Slowikowski|Michael F. Gurish|Laura T. Donlin|Michael E. Weinblatt|Elena M. Massarotti|Jonathan S. Coblyn|Simon M. Helfgott|Derrick J. Todd|Vivian P. Bykerk|Elizabeth W. Karlson|Joerg Ermann|Yvonne C. Lee|Michael B. Brenner|Soumya Raychaudhuri Brigham and Womens Hospital and Harvard Medical School;|Hospital for Special Surgery;|Hospital for Special Surgery and Weill Cornell Medical College
http://dx.doi.org/10.1101/172627 2017-08-04 Synthetic Biology CC BY-ND Cell-free prediction of protein expression costs for growing cells Olivier Borkowski|Carlos Bricio Garberi|Michaela Murgiano|Guy-Bart Stan|Tom Ellis Imperial College London
http://dx.doi.org/10.1101/169763 2017-08-04 Systems Biology CC BY-NC-ND Piper longum Linn: A review of its phytochemicals and their network pharmacological evaluation Neha Choudhary|Vikram Singh Central University of Himachal Pradesh, Dharamshala;|Central University of Himachal Pradesh
http://dx.doi.org/10.1101/170613 2017-08-04 Neuroscience CC BY-NC-ND Catecholamines, not acetylcholine, alter cortical and perceptual dynamics in line with increased excitation inhibition ratio Thomas Pfeffer|Arthur-Emil Avramiea|Guido Nolte|Andreas Karl Engel|Klaus Linkenkaer-Hansen|Tobias H. Donner University Medical Center Hamburg-Eppendorf;|Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/167544 2017-08-04 Bioinformatics CC BY-NC-ND Substrate binding and specificity appear as major forces in the functional diversification of eqolisins. Maria Victoria Revuelta|Nicolas Stocchi|Priscila Ailin Lanza Castronuovo|Mariano Vera|Arjen ten Have IIB-CONICET-UNMdP;|QUIAMM-INBIOTEC-CONICET
http://dx.doi.org/10.1101/172619 2017-08-04 Neuroscience CC BY-NC-ND Multivariate pattern analysis for MEG: a comprehensive comparison of dissimilarity measures Matthias Guggenmos|Philipp Sterzer|Radoslaw M. Cichy Charite University Medicine Berlin;|Free University Berlin
http://dx.doi.org/10.1101/172460 2017-08-04 Bioinformatics Uncovering Medical Insights from Vast Amounts of Biomedical Data in Clinical Case Reports Yijiang Zhou|David A. Liem|Jessica M. Lee|Quan Cao|Brian Bleakley|J. Harry Caufield|Sanjana Murali|Wei Wang|Li Zhang|Alex Bui|Yizhou Sun|Karol E. Watson|Jiawei Han|Peipei Ping The NIH BD2K Center of Excellence in Biomedical Computing, Dept. of Physiology, UCLA;|NIH BD2K Ctr. of Excellence in Biomedical Computing, Depts. of Physiology, Medicine, UCLA;|NIH BD2K Center of Excellence in Biomedical Computing, Department of Physiology, UCLA;|NIH BD2K Ctr. of Excellence in Biomedical Computing, Dept. of Computer Science, UCLA;|Department of Cardiology, First Affiliated Hospital, Zhejiang University School of Medicine;|NIH BD2K Center of Excellence in Biomedical Computing, Department of Radiology, UCLA;|NIH BD2K Ctr. of Excellence in Biomedical Computing, Depts. of Medicine, Cardiology, UCLA;|NIH BD2K KnowEng Ctr., Dept. of Computer Science, Univ. of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/133199 2017-08-04 Bioinformatics CC BY SEA: The Small RNA Expression Atlas Raza-Ur Rahman|Abdul Sattar|Maksims Fiosins|Abhivyakti Gautam|Daniel Sumner Magruder|Joern Bethune|Sumit Madan|Juliane Fluck|Stefan Bonn DZNE;|Fraunhofer SCAI
http://dx.doi.org/10.1101/172544 2017-08-04 Zoology CC BY-NC-ND Mineral analysis of complete dog and cat foods in the UK and compliance with European guidelines Mike Davies|Lucy Jones|Rebecca Alborough|Claire Davis|Catherine Williams|David S. Gardner School of Veterinary Medicine and Science, University of Nottingham
http://dx.doi.org/10.1101/172478 2017-08-04 Biophysics Liver physiological T1rho dynamics associated with age and gender Yi-Xiang Wang|Min Deng|Jiang Li|Anthony Kwok|Eric Liu|Weitian Chen The Chinese University of Hong Kong;|Shanghai Medical College, Fudan University
http://dx.doi.org/10.1101/172098 2017-08-04 Neuroscience Task Demands Predict a Dynamic Switch in the Content of Awake Hippocampal Replay H. Freyja Olafsdottir|Francis Carpenter|Caswell Barry University College London
http://dx.doi.org/10.1101/172841 2017-08-04 Mouse MRI shows brain areas larger in males emerge earlier than those larger in females Lily R. Qiu|Darren J. Fernandes|Kamila U. Szulc|Jun Dazai|Brian J. Nieman|Dan H. Turnbull|Mark R. Palmert|Jason P. Lerch Hospital For Sick Children;|University of Toronto;|Skirball Institute of Biomolecular Medicine;|Mouse Imaging Centre;|Hospital for Sick Children
http://dx.doi.org/10.1101/172726 2017-08-04 Modulation of host learning in Aedes aegypti mosquitoes Clement Vinauger|Chloe Lahondere|Gabriella Wolff|Lauren Locke|Jessica Liaw|Jay Parrish|Omar Akbari|Michael Dickinson|Jeffrey Riffell University of Washington;|UC Riverside;|California Institute of Technology
http://dx.doi.org/10.1101/172692 2017-08-04 Nonconsumptive predator effects on prey demography: Dogwhelk cues decrease benthic mussel recruitment Sonja M. Ehlers|Ricardo A. Scrosati|Julius A. Ellrich St. Francis Xavier University
http://dx.doi.org/10.1101/172387 2017-08-04 CC BY-NC A functioning model of human time perception Warrick Roseboom|Zafeirios Fountas|Kyriacos Nikiforou|David Bhowmik|Murray Shanahan|Anil K. Seth University of Sussex;|Imperial College London
http://dx.doi.org/10.1101/172759 2017-08-04 Repeated vapor inhalation of Δ9-tetrahydrocannabinol induces tolerance to hypothermia in female rats Jacques Nguyen|K. Creehan|Yanabel Grant|Sophia Vandewater|Maury Cole|Michael A. Taffe The Scripps Research Institute;|La Jolla Alcohol Research, Inc.
http://dx.doi.org/10.1101/172353 2017-08-04 Very high density EEG elucidates spatiotemporal aspects of early visual processing Amanda K. Robinson|Praveen Venkatesh|Matthew J. Boring|Michael J. Tarr|Pulkit Grover|Marlene Behrmann Carnegie Mellon University;|University of Pittsburgh
http://dx.doi.org/10.1101/172775 2017-08-04 CC BY-NC Geobacter sulfurreducens extracellular multiheme cytochrome PgcA facilitates respiration to Fe(III) oxides but not electrodes Lori A. Zacharoff|Dana Morrone|Daniel R. Bond University of Southern California;|St. Louis College of Pharmacy;|University of Minnesota
http://dx.doi.org/10.1101/172338 2017-08-04 CC BY-NC-ND Cortical interneurons ensure maintenance of frequency tuning following adaptation. Ryan G. Natan|Winnie Rao|Maria Neimark Geffen University of Pennsylvania
http://dx.doi.org/10.1101/172494 2017-08-04 CC BY-NC-ND T-cell receptor sequencing of early stage breast cancer tumors identifies altered clonal structure of the T-cell repertoire John F. Beausang|Amanda J. Wheeler|Natalie H. Chan|Violet R. Hanft|Frederick M. Dirbas|Stefanie S. Jeffrey|Stephen R. Quake Stanford University
http://dx.doi.org/10.1101/172809 2017-08-04 Structural Basis of Mitochondrial Receptor Binding and GTP Driven Conformational Constriction by Dynamin-Related Protein 1 Raghav Kalia|Ray Y.-R. Wang|Ali Yusuf|Paul V. Thomas|David A. Agard|Janet M. Shaw|Adam Frost University of Utah, University of California San Francisco;|University of California San Francisco;|University of Utah
http://dx.doi.org/10.1101/172742 2017-08-04 The RNA-binding site of poliovirus 3C protein doubles as a phosphoinositide-binding domain Djoshkun Shengjuler|Yan Mei Chan|Simou Sun|Ibrahim M. Moustafa|Zhen-Lu Li|David W. Gohara|Matthias Buck|Paul S. Cremer|David D. Boehr|Craig E. Cameron The Pennsylvania State University;|Case Western Reserve University;|St. Louis University School of Medicine
http://dx.doi.org/10.1101/172718 2017-08-04 In situ genome editing method suitable for routine generation of germline modified animal models Masato Ohtsuka|Hiromi Miura|Naomi Arifin|Shingo Nakamura|Kenta Wada|Channabasavaiah Gurumurthy|Masahiro Sato Tokai University;|National Defense Medical College;|Tokyo University of Agriculture;|UNMC;|Kagoshima University
http://dx.doi.org/10.1101/172650 2017-08-04 CC BY-NC-ND NmeCas9 is an intrinsically high-fidelity genome editing platform Nadia Amrani|Xin D. Gao|Pengpeng Liu|Ankit Gupta|Alireza Edraki|Raed Ibraheim|Kanae E. Sasaki|Lihua Julie Zhu|Scot A. Wolfe|Erik J. Sontheimer UMass Medical School
http://dx.doi.org/10.1101/172825 2017-08-04 CC BY-NC-ND GTP Hydrolysis by eIF5B in the Last Step of Translation Initiation Is Activated by a Rotation of the Small Ribosomal Subunit. Israel S. Fernandez|V. Ramakrishnan Columbia University;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/172262 2017-08-04 CC BY-NC-ND Capture-based DNA methylation sequencing facilitates diagnosis and reveals potential pathogenic mechanisms in teratogenic diabetes exposure Katharina V. Schulze|Amit Bhatt|Mahshid S. Azamian|Nathan C. Sundgren|Gladys Zapata|Patricia Hernandez|Karin Fox|Jeffrey R. Kaiser|John W. Belmont|Neil A. Hanchard Baylor College of Medicine
http://dx.doi.org/10.1101/172700 2017-08-04 Bioinformatics CC BY-NC-ND Integrative DNA copy number detection and genotyping from sequencing and array-based platforms Zilu Zhou|Weixin Wang|Li-San Wang|Nancy Zhang University of Pennsylvania;|Department of Pathology and Laboratory Medicine, University of Pennsylvania
http://dx.doi.org/10.1101/172635 2017-08-04 Molecular Biology Integrator Subunit 4 is a 'Symplekin-like' Scaffold that Associates with INTS9/11 to Form the Integrator Cleavage Module Todd R. Albrecht|Sergey P. Shevtsov|Lauren G. Mascibroda|Natoya J. Peart|Iain A. Sawyer|Miroslav Dundr|Eric J. Wagner University of Texas Medical Branch at Galveston;|Rosalind Franklin University
http://dx.doi.org/10.1101/172668 2017-08-04 Cancer Biology Whole chromosome loss in tetraploid cells confers tumorigenic potential in a mouse allograft model Rozario Thomas|Daniel H. Marks|Yvette Chin|Robert Benezra Memorial Sloan Kettering
http://dx.doi.org/10.1101/172221 2017-08-04 Epidemiology CC BY-NC-ND Climate change drives uncertain global shifts in potential distribution and seasonal risk of Aedes-transmitted viruses Sadie J. Ryan|Colin J. Carlson|Erin A. Mordecai|Leah R. Johnson University of Florida;|University of California Berkeley;|Stanford University;|Virginia Polytechnic and State University
http://dx.doi.org/10.1101/171140 2017-08-04 Epidemiology CC BY-NC Targeting Vaccinations for the Licensed Dengue Vaccine: Considerations for Serosurvey Design Natsuko Imai|Neil Ferguson Imperial College London
http://dx.doi.org/10.1101/172247 2017-08-04 Epidemiology CC BY-NC-ND The Impact of Education on Myopia: A bidirectional Mendelian randomisation analysis in UK Biobank Edward J. Mountjoy|Neil M. Davies|Denis Plotnikov|George Davey Smith|Santiago Rodriguez|Cathy Williams|Jeremy A. Guggenheim|Denize Atan University of Bristol;|Cardiff University
http://dx.doi.org/10.1101/171702 2017-08-04 Neuroscience CC BY-NC-ND From brain noise to syntactic structures: A formal proposal within the oscillatory rhythms perspective Mirko Grimaldi Centro di Ricerca Interdisciplinare sul Linguaggio (CRIL), University of Salento. Lecce, Italy
http://dx.doi.org/10.1101/170654 2017-08-04 Epidemiology CC BY-NC-ND Centenarian Hotspots in Denmark Anne Vinkel Hansen|Laust Hvas Mortensen|Rudi Westendorp Statistics Denmark;|University of Copenhagen
http://dx.doi.org/10.1101/172569 2017-08-04 Epidemiology CC BY A New Mechanism for Cost Savings in NHS Prescribing: Minimising "Price-Per-Unit" Richard Croker|Alex J. Walker|Seb Bacon|Helen Curtis|Lisa French|Ben Goldacre University of Oxford
http://dx.doi.org/10.1101/169813 2017-08-04 Clinical Trials Protection of the human gut microbiome from antibiotics Jean de Gunzburg|Amine Ghozlane|Annie Ducher|Emmanuelle Le Chatelier|Xavier Duval|Etienne Ruppe|Laurence Armand-Lefevre|Frederique Sablier-Gallis|Charles Burdet|Loubna Alavoine|Elisabeth Chachaty|Violaine Augustin|Marina Varastet|Florence Levenez|Sean Kennedy|Nicolas Pons|France Mentre|Antoine Andremont Da Volterra;|Metagenopolis, INRA;|IAME, INSERM;|University Paris Diderot;|Institut Gustave Roussy
http://dx.doi.org/10.1101/172908 2017-08-05 Anti-diabetic drug binding site in KATP channels revealed by Cryo-EM Gregory M. Martin|Balamurugan Kandasamy|Frank DiMaio|Craig Yoshioka|Show-Ling Shyng Oregon Health & Science University;|University of Washington
http://dx.doi.org/10.1101/172916 2017-08-05 CC BY Anisotropic Cellular Mechanoresponse for Radial Size Maintenance of Developing Epithelial Tubes Tsuyoshi Hirashima|Taiji Adachi Kyoto University, Japan
http://dx.doi.org/10.1101/172957 2017-08-05 CC BY-NC-ND CBFβ initiates the hematopoietic stem cell program without obligatory binding to RUNX Aldo Ciau-Uitz|Philip Pinheiro|Arif Kirmizitas|Claire Fernandez|Roger Patient MRC Molecular Haematology Unit, Weatherall Institute of Molecular Medicine, Univ. of Oxford
http://dx.doi.org/10.1101/172866 2017-08-06 Neuroscience CC BY-NC-ND Replicability of time-varying connectivity patterns in large resting state fMRI samples Anees Abrol|Eswar Damaraju|Robyn L. Miller|Julia M. Stephen|Eric D. Claus|Andrew R. Mayer|Vince D. Calhoun The Mind Research Network
http://dx.doi.org/10.1101/172924 2017-08-06 Biophysics CC BY Microbial mutualism at a distance Francois J. Peaudecerf|Frederick Bunbury|Vaibhav Bhardwaj|Martin A. Bees|Alison G. Smith|Raymond E. Goldstein|Ottavio A. Croze University of Cambridge;|University of York
http://dx.doi.org/10.1101/172890 2017-08-06 Evolutionary Biology Archaeogenetics of Late Iron Age Çemialo Sırtı, Batman: Investigating maternal genetic continuity in North Mesopotamia since the Neolithic Reyhan Yaka|Aysegul Birand|Yasemin Ylmaz|Ceren Caner|Sinan Can Acan|Sidar Gunduzalp|Poorya Parvizi|Asl Erim Ozdogan|Zehra Inci Togan|Mehmet Somel METU;|Duzce University;|Istanbul University;|Çanakkale Onsekiz Mart University
http://dx.doi.org/10.1101/172874 2017-08-06 Genetics CC BY-NC-ND Multi-allelic Exact tests for Hardy-Weinberg equilibrium that account for gender Jan Graffelman|Bruce Weir Technical University of Catalonia;|University of Washington
http://dx.doi.org/10.1101/172858 2017-08-06 Bioinformatics CC BY-NC MentaLiST - A fast MLST caller for large wgMLST schemes Pedro Feijao|Hua-Ting Yao|Dan Fornika|Jennifer Gardy|William Hsiao|Cedric Chauve|Leonid Chindelevitch Simon Fraser University;|Ecole Polytechnique;|BC Centre for Disease Control (BCCDC);|University of British Columbia (UBC) and BC Centre for Disease Control (BCCDC)
http://dx.doi.org/10.1101/171827 2017-08-06 Genetics CC BY-NC-ND ketu mutant mice uncover an essential meiotic function for the ancient, putative RNA helicase YTHDC2 Devanshi Jain|M. Rhyan Puno|Kathryn V. Anderson|Scott Keeney Memorial Sloan Kettering Cancer Center;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/172791 2017-08-06 Fear extinction requires infralimbic cortex projections to the basolateral amygdala Daniel W. Bloodgood|Jonathan A. Sugam|Andrew Holmes|Thomas L. Kash UNC-Chapel Hill;|National Institute on Alcohol Abuse and Alcoholism;|UNC Chapel Hill
http://dx.doi.org/10.1101/173039 2017-08-06 CC BY-NC-ND A genetic screen suggests an alternative mechanism for inhibition of SecA by azide Mohammed Jamshad|Rachael Chandler|Mark Jeeves|Ashley Robinson|Farhana Alam|Tamar Cranford Smith|Anokhi Shah|Oliver J. Daubney|Karl Dunne|Naomi Nabi|Aadil Iqbal|Anna F. A. Peacock|Janet E. Lovett|Timothy Knowles|Ian R. Henderson|Damon Huber University of Birmingham;|University of St. Andrews;|Unversity of Birmingham
http://dx.doi.org/10.1101/173021 2017-08-06 CC BY Human hippocampal replay during rest prioritizes weakly-learned information and predicts memory performance Anna C. Schapiro|Elizabeth A. McDevitt|Timothy T. Rogers|Sara C. Mednick|Kenneth A. Norman Beth Israel Deaconess Medical Center; Harvard Medical School;|University of California-Riverside;|University of Wisconsin-Madison;|Princeton University
http://dx.doi.org/10.1101/173013 2017-08-06 CC BY Response of oriental xerophytes to the occidental industrial revolution Sara Manafzadeh|Yannick M. Staedler|Hamid Moazzeni|David Masson|Juerg Schoenenberger|Elena Conti Department of Systematic and Evolutionary Botany, University of Zurich;|Department of Botany and Biodiversity Research, University of Vienna;|Department of Botany, Research Center for Plant Sciences, Ferdowsi University of Mashhad;|Institute of Mathematics, University of Zurich
http://dx.doi.org/10.1101/172767 2017-08-06 Bioinformatics DeepATAC: A deep-learning method to predict regulatory factor binding activity from ATAC-seq signals Naozumi Hiranuma|Scott Lundberg|Su-In Lee Paul G. Allen School of Computer Science and Engineering
http://dx.doi.org/10.1101/173153 2017-08-07 Developmental Biology CC BY Intrauterine position probabilities in mice, rats and gerbils John Frederick Mulley|Ludmila I. Kuncheva Bangor University
http://dx.doi.org/10.1101/172999 2017-08-07 Cell Biology Deubiquitylation and stabilization of p21 by USP11 is critical for cell cycle progression and DNA damage responses Tanggang Deng|Guobei Yan|Yu Zhou|Xiaoxiao Hu|Jianglin Li|Jun Hu|Hui Zhang|Peifu Feng|Xunan Sheng|Jieying Chen|Hongchang Ma|Yang Sun|Dong Wei|Bin Hu|Jing Liu|Weihong Tan|Mao Ye Hunan University
http://dx.doi.org/10.1101/173120 2017-08-07 Neuroscience GABAergic inhibition of leg motoneurons is required for normal walking behavior in freely moving Drosophila Swetha B. M. Gowda|Pushkar D. Paranjpe|O. Venkateshwara Reddy|Sudhir Palliyil|Heinrich Reichert|K. VijayRaghavan NCBS;|Biozentrum
http://dx.doi.org/10.1101/173088 2017-08-07 Biophysics De Novo Prediction of Human Chromosome Structures: Epigenetic Marking Patterns Encode Genome Architecture Michele Di Pierro|Ryan R. Cheng|Erez Lieberman Aiden|Peter G. Wolynes|José N. Onuchic Rice University;|Baylor College of Medicine
http://dx.doi.org/10.1101/173104 2017-08-07 Cell Biology CC BY-NC-ND Cpk2, a catalytic subunit of cyclic AMP-PKA, regulates growth and pathogenesis in rice blast Poonguzhali Selvaraj|Qing Shen|Yang Fan|Naweed I. Naqvi Temasek Life Sciences Laboratory
http://dx.doi.org/10.1101/173138 2017-08-07 Synthetic Biology CC BY Gossypol biosynthesis in cotton revealed through organ culture, plant grafting and gene expression profiling Zhao Tianlun|Hu Jiahui|Li Cheng|Li Cong|Mei Lei|Chen Jinhong|Zhu Shuijin Department of Agronomy, Zhejiang University
http://dx.doi.org/10.1101/173047 2017-08-07 Bioinformatics TraPS-VarI: a python module for the identification of STAT3 modulating germline receptor variants Daniel Kogan|Vijay Kumar Ulaganathan Technical University Munich;|Max Planck Institute of Biochemistry
http://dx.doi.org/10.1101/172254 2017-08-07 CC BY-NC-ND dRNA-seq implicates sulfide as master regulator of S(0) metabolism in Chlorobaculum tepidum and other green sulfur bacteria Jacob M. Hilzinger|Vidhyavathi Raman|Kevin E. Shuman|Brian J. Eddie|Thomas E. Hanson University of Delaware;|Noble Research Institute;|Wesley College;|United States Naval Research Laboratory
http://dx.doi.org/10.1101/169086 2017-08-07 CC BY-NC-ND Gene clusters encoding putative outer membrane electron conduits have specific roles during metal and electrode respiration in Geobacter sulfurreducens Fernanda Jimenez Otero|Daniel R. Bond University of Minnesota
http://dx.doi.org/10.1101/173062 2017-08-07 CC BY Genomewide association study identifies 30 loci associated with bipolar disorder Eli Stahl|Andreas Forstner|Andrew McQuillin|Stephan Ripke|Roel Ophoff|Laura Scott|Sven Cichon|Ole A Andreassen|Pamela Sklar|John Kelsoe|Gerome Breen Icahn School of Medicine at Mount Sinai;|University of Bonn;|University College London;|Charite Universitatsmedizin;|UCLA;|School of Public Health, Univ. of Michigan;|University of Oslo;|UCSD;|King's College London
http://dx.doi.org/10.1101/173112 2017-08-07 Novel pleiotropic risk loci for melanoma and nevus density implicate multiple biological pathways David Duffy|Gu Zhu|Xin Li|Marianna Sanna|Mark Iles|Leonie C. Jacobs|David M. Evans|Seyhan Yazar|Jonathan Beesley|Matthew Law|Peter Kraft|Alessia Visconti|John C. Taylor|Fan Liu|Margaret J. Wright|Anjali K. Henders|Lisa Bowdler|Dan Glass|Arfan M. Ikram|Andre G. Uitterlinden|Pamela A. Madden|Andrew C. Heath|Elliot C. Nelson|Adele C. Green|Stephen Chanock|Jennifer H. Barrett|Matthew A. Brown|Nicholas K. Hayward|Stuart MacGregor|Richard A. Sturm|Alex W. Hewitt|Manfred Kayser|David J. Hunter|Julia A. Newton Bishop|Timothy D. Spector|Grant W. Montgomery|David A. Mackey|George Davey Smith|Tamar E. Nijsten|D. Timothy Bishop|Veronique Bataille|Mario Falchi|Jiali Han|Nicholas G. Martin QIMR Berghofer Medical Research Institute, Brisbane, Australia;|T. H. Chan School of Public Health, Boston, MA, USA;|Dept. of Twin Research & Genetic Epidemiology, St. Thomas Hospital Campus, Kings College;|Section of Epidemiology & Biostatistics, Leeds Institute of Cancer & Pathology, Univ. of Leeds;|Dept. of Dermatology, Erasmus MC, University Medical Centre, Rotterdam, The Netherlands;|MRC Integrative Epidemiology Unit, University of Bristol, Bristol, UK;|Centre for Ophthalmology & Vision Science, Univ. of Western Australia and the Lions Eye Inst.;|Harvard T. H. Chan School of Public Health;|Dept. of Genetic Identification, Erasmus MC, University Medical Centre, Rotterdam;|Department of Epidemiology, Erasmus MC, Rotterdam, Netherlands;|Department of Internal Medicine, Erasmus MC, Rotterdam, Netherlands;|Department of Psychiatry, Washington University School of Medicine, St. Louis, USA;|Division of Cancer Epidemiology and Genetics, National Cancer Institute, Bethesda, Maryland;|Leeds Institute of Cancer and Pathology, University of Leeds;|Queensland University of Technology, Brisbane, Australia;|Dermatology Research Ctr., Univ. of Queensland Diamantina Inst., Translational Research Inst.;|-;|Harvard T. H. Chan School of Public Health, Boston, MA, USA;|Institute for Molecular Bioscience, The University of Queensland, Brisbane, Australia;|Dept. of Epidemiology, Melvin & Bren Simon Cancer Center, Indiana University
http://dx.doi.org/10.1101/128447 2017-08-07 CC BY-NC-ND Intron-containing RNA from the HIV-1 provirus activates type I interferon and inflammatory cytokines Sean Matthew McCauley|Kyusik Kim|Anetta Nowosielska|Ann Dauphin|William Edward Diehl|Jeremy Luban University of Massachusetts Medical School
http://dx.doi.org/10.1101/173229 2017-08-07 CC BY Signatures of selection at drug resistance loci in Mycobacterium tuberculosis Tatum D. Mortimer|Alexandra M. Weber|Caitlin S. Pepperell University of Wisconsin-Madison
http://dx.doi.org/10.1101/173252 2017-08-07 CC BY-NC-ND BLM helicase suppresses recombination at G-quadruplex motifs in transcribed genes Niek van Wietmarschen|Sarra Merzouk|Nancy Halsema|Diana C. J. Spierings|Victor Guryev|Peter M. Lansdorp European Research Institute for the Biology of Ageing
http://dx.doi.org/10.1101/173583 2017-08-08 Developmental Biology CC BY Pan-embryo cell dynamics of germlayer formation in zebrafish Gopi Shah|Konstantin Thierbach|Benjamin Schmid|Anna Reade|Ingo Roeder|Nico Scherf|Jan Huisken Cancer Research UK Cambridge Institute, University of Cambridge;|Institute for Medical Informatics and Biometry, Medical School, TU Dresden;|Optical Imaging Centre Erlangen, Friedrich-Alexander-University of Erlangen-Nuremberg;|Cardiovascular Research Institute, University of California, San Francisco;|Max Planck Institute of Molecular Cell Biology and Genetics, Dresden;|Morgridge Institute for Research, Madison, Wisconsin
http://dx.doi.org/10.1101/173443 2017-08-08 Neuroscience A Neural Mechanism for the Opportunity Cost of Time Sara M. Constantino|Jessica Dalrymple|Rebecca W. Gilbert|Sara Varenese|Alessandro Di Rocco|Nathaniel Daw Department of Psychology, New York University;|Department of Neurology, Movement Disorders Center, NYU Langone Medical Center;|Princeton Neuroscience Institute, Princeton University
http://dx.doi.org/10.1101/171652 2017-08-08 Cancer Biology Expanding primary cells from mucoepidermoid and other salivary gland neoplasms for genetic and chemosensitivity testing Ahmad M. Alamri|Xuefeng Liu|Jan K. Blancato|Bassem R. Haddad|Weisheng Wang|Xiaogang Zhong|Sujata Choudhary|Ewa Krawczyk|Bhaskar V. Kallakury|Bruce J. Davidson|Priscilla A. Furth Georgetown University
http://dx.doi.org/10.1101/173377 2017-08-08 Neuroscience CC BY Parasympathetic and sympathetic activity are associated with individual differences in neural indices of selective attention in adults Ryan Jeffrey Giuliano|Christina M. Karns|Theodore A. Bell|Seth Petersen|Elizabeth A. Skowron|Helen J. Neville|Eric Pakulak University of Oregon
http://dx.doi.org/10.1101/173344 2017-08-08 Genetics Effects of mutation and selection on plasticity of TDH3 promoter activity in Saccharomyces cerevisiae Fabien Duveau|David C. Yuan|Brian P. H. Metzger|Andrea Hodgins-Davis|Patricia J. Wittkopp University of Michigan
http://dx.doi.org/10.1101/173328 2017-08-08 Neuroscience CC BY Functional limb muscle innervation prior to cholinergic transmitter specification during early metamorphosis in Xenopus Francois M. Lambert|Laura Cardoit|Elric Courty|Marion Bougerol|Muriel Thoby-Brisson|John Simmers|Herve Tostivint|Didier Le Ray CNRS Université de Bordeaux;|CNRS MNHN;|Institut de Neurosciences Cognitives et Intégratives d'Aquitaine, CNRS UMR 5287
http://dx.doi.org/10.1101/173237 2017-08-08 Immunology Role of Immune Checkpoint Proteins in Idiopathic Pulmonary Fibrosis David M. Habiel|Milena Espindola|Chris Kitson|Anthony Azzara|Ana Lucia Coelho|Cory M. Hogaboam Cedars-Sinai Medical Center;|Bristol Myers Squibb
http://dx.doi.org/10.1101/173187 2017-08-08 Evolutionary Biology CC BY-NC-ND The crowns have eyes: Multiple opsins found in the eyes of the Crown-of-Thorns Starfish Acanthaster planci Elijah K. Lowe|Anders Garm|Esther Ullrich-Luter|Maria Ina Arnone Stazione Zoologica Anton Dohrn;|University of Copenhagen;|Museum fur Naturkunde
http://dx.doi.org/10.1101/173146 2017-08-08 Bioinformatics CC BY chewBBACA: A complete suite for gene-by-gene schema creation and strain identification Mickael Silva|Miguel P. Machado|Mirko Rossi|Jacob Moran-Gilad|Sergio Santos|Mario Ramirez|Joao Andre Carrico Faculdade de Medicina, Universidade de Lisboa;|Faculty of Veterinary Medicine, University of Helsinki;|Faculty of Health Sciences, Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/173690 2017-08-08 CC BY-NC-ND Genome size and the extinction of small populations Thomas LaBar|Christoph Adami Michigan State University
http://dx.doi.org/10.1101/173641 2017-08-08 CC BY-NC-ND Implications of de novo mutations in guiding drug discovery: A study of four neuropsychiatric disorders Hon-Cheong So|Yui-Hang Wong Chinese University of Hong Kong
http://dx.doi.org/10.1101/173807 2017-08-08 CC BY-NC-ND Advanced whole genome sequencing and analysis of fetal genomes from amniotic fluid Qing Mao|Robert Chin|Weiwei Xie|Yuqing Deng|Huixin Xu|Rebecca Yu Zhang|Quan Shi|Erin E. Peters|Natali Gulbahce|Zhenyu Li|Fang Chen|Radoje Drmanac|Brock A. Peters Complete Genomics;|BGI-Shenzhen;|Peking University Shenzhen Hospital;|Keck Medical Center, USC;|Complete Genomics; BGI-Shenzhen
http://dx.doi.org/10.1101/173708 2017-08-08 CC BY-NC-ND Fast P(RMNE): Fast Forensic DNA Probability of Random Man Not Excluded Calculation Darrell Ricke|Steven Schwartz MIT Lincoln Laboratory
http://dx.doi.org/10.1101/173740 2017-08-08 CC BY-NC-ND SureMap: Versatile, Error Tolerant, and High Sensitive Read Mapper MohammadJavad Rezaei Seraji|Seyed Abolfazl Motahari Sharif University Of Technology;|Sharif University of Technology
http://dx.doi.org/10.1101/173658 2017-08-08 Global and local excitation and inhibition shape the dynamics of the cortico-striatal-thalamo-cortical pathway Anca R Radulescu|Joanna Herron|Caitlin Kennedy|Annalisa Scimemi SUNY New Paltz;|SUNY Albany
http://dx.doi.org/10.1101/173815 2017-08-08 CC BY-NC Evidence for evolutionary shifts in the fitness landscape of human complex traits Lawrence H. Uricchio|Hugo C. Kitano|Alexander Gusev|Noah A. Zaitlen Stanford University;|Dana Farber Cancer Institute;|UCSF
http://dx.doi.org/10.1101/172684 2017-08-08 CC BY MEG-BIDS: an extension to the Brain Imaging Data Structure for magnetoencephalography Julia Guiomar Niso Galan|Krzysztof Jacek Gorgolewski|Elizabeth Bock|Teon L. Brooks|Guillaume Flandin|Alexandre Gramfort|Richard N. Henson|Mainak Jas|Vladimir Litvak|Jeremy Moreau|Robert Oostenveld|Jan-Mathijs Schoffelen|Francois Tadel|Joseph Wexler|Sylvain Baillet McConnell Brain Imaging Centre, Montreal Neurological Institute, McGill University, Canada;|Stanford University;|Department of Psychology, Stanford University, Stanford, 94305, CA, USA;|The Wellcome Centre for Human Neuroimaging, UCL Institute of Neurology, UK;|LTCI, Telecom ParisTech, Universite Paris-Saclay;|MRC Cognition & Brain Sciences Unit;|Radboud University, Donders Institute for Brain, Cognition and Behaviour, Netherlands;|Donders Institute;|Inserm, U1216, F-38000, Grenoble, France;|McConnell Brain Imaging Center, Montreal Neurological Institute, McGill University
http://dx.doi.org/10.1101/173617 2017-08-08 CC BY-NC-ND N-methyl-bacillithiol, a new metabolite discovered in the Chlorobiaceae, indicates that bacillithiol and derivatives are widely phylogenetically distributed. Jennifer Hiras|Sunil V. Sharma|Vidhyavathi Raman|Ryan A. J. Tinson|Miriam Arbach|Dominic F. Rodrigues|Javiera Norambuena|Chris J. Hamilton|Thomas E. Hanson University of Delaware;|University of East Anglia;|Rutgers University
http://dx.doi.org/10.1101/173849 2017-08-08 CC BY-NC-ND Cerebellar Purkinje cell simple spike activity in awake mice represents phase differences between oscillations in medial prefrontal cortex and hippocampus Samuel Stuart McAfee|Yu Liu|Roy V. Sillitoe|Detlef H. Heck University of Tennessee Health Science Center;|Baylor College of Medicine
http://dx.doi.org/10.1101/173666 2017-08-08 CC BY-NC-ND FastID: Extremely Fast Forensic DNA Comparisons Darrell O. Ricke MIT Lincoln Laboratory
http://dx.doi.org/10.1101/173872 2017-08-08 CC BY-ND Correcting palindromes in long reads after whole-genome amplification Sven Warris|Elio Schijlen|Henri van de Geest|Rahulsimham Vegesna|Thamara Hesselink|Bas te Lintel Hekkert|Gabino Sanchez-Perez|Paul Medvedev|Kateryna D. Makova|Dick de Ridder Wageningen University and Research;|Pennsylvania State University
http://dx.doi.org/10.1101/173674 2017-08-08 Structural basis of the Cope rearrangement and C−C bond-forming cascade in hapalindole/fischerindole biogenesis Sean A. Newmister|Shasha Li|Marc Garcia-Borras|Jacob N. Sanders|Song Yang|Andrew N. Lowell|Fengan Yu|Janet L. Smith|Robert M. Williams|K. N. Houk|David H. Sherman University of Michigan;|University of California, Los Angeles;|Colorado State University
http://dx.doi.org/10.1101/171843 2017-08-08 CC BY-NC neoantigenR: An annotation based pipeline for tumor neoantigen identification from sequencing data Shaojun Tang|Subha Madhavan Georgetown University
http://dx.doi.org/10.1101/173302 2017-08-08 CC BY-NC-ND Indole-3-Acetaldehyde Dehydrogenase-dependent Auxin Synthesis Contributes to Virulence of Pseudomonas syringae Strain DC3000 Sheri A. McClerklin|Soon Goo Lee|Ron Nwumeh|Joseph M. Jez|Barbara N. Kunkel Washington University in St. Louis
http://dx.doi.org/10.1101/173823 2017-08-08 CC BY Development of Inflammatory Bowel Disease is Linked to a Longitudinal Restructuring of the Gut Metagenome in Mice Thomas Sharpton|Svetlana Lyalina|Julie Loung|Joey Pham|Emily M. Deal|Courtney Armour|Christopher Gaulke|Shomyseh Sanjabi|Katherine S. Pollard Oregon State University;|UC San Francisco;|Gladstone Institutes;|Gladstone Institutes, and UC San Francisco
http://dx.doi.org/10.1101/173716 2017-08-08 CC BY-NC-ND GrigoraSNPs: Optimized HTS DNA Forensic SNP Analysis Darrell O. Ricke|Anna Shcherbina|Adam Michaleas|Philip Fremont-Smith MIT Lincoln Laboratory
http://dx.doi.org/10.1101/173724 2017-08-08 CC BY A structural and kinetic link between membrane association and amyloid fibril formation of α-Synuclein Thibault Viennet|Michael M. Wordehoff|Boran Uluca|Chetan Poojari|Hamed Shaykhalishahi|Dieter Willbold|Birgit Strodel|Henrike Heise|Alexander K. Buell|Wolfgang Hoyer|Manuel Etzkorn Forschungszentrum Jülich;|Heinrich-Heine-University Düsseldorf;|Tampere University of Technology;|University of Duesseldorf
http://dx.doi.org/10.1101/173609 2017-08-08 Biophysics CC BY Tau directs intracellular trafficking by regulating the forces exerted by kinesin and dynein teams Abdullah R. Chaudhary|Florian Berger|Christopher L. Berger|Adam G. Hendricks McGill University;|The Rockefeller University;|University of Vermont
http://dx.doi.org/10.1101/173567 2017-08-08 Biophysics CC BY Energetics and Conformational Pathways of Functional Rotation in the Multidrug Transporter AcrB Yasuhiro Matsunaga|Tsutomu Yamane|Tohru Terada|Kei Moritsugu|Hiroshi Fujisaki|Satoshi Murakami|Mitsunori Ikeguchi|Akinori Kidera RIKEN Advanced Institute for Computational Science;|Yokohama City University;|The University of Tokyo;|Nippon Medical School;|Tokyo Institute of Technology
http://dx.doi.org/10.1101/173203 2017-08-08 Bioinformatics CC BY-NC-ND Abundance-based reconstitution of microbial pan-genomes from whole-metagenome shotgun sequencing data Florian Plaza Onate|Alessandra C. L. Cervino|Frederic Magoules|S. Dusko Ehrlich|Matthieu Pichaud Enterome and MetaGénoPolis;|Enterome;|CentraleSupélec;|MetaGénoPolis
http://dx.doi.org/10.1101/173518 2017-08-08 Neuroscience CC BY-NC-ND Comparative Analysis of Non-linear Behaviour with Power Spectral Intensity Response Between Normal and Epileptic EEG Signals Budhaditya Ghosh|Sourya Sengupta|Sayan Nag|Sayan Biswas|Shankha Sanyal Jadavpur University
http://dx.doi.org/10.1101/173005 2017-08-08 Bioinformatics CC BY-NC-ND NeatSeq-Flow: A Lightweight Software for Efficient Execution of High Throughput Sequencing Workflows Menachem Y. Sklarz|Michal Gordon|Vered Chalifa-Caspi Ben Gurion University
http://dx.doi.org/10.1101/173070 2017-08-08 Systems Biology Joint regulation of growth and division timing drives size homeostasis in proliferating animal cells Abhyudai Singh|Cesar Vargas-Garcia|Mikael Bjorklund University of Delaware;|University of Dundee
http://dx.doi.org/10.1101/173500 2017-08-08 Ecology CC BY Partitioning plant genetic and environmental drivers of above and belowground community assembly Matthew Barbour|Sonya Erlandson|Kabir Peay|Brendan Locke|Erik S. Jules|Gregory M. Crutsinger University of Zurich;|Stanford University;|Humboldt State University;|Pix4D Inc.
http://dx.doi.org/10.1101/173591 2017-08-08 Microbiology CC BY-NC-ND Unexpected mixed-mode transmission and moderate genetic regulation of Symbiodinium communities in a brooding coral Kate Quigley|Patricia Warner|Line Bay|Bette Willis Australian Institute of Marine Sciences;|ARC Centre of Excellence for Coral Reef Studies;|Australian Institute of Marine Science;|James Cook University
http://dx.doi.org/10.1101/173435 2017-08-08 Genomics CC BY-NC-ND Genomic dissection of bipolar disorder and schizophrenia including 28 subphenotypes Douglas Ruderfer|Pamela Sklar|Kenneth Kendler -;|Vanderbilt University Medical Center;|Icahn School of Medicine at Mount Sinai;|VCU Health
http://dx.doi.org/10.1101/173245 2017-08-08 Neuroscience CC BY A spatial memory signal shows that the parietal cortex has access to a craniotopic representation of space Mulugeta Semework|Sara C. Steenrod|Michael E. Goldberg Columbia University;|Washington University School of Medicine
http://dx.doi.org/10.1101/172981 2017-08-08 Neuroscience CC BY-NC-ND Dynamic Phase Synchrony based Ranked Spatio-Temporal Clustering for Tracking Time-Resolved Functional Brain Networks Priya Aggarwal|Anubha Gupta Indraprastha Institute of Information Technology-Delhi (IIIT-D), India
http://dx.doi.org/10.1101/173393 2017-08-08 Evolutionary Biology CC BY-NC Compositional heterogeneity and outgroup choice influence the internal phylogeny of the ants Marek L. Borowiec|Christian Rabeling|Sean G. Brady|Brian L. Fisher|Ted R. Schultz|Philip S. Ward Arizona State University;|National Museum of Natural History;|California Academy of Sciences;|University of California, Davis
http://dx.doi.org/10.1101/173286 2017-08-08 Microbiology MERS-CoV NSP16 necessary for IFN resistance and viral pathogenesis Vineet D. Menachery|Lisa E. Gralinski|Hugh D. Mitchell|Kenneth H. Dinnon|Sarah R. Leist|Boyd L. Yount|Rachel L. Graham|Eileen T. McAnarney|Kelly G. Stratton|Adam S. Cockrell|Kari Debbink|Amy C. Sims|Katrina M. Waters|Ralph S. Baric University of Texas Medical Branch;|University of North Carolina;|PNNL;|Bowie State University
http://dx.doi.org/10.1101/173526 2017-08-08 Pathology Impaired brain glymphatic flow in a rodent model of chronic liver disease and minimal hepatic encephalopathy Anna Hadjihambi|Ian Harrison|Natalia Arias|Rocio Gallego-Duran|Patrick S. Hosford|Nathan Davies|Abeba Habtesion|Mark F. Lythgoe|Alexander V. Gourine|Rajiv Jalan UCL;|University of Seville
http://dx.doi.org/10.1101/172643 2017-08-08 Biophysics CC BY-NC-ND Fast, robust and precise 3D localization for arbitrary point spread functions Yiming Li|Markus Mund|Philipp Hoess|Ulf Matti|Bianca Nijmeijer|Vilma Jimenez Sabinina|Jan Ellenberg|Ingmar Schoen|Jonas Ries EMBL;|Royal College of Surgeons in Ireland
http://dx.doi.org/10.1101/173419 2017-08-08 Microbiology CC BY-NC-ND The fallacy of identification by neutralization in the light of cytopathology nonproducing enterovirus strains Moses Olubusuyi Adewumi|Temitope Oluwasegun Cephas Faleye|Johnson Adekunle Adeniji University of Ibadan;|Ekiti State University
http://dx.doi.org/10.1101/167585 2017-08-08 Neuroscience Multimodal Study of Resting-State Functional Connectivity Networks using EEG electrodes position as seed Gonzalo M. Rojas|Carolina Alvarez|Carlos Montoya|Maria de la Iglesia-Vaya|Jaime Cisternas|Marcelo Galvez Laboratory for Advanced Medical Image Processing, Dept. of Radiology, Clinica las Condes;|Department of Neurology, Clinica las Condes, Santiago, Chile;|Medical Bio-Modeling Laboratory, Dept. of Radiology, Clinica las Condes, Santiago, Chile;|Mixed Research Unit FISABIO - Prince Felipe Research Centre, Valencia, Spain;|Facultad de Ingenieria y Ciencias Aplicadas, Universidad de los Andes, Santiago, Chile;|Department of Radiology, Clinica las Condes, Santiago, Chile
http://dx.doi.org/10.1101/173450 2017-08-08 Neuroscience Heterogeneities in afferent connectivity dominate local heterogeneities in the emergence of response decorrelation in the dentate gyrus Poonam Mishra|Rishikesh Narayanan Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/174227 2017-08-09 Bioinformatics CC BY-NC-ND TaxMapper: An Analysis Tool, Reference Database and Workflow for Metatranscriptome Analysis of Eukaryotic Microorganisms Daniela Beisser|Nadine Graupner|Lars Grossmann|Henning Timm|Jens Boenigk|Sven Rahmann University of Duisburg-Essen
http://dx.doi.org/10.1101/172833 2017-08-09 Plant Biology CC BY-NC-ND Molecular machinery of auxin synthesis, secretion, and perception in the unicellular chlorophyte alga Chlorella sorokiniana UTEX 1230 Maya Khasin|Rebecca R. Cahoon|Kenneth W. Nickerson|Wayne R. Riekhof University of Nebraska - Lincoln
http://dx.doi.org/10.1101/174219 2017-08-09 Cancer Biology CC BY-NC-ND Hundreds of putative non-coding cis-regulatory drivers in chronic lymphocytic leukaemia and skin cancer Halit Ongen|Olivier Delaneau|Michael W. Stevens|Cedric Howald|Emmanouil T. Dermitzakis University of Geneva;|Geneva Medical School
http://dx.doi.org/10.1101/173948 2017-08-09 Biochemistry A negative feedback mechanism in the insulin-regulated glucose homeostasis in Japanese flounder Paralichthys olivaceus by two ways of glucose administration Dong Liu|Dongdong Han|Benyue Guo|Kangyu Deng|Zhixiang Gu|Mengxi Yang|Wei Xu|Wenbing Zhang|Kangsen Mai Ocean University of China
http://dx.doi.org/10.1101/173633 2017-08-09 Cell Biology Rapid degradation and 3D CLEM of condensin reveal chromatin compaction uncoupled from chromosome architecture in mitosis Kumiko Samejima|Daniel G. Booth|Hiromi Ogawa|James R. Paulson|Linfeng Xie|Cara A. Watson|Melpomeni Platani|Masato T. Kanemaki|William C. Earnshaw University of Edinburgh, Wellcome Centre for Cell Biology;|University of Edinburgh;|University of Wisconsin-Oshkosh;|National Institute of Genetics, Japan
http://dx.doi.org/10.1101/173765 2017-08-09 Neuroscience CC BY-NC-ND Note on the power law of forgetting Michael J. Kahana|Mark Adler University of Pennsylvania;|Brandeis University
http://dx.doi.org/10.1101/173476 2017-08-09 Microbiology CC BY Evolution of exploitative interactions during diversification in Bacillus subtilis biofilms Anna Dragos|Nivedha Lakshmanan|Marivic Martin|Balazs Horvath|Gergely Maroti|Carolina Falcon Garcia|Oliver Lieleg|Akos T. Kovacs Technical University of Denmark;|Friedrich Schiller University Jena;|Seqomics Biotechnology Ltd.;|Biological Research Centre, Hungarian Academy of Sciences;|Technical University of Munich
http://dx.doi.org/10.1101/174151 2017-08-09 Developmental Biology CC BY A population of adult satellite-like cells in Drosophila is maintained through a switch in RNA-isoforms Hadi Boukhatmi|Sarah Bray University of Cambridge, United Kingdom;|Universityof Cambridge, United Kingdom
http://dx.doi.org/10.1101/174052 2017-08-09 Neuroscience CC BY Cortical processing of breathlessness in the athletic brain Olivia K. Faull|Pete J. Cox|Kyle T. S. Pattinson University of Oxford
http://dx.doi.org/10.1101/173922 2017-08-09 Ecology CC BY-ND Demogenetic simulations reveal fragmenting effects of climate change on insular lizard populations Stephen E. Rice|Rulon Clark San Diego State University
http://dx.doi.org/10.1101/173930 2017-08-09 Microbiology CC BY-NC-ND A strain-specific multiplex RT-PCR for Australian rabbit haemorrhagic disease viruses uncovers a new recombinant virus variant in rabbits and hares Robyn N. Hall|Jackie E. Mahar|Andrew J. Read|Roslyn Mourant|Melissa Piper|Nina Huang|Tanja Strive CSIRO; Invasive Animals Cooperative Research Centre;|CSIRO; The University of Sydney;|Elizabeth Macarthur Agricultural Institute;|CSIRO
http://dx.doi.org/10.1101/174102 2017-08-09 Genetics CC BY-NC-ND Inbred or Outbred? Genetic diversity in laboratory rodent colonies Thomas D. Brekke|Katherine A. Steele|John F. Mulley Bangor Univeristy;|Bangor University
http://dx.doi.org/10.1101/174037 2017-08-09 Neuroscience Rapid responses of amygdala neurons discriminate facial expressions Mikio Inagaki|Ichiro Fujita Osaka University, Center for Information and Neural Networks
http://dx.doi.org/10.1101/173559 2017-08-09 Bioinformatics TF2Network: predicting transcription factor regulators and gene regulatory networks in Arabidopsis using publicly available binding site information Shubhada R. Kulkarni|Dries Vaneechoutte|Jan Van de Velde|Klaas Vandepoele VIB-UGent Center for Plant Systems Biology
http://dx.doi.org/10.1101/174086 2017-08-09 Genetics CC BY Whole exome sequencing of ENU-induced thrombosis modifier mutations in the mouse Kart Tomberg|Randal Westrick|Emilee Kotnik|David Siemieniak|Guojing Zhu|Thomas Saunders|Audrey Cleuren|David Ginsburg University of Michigan;|Oakland University
http://dx.doi.org/10.1101/173963 2017-08-09 Ecology CC BY-NC Genome-Wide SNPs Reveal the Drivers of Gene Flow In An Urban Population of the Asian Tiger Mosquito, Aedes albopictus Thomas L. Schmidt|Gordana Rasic|Dongjing Zhang|Xiaoying Zheng|Zhiyong Xi|Ary Hoffmann University of Melbourne;|Sun Yat-sen University
http://dx.doi.org/10.1101/173906 2017-08-09 Synthetic Biology CC BY Context-Dependent Genetic Regulation Kyung Hyuk Kim|Venkata Siddartha Yerramilli|Kiri Choi|Herbert M. Sauro University of Washington
http://dx.doi.org/10.1101/173898 2017-08-09 Synthetic Biology CC BY Labeling RNAs in live cells using malachite green aptamer scaffolds as fluorescent probes Venkata Siddartha Yerramilli|Kyung Hyuk Kim University of Washington
http://dx.doi.org/10.1101/174029 2017-08-09 Bioinformatics CC BY-ND Scanpy for analysis of large-scale single-cell gene expression data F. Alexander Wolf|Philipp Angerer|Fabian J. Theis Helmholtz Zentrum Munchen;|Helmholtz Center Munich
http://dx.doi.org/10.1101/173914 2017-08-09 Genetics CC BY-NC-ND Can CRISPR-based gene drive be confined in the wild? A question for molecular and population biology John Marshall|Omar Akbari UC Berkeley;|UC Riverside
http://dx.doi.org/10.1101/173997 2017-08-09 Bioinformatics DEsingle: A new method for single-cell differentially expressed genes detection and classification Zhun Miao|Xuegong Zhang Tsinghua University
http://dx.doi.org/10.1101/163147 2017-08-09 Developmental Biology Spatial protein analysis in developing tissues: a sampling-based image processing approach Karolis Leonavicius|Christophe Royer|Antonio M. A. Miranda|Richard Tyser|Annemarie Kip|Shankar Srinivas Department of Physiology, Anatomy and Genetics, University of Oxford;|University of Oxford, Department of Physiology Anatomy and Genetics
http://dx.doi.org/10.1101/173955 2017-08-09 Neuroscience CC BY-NC-ND Asymmetry of an intracellular scaffold at vertebrate electrical synapses Audrey J. Marsh|Jennifer Carlisle Michel|Anisha P. Adke|Emily L. Heckman|Adam C. Miller Institute of Neuroscience, Department of Biology, University of Oregon
http://dx.doi.org/10.1101/174342 2017-08-09 CC BY-NC Divergence estimation in the presence of incomplete lineage sorting and migration Graham R Jones Gothenburg University
http://dx.doi.org/10.1101/174177 2017-08-09 Microbiology Numerous cultivated and uncultivated viruses encode ribosomal proteins Carolina Megumi Mizuno|Charlotte Guyomar|Simon Roux|Regis Lavigne|Francisco Rodriguez-Valera|Matthew Sullivan|Reynald Gillet|Patrick Forterre|Mart Krupovic Institut Pasteur;|Universite Rennes;|Joint Genome Institute;|Universidad Miguel Hernandez;|The Ohio State University
http://dx.doi.org/10.1101/173310 2017-08-09 Neuroscience CC BY-NC-ND Natural Language Processing for Classification of Acute, Communicable Findings on Unstructured Head CT Reports: Comparison of Neural Network and Non-Neural Machine Learning Techniques Falgun Chokshi|Bonggun Shin|Timothy Lee|Andrew Lemmon|Sean Necessary|Jinho Choi Emory University School of Medicine;|Emory University;|Northside Radiology Associates
http://dx.doi.org/10.1101/174375 2017-08-09 Evolutionary Biology CC BY-NC-ND Population genomics of Wolbachia and mtDNA in Drosophila simulans from California Sarah Signor University of Southern California
http://dx.doi.org/10.1101/174094 2017-08-09 Systems Biology CC BY-NC-ND Efficient parameterization of large-scale mechanistic models enables drug response prediction for cancer cell lines Fabian Froehlich|Thomas Kessler|Daniel Weindl|Alexey Shadrin|Leonard Schmiester|Hendrik Hache|Artur Muradyan|Moritz Schuette|Ji-Hyun Lim|Matthias Heinig|Fabian Theis|Hans Lehrach|Christoph Wierling|Bodo Lange|Jan Hasenauer Helmholtz Zentrum Muenchen;|Alacris Theranostics GmbH;|KG Jebsen Centre for Psychosis Research;|Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/174441 2017-08-09 Neuroscience Zika virus infection induces synthesis of Digoxin in glioblastoma cells Estela Lima|Tatiane M Guerreiro|Carlos Melo|Diogo N de Oliveira|Daisy Machado|Marcelo Lancellotti|Rodrigo Catharino University of Campinas;|University of Campinas, Brazil
http://dx.doi.org/10.1101/174417 2017-08-09 Neuroscience Sniff invariant odor coding Roman Shusterman|Yevgeniy B Sirotin|Matthew C Smear|Yashar Ahmadian|Dmitry Rinberg University of Haifa;|The Rockefeller University;|University of Oregon;|New York University
http://dx.doi.org/10.1101/174292 2017-08-09 Biophysics A catch-bond drives stator mechanosensitivity in the Bacterial Flagellar Motor Ashley L Nord|Emilie Gachon|Ruben Perez-Carrasco|Jasmine A Nirody|Alessandro Barducci|Richard M Berry|Francesco Pedaci Centre de Biochimie Structurale;|University College London;|University of California, Berkeley;|University of Oxford;|Centre de Biochimie Structurale, CNRS
http://dx.doi.org/10.1101/174201 2017-08-09 Cancer Biology CC BY-NC-ND Copy-number signatures and mutational processes in ovarian carcinoma Geoff Macintyre|Teodora Goranova|Dilrini De Silva|Darren Ennis|Anna M Piskorz|Matthew Eldridge|Daoud Sie|Liz-Anne Lewsley|Aishah Hanif|Cheryl Wilson|Suzanne Dowson|Rosalind M Glasspool|Michelle Lockley|Elly Brockbank|Ana Montes|Axel Walther|Sudha Sundar|Richard Edmondson|Geoff D Hall|Andrew Clamp|Charlie Gourley|Marcia Hall|Christina Fotopoulou|Hani Gabra|James Paul|Anna Supernat|David Millan|Aoisha Hoyle|Gareth Bryson|Craig Nourse|Laura Mincarelli|Luis Navarro Sanchez|Bauke Ylstra|Mercedes Jimenez-Linan|Luiza Moore|Oliver Hofmann|Florian Markowetz|Iain A McNeish|James D Brenton Cancer Research UK Cambridge Institute, University of Cambridge;|Institute of Cancer Sciences, University of Glasgow;|VU University Medical Centre;|Beatson West of Scotland Cancer Centre;|Barts Cancer Institute and University College London Hospital;|Barts Cancer Institute;|Guy's Hospital;|Bristol Haematology and Oncology Centre;|City Hospital, Birmingham;|St Mary's Hospital, Manchester;|St James Hospital, Leeds;|The Christie Hospital, Manchester;|Edinburgh Cancer Research Centre;|Mount Vernon Cancer Centre, Northwood;|Imperial College, London;|Queen Elizabeth University Hospital, Glasgow;|VU University Medical Centre, Amsterdam;|Addenbrooke's Hospital, Cambridge;|Institute of Cancer Sciences, University of Glasgow and Beatson West of Scotland Cancer Centre;|Cancer Research UK Cambridge Institute, University of Cambridge and Addenbrooke's Hospital
http://dx.doi.org/10.1101/174185 2017-08-09 Developmental Biology YAP and TAZ regulate adherens junction dynamics and endothelial cell distribution during vascular development Filipa Neto|Alexandra Klaus-Bergmann|Yu-Ting Ong|Silvanus Alt|Anne-Clemence Vion|Anna Szymborska|Joana R. Carvalho|Irene Hollfinger|Eireen Bartels-Klein|Claudio A. Franco|Michael Potente|Holger Gerhardt Max-Delbruck-Center for Molecular Medicine, Berlin, Germany;|Max Planck Institute for Heart and Lung Research, Bad Nauheim, Germany;|Instituto de Medicina Molecular, Lisboa, Portugal
http://dx.doi.org/10.1101/172940 2017-08-09 Scientific Communication and Education CC BY Science with no fiction: measuring the veracity of scientific reports by citation analysis Peter Grabitz|Yuri Lazebnik|Joshua Nicholson|Sean Rife Verum Analytics, New Haven, CT 06511; Charite-Universitatsmedizin;|Verum Analytics, New Haven, CT 06511;|Verum Analytics, New Haven, CT 06511; Authorea, Brooklyn, NY 11249;|Verum Analytics, New Haven, CT 06511; Dept. of Psychology, Murray State University, KY
http://dx.doi.org/10.1101/174276 2017-08-09 Animal Behavior and Cognition Rhythms of the Body, Rhythms of the Brain: Respiration, Neural Oscillations, and Embodied Cognition Somogy Varga|Detlef H. Heck University of Memphis;|University of Tennessee Health Science Center
http://dx.doi.org/10.1101/174235 2017-08-09 Microbiology Characterization of a replicating mammalian orthoreovirus with tetracysteine tagged μNS for live cell visualization of viral factories Luke Bussiere|Promisree Choudhury|Bryan Bellaire|Cathy L. Miller Iowa State University
http://dx.doi.org/10.1101/174169 2017-08-09 Cancer Biology Nitric oxide-dependent inflammation underlies Notch and PI3K/Akt oncogene cooperation S. Nahuel Villegas|Rita Gombos|Irene Gutierrez Perez|Lucia Garcia Lopez|Jesus Garcia-Castillo|Diana Marcela Vallejos|Vanina Da Ros|Jozsef Mihaly|Maria Dominguez Instituto de Neurociencias, CSIC; Universidad Miguel Hernandez;|Inst. of Genetics, Biol. Research Ctr. HAS, MTA-SZBK NAP B Axon Growth and Regen. Group;|Instituto de Neurociencias, CSIC and Universidad Miguel Hernandez
http://dx.doi.org/10.1101/174243 2017-08-09 Immunology CC BY MHCflurry: open-source class I MHC binding affinity prediction Timothy O'Donnell|Alex Rubinsteyn|Maria Bonsack|Angelika Riemer|Jeffrey Hammerbacher Mount Sinai School of Medicine;|Icahn School of Medicine at Mount Sinai;|Immunotherapy & Immunoprevention, German Cancer Research Center (DKFZ), Heidelberg
http://dx.doi.org/10.1101/171009 2017-08-09 Scientific Communication and Education CC BY-NC Bringing plants and soils to life through a simple role-playing activity Michael E. Van Nuland|Miranda Chen|Benjamin J. England Stanford University;|University of Tennessee
http://dx.doi.org/10.1101/173856 2017-08-09 Cell Biology Systematic analysis of atx-2 suppressors reveals a novel regulator of PAR-5/14-3-3sigma function during mitosis in Caenorhabditis elegans Megan M. Gnazzo|Alex R. Villarreal|Ahna R. Skop UW-Madison
http://dx.doi.org/10.1101/174144 2017-08-09 Genomics CC BY-NC nextPARS: Parallel probing of RNA structures in Illumina Ester Saus|Jesse Willis|Leszek P. Pryszcz|Heinz Himmelbauer|Toni Gabaldon CRG;|International Institute of Molecular and Cell Biology;|BOKU
http://dx.doi.org/10.1101/173864 2017-08-09 Cancer Biology The DNA methylation landscape of glioblastoma disease progression shows extensive heterogeneity in time and space Johanna Klughammer|Barbara Kiesel|Thomas Roetzer|Nikolaus Fortelny|Amelie Kuchler|Nathan C. Sheffield|Paul Datlinger|Nadine Peter|Karl-Heinz Nenning|Julia Furtner|Martha Nowosielski|Marco Augustin|Mario Mischkulnig|Thomas Strobel|Patrizia Moser|Christian F. Freyschlag|Johannes Kerschbaumer|Claudius Thome|Astrid E. Grams|Gunther Stockhammer|Melitta Kitzwoegerer|Stefan Oberndorfer|Franz Marhold|Serge Weis|Johannes Trenkler|Johanna Buchroithner|Josef Pichler|Johannes Haybaeck|Stefanie Krassnig|Kariem Madhy Ali|Gord von Campe|Franz Payer|Camillo Sherif|Julius Preiser|Thomas Hauser|Peter A. Winkler|Waltraud Kleindienst|Franz Wurtz|Tanisa Brandner-Kokalj|Martin Stultschnig|Stefan Schweiger|Karin Dieckmann|Matthias Preusser|Georg Langs|Bernhard Baumann|Engelbert Knosp|Georg Widhalm|Christine Marosi|Johannes A. Hainfellner|Adelheid Woehrer|Christoph Bock CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, Vienna;|Department of Neurosurgery, Medical University of Vienna, Vienna, Austria;|Institute of Neurology, Medical University of Vienna, Vienna, Austria;|Center for Public Health Genomics, University of Virginia, Charlottesville VA, USA;|Department of Biomedical Imaging and Image-guided Therapy, Medical University of Vienna;|Department of Neurology, Medical University of Innsbruck, Innsbruck, Austria;|Center for Medical Physics and Biomedical Engineering, Medical University of Vienna, Vienna;|Department of Pathology, Medical University of Innsbruck, Innsbruck, Austria;|Department of Neurosurgery, Medical University of Innsbruck, Innsbruck, Austria;|Department of Neuroradiology, Medical University of Innsbruck, Innsbruck, Austria;|Department of Pathology, Karl Landsteiner University of Health Sciences, St. Poelten, Austria;|Department of Neurology, Karl Landsteiner University of Health Sciences, St. Poelten, Austria;|Department of Neurosurgery, Karl Landsteiner University of Health Sciences, St. Poelten;|Department of Neuropathology, Johannes Kepler University of Linz, Linz, Austria;|Department of Neuroradiology, Johannes Kepler University of Linz, Linz, Austria;|Department of Neurosurgery, Johannes Kepler University of Linz, Linz, Austria;|Department of Internal Medicine, Johannes Kepler University of Linz, Linz, Austria;|Department of Neuropathology, Institute of Pathology, Medical University of Graz, Graz;|Department of Neurosurgery, Medical University of Graz, Graz, Austria;|Department of Neurology, Medical University of Graz, Graz, Austria;|Department of Neurosurgery, Krankenanstalt Rudolfstiftung, Vienna, Austria;|Department of Pathology, Krankenanstalt Rudolfstiftung, Vienna, Austria;|Department of Neurosurgery, Paracelsus Private Medical University, Salzburg, Austria;|Department of Neurology, Paracelsus Private Medical University, Salzburg, Austria;|Institute of Pathology, State Hospital Klagenfurt, Klagenfurt, Austria;|Department of Neurology, State Hospital Klagenfurt, Klagenfurt, Austria;|Department of Neurosurgery, General Hospital Wiener Neustadt, Wiener Neustadt, Austria;|Department of Radiotherapy, Medical University of Vienna, Vienna, Austria;|Department of Medicine I, Medical University of Vienna, Vienna, Austria
http://dx.doi.org/10.1101/174193 2017-08-09 Cancer Biology A subgroup of mitochondrial extracellular vesicles discovered in human melanoma tissues are detectable in patient blood Su Chul Jang|Rossella Crescitelli|Aleksander Cvjetkovic|Valerio Belgrano|Roger Olofsson Bagge|Johanna L. Hoog|Karin Sundfeldt|Takahiro Ochiya|Raghu Kalluri|Jan Lotvall University of Gothenburg;|National Cancer Center Research Institute;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/172676 2017-08-09 Plant Biology A dual sgRNA approach for functional genomics in Arabidopsis thaliana Laurens Pauwels|Rebecca De Clercq|Jonas Goossens|Sabrina Inigo|Clara Williams|Mily Ron|Anne Britt|Alain Goossens VIB;|UC Davis
http://dx.doi.org/10.1101/174136 2017-08-09 Neuroscience The conflict negativity: Neural correlate of value conflict and indecision during financial decision making Gesa-Kristina Petersen|Blair Saunders|Michael Inzlicht Ludwig-Maximilians Universitaet Munich;|University of Toronto
http://dx.doi.org/10.1101/174078 2017-08-09 Biophysics CC BY-NC Autocatalytic microtubule nucleation determines the size and mass of spindles Franziska Decker|David Oriola|Benjamin Dalton|Jan Brugues Max Planck Institute
http://dx.doi.org/10.1101/174565 2017-08-10 Integrative analyses of splicing in the aging brain: role in susceptibility to Alzheimer's Disease Towfique Raj|Yang Li|Garrett Wong|Satesh Ramdhani|Ying-chih Wang|Bernard Ng|Minghui Wang|Ishaan Gupta|Vahram Haroutunian|Bin Zhang|Eric E. Schadt|Tracy Young-Pearse|Sara Mostafavi|Pamela Sklar|David Bennett|Philip L. De Jager Icahn School of Medicine at Mount Sinai;|Stanford University;|University of British Columbia;|Brigham and Women's Hospital;|Rush University Medical Center;|Columbia University Medical Center
http://dx.doi.org/10.1101/174763 2017-08-10 CC BY Regressions Fit for Purpose: Models of Locust Phase State Must Not Conflate Morphology With Behaviour Swidbert R. Ott University of Leicester
http://dx.doi.org/10.1101/174359 2017-08-10 CC BY-NC-ND COMPARISONS OF CODING AND NONCODING SEQUENCES TO INFER THE ORIGIN OF CODON USAGE BIAS Prashant Mainali|Sobita Pathak Kathmandu University
http://dx.doi.org/10.1101/174581 2017-08-10 CC BY-NC-ND C. elegans HIF-1 is broadly required for survival in hydrogen sulfide Irini Topalidou|Dana L. Miller University of Washington
http://dx.doi.org/10.1101/174508 2017-08-10 CC BY-NC-ND HIV-1 Unspliced RNA Expression Induces Innate Immune Activation in Macrophages Hisashi Akiyama|Caitlin M Miller|Chelsea R Ettinger|Anna C Belkina|Jennifer Snyder-Cappione|Suryaram Gummuluru Boston University School of Medicine
http://dx.doi.org/10.1101/174367 2017-08-10 CC BY-NC-ND Environmental deformations dynamically shift the spatial metric of the brain Alex T. Keinath|Russell A. Epstein|Vijay Balasubramanian University of Pennsylvania
http://dx.doi.org/10.1101/174466 2017-08-10 CC BY Suppression and facilitation of human neural responses Michael-Paul Schallmo|Alexander M Kale|Rachel Millin|Anastasia V Flevaris|Zoran Brkanac|Richard A.E. Edden|Raphael A Bernier|Scott Murray University of Washington, United States;|Johns Hopkins University, United States
http://dx.doi.org/10.1101/174524 2017-08-10 CC BY Theory of reinforcement learning and motivation in the basal ganglia Rafal Bogacz University of Oxford, United Kingdom
http://dx.doi.org/10.1101/174128 2017-08-10 Biochemistry CC BY-NC-ND Evolution of chalcone isomerase from a non-catalytic ancestor Miriam Kaltenbach|Jason R. Burke|Mirco Dindo|Anna Pabis|Fabian S. Munsberg|Avigayel Rabin|Shina C. L. Kamerlin|Joseph P. Noel|Dan S. Tawfik Weizmann Institute of Science;|The Salk Institute for Biological Studies;|Uppsala University;|The Salk Institute for Biological Sciences
http://dx.doi.org/10.1101/174490 2017-08-10 Cell Biology Committed hemopoietic progenitors, not stem cells, are the principal responders to Hox gene transduction Harvey Lim|Salima Janmohamed|Patricia Benveniste|Robert Herrington|Mary Barbara|Catherine Frelin|Deborah Hyam|Christopher Paige|Juan-Carlos Zuniga-Pflucker|Carol Stocking|Jana Krosl|Guy Sauvageau|Norman Iscove Department of Medical Biophysics, University of Toronto, Toronto, Canada;|Department of Immunology, University of Toronto, Toronto, Canada;|Princess Margaret Cancer Centre, Toronto, Canada;|Heinrich-Pette-Institute, Leibniz Institute for Experimental Virology, Hamburg, Germany;|Institute for Research in Immunology and Cancer, University of Montreal, Montreal, Canada
http://dx.doi.org/10.1101/174573 2017-08-10 Molecular Biology DNA-PK facilitates HIV transcription by regulating the activity of RNA polymerase II and the recruitment of transcription machinery at HIV LTR Sonia Zicari|Geetaram Sahu|Larisa Dubrovsky|Lin Sun|Han Yue|Tejaswi Jada|Alex Ochem|Michael Bukrinsky|Gary Simon|Mudit Tyagi The George Washington University;|ICGEB
http://dx.doi.org/10.1101/174615 2017-08-10 Ecology CC BY-ND Genome downsizing, physiological novelty, and the global dominance of flowering plants Kevin A. Simonin|Adam B. Roddy San Francisco State University;|Yale University
http://dx.doi.org/10.1101/174110 2017-08-10 Biophysics Gpufit: An open-source toolkit for GPU-accelerated curve fitting Adrian Przybylski|Bjorn Thiel|Jan Keller-Findeisen|Bernd Stock|Mark Bates Max Planck Institute for Biophysical Chemistry;|University of Applied Sciences and Arts
http://dx.doi.org/10.1101/174599 2017-08-10 Biophysics CC BY-NC-ND Cell growth rate dictates the onset of glass to fluid-like transition and long time super-diffusion in an evolving cell colony Abdul Malmi-Kakkada|Xin Li|Himadri S. Samanta|Sumit Sinha|D. Thirumalai University of Texas, Austin
http://dx.doi.org/10.1101/174631 2017-08-10 Neuroscience Mouse hue and wavelength-specific luminance contrast sensitivity are non-uniform across visual space Daniel J. Denman|Jennifer A. Luviano|Douglas R. Ollerenshaw|Sissy Cross|Derric Williams|Michael A. Buice|Shawn R. Olsen|R. Clay Reid Allen Institute for Brain Science
http://dx.doi.org/10.1101/172932 2017-08-10 Microbiology Permissive zones for the centromere-binding protein ParB on the Caulobacter crescentus chromosome Ngat T. Tran|Clare E. Stevenson|Nicolle F. Som|Anyarat Thanapipatsiri|Adam S. B. Jalal|Tung B. K. Le John Innes Centre
http://dx.doi.org/10.1101/174623 2017-08-10 Neuroscience CC BY-NC-ND A subset of sweet-sensing neurons identified by IR56d are necessary and sufficient for fatty acid taste John M. Tauber|Elizabeth Brown|Yuanyuan Li|Maria E. Yurgel|Pavel Masek|Alex C. Keene Florida Atlantic University;|Binghamton University
http://dx.doi.org/10.1101/174680 2017-08-10 Developmental Biology BMP signalling is critical for maintaining homeostasis of hair follicles and intestine in adult mice Aditi Nag|Pallavi Nigam|Abhishek L. Narayanan|Megha Kumar|Ritika Ghosal|Jonaki Sen|Amitabha Bandyopadhyay Indian Institute of Technology Kanpur;|Regional Centre for Biotechnology;|University of Warwick
http://dx.doi.org/10.1101/174607 2017-08-10 Molecular Biology CBF-1 promotes the establishment and maintenance of HIV latency by recruiting Polycomb repressive complexes, PRC1 and PRC2, at HIV LTR Sonia Zicari|Kalamo Farley|Lin Sun|Liam Spurr|Andrea Dragon|Michael Bukrinsky|Gary Simon|Ashok Chauhan|Mudit Tyagi The George Washington University
http://dx.doi.org/10.1101/174698 2017-08-10 Cell Biology CC BY Accelerated human liver progenitor generation from pluripotent stem cells by inhibiting formation of unwanted lineages Lay Teng Ang|Antson Tan|Matias Ilmari Autio|Joanne Su-hua Goh|Siew Hua Choo|Kian Leong Lee|Bangfen Pan|Jianmin Tan|Jane Jia Hui Lee|Isabelle Kai Xin Yeo|Chloe Jin Yee Wong|Jen Jen Lum|Chet Hong Loh|Christina Ying Yan Lim|Jueween Ling Li Oh|Cheryl Pei Lynn Chia|Angela Chen|Qing Feng Chen|Irving Weissman|Kyle M. Loh|Bing Lim Genome Institute of Singapore;|Duke-NUS Medical School;|Temasek Polytechnic;|Stanford University;|Institute of Molecular and Cell Biology
http://dx.doi.org/10.1101/174722 2017-08-10 Microbiology CC BY-NC Plasticity of the MFS1 promoter leads to multi drug resistance in the wheat pathogen Zymoseptoria tritici Selim Omrane|Colette Audeon|Amandine Ignace|Clementine Duplaix|Lamia Aouini|Gert Kema|Anne-Sophie Walker|Sabine Fillinger INRA, AgroParisTech, Universite Paris-Saclay;|Wageningen University;|Wageningen University, Plant Research International
http://dx.doi.org/10.1101/174771 2017-08-10 Developmental Biology Monsters in the uterus: A parthenogenetic quasi-program causes teratoma-like tumors during aging in wild-type C. elegans Hongyuan Wang|Yuan Zhao|Marina Ezcurra|Ann Gilliat|Josephine Hellberg|Alexandre Benedetto|Trin Athigapanich|Johannes Girstmair|Max Telford|Zhizhou Zhang|David Gems Harbin Institute of Technology; University College London;|University College London;|University College London; Lancaster University;|Harbin Institute of Technology
http://dx.doi.org/10.1101/174797 2017-08-10 Microbiology CC BY-NC-ND Newly identified varicella-zoster virus latency transcript inhibits viral replication Daniel P. Depledge|Werner J. D. Ouwendijk|Tomohiko Sadaoka|Shirley E. Braspenning|Yasuko Mori|Randall Cohrs|Georges Verjans|Judith Breuer University College London;|Erasmus Medical Center;|Kobe University;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/174805 2017-08-10 Plant Biology CC BY-NC-ND Maternal RNA-directed DNA methylation is required for seed development in Brassica rapa Jeffrey Grover|Timmy Kendall|Abdul Baten|Graham J. King|Rebecca A. Mosher Department of Molecular & Cellular Biology, The University of Arizona;|University of Arizona;|Southern Cross Plant Science, Southern Cross University;|The School of Plant Sciences, The University of Arizona
http://dx.doi.org/10.1101/174789 2017-08-10 Evolutionary Biology CC BY-NC-ND GHOST: Recovering Historical Signal from Heterotachously-evolved Sequence Alignments Stephen M. Crotty|Bui Quang Minh|Nigel G. Bean|Barbara R. Holland|Jonathan Tuke|Lars S. Jermiin|Arndt von Haeseler Centre for Integrative Bioinformatics Vienna;|Center for Integrative Bioinformatics Vienna;|The University of Adelaide;|The University of Tasmania;|Australian National University
http://dx.doi.org/10.1101/174730 2017-08-10 Molecular Biology POLD replicates both strands of small kilobase-long replication bubbles initiated at a majority of human replication origins Artem V. Artemov|Maria A. Andrianova|Georgii A. Bazykin|Vladimir B. Seplyarskiy Faculty of Bioengineering and Bioinformatics;|Institute for Information Transmission Problems of the Russian Academy of Sciences
http://dx.doi.org/10.1101/173575 2017-08-10 Bioinformatics Learning sequence patterns of AGO-sRNA affinity from high-throughput sequencing libraries to improve in silico functional small RNA detection and classification in plants Lionel Morgado|Ritsert C. Jansen|Frank Johannes University of Groningen;|Technical University of Munich
http://dx.doi.org/10.1101/174821 2017-08-10 Bioinformatics CC BY-ND High resolution annotation of Zebrafish transcriptome using long-read sequencing German Nudelman|Antonio Frasca|Brandon Kent|Kirsten Edepli-Sadler|Stuart C. Sealfon|Martin J. Walsh|Elena Zaslavsky Icahn School of Medicine at Mount Sinai;|New York University Abu Dhabi
http://dx.doi.org/10.1101/174813 2017-08-10 Bioinformatics CC BY-NC-ND A Linear Algebra Approach to Fast DNA Mixture Analysis Using GPUs Siddharth Samsi|Brian Helfer|Jeremy Kepner|Albert Reuther|Darrell O. Ricke MIT Lincoln Laboratory
http://dx.doi.org/10.1101/174748 2017-08-10 Bioinformatics CC BY-NC Identification of functional modules relevant to human neuron maturation and generation of neuron maturity index Zhisong He|Qianhui Yu CAS-MPG PICB
http://dx.doi.org/10.1101/174714 2017-08-10 Bioinformatics High-resolution global peptide-protein docking using fragments-based PIPER-FlexPepDock Nawsad Alam|Oriel Goldstein|Bing Xia|Kathryn A. Porter|Dima Kozakov|Ora Schueler-Furman Department of Microbiology and Molecular Genetics, The Hebrew University of Jerusalem;|School of Computer Sciences and Engineering, The Hebrew University of Jerusalem;|Department of Biomedical Engineering, Boston University;|Department of Applied Mathematics and Statistics, Stony Brook University
http://dx.doi.org/10.1101/111682 2017-08-10 Biochemistry Identifying a TFIID interactome via integrated biochemical and high-throughput proteomic studies Wei-Li Liu|Lihua Song|Gina Dailey|Anna Piasecka|Robert A Coleman Albert Einstein College of Medicine;|HHMI University of California-Berkeley
http://dx.doi.org/10.1101/111674 2017-08-10 Cell Biology PBAF's genomic binding dynamics are regulated via bromodomain-acetyl-lysine interactions and select chromatin states. Charles A Kenworthy|Vincent Wong|Patrycja Dziuba|Luke D Lavis|Wei-Li Liu|Robert H Singer|Robert A Coleman Albert Einstein College of Medicine;|HHMI Janelia Research Campus
http://dx.doi.org/10.1101/175133 2017-08-10 Flavonol rhamnosylation indirectly modifies the cell wall defects of RHAMNOSE BIOSYNTHESIS1 mutants by altering rhamnose flux Adam Saffer|Vivian Irish Yale University
http://dx.doi.org/10.1101/175091 2017-08-10 CC BY-ND The roles of Conserved Domains in DEMETER-Mediated Active DNA Demethylation in planta Changqing Zhang|Yu-Hung Hung|Xiang-Qian Zhang|Dapeng Zhang|Wenyan Xiao|Lakshminarayan M. Iyer|L. Aravind|Jin Hoe Huh|Tzung-Fu Hsieh North Carolina State University;|South China Agricultural University;|St. Louis University;|National Institutes of Health;|Seoul National University
http://dx.doi.org/10.1101/166280 2017-08-10 CC BY-NC Global and Local Dynamics of High-Gamma Activity Underlying Error Processing in the Human Brain Revealed by Noninvasive and Intracranial EEG Martin Voelker|Lukas D. J. Fiederer|Sofie Berberich|Jiri Hammer|Joos Behncke|Pavel Krsek|Martin Tomasek|Petr Marusic|Peter C. Reinacher|Volker A. Coenen|Andreas Schulze-Bonhage|Wolfram Burgard|Tonio Ball Translational Neurotechnology Lab, Medical Center, University of Freiburg, Germany;|Charles Univ., 2nd Faculty of Medicine, Motol University Hospital, Prague, Czech Republic;|Stereotactic and Functional Neurosurgery, Medical Center, University of Freiburg;|Epilepsy Center, Medical Center, University of Freiburg, 79106 Freiburg, Germany;|Autonomous Intelligent Systems, University of Freiburg, 79110 Freiburg, Germany
http://dx.doi.org/10.1101/175059 2017-08-10 CC BY-ND Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic Peter A. Combs|Hunter B. Fraser Stanford University
http://dx.doi.org/10.1101/175075 2017-08-10 CC BY-NC-ND Humans flexibly incorporate attention-dependent uncertainty into perceptual decisions and confidence Rachel N. Denison|William T. Adler|Marisa Carrasco|Wei Ji Ma New York University
http://dx.doi.org/10.1101/175067 2017-08-10 CC BY-NC-ND Evolution of Hominin Polyunsaturated Fatty Acid Metabolism: From Africa to the New World Daniel N. Harris|Ingo Ruczinski|Lisa R. Yanek|Lewis C. Becker|Diane M. Becker|Heinner Guio|Tao Cui|Floyd H. Chilton|Rasika A. Mathias|Timothy O'Connor University of Maryland School of Medicine;|Johns Hopkins Bloomberg School of Public Health;|Johns Hopkins University School of Medicine;|Instituto Nacional de Salud, Lima, Peru;|Wake Forest School of Medicine
http://dx.doi.org/10.1101/174516 2017-08-10 CC BY-ND Computational pipeline for the PGV-001 neoantigen vaccine trial Alexander Rubinsteyn|Julia Kodysh|Isaac Hodes|Sebastien Mondet|Bulent Arman Aksoy|John P. Finnigan|Nina Bhardwaj|Jeffrey Hammerbacher Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/175000 2017-08-10 Neural entrainment determines the words we hear Anne Kosem|Hans Rutger Bosker|Atsuko Takashima|Antje Meyer|Ole Jensen|Peter Hagoort Radboud Univ., Donders Inst. for Brain, Cognition, and Behaviour, Nijmegen, The Netherlands;|Max Planck Institute for Psycholinguistics, Nijmegen, The Netherlands;|University of Birmingham, Centre for Human Brain Health, Birmingham, United Kingdom
http://dx.doi.org/10.1101/174904 2017-08-10 Genomics Deciphering Transcriptional Regulation of Human Core Promoters Shira Weingarten-Gabbay|Ronit Nir|Shai Lubliner|Eilon Sharon|Yael Kalma|Adina Weinberger|Eran Segal Weizmann Institute of Science
http://dx.doi.org/10.1101/174938 2017-08-10 Genomics Complex rearrangements and oncogene amplifications revealed by long-read DNA and RNA sequencing of a breast cancer cell line Maria Nattestad|Sara Goodwin|Karen Ng|Timour Baslan|Fritz J. Sedlazeck|Philipp Rescheneder|Tyler Garvin|Han Fang|James Gurtowski|Elizabeth Hutton|Elizabeth Tseng|Chen-Shan Chin|Timothy Beck|Yogi Sundaravadanam|Melissa Kramer|Eric Antoniou|John D. McPherson|James Hicks|William Richard McCombie|Michael C. Schatz Cold Spring Harbor Laboratory;|Ontario Institute for Cancer Research;|Memorial Sloan Kettering Cancer Center;|Baylor College of Medicine;|University of Vienna;|Pacific Biosciences;|UC Davis Comprehensive Cancer Center;|Johns Hopkins University
http://dx.doi.org/10.1101/174896 2017-08-10 Bioinformatics CC BY-NC-ND COGEM: A Toolbox for Computational Genomics in Matlab Theodore J. Perkins Ottawa Hospital Research Institute
http://dx.doi.org/10.1101/174888 2017-08-10 Synthetic Biology CC BY-NC-ND Synthetic protein-sensing riboswitches Noa Katz|Beate Kaufmann|Roni Cohen|Oz Solomon|Orna Atar|Zohar Yakhini|Sarah Goldberg|Roee Amit Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/174649 2017-08-10 Genomics Mitotic chromosomes fold by condensin-dependent helical winding of chromatin loop arrays Johan H. Gibcus|Kumiko Samejima|Anton Goloborodko|Itaru Samejima|Natalia Naumova|Masato Kanemaki|Linfeng Xie|James R. Paulson|William C. Earnshaw|Leonid A. Mirny|Job Dekker University of Massachusetts Medical School;|Wellcome Centre for Cell Biology, University of Edinburgh;|Massachusetts Institute of Technology;|National Institute of Genetics, Japan;|University of Wisconsin-Oshkosh;|HHMI, University of Massachusetts Medical School
http://dx.doi.org/10.1101/174839 2017-08-10 Bioinformatics CC BY Modeling codon rate variation improves protein positive selection inference and detects nucleotide selection Iakov I. Davydov|Nicolas Salamin|Marc Robinson-Rechavi University of Lausanne
http://dx.doi.org/10.1101/174946 2017-08-10 Neuroscience CC BY Multi-Transition Systems: A theory for neural spatial navigation Nicolai Waniek Technical University Munich
http://dx.doi.org/10.1101/174979 2017-08-10 Animal Behavior and Cognition CC BY-NC-ND DEET as a feeding deterrent WeiYu Lu|Justin Hwang|Fangfang Zeng|Walter Leal UC Davis
http://dx.doi.org/10.1101/174953 2017-08-10 Genetics Assessing eRNAs associated with a cytokine-sensing mammary super-enhancer Chaochen Wang|Tyler Kuhns|Christian Reinbold|Michaela Willi|Lothar Hennighausen NIH/NIDDK
http://dx.doi.org/10.1101/174870 2017-08-10 Ecology Rare earth elements (REE) in freshwater, marine, and terrestrial ecosystems in the eastern Canadian Arctic Gwyneth Anne MacMillan|John Chetelat|Joel Heath|Raymond Mickpegak|Marc Amyot University of Montreal;|Environment and Climate Change Canada;|Arctic Eider Society;|Sakkuq Landholding Corporation
http://dx.doi.org/10.1101/174995 2017-08-10 Bioinformatics CC BY-ND Does genetic risk help to predict amyloid burden in a non-demented population? A Bayesian approach. Nicola Voyle|Willemijn Jansen|Aoife Keohane|Hamel Patel|Amos Folarin|Stephen Newhouse|Caroline Johnston|Kuang Lin|Pieter Jelle Visser|Angela Hodges|Richard J. B. Dobson|Steven Kiddle SGDP Centre, IoPPN, KCL, London;|Dept. of Psychiatry and Neuropsychology, Alzheimer Centre Limburg, Maastricht University;|Department of Neurology and Alzheimer Center, VU University Medical Center, Amsterdam;|Department of Old Age Psychiatry, IoPPN, KCL, London
http://dx.doi.org/10.1101/173211 2017-08-10 Epidemiology CC BY-NC MERS-CoV spillover at the camel-human interface Gytis Dudas|Luiz Carvalho|Andrew Rambaut|Trevor Bedford Fred Hutchinson Cancer Research Center;|University of Edinburgh
http://dx.doi.org/10.1101/173682 2017-08-10 Epidemiology CC BY Automating Mendelian randomization through machine learning to construct a putative causal map of the human phenome Gibran Hemani|Jack Bowden|Philip C. Haycock|Jie Zheng|Oliver Davis|Peter Flach|Tom R. Gaunt|George Davey Smith University of Bristol
http://dx.doi.org/10.1101/173534 2017-08-10 Epidemiology CC BY Analysis of multistage in vitro fertilization data with mixed multilevel outcomes using joint modelling approaches Jack Wilkinson|Andy Vail|Stephen A. Roberts University of Manchester
http://dx.doi.org/10.1101/174862 2017-08-11 CC BY-ND Simulation of cancer cell line pharmacogenomics data to optimise experimental design and analysis strategy Hitesh Mistry|Phil Chapman School of Pharmacy, University of Manchester;|Drug Discovery Unit, CRUK Manchester Institute
http://dx.doi.org/10.1101/175380 2017-08-11 CC BY Increased anxiety and decreased sociability in adulthood following paternal deprivation involve oxytocin in the mPFC Zhixiong He|Limin Wang|Luo Luo|Rui Jia|Wei Yuan|Wenjuan Hou|Jinfeng Yang|Yang Yang|Fadao Tai Shaanxi Normal University
http://dx.doi.org/10.1101/173336 2017-08-11 Genomics CC BY SMRT sequencing reveals differential patterns of methylation in two O111:H- Shiga toxigenic Escherichia coli isolates from a historic hemolytic uremic syndrome outbreak in Australia Brian M. Forde|Lauren J. McAllister|James C. Paton|Adrienne W. Paton|Scott Beatson University of Queensland;|University of Adelaide;|The University of Queensland
http://dx.doi.org/10.1101/175315 2017-08-11 Immunology CC BY-NC-ND Performance-optimized partitioning of clonotypes from high-throughput immunoglobulin repertoire sequencing data Nima Nouri|Steven H. Kleinstein Yale University, Department of Pathology
http://dx.doi.org/10.1101/174755 2017-08-11 Genetics CC BY-NC-ND The genetic architecture of osteoarthritis: insights from UK Biobank Eleni Zengini|Konstantinos Hatzikotoulas|Ioanna Tachmazidou|Julia Steinberg|Fernando P. Hartwig|Lorraine Southam|Sophie Hackinger|Cindy G. Boer|Unnur Styrkarsdottir|Daniel Suveges|Britt Kilian|Arthur Gilly|Thorvaldur Ingvarsson|Helgi Jonsson|George C. Babis|Andrew McCaskie|Andre G. Uitterlinden|Joyce B. J. van Meurs|Unnur Thorsteinsdottir|Kari Stefansson|George Davey Smith|Jeremy M. Wilkinson|Eleftheria Zeggini University of Sheffield, UK; Dromokaiteio Psychiatric Hospital, Greece;|Wellcome Trust Sanger Institute, UK;|Federal University of Pelotas, Brazil; University of Bristol, UK;|Wellcome Trust Sanger Institute, UK; University of Oxford, UK;|Erasmus MC, Netherlands;|deCODE genetics, Iceland;|Akureyri Hospital; University of Iceland; University of Akureyri, Iceland;|University of Iceland; The National University Hospital of Iceland, Iceland;|National and Kapodistrian University of Athens, Greece;|University of Cambridge, UK;|deCODE genetics; University of Iceland, Iceland;|University of Bristol, UK;|University of Sheffield, UK
http://dx.doi.org/10.1101/174961 2017-08-11 Epidemiology CC BY Multiscale Model Within-host and Between-host for Viral Infectious Diseases Alexis Erich S. Almocera|Van Kinh Nguyen|Esteban A. Hernandez-Vargas Frankfurt Institute for Advanced Studies (FIAS)
http://dx.doi.org/10.1101/173492 2017-08-11 Epidemiology CC BY-NC-ND Predictors of intestinal inflammation in asymptomatic first-degree relatives of patients with Crohn's disease Kirstin M. Taylor|Ken B. Hanscombe|Raquel Iniesta|Matthew Traylor|Nicola S. Taylor|Nicholas Powell|Peter M. Irving|Simon H. Anderson|Natalie J. Prescott|Christopher G. Mathew|Cathryn M. Lewis|Jeremy D. Sanderson Kings College London; Guys & St. Thomas NHS Foundation Trust, St. Thomas Hospital;|Kings College London;|University of Cambridge;|Southampton General Hospital;|Guys & St. Thomas NHS Foundation Trust, St. Thomas Hospital;|Kings College London; Sydney Brenner Institute for Molecular Biosciences
http://dx.doi.org/10.1101/172817 2017-08-11 Epidemiology CC BY Identifying factors that may improve mechanistic forecasting models for influenza Pete Riley|Michal Ben-Nun|James A. Turtle|Jon Linker|David P. Bacon|Steven Riley Predictive Science Inc.;|Leidos;|Imperial College, London
http://dx.doi.org/10.1101/173351 2017-08-11 Epidemiology CC BY-ND On the relative role of different age groups during epidemics associated with the respiratory syncytial virus Edward Goldstein|Hieu H. Nguyen|Patrick Liu|Cecile Viboud|Claudia A. Steiner|Colin J. Worby|Marc Lipsitch Harvard T. H. Chan School of Public Health;|Harvard University;|National Institutes of Health;|Agency for HealthCare Research and Quality, U.S. Department of Health & Human Services;|Princeton University
http://dx.doi.org/10.1101/171025 2017-08-11 Bioinformatics CC BY-NC-ND Developing a 3- to 6-state EEG-based brain-computer interface for a robotic manipulator control Yuriy Mishchenko|Murat Kaya|Erkan Ozbay|Hilmi Yanar Izmir University of Economics;|Toros University;|Mersin University
http://dx.doi.org/10.1101/175273 2017-08-11 Biophysics CC BY Cooperative mechanosensitivity and allostery of focal adhesion clusters Darryl C. W. Foo|Eugene M. Terentjev University of Cambridge
http://dx.doi.org/10.1101/175182 2017-08-11 Microbiology CC BY-ND Chlorinated electron acceptor availability selects for specific Dehalococcoides populations in dechlorinating enrichment cultures and in groundwater Alfredo Perez de Mora|Anna Lacourt|Michaye L. McMaster|Xiaoming Liang|Sandra Dworatzek|Elizabeth Anne Edwards Helmholtz Zentrum Munich;|University of Toronto;|Geosyntec Consultants;|SiREM Lab
http://dx.doi.org/10.1101/171405 2017-08-11 Genomics Quantitative DSB sequencing (qDSB-Seq): a method for genome-wide accurate estimation of absolute DNA double-strand break frequencies per cell Yingjie Zhu|Norbert Dojer|Anna Biernacka|Benjamin Pardo|Romain Forey|Magdalena Skrzypczak|Bernard Fongang|Jules Berlin Nde Kengne|Raziyeh Yousefi|Philippe Pasero|Krzysztof Ginalski|Maga Rowicka Dept. of Biochemistry & Molecular Biology, University of Texas Medical Branch, Galveston, TX;|Laboratory of Bioinformatics & Systems Biology, Centre of New Technologies, Univ. of Warsaw;|Institute of Human Genetics, Montpellier, France;|University of Texas Medical Branch
http://dx.doi.org/10.1101/175141 2017-08-11 Microbiology CC BY-NC-ND Correlated expression of archaeal ammonia oxidation machinery across disparate environmental and culture conditions Paul Carini|Christopher Dupont|Alyson E. Santoro University of Arizona;|J. Craig Venter Institute;|University of California, Santa Barbara
http://dx.doi.org/10.1101/175174 2017-08-11 Genetics CC BY-NC-ND Induction of X-chromosome Inactivation by the Histone Demethylase SMCX/KDM5C Srimonta Gayen|Emily Maclary|Yumie Murata-Nakamura|Christina N. Vallianatos|Robert S. Porter|Patricia M. Garay|Shigeki Iwase|Sundeep Kalantry University of Michigan Medical School
http://dx.doi.org/10.1101/175190 2017-08-11 Cancer Biology CC BY-NC-ND Immunologic Effect of Polysaccharides Extracted from Sipunculus nudus (SNP) on Hepatoma HepG2-bearing Mice Jie Su|Linlin Jiang|Jingna Wu|Zhiyu Liu|Yuping Wu Fisheries Research Institute of Fujian;|School of Marine Sciences, Sun Yat-Sen University
http://dx.doi.org/10.1101/175224 2017-08-11 Microbiology Preservation of three-dimensional spatial structure in the gut microbiome Yuko Hasegawa|Jessica L. Mark Welch|Blair J. Rossetti|Gary G. Borisy Marine Biological Laboratory;|Marine Biological Laboratory, The Forsyth Institute;|The Forsyth Institute
http://dx.doi.org/10.1101/151878 2017-08-11 Systems Biology Developmental switching in Physarum polycephalum: Petri net analysis of single cell trajectories of gene expression indicates responsiveness and genetic plasticity of the Waddington quasipotential landscape Britta Werthmann|Wolfgang Marwan University of Magdeburg
http://dx.doi.org/10.1101/175018 2017-08-11 Systems Biology CC BY-ND Transmission Expression Signature in Nascent Plasmodium vivax Blood Stage Infection Swamy Rakesh Adapa|Rachel A. Taylor|Chengqi Wang|Richard Thomson-Luque|Leah R. Johnson|Rays H. Y. Jiang Department of Global Health, College of Public Health, University of South Florida;|Department of Integrative Biology, University of South Florida
http://dx.doi.org/10.1101/174011 2017-08-11 Evolutionary Biology CC BY-NC-ND A simple genetic basis of adaptation to a novel thermal environment results in complex metabolic rewiring in Drosophila Francois Mallard|Viola Nolte|Ray Tobler|Martin Kapun|Christian Schlotterer Institut fur Populationsgenetik, Vetmeduni Vienna Vienna, Austria
http://dx.doi.org/10.1101/175307 2017-08-11 A Next Generation Clustering Tool Enables Identification of Functional Cancer Subtypes with Associated Biological Phenotypes Gift Nyamundanda|Katherine Eason|Anguraj Sadanandam Institute of Cancer Research (ICR), London, UK
http://dx.doi.org/10.1101/175257 2017-08-11 CC BY-NC-ND Bacmeta: simulation for genomic evolution in bacterial metapopulations Aleksi Sipola|Pekka Marttinen|Jukka Corander University of Helsinki;|Aalto University
http://dx.doi.org/10.1101/174474 2017-08-11 CC BY Extracting a Biologically Relevant Latent Space from Cancer Transcriptomes with Variational Autoencoders Gregory P. Way|Casey S. Greene University of Pennsylvania
http://dx.doi.org/10.1101/175562 2017-08-11 Proofreading-deficient coronaviruses adapt over long-term passage for increased fidelity and fitness without reversion of exoribonuclease-inactivating mutations Kevin Graepel|Xiaotao Lu|James B. Case|Nicole R. Sexton|Everett C. Smith|Mark R. Denison Vanderbilt University;|Vanderbilt University Medical Center;|The University of the South
http://dx.doi.org/10.1101/175265 2017-08-11 CC BY-NC-ND The role of a single non-coding nucleotide in the evolution of an epidemic African clade of Salmonella Disa L. Hammarlof|Carsten Kroger|Sian V. Owen|Rocio Canals|Lizeth Lacharme-Lora|Nicolas Wenner|Timothy J. Wells|Ian J. Henderson|Paul Wigley|Karsten Hokamp|Nicholas A. Feasey|Melita A. Gordon|Jay C. D. Hinton Department of Cell and Molecular Biology, Uppsala University, Uppsala, Sweden;|Moyne Institute of Preventive Medicine, Trinity College Dublin, Ireland;|Institute of Integrative Biology, University of Liverpool, Liverpool, UK;|Institute of Microbiology and Infection, University of Birmingham, Birmingham, UK;|University of Birmingham;|Smurfit Institute of Genetics, Trinity College Dublin, Ireland;|Liverpool School of Tropical Medicine, Liverpool, UK;|Malawi-Liverpool-Wellcome Trust Clinical Research Programme, Blantyre, Malawi
http://dx.doi.org/10.1101/174920 2017-08-11 CC BY-NC-ND Spring flowering habit in field pennycress (Thlaspi arvense) has arisen multiple independent times Kevin M. Dorn|Evan B. Johnson|Erin Daniels|Donald Wyse|M. David Marks Kansas State University;|University of Minnesota
http://dx.doi.org/10.1101/175463 2017-08-11 CC BY Spatial and temporal control of norovirus protease activity is determined by polyprotein processing and intermolecular interactions within the viral replication complex. Edward Emmott|Alexis de Rougemont|Juergen Haas|Ian Goodfellow University of Cambridge, UK;|University Hospital Dijon; Bourgogne Franche-Comte University, Dijon, France;|University of Edinburgh, UK
http://dx.doi.org/10.1101/175166 2017-08-11 A scheme for 3-dimensional morphological reconstruction and force inference in the early C. elegans embryo Muzhi Xu|Yicong Wu|Hari Shroff|Min Wu|Madhav Mani Northwestern University;|NIH;|Northwestern University; Worcester Polytechnic Institute
http://dx.doi.org/10.1101/175406 2017-08-11 CC BY-NC-ND Estimation of complex effect-size distributions using summary-level statistics from genome-wide association studies across 32 complex traits and implications for the future Yan Zhang|Guanghao Qi|Ju-Hyun Park|Nilanjan Chatterjee Johns Hopkins University;|Dongguk University
http://dx.doi.org/10.1101/175372 2017-08-11 CC BY Improving on a modal-based estimation method: model averaging for consistent and efficient estimation in Mendelian randomization when a plurality of candidate instruments are valid Stephen Burgess|Verena Zuber|Apostolos Gkatzionis|Jessica M. B. Rees|Christopher Foley University of Cambridge;|MRC Biostatistics Unit;|Dept of Public Health and Primary Care, University of Cambridge
http://dx.doi.org/10.1101/175430 2017-08-11 CC BY The genetic architecture of the network underlying flowering time variation in Arabidopsis thaliana Eriko Sasaki|Florian Frommlet|Magnus Nordborg Austrian Academy of Sciences;|Medical University of Vienna;|Gregor Mendel Institute
http://dx.doi.org/10.1101/175596 2017-08-11 CC BY-NC-ND A family-based method for leveraging random genetic variation to identify variance-controlling loci Dalton Conley|Rebecca Johnson|Benjamin W. Domingue|Christopher Dawes|Jason Boardman|Mark Siegal Princeton University;|Stanford University;|NYU;|University of Colorado
http://dx.doi.org/10.1101/175364 2017-08-11 CC BY-NC-ND SALMON: inferring protein targets of compounds by network-based analysis of gene transcriptional profiles Heeju Noh|Jason Edward Shoemaker|Rudiyanto Gunawan ETH Zurich;|University of Pittsburgh
http://dx.doi.org/10.1101/172130 2017-08-11 Cell Biology X10 Expansion Microscopy Enables 25 nm Resolution on Conventional Microscopes Sven Truckenbrodt|Manuel Maidorn|Dagmar Crzan|Hanna Wildhagen|Selda Kabatas|Silvio O. Rizzoli University of Goettingen Medical Center
http://dx.doi.org/10.1101/175448 2017-08-11 Molecular Biology CC BY-NC-ND Poly(ADP-ribosyl)ation dependent changes in CTCF-chromatin binding and gene expression in breast cells Ioanna Pavlaki|France Docquier|Igor Chernukhin|Vladimir B. Teif|Elena Klenova University of Bath;|University of Cambridge;|University of Essex
http://dx.doi.org/10.1101/175489 2017-08-11 Genetics CC BY-NC-ND Common variants of NRXN1, LRP1B and RORA are associated with increased ventricular volumes in psychosis - GWAS findings from the B-SNIP deep phenotyping study Ney Alliey-Rodriguez|Tamar A. Grey|Rebecca Shafee|Jaya Padmanabhan|Neeraj Tandon|Madeline Klinger|Jonathan Spring|Lucas Coppes|Katherine Reis|Matcheri S. Keshavan|Diane Gage|Steven McCarroll|Jeffrey R. Bishop|Scot Hill|James Reilly|Rebekka Lencer|Brett Clementz|Peter Buckley|Shashwath Meda|Balaji Narayanan|David Glahn|Godfrey Pearlson|Elena Ivleva|Carol Tamminga|John Sweeney|David Curtis|Sarah Keedy|Judith Badner|Chunyu Liu|Elliot S. Gershon University of Chicago, Department of Psychiatry and Behavioral Neurosciences;|Massachusetts Institute of Technology;|Harvard Medical School, Department of Genetics;|Harvard Medical School, Department of Psychiatry;|University of Chicago;|Broad Institute of MIT and Harvard;|University of Minnesota, Department of Experimental and Clinical Pharmacology;|Rosalind Franklin University;|Northwestern University;|University of Muenster;|University of Georgia - Athens, Department of Psychology;|Virginia Commonwealth University;|Yale University Departments of Psychiatry & Neuroscience;|University of Texas Southwestern Medical Center, Department of Psychiatry;|University College London;|Rush University Medical Center;|University of Illinois at Chicago;|Univ. of Chicago, Depts. of Psychiatry and Behavioral Neurosciences and Human Genetics
http://dx.doi.org/10.1101/175471 2017-08-11 Plant Biology CC BY-NC Ubiquitin-related genes are differentially expressed in isogenic lines contrasting for pericarp cell size and grain weight in hexaploid wheat Jemima Brinton|James Simmonds|Cristobal Uauy John Innes Centre, Norwich Research Park, Norwich NR4 7UH, UK;|John Innes Centre, Norwich Research Park, NR4 7UH, UK
http://dx.doi.org/10.1101/173278 2017-08-11 Evolutionary Biology CC BY-NC Chemosensory proteins in the CSP4 clade evolved as plant immunity suppressors before two suborders of plant-feeding hemipteran insects diverged Claire Drurey|Thomas C. Mathers|David C. Prince|Christine Wilson|Carlos Caceres-Moreno|Sam T. Mugford|Saskia A. Hogenhout University of Glasgow, Institute of Infection, Immunology and Inflammation;|Earlham Institute;|University of East Anglia;|John Innes Centre;|Shanghai Centre for Plant Stress Biology
http://dx.doi.org/10.1101/175539 2017-08-12 Biochemistry The toxic nature of murine amylin and the immune responsivity of pancreatic islet to conformational antibody in mice Luiza C. S. Erthal|Luana Jotha-Mattos|Flavio A. Lara|Sabrina A. Reis|Bernardo M. O. Pascarelli|Cinthia M. Costa|Kleber L. A. Souza|Luis Mauricio T. R. Lima Federal University of Rio de Janeiro;|Oswaldo Cruz Foundation;|Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/175844 2017-08-13 De novo mutations involved in post-transcriptional dysregulation contribute to six neuropsychiatric disorders Fengbiao Mao|Lu Wang|Qi Liu|Luoyuan Xiao|Xianfeng Li|Xin He|Rajesh C. Rao|Jinchen Li|Yali Dou|Zhongsheng Sun Beijing Institutes of Life Science, Chinese Academy of Sciences;|Institute of Life Science, Southeast University;|Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School;|Department of Computer Science and Technology, Tsinghua University;|State Key Laboratory of Medical Genetics, Central South University;|Department of Human Genetics, University of Chicago;|Department of Pathology, University of Michigan
http://dx.doi.org/10.1101/175828 2017-08-13 CC BY-NC-ND The evolution of tumour composition during fractionated radiotherapy: implications for outcome Thomas D. Lewin|Philip K. Maini|Eduardo G. Moros|Heiko Enderling|Helen M. Byrne University of Oxford;|H. Lee Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/175851 2017-08-13 CC BY-NC-ND A (blue) light in the dark: Blue light modulates oscillatory alpha activity in the occipital cortex of totally visually blind individuals with intact non-visual photoreception Markus van Ackeren|Veronique Daneault|Joseph T. Hull|Genevieve Albouy|Franco Lepore|Julien Doyon|Charles A. Czeisler|Marie Dumont|Julie Carrier|Steven W. Lockeley|Gilles Vandewalle|Olivier Collignon Center for Mind and Brain Science, University of Trento, Italy;|University of Montreal Geriatric Institute;|Division of Sleep Medicine, Department of Medicine, Harvard Medical School;|Functional Neuroimaging Unit, Univ. of Montréal Geriatric Institute, Montréal;|Centre de Recherche en Neuropsychologie et Cognition (CERNEC), Univ. de Montréal;|Ctr. for Adv. Res. in Sleep Medicine, Hôp. du Sacré-Coeur de Montréal;|GIGA-Research - Cyclotron Research Centre; In Vivo Imaging Unit, University of Liège;|Institute for research in Psychology (IPSY) and Neuroscience (IoNS), University of Louvain
http://dx.doi.org/10.1101/175836 2017-08-13 CC BY Diverse modes of synaptic signaling, regulation, and plasticity distinguish two classes of C. elegans glutamatergic neurons Donovan Ventimiglia|Cornelia Bargmann The Rockefeller University
http://dx.doi.org/10.1101/175547 2017-08-13 The complete structure of the small subunit processome Jonas Barandun|Malik Chaker-Margot|Mirjam Hunziker|Kelly R. Molloy|Brian T. Chait|Sebastian Klinge Rockefeller University
http://dx.doi.org/10.1101/175810 2017-08-13 Neuroscience CC BY-NC Caloric-restriction induced alterations in CG and non-CG methylation attenuate age-associated changes in the old brain. Niran Hadad|Archana Unnikrishnan|Jordan A. Jackson|Dustin R. Masser|Laura Otalora|David R. Stanford|Arlan Richardson|Willard Freeman University of Oklahoma Health Sciences Center
http://dx.doi.org/10.1101/175802 2017-08-13 Immunology CC BY-ND Cell cycle modulates CXCR4 expression in germinal center B cells Tom Serge Weber Walter and Eliza Hall Institute for Medical Research
http://dx.doi.org/10.1101/175638 2017-08-13 Evolutionary Biology CC BY Mobility can promote the evolution of cooperation via emergent self-assortment dynamics Jaideep Joshi|Iain D. Couzin|Simon A. Levin|Vishwesha Guttal Indian Institute of Science;|University of Konstanz;|Princeton University
http://dx.doi.org/10.1101/175604 2017-08-13 Neuroscience CC BY Cellular phenotyping of hippocampal progenitors exposed to patient serum predicts conversion to Alzheimer's Disease Aleksandra Maruszak|Tytus Murphy|Benjamine Liu|Chiara de Lucia|Abdel Douiri|Alejo J. Nevado|Charlotte E. Teunissen|Pieter Jelle Visser|Jack Price|Simon Lovestone|Sandrine Thuret King's College London, UK;|University of Oxford, UK;|VU University Medical Center, The Netherlands
http://dx.doi.org/10.1101/175711 2017-08-13 Developmental Biology CC BY-NC-ND Quantitative variation and evolution of spatially explicit morphogen expression in Drosophila Sammi Ali|Sarah Signor|Konstantin Kozlov|Sergey Nuzhdin University of Southern California;|St. Petersburg State Polytechnic University
http://dx.doi.org/10.1101/173468 2017-08-13 Bioengineering CC BY-NC-ND An Open-Source, Programmable Pneumatic Setup for Operation and Automated Control of Single- and Multi-Layer Microfluidic Devices Kara Brower|Robert Puccinelli|Craig Markin|Tyler Shimko|Scott Longwell|Bianca Cruz|Rafael Gomez-Sjoberg|Polly M. Fordyce Stanford University;|California State Polytechnic University, Pomona;|Chan Zuckerberg Biohub
http://dx.doi.org/10.1101/175687 2017-08-13 Cancer Biology CC BY-NC-ND Pathway-Level Integration of Proteogenomic data in Breast Cancer Using Independent Component Analysis Wenke Liu|Sisi Ma|David Fenyo New York University School of Medicine;|University of Minnesota
http://dx.doi.org/10.1101/175455 2017-08-13 Neuroscience Making up your mind: Enhanced perceptual decision-making induced by stochastic resonance during non-invasive brain stimulation Onno van der Groen|Matthew Tang|Nicole Wenderoth|Jason Mattingley ETH Zurich;|Queensland Brain Institute;|Queensland Brain Institute & School of Psychology, University of Queensland
http://dx.doi.org/10.1101/175695 2017-08-13 Cell Biology CC BY-NC-ND Intraocular pressure elevation precedes a phagocytosis decline in a model of pigmentary glaucoma Yalong Dang|Susannah Waxman|Chao Wang|Ralitsa T. Loewen|Nils A. Loewen Department of Ophthalmology, University of Pittsburgh School of Medicine, Pennsylvania
http://dx.doi.org/10.1101/175646 2017-08-13 Immunology CC BY Pegivirus avoids immune recognition but does not attenuate acute-phase disease in a macaque model of HIV infection Adam L. Bailey|Connor R. Buechler|Daniel R. Matson|Eric J. Peterson|Kevin G. Brunner|Mariel S. Mohns|Meghan Breitbach|Laurel M. Stewart|Adam J. Ericsen|Saverio Capuano|Heather A. Simmons|David T. Yang|David H. O'Connor Department of Pathology and Laboratory Medicine, University of Wisconsin-Madison;|Wisconsin National Primate Research Center, Madison, Wisconsin, 53711, USA
http://dx.doi.org/10.1101/175679 2017-08-13 Cell Biology CC BY Asymmetric cell volume changes regulate epithelial morphogenesis in zebrafish Kupffer’s vesicle Agnik Dasgupta|Matthias Merkel|Andrew E. Jacob|Jonathan Edward Dawson|Jeffrey D. Amack|Lisa Manning SUNY Upstate Medical University;|Syracuse University;|Max Planck Institute for Dynamics and Self-Organization
http://dx.doi.org/10.1101/175760 2017-08-13 Animal Behavior and Cognition Forecasting crowd dynamics through coarse-grained data analysis Sebastien Motsch|Mehdi Moussaid|Elisabeth G. Guillot|Mathieu Moreau|Julien Pettre|Guy Theraulaz|Cecile Appert-Rolland|Pierre Degond School of Mathematical and Statistical Sciences, Arizona State University, Tempe, USA;|Adaptive Behavior & Cognition Group, Max Planck Institute for Human Development, Berlin;|Centre de Recherches sur la Cognition Animale, CNRS UMR 5169;|INRIA Rennes-Bretagne Atlantique;|Laboratoire de Physique Theorique, Orsay;|Department of Mathematics, Imperial College London, London
http://dx.doi.org/10.1101/175620 2017-08-13 Genomics A systems approach to the characterization and classification of T-cell responses Shinobu Yamamoto|Elizabeth Whalen|Daisuke Chujo|Durgha Nattamai|Nicole Baldwin|Kimberly O'Brien|Quynh-Anh Nguyen|Vivian Gersuk|Esperanza Anguiano|Junbao Yang|William W. Kwok|Jacques Banchereau|Hideki Ueno|Damien Chaussabel Dept. of Biostatistics, School of Public Health, Rutgers, The State University of New Jersey;|Benaroya Research Institute, Seattle, WA, USA;|National Center for Global Health and Medicine, Tokyo, Japan;|Baylor Institute for Immunology Research, Dallas, TX, USA;|The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA;|Global Health and Emerging Pathogens Institute, Icahn School of Medicine at Mount Sinai;|Sidra Medical and Research Center, Doha, Qatar
http://dx.doi.org/10.1101/175661 2017-08-13 Systems Biology CC BY Hybrid approach for parameter estimation in agent-based models Jill Gallaher|Andrea Hawkins-Daarud|Susan Christine Massey|Kristin Swanson|Alexander Anderson H. Lee Moffitt Cancer Center;|The Mayo Clinic
http://dx.doi.org/10.1101/175703 2017-08-13 Cell Biology CC BY Computational investigation of biological and technical variability in high throughput phenotyping and cell line identification Samuel H. Friedman|Paul Macklin Opto-Knowledge Systems, Inc.;|Indiana University
http://dx.doi.org/10.1101/176024 2017-08-14 Bioinformatics Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum functional genome and evolutionary origin of diatoms Achal Rastogi|Uma Maheswari|Richard G. Dorrell|Florian Maumus|Fabio Rocha Jimenez Vieira|Adam Kustka|James McCarthy|Andy E. Allen|Paul Kersey|Chris Bowler|Leila Tirichine Ecole Normale Superieure;|EMBL-EBI;|INRA;|Rutgers University;|Scripps Institute of Oceanography
http://dx.doi.org/10.1101/175026 2017-08-14 Genomics Global accumulation of circRNAs during aging in Caenorhabditis elegans Mariela Cortes-Lopez|Matthew Gruner|Daphne A. Cooper|Hannah N. Gruner|Alexandru-Ioan Voda|Alexander van der Linden|Pedro Miura University of Nevada, Reno
http://dx.doi.org/10.1101/171595 2017-08-14 Microbiology The Novel Monocomponent FAD-dependent Monooxygenase HpaM Catalyzes the 2-Decarboxylative Hydroxylation of 5-Hydroxypicolinic Acid in Alcaligenes faecalis JQ135 Jiguo Qiu|Bin Liu|Lingling Zhao|Yangting Zhang|Dan Cheng|Xin Yan|Jiandong Jiang|Qing Hong|Jian He Nanjing Agricultural University
http://dx.doi.org/10.1101/176008 2017-08-14 Genomics Continuous gene flow contributes to low global species abundance and distribution of a marine model diatom Achal Rastogi|Anne-Flore Deton-Cabanillas|Fabio Rocha Jimenez Vieira|Alaguraj Veluchamy|Catherine Cantrel|Gaohong Wang|Pieter Vanormelingen|Chris Bowler|Gwenael Piganeau|Leila Tirichine|Hanhua Hu Ecole Normale Superieure;|Institute of Hydrobiology;|University of Ghent;|UPMC, Observatoire Oceanologique
http://dx.doi.org/10.1101/162669 2017-08-14 Cancer Biology Somatic genome editing with the RCAS/TVA-CRISPR/Cas9 system for precision tumor modeling Barbara Oldrini|Alvaro Curiel-Garcia|Carolina Marques|Veronica Matia|Ozge Uluckan|Raul Torres-Ruiz|Sandra Rodriguez-Perales|Jason Huse|Massimo Squatrito Spanish National Cancer Research Center (CNIO);|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/175950 2017-08-14 Genomics CC BY-NC-ND Real-time genomic and epidemiological investigation of a multi-institution outbreak of KPC-producing Enterobacteriaceae: a translational study Jason C. Kwong|Courtney Lane|Finn Romanes|Anders Goncalves da Silva|Marion Easton|Katie Cronin|Mary J. Waters|Takehiro Tomita|Kerrie Stevens|Mark B. Schultz|Sarah L. Baines|Norelle L. Sherry|Glen Carter|Andre Mu|Michelle Sait|Susan A. Ballard|Torsten Seemann|Timothy P. Stinear|Benjamin P. Howden Department of Microbiology & Immunology, University of Melbourne;|Microbiological Diagnostic Unit Public Health Laboratory, University of Melbourne;|Department of Health & Human Services, Victoria;|Doherty Applied Microbial Genomics, Peter Doherty Institute for Infection & Immunity;|St. Vincent's Hospital, Melbourne;|Melbourne Bioinformatics, University of Melbourne
http://dx.doi.org/10.1101/175984 2017-08-14 Genomics Nanopore sequencing enables near-complete de novo assembly of Saccharomyces cerevisiae reference strain CEN.PK113-7D Alex N. Salazar|Arthur R. Gorter de Vries|Marcel van den Broek|Melanie Wijsman|Pilar de la Torre Cortes|Anja Brickwedde|Nick Brouwers|Jean-Marc G. Daran|Thomas Abeel Delft University of Technology
http://dx.doi.org/10.1101/175885 2017-08-14 Plant Biology A stable beneficial symbiotic relationship between endophytic fungus Schizophyllum commune and host plant Panax ginseng Xin Zhai|Ling Chen|Min Jia|Chang Hui Li|Hui Shen|Bing Zhu Ye|Lu Ping Qin|Ting Han Secondary Military Medical University;|Shandong University of Traditional Chinese Medicine
http://dx.doi.org/10.1101/175877 2017-08-14 Bioinformatics Influence of fecal collection conditions and 16S rRNA gene sequencing protocols at two centers on human gut microbiota analysis Jocelyn Sietsma Penington|Megan A. S. Penno|Katrina M. Ngui|Nadim J. Ajami|Alexandra J. Roth-Schulze|Stephen A. Wilcox|Esther Bandala-Sanchez|John M. Wentworth|Simon C. Barry|Cheryl Y. Brown|Jennifer J. Couper|Joseph F. Petrosino|Anthony T. Papenfuss|Leonard C. Harrison Walter and Eliza Hall Institute for Medical Research;|School of Medicine, University of Adelaide Robinson Research Institute, South Australia;|The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3052, Australia;|Alkek Center for Metagenomics & Microbiome Research, Baylor College of Medicine, Houston;|-
http://dx.doi.org/10.1101/175901 2017-08-14 CC BY-NC-ND HNRNPA1 promotes recognition of splice site decoys by U2AF2 in vivo Jonathan M. Howard|Hai Lin|Garam Kim|Jolene M. Draper|Maximilian Haeussler|Solomon Katzman|Masoud Toloue|Yunlong Liu|Jeremy R. Sanford UC Santa Cruz;|Indiana University School of Medicine;|Bioo Scientific
http://dx.doi.org/10.1101/175927 2017-08-14 Bioinformatics CC BY scPipe: a flexible data preprocessing pipeline for single-cell RNA-sequencing data Luyi Tian|Shian Su|Daniela Amann-Zalcenstein|Christine Biben|Shalin H. Naik|Matthew E. Ritchie Walter and Eliza Hall Institute of Medical Research;|The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/175943 2017-08-14 Bioinformatics CC BY A bestiary of localized sequence rearrangements in human DNA Martin Frith|Sofia Khan AIST & University of Tokyo;|AIST
http://dx.doi.org/10.1101/176255 2017-08-14 The effect of sequence mismatches on binding affinity and endonuclease activity are decoupled throughout the Cas9 binding site Liyang Zhang|Hans Tomas Rube|Harmen J. Bussemaker|Miles A. Pufall University of Iowa;|Columbia University
http://dx.doi.org/10.1101/176321 2017-08-14 CC BY-NC-ND Population-based mechanistic modeling allows for quantitative predictions of drug responses across cell types Jingqi Q. X. Gong|Eric A. Sobie Icahn School of Medicine at Mount Sinai; Pfizer QSP Lab;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/176339 2017-08-14 Dlic1 deletion impaired cerebellar development in mouse Shanshan Kong|Wufan Tao University of Tennessee;|Fudan University
http://dx.doi.org/10.1101/175505 2017-08-14 Revealing unidentified heterogeneity in different epithelial cancers using heterocellular subtype classification Pawan Poudel|Gift Nyamundanda|Chanthirika Ragulan|Rita Lawlor|Kakoli Das|Patrick Tan|Aldo Scarpa|Anguraj Sadanandam Institute of Cancer Research;|Institute of Cancer Reach;|University and Hospital Trust of Verona;|Duke-NUS Medical School, Singapore;|Duke-NUS Medical School, Genome Inst. of Singapore, Cancer Science Instit. of Singapore
http://dx.doi.org/10.1101/176230 2017-08-14 CC BY-NC-ND Network inference reveals novel connections in pathways regulating growth and defense in the yeast salt response Matthew E. MacGilvray|Evgenia Shishkova|Deborah Chasman|Michael Place|Anthony Gitter|Joshua J. Coon|Audrey P. Gasch University of Wisconsin-Madison
http://dx.doi.org/10.1101/176198 2017-08-14 CC BY Encoding Sensory and Motor Patterns as Time-Invariant Trajectories in Recurrent Neural Networks Vishwa Goudar|Dean V. Buonomano University of California, Los Angeles
http://dx.doi.org/10.1101/176107 2017-08-14 The effect of the thin body ideal in a media-naive population Jean-Luc Jucker|Tracey Thornborrow|Lynda Boothroyd|Martin Tovee University of Neuchatel;|University of Lincoln;|University of Durham
http://dx.doi.org/10.1101/176164 2017-08-14 CC BY-NC-ND Transcriptome wide analysis of natural antisense transcripts shows their potential role in breast cancer. Stephane Wenric|Sonia ElGuendi|Jean-Hubert Caberg|Warda Bezzaou|Corinne Fasquelle|Benoit Charloteaux|Latifa Karim|Benoit Hennuy|Pierre Freres|Joelle Collignon|Meriem Boukerroucha|Helene Schroeder|Fabrice Olivier|Veronique Jossa|Guy Jerusalem|Claire Josse|Vincent Bours University of Liege, GIGA-Research, La boratory of Human Genetics, Liege, Belgium;|University Hospital (CHU), Center of Genetics, Liege , Belgium;|University of Liege, GIGA-Research, Laboratory of Human Genetics, Liege, Belgium;|University of Liege, GIGA-Genomics Platform, Liege, Belgium;|University Hospital (CHU), Department of Medical Oncology, Liege, Belgium;|Clinique Saint-Vincent (CHC), Department of Pathology, Liege, Belgium
http://dx.doi.org/10.1101/176057 2017-08-14 Prestimulus Activity in the Cingulo-Opercular Network Predicts Memory for Naturalistic Episodic Experience Noga Cohen|Aya Ben-Yakov|Jochen Weber|Micah Edelson|Rony Paz|Yadin Dudai Columbia University;|University of Cambridge;|University of Zurich;|Weizmann Institute of Science
http://dx.doi.org/10.1101/176040 2017-08-14 Environmental fluctuations accelerate molecular evolution of thermal tolerance in a marine diatom C.-Elisa Schaum|Angus Buckling|Nicholas Smirnoff|David Studholme|Gabriel Yvon-Durocher University of Exeter
http://dx.doi.org/10.1101/176222 2017-08-14 CC BY-NC-ND A nutrient-dependent division antagonist is regulated post-translationally by the Clp proteases in Bacillus subtilis Norbert S Hill|Jason D Zuke|Paul J Buske|An-Chun Chien|Petra Anne Levin Department of Molecular and Cell Biology, University of California, Berkeley;|University of Wisconsin, Madison;|MedImmune LLC;|Washington University in St. Louis;|Department of Biology, Washington University
http://dx.doi.org/10.1101/176032 2017-08-14 SINHCAF/FAM60A links SIN3A function to the hypoxia response and its levels are predictive of cancer patient survival John Biddlestone|Michael Batie|Alena Shmakova|Daniel Bandarra|Elena V. Knatko|Albena T. Dinkova-Kostova|Ivan Munoz|Ramasubramanian Sundaramoorthy|Tom Owen-Hughes|Sonia Rocha University of Glasgow;|University of Dundee;|Univeristy of Dundee;|University of Liverpool
http://dx.doi.org/10.1101/176206 2017-08-14 N-terminal sumoylation of centromeric histone H3 variant Cse4 regulates its proteolysis to prevent mislocalization to non-centromeric chromatin Kentaro Ohkuni|Reuben Levy-Myers|Jack Warren|Wei-Chun Au|Yoshimitsu Takahashi|Richard E. Baker|Munira Basrai National Cancer Institute, National Institutes of Health;|University of Massachusetts Medical School;|National Cancer Institute, National Institute of Health
http://dx.doi.org/10.1101/176248 2017-08-14 CC BY-NC The Mediator co-activator complex regulates Ty1 retromobility via alternative transcription start site selection Alicia C. Salinero|Elisabeth R. Knoll|Z. Iris Zhu|David Landsman|M. Joan Curcio|Randall H. Morse University at Albany;|National Institutes of Health;|Wadsworth Center
http://dx.doi.org/10.1101/176131 2017-08-14 CC BY-NC-ND Beer produced via hydrodynamic cavitation retains higher amounts of xanthohumol and other hops prenylflavonoids Rosaria Ciriminna|Lorenzo Albanese|Vita Di Stefano|Riccardo Delisi|Giuseppe Avellone|Francesco Meneguzzo|Mario Pagliaro Istitute for the Study of Nanostructured Materials, CNR;|Institute of Biometeorology, CNR;|Laboratory of Mass Spectrometry, CHAB, Universita degli Studi di Palermo;|Dipartimento di Scienze e Tecnologie Biologiche Chimiche e Farmaceutiche, Universita degli Studi di
http://dx.doi.org/10.1101/175653 2017-08-14 CC BY-NC-ND A retrieved context model of the emotional modulation of memory Deborah Talmi|Lynn Lohnas|Nathaniel Daw University of Manchester;|NYU;|Princeton University
http://dx.doi.org/10.1101/176271 2017-08-14 The helicase domain of Polθ counteracts RPA to promote alt-NHEJ Pedro A. Mateos-Gomez|Ekaterina Kashkina|Richard Pomerantz|Tatiana Kent|Agnel Sfeir NYU School of Medicine;|Temple University Lewis Katz School Of Medicine
http://dx.doi.org/10.1101/176214 2017-08-14 A network modeling approach to elucidate drug resistance mechanisms and predict combinatorial drug treatments in breast cancer Jorge Gomez Tejeda Zanudo|Reka Albert The Pennsylvania State University
http://dx.doi.org/10.1101/176073 2017-08-14 SelexGLM differentiates androgen and glucocorticoid receptor DNA-binding preference over an extended binding site Liyang Zhang|Gabriella Martini|Hans Tomas Rube|Judith F. Kribelbauer|Chaitanya Rastogi|Vincent D. FitzPatrick|Jon C. Houtman|Harmen J. Bussemaker|Miles A. Pufall University of Iowa;|University of California - Berkeley;|Columbia University
http://dx.doi.org/10.1101/176313 2017-08-14 Deciphering Functional Redundancy in the Human Microbiome Liang Tian|Ang-Kun Wu|Jonathan Friedman|Matthew K. Waldor|Scott T. Weiss|Yang-Yu Liu Channing Div. of Network Medicine, Brigham & Women's Hospital, Harvard Medical School;|Physics of Living Systems, Department of Physics, Massachusetts Institute of Technology;|Division of Infectious Diseases, Brigham and Women's Hospital and Harvard Medical School
http://dx.doi.org/10.1101/176602 2017-08-15 Bioinformatics Large-scale determination and characterization of cell type-specific regulatory elements in the human genome Can Wang|Shihua Zhang Academy of Mathematics and Systems Science, Chinese Academy of Sciences
http://dx.doi.org/10.1101/176610 2017-08-15 Genetics CC BY-NC-ND Genome-wide Enhancer Maps Differ Significantly in Genomic Distribution, Evolution, and Function Mary Lauren Benton|Sai Charan Talipineni|Dennis Kostka|John A. Capra Vanderbilt University;|University of Pittsburgh
http://dx.doi.org/10.1101/176487 2017-08-15 Genomics CC BY-NC-ND A pan cancer analysis of promoter activity highlights the regulatory role of alternative transcription start sites and their association with noncoding mutations Deniz Demircioglu|Martin Kindermans|Tannistha Nandi|Engin Cukuroglu|Claudia Calabrese|Nuno A. Fonseca|Andre Kahles|Kjong Lehmann|Oliver Stegle|Alvis Brazma|Angela Brooks|Gunnar Ratsch|Patrick Tan|Jonathan Goke Genome Institute of Singapore;|EMBL-EBI;|ETH Zürich, Computer Science Dept.;|-;|University of California, Santa Cruz
http://dx.doi.org/10.1101/176495 2017-08-15 Pharmacology and Toxicology Metabolomic profiling reveals effects of marein on energy metabolism in HepG2 cells Baoping Jiang|Liang Le|Keping Hu|Lijia Xu|Peigen Xiao Inst. of Medicinal Plant Development (IMPLAD), Chinese Acad of Med. Sci. and Peking Univ.;|Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences
http://dx.doi.org/10.1101/176412 2017-08-15 Bioinformatics CC BY Evaluating a topic model approach for parsing microbiome data structure Stephen Woloszynek|Zhengqiao Zhao|Gideon Simpson|Michael P. O'Connor|Joshua Chang Mell|Gail L. Rosen Drexel University;|Drexel University College of Medicine
http://dx.doi.org/10.1101/176545 2017-08-15 Neuroscience CC BY-NC-ND Requirements for coregistration accuracy in on-scalp MEG Rasmus Zetter|Joonas Iivanainen|Matti Stenroos|Lauri Parkkonen Aalto University, School of Science
http://dx.doi.org/10.1101/176560 2017-08-15 Pharmacology and Toxicology CC BY Early afterdepolarisation tendency as a simulated pro-arrhythmic risk indicator Beth McMillan|David J. Gavaghan|Gary Mirams University of Oxford;|University of Nottingham
http://dx.doi.org/10.1101/176289 2017-08-15 Microbiology CC BY Modeling the emergence of antibiotic resistance in the environment: an analytical solution for the minimum selection concentration Ben K. Greenfield|Shanna Shaked|Carl F. Marrs|Patrick Nelson|Ian Raxter|Chuanwu Xi|Thomas E. McKone|Olivier Jolliet University of California, Berkeley;|University of Michigan, Ann Arbor
http://dx.doi.org/10.1101/176453 2017-08-15 Microbiology Metagenomic Insights into The Diversity and Functions of Microbial Assemblages in Tasik Kenyir Ecosystem Mohd Ezhar Mohd Noor|Sharifah Noore Emilia Syed Jamil Fadaak|Mohd Noor Mat Isa|Mohd Faizal Abu Bakar|Muhd Danish-Daniel Abdullah Universiti Malaysia Terengganu;|Malysia Genome Institute
http://dx.doi.org/10.1101/176347 2017-08-15 Evolutionary Biology Horizontal gene cluster transfer increased hallucinogenic mushroom diversity Hannah T. Reynolds|Vinod Vijayakumar|Emile Gluck-Thaler|Hailee B. Korotkin|Patrick B. Matheny|Jason C. Slot Western Connecticut State University;|Ohio State University;|University of Tennessee, Knoxville
http://dx.doi.org/10.1101/176529 2017-08-15 Microbiology CC BY Genomics-Based Identification of Microorganisms in Human Ocular Body Fluid Philipp Kirstahler|Soren Solborg Bjerrum|Alice Friis-Moller|Morten la Cour|Frank M. Aarestrup|Henrik Westh|Sunje Johanna Pamp Technical University of Denmark;|Rigshospitalet;|Hvidovre Hospital
http://dx.doi.org/10.1101/176370 2017-08-15 Genomics Novel metrics for quantifying bacterial genome composition skews Lena M. Joesch-Cohen|Max Robinson|Neda Jabbari|Christopher Lausted|Gustavo Glusman Institute for Systems Biology
http://dx.doi.org/10.1101/176362 2017-08-15 Microbiology CC BY-NC-ND The evolutionary dynamics of influenza A virus within and between human hosts John T. McCrone|Robert J. Woods|Emily T. Martin|Ryan E. Malosh|Arnold S. Monto|Adam S. Lauring University of Michigan
http://dx.doi.org/10.1101/176446 2017-08-15 Cancer Biology The Complex Ecosystem in Non Small Cell Lung Cancer Invasion Seth Haney|Jessica Konen|Adam I. Marcus|Maxim Bazhenov Dept. of Medicine, Div. of Pulmonary, Critical Care & Sleep Medicine, UC San Diego;|Dept. of Thoracic/Head & Neck Medical Oncology, Univ. of Texas MD Anderson Cancer Center;|Winship Cancer Institute, Emory University, Atlanta, GA
http://dx.doi.org/10.1101/176438 2017-08-15 Paleontology CC BY-NC The measurement of species selection on evolving characters Carl Simpson Museum of Natural History and Dept. of Geological Sciences, University of Colorado
http://dx.doi.org/10.1101/176263 2017-08-15 Microbiology Solagigasbacteria: Lone genomic giants among the uncultured bacterial phyla Eric Becraft|Tanja Woyke|Jessica Jarett|Natalia Ivanaova|Tullis Onstott|Maggie Don Lau|Filipa Godoy Vitorino|Julia Brown|Nicole Poulton|Joe Brown|Jonathan Esien|Duane Moser|Ramunas Stepanauskas Bigelow Laboratory for Ocean Sciences;|Joint Genome Institute;|Princeton University;|American University of Puerto Rico, San Juan, Puerto Rico;|UC Davis;|Desert Research Institute
http://dx.doi.org/10.1101/172437 2017-08-15 Bioengineering Quantifying the thermostability landscape separating plant sesquiterpene synthase orthologs using Maximum Entropy Charisse M. Nartey|Johnatan Aljadeff|Irma Fernandez|Caroline Laurendon|Hyun Jo Koo|Paul E. O'Maille|Tatyana O. Sharpee|Joseph P. Noel The Salk Institute for Biological Studies: Howard Hughes Medical Institute;|The Salk Institute for Biological Studies;|University of California at San Diego;|Biological Sciences, University of East Anglia;|The Salk Institute for Biological Studies; Howard Hughes Medical Institute;|Biosciences Division, SRI International;|The Salk Institute for Biological Studies; Howard Hughes Medical Insitute
http://dx.doi.org/10.1101/175919 2017-08-15 Molecular Biology PrPSc-induced conformational changes and strain-specific structures of PrPSc revealed by Disulfide-crosslink scanning Yuzuru Taguchi|Noriyuki Nishida|Hermann Schatzl Nagasaki University;|University of Calgary
http://dx.doi.org/10.1101/170571 2017-08-15 Bioinformatics CC BY Curatr: a web application for creating, curating, and sharing a mass spectral library Andrew Palmer|Prasad Phapale|Dominik Fay|Theodore Alexandrov European Molecular Biology Laboratory
http://dx.doi.org/10.1101/176354 2017-08-15 Neuroscience CC BY Activity-induced Ca2+ signaling in perisynaptic Schwann cells is mediated by P2Y1 receptors and regulates muscle fatigue Dante J. Heredia|Chengyuan Feng|Grant W. Hennig|Thomas W. Gould University of Nevada School of Medicine
http://dx.doi.org/10.1101/176396 2017-08-15 Bioinformatics CC BY PANOPLY: A computational method for identification of promising drugs for a patient based on multidimensional data Krishna Rani Kalari|Jason P. Sinnwell|Kevin J. Thompson|Xiaojia Tang|Erin E. Carlson|Jia Yu|Peter T. Vedell|James N. Ingle|Richard Weinshilboum|Liewei Wang|Judy C. Boughey|Matthew P. Goetz|Vera J. Suman Mayo Clinic
http://dx.doi.org/10.1101/176388 2017-08-15 Immunology CC BY The somatically generated T cell receptor CDR3a contributes to the MHC allele specificity of the T cell receptor Philippa Marrack|Sai Harsha Krovi|Daniel Silberman|Janice White|Eleanora Kushnir|Maki Nakayama|James Crook|Thomas Danhorn|Sonia Leach|Randy Anselment|James Scott-Browne|Laurent Gapin|John Kappler HHMI, National Jewish Health;|UC Denver;|National Jewish Health;|La Jolla Institute
http://dx.doi.org/10.1101/176800 2017-08-15 Spontaneous activity synchronizes whisker-related sensorimotor networks prior to their maturation in the developing rat cortex David Andrew McVea|Timothy Hugh Murphy|Majid H. Mohajerani University of British Columbia;|University of Lethbridge
http://dx.doi.org/10.1101/176776 2017-08-15 CC BY-NC-ND Searching for Correlated Conformational Dynamics: Analysis of the NMR Relaxation Dispersions with Akaike's Information Theory and Hierarchical Clustering Evgenii L. Kovrigin Marquette University
http://dx.doi.org/10.1101/176792 2017-08-15 CC BY-NC Towards a reliable, automated method of individual alpha frequency (IAF) quantification Andrew W. Corcoran|Phillip M. Alday|Matthias Schlesewsky|Ina Bornkessel-Schlesewsky Monash University;|Max Planck Institute for Psycholinguistics;|University of South Australia
http://dx.doi.org/10.1101/176727 2017-08-15 CC BY-NC-ND The genomic rate of adaptation in the fungal wheat pathogen Zymoseptoria tritici Jonathan Grandaubert|Julien Y. Dutheil|Eva H. Stukenbrock Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/176677 2017-08-15 CC BY-NC-ND Interactions between species introduce spurious associations in microbiome studies Rajita Menon|Vivek Ramanan|Kirill S. Korolev Boston University;|Swarthmore College
http://dx.doi.org/10.1101/176750 2017-08-15 CC BY-ND ProphET, Prophage Estimation Tool: a standalone prophage sequence prediction tool with self-updating reference database Joao Luiz Reis-Cunha|Daniella Castanheira Bartholomeu|Bruce W. Birren|Gustavo Coutinho Cerqueira Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Brazil;|Broad Institute of Harvard and MIT, Cambridge, Massachusetts, United States
http://dx.doi.org/10.1101/174300 2017-08-15 CC BY-NC-ND On the bioconversion of dietary carotenoids to astaxanthin and its distribution in the marine copepod, Tigriopus californicus Ryan J. Weaver|Paul A. Cobine|Geoffrey E. Hill Auburn University
http://dx.doi.org/10.1101/175968 2017-08-15 CC BY-NC-ND A global envelope test to detect early and late bursts of trait evolution David J. Murrell University College London
http://dx.doi.org/10.1101/176743 2017-08-15 CC BY-NC-ND Discovery and whole genome sequencing of a human clinical isolate of the novel species Klebsiella quasivariicola sp. nov. Scott Wesley Long|Sarah E. Linson|Matthew Ojeda Saavedra|Concepcion Cantu|James J. Davis|Thomas Brettin|Randall J. Olsen Houston Methodist Hospital;|Argonne National Laboratory
http://dx.doi.org/10.1101/176065 2017-08-15 CC BY-ND Twenty-five species of frogs in a liter of water: eDNA survey for exploring tropical frog diversity Miklos Balint|Carsten Nowak|Orsolya Marton|Steffen Pauls|Claudia Wittwer|Jose Luis Aramayo|Arne Schulze|Thierry Chambert|Berardino Cocchiararo|Martin Jansen Senckenberg Biodiversity and Climate Research Centre;|Senckenberg Research Institute and Natural History Museum;|Institute for Soil Sciences and Agricultural Chemistry, Centre for Agricultural Research;|LOEWE Centre for Translational Biodiversity Genomics (LOEWE-TBG);|Museo Historia Natural Noel Kempff Mercado;|Hessisches Landesmuseum Darmstadt;|Pennsylvania State University
http://dx.doi.org/10.1101/176693 2017-08-15 Breaking the Deadlock of Molecular Chaperones Tania Moran Luengo|Roman B. Kityk|Matthias P. Mayer|Stefan G. D. Rudiger Utrecht University;|Heidelberg University
http://dx.doi.org/10.1101/176628 2017-08-15 CC BY Correlations, interactions, and predictability in virus-microbe networks Ashley R. Coenen|Joshua S. Weitz Georgia Institute of Technology
http://dx.doi.org/10.1101/176594 2017-08-15 CC BY Molecular determinants and bottlenecks in the unbinding dynamics of biotin-streptavidin Pratyush Tiwary University of Maryland at College Park
http://dx.doi.org/10.1101/176701 2017-08-15 From foodwebs to gene regulatory networks (GRNs) - weak repressions by microRNAs confer system stability Yuxin Chen|Stefano Allesina|Yang Shen|Chung-I Wu Sun Yat-sen University;|University of Chicago;|Genome Institute of Singapore
http://dx.doi.org/10.1101/176768 2017-08-15 The antibody repertoire of colorectal cancer Seong Won Cha|Stefano Bonissone|Seungjin Na|Pavel A. Pevzner|Vineet Bafna University of California, San Diego;|Digital Proteomics
http://dx.doi.org/10.1101/176958 2017-08-16 Genomics N6-Methyladenine DNA Modification in Human Genome Chuan-Le Xiao|Song Zhu|Ming-Hui He|Ying Chen|Guo-Liang Yu|De Chen|Shang-Qian Xie|Feng Luo|Zhe Liang|Xiao-Feng Gu|Kai Wang|Guang-Rong Yan State Key Laboratory of Ophthalmology, Zhongshan Ophthalmic Center, Sun Yat-sen Univ.;|Biomedicine Research Center, the Third Affiliated Hospital of Guangzhou Medical University;|CookGene Biosciences Center, Guangzhou 510320, China;|Grandomics Biosciences, Beijing 102206, China;|School of Computing, Clemson University, Clemson, SC 29634-0974, USA;|Department of Biological Sciences, National University of Singapore;|Biotechnology Research Institute, Chinese Academy of Agricultural Sciences;|Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA
http://dx.doi.org/10.1101/176586 2017-08-16 Biochemistry CC BY-ND Conformational states during vinculin unlocking differentially regulate focal adhesion properties Dror Shlomo Chorev|Tova Volberg|Ariel Livne|Miriam Eisenstein|Bruno Martins|Zvi Kam|Brigitte Jockusch|Ohad Medalia|Michal Sharon|Benjamin Geiger Weizmann Institute of Science;|Weizmann Institue of Science;|University of Zurich;|Technical University of Braunschweig;|Ben-Gurion University
http://dx.doi.org/10.1101/176875 2017-08-16 Biochemistry Chemical control of a CRISPR-Cas9 acetyltransferase Jonathan H. Shrimp|Carissa Grose|Stephanie R. T. Widmeyer|Ajit Jadhav|Jordan L. Meier Chemical Biology Laboratory, National Cancer Institute;|Frederick National Laboratory for Cancer Research, Leidos Biomedical Research, Inc.;|National Center for Advancing Translational Sciences, National Institutes of Health
http://dx.doi.org/10.1101/170506 2017-08-16 Genomics CC BY-NC-ND Frequent lack of repressive capacity of promoter DNA methylation identified through genome-wide epigenomic manipulation Ethan Edward Ford|Matthew R. Grimmer|Sabine Stolzenburg|Ozren Bogdanovic|Alex de Mendoza|Peggy J. Farnham|Pilar Blancafort|Ryan Lister The University of Western Australia;|University of California, San Francisco; University of California, Davis;|Univ. of Western Australia; Garvan Institute of Medical Research; Univ. of New South Wales;|University of Southern California;|The University of Western Australia; Harry Perkins Institute of Medical Research
http://dx.doi.org/10.1101/177261 2017-08-16 CC BY A computational framework for detecting signatures of accelerated somatic evolution in cancer genomes Kyle S. Smith|Debashis Ghosh|Katherine S. Pollard|Subhajyoti De University of Colorado;|Gladstone Institutes and University of California;|Rutgers Cancer Institute of New Jersey
http://dx.doi.org/10.1101/177378 2017-08-16 CC BY A Deep Learning Model for Predicting Tumor Suppressor Genes and Oncogenes from PDB Structure Amirhossein Tavanaei|Nishanth Anandanadarajah|Rasiah Loganantharaj University of Louisiana at Lafayette
http://dx.doi.org/10.1101/176719 2017-08-16 CC BY-NC-ND Gaussian decomposition of high-resolution melt curve derivatives for measuring genome-editing efficiency Michail Zaboikin|Carl Freter|Narasimhachar Srinivasakumar Saint Louis University
http://dx.doi.org/10.1101/177337 2017-08-16 CC BY Evolution of mechanisms that control mating in Drosophila males Osama M. Ahmed|Nirao M. Shah|David L. Stern|Graeme W. Davis|Katherine S. Pollard|Srinivas Parthasarathy|Aram Avila-Herrera|Khin May Tun|Paula H. Serpa|Justin Peng|Jon-Michael Knapp University of California, San Francisco;|Stanford University;|Janelia Research Campus, Howard Hughes Medical Institute;|Lawrence Livermore National Laboratory
http://dx.doi.org/10.1101/176685 2017-08-16 CC BY-NC-ND Whole Root Transcriptomic Analysis Reveals a Role for Auxin Pathways in Resistance to Ralstonia solanacearum in Tomato Elizabeth French|Bong Suk Kim|Katherine Rivera-Zuluaga|Anjali S. Iyer-Pascuzzi Purdue University
http://dx.doi.org/10.1101/177253 2017-08-16 CC BY The Oyster River Protocol: A Multi Assembler and Kmer Approach For de novo Transcriptome Assembly Matthew D MacManes University of New Hampshire
http://dx.doi.org/10.1101/173294 2017-08-16 Microbiology CC BY Epidemiology of paediatric gastrointestinal colonisation by extended spectrum cephalosporin-resistant Escherichia coli and Klebsiella pneumoniae isolates in north-west Cambodia Jon van Aartsen|Catrin Moore|Christopher Parry|Paul Turner|Nget Phot|Saroeun Mao|Kuong Suy|Timothy Davies|Adam Giess|Anna Sheppard|Tim Peto|Nicholas Day|Derrick Crook|A Walker|Nicole Stoesser University of Liverpool, Liverpool, United Kingdom;|University of Oxford, Oxford, United Kingdom;|Liverpool School of Tropical Medicine, Liverpool, UK;|Mahidol Oxford Tropical Medicine Research Unit;|Angkor Hospital for Children, Siem Reap, Cambodia
http://dx.doi.org/10.1101/177022 2017-08-16 Evolutionary Biology CC BY-NC-ND Positively selected effector genes and their contribution to virulence in the smut fungus Sporisorium reilianum Gabriel Schweizer|Karin Munch|Gertrud Mannhaupt|Jan Schirawski|Regine Kahmann|Julien Dutheil Max Planck Institute for Terrestrial Microbiology;|Helmholtz Zentrum Munchen;|RWTH Aachen, Institute of Applied Microbiology, Microbial Genetics;|Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/177147 2017-08-16 Cell Biology CC BY-NC-ND Disruption of the interfacial membrane leads to Magnaporthe oryzae effector re-location and lifestyle switch during rice blast disease Kiersun Jones|Jie Zhu|Cory B. Jenkinson|Dong Won Kim|Chang Hyun Khang University of Georgia
http://dx.doi.org/10.1101/175737 2017-08-16 Ecology CC BY Co-occurring soil bacteria exhibit a robust competitive hierarchy and lack of non-transitive interactions Logan M. Higgins|Jonathan Friedman|Hao Shen|Jeff Gore Massachusetts Institute of Technology;|Peking University
http://dx.doi.org/10.1101/177105 2017-08-16 Neuroscience A variant of the Morris water task for assessing learning and memory processes in mice Jogender Mehla|Jamshid Faraji|Takashi Saito|Takaomi C. Saido|Majid H Mohajerani|Robert J McDonald University of Lethbridge;|RIKEN Brain Science Institute
http://dx.doi.org/10.1101/177220 2017-08-16 Neuroscience CC BY-NC-ND Reward sensitivity following boredom and cognitive effort: A high-powered neurophysiological investigation Marina Milyavskaya|Michael Inzlicht|Travis Johnson|Michael Larson Carleton University;|University of Toronto;|Brigham Young University
http://dx.doi.org/10.1101/176842 2017-08-16 Genomics CC BY-ND Large-Scale cognitive GWAS Meta-analysis Reveals Tissue-Specific Neural Expression and Potential Nootopic Drug Targets Max Lam|Joey W. Trampush|Jin Yu|Emma Knowles|Gail Davies|David C. Liewald|John M. Starr|Srdjan Djurovic|Ingrid Melle|Kjetil Sundet|Andrea Christoforou|Ivar Reinvang|Pamela DeRosse|Astri J. Lundervold|Vidar M. Steen|Thomas Espeseth|Katri Raikkonen|Elisabeth Widen|Aarno Palotie|Johan G. Eriksson|Ina Giegling|Bettina Konte|Panos Roussos|Stella Giakoumaki|Katherine E. Burdick|Antony Payton|William Ollier|Ornit Chiba-Falek|Deborah K. Attix|Anna C. Need|Elizabeth T. Cirulli|Aristotle N. Voineskos|Nikos C. Stefanis|Dimitrios Avramopoulos|Alex Hatzimanolis|Dan E. Arking|Nikolaos Smyrnis|Robert M. Bilder|Nelson A. Freimer|Tyrone D. Cannon|Edythe London|Russell A. Poldrack|Fred W. Sabb|Eliza Congdon|Emily Drabant Conley|Matthew A. Scult|Dwight Dickinson|Richard E. Straub|Gary Donohoe|Derek Morris|Aiden Corvin|Michael Gill|Ahmad R. Hariri|Daniel R. Weinberger|Neil Pendleton|Panos Bitsios|Dan Rujescu|Jari Lahti|Stephanie Le Hellard|Matthew C. Keller|Ole A. Andreassen|Ian J. Deary|David C. Glahn|Anil K. Malhotra|Todd Lencz Institute of Mental Health, Singapore;|BrainWorkup, LLC, Los Angeles, CA;|Center for Psychiatric Neuroscience, Feinstein Institute for Medical Research, Manhasset, NY;|Department of Psychiatry, Yale University School of Medicine, New Haven, CT, USA;|Ctr. for Cognitive Ageing & Cognitive Epidemiology, Dept. of Psychology, Univ. of Edinburgh;|Alzheimer Scotland Dementia Research Centre, University of Edinburgh, Edinburgh, UK;|Department of Medical Genetics, Oslo University Hospital, University of Bergen, Oslo, Norway;|NORMENT, K.G. Jebsen Centre for Psychosis Research, Univ. of Bergen, Bergen, Norway;|Division of Mental Health and Addiction, Oslo University Hospital, Oslo, Norway;|Department of Psychology, University of Oslo, Oslo, Norway;|Haukeland University Hospital, Bergen, Norway;|Institute of Behavioural Sciences, University of Helsinki, Helsinki, Finland;|Institute for Molecular Medicine Finland (FIMM), University of Helsinki, Helsinki, Finland;|National Institute for Health and Welfare, Helsinki, Finland;|Department of Psychiatry, Martin Luther University of Halle-Wittenberg, Halle, Germany;|Department of Psychiatry, Icahn School of Medicine at Mount Sinai, New York, NY, USA;|Department of Psychology, University of Crete, Greece;|Manchester Ctr. for Audiology & Deafness, Manchester Academic Health Science Centre;|Centre for Integrated Genomic Medical Research, Institute of Population Health;|Department of Neurology, Bryan Alzheimer's Disease Research Center;|Division of Brain Sciences, Department of Medicine, Imperial College, London, UK;|Human Longevity Inc, Durham, NC, USA;|Campbell Family Mental Health Institute, Centre for Addiction and Mental Health;|Department of Psychiatry, National and Kapodistrian University of Athens Medical School;|Department of Psychiatry and McKusick-Nathans Institute of Genetic Medicine;|UCLA Semel Institute for Neuroscience and Human Behavior, Los Angeles, CA, USA;|Department of Psychology, Yale University, New Haven, CT, USA;|Department of Psychology, Stanford University, Palo Alto, CA, USA;|Robert and Beverly Lewis Center for Neuroimaging, University of Oregon, Eugene, OR, USA;|23andMe, Inc., Mountain View, CA, USA;|Laboratory of NeuroGenetics, Dept. of Psychology & Neuroscience, Duke University, Durham;|Clinical and Translational Neuroscience Branch, Intramural Research Program, NIMH;|Lieber Inst. for Brain Development, Johns Hopkins Univ. Medical Campus, Baltimore, MD;|Department of Psychology, National University of Ireland, Galway, Ireland;|Neuropsychiatric Genetics Research Group, Department of Psychiatry;|Department of Psychiatry and Behavioral Sciences, Faculty of Medicine, University of Crete;|K.G. Jebsen Centre for Psychosis Research & Norwegian Ctr. for Mental Disorders Research;|Institute for Behavioral Genetics, University of Colorado, Boulder, Colorado;|Norwegian Ctr. for Mental Disorders Research, Inst. of Clinical Medicine, University of Bergen;|Centre for Cognitive Ageing and Cognitive Epidemiology, Department of Psychology;|Division of Psychiatry Research, Zucker Hillside Hospital, Glen Oaks, NY, USA
http://dx.doi.org/10.1101/177055 2017-08-16 Cancer Biology Hydrogen peroxide formation by Nox4 limits malignant transformation Valeska Helfinger|Florian Freiherr von Gall|Nina Henke|Michael M Kunze|Tobias Schmid|Juliana Heidler|Ilka Wittig|Heinfried H Radecke|Viola Marschall|Karen Anderson|Ajay M Shah|Simone Fulda|Bernhard Brune|Ralf P Brandes|Katrin Schroder Goethe-University, Frankfurt, Germany;|Babraham Research Campus, Cambridge, UK;|Kings College London British Heart Foundation Centre
http://dx.doi.org/10.1101/177113 2017-08-16 Neuroscience CC BY-NC-ND Simulating Extracted Connectomes Jonathan Gornet|Louis K Scheffer New York University;|Howard Hughes Medical Institute
http://dx.doi.org/10.1101/174847 2017-08-16 Cancer Biology CC BY A Low-Cost Multiplex Biomarker Assay Stratifies Colorectal Cancer Patient Samples into Clinically-Relevant Subtypes Chanthirika Ragulan|Katherine Eason|Gift Nyamundanda|Yatish Patil|Pawan Poudel|Elisa Fontana|Maguy Del Rio|Si-Lin Koo|Wah Siew Tan|Pierre Martineau|David Cunningham|Iain Tan|Anguraj Sadanandam Institute of Cancer Research, London, UK;|Université de Montpellier, Montpellier, France;|National Cancer Centre Singapore, Singapore;|Singapore General Hospital, Singapore;|Royal Marsden Hospital, London, UK
http://dx.doi.org/10.1101/177139 2017-08-16 Bioinformatics CC BY Concept and in-silico assessment of an algorithm for monitoring cytosolic fluorescent aggregates in cells. Yasel Garces Suarez|Vadim Perez Koldenkova|Tomoki Matsuda|Adan Guerrero|Takeharu Nagai Autonomous University of the Morelos State;|Instituto Mexicano del Seguro Social;|The Institute of Scientific and Industrial Research, Osaka University, Japan.;|IBt/UNAM
http://dx.doi.org/10.1101/177170 2017-08-16 Genomics CC BY-NC Landscape of human miRNA variation and conservation using Annotative Database of miRNA Elements, ADmiRE Ninad Oak|Rajarshi Ghosh|Sharon E. Plon Baylor College of Medicine
http://dx.doi.org/10.1101/177121 2017-08-16 Neuroscience Gradual Cerebral Hypoperfusion Impair Fear Conditioning and Object Recognition Learning and Memory in Mice: Potential Roles of Neurodegeneration and Cholinergic Dysfunction Jogender Mehla|Sean Lacoursiere|Emily Stuart|Robert J McDonald|Majid H Mohajerani University of Lethbridge
http://dx.doi.org/10.1101/171504 2017-08-16 Bioinformatics OligoMiner: A rapid, flexible environment for the design of genome-scale oligonucleotide in situ hybridization probes Brian J. Beliveau|Jocelyn Y. Kishi|Guy Nir|Hiroshi M. Sasaki|Sinem K. Saka|Son C. Nguyen|Chao-ting Wu|Peng Yin Wyss Institute for Biologically Inspired Engineering;|Harvard Medical School
http://dx.doi.org/10.1101/177097 2017-08-16 Molecular Biology PTE, a novel module of mammalian Polycomb Response Elements Sarina R Cameron|Soumyadeep Nandi|Tatyana G Kahn|Juan I Barrasa|Per Stenberg|Yuri B Schwartz Department of Molecular Biology, Umea University
http://dx.doi.org/10.1101/176537 2017-08-16 Genomics CC BY-NC Computational correction of cross-contamination due to exclusion amplification barcode spreading Anton J. M. Larsson|Geoff Stanley|Rahul Sinha|Irving L. Weissman|Rickard Sandberg Karolinska Institute;|Stanford University;|Karolinska Institutet
http://dx.doi.org/10.1101/176784 2017-08-16 Microbiology MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments. Francislon Silva de Oliveira|John Brestelli|Shon Cade|Jie Zheng|John Iodice|Steve Fisher|Cristina Aurrecoechea|Jessica C Kissinger|Brian P Brunk|Christian J Stoeckert|Gabriel R Fernandes|David Roos|Daniel P Beiting Universidade Federal de Minas Gerais; Instituto Rene Rachou, FIOCRUZ/Minas;|University of Pennsylvania;|University of Georgia;|Instituto Rene Rachou, FIOCRUZ/Minas
http://dx.doi.org/10.1101/176867 2017-08-16 Evolutionary Biology CC BY-NC-ND Progressively more subtle aggregation avoidance strategies mark a long-term direction to protein evolution Scott G. Foy|Benjamin A. Wilson|Matthew H. J. Cordes|Joanna Masel University of Arizona
http://dx.doi.org/10.1101/177048 2017-08-16 Genomics CC BY Detection and removal of barcode swapping in single-cell RNA-seq data Jonathan A. Griffiths|Aaron T. L. Lun|Arianne C. Richard|Karsten Bach|John C. Marioni CRUK Cambridge Institute, University of Cambridge;|Department of Pharmacology, University of Cambridge;|EMBL-EBI, Cambridge
http://dx.doi.org/10.1101/176834 2017-08-16 Genomics An atlas of genetic associations in UK Biobank Oriol Canela-Xandri|Konrad Rawlik|Albert Tenesa The Roslin Institute, The University of Edinburgh;|University of Edinburgh
http://dx.doi.org/10.1101/176974 2017-08-16 Cancer Biology CC BY-NC-ND Variable dose analysis: A novel RNAi-based method for detection of synthetic lethal interactions Benjamin E. Housden|Zhongchi Li|Colleen Kelley|Yuanli Wang|Yanhui Hu|Alexander J. Valvezan|Brendan D. Manning|Norbert Perrimon University of Exeter;|Harvard Medical School;|Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/177014 2017-08-16 Genetics Genome-wide analysis of risk-taking behaviour and cross-disorder genetic correlations in 116,255 individuals from the UK Biobank cohort Rona J. Strawbridge|Joey Ward|Breda Cullen|Elizabeth M. Tunbridge|Sarah Hartz|Laura Bierut|Amy Horton|Mark E. S. Bailey|Nicholas Graham|Amy Ferguson|Donald M. Lyall|Daniel Mackay|Laura M. Pidgeon|Jonathan Cavanagh|Jill P. Pell|Michael O'Donovan|Valentina Escott-Price|Paul J. Harrison|Daniel J. Smith University of Glasgow;|University of Oxford;|Washington University School of Medicine in St. Louis;|Cardiff University
http://dx.doi.org/10.1101/177006 2017-08-16 Biophysics CC BY-NC-ND Small Molecules Attenuate the Interplay between Conformational Fluctuations, Early Oligomerization and Amyloidosis of Alpha Synuclein Amrita Kundu|Sumanta Ghosh|Krishnananda Chattopadhyay CSIR-Indian Institute of Chemical Biology
http://dx.doi.org/10.1101/176909 2017-08-16 Pharmacology and Toxicology CC BY-NC Impairment of zebrafish reproduction upon exposure to TDCPP Xiecheng Liu|Guofeng Jia Qingdao Municipal Hospital
http://dx.doi.org/10.1101/176990 2017-08-16 Evolutionary Biology CC BY-NC Sex-biased gene expression resolves sexual conflict through the evolution of sex-specific genetic architecture Alison E. Wright|Matteo Fumagalli|Christopher R. Cooney|Natasha I. Bloch|Filipe G. Vieira|Severine D. Buechel|Niclas Kolm|Judith E. Mank University of Sheffield;|Imperial College London;|University College London;|Natural History Museum of Denmark;|Stockholm University
http://dx.doi.org/10.1101/176917 2017-08-16 Developmental Biology CC BY-NC Disruption of thyroid endocrine in zebrafish exposed to BDE-209 Dong Li|Xin Wang Third Hospital of Shanxi University
http://dx.doi.org/10.1101/177287 2017-08-17 Whole-exome sequencing of plasma cell-free DNA portrays the somatic mutation landscape of refractory metastatic colorectal cancer and enables the discovery of mutated KDR/VEGFR2 receptors as modulators of anti-angiogenic therapies. Rodrigo A. Toledo|Elena Garralda|Maria Mitsi|Tirso Pons|Jorge Monsech|Estela Vega|Alvaro Otero|Maria I. Albarran|Natalia Banos|Yolanda Duran|Victoria Bonilla|Francesca Sarno|Marta Camacho-Artacho|Tania Sanchez-Perez|Sofia Perea|Rafael Alvarez|Alba De Martino|Daniel Lietha|Carmen Blanco-Aparicio|Antonio Cubillo|Orlando Dominguez|Jorge L. Martinez-Torrecuadrada|Manuel Hidalgo Spanish National Cancer Research Centre (CNIO), Madrid, Spain;|Vall d'Hebron Institute of Oncology (VHIO);|Laboratory of Biomolecular Research, Paul Scherrer Institute, Villigen, Switzerland;|Centro Integral Oncologico Clara Campal (CIOCC), Hospital Universitario HM Sanchinarro;|Molecular Genetics of Angiogenesis Lab., Spanish Natl. Ctr. for Cardiovascular Research;|Beth Israel Deaconess Medical Center, Harvard Medical School, Boston, Massachusetts, USA
http://dx.doi.org/10.1101/177386 2017-08-17 CC BY-NC-ND Desiccation plasticity and diapause in the Argentinian pearlfish Austrolebias bellottii Tom Van Dooren|Irma Varela-Lasheras iEES Paris;|Centre for Biodiversity Naturalis, Darwinweg 2, 2333 CR Leiden, The Netherlands
http://dx.doi.org/10.1101/177394 2017-08-17 CC BY-NC-ND When conflict cannot be avoided: executive control dominates early selective sensory modulations during cognitive conflict Sirawaj Itthipuripat|Sean Deering|John Serences Learning Institute, King Mongkut's University of Technology Thonburi;|Health Services Research and Development, Veterans Affairs San Diego Healthcare System;|Department of Psychology, University of California, San Diego
http://dx.doi.org/10.1101/177196 2017-08-17 CC BY-NC Deep Recurrent Neural Network Reveals a Hierarchy of Process Memory during Dynamic Natural Vision Junxing Shi|Haiguang Wen|Yizhen Zhang|Kuan Han|Zhongming Liu Purdue University, West Lafayette
http://dx.doi.org/10.1101/177279 2017-08-17 CC BY-NC-ND Structural and functional MRI from a cross-sectional Southwest University Adult lifespan Dataset (SALD) Dongtao Wei|Kaixiang Zhuang|Qunlin Chen|Wenjing Yang|Wei Liu|Kangcheng Wang|Jiangzhou Sun|Jiang Qiu Faculty of Psychology, Southwest University, Chongqing;|Donders Institute for Brain, Cognition, and Behaviour
http://dx.doi.org/10.1101/171967 2017-08-17 Missing Value Imputation Approach for Mass Spectrometry-based Metabolomics Data Runmin Wei|Jingye Wang|Mingming Su|Erik Jia|Tianlu Chen|Yan Ni University of Hawaii Cancer Center, Honolulu, HI 96813, USA;|Metabo-Profile Biotechnology (Shanghai) Co., Ltd., Shanghai 201203, P.R.China;|Punahou School, Honolulu, HI 96822, USA;|Shanghai Key Laboratory of Diabetes Mellitus and Center for Translational Medicine
http://dx.doi.org/10.1101/176644 2017-08-17 CC BY-NC-ND Dynamic marine viral infections and major contribution to photosynthetic processes shown by regional and seasonal picoplankton metatranscriptomes Ella T. Sieradzki|J. Cesar Ignacio-Espinoza|David M. Needham|Erin B. Fichot|Jed A. Fuhrman University of Southern California;|Monterey Bay Aquarium Research Institute
http://dx.doi.org/10.1101/177295 2017-08-17 CC BY-NC-ND Associations Between Nutrition, Gut Microbiome, and Health in A Novel Nonhuman Primate Model Jonathan B. Clayton|Gabriel A. Al-Ghalith|Ha Thang Long|Bui Van Tuan|Francis Cabana|Hu Huang|Pajau Vangay|Tonya Ward|Vo Van Minh|Nguyen Ai Tam|Nguyen Tat Dat|Dominic A. Travis|Michael P. Murtaugh|Herbert Covert|Kenneth E. Glander|Tilo Nadler|Barbara Toddes|John C. M. Sha|Randall Singer|Dan Knights|Timothy J. Johnson University of Minnesota;|GreenViet Biodiversity Conservation Center;|Wildlife Nutrition Centre, Wildlife Reserves Singapore;|The University of Danang;|University of Colorado;|Duke University;|Endangered Primate Rescue Center;|Philadelphia Zoological Garden;|Sun Yat-Sen University
http://dx.doi.org/10.1101/176511 2017-08-17 Ninety-nine independent genetic loci influencing general cognitive function include genes associated with brain health and structure (N = 280,360) Gail Davies|Max Lam|Sarah E. Harris|Joey Trampush|Michelle Luciano|W. David Hill|Saskia P. Hagenaars|Stuart J. Ritchie|Riccardo E. Marioni|Chloe Fawns-Ritchie|David C. Liewald|Judith Okely|Ari Ahola-Olli|Catriona L. K. Barnes|Lars Bertram|Joshua C. Bis|Katherine E. Burdick|Andrea Christoforou|Pamela DeRosse|Srdjan Djurovic|Thomas Espeseth|Stella Giakoumaki|Sudheer Giddaluru|Daniel E. Gustavson|Caroline Hayward|Edith Hofer|M. Arfan Ikram|Robert Karlsson|Emma Knowles|Jari Lahti|Markus Leber|Shuo Li|Karen A. Mather|Ingrid Melle|Derek Morris|Christopher Oldmeadow|Teemu Palviainen|Antony Payton|Raha Pazoki|Katja Petrovic|Chandra A. Reynolds|Muralidharan Sargurupremraj|Markus Scholz|Jennifer A. Smith|Albert V. Smith|Natalie Terzikhan|Anbu Thalamuthu|Stella Trompet|Sven J. van der Lee|Erin B. Ware|Beverly G. Windham|Margaret J. Wright|Jingyun Yang|Jin Yu|David Ames|Najaf Amin|Philippe Amouyel|Ole A. Andreassen|Nicola Armstrong|John R. Attia|Deborah Attix|Dimitrios Avramopoulos|David A. Bennett|Anne C. Bohmer|Patricia A. Boyle|Henry Brodaty|Harry Campbell|Tyrone D. Cannon|Elizabeth T. Cirulli|Eliza Congdon|Emily Drabant Conley|Janie Corley|Simon R. Cox|Anders M. Dale|Abbas Dehghan|Danielle Dick|Dwight Dickinson|Johan G. Eriksson|Evangelos Evangelou|Jessica D. Faul|Ian Ford|Nelson A. Freimer|He Gao|Ina Giegling|Nathan A. Gillespie|Scott D. Gordon|Rebecca F. Gottesman|Michael E. Griswold|Vilmundur Gudnason|Tamara B. Harris|Alex Hatzimanolis|Gerardo Heiss|Elizabeth G. Holliday|Peter K. Joshi|Mika Kahonen|Sharon L. R. Kardia|Ida Karlsson|Luca Kleineidam|David S. Knopman|Nicole Kochan|Bettina Konte|John B. Kwok|Stephanie Le Hellard|Teresa Lee|Terho Lehtimaki|Shu-Chen Li|Tian Liu|Marisa Koini|Edythe London|Will T. Longstreth|Oscar L. Lopez|Anu Loukola|Tobias Luck|Astri J. Lundervold|Anders Lundquist|Leo-Pekka Lyytikainen|Nicholas G. Martin|Grant W. Montgomery|Alison D. Murray|Anna C. Need|Raymond Noordam|Lars Nyberg|William Ollier|Goran Papenberg|Alison Pattie|Ozren Polasek|Russell A. Poldrack|Bruce M. Psaty|Steffi G. Riedel-Heller|Richard J. Rose|Jerome I. Rotter|Panos Roussos|Suvi Rovio|Yasaman Saba|Fred W. Sabb|Perminder S. Sachdev|Claudia Satizabal|Matthias Schmid|Rodney J. Scott|Matthew A. Scult|Jeannette Simino|P. Eline Slagboom|Nikolaos Smyrnis|Aicha Soumare|Nikos C. Stefanis|David J. Stott|Richard E. Straub|Kjetil Sundet|Adele M. Taylor|Kent D. Taylor|Ioanna Tzoulaki|Christophe Tzourio|Andre Uitterlinden|Veronique Vitart|Aristotle N. Voineskos|Eero Vuoksimaa|Michael Wagner|Holger Wagner|Leonie Weinhold|K. Hoyan Wen|Elisabeth Widen|Qiong Yang|Wei Zhao|Hieab H. H. Adams|Dan E. Arking|Robert M. Bilder|Panos Bitsios|Eric Boerwinkle|Ornit Chiba-Falek|Aiden Corvin|Philip L. De Jager|Stephanie Debette|Gary Donohoe|Paul Elliott|Annette L. Fitzpatrick|Michael Gill|David C. Glahn|Sara Hagg|Narelle K. Hansell|Ahmad Hariri|M. Kamran Ikram|J. Wouter Jukema|Jaakko Kaprio|Matthew C. Keller|William S. Kremen|Lenore Launer|Ulman Lindenberger|Aarno Palotie|Nancy L. Pedersen|Neil Pendleton|David J. Porteous|Katri Raikkonen|Olli Raitakari|Alfredo Ramirez|Ivar Reinvang|Igor Rudan|Dan Rujescu|Reinhold Schmidt|Helena Schmidt|Peter W. Schofield|Peter R. Schofield|John M. Starr|Vidar M. Steen|Julian N. Trollor|Steven T. Turner|Cornelia M. Van Duijn|Arno Villringer|Daniel R. Weinberger|David R. Weir|James F. Wilson|Anil Malhotra|Andrew M. McIntosh|Catharine R. Gale|Sudha Seshadri|Thomas Mosley|Jan Bressler|Todd Lencz|Ian J. Deary The University of Edinburgh;|Institute of Mental Health, Singapore;|BrainWorkup, LLC, Los Angeles;|King's College London;|University of Turku;|University of Edinburgh;|Max Planck Institute for Molecular Genetics;|University of Washington;|Harvard Medical School;|University of Bergen;|Oslo University Hospital;|University of Crete;|University of California San Diego;|Medical University Graz;|Erasmus University Medical Center;|Karolinska Institutet;|Yale University School of Medicine;|University of Helsinki;|University of Cologne;|Boston University School of Public Health;|University of New South Wales;|Trinity College Dublin;|University of Newcastle;|The University of Manchester;|Imperial College London;|University of California Riverside;|University of Bordeaux;|University of Leipzig;|University of Michigan;|Icelandic Heart Association;|Ghent University Hospital;|Leiden University Medical Center;|University of Mississippi Medical Center;|University of Queensland;|Rush University Medical Center;|Feinstein Institute for Medical Research;|National Ageing Research Institute Royal Melbourne Hospital;|Institut Pasteur de Lille;|University of Oslo;|University of Sydney;|Duke University Medical Center;|Johns Hopkins University School of Medicine;|University of Bonn;|Yale University;|Human Longevity Inc, Durham, NC,;|UCLA;|23andMe, Inc.;|Virginia Commonwealth University;|National Institute of Health;|National Institute for Health and Welfare, Helsinki;|University of Glasgow;|Martin Luther University of Halle-Wittenberg;|QIMR Berghofer Medical Research Institute, Brisbane;|National Institutes of Health, Bethesda;|National and Kapodistrian University of Athens Medical School;|University of North Carolina;|University of Tampere;|Mayo Clinic, Rochester;|Neuroscience Research Australia;|Max Planck Institute for Human Development, Berlin;|University of Pittsburgh;|Umea University;|QIMR Berghofer Medical Research Institute;|University of Aberdeen;|Imperial College, London;|University of Manchester;|University of Split;|Stanford University;|Indiana University;|Icahn School of Medicine at Mount Sinai;|Medical University of Graz;|University of Oregon;|Boston University School of Medicine;|Duke University;|Johns Hopkins University Medical Campus, Baltimore;|Los Angeles Biomedical Research Institute;|University of Toronto;|Erasmus MC;|University of Texas Health Science Center at Houston;|Columbia University Medical Center;|National University of Ireland, Galway;|University of Colorado;|Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig;|Johns Hopkins University Medical Campus;|Zucker Hillside Hospital;|The National Heart, Lung, and Blood Institute's Framingham Heart Study
http://dx.doi.org/10.1101/177063 2017-08-17 CC BY-NC-ND A Method for Quantifying Molecular Interactions Using Stochastic Modelling and Super-Resolution Microscopy Keria Bermudez-Hernandez|Sarah Keegan|Donna R. Whelan|Dylan A. Reid|Jennifer Zagelbaum|Yandong Yin|Sisi Ma|Eli Rothenberg|David Fenyo New York University School of Medicine
http://dx.doi.org/10.1101/177204 2017-08-17 Genomics of Natural Populations: Evolutionary Forces that Establish and Maintain Gene Arrangements in Drosophila pseudoosbscura Zachary L. Fuller|Gwilym Haynes|Stephen Richards|Stephen W. Schaeffer Columbia University;|The Pennsylvania State University;|Baylor College of Medicine
http://dx.doi.org/10.1101/177352 2017-08-17 CC BY-NC-ND Weighted likelihood inference of genomic autozygosity patterns in dense genotype data Alexandra Blant|Michelle Kwong|Zachary Szpiech|Trevor Pemberton University of Manitoba;|University of California - San Francisco
http://dx.doi.org/10.1101/177618 2017-08-17 Neuroscience CC BY-ND Measuring functional connectivity in stroke: approaches and considerations Joshua S. Siegel|Gordon L. Shulman|Maurizio Corbetta Washington University in Saint Louis;|University of Padua
http://dx.doi.org/10.1101/177584 2017-08-17 Molecular Biology CC BY-NC-ND Sleeping Beauty transposon integrates into non-TA dinucleotides via an alternative mechanism Yabin Guo|Yin Zhang|Kaishun Hu Sun Yat-sen University
http://dx.doi.org/10.1101/177568 2017-08-17 Genetics CC BY-NC Single-cell RNA sequencing reveals cell-type specific cis-eQTLs in peripheral blood mononuclear cells Monique G. P. van der Wijst|Harm Brugge|Dylan H. de Vries|Lude H. Franke University Medical Center Groningen
http://dx.doi.org/10.1101/177477 2017-08-17 Cell Biology Delayed activation of the DNA replication licensing system in Lgr5(+) intestinal stem cells Thomas Carroll|Ian Newton|Julian J. Blow|Inke Nathke University of Dundee
http://dx.doi.org/10.1101/177576 2017-08-17 Microbiology CC BY-NC-ND A Zebrafish Model For Ocular Tuberculosis Kevin Takaki|Lalita Ramakrishnan|Soumyava Basu MRC Laboratory of Molecular Biology, University of Cambridge;|L. V. Prasad Eye Institute, Bhubaneswar, India
http://dx.doi.org/10.1101/177527 2017-08-17 Neuroscience CC BY-NC-ND Cortico-Cerebellar Networks Drive Sensorimotor Learning in Speech Daniel R. Lametti|Harriet J. Smith|Phoebe Freidin|Kate E. Watkins The University of Oxford
http://dx.doi.org/10.1101/177428 2017-08-17 Bioinformatics CC BY Mapping Patient Trajectories using Longitudinal Extraction and Deep Learning in the MIMIC-III Critical Care Database Brett K. Beaulieu-Jones|Patryk Orzechowski|Jason H. Moore University of Pennsylvania
http://dx.doi.org/10.1101/177519 2017-08-17 Evolutionary Biology CC BY-ND Daytime eyeshine contributes to pupil camouflage in a cryptobenthic marine fish Matteo Santon|Pierre-Paul Bitton|Ulrike K. Harant|Nico K. Michiels University of Tuebingen
http://dx.doi.org/10.1101/177485 2017-08-17 Bioinformatics CC BY BUSCO applications from quality assessments to gene prediction and phylogenomics Robert M. Waterhouse|Mathieu Seppey|Felipe A. Simao Neto|Mose Manni|Panagiotis Ioannidis|Guennadi Klioutchnikov|Evgenia V. Kriventseva|Evgeny Zdobnov University of Lausanne;|University of Geneva Medical School and Swiss Institute of Bioinformatics
http://dx.doi.org/10.1101/177436 2017-08-17 Biophysics CC BY-NC-ND Sequence-dependent nucleosome sliding in rotation-coupled and uncoupled modes revealed by molecular simulations Toru Niina|Giovanni B. Brandani|Cheng Tan|Shoji Takada Kyoto University
http://dx.doi.org/10.1101/177469 2017-08-17 Developmental Biology CC BY-NC-ND Cdx4 regulates the onset of spinal cord neurogenesis Piyush Joshi|Andrew J. Darr|Isaac Skromne University of Miami;|University of Miami Miller School of Medicine;|University of Richmond
http://dx.doi.org/10.1101/177535 2017-08-17 Molecular Biology CC BY-NC-ND Transient Reduction of DNA Methylation at the Onset of Meiosis in Male Mice Valeriya Gaysinskaya|Brendan F. Miller|Godfried W. van der Heijden|Kasper D. Hansen|Alex Bortvin Carnegie Institution for Science;|Translational & Functional Genomics Branch, Natl. Human Genome Research Institute, NIH;|Dept. of Obstetrics and Gynaecology, Erasmus MC, University Medical Center;|Dept. of Biostatistics, Johns Hopkins University, Baltimore, Maryland
http://dx.doi.org/10.1101/177592 2017-08-17 Cell Biology Whole-tissue stretching reveals a shape-dependent mechanism of orienting the mitotic spindle and a role for mechanical stress in cueing mitosis Alexander Nestor-Bergmann|Georgina Stooke-Vaughan|Georgina Goddard|Tobias Starborg|Oliver Eskild Jensen|Sarah Woolner University of Manchester
http://dx.doi.org/10.1101/177402 2017-08-17 Genomics CC BY Host-pathogen interactions in urinary tract infection from the structure and diversity of urinary cell-free DNA Philip Burnham|Darshana Dadhania|Michael Heyang|Fanny Chen|Manikkam Suthanthiran|John Richard Lee|Iwijn De Vlaminck Cornell University;|New York Presbyterian-Weill Cornell Medical Center
http://dx.doi.org/10.1101/177493 2017-08-17 Neuroscience CC BY-ND Typical real-world locations impact the time course of object coding Daniel Kaiser|Merle M. Moeskops|Radoslaw M. Cichy FU Berlin
http://dx.doi.org/10.1101/177345 2017-08-17 Microbiology CC BY-NC-ND The Epstein-Barr virus episome maneuvers between nuclear chromatin compartments during reactivation Stephanie A. Moquin|Sean Thomas|Sean Whalen|Alix Warburton|Samantha G. Fernanadez|Alison A. McBride|Katherine S. Pollard|JJ L. Miranda University of California, San Francisco;|Gladstone Institutes;|National Institutes of Health;|Gladstone Institute of Virology and Immunology
http://dx.doi.org/10.1101/177550 2017-08-17 CC BY A genome resequencing-based genetic map reveals the recombination landscape of an outbred parasitic nematode in the presence of polyploidy and polyandry Stephen R. Doyle|Roz Laing|David J. Bartley|Collette Britton|Umer Chaudhry|John D. Gilleard|Nancy Holroyd|Barbara K. Mable|Kirsty Maitland|Allison A. Morrison|Andy Tait|Alan Tracey|Matthew Berriman|Eileen Devaney|James A. Cotton|Neil D. Sargison Wellcome Trust Sanger Institute;|University of Glasgow;|Moredun Research Institute;|University of Edinburgh;|University of Calgary
http://dx.doi.org/10.1101/177816 2017-08-17 Replication of early and recent Zika virus isolates throughout mouse brain development Amy B. Rosenfeld|David J. Doobin|Audrey L. Warren|Vincent R. Racaniello|Richard B. Vallee Columbia University
http://dx.doi.org/10.1101/177808 2017-08-17 CC BY-ND Characteristics of a Block to Entry via an HIV-2 Envelope, MCR Eleanor R. Gray University College London
http://dx.doi.org/10.1101/177626 2017-08-17 CC BY-NC-ND A non-catalytic role of TET3 promotes open chromatin and enhances global transcription Christel Krueger|Julian R. Peat|Melanie A. Eckersley-Maslin|Timothy A. Hore|Hisham Mohammed|Simon R. Andrews|Wendy Dean|Wolf Reik Babraham Institute;|University of Otago
http://dx.doi.org/10.1101/176891 2017-08-17 CC BY-NC-ND Modeling of dynamic cerebrovascular reactivity to spontaneous and externally induced CO2 fluctuations in the brainstem respiratory control centers in the human brain using BOLD-fMRI Prokopis C. Prokopiou|Kyle T. S. Pattinson|Richard G. Wise|Georgios D. Mitsis McGill University;|University of Oxford;|Cardiff University
http://dx.doi.org/10.1101/177774 2017-08-17 Case report: intermittent fasting and probiotic yogurt consumption are associated with reduction of serum alpha-N-acetylgalactosaminidase and increased urinary excretion of lipophilic toxicants Jerry Blythe|Stefania Pacini Retired Medical Doctor;|Silver Spring Sagl.
http://dx.doi.org/10.1101/177790 2017-08-17 The effect of Wnt signaling on the localization, molecular size and activity of the beta-catenin destruction complex in vivo Kristina Schaefer|Shiping Zhang|Teresa Bonello|Clara Williams|Daniel McKay|Mark Peifer University of North Carolina
http://dx.doi.org/10.1101/177782 2017-08-17 CC BY-NC-ND The evolution of thermoregulatory nesting behaviour in Peromyscus mice Caitlin L. Lewarch|Hopi E. Hoekstra Harvard University
http://dx.doi.org/10.1101/177766 2017-08-17 CC BY-NC A Mechanism of Cohesin-Dependent Loop Extrusion Organizes Zygotic Genome Architecture Johanna Gassler|Hugo B. Brandao|Maxim Imakaev|Ilya M. Flyamer|Sabrina Ladstatter|Wendy A. Bickmore|Jan-Michael Peters|Leonid A. Mirny|Kikue Tachibana-Konwalski Institute of Molecular Biotechnology of the Austrian Academy of Sciences (IMBA);|Harvard University;|Massachusetts Institute of Technology;|Institute of Genetics and Molecular Medicine, University of Edingburgh;|Institute of Molecular Pathology (IMP)
http://dx.doi.org/10.1101/177444 2017-08-17 CTCF, WAPL and PDS5 proteins control the formation of TADs and loops by cohesin Gordana Wutz|Csilla Varnai|Kota Nagasaka|David Amaras Cisneros|Roman Stocsits|Wen Tang|Stefan Schoenfelder|Gregor Jessberger|Matthias Muhar|Julius M. Hossain|Nike Walther|Birgit Koch|Moritz Kueblbeck|Jan Ellenberg|Johannes Zuber|Peter Fraser|Jan-Michael Peters Research Institute of Molecular Pathology;|The Babraham Institute;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/177725 2017-08-17 Ecology CC BY-NC-ND Stronger effects of heterozygosity on survival in harsher environments Simone Vincenzi|Dusan Jesensek|John Carlos Garza|Alain J Crivelli University of California Santa Cruz;|Tolmin Angling Association;|Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service;|Station Biologique de la Tour du Valat
http://dx.doi.org/10.1101/177642 2017-08-17 Molecular Biology Thiol-linked alkylation for the metabolic sequencing of RNA Veronika Anna Herzog|Brian Reichholf|Tobias Neumann|Philipp Rescheneder|Pooja Bhat|Thomas R Burkard|Wiebke Wlotzka|Arndt von Haeseler|Johannes Zuber|Stefan Ludwig Ameres Institute of Molecular Biotechnology, IMBA;|Research Institute of Molecular Pathology, IMP;|Center for Integrative Bioinformatics Vienna, Max F Perutz Laboratories, Medical Univ. of Vienna
http://dx.doi.org/10.1101/177188 2017-08-17 Neuroscience A high-performance, inexpensive setup for simultaneous multi-site recording of electrophysiological signals and wide-field optical imaging of the mouse cortex Edgar J Bermudez Contreras|Sergey Chekhov|Jennifer Tarnowsky|Jianjun Sun|Bruce L McNaughton|Majid H Mohajerani Canadian Centre for Behavioural Neuroscience, University of Lethbridge.
http://dx.doi.org/10.1101/177360 2017-08-17 Systems Biology CC BY-NC-ND Investigating the existence of periodicity in activity of neural network by novel neural signal processing technique - quantifying induced learning in cell culture Sayan Biswas Jadavpur University
http://dx.doi.org/10.1101/177154 2017-08-17 Neuroscience CC BY-NC Feed-forward and Feedback Control in Astrocytes for Ca2+-based Molecular Communications Nanonetworks Michael Taynnan Barros|Subhrakanti Dey Waterford Institute of Technology;|Uppsala University
http://dx.doi.org/10.1101/177741 2017-08-17 Ecology CC BY-NC-ND Effects of species invasion on population dynamics, vital rates, and life histories of the native species Simone Vincenzi|Alain J Crivelli|Dusan Jesensek|Ellen Campbell|John Carlos Garza University of California Santa Cruz;|Station Biologique de la Tour du Valat;|Tolmin Angling Association;|Fisheries Ecology Division, Southwest Fisheries Science Center, National Marine Fisheries Service,
http://dx.doi.org/10.1101/177733 2017-08-17 Bioengineering CC BY-NC-ND Dynamic, non-contact 3D sample rotation for microscopy Frederic Berndt|Gopi Shah|Jan Brugues|Jan Huisken Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/176941 2017-08-17 Ecology On the Stability Landscape of the Human Gut Microbiome: Implications for Microbiome-based Therapies Travis E. Gibson|Vincent Carey|Amir Bashan|Elizabeth L. Hohmann|Scott T. Weiss|Yang-Yu Liu Massachusetts Host Microbiome Center, Brigham & Women's Hospital, Harvard Med. School;|Channing Div. of Network Medicine, Brigham & Women's Hospital, Harvard Medical School;|Department of Physics, Bar Ilan University;|Infectious Disease Division, Massachusetts General Hospital, Harvard Medical School
http://dx.doi.org/10.1101/177634 2017-08-17 Genomics CC BY-ND Assortative mating on ancestry-variant traits in admixed Latin American populations Emily T. Norris|Lavanya Rishishwar|Lu Wang|Andrew B. Conley|Aroon T. Chande|Adam M. Dabrowski|Augusto Valderrama-Aguirre|I. King Jordan Georgia Institute of Technology;|Universidad Libre
http://dx.doi.org/10.1101/177667 2017-08-17 Genomics CC BY-NC-ND Stereotyped p53 binding tuned by chromatin accessibility Antonina Hafner|Galit Lahav|Jacob Stewart-Ornstein Harvard Medical School
http://dx.doi.org/10.1101/176297 2017-08-17 Biochemistry Substrate sequence selectivity of APOBEC3A implicates intra-DNA interactions Tania Vanessa Silvas|Shurong Hou|Wazo Myint|Mohan Somasundaran|Brian A. Kelch|Hiroshi Matsuo|Nese Kurt Yilmaz|Celia A. Schiffer University of Massachusetts Medical School;|Frederick National Laboratory for Cancer Research
http://dx.doi.org/10.1101/177329 2017-08-17 Neuroscience CC BY-NC-ND Computational mechanisms underlying cortical responses to the affordance properties of visual scenes Michael F. Bonner|Russell A. Epstein University of Pennsylvania
http://dx.doi.org/10.1101/175893 2017-08-17 Neuroscience CC BY-NC Biophysical modeling of neural plasticity induced by transcranial magnetic stimulation Marcus T. Wilson|Ben D. Fulcher|Park K. Fung|Peter A. Robinson|Alex Fornito|Nigel C. Rogasch University of Waikato;|Monash University;|State University of New York;|The University of Sydney
http://dx.doi.org/10.1101/177980 2017-08-18 Molecular Biology The RS Domain of Human CFIm68 Plays a Key Role in Selection Between Alternative Sites of Pre-mRNA Cleavage and Polyadenylation Jessica G. Hardy|Michael Tellier|Shona Murphy|Chris J. Norbury Sir William Dunn School of Pathology
http://dx.doi.org/10.1101/177717 2017-08-18 Microbiology Characterizing a thermostable Cas9 for bacterial genome editing and silencing Ioannis Mougiakos|Prarthana Mohanraju|Elleke F. Bosma|Valentijn Vrouwe|Max Finger Bou|Mihris I. S. Naduthodi|Alexander Gussak|Rudolf B. L. Brinkman|Richard van Kranenburg|John van der Oost Wageningen University and Research;|Corbion
http://dx.doi.org/10.1101/177881 2017-08-18 Cancer Biology CC BY SPIN1 promotes tumorigenesis by blocking the uL18-MDM2-p53 pathway Ziling Fang|Jun-Ming Liao|Bo Cao|Jun Deng|Kevin D. Plummer|Peng Liao|Tao Liu|Shelya X. Zeng|Jianping Xiong|Hua Lu Tulane University School of Medicine;|Case Western Reserve University;|Southern New Hampshire University;|The First Affiliated Hospital of Nanchang University
http://dx.doi.org/10.1101/178004 2017-08-18 Cancer Biology BCL-3 enhances β-catenin signalling in colorectal tumour cells promoting a cancer stem cell phenotype Danny N. Legge|Alex P. Shephard|Tracey J. Collard|Alexander Greenhough|Adam C. Chambers|Richard W. Clarkson|Christos Paraskeva|Ann C. Williams University of Bristol;|Cardiff University
http://dx.doi.org/10.1101/177949 2017-08-18 Molecular Biology The small non-coding vault RNA1-1 acts as a riboregulator of autophagy Rastislav Horos|Anne-Marie Alleaume|Roos Kleinendorst|Abul K. Tarafder|Thomas Schwarzl|Elisabeth M. Zielonka|Asli Adak|Alfredo Castello|Wolfgang Huber|Carsten Sachse|Matthias W. Hentze EMBL Heidelberg;|Oxford University
http://dx.doi.org/10.1101/177998 2017-08-18 Developmental Biology Expression of lamina proteins Lamin Dm0 and Kugelkern suppresses stem cell proliferation Roman Petrovsky|Joerg Grosshans University Medical Center Goettingen
http://dx.doi.org/10.1101/177956 2017-08-18 Neuroscience CC BY-NC Community-based benchmarking improves spike inference from two-photon calcium imaging data Philipp Berens|Jeremy Freeman|Thomas Deneux|Nicolay Chenkov|Thomas McColgan|Artur Speiser|Jakob H. Macke|Srinivas Turaga|Patrick Mineault|Peter Rupprecht|Stephan Gerhard|Rainer W. Friedrich|Johannes Friedrich|Liam Paninski|Marius Pachitariu|Kenneth D. Harris|Ben Bolte|Timothy A. Machado|Dario Ringach|Jacob Reimer|Emmanouil Froudarakis|Thomas Euler|Miroslav Roman-Roson|Lucas Theis|Andreas S. Tolias|Matthias Bethge University of Tuebingen;|Chan Zuckerberg Initiative;|Unit de Neuroscience, Information et Complexit, Centre National de la Recherche Scientifique;|Humboldt University Berlin;|Research Center Caesar, Bonn;|Janelia Research Campus, Howard Hughes Medical Institute, Ashburn;|Independent Researcher;|Friedrich Miescher Institute, Basel;|Columbia University, New York;|University College London;|Emory University Atlanta;|UCLA;|Baylor College of Medicine, Houston;|Baylor College of Medicine;|Twitter
http://dx.doi.org/10.1101/177840 2017-08-18 Cancer Biology CC BY-NC-ND LIM Protein Ajuba associates with the RPA complex through direct and cell cycle-dependent interaction with the RPA70 subunit. Sandy Fowler|Pascal Maguin|Sampada Kalan|Diego Loayza Hunter College-City University of New York;|The Rockefeller University;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/178061 2017-08-18 Cancer Biology CC BY Precise, pan-cancer discovery of gene fusions reveals a signature of selection in primary tumors Donald Eric Freeman|Gillian Lee Hsieh|Jonathan Michael Howard|Erik M. Lehnert|Julia Salzman Stanford University;|Seven Bridges Genomics
http://dx.doi.org/10.1101/175513 2017-08-18 Epidemiology CC BY-ND Toward Capturing the Exposome: Exposure Biomarker Variability and Co-Exposure Patterns in the Shared Environment Ming Kei Chung|Kurunthachalam Kannan|Germaine M. Buck Louis|Chirag J. Patel Harvard University;|The University at Albany;|The National Institutes of Health
http://dx.doi.org/10.1101/175869 2017-08-18 Epidemiology CC BY Use of whole genome sequencing to investigate an outbreak of gonorrhoea among females in urban New South Wales, Australia, 2012 to 2014. Cameron Buckley|Brian Forde|Ella Trembizki|Monica Lahra|Scott Beatson|David Whiley University of Queensland;|Prince of Wales Hospital
http://dx.doi.org/10.1101/177451 2017-08-18 Epidemiology CC BY Assessing the performance of real-time epidemic forecasts Sebastian Funk|Anton Camacho|Adam J. Kucharski|Rachel Lowe|Rosalind M. Eggo|W. John Edmunds London School of Hygiene & Tropical Medicine
http://dx.doi.org/10.1101/172395 2017-08-18 Epidemiology CC BY Stacked Generalization: An Introduction to Super Learning Ashley Naimi|Laura B. Balzer University of Pittsburgh;|University of Massachusetts at Amherst
http://dx.doi.org/10.1101/169169 2017-08-18 Biochemistry Structure of the triose-phosphate/phosphate translocator reveals the basis of substrate specificity Yongchan Lee|Tomohiro Nishizawa|Mizuki Takemoto|Kaoru Kumazaki|Keitaro Yamashita|Kunio Hirata|Ayumi Minoda|Satoru Nagatoishi|Kouhei Tsumoto|Ryuichiro Ishitani|Osamu Nureki Department of Biological Sciences, Graduate School of Science, The University of Tokyo;|RIKEN SPring-8 Center;|Faculty of Life and Environmental Sciences, University of Tsukuba;|Department of Bioengineering, School of Engineering, The University of Tokyo
http://dx.doi.org/10.1101/177311 2017-08-18 Cell Biology Ligand-regulated entry into the HRD ERAD pathway: The dark side of allostery Margaret Anne Wangeline|Randolph Young Hampton University of California San Diego
http://dx.doi.org/10.1101/175992 2017-08-18 Animal Behavior and Cognition Comparing colours using visual models Rafael Maia|Thomas White Columbia University;|Macquarie University
http://dx.doi.org/10.1101/177923 2017-08-18 Bioinformatics GIC: A computational method for predicting the essentiality of long noncoding lncRNAs Pan Zeng|Ji Chen|Yuan Zhou|Jichun Yang|Qinghua Cui Peking University
http://dx.doi.org/10.1101/177915 2017-08-18 Physiology Dynamics of corticospinal motor control during overground and treadmill walking in humans Luisa Roeder|Tjeerd W. Boonstra|Graham K. Kerr Queensland University of Technology;|University of New South Wales
http://dx.doi.org/10.1101/178152 2017-08-18 Deep learning: Using machine learning to study biological vision Najib J. Majaj|Denis G. Pelli New York University
http://dx.doi.org/10.1101/178376 2017-08-18 Extraordinary Self-Sacrifice D. B. Krupp Queen's University
http://dx.doi.org/10.1101/178327 2017-08-18 CC BY Pathogen-Host Analysis Tool (PHAT): an Integrative Platform to Analyze Pathogen-Host Relationships in Next-Generation Sequencing Data Christopher M. Gibb|Robert Jackson|Sabah Mohammed|Jinan Fiaidhi|Ingeborg Zehbe Lakehead University & Thunder Bay Regional Health Research Institute;|Lakehead University
http://dx.doi.org/10.1101/172346 2017-08-18 Cadmium Exposure Increases The Risk Of Juvenile Obesity: A Human And Zebrafish Comparative Study Adrian J. Green|Cathrine Hoyo|Carolyn J. Mattingly|Yiwen Luo|Jung-Ying Tzeng|Susan Murphy|Antonio Planchart NC State University
http://dx.doi.org/10.1101/178319 2017-08-18 CC BY-NC-ND The Anti-Epileptic Ketogenic Diet Alters Hippocampal Transporter Levels and Reduces Adiposity in Aged Rats Abbi R. Hernandez|Caesar M. Hernandez|Keila Campos|Leah M. Truckenbrod|Yasemin Sakarya|Joseph A. McQuail|Christy S. Carter|Jennifer L. Bizon|Andrew P. Maurer|Sara N. Burke University of Florida
http://dx.doi.org/10.1101/178046 2017-08-18 CC BY-NC-ND Lhr and Hmr are required for sister chromatid detachment during anaphase but not for centromere function Jacob A. Blum|Silvia Bonaccorsi|Marta Marzullo|Valeria Palumbo|Yukiko Yamashita|Daniel Barbash|Maurizio Gatti Universita di Roma;|University of MIchigan;|Cornell University
http://dx.doi.org/10.1101/177659 2017-08-18 CC BY-NC-ND Phenotypes associated with female X chromosome aneuploidy in UK Biobank: an unselected, adult, population-based cohort Marcus A. Tuke|Katherine S. Ruth|Andrew R. Wood|Robin N. Beaumont|Jessica Tyrrell|Samuel E. Jones|Hanieh Yaghootkar|Claire L. S. Turner|Mollie E. Donohoe|Antonia M. Brooke|Morag N. Collinson|Rachel M. Freathy|Michael N. Weedon|Timothy M. Frayling|Anna Murray University of Exeter Medical School;|Royal Devon & Exeter Hospital;|Wessex Regional Genetics Laboratory
http://dx.doi.org/10.1101/178244 2017-08-18 CC BY-NC-ND Biofilm formation and toxin production provide a fitness advantage in mixed colonies of natural yeast isolates Bernadette M. Deschaine|Angela R. Heysel|B. Adam Lenhart|Helen Murphy College of William and Mary
http://dx.doi.org/10.1101/178137 2017-08-18 CC BY-NC-ND Regulatory divergence of flowering time genes in the allopolyploid Brassica napus Marc Jones|Nick Pullen|Rachel Wells|Martin Trick|Judith Irwin|Richard Morris John Innes Centre
http://dx.doi.org/10.1101/178160 2017-08-18 CC BY-NC-ND Genomic prediction reveals significant non-additive effects for growth in hybrid Eucalyptus Biyue Tan|Dario Grattapaglia|Harry X. Wu|Par K. Ingvarsson Dept. of Ecology & Environmental Science, Umea University; Biomaterials Division, Stora Enso;|EMBRAPA Genetic Resources and Biotechnology; Universidade Catolica de Brasilia;|Dept. of Forest Genetics and Plant Physiology, Swedish University of Agricultural Sciences;|Dept. of Plant Biology, Uppsala BioCenter, Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/178285 2017-08-18 Neuroscience Systemic HIV-1 Infection Produces a Unique Glial Footprint in Humanized Mouse Brains Weizhe Li|Santhi Gorantla|Howard E. Gendelman|Larisa Poluektova Norwalk Hospital in Connecticut;|University of Nebraska Medical Center
http://dx.doi.org/10.1101/177758 2017-08-18 Physiology CC BY-NC-ND Human occipital bone sexual dimorphism in an Archiac period archaeological population Kara C. Hoover University of Alaska
http://dx.doi.org/10.1101/178095 2017-08-18 Neuroscience Predictive coding over the lifespan: Increased reliance on perceptual priors in older adults — a magnetoencephalography and dynamic causal modelling study Jason S. Chan|Michael Wibral|Patricia Wollstadt|Cerisa Stawowsky|Mareike Brandl|Saskia Helbling|Marcus Naumer|Jochen Kaiser University College Cork;|Brain Imaging Center, Goethe-University, Frankfurt am Main, Germany;|Institute of Medical Psychology, Goethe-University, Frankfurt am Main, Germany
http://dx.doi.org/10.1101/178210 2017-08-18 Neuroscience CC BY Oxytocin Signaling in the Medial Amygdala is required for Sex Discrimination of Social Cues Shenqin Yao|Joseph Bergan|Anne Lanjuin|Catherine Dulac Harvard University;|Howard Hughes Medical Institute, Harvard University
http://dx.doi.org/10.1101/178202 2017-08-18 Biochemistry CC BY RNA editing of CAPS1 regulates synaptic vesicle organization, release and retrieval. Randi J. Ulbricht|Sarah J. Sun|Claire E. DelBove|Kristina E. Kitko|Saad C. Rehman|Michelle Y. Wang|Roman M. Lazarenko|Qi Zhang|Ronald Emeson Vanderbilt University
http://dx.doi.org/10.1101/178103 2017-08-18 Bioinformatics CC BY npInv: accurate detection and genotyping of inversions mediated by non-allelic homologous recombination using long read sub-alignment Haojing Shao|Devika Ganesamoorthy|Tania Duarte|Minh Duc Cao|Clive Hoggart|Lachlan Coin Institute for Molecular Bioscience, University of Queensland;|Imperial College London;|The University of Queensland
http://dx.doi.org/10.1101/175281 2017-08-18 Bioinformatics CC BY-NC CarrierSeq: a sequence analysis workflow for low-input nanopore sequencing Angel Mojarro|Julie Hachey|Gary Ruvkun|Maria T. Zuber|Christopher E. Carr Massachusetts Institute of Technology;|Readcoor;|Massachusetts General Hospital
http://dx.doi.org/10.1101/177832 2017-08-18 Bioinformatics CC BY-ND Building a genome browser with GIVE Xiaoyi Cao|Alvin Zheng|Sheng Zhong University of California, San Diego
http://dx.doi.org/10.1101/178038 2017-08-18 Immunology A gut pathobiont synergizes with the microbiota to instigate inflammatory disease marked by immunoreactivity against other symbionts but not itself Joao Carlos Gomes-Neto|Hatem Kittana|Sara Mantz|Rafael R. Segura Munoz|Robert J. Schmaltz|Laure B. Bindels|Jennifer Clarke|Jesse M. Hostetter|Andrew K. Benson|Jens Walter|Amanda E. Ramer-Tait University of Nebraska;|Iowa State University;|University of Alberta
http://dx.doi.org/10.1101/178129 2017-08-18 Bioinformatics CHIC: a short read aligner for pan-genomic references Daniel Valenzuela|Veli Makinen University of Helsinki
http://dx.doi.org/10.1101/177931 2017-08-18 Bioinformatics CC BY-NC-ND SFMetaDB: A Comprehensive Annotation of Mouse RNA Splicing Factor RNA-Seq Datasets Jin Li|Ching-San Tseng|Antonio Federico|Franjo Ivankovic|Yi-Shuian Huang|Alfredo Ciccodicola|Maurice S. Swanson|Peng Yu Texas A&M University;|Institute of Biomedical Sciences, Academia Sinica;|University of Naples Parthenope;|University of Florida, College of Medicine
http://dx.doi.org/10.1101/177899 2017-08-18 Neuroscience Withdrawal-induced escalated oxycodone self-administration is mediated by kappa opioid receptor function Jacques D. Nguyen|Dean Kirson|Michael Q. Steinman|Reesha Patel|Sophia Khom|Florence P. Varodayan|David M. Hedges|Christopher S. Oleata|Yanabel Grant|Marisa Roberto|Michael A. Taffe The Scripps Research Institute
http://dx.doi.org/10.1101/178111 2017-08-18 Evolutionary Biology Evolutionary history of New World monkeys revealed by molecular and fossil data Daniele Silvestro|Marcelo F. Tejedor|Martha L. Serrano-Serrano|Oriane Loiseau|Victor Rossier|Jonathan Rolland|Alexander Zizka|Alexandre Antonelli|Nicolas Salamin University of Gothenburg;|CONICET, Centro Nacional Patagonico;|University of Lausanne
http://dx.doi.org/10.1101/178012 2017-08-18 Microbiology Translated Blast of L Polymerase as a Hit for Novel Arenaviruses Species Hasan Salam Alrashedi|Ian Jones|Geraldine Mulley|Benjamin Neuman University of Reading;|Texas A&M University-Texarkana
http://dx.doi.org/10.1101/177972 2017-08-18 Genomics CC BY Frequent paramutation-like features of natural epialleles in tomato Quentin Gouil|David Baulcombe University of Cambridge
http://dx.doi.org/10.1101/177964 2017-08-18 Genomics CC BY-NC-ND microRNA tissue atlas of the malaria mosquito Anopheles gambiae Lena Lampe|Elena A. Levashina Max Planck Institute for Infection Biology
http://dx.doi.org/10.1101/177857 2017-08-18 Genetics Map-based cloning of the gene Pm21 that confers broad spectrum resistance to wheat powdery mildew Huagang He|Shanying Zhu|Yaoyong Ji|Zhengning Jiang|Renhui Zhao|Tongde Bie Jiangsu University;|Yangzhou Academy of Agricultural Sciences
http://dx.doi.org/10.1101/178517 2017-08-19 CC BY-NC-ND Bimodal Spindle Orientation Drives Tissue Regularity in a Proliferating Epithelium Tara M. Finegan|Daxiang Na|Austin V. Skeeters|Nicole S. Dawney|Patrick W. Oakes|Alexander Fletcher|Dan T. Bergstralh University of Cambridge;|University of Rochester Medical Center;|University of Rochester;|University of Sheffield
http://dx.doi.org/10.1101/178483 2017-08-19 The Effects Of Oncogenic G12D Mutation On K-Ras Structure, Conformation And Dynamics Sezen Vatansever|Zeynep Gumus|Burak Erman Koc University;|Icahn Institute for Genomics and Multiscale Biology, Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/178459 2017-08-19 NMR studies reveal that protein dynamics critically mediate aggregation of the well-folded and very soluble E. coli S1 ribosomal protein Yimei Lu|Liangzhong Lim|Jianxing Song National University of Singapore
http://dx.doi.org/10.1101/178426 2017-08-19 Biochemistry CC BY-NC-ND Detection of domain motion in NADPH-cytochrome P450 oxidoreductase through polarization anisotropy measurements Elizaveta A. Kovrigina|Chuanwu Xia|Jung-Ja Kim|Evgenii L. Kovrigin Medical College of Wisconsin;|Marquette University
http://dx.doi.org/10.1101/178194 2017-08-19 Developmental Biology L(3)mbt safeguards tissue identity by maintaining transcriptional integrity at head-to-head genes Remi-Xavier Coux|Felipe Karam Teixeira|Ruth Lehmann Skirball Institute NYUSoM
http://dx.doi.org/10.1101/178491 2017-08-19 Developmental Biology The effect of sonic hedgehog on motor neuron positioning in the spinal cord during chicken embryo development Ciqing Yang|Xiaoying Li|Qiuling Li|Qiong Li|Han Li|Bichao Zhang|Juntang Lin College of Life Science and Technology;|Xinxiang Medical University;|Universiti Sains Malaysia
http://dx.doi.org/10.1101/178301 2017-08-19 Neuroscience Distributed cortical structural properties contribute to motor cortical excitability and inhibition Eran Dayan|Virginia Lopez-Alonso|Sook-Lei Liew|Leonardo Cohen University of North Carolina at Chapel Hill;|University of A Coruna;|University of Southern California;|NINDS
http://dx.doi.org/10.1101/178368 2017-08-19 Microbiology Labeling of prokaryotic mRNA in live cells using fluorescent in situ hybridization of transcript-annealing molecular beacons (FISH-TAMB) Rachel Harris|Maggie C. Y. Lau|Esta van Heerden|Errol Cason|Jan-G Vermeulen|Anjali Taneja|Thomas L. Kieft|Christina DeCoste|Gary Laevsky|Tullis C. Onstott Princeton University;|University of the Free State;|New Mexico Institute of Mining and Technology
http://dx.doi.org/10.1101/178343 2017-08-19 Immunology A minimal RNA ligand for potent RIG-I activation in living mice Melissa M. Linehan|Thayne Henderson Dickey|Emanuela S. Molinari|Megan E. Fitzgerald|Olga Potapova|Akiko Iwasaki|Anna M. Pyle Yale University
http://dx.doi.org/10.1101/178822 2017-08-20 CC BY-NC-ND Abnormal cell sorting underlies the unique X-linked inheritance of PCDH19 Epilepsy Daniel Pederick|Kay Richards|Sandra Piltz|Simone Mandelstam|Russell Dale|Ingrid Scheffer|Jozef Gecz|Steve Petrou|James Hughes|Paul Thomas The University of Adelaide;|The University of Melbourne;|University of Sydney;|The Unviersity of Melbourne
http://dx.doi.org/10.1101/178756 2017-08-20 CC BY-NC-ND Acute Hepatitis E Virus infection in two geographical regions of Nigeria Ijeoma M. Ifeorah|Temitope O. C. Faleye|Adeleye S. Bakarey|Moses Olubusuyi Adewumi|Adegboyega Akere|Chukwuma Ewean Omoruyi|Akintayo O. Ogunwale|Johnson A. Adeniji University of Nigeria, Nigeria;|Ekiti State University, Nigeria;|University of Ibadan, Nigeria;|Oyo State College of Agriculture and Technology, Nigeria
http://dx.doi.org/10.1101/150839 2017-08-20 CC BY-NC Enhanced cross-modal activation of sensory cortex in mouse models of autism Ryoma Hattori|Thomas C. Sudhof|Kazuhiro Yamakawa|Takao K. Hensch University of California, San Diego;|Stanford University;|RIKEN Brain Science Institute;|Harvard University
http://dx.doi.org/10.1101/178590 2017-08-20 Accurate typing of class I human leukocyte antigen by Oxford nanopore sequencing Chang Liu|Fangzhou Xiao|Jessica Hoisington-Lopez|Kathrin Lang|Philipp Quenzel|Brian Duffy|Rob D. Mitra Washington University School of Medicine;|California Institute of Technology;|DKMS Life Science Lab GmbH;|Barnes-Jewish Hospital
http://dx.doi.org/10.1101/178467 2017-08-20 Widespread utilization of passive energy recapture in swimming medusae Brad J. Gemmell|Sean P. Colin|John H. Costello University of South Florida;|Roger Williams University;|Providence College
http://dx.doi.org/10.1101/178251 2017-08-20 Trajectories of Alcohol Use Initiation and Risk to Develop an Alcohol Use Disorder During Adolescence: A Role for Stress and Amygdala Activity Nourhan M. Elsayed|M. Justin Kim|Kristina M. Fields|Rene L. Olvera|Ahmad R. Hariri|Douglas E. Williamson Duke University;|University of Texas Health Science Center at San Antonio
http://dx.doi.org/10.1101/178582 2017-08-20 CC BY-NC Genes relocated between Drosophila chromosomes evolve under selection pressures different from canonical dispersed duplicates Margaret L. I. Hart|Ban L. Vu|Quinten Bolden|Keith T. Chen|Casey L. Oakes|Lejla Zoronjic|Richard Meisel University of Houston
http://dx.doi.org/10.1101/178772 2017-08-20 CC BY-ND Adaptation to European latitudes through assimilation of wild diversity at the LuTFL1 locus altered architecture and promoted fiber production in flax. Rafal Gutaker|Maricris Zaidem|Yong-Bi Fu|Axel Diederichsen|Oliver Smith|Roselyn Ware|Robin G. Allaby Max Planck Institute for Developmental Biology, Tübingen, Germany;|Plant Gene Resources of Canada, Saskatoon Research and Development Centre;|Centre for Geogenetics, Copenhagen University of Copenhagen;|School of Life Sciences, University of Warwick
http://dx.doi.org/10.1101/178723 2017-08-20 CC BY-ND Disease mediated changes to life history and demography threaten the survival of European amphibian populations Lewis J. Campbell|Trenton W. J. Garner|Giulia Tessa|Benjamin C. Scheele|Lena Wilfert|Amber G. F. Griffiths|Xavier A. Harrison University of Exeter;|Institute of Zoology;|Universita degli Studi di Torino;|Australian National University;|FoAM
http://dx.doi.org/10.1101/178632 2017-08-20 DrugPattern: a web-based tool for drug set enrichment analysis Chuanbo Huang|Weili Yang|Junpei Wang|Yuan Zhou|Bin Geng|Georgios Kararigas|Jichun Yang|Qinghua Cui Peking University;|Fuwai Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College;|Humboldt-Universitat zu Berlin; Berlin Inst. of Health, Inst. of Gender in Medicine
http://dx.doi.org/10.1101/178657 2017-08-20 CC BY-NC-ND Innovations orthogonalization: a solution to the major pitfalls of EEG/MEG "leakage correction" Roberto Pascual-Marqui|Rolando J. Biscay|Jorge Bosch-Bayard|Pascal Faber|Toshihiko Kinoshita|Kieko Kochi|Patricia Milz|Keiichiro Nishida|Masafumi Yoshimura The KEY Institute for Brain-Mind Research;|Centro de Investigacion en Matematicas, Guanajuato, Mexico;|Dept Neurobiologia Conductual y Cognitiva, Univ Nacional Autonoma, Queretaro, Mexico;|The KEY Institute for Brain-Mind Research, University of Zurich, Switzerland;|Department of Neuropsychiatry, Kansai Medical University, Osaka, Japan
http://dx.doi.org/10.1101/178640 2017-08-20 CC BY-NC-ND The functional and genetic associations of neuroimaging data: a toolbox Zhaowen Liu|Edmund T. Rolls|Jie Zhang|Ming Yang|Jingnan Du|Weikang Gong|Wei Cheng|He Wang|Kamil Ugurbil|Jianfeng Feng Xidian University;|University of Warwick;|Fudan University;|University of Minnesota
http://dx.doi.org/10.1101/178475 2017-08-20 Current geography masks dynamic history of gene flow during speciation in northern Australian birds Joshua V. Penalba|Leo Joseph|Craig Moritz Australian National University;|CSIRO
http://dx.doi.org/10.1101/178681 2017-08-20 CC BY-NC-ND Targeting individual cells by barcode in pooled sequence libraries Navpreet Ranu|Alexandra-Chloe Villani|Nir Hacohen|Paul C. Blainey Massachusetts Institute of Technology;|Broad Institute of MIT and Harvard;|Harvard University
http://dx.doi.org/10.1101/178814 2017-08-20 CC BY-NC-ND RNA-dependent intergenerational inheritance of enhanced synaptic plasticity after environmental enrichment Eva Benito|Cemil Kerimoglu|Binu Ramachandran|Qihui Zhou|Tonatiuh Pena|Vincenzo Capece|Gaurav Jain|Susanne Burkhardt|Roman Stilling|Dieter Edbauer|Camin Dean|Andre Fischer German Center for Neurodegenerative Diseases, Goettingen;|Trans-synaptic Signaling Group, European Neuroscience Institute, Goettingen;|German Center for Neurodegenerative Diseases, Munich
http://dx.doi.org/10.1101/178558 2017-08-20 Inferring propensity amongst lung and breast carcinomas via overlapped gene expression profiles Rajni Jaiswal|Sabin Dhakal|Shaurya Jauhari Sharda University;|Jawaharlal Nehru University;|Jamia Millia Islamia
http://dx.doi.org/10.1101/178186 2017-08-20 Awake fMRI Reveals Mechanisms of Language Comprehension in Dogs Ashley Prichard|Peter F. Cook|Mark Spivak|Raveena Chhibber|Gregory Berns Emory University;|New College of Florida;|Comprehensive Pet Therapy
http://dx.doi.org/10.1101/178384 2017-08-20 CC BY-NC Behavioral and neural indices of affective coloring for neutral social stimuli Daniel W. Grupe|Stacey M. Schaefer|Regina C. Lapate|Andrew J. Schoen|Lauren K. Gresham|Jeanette A. Mumford|Richard J. Davidson University of Wisconsin-Madison;|University of California, Berkeley
http://dx.doi.org/10.1101/178392 2017-08-20 CC BY-NC ActiveDriverDB: human disease mutations and genome variation in post-translational modification sites of proteins Michal Krassowski|Marta Paczkowska|Kim Cullion|Tina Huang|Irakli Dzneladze|Francis Ouellette|Joseph T. Yamada|Amelie Fradet-Turcotte|Juri Reimand Ontario Institute for Cancer Research;|Universite Laval;|University of Toronto
http://dx.doi.org/10.1101/178616 2017-08-20 CC BY-NC Facilitated analysis of large data sets by interactive visualisation Zhigang Lu|Yanyan Zhang Wellcome Trust Sanger Institute;|University of Hohenheim
http://dx.doi.org/10.1101/178715 2017-08-20 Evolution of dispersal syndrome and its corresponding metabolomic changes Sudipta Tung|Abhishek Mishra|Navdeep Gogna|Mohammed Aamir Sadiq|P. M. Shreenidhi|V. R. Shree Sruti|Kavita Dorai|Sutirth Dey Indian Institute of Science Education and Research (IISER) Pune;|Indian Institute of Science Education and Research Mohali;|Indian Institute of Science Education and Research Pune
http://dx.doi.org/10.1101/178350 2017-08-20 CC BY-NC Development and validation of an expanded carrier screen that optimizes sensitivity via full-exon sequencing and panel-wide copy-number-variant identification Gregory J. Hogan|Valentina S. Vysotskaia|Stefanie Seisenberger|Peter V. Grauman|Kyle A. Beauchamp|Kevin R. Haas|Sun Hae Hong|David Jennions|Diana Jeon|Shera Kash|Henry H. Lai|Laura M. Melroy|Mark R. Theilmann|Clement S. Chu|Saurav Guha|Kevin Iori|Jared R. Maguire|Kenny K. Wong|Eric A. Evans|Imran S. Haque|Rebecca Mar-Heyming|Hyunseok P. Kang|Dale Muzzey Counsyl, Inc.;|Freenome, Inc.
http://dx.doi.org/10.1101/178566 2017-08-20 WDR88, CCDC11, and ARPP21 genes indulge profoundly in the desmoplastic retort to prostate and breast cancer metastasis. Rajni Jaiswal|Shaurya Jauhari|S. A. M. Rizvi Sharda University;|Jamia Millia Islamia
http://dx.doi.org/10.1101/177030 2017-08-20 CC BY-ND Burden-driven feedback control of gene expression Francesca Ceroni|Simone Furini|Thomas E. Gorochowski|Alice Boo|Olivier Borkowski|Yaseen N. Ladak|Ali R. Awan|Charlie Gilbert|Guy-Bart Stan|Thomas Ellis Imperial College London;|University of Siena;|University of Bristol
http://dx.doi.org/10.1101/178533 2017-08-20 Neuroscience Intrinsic functional connectivity of the central extended amygdala Rachael M. Tillman|Melissa D. Stockbridge|Brendon M. Nacewicz|Salvatore Torrisi|Andrew S. Fox|Jason F. Smith|Alexander Joseph Shackman University of Maryland;|University of Wisconsin;|NIMH;|University of California, Davis
http://dx.doi.org/10.1101/174409 2017-08-21 Microbiology CC BY PANINI: Pangenome Neighbor Identification for Bacterial Populations Khalil Abudahab|Joaquin M. Prada|Zhirong Yang|Stephen D. Bentley|Nicholas J. Croucher|Jukka Corander|David M. Aanensen Centre for Genomic Pathogen Surveillance, Wellcome Genome Campus, Cambridgeshire, UK;|Mathematics Institute, University of Warwick, Coventry, CV4 7AL;|HIIT, University of Helsinki, Finland;|Wellcome Trust Sanger Institute;|Imperial College London;|University of Helsinki, Finland;|Centre for Genomic Pathogen Surveillance, Wellcome Genome Campus
http://dx.doi.org/10.1101/178905 2017-08-21 Molecular Biology CC BY-NC-ND Design and specificity of long ssDNA donors for CRISPR-based knock-in Han Li|Kyle A. Beckman|Veronica Pessino|Bo Huang|Jonathan S. Weissman|Manuel D. Leonetti HHMI and University of California, San Francisco;|University of California, San Francisco
http://dx.doi.org/10.1101/178897 2017-08-21 Synthetic Biology Control of lineage-specific gene expression by functionalized gRNA barcodes Aziz Al'Khafaji|Amy Brock The University of Texas at Austin
http://dx.doi.org/10.1101/178764 2017-08-21 Neuroscience CC BY-NC-ND Circuit robustness to temperature perturbation is altered by neuromodulators Sara A. Haddad|Eve Marder Brandeis University
http://dx.doi.org/10.1101/178673 2017-08-21 Microbiology Identification and kinetics characterization of a wax ester hydrolase from a feather-degrading actinomycete Matthew Barcus|Dario Mizrachi|Xin Gen Lei Cornell University;|Brigham Young University
http://dx.doi.org/10.1101/178178 2017-08-21 Microbiology CC BY-NC-ND Metagenomic sequencing to replace semi-quantitative urine culture for detection of urinary tract infections: a proof of concept Victoria A. Janes|Sebastien Matamoros|Niels Willemse|Caroline E. Visser|Bob de Wever|Marja E. Jakobs|Poorani Subramanian|Nur A. Hasan|Rita R. Colwell|Menno D. de Jong|Constance Schultsz Academic Medical Center;|CosmosID
http://dx.doi.org/10.1101/178954 2017-08-21 Animal Behavior and Cognition CC BY-NC-ND The role of stimulus similarity on the summation effect in human causal learning Omar David Perez|Rene San Martin|Fabian Aurelio Soto California Institute of Technology;|Universidad Diego Portales;|Florida International University
http://dx.doi.org/10.1101/175976 2017-08-21 Bioinformatics CC BY LOGAN: A framework for LOssless Graph-based ANalysis of high throughput sequence data Anthony M. Bolger|Alisandra K. Denton|Marie E. Bolger|Bjoern Usadel RWTH Aachen;|Forschungszentrum Juelich;|RWTH Aachen; Forschungszentrum Juelich
http://dx.doi.org/10.1101/178863 2017-08-21 Neuroscience Heterogeneity Within the Frontoparietal Control Network and its Relationship to the Default and Dorsal Attention Networks Matt L. Dixon|Alejandro de la Vega|Caitlin Mills|Jessica Andrews-Hanna|R. Nathan Spreng|Michael Cole|Kalina Christoff UBC;|University of Texas, Austin;|University of Arizona;|Montreal Neurological Institute;|Rutgers University
http://dx.doi.org/10.1101/178939 2017-08-21 Molecular Biology CC BY-NC-ND Identification of an Essential IL15-STAT1-IRX3 Prosurvival Pathway in T Lymphocytes with Therapeutic Implications Stephan Persengiev BIOCONSP
http://dx.doi.org/10.1101/159616 2017-08-21 Cancer Biology CC BY Stromal Reactivity Differentially Drives Tumor Cell Evolution and Prostate Cancer Progression Ziv Frankenstein|David Basanta|Omar E. Franco|Yan Gao|Rodrigo A. Javier|Douglas W. Strand|MinJae Lee|Simon W. Hayward|Gustavo Ayala|Alexander R. A. Anderson H. Lee Moffitt Cancer Center and Research Institute;|NorthShore University HealthSystem Research Institute;|University of Texas Health Science Center;|UT Southwestern
http://dx.doi.org/10.1101/178806 2017-08-21 Genetics CC BY-NC-ND The genetic basis of human brain structure and function: 1,262 genome-wide associations found from 3,144 GWAS of multimodal brain imaging phenotypes from 9,707 UK Biobank participants Lloyd Elliott|Kevin Sharp|Fidel Alfaro-Almagro|Gwenaelle Douaud|Karla Miller|Jonathan Marchini|Stephen Smith Department of Statistics, University of Oxford, UK;|FMRIB, Wellcome Centre for Integrative Neuroimaging, University of Oxford, Oxford, UK
http://dx.doi.org/10.1101/178749 2017-08-21 Genomics CC BY-NC CTCF mediated genome architecture regulates the dosage of mitotically stable mono-allelic expression of autosomal genes Keerthivasan Raanin Chandradoss|Kuljeet Singh Sandhu Indian Institute of Science Education and Research - Mohali
http://dx.doi.org/10.1101/178947 2017-08-21 Cell Biology CC BY Lipid perturbation compromises UPR-mediated ER homeostasis as a result of premature degradation of membrane proteins Benjamin Si Han Ng|Peter Teng Shyu|Ruijie Chaw|Yi Ling Seah|Guillaume Thibault Nanyang Technical University
http://dx.doi.org/10.1101/178996 2017-08-21 Cell Biology CC BY-NC-ND Cryo-ET reveals nucleosome reorganization in condensed mitotic chromosomes in vivo Shujun Cai|Chen Chen|Zhi Yang Tan|Jian Shi|Lu Gan National University of Singapore
http://dx.doi.org/10.1101/178970 2017-08-21 Neuroscience CC BY-NC-ND Detection of whole-field luminance changes by superficial interneurons in the zebrafish tectum Alison J. Barker|Thomas O. Helmbrecht|Aurelien A. Grob|Herwig Baier Max Planck Institute of Neurobiology
http://dx.doi.org/10.1101/178988 2017-08-21 Animal Behavior and Cognition CC BY-NC-ND Taking a semi-local dynamic snapshot as a possibility for local homing in initially naive bumblebees Anne Lobecke|Roland Kern|Martin Egelhaaf Bielefeld University
http://dx.doi.org/10.1101/176883 2017-08-21 CC BY-NC Best practices for genome-wide RNA structure analysis: combination of mutational profiles and drop-off information Eva Maria Novoa|Jean-Denis Beaudoin|Antonio J Giraldez|John S Mattick|Manolis Kellis Garvan Institute of Medical Research;|Yale University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/179051 2017-08-21 Sex-related differences in behavioral and amygdalar responses to compound facial threat cues Hee Yeon Im|Reginald B. Adams|Cody A. Cushing|Jasmine Boshyan|Noreen Ward|Kestutis Kveraga MGH; Harvard Medical School;|The Pennsylvania State University;|A. Athinoula Martinos Center for Biomedical Imaging; MGH
http://dx.doi.org/10.1101/176081 2017-08-21 CC BY-ND Multiple tasks viewed from the neural manifold: Stable control of varied behavior Juan Alvaro Gallego|Matthew G. Perich|Stephanie N. Naufel|Christian Ethier|Sara A Solla|Lee E. Miller Northwestern University;|Universite Laval
http://dx.doi.org/10.1101/179358 2017-08-21 CC BY Does no-till agriculture limit crop yields? Matteo Tanadini|Zia Mehrabi NA;|University of British Columbia
http://dx.doi.org/10.1101/179291 2017-08-21 CC BY-NC-ND Supplement comprising of laccase and citric acid as an alternative for antibiotics - in vitro triggers of melanin production Mona Chaali|Joanna Lecka|Gayatri Suresh|Mabrouka Salem|Satinder Kaur Brar|Leticia Hernandez-Galan|Jean Sevigny|Antonio Avalos-Ramirez INRS ETE;|CHUL/ULaval;|CNETE
http://dx.doi.org/10.1101/179267 2017-08-21 CC BY-ND Genetic and real-world clinical data, combined with empirical validation, nominate JAK-STAT signalling as a target for Alzheimer's Disease therapeutic development Alejo J. Nevado-Holgado|Elena Ribe|Laura Thei|Laura Furlong|Miguel Angel-Mayer|Jie Quan|Jill C. Richardson|Jonathan Cavanagh|Simon Lovestone Department of Psychiatry, University of Oxford;|GRIB, Hospital del Mar Medical Research Institute;|Computational Sciences, Worldwide Research and Development, Pfizer Inc.;|Neurosciences Therapeutic Area Unit, GlaxoSmithKline R&D Ltd.;|Institute of Health and Wellbeing, University of Glasgow;|-
http://dx.doi.org/10.1101/179069 2017-08-21 Insulin resistance in cavefish as an adaptation to a nutrient-limited environment Ariel Aspiras|Misty Riddle|Karin Gaudenz|Robert Peuss|Jenny Sung|Brian Martineau|Megan Peavey|Andrew Box|Julius A. Tabin|Suzanne McGaugh|Richard Borowsky|Clifford J. Tabin|Nicolas Rohner Department of Genetics, Harvard Medical School;|Stowers Institute for Medical Research;|College of Biomedical Sciences, University of Minnesota;|Department of Biology, New York University
http://dx.doi.org/10.1101/179200 2017-08-21 CC BY-ND Divergent genome evolution caused by regional variation in DNA gain and loss between human and mouse Reuben M. Buckley|R. Daniel Kortschak|David L. Adelson The University of Adelaide;|University of Adelaide
http://dx.doi.org/10.1101/179325 2017-08-21 PI3K regulates intraepithelial cell positioning through Rho GTP-ases in the developing neural tube. Blanca Torroba|Antonio Herrera|Anghara Menendez|Sebastian Pons Molecular Biology Institute of Barcelona CSIC
http://dx.doi.org/10.1101/179275 2017-08-21 CC BY-NC-ND Identification of copy number variations and translocations in cancer cells from Hi-C data Abhijit Chakraborty|Ferhat Ay La Jolla Institute for Allergy and Immunology
http://dx.doi.org/10.1101/179168 2017-08-21 CC BY R2DGC: Threshold-free peak alignment and identification for 2D gas chromatography mass in R Ryne C. Ramaker|Emily Gordon|Sara J. Cooper HudsonAlpha Institute for Biotechnology; University of Alabama at Birmnigham;|HudsonAlpha Institute for Biotechnology;|HudsonAlpha Institue for Biotechnology
http://dx.doi.org/10.1101/178962 2017-08-21 Multimodal Surface Matching with Higher-Order Smoothness Constraints Emma Claire Robinson|Kara Garcia|Matthew F. Glasser|Zhengdao Chen|Timothy S. Coalson|Antonios Makropoulos|Jelena Bozek|Robert Wright|Andreas Schuh|Matthew Webster|Jana Hutter|Anthony Price|Lucilio Cordero-Grande|Emer Hughes|Nora Tusor|Philip V. Bayly|David C. Van Essen|A. David Edwards|Stephen M. Smith|Joseph Hajnal|Mark Jenkinson|Ben Glocker|Daniel Rueckert King's College London;|Washington University, St. Louis;|Imperial College London;|University of Zagreb;|Oxford University
http://dx.doi.org/10.1101/179283 2017-08-21 CC BY-NC-ND Effect of ligands on stability of H-Ras GTPase Elizaveta A. Kovrigina|Casey O'Connor|Evgenii L. Kovrigin Marquette University
http://dx.doi.org/10.1101/179077 2017-08-21 CC BY-ND A minimally sufficient model for rib proximal-distal patterning based on genetic analysis and agent-based simulations Jennifer Fogel|Daniel Lakeland|In Kyoung Mah|Francesca Mariani University of Southern California;|Lakeland Applied Sciences, LLC;|Keck School of Medicine, Broad Center
http://dx.doi.org/10.1101/179093 2017-08-21 CC BY-NC Single-cell RNA-seq reveals intrinsic and extrinsic regulatory heterogeneity in yeast responding to stress Audrey P. Gasch|Feiqiao Brian Yu|James Hose|Leah E. Escalante|Mike Place|Rhonda Bacher|Jad Kanbar|Doina Ciobanu|Laura Sandor|Igor Grigoriev|Christina Kendziorski|Stephen R. Quake|Megan N. McClean University of Wisconsin-Madison;|Stanford University;|Department of Energy Joint Genome Institute;|Stanford University & Chan Zuckerberg Biohub
http://dx.doi.org/10.1101/179119 2017-08-21 CC BY-ND Limited role of differential fractionation in genome content variation and function in maize (Zea mays L.) inbred lines Alex B. Brohammer|Thomas John Y. Kono|Nathan M. Springer|Suzanne E. McGaugh|Candice N. Hirsch University of Minnesota
http://dx.doi.org/10.1101/178913 2017-08-21 CC BY-NC-ND Microtubule dynamics regulates mitochondrial fission Kritika Mehta|Manjyot Kaur Chug|Siddharth Jhunjhunwala|Vaishnavi Ananthanarayanan Centre for BioSystems Science and Engineering, Indian Institute of Science
http://dx.doi.org/10.1101/179259 2017-08-21 CC BY-NC Cancer associated fibroblasts and alectinib switch the evolutionary games that non-small cell lung cancer plays Artem Kaznatcheev|Jeffrey Peacock|David Basanta|Andriy Marusyk|Jacob G. Scott University of Oxford;|Moffitt Cancer Center;|H. Lee Moffitt Cancer Center & Research Institute;|Cleveland Clinic
http://dx.doi.org/10.1101/179242 2017-08-21 Progressive reconfiguration of resting-state brain networks as psychosis develops: Preliminary results from the North American Prodrome Longitudinal Study (NAPLS) consortium Hengyi Cao|Yoonho Chung|Sarah McEwen|Carrie Bearden|Jean Addington|Bradley Goodyear|Kristin Cadenhead|Heline Mirzakhanian|Barbara Cornblatt|Doreen Olvet|Daniel Mathalon|Thomas McGlashan|Diana Perkins|Aysenil Belger|Larry Seidman|Heidi Thermenos|Ming Tsuang|Theo van Erp|Elaine Walker|Stephan Hamann|Alan Anticevic|Scott Woods|Tyrone Cannon Yale University;|UCLA;|University of Calgary;|UCSD;|Zucker Hillside Hospital;|UCSF;|University of North Carolina;|Harvard University;|UCI;|Emory University
http://dx.doi.org/10.1101/179234 2017-08-21 CC BY-NC-ND The importance and adaptive value of life history evolution for metapopulation dynamics Dries Bonte|Quinten Bafort Ghent University
http://dx.doi.org/10.1101/179218 2017-08-21 CC BY-NC-ND Genetic fingerprinting of salmon louse (Lepeophtheirus salmonis) populations in the North-East Atlantic using a random forest classification approach Arne Jacobs|Michele De Noia|Kim Praebel|yvind Kanstad-Hanssen|Marta Paterno|Dave Jackson|Philip McGinnity|Armin Sturm|Kathryn R. Elmer|Martin S. Llewellyn University of Glasgow;|UiT The Arctic University of Norway;|Ferskvannsbiologen Ltd.;|University of Padova;|Marine Institute, Galway, Ireland;|University College Cork;|Institute of Aquaculture, University of Stirling
http://dx.doi.org/10.1101/179127 2017-08-21 A genome-scale study of metabolic complementation in endosymbiotic consortia: the case of the cedar aphid Miguel Ponce-de-Leon|Daniel Tamarit|Jorge Calle-Espinosa|Matteo Mori|Amparo Latorre|Francisco Montero|Juli Pereto Universidad Complutense de Madrid;|Uppsala University;|University of California, San Diego, La Jolla;|University of Valencia;|Institute for Integrative Systems Biology (I2SysBio), Universitat de Valencia-CSIC
http://dx.doi.org/10.1101/179085 2017-08-21 Olfactory coding in the turbulent realm Vincent Jacob|Christelle Monsempes|Jean-Pierre Rospars|Jean-Baptiste Masson|Philippe Lucas CIRAD-Universite de la Reunion;|INRA;|Institut Pasteur
http://dx.doi.org/10.1101/178921 2017-08-21 CC BY Natural variation at FLOWERING LOCUS T2 mediates local adaptation in a key life history trait in European aspen Jing Wang|Jihua Ding|Biyue Tan|Kathryn M. Robinson|Ingrid H. Michelson|Anna Johansson|Bjorn Nystedt|Douglas G. Scofield|Ove Nilsson|Stefan Jansson|Nathaniel R. Street|Par K. Ingvarsson Norwegian University of Life Science;|Umeå University;|Uppsala University;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/179150 2017-08-21 CC BY-ND Fast and Powerful Genome Wide Association Analysis of Dense Genetic Data with High Dimensional Imaging Phenotypes Habib Ganjgahi|Anderson M. Winkler|David C. Glahn|John Blangero|Brian Donohue|Peter Kochunov|Thomas E. Nichols University of Oxford;|Yale University;|University of Texas Rio Grande Valley School of Medicine;|Maryland University
http://dx.doi.org/10.1101/177691 2017-08-21 Cell Biology Transgene-free hematopoietic stem and progenitor cells from human induced pluripotent stem cells Laurence Guyonneau-Harmand|Bruno L'Homme|Brigitte Birebent|Christophe Desterke|Nathalie Chevallier|Loic Garcon|Helene Lapillonne|Marc Benderitter|Francois Delhommeau|Thierry Jaffredo|Alain Chapel|Luc Douay EFS; UMRS938;|IRSN;|EFS;|UMS-33;|UMRS938;|CNRS UMR7622
http://dx.doi.org/10.1101/179044 2017-08-21 Evolutionary Biology Maternal X chromosome upregulation in both sexes initiates dosage compensation evolution Aline Muyle|Niklaus Zemp|Cecile Fruchard|Radim Cegan|Jan Vrana|Clothilde Deschamps|Raquel Tavares|Franck Picard|Roman Hobza|Alex Widmer|Gabriel Marais LBBE;|ETH;|Academy of Sciences of the Czech Republic;|Center for Biotechnological and Agricultural Research in Hana;|PRABI
http://dx.doi.org/10.1101/176818 2017-08-21 Neuroscience CC BY-NC-ND Using Outliers in Freesurfer Segmentation Statistics to Identify Cortical Reconstruction Errors in Structural Scans Abigail Waters|Ryan Mace|Kayle Sawyer|David Gansler Suffolk University;|Boston University
http://dx.doi.org/10.1101/179473 2017-08-22 Neuroscience CC BY-NC-ND White Matter and Social Cognition Yin Wang|Athanasia Metoki|Kylie H. Alm|Ingrid R. Olson Temple University
http://dx.doi.org/10.1101/179135 2017-08-22 Scientific Communication and Education CC BY Issues in the statistical detection of data fabrication and data errors in the scientific literature: simulation study and reanalysis of Carlisle, 2017 Scott W. Piraino None
http://dx.doi.org/10.1101/179507 2017-08-22 Neuroscience CC BY-NC-ND The neural encoding of information prediction errors during non-instrumental information seeking Maja Brydevall|Daniel Bennett|Carsten Murawski|Stefan Bode The University of Melbourne;|Princeton University
http://dx.doi.org/10.1101/179382 2017-08-22 Biophysics CC BY-NC-ND Microscopic Dissipative Structuring at the Origin of Life Karo Michaelian Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/179101 2017-08-22 Bioengineering CC BY-ND Measuring Biotherapeutic Viscosity and Degradation On-Chip with Particle Diffusometry Katherine Noel Clayton|Dong Hoon Lee|Steven T. Wereley|Tamara L. Kinzer-Ursem School of Mechanical Engineering, Purdue University;|Weldon School of Biomedical Engineering, Purdue University
http://dx.doi.org/10.1101/179424 2017-08-22 Evolutionary Biology Modularity Facilitates Flexible Tuning Of Plastic And Evolutionary Gene Expression Responses During Early Divergence Hannu Makinen|Tiina Savilammi|Spiros Papakostas|Erica Leder|Asbjorn Vollestad|Craig Primmer University of Turku;|University of Oslo;|University of Helsinki
http://dx.doi.org/10.1101/179317 2017-08-22 Genetics CC BY-NC-ND Genome-wide association study of habitual physical activity in over 277,000 UK Biobank participants identifies novel variants and genetic correlations with chronotype and obesity-related traits. Yann C. Klimentidis|David A. Raichlen|Jennifer Bea|David O. Garcia|Lawrence J. Mandarino|Gene A. Alexander|Zhao Chen|Scott B. Going University of Arizona
http://dx.doi.org/10.1101/179440 2017-08-22 Biophysics IVIM parameters have good scan-rescan reproducibility when evidential motion contaminated and poorly fitted image data are removed Olivier Chevallier|Nan Zhou|Jian He|Romaric Loffroy|Yi-Xiang Wang The Chinese University of Hong Kong;|Nanjing University Medical School;|University of Bourgogne
http://dx.doi.org/10.1101/176099 2017-08-22 Microbiology CC BY-NC-ND Epstein-Barr virus nuclear antigen EBNA-LP is essential for transforming naive B cells, and facilitates recruitment of transcription factors to the viral genome. Agnieszka Szymula|Richard D. Palermo|Ian J. Groves|Mohammed Ba abdullah|Beth S. Holder|Robert E. White Imperial College London
http://dx.doi.org/10.1101/174045 2017-08-22 Ecology CC BY-NC-ND Does red eye fluorescence in marine fish stand out? In situ and in vivo measurements at two depths Ulrike Katharina Harant|Florian Wehrberger|Thomas Griessler|Melissa Grace Meadows|Connor M. Champ|Nico K. Michiels Evolutionary Ecology, Animal Evolutionary Ecology, University of Tuebingen, Germany;|none;|Saint Francis University, Department of Biology, Loretto, PA, USA
http://dx.doi.org/10.1101/179002 2017-08-22 Immunology CC BY-NC-ND Tim-3 co-stimulation promotes short-term effector T cells, restricts memory precursors and is dispensable for T cell exhaustion Lyndsay Avery|Andrea L. Szymczak-Workman|Lawrence P. Kane University of Pittsburgh
http://dx.doi.org/10.1101/179028 2017-08-22 Bioinformatics CC BY-ND Low rate of index hopping on the Illumina HiSeq X platform Tom van der Valk|Francesco Vezzi|Mattias Ormestad|Love Dalen|Katerina Guschanski Uppsala University, Animal Ecology Department;|Science for Life Laboratory, Solna, Sweden;|Department of Bioinformatics and Genetics, Swedish Museum of Natural History
http://dx.doi.org/10.1101/179309 2017-08-22 Genetics CC BY-NC-ND Generation and validation of a floxed FosB mouse line Yoshinori N. Ohnishi|Andrew L. Eagle|Yoko H. Ohnishi|Michael E. Cahill|Alexis J. Wirtz|Alfred J. Robison|Eric J. Nestler Dept. of Pharmacology, Kurume University School of Medicine, Kurume, Fukuoka, Japan;|Department of Physiology, Michigan State University, East Lansing, MI, USA;|Dept. of Neuroscience and Friedman Brain Institute, Icahn School of Medicine at Mount Sinai;|Dept. of Comparative Biosciences, University of Wisconsin at Madison, Madison, WI, USA;|Michigan State University;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/179408 2017-08-22 Animal Behavior and Cognition Development of honeybee waggle dance and its differences between recruits and scouts Hiroyuki Ai|Yuuki Kobayashi|Toshiyuki Matake|Shinya Takahashi|Koji Hashimoto|Sakashi Maeda|Naoyuki Tsuruta Dept. of Earth System Science, Fukuoka University;|Department of Electronics Engineering and Computer Science, Fukuoka University
http://dx.doi.org/10.1101/178848 2017-08-22 Genomics CC BY Co-regulation of transcription by BRG1 and BRM, two mutually exclusive SWI/SNF ATPase subunits Jesse Raab|John S. Runge|Camarie C. Spear|Terry Magnuson University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/179465 2017-08-22 Bioinformatics CC BY SeroBA: rapid high-throughput serotyping of Streptococcus pneumoniae from whole genome sequence data Lennard Epping|Martin Hunt|Andries J. van Tonder|Rebecca A. Gladstone|Stephen D. Bentley|Andrew J. Page|Jacqueline A. Keane Pathogen Informatics, Wellcome Trust Sanger Institute, Hinxton, Cambs, UK, CB10 1SA;|Nuffield Department of Medicine, University of Oxford, Oxford, UK, OX3 7BN;|Infection Genomics, Wellcome Trust Sanger Institute, Hinxton, Cambs, UK, CB10 1SA;|-
http://dx.doi.org/10.1101/179333 2017-08-22 Biophysics PDB-NMA of a Protein Homodimer Reproduces Distinct Experimental Motility Asymmetry Monique Tirion|Daniel ben-Avraham Clarkson University
http://dx.doi.org/10.1101/179416 2017-08-22 Microbiology Global transcriptome analysis of Aedes aegypti mosquitoes in response to Zika virus infection Kayvan Etebari|Shivanand Hegde|Miguel A. Saldana|Steven G. Widen|Thomas G. Wood|Sassan Asgari|Grant L. Hughes The University of Queensland;|University of Texas Medical Branch
http://dx.doi.org/10.1101/179663 2017-08-22 CC BY Tadpole-like conformations of huntingtin exon 1 with expanded polyglutamine engenders novel interactions in cells Estella A. Newcombe|Kiersten M. Ruff|Ashish Sethi|Angelique Ormsby|Yasmin M. Ramdzan|Archa Fox|Anthony W. Purcell|Paul R. Gooley|Rohit V. Pappu|Danny M. Hatters The University of Melbourne;|Washington University in St. Louis;|University of Western Australia;|Monash University;|University of Melbourne
http://dx.doi.org/10.1101/179606 2017-08-22 CC BY-NC-ND Helpers increase daily survival rate of Southern Lapwing (Vanellus chilensis) nests during the incubation stage Eduardo S. A. Santos|Regina H. Macedo Universidade de Sao Paulo;|Universidade de Brasilia
http://dx.doi.org/10.1101/179622 2017-08-22 Low-level mitochondrial heteroplasmy modulates DNA replication, glucose metabolism and lifespan in mice Misa Hirose|Paul Schilf|Yask Gupta|Kim Zarse|Axel Kuenstner|Hauke Busch|Junping Yin|Marvin N. Wright|Andreas Ziegler|Marie Vallier|Meriem Belheouane|John F. Baines|Diethard Tautz|Kornelia Johann|Rebecca Oelkrug|Jens Mittag|Hendrik Lehnert|Alaa Othman|Olaf Joehren|Markus Schwaninger|Cornelia Prehn|Jerzy Adamski|Kensuke Shima|Jan Rupp|Robert Haesler|Georg Fuellen|Ruediger Koehling|Michael Ristow|Saleh M. Ibrahim University of Luebeck;|Swiss Federal Institute of Technology (ETH) Zurich;|StaSol;|Max Planck Institute for Evolutionary Biology;|Helmholtz Center;|Christian-Albrechts-University Kiel;|Rostock University
http://dx.doi.org/10.1101/179556 2017-08-22 Brain state and polarity dependent modulation of brain networks by transcranial direct current stimulation Lucia M. Li|Ines Violante|Rob Leech|Ewan Ross|Adam Hampshire|Alexander Opitz|John Rothwell|David Carmichael|David J. Sharp C3NL, Imperial College London, UK;|Centre for Biomedical Imaging and Neuromodulation, USA;|Sobell Department of Motor Neuroscience and Movement Disorders, UCL, UK;|UCL Institute of Child Health, UK
http://dx.doi.org/10.1101/179515 2017-08-22 CC BY-NC Piggy: A Rapid, Large-Scale Pan-Genome Analysis Tool for Intergenic Regions in Bacteria Harry A. Thorpe|Sion C. Bayliss|Samuel K. Sheppard|Edward J. Feil University of Bath
http://dx.doi.org/10.1101/179176 2017-08-22 CC BY-NC-ND Spatial Genome Organization as a Framework for Somatic Alterations in Human Cancer Kadir C. Akdemir|Yilong Li|Roel G. Verhaak|Rameen Beroukhim|Peter Cambell|Lynda Chin|Andrew Futreal MD Anderson Cancer Center;|Wellcome Trust Sanger Institute;|The Jackson Laboratory for Genomic Medicine;|Dana-Farber Cancer Institute;|Institute for Health Transformation, University of Texas
http://dx.doi.org/10.1101/179671 2017-08-22 Active ribosome profiling with RiboLace Massimiliano Clamer|Toma Tebaldi|Fabio Lauria|Paola Bernabo|Rodolfo F. Gomez-Biagi|Elena Perenthaler|Daniele Gubert|Laura Pasquardini|Graziano Guella|Ewout J. N. Groen|Thomas H. Gillingwater|Alessandro Quattrone|Gabriella Viero Centre for Integrative Biology, University of Trento;|Institute of Biophysics, CNR;|Fondazione Bruno Kessler-LaBSSAH;|Department of Physics, University of Trento;|University of Edinburgh
http://dx.doi.org/10.1101/179564 2017-08-22 Role for Ribosome-Associated Complex and Stress-Seventy subfamily B (RAC-Ssb) in integral membrane protein translation Ligia Acosta-Sampson|Kristina Doring|Yuping Lin|Vivian Yu|Bernd Bukau|Gunter Kramer|Jamie Cate University of California, Berkeley;|University of Heidelberg;|Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/178418 2017-08-22 Bayesian Efficient Coding Il Memming Park|Jonathan W. Pillow Stony Brook University;|Princeton University
http://dx.doi.org/10.1101/179598 2017-08-22 Zinc detoxification: a functional genomics and transcriptomics analysis in Drosophila melanogaster cultured cells Stephanie Mohr|Kirstin Rudd|Yanhui Hu|Wei Roc Song|Quentin Gilly|Michael Buckner|Benjamin E. Housden|Colleen Kelley|Jonathan Zirin|Rong Tao|Gabriel Amador|Katarzyna Sierzputowska|Aram Comjean|Norbert Perrimon Harvard Medical School;|Living Systems Institute, University of Exeter;|Harvard Medical School; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/179523 2017-08-22 CC BY-NC Modeling of Epigenetic Modification-Induced Changes in CRX-dependent Genes cis-Regulatory Elements Reafa A. Hossain|Nicholas R. Dunham|Megan E. Harris|Taylor Lynn Hutchinson|Justin M. Kidd|Lindsay R. Kohler|Gregory J. Salamon|Alexander L. Schmidt|Madison D. Thomas|Raymond Enke|Christopher E. Berndsen James Madison University
http://dx.doi.org/10.1101/179549 2017-08-22 Nanoparticle-Guided Biomolecule Delivery for Transgene Expression and Gene Silencing in Mature Plants Gozde S. Demirer|Roger Chang|Huan Zhang|Linda Chio|Markita P. Landry University of California Berkeley
http://dx.doi.org/10.1101/179572 2017-08-22 Identification of Iridoid Synthases from Nepeta species: Iridoid cyclization does not determine nepetalactone stereochemistry Nathaniel H. Sherden|Benjamin Lichman|Lorenzo Caputi|Dongyan Zhao|Mohamed O. Kamileen|C. Robin Buell|Sarah O'Connor John Innes Centre;|Michigan State University
http://dx.doi.org/10.1101/179481 2017-08-22 CC BY Genomic and structural features of the Yellow Fever virus from the 2016-2017 Brazilian outbreak Mariela Martinez Gomez|Filipe Vieira Santos de Abreu|Alexandre Araujo Cunha dos Santos|Iasmim Silva de Mello|Marta Pereira Santos|Ieda Pereira Ribeiro|Anielly Ferreira-de-Brito|Rafaella Moraes de Miranda|Marcia Goncalves de Castro|Mario Sergio Ribeiro|Roberto da Costa Laperriere|Shirlei Ferreira Aguiar|Guilherme Louzada Silva Meira|Deborah Antunes|Pedro Henrique Monteiro Torres|Ana Carolina Paulo Vicente|Ana Carolina Ramos Guimaraes|Ernesto Raul Caffarena|Gonzalo Bello|Ricardo Lourenco-de-Oliveira|Myrna Cristina Bonaldo Instituto Oswaldo Cruz, Rio de Janeiro;|Instituto Oswaldo Cruz;|Secretaria Estadual de Saúde do Rio de Janeiro;|Secretaria Estadual de Saúde do Espírito Santo;|Fundação Oswaldo Cruz, Rio de Janeiro
http://dx.doi.org/10.1101/179960 2017-08-23 Bioinformatics CC BY Skip-mers: increasing entropy and sensitivity to detect conserved genic regions with simple cyclic q-grams Bernardo J. Clavijo|Gonzalo Garcia Accinelli|Luis Yanes|Katie Barr|Jonathan Wright Earlham Institute
http://dx.doi.org/10.1101/179762 2017-08-23 Genetics CC BY Medical relevance of protein-truncating variants across 337,208 individuals in the UK Biobank study Christopher DeBoever|Yosuke Tanigawa|Greg McInnes|Adam Lavertu|Chris Chang|Carlos D. Bustamante|Mark J. Daly|Manuel A. Rivas Stanford University;|Grail, Inc.;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/179721 2017-08-23 Microbiology CC BY-NC-ND Comparison of algorithms for the detection of enteroviruses in stool specimens from children diagnosed with Acute Flaccid Paralysis Johnson A. Adeniji|Florence A. Ayeni|Abdulfatah Ibrahim|Kazeem A. Tijani|Temitope O. C. Faleye|Moses O. Adewumi University of Ibadan, Nigeria;|University of Abuja, Nigeria;|Ekiti State University, Nigeria
http://dx.doi.org/10.1101/179978 2017-08-23 Genetics CC BY-NC-ND Developmental changes within the genetic architecture of social communication behaviour: A multivariate study of genetic variance in unrelated individuals Beate St. Pourcain|Lindon J. Eaves|Susan M. Ring|Simon E. Fisher|Sarah Medland|David M. Evans|George Davey Smith Max Planck Institute for Psycholinguistics;|Institute for Psychiatric & Behavioral Genetics, Commonwealth University School of Medicine;|MRC Integrative Epidemiology Unit, University of Bristol;|QIMR Berghofer Medical Research Institute;|University of Queensland Diamantina Institute, Translational Research Institute
http://dx.doi.org/10.1101/179432 2017-08-23 Genetics Higher genetic risk for schizophrenia is associated with living in urban and populated areas Lucia Colodro-Conde|Baptiste Couvy-Duchesne|John B. Whitfield|Fabian Streit|Scott Gordon|Marcella Rietschel|John McGrath|Sarah E. Medland|Nicholas G. Martin QIMR Berghofer Medical Research Institute, Brisbane, Australia;|Medical Faculty Mannheim, Central Institute of Mental Health, Univ. of Heidelberg, Mannheim;|Queensland Brain Institute, the University of Queensland, Brisbane, Australia
http://dx.doi.org/10.1101/179697 2017-08-23 Genomics CC BY-NC-ND Draft Genome Sequence of Modestobacter sp. strain VKM Ac-2676 from soil in the area of sharply continental climate Oleg V. Vasilenko|Sergey V. Tarlachkov|Irina P. Starodumova|Elena V. Ariskina|Kseniya I. Ariskina|Alexander N. Avtukh|Lyudmila V. Lysak|Miroslav V. Telkov|Lyudmila I. Evtushenko G.K. Skryabin Institute of Biochemistry and Physiology of Microorganisms, Pushchino, Russia;|Lomonosov Moscow State University, Faculty of Soil Sciences, Dept. of Soil Biology, Moscow;|N.F. Gamaleya Institute for Epidemiology and Microbiology, Moscow, Russia
http://dx.doi.org/10.1101/179945 2017-08-23 Synthetic Biology CC BY-NC-ND Computational Re-Design of Synthetic Genetic Oscillators for Independent Amplitude and Frequency Modulation Marios Tomazou|Mauricio Barahona|Karen M. Polizzi|Guy-Bart V. Stan Imperial College London
http://dx.doi.org/10.1101/179713 2017-08-23 Genomics Accurate detection of low-level somatic mutations with technical replication for next-generation sequencing Junho Kim|Dachan Kim|Jae Seok Lim|Ju Heon Maeng|Hyeonju Son|Hoon-Chul Kang|Hojung Nam|Jeong Ho Lee|Sangwoo Kim Yonsei University College of Medicine;|KAIST;|Gwangju Institute of Science and Technology
http://dx.doi.org/10.1101/179143 2017-08-23 Neuroscience CC BY-NC-ND Neural dynamics of variable grasp movement preparation in the macaque fronto-parietal network Jonathan A. Michaels|Benjamin Dann|Rijk W. Intveld|Hansjorg Scherberger German Primate Center; Stanford University, Howard Hughes Medical Institute;|German Primate Center;|German Primate Center, University of Göttingen
http://dx.doi.org/10.1101/179853 2017-08-23 Systems Biology CC BY A Mathematical model to predict Trichodesmiun spp. bloom during a sewage burst Guido Santos Universidad de La Laguna
http://dx.doi.org/10.1101/179747 2017-08-23 Biophysics Ultra-fast super-resolution imaging of biomolecular mobility in tissues Helen Miller|Jason Cosgrove|Adam J. M. Wollman|Peter J. O'Toole|Mark Coles|Mark C. Leake University of Oxford;|University of York
http://dx.doi.org/10.1101/179911 2017-08-23 Zoology CC BY-NC-ND Neotrygon indica sp. nov., the Indian-Ocean blue-spotted maskray (Myliobatoidei, Dasyatidae) Annam Pavan-Kumar|Rajan Kumar|Philippe Borsa ICAR-Central Institute of Fisheries Education, Mumbai;|ICAR-Central Marine Fisheries Research Institute, Tuticorin;|Institut de recherche pour le developpement
http://dx.doi.org/10.1101/178145 2017-08-23 Neuroscience Medial prefrontal cortex compresses concept representations through learning Michael L. Mack|Alison R. Preston|Bradley C. Love University of Toronto;|The University of Texas at Austin;|University College London
http://dx.doi.org/10.1101/179846 2017-08-23 Physiology CC BY-NC-ND Mortality Data Suggests that Men Are More Fragile but Women Age Faster Peter Lenart|Daniela Kuruczova|Julie Bienertova Vasku Masaryk University
http://dx.doi.org/10.1101/179788 2017-08-23 Cell Biology A role for the Smc3 hinge domain in the maintenance of sister chromatid cohesion Brett Robison|Vincent Guacci|Douglas Koshland UC Berkeley
http://dx.doi.org/10.1101/179531 2017-08-23 Bioinformatics CC BY Chiron: Translating nanopore raw signal directly into nucleotide sequence using deep learning Haotien Teng|Michael B. Hall|Tania Duarte|Minh Duc Cao|Lachlan Coin Institute for Molecular Bioscience, University of Queensland;|Institute for Molecular Bioscience, The University of Queensland
http://dx.doi.org/10.1101/179879 2017-08-23 Neuroscience CC BY-ND Demarcating the anatomical structure of the claustrum: piecing together a new functional puddle Christopher M Dillingham|Bethany E Frost|Maciej M Jankowski|Marie AC Lambert|Shane M O'Mara Trinity College Dublin;|Hebrew University of Jerusalem;|Universite de Poitiers
http://dx.doi.org/10.1101/179184 2017-08-23 Neuroscience CC BY-NC-ND Population coding of grasp and laterality-related information in the macaque fronto-parietal network Jonathan A. Michaels|Hansjorg Scherberger German Primate Center; Stanford University, Howard Hughes Medical Institute;|German Primate Center, University of Göttingen
http://dx.doi.org/10.1101/179861 2017-08-23 Animal Behavior and Cognition CC BY-NC-ND Odor source localization in complex visual environments by fruit flies Nitesh Saxena|Dinesh Natesan|Sanjay P. Sane National Centre for Biological Sciences, Tata Intitute of Fundamental Research
http://dx.doi.org/10.1101/179770 2017-08-23 Bioinformatics A risk stratification model for lung cancer based on gene coexpression network Hongyoon Choi|Kwon Joong Na Cheonan Public Health Center;|Korea Health Promotion Institution
http://dx.doi.org/10.1101/179812 2017-08-23 Physiology CC BY Non-contact measurement of emotional and physiological changes in heart rate from a webcam Christopher R. Madan|Tyler Harrison|Kyle E. Mathewson Boston College;|University of Alberta
http://dx.doi.org/10.1101/179804 2017-08-23 Genetics CC BY-NC Nonivasive prenatal diagnosis of single-gene disorders using droplet digital PCR Joan Camunas-Soler|Hojae Lee|Louanne Hudgins|Susan R Hintz|Yair J Blumenfeld|Yasser Y El-Sayed|Stephen R Quake Stanford University
http://dx.doi.org/10.1101/179838 2017-08-23 Neuroscience CC BY Physiological Gaussian Process Priors for the Hemodynamics in fMRI Analysis Josef Wilzen|Anders Eklund|Mattias Villani Linkoping University
http://dx.doi.org/10.1101/179739 2017-08-23 Neuroscience CC BY-NC-ND Addiction in a Bounded Rational Model: Role of Environment and its Exploration Dimitri Ognibene|Vincenzo Guido Fiore|Xiaosi Gu Universitat Pompeu Fabra;|Center for BrainHealth, University of Texas at Dallas, Dallas, TX, USA
http://dx.doi.org/10.1101/179648 2017-08-23 Genomics CC BY-NC-ND A Large-Scale Binding and Functional Map of Human RNA Binding Proteins Eric L Van Nostrand|Peter Freese|Gabriel A Pratt|Xiaofeng Wang|Xintao Wei|Steven M Blue|Daniel Dominguez|Neal A L Cody|Sara Olson|Balaji Sundararaman|Rui Xiao|Lijun Zhan|Cassandra Bazile|Louis Philip Benoit Bouvrette|Jiayu Chen|Michael O Duff|Keri Garcia|Chelsea Gelboin-Burkhart|Abigail Hochman|Nicole J Lambert|Hairi Li|Thai B Nguyen|Tsultrim Palden|Ines Rabano|Shashank Sathe|Rebecca Stanton|Ashley L Louie|Stefan Aigner|Julie Bergalet|Bing Zhou|Amanda Su|Ruth Wang|Brian A Yee|Xiang-Dong Fu|Eric Lecuyer|Christopher B Burge|Brenton Graveley|Gene W Yeo UCSD;|MIT;|IRCM;|UCHC;|UConn Health
http://dx.doi.org/10.1101/179580 2017-08-23 Epidemiology CC BY Meta-analysis and Commentary: Preemptive Correction of Arteriovenous Access Stenosis Jochen G. Raimann|Levi D. Waldron|Elsie Koh|Gregg A. Miller|Murat H. Sor|Richard J. Gray|Peter Kotanko Renal Research Institute;|CUNY School of Public Health;|Azura Vascular Care
http://dx.doi.org/10.1101/179341 2017-08-23 Epidemiology CC BY-NC-ND Recurring infection with ecologically distinct human papillomavirus (HPV) types explains high prevalence and diversity Sylvia Ranjeva|Edward B. Baskerville|Vanja Dukic|Luisa Villa|Eduardo Lazcano-Ponce|Anna R. Giuliano|Greg Dwyer|Sarah Cobey University of Chicago;|University of Colorado, Boulder;|Universidade de Sao Paulo, Sao Paulo, Brazil;|Instituto Nacional de Salud Publica, Cuernavaca, Mexico;|H. Lee Moffitt Cancer Center
http://dx.doi.org/10.1101/180018 2017-08-23 CC BY-NC-ND Preventing photomorbidity in long-term multi-color fluorescence imaging of S. cerevisiae and S. pombe Gregor W. Schmidt|Andreas P. Cuny|Rudolf Fabian ETH Zurich
http://dx.doi.org/10.1101/180208 2017-08-23 CC BY-NC-ND Metabolic Model-Based Analysis of the Emergence of Bacterial Cross-Feeding through Extensive Gene Loss Colin P. McNally|Elhanan Borenstein University of Washington
http://dx.doi.org/10.1101/180133 2017-08-23 Activating the regenerative potential of Müller glia cells in a regeneration-deficient retina Katharina Lust|Joachim Wittbrodt Centre for Organismal Studies Heidelberg;|Heidelberg University
http://dx.doi.org/10.1101/180158 2017-08-23 CC BY-NC-ND Differential gene expression in chicken primary B cells infected ex vivo with attenuated and very virulent strains of infectious bursal disease virus (IBDV) Katherine L. Dulwich|Efstathios S. Giotis|Alice Gray|Venugopal Nair|Michael A. Skinner|Andrew J. Broadbent The Pirbright Institute;|Imperial College London
http://dx.doi.org/10.1101/180026 2017-08-23 CC BY-NC-ND The use of hyperimmune chicken reference sera is not appropriate for the validation of influenza pseudotype neutralization assays Francesca Ferrara|Eleonora Molesti|Simon Scott|Giovanni Cattoli|Nigel James Temperton University of Kent;|International Atomic Energy Agency
http://dx.doi.org/10.1101/180059 2017-08-23 NINJA-Associated ERF19 Negatively Regulates Arabidopsis Pattern-Triggered Immunity Pin-Yao Huang|Jingsong Zhang|Beier Jiang|Jhong-He Yu|Yu-Ping Lu|KwiMi Chung|Laurent Zimmerli National Taiwan University;|National Institute of Advanced Industrial Science and Technology, Tsukuba
http://dx.doi.org/10.1101/180109 2017-08-23 Genomics CC BY-NC-ND CardioClassifier: demonstrating the power of disease- and gene-specific computational decision support for clinical genome interpretation Nicola Whiffin|Roddy Walsh|Risha Govind|Matthew Edwards|Mian Ahmad|Xiaolei Zhang|Upasana Tayal|Rachel Buchan|William Midwinter|Alicja Wilk|Hanna Najgebauer|Catherine Francis|Sam Wilkinson|Thomas Monk|Laura Brett|Sanjay K Prasad|Deborah J Morris-Rosendahl|Paul JR Barton|Elizabeth Edwards|James S Ware|Stuart A Cook Imperial College London;|Royal Brompton Hospital
http://dx.doi.org/10.1101/178855 2017-08-23 Molecular Biology Structural basis for terminal loop recognition and processing of pri-miRNA-18a by hnRNP A1 Hamed Kooshapur|Nila Roy Choudhury|Bernd Simon|Max Muehlbauer|Alexander Jussupow|Noemi Fernandez|Andre Dallmann|Frank Gabel|Carlo Camilloni|Gracjan Michlewski|Javier Caceres|Michael Sattler Technical University of Munich;|University of Edinburgh;|EMBL Heidelberg;|Institute Laue-Langevin;|Helmholtz Center Munich
http://dx.doi.org/10.1101/179895 2017-08-24 Evolutionary Biology CC BY Coexistence of multiple endemic and pandemic lineages of the rice blast pathogen Pierre Gladieux|Sebastien Ravel|Adrien Rieux|Sandrine Cros-Arteil|Henri Adreit|Joelle Milazzo|Maud Thierry|Elisabeth Fournier|Ryohei Terauchi|Didier Tharreau Institut National de la Recherche Agronomique;|CIRAD;|INRA;|Iwate Biotechnology Research Center
http://dx.doi.org/10.1101/180380 2017-08-24 Plant Biology CC BY-NC A plant receptor-like kinase promotes cell-to-cell spread of RNAi and is targeted by a virus Tabata Rosas-Diaz|Dan Zhang|Pengfei Fan|Liping Wang|Xue Ding|Yuli Jiang|Tamara Jimenez-Gongora|Laura Medina-Puche|Xinyan Zhao|Zhengyan Feng|Guiping Zhang|Xiaokun Liu|Eduardo R. Bejarano|Li Tan|Jian-Kang Zhu|Weiman Xing|Christine Faulkner|Shingo Nagawa|Rosa Lozano-Duran Shanghai Center for Plant Stress Biology;|John Innes Centre;|University of Malaga
http://dx.doi.org/10.1101/180372 2017-08-24 Neuroscience CC BY Post-transcriptional remodelling is temporally deregulated during motor neurogenesis in human ALS models Raphaelle Luisier|Giulia E. Tyzack|Claire E. Hall|Jernej Ule|Nicholas M. Luscombe|Rickie Patani Francis Crick Institute;|UCL Institute of Neurology
http://dx.doi.org/10.1101/180406 2017-08-24 Genomics CC BY-NC-ND Rapid MinION metagenomic profiling of the preterm infant gut microbiota to aid in pathogen diagnostics Richard M. Leggett|Cristina Alcon-Giner|Darren Heavens|Shabhonam Caim|Thomas C. Brook|Magdalena Kujawska|Lesley Hoyles|Paul Clarke|Lindsay Hall|Matthew D. Clark Earlham Institute, Norwich Research Park, Norwich, UK;|Quadram Institute Bioscience, Norwich Research Park, Norwich, UK;|University of Westminster, London, UK;|Imperial College London, London, UK;|Norfolk and Norwich University Hospital, Norwich, UK
http://dx.doi.org/10.1101/180141 2017-08-24 Cell Biology CC BY-NC-ND Genetically Targeted Ratiometric and Activated pH Indicator Complexes (TRApHIC) for Receptor Trafficking Lydia A. Perkins|Qi Yan|Brigitte F. Schmidt|Dmytro Kolodiezyni|Saumya Saurabh|Mads Breum Larsen|Simon C. Watkins|Laura Kremer|Marcel P. Bruchez Carnegie Mellon University;|Sharp Edge Labs;|Stanford University;|University of Pittsbrugh;|University of Pittsburgh;|Helmholtz Zentrum Munchen
http://dx.doi.org/10.1101/180331 2017-08-24 Evolutionary Biology CC BY Beyond thermodynamic constraints: Evolutionary history shapes protein sequence variation Qian Jiang|Ashley Teufel|Eleisha L. Jackson|Claus O. Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/180125 2017-08-24 Neuroscience A unifying motif for spatial and directional surround suppression Liu D. Liu|Kenneth D. Miller|Christopher C. Pack McGill University;|Columbia University
http://dx.doi.org/10.1101/180265 2017-08-24 Microbiology CC BY Prey range and genome evolution of Halobacteriovorax marinus predatory bacteria from an estuary Brett G. Enos|Molly K. Anthony|Joseph A. DeGiorgis|Laura E. Williams Providence College
http://dx.doi.org/10.1101/179903 2017-08-24 Microbiology CC BY-NC-ND Sugar metabolism of the first thermophilic Planctomycetes Thermogutta terrifontis: comparative genomic and transcriptomic approache Alexander Elcheninov|Peter Menzel|Soley Gudbergsdottir|Alexey Slesarev|Vitaliy Kadnikov|Anders Krogh|Elizaveta Bonch-Osmolovskaya|Xu Peng|Ilya Kublanov Research Center of Biotechnology RAS;|University of Copenhagen;|Fidelity Systems, Inc.
http://dx.doi.org/10.1101/180240 2017-08-24 Neuroscience CC BY Signal complexity of human intracranial EEG tracks successful associative memory formation across individuals Timothy C. Sheehan|Vishnu Sreekumar|Sara K. Inati|Kareem A. Zaghloul Surgical Neurology Branch, NINDS, National Institutes of Health, Bethesda, MD 20892;|Office of the Clinical Director, NINDS, National Institutes of Health, Bethesda, MD 20892
http://dx.doi.org/10.1101/179986 2017-08-24 Developmental Biology CC BY-NC-ND Cellular, ultrastructural and molecular analyses of epidermal cell development in the planarian Schmidtea mediterranea Li-Chun Cheng|Kimberly C. Tu|Chris W. Seidel|Sofia M. C. Robb|Fengli Guo|Alejandro Sanchez Alvarado Stowers Institute for Medical Research
http://dx.doi.org/10.1101/180315 2017-08-24 Biochemistry CC BY-NC-ND Structural analyses reveal that the ATG2A-WIPI4 complex functions as a membrane tether for autophagosome biogenesis Saikat Chowdhury|Chinatsu Otomo|Alexander Leitner|Kazuto Ohashi|Ruedi Aebersold|Gabriel C. Lander|Takanori Otomo The Scripps Research Institute;|ETH Zurich
http://dx.doi.org/10.1101/179705 2017-08-24 Genomics Pan-cancer analysis of whole genomes reveals driver rearrangements promoted by LINE-1 retrotransposition in human tumours Bernardo Rodriguez-Martin|Eva G. Alvarez|Adrian Baez-Ortega|Jonas Demeulemeester|Young Seok Ju|Jorge Zamora|Harald Detering|Yilong Li|Gianmarco Contino|Stefan C. Dentro|Alicia L. Bruzos|Ana Dueso-Barroso|Daniel Ardeljan|Marta Tojo|Nicola D. Roberts|Miguel G. Blanco|Paul A. W. Edwards|Joachim Weischenfeldt|Martin Santamarina|Montserrat Puiggros|Zechen Chong|Ken Chen|Eunjung Alice Lee|Jeremiah A. Wala|Keiran Raine|Adam Butler|Sebastian M. Waszak|Fabio C. P. Navarro|Steven E. Schumacher|Jean Monlong|Francesco Maura|Niccolo Bolli|Guillaume Bourque|Mark Gerstein|Peter J. Park|Rameen Berroukhim|David Torrents|Jan O. Korbel|Inigo Martincorena|Rebecca C. Fitzgerald|Peter Van Loo|Haig H. Kazazian|Kathleen H. Burns|Peter J. Campbell|Jose M. C. Tubio University of Vigo;|University of Cambridge;|The Francis Crick Institute;|Korea Advanced Institute of Science and Technology;|Wellcome Trust Sanger Institute;|Barcelona Supercomputing Center;|Johns Hopkins University School of Medicine;|University of Santiago de Compostela;|European Molecular Biology Laboratory;|The University of Texas MD Anderson Cancer Center;|Harvard Medical School;|The Broad Institute of Harvard and MIT;|Yale University;|McGill University;|University of Milan;|-
http://dx.doi.org/10.1101/180281 2017-08-24 Neuroscience What if you are not certain? A common computation underlying action selection, reaction time and confidence judgment Vassilios Christopoulos|Vincent Enachescu|Paul Schrater|Stefan Schaal California Institute of Technology;|University of Southern California;|University of Minnesota
http://dx.doi.org/10.1101/180190 2017-08-24 Evolutionary Biology CC BY-NC-ND Unique genetic variants underlie parallel gene expression within a young adaptive radiation despite specialization on highly divergent resources Joseph Alan McGirr|Christopher Herbert Martin University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/180182 2017-08-24 Evolutionary Biology CC BY-ND Theoretical foundation of the RelTime method for estimating divergence times from variable evolutionary rates Koichiro Tamura|Qiqing Tao|Sudhir Kumar Tokyo Metropolitan University, Japan;|Temple University
http://dx.doi.org/10.1101/180000 2017-08-24 Evolutionary Biology Effects of partial selfing on the equilibrium genetic variance, mutation load and inbreeding depression under stabilizing selection Diala Abu Awad|Denis Roze INRA;|CNRS
http://dx.doi.org/10.1101/180117 2017-08-24 Scientific Communication and Education P-values and confidence intervals: not fit for purpose? Paul Pharoah|Michelle R. Jones|Siddhartha Kar University of Cambridge;|Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/180166 2017-08-24 Neuroscience Alpha activity in the ventral and dorsal visual stream controls information flow during working memory Marcin Leszczynski|Juergen Fell|Ole Jensen|Nikolai Axmacher Columbia University;|University of Bonn;|University of Birmingham;|Ruhr University Bochum
http://dx.doi.org/10.1101/180091 2017-08-24 Neuroscience Computer Simulations Predict High Structural Heterogeneity of Functional State of NMDA Receptors Anton V Sinitskiy|Vijay S Pande Stanford University
http://dx.doi.org/10.1101/180067 2017-08-24 Genomics CC BY-NC-ND Universal target-enrichment baits for anthozoan (Cnidaria) phylogenomics: New approaches to long-standing problems Andrea Quattrini|Brant Faircloth|Luisa Duenas|Tom Bridge|Mercer Brugler|Ivan Calixto-Botia|Danielle DeLeo|Sylvain Foret|Santiago Herrera|Simon Lee|David Miller|Carlos Prada|Gandhi Radis-Baptista|Catalina Ramirez-Portilla|Juan Sanchez|Estefania Rodriguez|Catherine McFadden Harvey Mudd College;|LSU;|Universidad de los Andes;|ARC Centre of Excellence for Coral Reef Studies;|NYC College of Technology;|Florida International University;|Australian National University;|Lehigh University;|University of Macau;|University of Rhode Island;|Federal University of Ceara;|AMNH
http://dx.doi.org/10.1101/180075 2017-08-24 Evolutionary Biology Evolutionary genetics of cytoplasmic incompatibility genes cifA and cifB in prophage WO of Wolbachia Amelia R I Lindsey|Danny W Rice|Sarah R Bordenstein|Andrew W Brooks|Seth R Bordenstein|Irene L G Newton Indiana University;|Vanderbilt University
http://dx.doi.org/10.1101/179655 2017-08-24 Neuroscience CC BY-NC-ND Differential spatiotemporal representations along the hippocampal long axis in humans Iva K. Brunec|Buddhika Bellana|Jason D. Ozubko|Vincent Man|Jessica Robin|Zhong-Xu Liu|Cheryl Grady|R. Shayna Rosenbaum|Gordon Winocur|Morgan D. Barense|Morris Moscovitch University of Toronto;|SUNY Geneseo;|Rotman Research Institute, Baycrest;|York University
http://dx.doi.org/10.1101/180042 2017-08-24 Cancer Biology CC BY-NC Novel Magnetic Resonance Imaging strategy targeting Neurotensin Receptors in detection of Prostate Cancer Mitul M Desai|Jean King|Neville Tam|Robert Carraway|Shuk-Mei Ho|Craig Ferris University of Massachusetts Medical School
http://dx.doi.org/10.1101/180414 2017-08-24 DNA sequence encodes the position of DNA supercoils Sung Hyun Kim|Mahipal Ganji|Jaco van der Torre|Elio Abbondanzieri|Cees Dekker Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology
http://dx.doi.org/10.1101/180455 2017-08-24 Neuroscience CC BY-NC-ND Propagation of Beta/Gamma Rhythms in the Cortico-Basal Ganglia Circuits of the Parkinsonian Rat Timothy O. West|Luc Berthouze|Simon F. Farmer|David Halliday|Vladimir Litvak|Peter J. Magill|Andrew Sharott University College London;|University of Sussex;|University of York;|University of Oxford
http://dx.doi.org/10.1101/180323 2017-08-24 Molecular Biology CC BY-NC-ND Efficient in situ barcode sequencing using padlock probe-based BaristaSeq Xiaoyin Chen|Yu-Chi Sun|George M. Church|Je Hyuk Lee|Anthony M. Zador Cold Spring Harbor Laboratory;|Wyss Institute, Harvard Medical School
http://dx.doi.org/10.1101/180653 2017-08-25 Developmental Biology CC BY A transgenic zebrafish model for the in vivo study of the blood and choroid plexus brain barriers using claudin 5 Lisanne van Leeuwen|Robert Evans|Kin Ki Jim|Theo Verboom|Xiaoming Fang|Aleksandra Bojarczuk|Jarema Malicki|Simon Johnston|Astrid van der Sar VU Medical Center;|University of Sheffield
http://dx.doi.org/10.1101/180729 2017-08-25 Biochemistry Asymmetric MukB ATPases are regulated independently by the N- and C-terminal domains of MukF kleisin Katarzyna Zawadzka|Pawel Zawadzki|Rachel Baker|Karthik Rajasekar|David J. Sherratt|Lidia Arciszewska University of Oxford
http://dx.doi.org/10.1101/180638 2017-08-25 Zoology Changes in free amino acid concentrations and associated gene expression profiles in the abdominal muscle of kuruma shrimp Marsupenaeus japonicus reared at different salinity Hiroki Koyama|Nanami Mizusawa|Masataka Hoashi|Enkong Tan|Ko Yasumoto|Mitsuru Jimbo|Daisuke Ikeda|Takehiko Yokoyama|Shuichi Asakawa|Sanit Piyapattanakorn|Shugo Watabe Graduate School of Biosphere Science, Hiroshima University;|Kitasato University School of Marine Biosciences;|Graduate School of Agricultural and Life Sciences, The University of Tokyo;|Department of Marine Science, Faculty of Science, Chulalongkorn University
http://dx.doi.org/10.1101/180687 2017-08-25 Bioinformatics CC BY-NC-ND Determining the optimal number of independent components for reproducible transcriptomic data analysis Ulykbek Kairov|Laura Cantini|Alessandro Greco|Askhat Molkenov|Urszula Czerwinska|Emmanuel Barillot|Andrei Zinovyev Laboratory of Bioinformatics & Computational Systems Biology, Nazarbayev University;|Institut Curie, INSERM U900, PSL Research University, Mines ParisTech, Paris, France
http://dx.doi.org/10.1101/180554 2017-08-25 Neuroscience CC BY-NC-ND The influence of startReact on long-latency reflexive muscle activation during the transition from posture to movement Claire F. Honeycutt|Vengateswaran J. Ravichandran|Eric J. Perreault Arizona State University;|Northwestern University
http://dx.doi.org/10.1101/180513 2017-08-25 Neuroscience CC BY Ventral hippocampal CA1 and CA3 differentially mediate learned approach-avoidance conflict processing Anett Schumacher|Franz Villaruel|Sadia Riaz|Andy C. H. Lee|Rutsuko Ito University of Toronto
http://dx.doi.org/10.1101/180711 2017-08-25 Neuroscience The psychological arrow of time and the human brain dynamics of event ordering Baptiste Gauthier|Karin Pestke|Virginie van Wassenhove Ecole Polytechnique Federale de Lausanne (EPFL);|CEA, DRF/I2BM, NeuroSpin
http://dx.doi.org/10.1101/180489 2017-08-25 Immunology CC BY-ND The 10,000 Immunomes Project: A resource for human immunology Kelly A. Zalocusky|Matthew J. Kan|Zicheng Hu|Patrick Dunn|Elizabeth Thomson|Jeffrey Wiser|Sanchita Bhattacharya|Atul J. Butte Institute for Computational Health Sciences, University of California, San Francisco;|Information Systems Health IT, Northrop Grumman, Rockville, MD, 20850
http://dx.doi.org/10.1101/180737 2017-08-25 Developmental Biology Somatic developmental defects in dmrad51/spnA mutant show low temperature sensitivity with enhanced genomic damages and cell death Chaitali Khan|Sonia Muliyil|Champakali Ayyub|Basuthkar J. Rao TIFR;|Sir William Dunn School of Pathology, University of Oxford
http://dx.doi.org/10.1101/160804 2017-08-25 Genomics CC BY A practical solution for preserving single cells for RNA sequencing Moustafa Attar|Eshita Sharma|Shuqiang Li|Claire Bryer|Laura Cubitt|John Broxholme|Helen Lockstone|James Kinchen|Alison Simmons|Paolo Piazza|David Buck|Kenneth J. Livak|Rory Bowden Wellcome Trust Centre for Human Genetics, University of Oxford;|Broad Institute of MIT and Harvard;|MRC Human Immunology Unit, Weatherall Inst. of Molecular Medicine, University of Oxford;|Fluidigm Corporation
http://dx.doi.org/10.1101/180471 2017-08-25 Neuroscience CC BY-NC-ND A neural algorithm for a fundamental computing problem Sanjoy Dasgupta|Charles F Stevens|Saket Navlakha University of California, San Diego;|The Salk Institute for Biological Studies
http://dx.doi.org/10.1101/180547 2017-08-25 Plant Biology CC BY-NC-ND Synthesis, secretion, and perception of abscisic acid regulates stress responses in Chlorella sorokiniana Maya Khasin|Rebecca E. Cahoon|Sophie Alvarez|Richard G. Beckeris|Seong-il Eyun|Qidong Jia|Jean-Jack Riethoven|Kenneth W. Nickerson|Wayne R. Riekhof University of Nebraska - Lincoln
http://dx.doi.org/10.1101/179226 2017-08-25 Genomics De novo assembly and phasing of dikaryotic genomes from two isolates of Puccinia coronata f. sp. avenae, the causal agent of oat crown rust Marisa Elena Miller|Ying Zhang|Vahid Omidvar|Jana Sperschneider|Benjamin Schwessinger|Castle Raley|Jonathan M. Palmer|Diana Garnica|Narayana Upadhyaya|John Rathjen|Jennifer M. Taylor|Robert F. Park|Peter N. Dodds|Cory D. Hirsch|Shahryar F. Kianian|Melania Figueroa University of Minnesota;|CSIRO, Agriculture and Food;|Australian National University;|Leidos Biomedical Research;|USDA Forest Service;|The University of Sydney;|USDA-ARS
http://dx.doi.org/10.1101/180760 2017-08-25 Cell Biology The PtdIns3P-binding protein Phafin2 escorts macropinosomes through the cortical actin cytoskeleton Kay Oliver Schink|Kia Wee Tan|Helene Spangenberg|Domenica Martorana|Marte Sneeggen|Coen Campsteijn|Camilla Raiborg|Harald Stenmark Institute for Cancer Research, The Norwegian Radium Hospital;|Department of Molecular Microbiology and Genetics, Georg-August-University Goettingen;|Department of Molecular Medicine, Institute of Basic Medical Sciences, University of Oslo
http://dx.doi.org/10.1101/180596 2017-08-25 Neuroscience CC BY-NC-ND Quasi-Periodic Patterns of Intrinsic Brain Activity in Individuals and their Relationship to Global Signal Behnaz Yousefi|Jaemin Shin|Eric H. Schumacher|Shella D. Keilholz Emory University/Georgia Institute of Technology;|Center for Advanced Brain Imaging, Georgia Institute of Technology;|School of Psychology, Georgia Institute of Technology
http://dx.doi.org/10.1101/178293 2017-08-25 Plant Biology The impact of dew-induced transpiration suppression on the water and isotope balances of Colocasia esculenta leaves Cynthia Gerlein-Safdi|Paul P.G. Gauthier|Kelly K. Caylor Princeton University;|UCSB
http://dx.doi.org/10.1101/180463 2017-08-25 Bioinformatics CC BY-NC-ND Notos - a Galaxy tool to analyze CpN observed expected ratios for inferring DNA methylation types Ingo Bulla|Benoit Aliaga|Virginia Lacal|Jan Bulla|Christoph Grunau|Cristian Chaparro Universität Greifswald, Los Alamos National Laboratory;|L'Université de Perpignan Via Domitia;|University of Bergen
http://dx.doi.org/10.1101/180430 2017-08-25 Bioinformatics CC BY-NC An ensemble learning approach to auto-annotation for whole-brain C. elegans imaging Stephen Wu|Yu Toyoshima|Moon Sun Jang|Manami Kanamori|Takayuki Teramoto|Yuishi Iwasaki|Takeshi Ishihara|Yuichi Iino|Ryo Yoshida The Institute of Statistical Mathematics;|University of Tokyo;|Kyushu University;|Ibaraki University
http://dx.doi.org/10.1101/175729 2017-08-25 Bioinformatics CC BY-NC-ND GPU-accelerated alignment of bisulfite-treated short-read sequences Richard Wilton|Xin Li|Andrew P. Feinberg|Alexander S. Szalay Johns Hopkins University;|Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/166546 2017-08-25 Neuroscience Macrophage-to-sensory neuron crosstalk mediated by Angiotensin II type-2 receptor elicits neuropathic pain Andrew J Shepherd|Aaron D Mickle|Bryan A Copits|Pall Karlsson|Suraj Kadunganattil|Judith P Golden|Satya M Tadinada|Madison R Mack|Simon Haroutounian|Annette D de Kloet|Vijay K Samineni|Manouela V Valtcheva|Lisa A McIlvried|Tayler D Sheahan|Sanjay Jain|Pradipta R Ray|Yuriy M Usachev|Gregory Dussor|Brian S Kim|Eric G Krause|Theodore J Price|Robert W Gereau|Durga P Mohapatra Washington University School of Medicine in St. Louis;|Danish Pain Research Center, Department of Clinical Medicine, Aarhus University Hospital, Denmark;|University of Iowa Carver College of Medicine, Iowa City;|College of Medicine, University of Florida, Gainesville;|University of Texas at Dallas, Richardson;|College of Pharmacy, University of Florida, Gainesville
http://dx.doi.org/10.1101/180679 2017-08-25 Genetics No evidence for association with APOL1 kidney disease risk alleles and Human African Trypanosomiasis in two Ugandan populations Magambo Phillip Kimuda|Harry Noyes|Julius Mulindwa|John Enyaru|Vincent Pius Alibu|Issa Sidibe|Dieudonne Mumba|Christiane Hertz-Fowler|Annette MacLeod|Ozlem Tastan Bishop|Enock Matovu Rhodes University;|Centre for Genomic Research, University of Liverpool, UK;|College of Natural Sciences, Makerere University, Kampala, Uganda;|College of natural Sciences, Makerere University, Kampala, Uganda;|CIRDES, Burkina Faso;|Institute Nationale de Rescherche Biomedicale, DRC;|Wellcome Center for Molecular Parasitology, University Place, Glasgow, UK;|Research Unit in Bioinformatics (RUBi), Rhodes University;|College of Veterinary Medicine, Animal Resources and Biosecurity (COVAB), Makerere Univ.;|-
http://dx.doi.org/10.1101/180505 2017-08-25 Neuroscience CC BY Stable representation of sounds in the posterior striatum during flexible auditory decisions Lan Guo|William I. Walker|Nicholas D. Ponvert|Phoebe L. Penix|Santiago Jaramillo University of Oregon
http://dx.doi.org/10.1101/180257 2017-08-25 Cell Biology Primary cilia mediate diverse kinase inhibitor resistance mechanisms in cancer Andrew D. Jenks|Simon Vyse|Jocelyn P. Wong|Deborah Keller|Thomas Burgoyne|Amelia Shoemark|Maike de la Roche|Athanasios Tsalikis|Martin Michaelis|Jindrich Cinatl|Paul H. Huang|Barbara E. Tanos Institute of Cancer Research;|Imperial College London;|UCL;|Royal Brompton Hospital;|Cambridge;|Institute of Cancer Reseach;|University of Kent;|University of Frankfurt
http://dx.doi.org/10.1101/180273 2017-08-24 Bioengineering CC BY cytoNet: Network Analysis of Cell Communities Arun S Mahadevan|Byron L Long|Chenyue Wendy Hu|David T Ryan|George L Britton|Andrew Ligeralde|Aryeh Warmflash|Jacob T Robinson|Amina A Qutub Rice University
http://dx.doi.org/10.1101/180562 2017-08-24 Developmental Biology The BMP2/4 ortholog Dpp functions as an inter-organ signal that regulates developmental timing in Drosophila Linda Setiawan|Alexis L Woods|Iswar K Hariharan University of California, Berkeley
http://dx.doi.org/10.1101/180299 2017-08-24 Developmental Biology CC BY-NC-ND Chick cranial neural crest cells migrate by progressively refining the polarity of their protrusions. Miriam A Genuth|Christopher DC Allen|Takashi Mikawa|Orion Weiner U of California San Francisco, Cardiovascular Research Inst and Dept of Biochemistry and Biophysics;|U of California San Francisco, CVRI and Sandler Asthma Basic Research Center;|U of California San Francisco, Cardiovascular Research Institute
http://dx.doi.org/10.1101/180844 2017-08-25 CC BY-ND Intra-voxel incoherent motion magnetic resonance imaging of the living human fetus: the technique and within-subject reproducibility Andras Jakab|Ruth Tuura|Raimund Kottke|Christian Kellenberger|Ianina Scheer University Children's Hospital Zurich;|Center for MR-Research, University Children's Hospital, Zurich, Switzerland;|Department of Diagnostic Imaging, University Children's Hospital, Zurich, Switzerland
http://dx.doi.org/10.1101/180851 2017-08-25 CC BY-ND Enhancement of non-specific immune responses in European sea bass (Dicentrarchus labrax, L. 1758) by geophyte extract injections (Urginea maritima and Muscari comosum) Gulsen Ulukoy|Esin Baba|Ramazan Mammadov Mugla Sıtkı Kocman University, Fisheries Faculty;|Pamukkale University, Art and Science Faculty
http://dx.doi.org/10.1101/180810 2017-08-25 CC BY-NC-ND The molecular mechanism of N-acetylglucosamine side-chain attachment to the Lancefield group A Carbohydrate in Streptococcus pyogenes Jeffrey S. Rush|Rebecca J. Edgar|Pan Deng|Jing Chen|Haining Zhu|Nina M. van Sorge|Andrew J. Morris|Konstantin V. Korotkov|Natalia Korotkova University of Kentucky;|University Medical Center Utrecht
http://dx.doi.org/10.1101/180646 2017-08-25 CC BY-ND Systemic post-translational control of bacterial metabolism regulates adaptation in dynamic environments Elizabeth Brunk|Roger L. Chang|Jing Xia|Hooman Hefzi|James T. Yurkovich|Donghyuk Kim|Evan Buckmiller|Harris Wang|Chen Yang|Bernhard O. Palsson|George Church|Nathan E. Lewis University of California, San Diego;|Harvard Medical School;|Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;|Kyung Hee University;|Brigham Young University;|Columbia University
http://dx.doi.org/10.1101/180612 2017-08-25 CC BY-NC-ND Insights into regeneration from the genome, transcriptome and metagenome analysis of Eisenia fetida Aksheev Bhambri|Neeraj Dhaunta|Surendra Singh Patel|Mitali Hardikar|Nagesh Srikakulam|Shruti Shridhar|Shamsudheen Vellarikkal|Hemant Suryawanshi|Rajesh Pandey|Rijith Jayarajan|Ankit Verma|Vikram Kumar|Abhishek Bhatt|Pradeep Gautam|Manish Rai|Jameel Ahmed Khan|Bastian Fromm|Kevin J. Peterson|Vinod Scaria|Sridhar Sivasubbu|Beena Pillai CSIR Institute of Genomics and Integrative Biology;|CSIR Ayurgenomics Unit - TRISUTRA, CSIR-IGIB, New Delhi 110020, India;|Lifecode Technologies;|Dept. of Tumor Biology, Inst. for Cancer Research, Norwegian Radium Hospital, Oslo Univ.;|Department of Biological Sciences, Dartmouth College, Hanover, New Hampshire 03755, USA
http://dx.doi.org/10.1101/180935 2017-08-25 CC BY-NC-ND Competition between microtubule-associated proteins directs motor transport Brigette Y. Monroy|Danielle L. Sawyer|Bryce E. Ackermann|Melissa M. Borden|Tracy C. Tan|Kassandra M. Ori-McKenney University of California, Davis
http://dx.doi.org/10.1101/180885 2017-08-25 Optogenetic inhibition reveals distinct roles for basolateral amygdala activity at discrete timepoints during risky decision making Caitlin A. Orsini|Caesar M. Hernandez|Sarthak Singhal|Kyle B. Kelly|Charles J. Frazier|Jennifer L. Bizon|Barry Setlow University of Florida
http://dx.doi.org/10.1101/180893 2017-08-25 Contributions of different prefrontal cortical regions to abstract rule acquisition and reversal in monkeys Giancarlo La Camera|Sebastien Bouret|Barry J. Richmond Stony Brook University;|ICM/CRICM;|National Institute of Mental Health
http://dx.doi.org/10.1101/180752 2017-08-25 CC BY-NC-ND pdxBlacklist: Identifying artefactual variants in patient-derived xenograft samples Max Salm|Sven-Eric Schelhorn|Lee Lancashire|Thomas Grombacher Intellectual Property & Science, Clarivate Analytics;|Global Early Development/ Quantitative Pharmacology & Drug Disposition, Merck KGaA
http://dx.doi.org/10.1101/180943 2017-08-25 CC BY Inhibition of p53 improves CRISPR/Cas-mediated precision genome editing Emma Haapaniemi|Sandeep K. Botla|Jenna Persson|Bernhard Schmierer|Jussi Taipale Department of Medical Biochemistry and Biophysics, Karolinska Institute
http://dx.doi.org/10.1101/180869 2017-08-25 Spindle asymmetry drives non-Mendelian chromosome segregation Takashi Akera|Emily Trimm|Lukas Chmatal|Karren Yang|Chanat Aonbangkhen|David M. Chenoweth|Carsten Janke|Richard M. Schultz|Michael A. Lampson University of Pennsylvania;|Institut Curie
http://dx.doi.org/10.1101/180901 2017-08-25 CC BY-NC-ND Genome shuffling in a globalized bacterial plant pathogen: Recombination-mediated evolution in Xanthomonas euvesicatoria and X. perforans Mustafa O. Jibrin|Neha Potnis|Sujan Timilsina|Gerald V. Minsavage|Gary E. Vallad|Pamela D. Roberts|Jeffrey B Jones|Erica M. Goss University of Florida;|Auburn University
http://dx.doi.org/10.1101/180976 2017-08-25 CC BY-NC The geometry of partial fitness orders and an efficient method for detecting genetic interactions Caitlin Lienkaemper|Lisa Lamberti|James Drain|Niko Beerenwinkel|Alex Gavryushkin Pennsylvania State University;|ETH Zurich;|University of California, Los Angeles
http://dx.doi.org/10.1101/180539 2017-08-25 CC BY-NC-ND Predictive feedback to V1 dynamically updates with sensory input Grace Edwards|Petra Vetter|Fiona McGruer|Lucy S. Petro|Lars Muckli Italian Institute of Technology; Harvard University;|Royal Holloway, University of London;|University of Glasgow
http://dx.doi.org/10.1101/180992 2017-08-25 CC BY-NC-ND Nuclear transcriptomes at high resolution using retooled INTACT Mauricio A. Reynoso|Germain C. Pauluzzi|Kaisa Kajala|Sean Cabanlit|Joel Velasco|Jeremie Bazin|Roger Deal|Neelima R. Sinha|Siobhan M. Brady|Julia Bailey-Serres Center for Plant Cell Biology, University of California, Riverside;|Department of Plant Biology, UC Davis;|IPS2, Institute of Plant Science-Paris Saclay (CNRS-INRA), University of Paris-Saclay;|Department of Biology, Emory University, Atlanta
http://dx.doi.org/10.1101/180984 2017-08-25 CC BY-NC The lawful imprecision of human surface tilt estimation in natural scenes Seha Kim|Johannes Burge University of Pennsylvania
http://dx.doi.org/10.1101/181032 2017-08-25 CC BY-NC-ND Preparation of H-Ras GTPase conjugated to lipid nanodiscs for NMR spectroscopy Elizaveta Kovrigina|Sneha Shah|Evgenii Kovrigin Marquette University
http://dx.doi.org/10.1101/181016 2017-08-25 Super-Resolution Microscopy Reveals Structural Mechanisms Driving the Nanoarchitecture of a Viral Chromatin Tether Margaret J. Grant|Dean H. Kedes|Malcolm Mitchell Smith University of Virginia
http://dx.doi.org/10.1101/180521 2017-08-25 CC BY-NC-ND Low Perfusion Compartments in Glioblastoma Quantified by Advanced Magnetic Resonance Imaging: Correlation with Patient Survival Chao Li|Jiun-Lin Yan|Turid Torheim|Mary A. McLean|Natalie R. Boonzaier|Yuan Huang|Bart R. J. Van Dijken|Tomasz Matys|Florian Markowetz|Stephen J. Price University of Cambridge;|University of Groningen
http://dx.doi.org/10.1101/180968 2017-08-25 Induction of differentiation and metabolic reprogramming in human hepatoma cells by adult human serum Rineke H. Steenbergen|Martin Oti|Rob ter Horst|Wilson Tat|Chris Neufeldt|Alexandr Belovodskiy|Tiing Tiing Chua|Woo Jung Cho|Michael Joyce|Bas E. Dutilh|D. Lorne Tyrrell University of Alberta;|Carlos Chagas Filho Biophysics Institute (IBCCF), Federal University of Rio de Janeiro (UFRJ);|Ctr. for Molec. & Biomolec. Informatics, Radboud Inst. for Molec. Life Sci., Radboud Univ.;|Utrecht University
http://dx.doi.org/10.1101/181065 2017-08-25 CC BY-ND On somatic constraints in the evolution of multicellularity Andrii Rozhok|James DeGregori University of Colorado Denver
http://dx.doi.org/10.1101/180497 2017-08-25 CC BY-NC-ND MicroRNAs from the parasitic plant Cuscuta campestris target host messenger RNAs Saima Shahid|Gunjune Kim|Nathan R. Johnson|Eric Wafula|Feng Wang|Ceyda Coruh|Vivian Bernal-Galeano|Claude W. dePamphilis|James H. Westwood|Michael Axtell The Pennsylvania State University;|Virginia Polytechnic Institute and State University;|Pennsylvania State University
http://dx.doi.org/10.1101/181040 2017-08-25 Therapeutic targeting of PGBD5-induced DNA repair dependency in pediatric solid tumors Anton Henssen|Casie Reed|Eileen Jiang|Heathcliff Dorado Garcia|Jennifer von Stebut|Ian MacArthur|Patrick Hundsdoerfer|Jun Hyun Kim|Elisa de Stanchina|Yasumichi Kuwahara|Hajime Hosoi|Neil Ganem|Filemon Dela Cruz|Andrew Kung|Johannes Schulte|John Petrini|Alex Kentsis MSKCC;|MSKCC, Charite;|Charite;|Kyoto;|BU
http://dx.doi.org/10.1101/180422 2017-08-25 Epidemiology CC BY Prevalence of Mycoplasma genitalium in different population groups: systematic review and meta-analysis Lukas Baumann|Manuel Cina|Dianne Egli-Gany|Myrofora Goutaki|Florian Halbeisen|Gian-Reto Lohrer|Hammad Ali|Pippa Scott|Nicola Low Univeristy of Bern, Institute of Social and Preventive Medicine;|University of Bern, Institute of Social and Preventive Medicine;|University of New South Wales, Kirby Institute
http://dx.doi.org/10.1101/180778 2017-08-25 Biophysics CC BY-NC-ND Motor reattachment kinetics play a dominant role in multimotor-driven cargo transport Qingzhou Feng|Keith J. Mickolajczyk|Geng-Yuan Chen|William O. Hancock Pennsylvania State University
http://dx.doi.org/10.1101/180083 2017-08-25 Leaf-GP: An Open and Automated Software Application for Measuring Growth Phenotypes for Arabidopsis and Wheat Ji Zhou|Christopher Applegate|Albor Dobon Alonso|Daniel Reynolds|Simon Orford|Michal Mackiewicz|Simon Griffiths|Steven Penfield|Nick Pullen Earlham Institute, John Innes Centre, University of East Anglia;|Earlham Institute;|John Innes Centre;|University of East Anglia
http://dx.doi.org/10.1101/180786 2017-08-25 Gene markers for exon capture and phylogenomics in ray-finned fishes Jiamei Jiang|Hao Yuan|Xin Zheng|Qian Wang|Ting Kuang|Jingyan Li|Junning Liu|Shuli Song|Weicai Wang|Fangyaun Cheng|Hongjie Li|Junman Huang|Chenhong Li Shanghai Ocean University
http://dx.doi.org/10.1101/180836 2017-08-26 CC BY Opposite effects of lateralised transcranial alpha versus gamma stimulation on spatial attention Malte Wostmann|Johannes Vosskuhl|Jonas Obleser|Christoph Herrmann Universität zu Lübeck;|Universität Oldenburg
http://dx.doi.org/10.1101/181115 2017-08-26 CC BY-ND Phylogenomics reveals an extensive history of genome duplication in diatoms (Bacillariophyta) Matthew Parks|Teofil Nakov|Elizabeth C Ruck|Norman J Wickett|Andrew J Alverson Chicago Botanic Garden;|University of Arkansas
http://dx.doi.org/10.1101/181214 2017-08-26 CC BY-NC-ND Type 2 diabetes promotes cell centrosome amplification and the role of AKT-ROS-dependent signalling of ROCK1 and 14-3-3σ Pu Wang|Yu Cheng Lu|Jie Wang|Lan Wang|Hanry Yu|Yuan Fei Li|Alice Kong|Juliana Chan|Shao Chin Lee Shanxi University;|Shanxi College of Traditional Chinese Medicine;|National University of Singapore;|Shanxi Medical University;|Chinese University of Hong Kong
http://dx.doi.org/10.1101/181123 2017-08-26 CC BY Epigenomic and 3D genome architecture in naïve and primed human embryonic stem cell states Stephanie Battle|Naresh Doni Jayavelu|Robert N. Azad|Jennifer Hesson|Faria N. Ahmed|Joseph A. Zoller|Julie Mathieu|Hannele Ruohola-Baker|Carol B. Ware|Raymond Hawkins University of Washington
http://dx.doi.org/10.1101/181156 2017-08-26 CC BY-NC-ND B-cell receptor reconstruction from single-cell RNA-seq with VDJPuzzle Simone Rizzetto|David NP Koppstein|Jerome Samir|Mandeep Singh|Joanne H Reed|Curtis H Cai|Andrew R Lloyd|Auda A Eltahla|Christopher C Goodnow|Fabio Luciani Kirby Institute for Infection and Immunity, UNSW, Australia;|Immunogenomics, Garvan Institute for Medical Research, Sydney, Australia
http://dx.doi.org/10.1101/177410 2017-08-26 GSimp: A Gibbs sampler based left-censored missing value imputation approach for metabolomics studies Runmin Wei|Jingye Wang|Erik Jia|Tianlu Chen|Yan Ni|Wei Jia University of Hawaii Cancer Center;|Punahou School;|Shanghai Jiao Tong University Affiliated Sixth People's Hospital
http://dx.doi.org/10.1101/181099 2017-08-26 CC BY-NC-ND Seamless Multiscale Modeling of Coagulation Using Dissipative Particle Dynamics Alireza Yazdani|Zhen Li|Jay Humphrey|George Karniadakis Brown University;|Yale University
http://dx.doi.org/10.1101/181206 2017-08-26 CC BY-NC-ND An improved ATAC-seq protocol reduces background and enables interrogation of frozen tissues M. Ryan Corces|Alexandro E. Trevino|Emily G. Hamilton|Peyton G. Greenside|Nicholas A. Sinnott-Armstrong|Sam Vesuna|Ansuman T. Satpathy|Adam J. Rubin|Kathleen S. Montine|Beijing Wu|Arwa Kathiria|Seung Woo Cho|Maxwell R. Mumbach|Ava C. Carter|Maya Kasowski|Lisa A. Orloff|Viviana I. Risca|Anshul Kundaje|Paul A. Khavari|Thomas J. Montine|William J. Greenleaf|Howard Y. Chang Stanford University
http://dx.doi.org/10.1101/181149 2017-08-26 Not such silly sausages: Northern quolls exhibit aversion to toads after training with toad sausages. Naomi Liza Indigo|James Smith|Jonathan Webb|Ben Phillips University of Technology Sydney;|Australian Wildlife Conservancy;|University of Melbourne
http://dx.doi.org/10.1101/178269 2017-08-26 CC BY-NC-ND Enhancer connectome in primary human cells reveals target genes of disease-associated DNA elements Maxwell R. Mumbach|Ansuman T. Satpathy|Evan A. Boyle|Chao Dai|Benjamin G. Gowen|Seung Woo Cho|Michelle L. Nguyen|Adam J. Rubin|Jeffrey M. Granja|Katelynn R. Kazane|Yuning Wei|Trieu Nguyen|Peyton G. Greenside|M. Ryan Corces|Josh Tycko|Dimitre R. Simeonov|Nabeela Suliman|Rui Li|Jin Xu|Ryan A. Flynn|Anshul Kundaje|Paul A. Khavari|Alexander Marson|Jacob E. Corn|Thomas Quertermous|William J. Greenleaf|Howard Y. Chang Stanford University;|University of California, Berkeley;|University of California, San Francisco
http://dx.doi.org/10.1101/179614 2017-08-26 CC BY-NC-ND The Anatomical Tracings of Lesions After Stroke (ATLAS) Dataset - Release 1.1 Sook-Lei Liew|Julia M. Anglin|Nick W. Banks|Matt Sondag|Kaori L. Ito|Hosung Kim|Jennifer Chan|Joyce Ito|Connie Jung|Stephanie Lefebvre|William Nakamura|David Saldana|Allie Schmiesing|Cathy Tran|Danny Vo|Tyler Ard|Panthea Heydari|Bokkyu Kim|Lisa Aziz-Zadeh|Steven C. Cramer|Jingchun Liu|Surjo Soekadar|Jan-Egil Nordvik|Lars T. Westlye|Junping Wang|Carolee Winstein|Chunshui Yu|Lei Ai|Bonhwang Koo|R. Cameron Craddock|Michael Miham|Matthew Lakich|Amy Pienta|Allison Stroud University of Southern California;|University of California, Irvine;|Tianjin Medical University General Hospital;|University of Tuebingen;|Sunnaas Rehabilitation Hospital HT;|Oslo University Hospital;|Child Mind Institute;|University of Texas Medical Branch;|University of Michigan
http://dx.doi.org/10.1101/180448 2017-08-26 CC BY-NC-ND Multi-reference spectral library yields almost complete coverage of heterogeneous LC-MS/MS data sets Constantin Ammar|Evi Berchtold|Gergely Csaba|Andreas Schmidt|Axel Imhof|Ralf Zimmer Ludwig Maximilians University Munich
http://dx.doi.org/10.1101/181131 2017-08-26 NMDA receptor-dependent dynamics of hippocampal place cell ensembles Yuichiro Hayashi Kansai Medical University
http://dx.doi.org/10.1101/180620 2017-08-26 BBSome trains remove activated GPCRs from cilia by enabling passage through the transition zone Fan Ye|Andrew R. Nager|Maxence V. Nachury Stanford University School of Medicine
http://dx.doi.org/10.1101/181107 2017-08-26 Dramatic evolution of body length due to post-embryonic changes in cell size in a newly discovered close relative of C. elegans Gavin C. Woodruff|Patrick C. Phillips|Natsumi Kanzaki University of Oregon;|Forestry and Forest Research Products Institute
http://dx.doi.org/10.1101/181164 2017-08-26 CC BY-NC-ND Behavioral and Hematological Response of Clarias gariepinus juvenile exposed to Acute concentrations of Aqueous Extract of Siam Weed (Chloromolaena odorata) leaf as Anesthetic agent Stanley Iheanacho|Shedrack Nworu Federal University, Ndufu-Alike Ikwo;|Ebonyi State University, Abakaliki
http://dx.doi.org/10.1101/181222 2017-08-26 CC BY-NC-ND Identifying the genetic determinants of particular phenotypes in microbial genomes with very small training sets George S. Long|Mohammed Hussen|Jonathan Dench|Stephane Aris-Brosou University of Ottawa
http://dx.doi.org/10.1101/181198 2017-08-26 Microbiology CC BY-NC-ND Plant genes influence microbial hubs that shape beneficial leaf communities Benjamin Brachi|Daniele Filiault|Paul Darme|Marine Le Mentec|Envel Kerdaffrec|Fernando Rabanal|Alison Anastasio|Matthew Box|Susan Duncan|Timothy Morton|Polina Novikova|Matthew Perisin|Takashi Tsuchimatsu|Roderick Woolley|Man Yu|Caroline Dean|Magnus Nordborg|Svante Holme|Joy Bergelson INRA;|Gregor Mendel Institute (GMI), Austrian Academy of Sciences, Vienna Biocenter (VBC), Dr. Bohr-Gasse;|Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637;|Dept. of Molecular Biology, Max Planck Institute for Developmental Biology, 72076 Tuebingen, Germany;|John Innes Center, Norwich, UK;|Earlham Institute, Norwich Research Park, Norwich, NR4 7UZ;|U.S. Army Research Laboratory, 2800 Powder Mill Road, Adelphi, Maryland 20783, USA;|Department of Biology, Chiba University,Yayoi-cho 1-33, Inage, Chiba 263-8522, Japan;|Mid Sweden University, Sundsvall, Sweden
http://dx.doi.org/10.1101/180927 2017-08-26 Cancer Biology CC BY-NC Sensitivity analysis based ranking reveals unknown biological hypotheses for down regulated genes in time buffer during administration of PORCN-WNT inhibitor ETC-1922159 in CRC Shriprakash Sinha N/A
http://dx.doi.org/10.1101/181180 2017-08-26 Molecular Biology Separable functions of the PHD finger protein Spp1 in the Set1 and the meiotic DSB forming complexes cooperate for meiotic DSB formation. Celine Adam|Raphael Guerois|Anna Citarella|Laura Verardi|Florine Adolphe|Claire Beneut|Verane Sommermeyer|Claire Ramus|Jerome Govin|Yohann Coute|Valerie Borde Institut Curie;|I2BC/CEA Saclay;|BIG-BGE/CEA Grenoble
http://dx.doi.org/10.1101/168112 2017-08-27 Epidemic Potential for Human Infection with Influenza A (H7N9) Virus in China through Web Search Behaviors: A Data-Driven Study Yue Teng|Dehua Bi|Xiaocan Guo|Dan Feng|Yigang Tong State Key Lab. of Pathogen & Biosecurity; Beijing Institute of Microbiology & Epidemiology;|Boston University;|MIT;|Chinese PLA General Hospital
http://dx.doi.org/10.1101/181370 2017-08-27 Neuroscience Hierarchical recruitment of competition alleviates working memory overload in a fronto-parietal model Dominic Standage|Martin Pare|Gunnar Blohm Queen's University
http://dx.doi.org/10.1101/181289 2017-08-27 Bioinformatics CC BY Prediction of early breast cancer patient survival using ensembles of hypoxia signatures Inna Y. Gong|Natalie S. Fox|Paul Boutros Ontario Institute for Cancer Research
http://dx.doi.org/10.1101/181230 2017-08-27 Genetics Ttc21b is required in Bergmann glia during postnatal cerebellar development Ashley M. Driver|Christopher Shumrick|Rolf Stottmann Cincinnati Children's Hospital Medical Center
http://dx.doi.org/10.1101/181354 2017-08-27 Neuroscience Slot-like capacity and resource-like coding in a neural model of multiple-item working memory Dominic Standage|Martin Pare Queen's University
http://dx.doi.org/10.1101/181347 2017-08-27 Biophysics CC BY-NC-ND A “Tug of War” maintains a dynamic protein-membrane complex: MD simulations of C-Raf RBD-CRD bound to K-Ras4B at an anionic membrane ZHENLU LI|Priyanka P Srivastava|Matthias Buck Case Western Reserve Univeristy;|University of Texas Health Science at Houston;|Case Western Reserve University, School of Medicine
http://dx.doi.org/10.1101/181263 2017-08-27 Bioinformatics CC BY-NC-ND Edge Detection of Cryptic Lamellipodia Assisted by Deep Learning Chuangqi Wang|Shawn Kang|Eunice Kim|Xitong Zhang|Hee June Choi|Aaron Choi|Kwonmoo Lee Worcester Polytechnic Institute
http://dx.doi.org/10.1101/181362 2017-08-27 Bioinformatics A probabilistic model-based bi-clustering method for single-cell transcriptomic data analysis Sha Cao|Tao Sheng|Xin Chen|Qin Ma|Chi Zhang Indiana University School of Medicine;|The University of Georgia;|Tianjin University;|South Dakota State University
http://dx.doi.org/10.1101/181248 2017-08-27 Microbiology CC BY-ND Genomic and proteomic analysis of Human herpesvirus 6 reveals distinct clustering of acute versus inherited forms and reannotation of reference strain Alexander Greninger|Giselle Knudsen|Pavitra Roychoudhury|Derek Hanson|Ruth A. Hall Sedlak|Hong Xie|Jon Guan|Thuy Nguyen|Vikas Peddu|Michael Boeckh|Meei-Li Huang|Linda Cook|Daniel Depledge|Danielle Zerr|David Koelle|Soren Gantt|Tetsushi Yoshikawa|Mary Caserta|Joshua Hill|Keith Jerome UW;|UCSF;|Fred Hutch;|UCL;|Seattle Children's;|UBC;|Fujita Health University;|University of Rochester
http://dx.doi.org/10.1101/181339 2017-08-27 Cancer Biology Patterns of structural variation in human cancer Yilong Li|Nicola Roberts|Joachim Weischenfeldt|Jeremiah Anthony Wala|Ofer Shapira|Steven Schumacher|Ekta Khurana|Jan O Korbel|Marcin Imielinski|Rameen Beroukhim|Peter Campbell Wellcome Trust Sanger Institute;|University of Copenhagen;|Broad Institute;|Cornell University;|European Molecular Biology Laboratory;|New York Genome Center;|Sanger Institute
http://dx.doi.org/10.1101/181685 2017-08-28 CC BY-NC-ND Human macrophages survive and adopt activated genotypes in living zebrafish Colin D. Paul|Alexus Devine|Kevin Bishop|Qing Xu|Kathryn M. Daly|Chaunte Lewis|Daniel S. Green|Jack R. Staunton|Swati Choski|Zheng-Gang Liu|Raman Sood|Kandice Tanner National Cancer Institute;|National Human Genomic Research Institute
http://dx.doi.org/10.1101/181743 2017-08-28 CC BY-NC-ND A Rho-GTPase based model explains spontaneous collective migration of neural crest cell clusters Brian Merchant|Leah Edelstein-Keshet|James Feng University of British Columbia
http://dx.doi.org/10.1101/162271 2017-08-28 Plant Biology CC BY Time-resolved Interaction Proteomics of the Putative Scaffold Protein GIGANTEA in Arabidopsis thaliana Johanna Krahmer|Greg Goralogia|Akane Kubota|Richard S. Johnson|Young Hun Song|Karen Halliday|Michael J. MacCoss|Thierry LeBihan|Takato Imaizumi|Andrew Millar University of Edinburgh;|University of Washington;|Ajou University
http://dx.doi.org/10.1101/181537 2017-08-28 Synthetic Biology Functional effects of heating and cooling gene networks Daniel A. Charlebois|Kevin Hauser|Sylvia Marshall|Gabor Balazsi Stony Brook University
http://dx.doi.org/10.1101/181628 2017-08-28 Bioinformatics CC BY-NC-ND Folding membrane proteins by deep transfer learning Sheng Wang|Zhen Li|Yizhou Yu|Jinbo Xu Toyota Technological Institute at Chicago;|University of Hong Kong
http://dx.doi.org/10.1101/181255 2017-08-28 Cell Biology CC BY-NC-ND Inter-homologue repair in fertilized human eggs? Dieter Egli|Michael Zuccaro|Michal Kosicki|George Church|Allan Bradley|Maria Jasin Columbia University;|Sanger Institute;|Harvard University;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/181297 2017-08-28 Neuroscience CC BY-NC Common features in plastic changes rather than constructed structures in recurrent neural network prefrontal cortex models Satoshi Kuroki|Takuya Isomura Laboratory for Behavioral Genetics, RIKEN Brain Science Institute;|Laboratory for Neural Computation and Adaptation, RIKEN Brain Science Institute
http://dx.doi.org/10.1101/179820 2017-08-28 Neuroscience CC BY-NC-ND On the relationship between instantaneous phase synchrony and correlation-based sliding windows for time-resolved fMRI connectivity analysis Mangor Pedersen|Amir Omidvarnia|Andrew Zalesky|Graeme D. Jackson The Florey Institute of Neuroscience and Mental Health;|Department of Psychiatry, Melbourne Neuropsychiatry Centre, The University of Melbourne
http://dx.doi.org/10.1101/181313 2017-08-28 Neuroscience Putting the "dynamic" back into dynamic functional connectivity Stewart Heitmann|Michael Breakspear QIMR Berghofer Medical Research Institute
http://dx.doi.org/10.1101/181495 2017-08-28 Microbiology CC BY Fast and Simple Tool for the Quantification of Biofilm-Embedded Cells Sub-Populations From Fluorescent Microscopic Images Mikhail Bogachev|Oleg Markelov|Elena Trizna|Diana Baydamshina|Pavel Zelenikhin|Regina Murtazina|Airat Kayumov St. Petersburg Electrotechnical University;|Kazan Federal University
http://dx.doi.org/10.1101/173831 2017-08-28 Genetics Genetic Architecture of Subcortical Brain Structures in Over 40,000 Individuals Worldwide Claudia L. Satizabal|Hieab H. H. Adams|Derrek P. Hibar|Charles C. White|Jason L. Stein|Markus Scholz|Murali Sargurupremraj|Neda Jahanshad|Albert V. Smith|Joshua C. Bis|Xueqiu Jian|Michelle Luciano|Edith Hofer|Alexander Teumer|Sven J. van der Lee|Jingyun Yang|Lisa R Yanek|Tom V. Lee|Shuo Li|Yanhui Hu|Jia Yu Koh|John D. Eicher|Sylvane Desrivieres|Alejandro Arias-Vasquez|Ganesh Chauhan|Lavinia Athanasiu|Miguel E. Renteria|Sungeun Kim|David Hohn|Nicola J. Armstrong|Qiang Chen|Avram J. Holmes|Anouk den Braber|Iwona Kloszewska|Micael Andersson|Thomas Espeseth|Oliver Grimm|Lucija Abramovic|Saud Alhusaini|Yuri Milaneschi|Martina Papmeyer|Tomas Axelsson|Stefan Ehrlich|Roberto Roiz-Santianez|Bernd Kraemer|Asta K. Haberg|Hannah J. Jones|G. Bruce Pike|Dan J. Stein|Allison Stevens|Janita Bralten|Meike W. Vernooij|Tamara B. Harris|Irina Filippi|A. Veronica Witte|Tulio Guadalupe|Katharina Wittfeld|Thomas H. Mosley|James T. Becker|Nhat Trung Doan|Saskia P. Hagenaars|Yasaman Saba|Gabriel Cuellar-Partida|Najaf Amin|Saima Hilal|Kwangsik Nho|Nazanin Karbalai|Konstantinos Arfanakis|Diane M Becker|David Ames|Aaron L. Goldman|Phil H. Lee|Dorret I. Boomsma|Simon Lovestone|Sudheer Giddaluru|Stephanie Le Hellard|Manuel Mattheisen|Marc M. Bohlken|Dalia Kasperaviciute|Lianne Schmaal|Stephen M. Lawrie|Ingrid Agartz|Esther Walton|Diana Tordesillas-Gutierrez|Gareth E. Davies|Jean Shin|Jonathan C. Ipser|Louis N. Vinke|Martine Hoogman|Maria J. Knol|Tianye Jia|Ralph Burkhardt|Marieke Klein|Fabrice Crivello|Deborah Janowitz|Owen Carmichael|Unn K. Haukvik|Benjamin S. Aribisala|Helena Schmidt|Lachlan T. Strike|Ching-Yu Cheng|Shannon L. Risacher|Benno Putz|Debra A. Fleischman|Amelia A. Assareh|Venkata S. Mattay|Randy L. Buckner|Patrizia Mecocci|Anders M. Dale|Sven Cichon|Marco P. Boks|Mar Matarin|Brenda W. J. H. Penninx|Vince D. Calhoun|M. Mallar Chakravarty|Andre Marquand|Christine Macare|Shahrzad Kharabian Masouleh|Jaap Oosterlaan|Philippe Amouyel|Katrin Hegenscheid|Jerome I. Rotter|Andrew J. Schork|David C. M. Liewald|Greig I. De Zubicaray|Tien Yin Wong|Li Shen|Philipp G. Samann|Henry Brodaty|Joshua L. Roffman|Eco J. C. De Geus|Magda Tsolaki|Susanne Erk|Kristel R. Van Eijk|Gianpiero L. Cavalleri|Nic J. A. Van der Wee|Andrew M. McIntosh|Randy L. Gollub|Kazima B. Bulayeva|Manon Bernard|Jennifer S. Richards|Jayandra J. Himali|Markus Loeffler|Nanda Rommelse|Wolfgang Hoffmann|Lars T. Westlye|Maria C. Valdes Hernandez|Narelle K. Hansell|Theo G. M. Van Erp|Christiane Wolf|John B. J. Kwok|Bruno Vellas|Andreas Heinz|Loes M. Olde Loohuis|Norman Delanty|Beng-Choon Ho|Christopher R. K. Ching|Elena Shumskaya|Baljeet Singh|Albert Hofman|Dennis Van der Meer|Georg Homuth|Bruce M. Psaty|Mark Bastin|Grant W. Montgomery|Tatiana M. Foroud|Simone Reppermund|Jouke-Jan Hottenga|Andrew Simmons|Andreas Meyer-Lindenberg|Wiepke Cahn|Christopher D. Whelan|Marjolein M. J. Van Donkelaar|Qiong Yang|Norbert Hosten|Robert C. Green|Anbupalam Thalamuthu|Sebastian Mohnke|Hilleke E. Hulshoff Pol|Honghuang Lin|Clifford R. Jack|Peter R. Schofield|Thomas W. Muhleisen|Pauline Maillard|Steven G. Potkin|Wei Wen|Evan Fletcher|Arthur W. Toga|Oliver Gruber|Matthew Huentelman|George Davey Smith|Lenore J. Launer|Lars Nyberg|Erik G. Jonsson|Benedicto Crespo-Facorro|Nastassja Koen|Douglas Greve|Andre G. Uitterlinden|Daniel R. Weinberger|Vidar M. Steen|Iryna O. Fedko|Nynke A. Groenewold|Wiro J. Niessen|Roberto Toro|Christophe Tzourio|William T. Longstreth|M. Kamran Ikram|Jordan W. Smoller|Marie-Jose Van Tol|Jessika E. Sussmann|Tomas Paus|Herve Lemaitre|Bernard Mazoyer|Ole A. Andreassen|Florian Holsboer|Chantal Depondt|Dick J. Veltman|Jessica A. Turner|Zdenka Pausova|Gunter Schumann|Daan Van Rooij|Srdjan Djurovic|Ian J. Deary|Katie L. McMahon|Bertram Muller-Myhsok|Rachel M. Brouwer|Hilkka Soininen|Massimo Pandolfo|Thomas H. Wassink|Joshua W. Cheung|Thomas Wolfers|Jean-Luc Martinot|Marcel P. Zwiers|Matthias Nauck|Ingrid Melle|Nicholas G. Martin|Ryota Kanai|Eric Westman|Rene S. Kahn|Sanjay M. Sisodiya|Tonya White|Arvin Saremi|Hans van Bokhoven|Han G. Brunner|Henry Volzke|Margaret J. Wright|Dennis Van 't Ent|Markus M. Nothen|Roel A. Ophoff|Jan K. Buitelaar|Guillen Fernandez|Perminder S. Sachdev|Marcella Rietschel|Neeltje E. M. Van Haren|Simon E. Fisher|Alexa S. Beiser|Clyde Francks|Andrew J. Saykin|Karen A. Mather|Nina Romanczuk-Seiferth|Catharina A. Hartman|Anita L. DeStefano|Dirk J. Heslenfeld|Michael W. Weiner|Henrik Walter|Pieter J. Hoekstra|Paul A Nyquist|Barbara Franke|David A. Bennett|Hans J. Grabe|Andrew D. Johnson|Christopher Chen|Cornelia M. van Duijn|Oscar L. Lopez|Myriam Fornage|Joanna A. Wardlaw|Reinhold Schmidt|Charles DeCarli|Philip L. De Jager|Arno Villringer|Stephanie Debette|Vilmundur Gudnason|Sarah E. Medland|Joshua M. Shulman|Paul M. Thompson|Sudha Seshadri|M. Arfan Ikram Boston University;|Erasmus MC;|University of Southern California;|Broad Institute;|University of North Carolina;|University of Leipzig;|University of Bordeaux;|University of Michigan;|University of Washington;|University of Texas;|University of Edinburgh;|Medical University of Graz;|University Medicine Greifswald;|Rush University Medical Center;|Johns Hopkins University School of Medicine;|Baylor College of Medicine;|Harvard Medical School;|Singapore National Eye Centre;|NHLBI's Framingham Heart Study;|King's College London;|Radboud University Medical Center;|Indian Institute of Science;|University of Oslo;|QIMR Berghofer Medical Research Institute, Brisbane, 4006, Australia;|Indiana University School of Medicine;|Max Planck Institute of Psychiatry;|Murdoch University;|Lieber Institute for Brain Development;|Yale University;|Vrije Universiteit;|Medical University of Lodz;|Umea University;|University Heidelberg;|UMC Utrecht;|McGill University;|VU University Medical Center;|Uppsala University;|TU Dresden;|University Hospital Marques de Valdecilla;|Heidelberg University;|Norwegian University of Science and Technology;|University of Bristol;|University of Calgary;|University of Cape Town;|Massachusetts General Hospital;|National Institute on Aging;|Max Planck Institute of Cognitive and Brain Sciences;|International Max Planck Research School for Language Sciences;|University of Mississippi Medical Center;|University of Pittsburgh;|QIMR Berghofer Medical Research Institute;|National University of Singapore;|University of Melbourne;|University of Oxford;|University of Bergen;|Aarhus University;|UCL Institute of Neurology;|Valdecilla Biomedical Research Institute IDIVAL;|Avera Institute for Human Genetics;|University of Toronto;|Pennington Biomedical Research Center;|University of New South Wales;|University of Perugia;|University of California;|University of Basel;|University of New Mexico;|Douglas Mental Health University Institute;|Radboud University;|VU University Amsterdam;|Institut Pasteur de Lille;|Harbor-UCLA Medical Center;|Queensland University of Technology;|Aristotle University of Thessaloniki;|Charite Universitatsmedizin Berlin;|Royal College of Surgeons in Ireland;|Leiden University Medical Center;|Dagestan State University;|University of Groningen;|German Center for Neurodegenerative Diseases (DZNE);|University of California-Irvine;|University of Wuerzburg;|University of Sydney;|University of Toulouse;|Beaumont Hospital;|University of Iowa;|Harvard T. H. Chan School of Public Health;|Brigham and Women's Hospital;|Mayo Clinic;|Neuroscience Research Australia;|Research Centre Julich;|University of California-Davis;|Translational Genomics Research Institute;|Karolinska Institutet;|Vrije Universiteit Amsterdam;|Institut Pasteur Paris;|Bordeaux University;|INSERM UMR 1000 - Neuroimaging and Psychiatry;|HMNC Brain Health;|Universite Libre de Bruxelles;|Georgia State University;|University of Queensland;|University of Eastern Finland;|Araya Inc.;|University of Bonn;|Max Planck Institute for Psycholinguistics;|University of California San Francisco;|University of California at Davis;|Columbia University Medical Center;|University of Iceland
http://dx.doi.org/10.1101/181511 2017-08-28 Systems Biology Network Architecture and Mutational Sensitivity of the C. elegans Metabolome Lindsay M. Johnson|Luke M. Chandler|Sarah K. Davies|Charles F. Baer University of Florida;|Imperial College, London
http://dx.doi.org/10.1101/167148 2017-08-28 Cell Biology Rational cell culture optimization enhances experimental reproducibility in cancer cells. Marina Wright Muelas|Fernando Ortega|Rainer Breitling|Claus Bendtsen|Hans V. Westerhoff The University of Manchester;|AstraZeneca;|University of Amsterdam
http://dx.doi.org/10.1101/181487 2017-08-28 Evolutionary Biology CRISPR-based Herd Immunity Limits Phage Epidemics in Bacterial Populations Pavel Payne|Lukas Geyrhofer|Nicholas H. Barton|Jonathan P. Bollback University of Liverpool;|Technion Haifa;|Institute of Science and Technology Austria
http://dx.doi.org/10.1101/181545 2017-08-28 Biophysics Optical Coherence Tomography Reveals Mechanobiologically Stable Self-Organizing Di-Fork Architecture of Mice Cutaneous Scars Biswajoy Ghosh|Mousumi Mandal|Pabitra Mitra|Jyotirmoy Chatterjee Indian Institute of Technology Kharagpur
http://dx.doi.org/10.1101/181586 2017-08-28 Bioinformatics CC BY-NC-ND Analysis of deep learning methods for blind protein contact prediction in CASP12 Sheng Wang|Siqi Sun|Jinbo Xu Toyota Technological Institute at Chicago
http://dx.doi.org/10.1101/181404 2017-08-28 Biophysics CC BY-NC-ND 'Switch-like' transition from random to directed motility of microtubules by a yeast dynein Kunalika Jain|Neha Khetan|Chaitanya A. Athale Div. of Biology, IISER Pune;|IISER Pune
http://dx.doi.org/10.1101/181420 2017-08-28 Biochemistry CC BY Development of High-Throughput Screening Assays for Inhibitors of ETS Transcription Factors Simon Currie|Stephen L. Warner|Hariprasad Vankayalapati|Xiao-Hui Liu|Sunil Sharma|David J. Bearss|Barbara J. Graves University of Utah
http://dx.doi.org/10.1101/181503 2017-08-28 Biochemistry CC BY Inhibition of Intracellular Lipolysis Promotes Cancer Cell Adaptation to Hypoxia Xiaodong Zhang|Alicia M. Saarinen|Taro Hitosugi|Zhenghe Wang|Liguo Wang|Thai H. Ho|Jun Liu Mayo Clinic Arizona;|Mayo Clinic College of Medicine;|Case Western Reserve University
http://dx.doi.org/10.1101/181479 2017-08-28 Bioinformatics CC BY-NC-ND DrImpute: Imputing dropout events in single cell RNA sequencing data Il-Youp Kwak|Wuming Gong|Naoko Koyano-Nakagawa|Daniel Garry Samsung Electronics;|Lillehei Heart Institute
http://dx.doi.org/10.1101/182360 2017-08-29 CC BY Drug discovery to counteract antinociceptive tolerance with mu-opioid receptor endocytosis Po-Kuan Chao|Yi-Yu Ke|Hsiao-Fu Chang|Yi-Han Huang|Li-Chin Ou|Jian-Ying Chuang|Yen-Chang Lin|Pin-Tse Lee|Wan-Ting Chang|Shu-Chun Chen|Shau-Hua Ueng|John Tsu-An Hsu|Pao-Luh Tao|Ping-Yee Law|Horace H. Loh|Chuan Shih|Shiu-Hwa Yeh National Health Research Institutes;|Taipei Medical University;|Chinese Culture University;|National Institute on Drug Abuse, NIH/DHHS;|Medical School University of Minnesota
http://dx.doi.org/10.1101/182352 2017-08-29 Demographic consequences of invasion by a native, controphic competitor to an insular bird population Kate M. Johnson|Ryan R. Germain|Corey E. Tarwater|Peter Arcese University of British Columbia;|University of Aberdeen;|University of Wyoming
http://dx.doi.org/10.1101/181818 2017-08-29 Network structure of the human musculoskeletal system shapes neural interactions on multiple timescales Jennifer N. Kerkman|Andreas Daffertshofer|Leonardo Gollo|Michael Breakspear|Tjeerd W. Boonstra Vrije Universiteit Amsterdam;|QIMR Berghofer Medical Research Institute;|University of New South Wales
http://dx.doi.org/10.1101/181859 2017-08-29 CC BY Human demographic history has amplified the effects background selection across the genome Raul Torres|Zachary A. Szpiech|Ryan D. Hernandez UCSF
http://dx.doi.org/10.1101/181842 2017-08-29 CC BY-ND GenomeDISCO: A concordance score for chromosome conformation capture experiments using random walks on contact map graphs Oana Ursu|Nathan Boley|Maryna Taranova|Y. X. Rachel Wang|Galip Gurkan Yardimci|William Stafford Noble|Anshul Kundaje Stanford University School of Medicine;|Department of Statistics, Stanford University, CA, USA;|Department of Genome Sciences, University of Washington, WA, USA;|Department of Genome Sciences, Computer Science, University of Washington, WA, USA;|Department of Genetics, Computer Science, Stanford University, CA, USA
http://dx.doi.org/10.1101/181982 2017-08-29 CC BY-NC-ND The impact of persistent bacterial bronchitis on the pulmonary microbiome of children Leah Cuthbertson|Vanessa Craven|Lynne Bingle|William O. C. M. Cookson|Mark L. Everard|Miriam F. Moffatt Imperial College London;|Sheffield Childrens Hospital;|University of Sheffield School of Dentistry;|Royal Brompton and Harefield NHS Foundation Trust;|University of Western Australia
http://dx.doi.org/10.1101/181636 2017-08-29 CC BY BLAST-based validation of metagenomic sequence assignments Adam L. Bazinet|Brian D. Ondov|Daniel D. Sommer|Shashikala Ratnayake National Biodefense Analysis and Countermeasures Center
http://dx.doi.org/10.1101/181412 2017-08-29 CC BY-NC-ND Full likelihood inference from the site frequency spectrum based on the optimal tree resolution Raazesh Sainudiin|Amandine Veber Uppsala Universitet;|Ecole Polytechnique
http://dx.doi.org/10.1101/181867 2017-08-29 Identifying weak signals in inhomogeneous neuronal images for large-scale tracing of neurites Shiwei Li|Tingwei Quan|Hang Zhou|FangFang Yin|Anan Li|Ling Fu|Qingming Luo|Hui Gong|Shaoqun Zeng Collaborative Innovation Center for Biomedical Engineering
http://dx.doi.org/10.1101/181966 2017-08-29 CC BY Taxon sampling unequally affects individual nodes in a phylogenetic tree: consequences for model gene tree construction in SwissTree Brigitte Boeckmann|David Dylus|Sebastien Moretti|Adrian Altenhoff|Clement-Marie Train|Evgenia Kriventseva|Lydie Bougueleret|Ioannis Xenarios|Eyal Privman|Christophe Dessimoz Swiss-Prot Group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland;|Department of Ecology and Evolution, University of Lausanne, Lausanne, Switzerland;|Vital-IT, SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland;|Department of Computer Science, ETH Zurich, Zurich, Switzerland;|Department of Genetic Medicine and Development, University of Geneva Medical School;|Institute of Evolution, University of Haifa, Haifa, Israel
http://dx.doi.org/10.1101/181784 2017-08-29 CC BY Covert Shift of Attention Modulates the Value Encoding in the Orbitofrontal Cortex Yang Xie|Chechang Nie|Tianming Yang Institute of Neuroscience, Chinese Academy of Sciences, China;|Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, China
http://dx.doi.org/10.1101/182212 2017-08-29 CC BY-ND Ecophylogenetics Reveals the Evolutionary Associations between Mammals and their Gut Microbiota Christopher Andrew Gaulke|Holly K. Arnold|Steven W. Kembel|James P. O'Dwyer|Thomas J. Sharpton Oregon State University;|Université du Québec a Montréal;|University of Illinois
http://dx.doi.org/10.1101/182170 2017-08-29 An individual differences approach to semantic cognition: Divergent effects of age on representation, retrieval and selection Paul Hoffman University of Edinburgh
http://dx.doi.org/10.1101/182196 2017-08-29 Mouse hepatitis virus nsp14 exoribonuclease activity is required for resistance to innate immunity James Brett Case|Yize Li|Ruth Elliott|Xiaotao Lu|Kevin W. Graepel|Nicole R. Sexton|Everett Clinton Smith|Susan R. Weiss|Mark R. Denison Vanderbilt University Medical Center;|University of Pennsylvania;|The University of the South
http://dx.doi.org/10.1101/181693 2017-08-29 CC BY-NC-ND CXCR4 involvement in neurodegenerative diseases Luke W. Bonham|Celeste M. Karch|Chun C. Fan|Chin Hong Tan|Ethan G. Geier|Yunpeng Wang|Natalie Wen|Iris J. Broce|Yi Li|Matthew J. Barkovich|Raffaele Ferrari|John Hardy|Parastoo Momeni|Gunter Hoeglinger|Ulrich Muller|Christopher P. Hess|Leo P. Sugrue|William P. Dillon|Gerard D. Schellenberg|Bruce L. Miller|Ole A. Andreassen|Anders M. Dale|A. James Barkovich|Jennifer S. Yokoyama|Rahul S. Desikan University of California, San Francisco;|Washington University in St. Louis;|University of California, San Diego;|University of Oslo;|University College London;|-;|Texas Tech University Health Science Center;|Technical University of Munich;|Justus-Liebig-Universität;|University of Pennsylvania Perelman School of Medicine;|Oslo University Hospital
http://dx.doi.org/10.1101/181917 2017-08-29 CC BY-NC Peptide Pattern Recognition for high-throughput protein sequence analysis and clustering Peter K. Busk Technical University of Denmark
http://dx.doi.org/10.1101/182030 2017-08-29 Kafka interfaces for composable streaming genomics pipelines Francesco Versaci|Luca Pireddu|Gianluigi Zanetti CRS4
http://dx.doi.org/10.1101/182089 2017-08-29 CC BY-NC-ND GVC: A superfast and universal genomic variant caller Zhongbo Zhang|Longhui Yin|Lihua Cao|Changling Liu|Lingtong Hao|Shaoping Ling Genome Wisdom Inc.
http://dx.doi.org/10.1101/182006 2017-08-29 CC BY-ND Deep grey matter volume loss drives disability worsening in multiple sclerosis Arman Eshaghi|Ferran Prados|Wallace Brownlee|Daniel R. Altmann|Carmen Tur|M. Jorge Cardoso|Floriana De Angelis|Steven H. van de Pavert|Niamh Cawley|Nicola De Stefano|M. Laura Stromillo|Marco Battaglini|Serena Ruggieri|Claudio Gasperini|Massimo Filippi|Maria A. Rocca|Alex Rovira|Jaume Sastre-Garriga|Hugo Vrenken|Cyra E. Leurs|Joep Killestein|Lukas Pirpamer|Christian Enzinger|Sebastien Ourselin|Claudia A. M. Gandini Wheeler-Kingshott|Declan Chard|Alan J. Thompson|Daniel C. Alexander|Frederik Barkhof|Olga Ciccarelli University College London;|University of Siena, Siena, Italy;|University of Rome Sapienza, Rome, Italy;|San Camillo-Forlanini Hospital, Rome, Italy;|San Raffaele Scientific Institute, Vita-Salute San Raffaele University, Milan, Italy;|Hospital Universitari Vall d'Hebron, Universitat Autonoma de Barcelona, Barcelona, Spain;|Universitat Autonoma de Barcelona, Barcelona, Spain;|Dept. of Neurology, MS Center Amsterdam, VU Univ. Medical Center, Amsterdam;|VU University Medical Center, Amsterdam, The Netherlands;|Medical University of Graz, Graz, Austria
http://dx.doi.org/10.1101/182162 2017-08-29 CC BY Cheater-altruist synergy in immunopathogenic ecological public goods games Bryce Morsky|Dervis Vural University of Notre Dame
http://dx.doi.org/10.1101/182287 2017-08-29 CC BY-NC-ND Functional characterization of 3D-protein structures informed by human genetic diversity Michael Hicks|Istvan Bartha|Julia di Iulio|Ruben Abagyan|J. Craig Venter|Amalio Telenti Human Longevity Inc.;|University of California, San Diego;|J. Craig Venter Institute
http://dx.doi.org/10.1101/182055 2017-08-29 "Protoribosome" as new game of life Jacques Demongeot University Grenoble Alpes
http://dx.doi.org/10.1101/180794 2017-08-29 A rare missense mutation in MYH6 confers high risk of coarctation of the aorta Thorsteinn Bjornsson|Rosa B. Thorolfsdottir|Gardar Sveinbjornsson|Patrick Sulem|Gudmundur L. Norddahl|Anna Helgadottir|Solveig Gretarsdottir|Audur Magnusdottir|Ragnar Danielsen|Emil L. Sigurdsson|Berglind Adalsteinsdottir|Sverrir I. Gunnarsson|Ingileif Jonsdottir|David O. Arnar|Hrodmar Helgason|Tomas Gudbjartsson|Daniel F. Gudbjartsson|Unnur Thorsteinsdottir|Hilma Holm|Kari Stefansson deCODE genetics/Amgen, Inc., Reykjavik, Iceland;|Department of Medicine, Landspitali University Hospital, Reykjavik, Iceland;|Department of Family Medicine, University of Iceland, Reykjavik, Iceland;|Department of Cardiology, Haukeland University Hospital, Bergen, Norway;|Division of Cardiovascular Medicine, Department of Medicine, University of Wisconsin, WI;|Children's Hospital, Landspitali University Hospital, Reykjavik, Iceland;|Department of Cardiothoracic Surgery, Landspitali University Hospital, Reyjavik, Iceland
http://dx.doi.org/10.1101/182113 2017-08-29 CC BY-NC-ND Exome sequencing and genotyping identify a rare variant in NLRP7 gene associated with ulcerative colitis. Alexandros Onoufriadis|Kristina Stone|Antreas Katsiamides|Ariella Amar|Yasmin Omar|Katrina de Lange|Kirstin M. Taylor|Jeffrey Barrett|Richard Pollok|Bu'Hussain Hayee|John C. Mansfield|Jeremy D. Sanderson|Michael A. Simpson|Christopher G. Mathew|Natalie Prescott King's College London;|Wellcome Trust Sanger Institute;|Sanger Institute;|St George's University of London;|King's College Hospital NHS Foundation Trust;|Newcastle University;|Guy's and St. Thomas' NHS Foundation Trust
http://dx.doi.org/10.1101/181834 2017-08-29 Fishing for New Bt Receptors in Diamondback Moth Yazhou Chen|Yuping Huang|Qun Liu|Jun Xu|Saskia Hogenhout|Yongping Huang|Anjiang Tan Institute of Plant Physiology and Ecology, Shanghai Institutes for Biological Sciences;|John Innes Centre
http://dx.doi.org/10.1101/182246 2017-08-29 CC BY-NC-ND Posterior parietal cortex represents sensory stimulus history and is necessary for its effects on behavior Athena Akrami|Charles D. Kopec|Mathew E. Diamond|Carlos D. Brody Princeton Neuroscience Institute, Princeton University; Howard Hughes Medical Institute;|Princeton Neuroscience Institute, Princeton University; HHMI;|Tactile Perception & Learning Laboratory, International School for Advanced Studies (SISSA)
http://dx.doi.org/10.1101/181578 2017-08-29 CC BY-NC-ND On the Structure and Mechanism of Two-Pore Channels Alexander F. Kintzer|Robert Stroud University of California, San Francisco
http://dx.doi.org/10.1101/182121 2017-08-29 CC BY-NC-ND Single-shot super-resolution total internal reflection fluorescence microscopy Min Guo|Panagiotis Chandris|John Paul Giannini|Adam J. Trexler|Robert Fischer|Jiji Chen|Harshad D. Vishwasrao|Ivan Rey-Suarez|Yicong Wu|Clare M. Waterman|George H. Patterson|Arpita Upadhyaya|Justin Taraska|Hari Shroff National Institutes of Health;|University of Maryland
http://dx.doi.org/10.1101/181925 2017-08-29 CC BY-NC-ND Topology and cooperative stability: the two master regulators of protein half-life in the cell Saurav Mallik|Sudip Kundu University of Calcutta
http://dx.doi.org/10.1101/181560 2017-08-29 CC BY-NC-ND Mechanical mapping of spinal cord development and repair in living zebrafish larvae using Brillouin microscopy Raimund Schluler|Stephanie Mollmert|Shada Abuhattum|Conrad Mockel|Conrad Zimmermann|Jurgen Czarske|Jochen Guck Technische Universität Dresden
http://dx.doi.org/10.1101/182303 2017-08-29 CC BY-NC-ND Tripolar mitosis drives the association between maternal genotypes of PLK4 and aneuploidy in human preimplantation embryos Rajiv C. McCoy|Louise J. Newnham|Christian S. Ottolini|Eva R. Hoffmann|Katerina Chatzimeletiou|Omar E. Cornejo|Qiansheng Zhan|Nikica Zaninovic|Zev Rosenwaks|Dmitri A. Petrov|Zachary P. Demko|Styrmir Sigurjonsson|Alan H. Handyside Department of Genome Sciences, University of Washington, Seattle, WA 98195, USA;|Genome Damage and Stability Centre, University of Sussex, Brighton BN1 9RQ, UK;|School of Biosciences, University of Kent, Canterbury CT2 7NJ, UK;|Genome Damage & Stability Ctr., Sussex Univ.; Dept. of Cell. & Mol. Med., Copenhagen Univ.;|Section of Reprod. Med., First Dept. of Obstetrics & Gynaecology, Aristotle Univ. Med. School;|School of Biological Sciences, Washington State University;|Ronald O. Perelman and Claudia Cohen Center for Reprod. Medicine, Weill Cornell Medicine;|Department of Biology, Stanford University;|Natera, Inc., San Carlos, CA, USA;|School of Biosciences, University of Kent; Illumina, Capital Park Fulbourn, Cambridge, UK
http://dx.doi.org/10.1101/182071 2017-08-29 Plant Biology CC BY Photoperiodic control of the Arabidopsis proteome reveals a translational coincidence mechanism Daniel Seaton|Alexander Graf|Katja Baerenfaller|Mark Stitt|Andrew Millar|Wilhelm Gruissem University of Edinburgh;|ETH Zurich;|Max Planck Institute of Molecular Plant Physiology
http://dx.doi.org/10.1101/181891 2017-08-29 Microbiology Anaerobic methanotrophic communities thrive in deep submarine permafrost Matthias Winkel|Julia Mitzscherling|Pier P. Overduin|Fabian Horn|Maria Winterfeld|Ruud Rijkers|Mikhail N. Grigoriev|Christian Knoblauch|Kai Mangelsdorf|Dirk Wagner|Susanne Liebner GFZ - German Research Centre for Geosciences;|Alfred Wegener Institute, Helmholtz Centre for Polar and Marine Research;|Melnikov Permafrost Institute;|Institute of Soil Science, Universität Hamburg
http://dx.doi.org/10.1101/181651 2017-08-29 Genomics CC BY Gene co-expression networks in whole blood implicate multiple interrelated molecular pathways in obese asthma Damien C. Croteau-Chonka|Zhanghua Chen|Kathleen C. Barnes|Albino Barraza-Villarreal|Juan C. Celedon|W. James Gauderman|Frank D. Gilliland|Jerry A. Krishnan|Andrew H. Liu|Stephanie J. London|Fernando D. Martinez|Joshua Millstein|Edward T. Naureckas|Dan L. Nicolae|Steven R. White|Carole Ober|Scott T. Weiss|Benjamin A. Raby Brigham and Womens Hospital and Harvard Medical School;|University of Southern California;|University of Colorado School of Medicine, Anschutz Medical Campus;|Mexico National Institute of Public Health;|Childrens Hospital of Pittsburgh of the University of Pittsburgh Medical Center;|University of Illinois at Chicago;|National Jewish Health and University of Colorado School of Medicine;|National Institute of Environmental Health Sciences, U.S. National Institutes of Health;|University of Arizona;|University of Chicago
http://dx.doi.org/10.1101/181610 2017-08-29 Bioinformatics CC BY-NC-ND BITE: an R package for biodiversity analyses Marco Milanesi|Stefano Capomaccio|Elia Vajana|Lorenzo Bomba|Jose Fernando Garcia|Paolo Ajmone-Marsan|Licia Colli Universita Cattolica del Sacro Cuore, Ist. Zootecnica, Piacenza, Italy;|UNESP, FMVA, Aracatuba (SP), Brazil
http://dx.doi.org/10.1101/181768 2017-08-29 Microbiology CC BY-NC-ND Dominance of ST131 Escherichia coli carrying blaCTX-M in patients with bloodstream infections caused by cephalosporin-resistant strains in Australia, New Zealand and Singapore: whole genome analysis of isolates from a randomised trial Patrick Harris|Nouri Ben Zakour|Leah W. Roberts|Alex M. Wailan|Hosam M. Zowawi|Paul A. Tambyah|David C. Lye|Roland Jureen|Tau H. Lee|Ezlyn Izharuddin|Mo Yin|David Looke|Naomi Runnegar|Benjamin Rogers|Hasan Bhally|Amy Crowe|Mark A. Schembri|Scott Beatson|David L. Paterson University of Queensland;|National University Singapore;|Tan Tock Seng Hospital;|National University Hospital Singapore;|Princess Alexandria Hospital;|Monash University;|North Shore Hospital Auckland;|St. Vincent's Hospital Melbourne;|The University of Queensland
http://dx.doi.org/10.1101/181909 2017-08-29 Evolutionary Biology Hemimetabolous genomes reveal molecular basis of termite eusociality Mark C. Harrison|Evelien Jongepier|Hugh M. Robertson|Nicolas Arning|Tristan Bitard-Feildel|Hsu Chao|Christopher P. Childers|Huyen Dinh|Harshavardhan Doddapaneni|Shannon Dugan|Johannes Gowin|Carolin Greiner|Yi Han|Haofu Hu|Daniel S. T. Hughes|Ann-Kathrin Huylmans|Carsten Kemena|Lukas P. M. Kremer|Sandra L. Lee|Alberto Lopez-Ezquerra|Ludovic Mallet|Jose M. Monroy-Kuhn|Annabell Moser|Shwetha C. Murali|Donna M. Muzny|Saria Otani|Maria-Dolors Piulachs|Monica Poelchau|Jiaxin Qu|Florentine Schaub|Ayako Wada-Katsumata|Kim C. Worley|Qiaolin Xie|Guillem Ylla|Michael Poulsen|Richard A. Gibbs|Coby Schal|Stephen Richards|Xavier Belles|Judith Korb|Erich Bornberg-Bauer University of Muenster;|Univ. of Illinois;|Baylor College of Medicine;|USDA-ARS, National Agricultural Library;|University of Freiburg, University of Osnabrueck;|University of Copenhagen;|Institute of Science and Technology Austria;|University of Freiburg;|CSIC-University Pompeu Fabra, Barcelona;|North Carolina State University;|Beijing Genomics Institute (BGI) - Shenzhen
http://dx.doi.org/10.1101/181719 2017-08-29 Genetics A Caenorhabditis elegans model of adenylosuccinate lyase deficiency reveals neuromuscular and reproductive phenotypes of distinct etiology Adam R. Fenton|Haley N. Janowitz|Melanie R. McReynolds|Wenqing Wang|Wendy Hanna-Rose The Pennsylvania State University
http://dx.doi.org/10.1101/181172 2017-08-29 Plant Biology CC BY-NC-ND Vegetative compatibility groups explain variation in the virulence of Verticillium dahliae on strawberry Rong Fan|Helen Cockerton|Andrew D. Armitage|Helen Bates|Emma Cascant-Lopez|Laima Antanaviciute|Xiangming Xu|Xiaoping Hu|Richard J. Harrison NIAB EMR;|Northwest A&F
http://dx.doi.org/10.1101/181974 2017-08-29 Biochemistry CC BY-NC-ND A high-throughput analysis method of microdroplet PCR coupled with fluorescence spectrophotometry Yanan Du|Xiao Zhao|Binan Zhao|Yan Xu|Wei Shi|Fangfang Ren|Yangyang Wu|Ruili Hu|Xiaorui Fan|Qi Zhang|Xiaoxia Zhang|Bin Shi|Huanzhen Zhao|Kai Zhao Shanghai Normal University;|Shanghai Academy of Agricultural Sciences;|XuZhou Medical University;|Shanghai Bio-full Biotech Co., Ltd.
http://dx.doi.org/10.1101/181446 2017-08-29 Systems Biology CC BY-ND A Portable Software Library that Implements the Gillespie Direct Method Herbert M. Sauro University of Washington
http://dx.doi.org/10.1101/181727 2017-08-29 Genetics Mitochondrial sirtuins sir-2.2 and sir-2.3 regulate lifespan in C. elegans Sarah M. Chang|Melanie R. McReynolds|Wendy Hanna-Rose The Pennsylvania State University
http://dx.doi.org/10.1101/182550 2017-08-30 Bioinformatics CC BY Phylogenetic approaches to identifying fragments of the same gene, with application to the wheat genome Ivana Pilizota|Henning Redestig|Christophe Dessimoz University College London;|Bayer CropScience;|University of Lausanne
http://dx.doi.org/10.1101/182527 2017-08-30 Genomics CC BY-ND SuperDCA for genome-wide epistasis analysis Santeri Puranen|Maiju Pesonen|Johan Pensar|Ying Ying Xu|John A. Lees|Stephen D. Bentley|Nicholas J. Croucher|Jukka Corander|Erik Aurell Aalto University;|University of Helsinki;|Wellcome Trust Sanger Institute;|Imperial College London;|KTH The Royal Institute of Technology
http://dx.doi.org/10.1101/182618 2017-08-30 Cell Biology CC BY-NC-ND Phosphatase PP2A and microtubule pulling forces disassemble centrosomes during mitotic exit Stephen J. Enos|Martin Dressler|Beatriz Ferreira Gomes|Anthony A. Hyman|Jeffrey B. Woodruff Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/182543 2017-08-30 Microbiology Synergy of Quorum Quenching Enzyme and Quorum Sensing Inhibitor in Inhibiting P. aeruginosa Quorum Sensing July Fong|Chaodong Zhang|Renliang Yang|Zhao Zhi Boo|Soon Keat Tan|Thomas E. Nielsen|Michael Givskov|Bin Wu|Haibin Su|Liang Yang Nanyang Technological University;|University of Copenhagen
http://dx.doi.org/10.1101/182535 2017-08-30 Cell Biology Resolution of Reprogramming Transition States by Single Cell RNA-Sequencing Lin Guo|Xiaoshan Wang|Mingwei Gao|Lihui Lin|Junqi Kuang|Yuanbang Mai|Fang Wu|He Liu|Jiaqi Yang|Shilong Chu|Hong Song|Yujian Liu|Jiadong Liu|Jinyong Wang|Guangjin Pan|Andrew P. Hutchins|Jing Liu|Jiekai Chen|Duanqing Pei GIBH, CAS
http://dx.doi.org/10.1101/182279 2017-08-30 Developmental Biology CC BY-NC-ND Generation, selection and transcriptomic profiling of human neuromesodermal and spinal cord progenitors in vitro Laure Verrier|Lindsay Davidson|Marek Gierlinski|Kate G. Storey School of Life Sciences, University of Dundee
http://dx.doi.org/10.1101/181453 2017-08-30 Molecular Biology CC BY-NC-ND Imaging specific cellular glycan structures using glycosyltransferases via click chemistry Zhengliang Wu|Anthony Person|Matthew Anderson|Barbara Burroughs|Timothy Tatge|Yonglong Zou|Liangchun Wang|Todd Geders|Robert Sackstein R&D systems/Bio-techne;|University of Georgia;|Harvard Medical School
http://dx.doi.org/10.1101/182626 2017-08-30 Cell Biology A novel VPS33A interaction motif is a master-switch controlling the inhibition and promotion of mammalian Stx17 interactions with SNAP29 and VAMP7 during autophagy Rebecca S. Saleeb|Deirdre M. Kavanagh|Alison R. Dun|Paul A. Dalgarno|Rory R. Duncan Heriot-Watt University;|University of Birmingham
http://dx.doi.org/10.1101/182428 2017-08-30 Bioinformatics CC BY-NC-ND ApoplastP: prediction of effectors and plant proteins in the apoplast using machine learning Jana Sperschneider|Peter N. Dodds|Karam B. Singh|Jennifer M. Taylor CSIRO
http://dx.doi.org/10.1101/181941 2017-08-30 Bioinformatics CC BY-NC PrimerServer: a high-throughput primer design and specificity-checking platform Tao Zhu|Chengzhen Liang|Zhigang Meng|Yanyan Li|Yayu Wu|Sandui Guo|Rui Zhang Biotechnology Research Institute, Chinese Academy of Agricultural Sciences;|Hunan University
http://dx.doi.org/10.1101/182220 2017-08-30 Neuroscience CC BY-NC-ND Neurons in primate entorhinal cortex represent gaze position in multiple spatial reference frames Miriam L. R. Meister|Elizabeth A. Buffalo Washington National Primate Research Center
http://dx.doi.org/10.1101/182261 2017-08-30 Genomics CC BY-NC-ND Novel Quantitative ChIP-seq Methods Measure Absolute Fold-Change in ER Binding Upon Fulvestrant Treatment Michael J Guertin|Florian Markowetz|Andrew N Holding University of Virginia;|University of Cambridge
http://dx.doi.org/10.1101/182378 2017-08-30 Evolutionary Biology Towards physical principles of biological evolution Mikhail I Katsnelson|Yuri I. Wolf|Eugene V. Koonin Radboud University;|NCBI/NLM/NIH
http://dx.doi.org/10.1101/182410 2017-08-30 Evolutionary Biology Inevitability of the emergence and persistence of genetic parasites caused by thermodynamic instability of parasite-free states Eugene V. Koonin|Yuri I. Wolf|Mikhail I Katsnelson NCBI/NLM/NIH;|Radboud University
http://dx.doi.org/10.1101/182667 2017-08-30 CC BY-NC-ND Preferential cholinergic excitation of corticopontine neurons Arielle L Baker|Ryan J O'Toole|Allan T Gulledge Dartmouth College;|Geisel School of Medicine at Dartmouth College
http://dx.doi.org/10.1101/182204 2017-08-30 Cell Biology TRIP6 inhibits the Hippo signaling pathway in response to tension at adherens junctions Shubham Dutta|Sebastian Mana-Capelli|Murugan Paramasivam|Ishani Dasgupta|Heather Cirka|Kris Billiar|Dannel McCollum University of Massachusetts Medical School;|Worcester Polytechnic Institute
http://dx.doi.org/10.1101/182709 2017-08-30 Evolutionary Biology CC BY-NC-ND Molecular Analysis of Parasites in the Choreocolacaceae (Rhodophyta) Reveals a Reduced Harveyella mirabilis Plastid Genome and Supports the Transfer of Genera to the Rhodomelaceae (Rhodophyta) Eric D Salomaki|Gary W Saunders|Christopher E Lane University of Rhode Island;|University of New Brunswick
http://dx.doi.org/10.1101/182790 2017-08-30 Ecology CC BY Geographic variation in sleep and metabolic function is associated with latitude and temperature Elizabeth Brown|Joshua Torres|Ryan A. Bennick|Valerie Rozzo|Arianna Kerbs|Justin R. DiAngelo|Alex Keene Florida Atlantic University;|Penn State Berks
http://dx.doi.org/10.1101/182741 2017-08-30 Genetics CC BY-NC-ND Discovering genetic interactions bridging pathways in genome-wide association studies Gang Fang|Wen Wang|Vanja Paunic|Hamed Heydari|Michael Costanzo|Xiaoye Liu|Xiaotong Liu|Benjamin Oately|Michael Steinbach|Brian Van Ness|Eric E. Schadt|Nathan D. Pankratz|Charlie Boone|Vipin Kumar|Chad L. Myers Icahn School of Medicine at Mount Sinai;|University of Minnesota;|University of Toronto
http://dx.doi.org/10.1101/180034 2017-08-30 Neuroscience Transcriptional Architecture of Synaptic Communication Delineates Cortical GABAergic Neuron Identity Anirban Paul|Megan Crow|Ricardo Raudales|Jesse Gillis|Z. Josh Huang Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/182733 2017-08-30 Biochemistry Skin biomarkers for cystic fibrosis: a potential noninvasive approach for patient screening. Cibele Z. Esteves|Leticia A. Dias|Estela O. Lima|Diogo Noin de Oliveira|Carlos F. O. R. Melo|Carla Cristina S. Gomez|Jose D. Ribeiro|Antonio Fernando Ribeiro|Carlos Emilio Levy|Rodrigo R. Catharino University of Campinas
http://dx.doi.org/10.1101/182758 2017-08-30 Neuroscience Structural and functional diversity of a dense sample of retinal ganglion cells J. Alexander Bae|Shang Mu|Jinseop S. Kim|Nicholas L. Turner|Ignacio Tartavull|Nico Kemnitz|Chris S. Jordan|Alex D. Norton|William M. Silversmith|Rachel Prentki|Marissa Sorek|Celia David|Devon L. Jones|Doug Bland|Amy L. R. Sterling|Jungman Park|Kevin L. Briggman|H. Sebastian Seung Princeton University;|Korea Brain Research Institute;|WiredDifferently, Inc.;|KT;|Max Planck Institute for Medical Research;|-
http://dx.doi.org/10.1101/182717 2017-08-30 Genetics CC BY-NC-ND Elucidating the genetic architecture of reproductive ageing in the Japanese population Momoko Horikoshi|Felix Day|Yoichiro Kamatani|Makoto Hirata|Masato Akiyama|Koichi Matsuda|Hollis Wright|Carlos Toro|Sergio Ojeda|Alejandro Lomniczi|Michiaki Kubo|Ken Ong|John Perry RIKEN Centre for Integrative Medical Sciences;|University of Cambridge;|RIKEN Center for Integrative Medical Sciences;|The University of Tokyo;|Oregon Health and Sciences University
http://dx.doi.org/10.1101/182436 2017-08-30 Microbiology CC BY HPeV-3 predominated among Parechovirus A positive infants in the summer of 2013-2014 in Queensland, Australia. Donna M. McNeale|Claire Y. T. Wang|Katherine E. Arden|Ian M. Mackay Centre for Children's Health Research, University of Queensland, South Brisbane, Queensland
http://dx.doi.org/10.1101/182675 2017-08-30 Biophysics Quantitation of brain tumour microstructure response to Temozolomide therapy using non-invasive VERDICT MRI Tom A. Roberts|Harpreet Hyare|Giulia Agliardi|Ben Hipwell|Angela d'Esposito|Andrada Ianus|James O. Breen-Norris|Rajiv Ramasawmy|Valerie Taylor|David Atkinson|Shonit Punwani|Mark F. Lythgoe|Bernard Siow|Sebastian Brandner|Jeremy Rees|Eleftheria Panagiotaki|Daniel C. Alexander|Simon Walker-Samuel University College London
http://dx.doi.org/10.1101/182725 2017-08-30 Evolutionary Biology Ancient symbiosis confers desiccation resistance to stored grain pest beetles Tobias Engl|Nadia Eberl|Carla Gorse|Theresa Krueger|Thorsten H.-P. Schmidt|Rudy Plarre|Cornel Adler|Martin Kaltenpoth Johannes Gutenberg University, Mainz;|Max Planck Institute for Chemical Ecology;|Federal Institute for Materials Research and Testing;|Julius Kuehn Institute
http://dx.doi.org/10.1101/182642 2017-08-30 Cancer Biology CC BY-NC-ND Pan-cancer screen for mutations in non-coding elements with conservation and cancer specificity reveals correlations with expression and survival Henrik Hornshoj|Morten Muhlig Nielsen|Nicholas A. Sinnott-Armstrong|Micha P. Switnicki|Malene Juul Rasmussen|Tobias Madsen|Richard Sallari|Manolis Kellis|Torben Orntoft|Asger Hobolth|Jakob Skou Pedersen Department of Molecular Medicine, Aarhus University Hospital;|Computer Science & Artificial Intelligence Laboratory, Massachusetts Institute of Technology;|Bioinformatics Research Centre, Aarhus University
http://dx.doi.org/10.1101/182519 2017-08-30 Evolutionary Biology CC BY Selection-like biases emerge in population models with recurrent jackpot events Oskar Hallatschek University of California, Berkeley
http://dx.doi.org/10.1101/140897 2017-08-30 Neuroscience CC BY-NC-ND Serial quantification of brain oxygenation in acute stroke using streamlined-qBOLD Alan J. Stone|George W. J. Harston|Davide Carone|Thomas W. Okell|James Kennedy|Nicholas P. Blockley Wellcome Centre for Integrative Neuroimaging, FMRIB, NDCN, University of Oxford;|Acute Vascular Imaging Centre and Acute Stroke Programme, University of Oxford
http://dx.doi.org/10.1101/182501 2017-08-30 Cancer Biology Co-mutation and exclusion analysis in human tumors, a means for cancer biology studies and treatment design Soledad Ochoa|Elizabeth Martinez-Perez|Diego Javier Zea|Miguel Angel Molina-Vila|Cristina Marino-Buslje Fundación Instituto Leloir;|Hospital Universitario Quirón Dexeus
http://dx.doi.org/10.1101/182444 2017-08-30 Neuroscience CC BY The modulation of neural gain facilitates a transition between functional segregation and integration in the brain James M. Shine|Matthew J. Aburn|Michael Breakspear|Russell A. Poldrack Stanford University;|QIMR Berghofer;|Queensland Berghofer Medical Research Institute, Brisbane, Australia.
http://dx.doi.org/10.1101/182402 2017-08-30 Neuroscience CC BY AFQ-Browser: Supporting reproducible human neuroscience research through browser-based visualization tools Jason D. Yeatman|Adam Richie-Halford|Josh K. Smith|Ariel Rokem The University of Washington
http://dx.doi.org/10.1101/180703 2017-08-30 Neuroscience CC BY-NC-ND Early alterations of social brain networks in young children with autism Holger Franz Sperdin|Ana Coito|Nada Kojovic|Tonia Anahi Rihs|Reem Kais Jan|Martina Franchini|Gijs Plomp|Serge Vulliemoz|Stephan Eliez|Christoph Martin Michel|Marie Schaer University of Geneva;|University of Fribourg;|University Hospitals of Geneva
http://dx.doi.org/10.1101/182683 2017-08-30 Biophysics CC BY Water-mediated interactions enable smooth substrate transport in a bacterial efflux pump Attilio Vittorio Vargiu|Venkata Krishnan Ramaswamy|Ivana Malvacio|Giuliano Malloci|Ulrich Kleinekatofer|Paolo Ruggerone University of Cagliari;|Jacobs University Bremen
http://dx.doi.org/10.1101/182600 2017-08-30 Cancer Biology CC BY-NC-ND DNA methylation profiling of breast cancer cell lines along the epithelial mesenchymal spectrum - implications for the choice of circulating tumour DNA methylation markers Anh Viet-Phuong Le|Marcin Szaumkessel|Tuan Zea Tan|Jean-Paul Thiery|Erik Walter Thompson|Alexander Dobrovic Olivia Newton-John Cancer Research Institute;|Cancer Science Institute of Singapore;|Inst. of Health & Biomedical Innovation and School of Biomedical Sciences, Queensland Univ.
http://dx.doi.org/10.1101/182584 2017-08-30 Physiology Inhibition of granulocyte ROS production by opioids prevents regeneration Elodie Labit|Lise Rabiller|Christophe Guissard|Mireille Andre|Christine Rampon|Corinne Barreau|Beatrice Cousin|Audrey Carriere|Margaux Raffin|Gilles Mithieux|Mohamad Ala Eddine|Bernard Pipy|Anne Lorsignol|Sophie Vriz|Cecile Dromard|Louis Casteilla UMR STROMALab; Universite de Toulouse, CNRS ERL5311, EFS, INP-ENVT, Inserm U1031;|Universite Paris Diderot, Sorbonne Paris Cite, CIRB CNRS UMR 7241; INSERM U1050;|Inserm U1213 - France Universite de Lyon - France Universite Lyon 1, France;|UMR 152-Pharma-Dev, Universite de Toulouse, France
http://dx.doi.org/10.1101/182592 2017-08-30 Cell Biology CC BY-NC-ND Drosophila neural stem cells are polarized by their daughter cells Nicolas Loyer|Jens Januschke University of Dundee School of Life Sciences
http://dx.doi.org/10.1101/182386 2017-08-30 Plant Biology CC BY-ND Novel Computed Tomography-based tools reliably quantify plant reproductive investment Yannick M Staedler|Thomas Kreisberger|Sara Manafzadeh|Marion Chartier|Stephan Handschuh|Susanne Pamperl|Susanne Sontag|Ovidiu Paun|Juerg Schoenenberger University of Vienna;|University of Veterinary Medicine Vienna
http://dx.doi.org/10.1101/182634 2017-08-30 Systems Biology A Mathematical Model of the Phosphoinositide Pathway Daniel Vigario Olivenca|Inna Uliyakina|Luis L. Fonseca|Margarida Amaral|Eberhard Voit|Francisco Rodrigues Pinto FCUL - BIOISI;|Georgia Institute of Technology
http://dx.doi.org/10.1101/182923 2017-08-31 Cellomics approach for high-throughput functional annotation of Caenorhabditis elegans neural network Wataru Aoki|Hidenori Matsukura|Yuji Yamauchi|Haruki Yokoyama|Koichi Hasegawa|Ryoji Shinya|Mitsuyoshi Ueda Kyoto University;|Chubu University;|Meiji University
http://dx.doi.org/10.1101/183053 2017-08-31 Biophysics Structure-kinetic-thermodynamic relationships for peptide secondary structure formation identified from transition network properties Joseph F. Rudzinski|Tristan Bereau Max Planck Institute for Polymer Research
http://dx.doi.org/10.1101/182766 2017-08-31 Cell Biology CC BY-ND Automated cell cycle and cell size measurements for single-cell gene expression studies Anissa Guillemin|Angelique Richard|Sandrine Gonin-Giraud|Olivier Gandrillon Laboratory of Biology and Modelling of the Cell
http://dx.doi.org/10.1101/182980 2017-08-31 Cancer Biology CC BY-NC-ND How asbestos drives the tissue towards tumors: YAP activation, macrophage and mesothelial precursor recruitment, RNA editing and somatic mutations Hubert Rehrauer|Licun Wu|Walter Blum|Laszlo Pecze|Thomas Henzi|Veronique Serre-Beinier|Catherine Aquino|Bart Vrugt|Marc de Perrot|Beat Schwaller|Emanuela Felley-Bosco ETH Zurich and University of Zurich;|University of Toronto;|University of Fribourg;|University Hospitals of Geneva;|University Hospital Zurich
http://dx.doi.org/10.1101/183012 2017-08-31 Microbiology Streptolysin-induced endoplasmic reticulum stress promotes group A streptococcal in vivo biofilm formation and necrotizing fasciitis Anuradha Vajjala|Debabrata Biswas|Kelvin Chong|Wei Hong Tay|Emanuel Hanski|Kimberly Kline Nanyang Technological University;|National University of Singapore;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/182972 2017-08-31 Biophysics CC BY-NC-ND Single-cell analysis of early antiviral gene expression reveals a determinant of stochastic IFNB1 expression Sultan Doganay|Maurice Youzong Lee|Alina Baum|Jessie Peh|Sun-Young Hwang|Joo-Yeon Yoo|Paul J. Hergenrother|Adolfo Garcia-Sastre|Sua Myong|Taekjip Ha University of Illinois;|Stanford University;|Regeneron Pharmaceuticals;|Pohang University of Science and Technology;|Icahn School of Medicine at Mount Sinai;|Johns Hopkins University
http://dx.doi.org/10.1101/182451 2017-08-31 Genetics Local and global chromatin interactions are altered by large genomic deletions associated with human brain development Ying Zhang|Xianglong Zhang|Xiaowei Zhu|Carolin Purmann|Michael Haney|Thomas Ward|Jie Yao|Sherman Weissman|Alexander Urban Icahn School of Medicine at Mount Sinai;|Stanford University School of Medicine;|Yale University School of Medicine;|Yale University
http://dx.doi.org/10.1101/182964 2017-08-31 Plant Biology CC BY-NC-ND Functional characterization and discovery of modulators of SbMATE, the agronomically important aluminium tolerance transporter from Sorghum bicolor Rupak Doshi|Aaron P. McGrath|Miguel A. Pineros|Paul Szewczyk|Denisse M. Garza|Leon V. Kochian|Geoffrey Chang Skaggs School of Pharmacy & Pharmaceutical Sciences, University of California at San Diego;|Robert W. Holley Center for Agriculture and Health, USDA ARS;|Global Institute for Food Security, University of Saskatchewan, Saskatoon, Canada
http://dx.doi.org/10.1101/183137 2017-08-31 Biochemistry CC BY Hsf1 and Hsp70 constitute a two-component feedback loop that regulates the yeast heat shock response Joanna Krakowiak|Xu Zheng|Nikit Patel|Jayamani Anandhakumar|Kendra Valerius|David S. Gross|Ahmad S. Khalil|David Pincus Whitehead Institute for Biomedical Research;|Boston University;|Louisiana State University Health Sciences Center
http://dx.doi.org/10.1101/182576 2017-08-31 Cell Biology CC BY Cryo-electron tomography reveals that dynactin recruits a team of dyneins for processive motility Danielle A. Grotjahn|Saikat Chowdhury|Yiru Xu|Richard J. McKenney|Trina Schroer|Gabriel Lander The Scripps Research Institute;|University of California, Davis;|Johns Hopkins University
http://dx.doi.org/10.1101/182808 2017-08-31 Neuroscience Neurexin and Neuroligin-based adhesion complexes drive axonal arborisation growth independent of synaptic activity William D. Constance|Amrita Mukherjee|Yvette E. Fisher|Sinziana Pop|Eric Blanc|Yusuke Toyama|Darren W. Williams King's College London and National University of Singapore;|King's College London;|Harvard Medical School;|Berlin Institute of Health;|National University of Singapore
http://dx.doi.org/10.1101/181750 2017-08-31 Systems Biology CC BY-NC-ND Mapping DNA damage-dependent genetic interactions in yeast via orgy mating and barcode fusion genetics J. Javier Diaz-Mejia|Joseph C. Mellor|Atina Cote|Attila Balint|Brandon Ho|Pritpal Bansal|Fatemeh Shaeri|Marinella Gebbia|Jochen Weile|Marta Verby|Anna Karkhanina|YiFan Zhang|Cassandra Wong|Justin Rich|D'Arcy Prendergast|Gaurav Gupta|Sedide Ozturk|Daniel Durocher|Grant W. Brown|Frederick P. Roth Donnelly Ctr., Dept. of Molec. Genet., Comp Sci., Univ. of Toronto; LTRI Mt. Sinai Hosp.;|Donnelly Ctr., Dept. of Molec. Genet., Univ. of Toronto; LTRI Mt. Sinai Hosp.; seqWell, Inc.;|Donnelly Ctr., Dept. of Biol. Chem., Univ. of Toronto; Dept. of Cell Mol Med, Univ. Copenhagen;|Donnelly Centre, Dept. of Biol. Chem., Univ. of Toronto;|Donnelly Centre, Dept. of Molec. Genet., Univ. of Toronto; LTRI Mt. Sinai Hosp. Toronto;|Donnelly Centre, Dept. of Molec. Genet., Univ. of Toronto; LTRI Mt. Sinai Hosp.;|Donnelly Centre, Dept. of Molec. Genet., Univ. of Toronto;|LTRI Mt. Sinai Hosp. Toronto; Canada;|Harvard Med. School. MA USA; Roche Sequencing Solutions, CA USA;|Univ. of Toronto; LTRI Mt. Sinai Hosp Toronto; Ins. Adv. Res., Canada; Harvard Med. School
http://dx.doi.org/10.1101/182816 2017-08-31 Developmental Biology CC BY-NC-ND Minor spliceosome inactivation in the developing mouse cortex causes self-amplifying radial glial cell death and microcephaly. Marybeth Baumgartner|Anouk M. Olthof|Katery C. Hyatt|Christopher Lemoine|Kyle Drake|Nikita Sturrock|Nhut Nguyen|Sahar Al Seesi|Rahul N. Kanadia University of Connecticut;|University of Illinois;|Harvard Medical School;|University of Connecticut Health Center
http://dx.doi.org/10.1101/183244 2017-08-31 Metabolite profile and mitochondrial energetics characterize poor early recovery of muscle mass following hind limb unloading in old mice Xiaolei Zhang|Michelle B Trevino|Miao Wang|Stephen J Gardell|Julio E Ayala|Xianlin Han|Daniel P Kelly|Bret H Goodpaster|Rick B Vega|Paul M Coen Translational Research Institute for Metabolism and Diabetes, Florida Hospital;|Sanford Burnham Prebys Medical Discovery Institute;|Florida Hospital
http://dx.doi.org/10.1101/183418 2017-08-31 Correction of autoimmune IL2RA mutations in primary human T cells using non-viral genome targeting Theodore L Roth|Ruby Yu|Eric Shifrut|Joseph Hiatt|Han Li|Kathrin Schumann|Victoria Tobin|Andrea M Ferris|Jeff Chen|Jean-Nicolas Schickel|Laurence Pellerin|David Carmody|Gorka Alkorta-Aranburu|Daniela Del Gaudio|Min Cho|Hiroyuki Matsumoto|Montse Morell|Ying Mao|David Nguyen|Rolen Quadros|Channabasavaiah Gurumurthy|Baz Smith|Michael Haugwitz|Stephen H. Hughes|Jonathan Weissman|Andrew P May|Gary Kupfer|Siri Greeley|Rosa Bacchetta|Eric Meffre|Maria Grazia Roncarolo|Neil Romberg|Kevan C Herold|Manuel D Leonetti|Alexander Marson UCSF;|NIH;|Yale;|Stanford;|University of Chicago;|Chan Zuckerberg BioHub;|Takara Bio;|Nebraska;|University of Pennsylvania
http://dx.doi.org/10.1101/183343 2017-08-31 Conserving amphibians in the face of land development: integrating field experiments as a planning tool Alexander J. Felson Yale University
http://dx.doi.org/10.1101/183442 2017-08-31 Functional traits and community composition: multilevel models outperform community-weighted means Jesse E D Miller|Anthony Ives|Ellen Damschen University of California, Davis;|UW-Madison;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/183269 2017-08-31 CC BY-NC-ND Validation of RT-qPCR approaches to monitor Pseudomonas syringae gene expression during infection and exposure to pattern-triggered immunity Amy Smith|Amelia Lovelace|Brian Kvitko University of Georgia Department of Plant Pathology;|University of Georgia
http://dx.doi.org/10.1101/183384 2017-08-31 CC BY-NC-ND Semi-Parametric Covariate-Modulated Local False Discovery Rate For Genome-Wide Association Studies Rong Zablocki|Richard Levine|Andrew Schork|Shujing Xu|Yunpeng Wang|Chun Fan|Wesley Thompson University of California at San Diego;|San Diego State University;|University of Oslo, Norway
http://dx.doi.org/10.1101/183350 2017-08-31 CC BY-ND Rosetta Antibody Design (RAbD): A General Framework for Computational Antibody Design Jared Adolf-Bryfogle|Oleks Kalyuzhniy|Michael Kubitz|Brian D. Weitzner|Xiaozhen Hu|Yumiko Adachi|William R. Schief|Roland L. Dunbrack Fox Chase Cancer Center;|The Scripps Research Institute;|University of Washington
http://dx.doi.org/10.1101/182840 2017-08-31 Applying the auxin-inducible degradation (AID) system for rapid protein depletion in mammalian cells Bram G. Lambrus|Tyler C. Moyer|Andrew Holland Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/183061 2017-08-31 Recovering genomic clusters of secondary metabolites from lakes: a Metagenomics 2.0 approach Rafael Cuadrat|Danny Ionescu|Alberto M. R. Davila|Hans-Peter Grossart MPI;|Leibniz-Institute for Freshwater Ecology and Inland Fisheries;|Oswaldo Cruz Institute
http://dx.doi.org/10.1101/182998 2017-08-31 CC BY-NC-ND CancerDiscover: A configurable pipeline for cancer prediction and biomarker identification using machine learning framework Akram Mohammed|Greyson Biegert|Jiri Adamec|Tomas Helikar University of Nebraska-Lincoln
http://dx.doi.org/10.1101/183194 2017-08-31 CC BY-NC-ND Fitting mathematical models of biochemical pathways to steady state perturbation response data without simulating perturbation experiments Tapesh Santra Systems Biology Ireland, School of Medicine, University College Dublin
http://dx.doi.org/10.1101/183236 2017-08-31 CC BY-NC A minimal model of protein allocation during phototrophic growth Marjan Faizi|Tomas Zavrel|Cristina Loureiro|Jan Cerveny|Ralf Steuer Humboldt-University of Berlin;|Global Change Research Institute CAS;|Polytechnic University of Valencia
http://dx.doi.org/10.1101/183376 2017-08-31 Transcriptomes of major renal collecting-duct cell types in mouse identified by single-cell RNA-Seq Lihe Chen|Jae Wook Lee|Chung-Lin Chou|Anilkumar Nair|Maria Agustina Battistone|Teodor Paunescu|Maria Mekulova|Sylvie Breton|Jill W. Verlander|Susan Wall|Dennis Brown|Maurice B. Burg|Mark A. Knepper NHLBI;|National Cancer Center, Goyang, Gyeonggi-do, Republic of Korea;|Harvard Medical School;|University of Florida College of Medicine;|Emory University School of Medicine
http://dx.doi.org/10.1101/183210 2017-08-31 CC BY Detection and accurate False Discovery Rate control of differentially methylated regions from Whole Genome Bisulfite Sequencing Keegan Korthauer|Sutirtha Chakraborty|Yuval Benjamini|Rafael A. Irizarry Dana-Farber Cancer Institute;|Novartis;|Hebrew University
http://dx.doi.org/10.1101/183319 2017-08-31 Adeno-associated virus mediated gene delivery: Implications for scalable in vitro and in vivo cardiac optogenetic models Christina M. Ambrosi|Gouri Sadananda|Aleksandra Klimas|Emilia Entcheva George Washington University
http://dx.doi.org/10.1101/183301 2017-08-31 CC BY-NC-ND The actin cytoskeleton governs apical mitosis and daughter cell dispersion in intestinal epithelia Kara L. McKinley|Nico Stuurman|Ophir D. Klein|Ron D. Vale University of California San Francisco and Howard Hughes Medical Institute;|University of California San Francisco
http://dx.doi.org/10.1101/183046 2017-08-31 Hemodynamic forces tune the arrest, adhesion and extravasation of circulating tumor cells Gautier Follain|Nael Osmani|Sofia Azevedo|Guillaume Allio|Luc Mercier|Matthia Karreman|Gergely Solecki|Nina Fekonja|Claudia Hille|Vincent Chabannes|Guillaume Dolle|Thibaut Metivet|Christophe Prudhomme|Bernhard Ruthensteiner|Andre Kemmling|Susanne Siemonsen|Tanja Schneider|Jens Fiehler|Markus Glatzel|Frank Winkler|Yannick Schwab|Klaus Pantel|Sebastien Harlepp|Jacky G. Goetz INSERM U1109, Tumor Biomechanics;|INSERM U1109;|EMBL;|DKFZ;|University Medical Center Hamburg-Eppendorf;|CEMOSIS;|Zoologische Staatssammlung Munchen;|University Medical Center Schleswig-Holstein;|IPCMS
http://dx.doi.org/10.1101/183293 2017-08-31 Discovery of Resistance Pathways to Fibroblast Growth Factor Receptor inhibition in Bladder Cancer Sumanta K Pal|Miaoling He|Jeremy Jones City of Hope
http://dx.doi.org/10.1101/183111 2017-08-31 Epidemiology CC BY-NC Timescales of influenza A/H3N2 antibody dynamics Adam Kucharski|Derek Cummings|Steven Riley London School of Hygiene & Tropical Medicine;|University of Florida;|Imperial College London
http://dx.doi.org/10.1101/183160 2017-08-31 Molecular Biology CC BY-NC-ND Cryo-EM shows how dynactin recruits two dyneins for faster movement Linas Urnavicius|Clinton K. Lau|Mohamed M. Elshenawy|Edgar Morales-Rios|Carina Motz|Ahmet Yildiz|Andrew P. Carter MRC LMB;|UC Berkeley;|CINVESTAV;|Technische Universitat Munchen
http://dx.doi.org/10.1101/181057 2017-08-31 Epidemiology CC BY-NC-ND Cord blood buffy coat DNA methylation is comparable to whole cord blood methylation John Dou|Rebecca J. Schmidt|Kelly S. Benke|Craig Newschaffer|Irva Hertz-Picciotto|Lisa A. Croen|Ana-Maria Iosif|Janine LaSalle|Margaret Daniele Fallin|Kellly Bakulski University of Michigan, School of Public Health;|University of California Davis;|Johns Hopkins University, Bloomberg School of Public Health;|Drexel University, Dornsife School of Public Health;|Kaiser Permanente;|UC Davis School of Medicine
http://dx.doi.org/10.1101/183020 2017-08-31 Genomics CC BY-NC-ND High throughput expression profiling and in situ screening of circular RNAs in tissues Ammar Zaghlool|Adam Ameur|Chenglin Wu|Jakub Westholm|Adnan Niazi|Manimozhi Manivannan|Kelli Bramlett|Mats Nilsson|Lars Feuk Uppsala University;|Stockholm Univeristy;|Stockholm University;|Clinical Sequencing Division, Life Science Solutions Group, Thermo Fisher Scientific
http://dx.doi.org/10.1101/182337 2017-08-31 Epidemiology CC BY-NC-ND Patterns of sedentary and active time accumulation are associated with mortality in US adults: The NHANES study Junrui Di|Andrew Leroux|Jacek Urbanek|Ravi Varadhan|Adam Spira|Jennifer Schrack|Vadim Zipunnikov Johns Hopkins Bloomberg School of Public Health;|Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/183087 2017-08-31 Bioinformatics CC BY-ND SpliceVec: distributed feature representations for splice junction prediction Aparajita Dutta|Tushar Dubey|Kusum Kumari Singh|Ashish Anand Indian Institute of Technology Guwahati
http://dx.doi.org/10.1101/183129 2017-08-31 Neuroscience Alterations in neurovascular coupling following acute traumatic brain injury Hyounguk Jang|Stanley Huang|Daniel X. Hammer|Lin Wang|Meijun Ye|Cristin G. Welle|Jonathan A. N. Fisher New York Medical College;|FDA;|University of Colorado Denver
http://dx.doi.org/10.1101/183152 2017-08-31 Animal Behavior and Cognition The statistical nature of geometric reasoning Yuval Hart|Moira R. Dillon|Andrew Marantan|Anna L. Cardenas|Elizabeth Spelke|Lakshminarayanan Mahadevan Harvard University;|New York University
http://dx.doi.org/10.1101/182899 2017-08-31 Evolutionary Biology CC BY-NC-ND Comparison of single genome and allele frequency data reveals discordant demographic histories Annabel Beichman|Tanya Phung|Kirk E. Lohmueller UCLA
http://dx.doi.org/10.1101/182907 2017-08-31 Neuroscience Neck muscle spindle noise biases reaches in a multi-sensory integration task Parisa Abedi Khoozani|Gunnar Blohm Queen's University
http://dx.doi.org/10.1101/182915 2017-08-31 Ecology CC BY-ND Water relations of Calycanthus flowers: hydraulic conductance, capacitance, and embolism resistance Adam B. Roddy|Kevin A. Simonin|Kate A. McCulloh|Craig R. Brodersen|Todd E. Dawson Yale University;|San Francisco State University;|University of Wisconsin, Madison;|University of California, Berkeley
http://dx.doi.org/10.1101/183095 2017-08-31 Bioinformatics CC BY-NC Unsupervised learning of DNA sequence features using a convolutional restricted Boltzmann machine Wolfgang Kopp|Roman Schulte-Sasse Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/182865 2017-08-31 Genomics CC BY-NC-ND Gene expression drives the evolution of dominance Christian D. Huber|Arun Durvasula|Angela M. Hancock|Kirk E. Lohmueller UCLA;|Max Plank Institute for Plant Breeding Research
http://dx.doi.org/10.1101/181677 2017-08-31 Bioinformatics CC BY-ND Lessons Learned: Recommendations for Establishing Critical Periodic Scientific Benchmarking Salvador Capella-Gutierrez|Diana de la Iglesia|Juergen Haas|Analia Lourenco|Jose Maria Fernandez Gonzalez|Dmitry Repchevsky|Christophe Dessimoz|Torsten Schwede|Cedric Notredame|Josep Lluis Gelpi|Alfonso Valencia Barcelona Supercomputing Center (BSC); Spanish National Bioinformatics Institute (INB);|Spanish National Cancer Research Centre (CNIO);|University of Basel; SIB Swiss Institute of Bioinformatics;|University of Vigo;|University of Lausanne; University College London;|Center for Genomic Regulation (CRG);|Barcelona Supercomputing Center (BSC); University of Barcelona (UB);|Barcelona Supercomputing Center; Catalan Institution for Research and Advanced Studies
http://dx.doi.org/10.1101/183327 2017-09-01 Neuroscience CC BY-NC-ND Entorhinal cortex receptive fields are modulated by spatial attention, even without movement. Niklas Wilming|Peter Konig|Seth Konig|Elizabeth A. Buffalo University Medical Center Hamburg-Eppendorf;|University of Osnabrück, Institute of Cognitive Science;|Department of Physiology and Biophysics, University of Washington School of Medicine
http://dx.doi.org/10.1101/183475 2017-09-01 Cancer Biology Sulforaphane modulates microRNA expression in colon cancer cells to implicate the regulation of oncogenes CDC25A, HMGA2 and MYC Christopher A. Dacosta|Claudia Paicu|Irina Mohorianu|Wei Wang|Ping Xu|Tamas Dalmay|Yongping Bao Norwich Medical School, University of East Anglia;|School of Computing Sciences, University of East Anglia;|School of Biological Sciences, University of East Anglia
http://dx.doi.org/10.1101/183541 2017-09-01 Genomics CC BY A histone acetylome-wide association study of Alzheimer's disease: neuropathology-associated regulatory variation in the human entorhinal cortex Sarah Marzi|Teodora Ribarska|Adam R. Smith|Eilis Hannon|Jeremie Poschmann|Karen Moore|Claire Troakes|Safa Al-Sarraj|Stephan Beck|Stuart Newman|Katie Lunnon|Leonard Schalkwyk|Jonathan Mill Institute of Psychiatry, Psychology & Neuroscience, King's College London, UK;|German Cancer Research Center (DKFZ), Heidelberg, Germany;|University of Exeter Medical School, University of Exeter, UK;|Universite de Nantes, Nantes, France;|University of Exeter, UK;|UCL Cancer Institute, University College London, London, UK;|University of Essex, Colchester, UK;|University of Exeter Medical School, Exeter, UK;|University of Exeter
http://dx.doi.org/10.1101/183467 2017-09-01 Genomics CC BY-ND Integrating genomic resources for a threatened Caribbean coral (Orbicella faveolata) using a genetic linkage map developed from individual larval genotypes Jacob Snelling|Katherine Dziedzic|Sarah Guermond|Eli Meyer Oregon State University
http://dx.doi.org/10.1101/183558 2017-09-01 Systems Biology CC BY-NC Cell size control driven by the circadian clock and environment in cyanobacteria Bruno M. C. Martins|Amy K. Tooke|Philipp Thomas|James C. W. Locke Sainsbury Laboratory, University of Cambridge, UK;|Imperial College London, UK
http://dx.doi.org/10.1101/183525 2017-09-01 Neuroscience Brain structure mediates the association between height and cognitive ability Eero Vuoksimaa|Matthew S. Panizzon|Carol E. Franz|Christine Fennema-Notestine|Donald J. Hagler|Michael J. Lyons|Anders M. Dale|William S. Kremen University of Helsinki;|University of California San Diego;|Boston University
http://dx.doi.org/10.1101/183459 2017-09-01 Animal Behavior and Cognition CC BY-ND SwarmSight: Real-Time Tracking of Insect Antenna Movements and Proboscis Extension Reflex using a Common Preparation and Conventional Hardware Justas Birgiolas|Christopher M. Jernigan|Richard C. Gerkin|Brian H. Smith|Sharon Crook Arizona State University
http://dx.doi.org/10.1101/183004 2017-09-01 Neuroscience CC BY-NC-ND Structural covariance of brain region volumes is associated with both structural connectivity and transcriptomic similarity Yohan Yee|Darren J Fernandes|Leon French|Jacob Ellegood|Lindsay S Cahill|Dulcie A Vousden|Leigh Spencer Noakes|Jan Scholz|Matthijs C van Eede|Brian J Nieman|John G Sled|Jason P Lerch University of Toronto;|Centre for Addiction and Mental Health;|The Hospital for Sick Children
http://dx.doi.org/10.1101/183202 2017-09-01 Genomics CC BY-ND RNA-seq highlights parallel and contrasting patterns in the evolution of the nuclear genome of holo-mycoheterotrophic plants Mikhail Igorevich Schelkunov|Aleksey Aleksandrovich Penin|Maria Dmitrievna Logacheva Institute for Information Transmission Problems, Russian Academy of Sciences, Moscow
http://dx.doi.org/10.1101/182881 2017-09-01 Neuroscience CC BY-NC-ND Neural source dynamics of brain responses to continuous stimuli: speech processing from acoustics to comprehension Christian Brodbeck|Alessandro Presacco|Jonathan Z. Simon University of Maryland, College Park;|University of California, Irvine, California
http://dx.doi.org/10.1101/183038 2017-09-01 Immunology CC BY-ND Accuracy of programs for the determination of HLA alleles from NGS data Antti Larjo|Robert Eveleigh|Elina Kilpelainen|Tony Kwan|Satu Koskela|Tomi Pastinen|Jukka Partanen Finnish Red Cross Blood Service, Helsinki, Finland;|McGill University and Genome Quebec Innovation Centre, Montreal, Canada
http://dx.doi.org/10.1101/182659 2017-09-01 Genomics Sample-Index Misassignment Impacts Tumor Exome Sequencing Daniel Vodak|Susanne Lorenz|Sigve Nakken|Lars Birger Aasheim|Harald Holte|Baoyan Bai|Ola Myklebost|Leonardo A. Meza-Zepeda|Eivind Hovig Institute of Clinical Medicine, Faculty of Medicine, University of Oslo, Oslo, Norway;|Dept. of Core Facilities, Institute for Cancer Research, Oslo University Hospital, Norway;|Norwegian Cancer Genomics Consortium, Inst. for Cancer Research, Oslo University Hospital;|Department of Oncology, Cancer Clinic, Oslo University Hospital, Oslo, Norway;|Dept. of Cancer Immunology, Institute for Cancer Research, Oslo University Hospital, Oslo;|Department of Clinical Science, University of Bergen, Bergen, Norway;|Genomics Core Facility, Dept. of Core Facilities, Inst. for Cancer Research, Oslo Univ. Hospital;|Dept. of Tumor Biology, Institute for Cancer Research, Oslo University Hospital, Norway
http://dx.doi.org/10.1101/183822 2017-09-01 CC BY-NC-ND Raspberry Pi Powered Imaging for Plant Phenotyping Jose Tovar|John Steen Hoyer|Andy Lin|Allison Tielking|Steven Callen|Elizabeth Castillo|Michael Miller|Monica Tessman|Noah Fahlgren|James Carrington|Dmitri Nusinow|Malia A. Gehan Donald Danforth Plant Science Center;|Donald Danforth Plant Science Center and Washington University in St. Louis
http://dx.doi.org/10.1101/183186 2017-09-01 CC BY-NC Genomic sequencing identifies secondary findings in a cohort of parent study participants Michelle L. Thompson|Candice R. Finnila|Kevin M. Bowling|Kyle B. Brothers|Matthew Neu|Michelle D. Amaral|Susan M. Hiatt|Kelly M. East|David E. Gray|James M. J. Lawlor|Whitley V. Kelley|Edward J. Lose|Carla A. Rich|Shirley Simmons|Shawn E. Levy|Richard M. Myers|Gregory S. Barsh|E. Martina Bebin|Gregory M. Cooper HudsonAlpha Institute for Biotechnology;|University of Louisville;|HudsonAlpha Institute for Biotechnology; University of Alabama in Birmingham;|University of Alabama in Birmingham
http://dx.doi.org/10.1101/183509 2017-09-01 CC BY-NC-ND Evidence of sinks and sources in the PLC activated PIP2 cycle Rohit Suratekar|Padinjat Raghu|Sandeep Krishna National Centre for Biological Sciences
http://dx.doi.org/10.1101/183590 2017-09-01 Parsing the roles of neck-linker docking and tethered head diffusion in the stepping dynamics of kinesin Zhechun Zhang|Yonathan Goldzvik|Dave Thirumalai University of Maryland;|University of Texas at Austin
http://dx.doi.org/10.1101/183723 2017-09-01 Chaperone AMPylation modulates aggregation and toxicity of neurodegenerative disease-associated polypeptides Matthias C. Truttmann|David Pincus|Hidde L. Ploegh Boston Children's Hospital; Harvard Medical School;|Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/183533 2017-09-01 An automated confocal micro-extensometer enables in vivo quantification of mechanical properties with cellular resolution. Sarah Robinson|Michal Huflejt|Pierre Barbier de Reuille|Siobhan A. Braybrook|Martine Schorderet|Didier Reinhardt|Cris Kuhlemeier University of Bern;|The Sainsbury lab. Cambridge University;|University of Fribourg
http://dx.doi.org/10.1101/183665 2017-09-01 CC BY-NC-ND Electrophysiological indices reflect switches between Bayesian and heuristic strategies in perceptual learning Daniel Bennett|Karen Sasmita|Carsten Murawski|Stefan Bode Princeton University;|The University of Melbourne
http://dx.doi.org/10.1101/182857 2017-09-01 Estimating the scale of biomedical data generation using text mining Gabriel Rosenfeld|Dawei Lin National Institute of Allergy and Infectious Diseases
http://dx.doi.org/10.1101/183798 2017-09-01 CC BY-NC-ND Tracking dynamic threat imminence Christian T. Meyer|Srikanth Padmala|Luiz Pessoa University of Maryland
http://dx.doi.org/10.1101/180174 2017-09-01 CC BY-NC-ND Climate change will lead to pronounced shifts in the diversity of soil microbial communities Joshua Ladau|Yu Shi|Xin Jing|Jin-Sheng He|Litong Chen|Xiangui Lin|Noah Fierer|Jack A. Gilbert|Katherine S. Pollard|Haiyan Chu Gladstone Institutes;|State Key Laboratory of Soil and Sustainable Agriculture, Chinese Academy of Sciences;|Department of Ecology, Peking University;|Department of Ecology, Peking University; Chinese Academy of Sciences;|Key Laboratory of Adaptation and Evolution of Plateau Biota, Chinese Academy of Sciences;|Department of Ecology and Evolutionary Biology, University of Colorado, Boulder;|Dept. of Surgery, University of Chicago; Argonne National Laboratory; Marine Biol. Laboratory;|Gladstone Institutes, University of California San Francisco
http://dx.doi.org/10.1101/183772 2017-09-01 CC BY Assessing actimeters for inclusion in the Healthy Brain Network Jonathan Clucas|Curt White|Bonhwang Koo|Michael Milham|Arno Klein Child Mind Institute
http://dx.doi.org/10.1101/183632 2017-09-01 CC BY-NC-ND Clustering and compositionality of task representations in a neural network trained to perform many cognitive tasks Guangyu Robert Yang|H. Francis Song|William T. Newsome|Xiao-Jing Wang New York University;|DeepMind;|Stanford University
http://dx.doi.org/10.1101/183749 2017-09-01 Layered structure and complex mechanochemistry of a strong bacterial adhesive Mercedes Hernando-Perez|Sima Setayeshgar|Yifeng Hou|Roger Temam|Bogdan Dragnea|Yves V. Brun|Cecile Berne Indiana University
http://dx.doi.org/10.1101/183640 2017-09-01 Neurochondrin interacts with the SMN protein suggesting a novel mechanism for Spinal Muscular Atrophy pathology. Luke Thompson|Kimberley Morrison|Sally Shirran|Catherine Botting|Judith Sleeman University of St. Andrews
http://dx.doi.org/10.1101/183285 2017-09-01 Ldb1 and Rnf12-dependent regulation of Lhx2 controls the relative balance between neurogenesis and gliogenesis in retina. Jimmy de Melo|Anand Venkataraman|Cristina Zibetti|Brian S. Clark|Seth Blackshaw Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/183251 2017-09-01 Functional redundancy of variant and canonical histone H3 lysine 9 modification in Drosophila Taylor J. R. Penke|Daniel J. McKay|Brian D. Strahl|A. Gregory Matera|Robert J. Duronio University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/183657 2017-09-01 Nutrient stoichiometry shapes microbial coevolution Megan L. Larsen|Steven W. Wilhelm|Jay T. Lennon Wilfrid Laurier University;|University of Tennessee;|Indiana University
http://dx.doi.org/10.1101/181875 2017-09-01 Bioinformatics CC BY-NC-ND Integrated transcriptome and epigenome analyses identify alternative splicing as a novel candidate linking histone modifications to embryonic stem cell fate decision Yungang Xu|Guangxu Jin|Liang Liu|Dongmin Guo|Xiaobo Zhou University of Texas, Health Science Center at Houston;|Wake Forest School of Medicine
http://dx.doi.org/10.1101/178624 2017-09-01 Bioinformatics CC BY-NC-ND Interpretable dimensionality reduction of single cell transcriptome data with deep generative models Jiarui Ding|Anne E. Condon|Sohrab P. Shah Broad Institute;|University of British Columbia;|BC Cancer Research Centre
http://dx.doi.org/10.1101/183855 2017-09-02 Microbiology HIV-1 initiates genomic RNA packaging in a unique subset of host RNA granules Jaisri R Lingappa|Motoko Tanaka|Brook C Barajas|Bridget A Robinson|Daryl J Phuong|Kasana Chutiraka|Jonathan C Reed University of Washington
http://dx.doi.org/10.1101/183871 2017-09-02 Cancer Biology CC BY-NC Numb prevents a complete EMT by modulating Notch signalling Federico Bocci|Mohit Kumar Jolly|Satyendra C Tripathi|Mitzi Aguilar|Samir Hanash|Herbert Levine|Jose N Onuchic Rice University;|UT MD Anderson Cancer Center
http://dx.doi.org/10.1101/183962 2017-09-02 CC BY What exactly is 'N' in cell culture and animal experiments? Stanley E Lazic|Charlie J Clarke-Williams|Marcus R Munafo AstraZeneca;|University of Bristol
http://dx.doi.org/10.1101/183707 2017-09-02 A topographic visual pathway into the central brain of Drosophila Lorin Timaeus|Laura Geid|Thomas Hummel University of Vienna;|Medical University of Vienna
http://dx.doi.org/10.1101/179994 2017-09-02 Caffeic Acid Phenethyl Ester (CAPE) Inhibits Growth of Chromosomally instable bub1Δ mutant in Saccharomyces cerevisiae Zeynep N Azman|Aysel Kiyici|Mufide Oncel|Haci R Yilmaz|Esra Gunduz|Mehmet Gunduz|Munira A Basrai|Sultan Ciftci-Yilmaz Selcuk University, Faculty of Medicine, Department of Medical Biology, Konya, Turkey;|Independent scholar, Konya, Turkey;|Department of Otolaryngology and Head and Neck Surgery, Wakayama Medical University, Wakayama, Japan;|National Cancer Institute, National Institute of Health;|University of Dammam
http://dx.doi.org/10.1101/184044 2017-09-03 Biophysics CC BY-ND Temporally-Feathered Intensity Modulated Radiation Therapy: A technique to reduce normal tissue toxicity J. C. L. Alfonso|S. Parsai|N. Joshi|A. Godley|S. A. Koyfman|J. J. Caudell|C. D. Fuller|H. Enderling|Jacob Scott Department of Systems Immunology and Braunschweig Integrated Centre of Systems Biology, DE;|Department of Radiation Oncology, Cleveland Clinic, Cleveland, OH, USA;|Department of Radiation Oncology, Moffitt Cancer Center, Tampa, FL, USA;|Department of Radiation Oncology, MD Anderson Cancer Center, Houston, TX, USA;|Department of Integrated Mathematical Oncology, Moffitt Cancer Center and Research Institute, Tampa
http://dx.doi.org/10.1101/183806 2017-09-03 Ecology Neither pulled nor pushed: Genetic drift and front wandering uncover a new class of reaction-diffusion waves Gabriel Birzu|Oskar Hallatschek|Kirill S. Korolev Boston University;|University of California, Berkeley
http://dx.doi.org/10.1101/183988 2017-09-03 CC BY Temporal epigenomic profiling identifies AHR as dynamic super-enhancer controlled regulator of mesenchymal multipotency Deborah Gerard|Florian Schmidt|Aurelien Ginolhac|Martine Schmitz|Rashi Halder|Peter Ebert|Marcel H. Schulz|Thomas Sauter|Lasse Sinkkonen University of Luxembourg;|Max Planck Institute for Informatics
http://dx.doi.org/10.1101/184119 2017-09-03 CC BY-NC-ND Comparison of two ancient DNA extraction protocols for skeletal remains from tropical environments Maria A. Nieves-Colon|Andrew T. Ozga|William J. Pestle|Andrea Cucina|Vera Tiesler|Travis W. Stanton|Anne C. Stone Arizona State University;|University of Miami;|Universidad Autónoma de Yucatán;|University of California Riverside
http://dx.doi.org/10.1101/183996 2017-09-03 Genetic architectures of larval pigmentation and color pattern in the redheaded pine sawfly (Neodiprion lecontei) Catherine Linnen|Claire T. O'Quin|Taylor Shackleford|Connor R. Sears|Carita Lindstedt University of Kentucky;|University of Kentucky; University of Cincinnati;|University of Jyvaskyla
http://dx.doi.org/10.1101/183897 2017-09-03 CC BY-NC-ND Stochastic microbial community assembly decreases biogeochemical function Emily B. Graham|James C. Stegen Pacific Northwest National Laboratory
http://dx.doi.org/10.1101/181776 2017-09-03 CC BY-NC GIGYF2 mediates post-transcriptional mRNA repression through recruitment of the CCR4/NOT complex Cinthia Claudia Amaya Ramirez|Petra Hubbe|Nicolas Mandel|Julien Bethune Heidelberg University Biochemistry Center;|Heidelberg University
http://dx.doi.org/10.1101/183889 2017-09-03 Pan-cancer study of heterogeneous RNA aberrations Nuno A Fonseca|Andre Kahles|Kjong-Van Lehmann|Claudia Calabrese|Aurelien Chateigner|Natalie R Davidson|Deniz Demircioglu|Yao He|Fabien C Lamaze|Siliang Li|Dongbing Liu|Fenglin Liu|Marc D Perry|Hong Su|Linda Xiang|Junjun Zhang|Samirkumar B Amin|Peter Bailey|Brian Craft|Milana Frenkel-Morgenstern|Mary Goldman|Liliana Greger|Katherine A Hoadley|Yong Hou|Ekta Khurana|Jan O Korbel|Chang Li|Xiaobo Li|Xinyue Li|Xingmin Liu|Youyong Lu|Maximillian G Marin|Matthew Meyerson|Tannistha Nandi|Morten M Nielsen|Akinyemi I Ojesina|B.F. Francis Ouellette|Qiang Pan-Hammarstrom|Chandra Sekhar Pedamallu|Jakob S Pedersen|Yuichi Shiraishi|Reiner Siebert|Cameron M Soulette|Stefan G Stark|Patrick Tan|Bin Tean Teh|Alfonso Valencia|Jian Wang|Rui Xing|Heng Xiong|Sergei Yakneen|Chen Ye|Christina Yung|Fan Zhang|Xiuqing Zhang|Liangtao Zheng|Jingchun Zhu|Shida Zhu|Philip Awadalla|Chad J Creighton|Jonathan Goke|Roland F Schwarz|Oliver Stegle|Kui Wu|Huangming Yang|Zemin Zhang|Alvis Brazma|Gunnar Ratsch|Angela N Brooks European Molecular Biology Laboratory;|ETH Zurich;|Ontario Institute for Cancer Research;|National University of Singapore;|Peking University;|BGI-Shenzhen;|The UT MD Anderson Cancer Center;|University of Glasgow;|University of California, Santa Cruz;|Bar-Ilan University;|The University of North Carolina at Chapel Hill;|Weill Cornell Medical College;|China National GeneBank-Shenzhen;|Peking University Cancer Hospital & Institute;|Dana-Farber Cancer Institute;|Genome Institute of Singapore;|Aarhus University;|University of Alabama at Birmingham;|University of Toronto;|Broad Institute;|The University of Tokyo;|Ulm University;|Duke-NUS Graduate Medical School;|National Cancer Centre Singapore;|Barcelona Supercomputing Center;|Baylor College of Medicine;|Max Delbruck Center for Molecular Medicine;|-
http://dx.doi.org/10.1101/184259 2017-09-04 Plant Biology CC BY-NC-ND ARIGAN: Synthetic Arabidopsis Plants using Generative Adversarial Network Mario Valerio Giuffrida|Hanno Scharr|Sotirios A. Tsaftaris IMT Lucca;|Forschungszentrum Juelich;|University of Edinburgh
http://dx.doi.org/10.1101/184200 2017-09-04 Microbiology CC BY Dissemination of Cryptococcus neoformans via localised proliferation and blockage of blood vessels Josie Gibson|Robert Evans|Aleksandra Bojarczuk|Richard Hotham|Anne Lagendijk|Benjamin Hogan|Philip Ingham|Stephen Renshaw|Simon Johnston University of Sheffield;|University of Queensland;|Nanyang Technological University
http://dx.doi.org/10.1101/184184 2017-09-04 Biophysics CC BY Sporosarcina pasteurii can form nanoscale crystals on cell surface Swayamdipta Bhaduri|Tanushree Ghosh|Carlo Montemagno|Aloke Kumar Dept. of Mechanical Engineering, University of Alberta, Edmonton AB T6G 2G8, Canada;|Dept. of Chemical & Materials Engineering, University of Alberta, Edmonton, Canada;|Indian Institute of Science
http://dx.doi.org/10.1101/184291 2017-09-04 Bioinformatics MERIT: a Mutation Error Rate Identification Toolkit for Ultra-deep Sequencing Applications Mohammad Hadigol|Hossein Khiabanian Rutgers University
http://dx.doi.org/10.1101/122309 2017-09-04 Evolutionary Biology CC BY-NC-ND Draft genome of the Heterotardigrade Milnesium tardigradum sheds light on ecdysozoan evolution Felix Mathias Bemm|Laura Burleigh|Frank Foerster|Roland Schmucki|Martin Ebeling|Christian Janzen|Thomas Dandekar|Ralph Schill|Ulrich Certa|Joerg Schultz Max Planck Institute for Developmental Biology;|Roche Products Limited, Hertfordshire, United Kingdom;|Center for Computational and Theoretical Biology (CCTB), 97074 Wuerzburg, Germany;|Pharmaceutical Sci., Roche Pharma Res. & Early Development, Roche Innovation Ctr., Basel;|Department of Zoology I, Biocenter, University Wuerzburg, 97074 Wuerzburg, Germany;|Bioinformatics Biocenter, University of Wuerzburg;|Institute of Biomaterials and Biomolecular Systems, 70174 Stuttgart, Germany
http://dx.doi.org/10.1101/184226 2017-09-04 Pharmacology and Toxicology CC BY-ND Characterization of antioxidant properties and metabolite profile of Agave atrovirens extracts Victor Olvera-Garcia|Ana Belen Granado-Serrano|Mariona Jove|Anna Cassanye|Anaberta Cardador-Martinez|Manuel Portero-Otin|Jose Serrano Escuela de Ingenieria en Alimentos, Biotecnologia y Agronomia, Tecnologico de Monterrey;|Universitat de Lleida, Departament de Medicina Experimental;|University of Lleida
http://dx.doi.org/10.1101/184283 2017-09-04 Evolutionary Biology CC BY-NC-ND Codon usage bias in animals: disentangling the effects of natural selection, effective population size and GC-biased gene conversion Nicolas Galtier|Camille Roux|Marjolaine Rousselle|Jonathan Romiguier|Emeric Figuet|Sylvain Glemin|Nicolas Bierne|Laurent Duret University Montpellier - CNRS;|University of Lausanne;|University Lyon 1 - CNRS
http://dx.doi.org/10.1101/184150 2017-09-04 Bioinformatics CC BY Improving Min Hash via the Containment Index with applications to Metagenomic Analysis David Koslicki|Hooman Zabeti Oregon State University
http://dx.doi.org/10.1101/184143 2017-09-04 Developmental Biology CC BY-ND Cardiac enriched BAF chromatin remodeling complex subunit Baf60c regulates gene expression programs essential for heart development and function Xin Sun|Swetansu Hota|Yu-Qing Zhou|Stefanie Novak|Dario Miguel-Perez|Danos Christodoulou|Christine Seidman|Jonathan Seidman|Carol Gregorio|Mark Henkelman|Janet Rossant|Benoit Bruneau Hospital for Sick Children;|Gladstone Institutes;|University of Arizona;|Harvard Medical School
http://dx.doi.org/10.1101/184069 2017-09-04 Biophysics CC BY-NC-ND Catch-slip behavior observed upon rupturing membrane-cytoskeleton bonds Vivek Rajasekharan|Varun K. A. Sreenivasan|Frederick A. Pereira|Brenda Farrell Baylor College of Medicine;|University of New South Wales
http://dx.doi.org/10.1101/183863 2017-09-04 Genomics Project Dhaka: Variational Autoencoder for Unmasking Tumor Heterogeneity from Single Cell Genomic Data Sabrina Rashid|Sohrab Shah|Ravi Pandya Carnegie Mellon University;|University of British Columbia;|Microsoft Research
http://dx.doi.org/10.1101/183921 2017-09-04 Genomics The genome of Trichoplusia ni, an agricultural pest and novel model for small RNA biology Yu Fu|Yujing Yang|Han Zhang|Gwen Farley|Junling Wang|Kaycee A. Quarles|Zhiping Weng|Phillip D. Zamore Boston University, University of Massachusetts Medical School;|Howard Hughes Medical Institute, University of Massachusetts Medical School;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/182493 2017-09-04 Bioinformatics Optimizing scoring function of dynamic programming of pairwise profile alignment using derivative free neural network Kazunori D. Yamada Tohoku University
http://dx.doi.org/10.1101/184010 2017-09-04 Pharmacology and Toxicology CC BY-NC-ND Ahr and Cyp1a2 genotypes both affect susceptibility to motor deficits following gestational and lactational exposure to polychlorinated biphenyls Breann T Colter|Helen Frances Garber|Sheila M Fleming|Jocelyn Phillips Fowler|Gregory D Harding|Molly Kromme Hooven|Amy Ashworth Howes|Smitha Krishnan Infante|Anna L Lang|Melinda Curran MacDougall|Melinda Stegman|Kelsey Taylor|Christine Perdan Curran Northern Kentucky University;|Northeast Ohio Medical University;|University of Michigan
http://dx.doi.org/10.1101/183970 2017-09-04 Bioinformatics CC BY ASaiM: a Galaxy-based framework to analyze raw shotgun data from microbiota Berenice Batut|Kevin Gravouil|Clemence Defois|Saskia Hiltemann|Jean-Francois Brugere|Eric Peyretaillade|Pierre Peyret Bioinformatics group, University Freiburg;|Universite Clermont Auvergne, CRNS, MEDIS/LIMOS/LMGE;|Universite Clermont Auvergne, CRNS, MEDIS;|Department of Bioinformatics, Erasmus University Medical Center
http://dx.doi.org/10.1101/183939 2017-09-04 Neuroscience What the structural-functional connectome reveals about brain aging: The key role of the fronto-striatal-thalamic circuit and the rejuvenating impact of physical activity Paolo Bonifazi|Asier Erramuzpe|Ibai Diez|Inigo Gabilondo|Matthieu Boisgontier|Lisa Pauwels|Sebastiano Stramaglia|Stephan Swinnen|Jesus Cortes BioCruces HRI;|KU Leuven;|Bari University
http://dx.doi.org/10.1101/183905 2017-09-04 Neuroscience Low-intensity focused ultrasound alters the latency and spatial patterns of sensory-evoked cortical responses in vivo. Jonathan A. N. Fisher|Iryna Gumenchuk New York Medical College
http://dx.doi.org/10.1101/183954 2017-09-04 Neuroscience CC BY-ND Neurophysiological signatures of duration and rhythm prediction across sensory modalities Acer Yu-Chan Chang|Anil K. Seth|Warrick Roseboom Araya Inc.;|Department of Informatics, University of Sussex
http://dx.doi.org/10.1101/184085 2017-09-04 Bioinformatics CC BY A predictive model of rats' calorie intake as a function of diet energy density Rahmatollah Beheshti|Yada Treesukosol|Takeru Igusa|Timothy H. Moran Johns Hopkins University;|California State University, Long Beach
http://dx.doi.org/10.1101/184077 2017-09-04 Systems Biology CC BY-NC-ND Insights into the relation between noise and biological complexity Fabrizio Pucci|Marianne Rooman Université Libre de Bruxelles, Belgium
http://dx.doi.org/10.1101/183814 2017-09-04 Bioinformatics CC BY-ND Assessment of the impact of shared data on the scientific literature Michael Milham|Cameron Craddock|Michael Fleischmann|Jake Son|Jon Clucas|Helen Xu|Bonhwang Koo|Anirudh Krishnakumar|Bharat Biswal|Francisco Castellanos|Stan Colcombe|Adriana Di Martino|Xi-Nian Zuo|Arno Klein Child Mind Institute;|New Jersey Institute of Technology;|Nathan S. Kline Institute for Psychiatric Research;|New York University Langone Medical Center;|Chinese Academy of Sciences
http://dx.doi.org/10.1101/183483 2017-09-04 Epidemiology Bioimpedance and new onset heart failure: A longitudinal study of ~500,000 individuals from the general population Daniel Lindholm|Eri Fukaya|Nicholas J. Leeper|Erik Ingelsson Uppsala University;|Stanford University
http://dx.doi.org/10.1101/183780 2017-09-04 Genomics CC BY Unbiased Strain-Typing of Arbovirus Directly from Mosquitoes Using Nanopore Sequencing: A Field-forward Biosurveillance Protocol Joseph A. Russell|Brittany Campos|Jennifer Stone|Erik M. Blosser|Nathan Burkett-Cadena|Jonathan L. Jacobs MRIGlobal;|University of Florida - Florida Medical Entomology Laboratory
http://dx.doi.org/10.1101/183913 2017-09-04 Pharmacology and Toxicology Evaluating Antioxidant Capacity of Different Propolis Samples from Konya, Turkey and Their Inhibitory Effect on Head and Neck Cancer Cells Sultan Ciftci-Yilmaz|Zeynep N Azman|Kubra Kosem|Esra Gunduz|Reidar Grenman Grenman University of Dammam;|Department of Medical Biology, Faculty of Medicine, Selcuk University, Konya, Turkey;|Department of Medical Genetics, Faculty of Medicine, Yildirim Beyazit University, Ankara, Turkey;|Department of Otolaryngology and Head and Neck Surgery, Wakayama Medical University, Wakayama, Japan;|Department of Otorhinolaryngology, University of Turku and Turku University Hospital, Turku, Finlan
http://dx.doi.org/10.1101/184457 2017-09-04 CC BY Patterns of gene body methylation predict coral fitness in new environments Groves B Dixon|Line K Bay|Mikhail V Matz University of Texas Austin;|Australian Institute of Marine Science
http://dx.doi.org/10.1101/184168 2017-09-04 CC BY-NC-ND An open-source cryo-storage solution Eveline Ultee|Fred Schenkel|Wen Yang|Susanne Brenzinger|Jamie S. Depelteau|Ariane Briegel Leiden University
http://dx.doi.org/10.1101/184366 2017-09-04 CC BY-NC-ND Systemic evidence of acute seizure-associated neuronal injury in patients with temporal lobe epilepsy Shailaja Kunda|Reghann G LaFrance-Corey|Fatemeh Khadjevand|Gregory A Worrell|Charles L Howe Mayo Clinic
http://dx.doi.org/10.1101/184440 2017-09-04 CC BY-NC-ND The INO80 Chromatin Remodeler Sustains Metabolic Stability by Promoting TOR Signaling and Regulating Histone Acetylation Sean L. Beckwith|Erin K. Schwartz|Pablo E. Garcia-Nieto|Devin A. King|Graeme J. Gowans|Ka Man Wong|Wei Yao|Tessa L. Eckley|Alexander P. Paraschuk|Egan Peltan|Laura L. Lee|Ashby Morrison Stanford University
http://dx.doi.org/10.1101/184424 2017-09-04 CC BY-ND Largely unlinked gene sets targeted by selection for domestication syndrome phenotypes in maize and sorghum Xianjun Lai|Lang Yan|Yanli Lu|James Schnable University of Nebraska-Lincoln;|Sichuan Agricultural University
http://dx.doi.org/10.1101/184325 2017-09-04 CC BY-NC-ND Mechanistic causes of constrained phenotypic variation revealed by synthetic gene regulatory networks Yolanda Schaerli|Alba Jimenez|Jose M. Duarte|Ljiljana Mihajlovic|Julien Renggli|Mark Isalan|James Sharpe|Andreas Wagner University of Lausanne;|Centre for Genomic Regulation (CRG), Barcelona;|University of Zurich;|Independent Researcher;|Imperial College London
http://dx.doi.org/10.1101/184408 2017-09-04 CC BY-NC-ND Reversal of molecular pathology by RNA-targeting Cas9 in a myotonic dystrophy mouse model Ranjan Batra|David A. Nelles|Florian Krach|James D. Thomas|Lukasz Snjader|Steven M. Blue|Stefan Aigner|Maurice S. Swanson|Gene W. Yeo University of California, San Diego;|University of Florida, Gainesville
http://dx.doi.org/10.1101/184416 2017-09-04 A "molecular guillotine" reveals an interphase function of Kinesin-5 Zhiyi Lv|Jan Rosenbaum|Timo Aspelmeier|Jorg Grosshans University of Gottingen
http://dx.doi.org/10.1101/184242 2017-09-04 Genomics Specialized plant biochemistry drives gene clustering in fungi Emile Gluck-Thaler|Jason Slot Ohio State University
http://dx.doi.org/10.1101/181396 2017-09-04 Bioinformatics EnsembleNet: ensemble gene function predictions for Arabidopsis thaliana Bjoern Oest Hansen|Etienne H. Meyer|Camilla Ferrari|Neha Vaid|Sara Movahedi|Klaas Vandepoele|Zoran Nikoloski|Marek Mutwil Max Planck Institute of Molecular Plant Physiology;|Rijk Zwaan Breeding B.V.;|VIB Center for Plant Systems Biology
http://dx.doi.org/10.1101/184275 2017-09-04 Plant Biology Tissue specific auxin biosynthesis regulates leaf vein patterning Irina Kneuper|William David Teale|Jonathan Edward Dawson|Ryuji Tsuggeki|Klaus Palme|Eleni Katifori|Franck Anicet Ditengou University of Freiburg;|Max Planck Institute for Dynamics and Self-Organization;|Kyoto University, Japan;|University of Pennsylvania
http://dx.doi.org/10.1101/184390 2017-09-04 Biophysics G-quadruplex secondary structure from circular dichroism spectroscopy Rafael del Villar-Guerra|John O. Trent|Jonathan Chaires University of Louisville
http://dx.doi.org/10.1101/184382 2017-09-04 Ecology CC BY-NC Does floral herbivory reduce pollination-mediated fitness in shelter rewarding Royal Irises? Mahua Ghara|Christina Ewerhardy|Gil Yardeni|Mor Matzliach|Yuval Sapir Tel Aviv University;|University of Goettingen;|University of Vienna
http://dx.doi.org/10.1101/184317 2017-09-04 Molecular Biology Downstream promoter interactions of TFIID TAFs facilitate transcription reinitiation Yoo Jin Joo|Scott B. Ficarro|Luis M. Soares|Yujin Chun|Jarrod A. Marto|Stephen Buratowski Harvard Medical School;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/184333 2017-09-04 Neuroscience CC BY-NC-ND The Perceptual Shaping of Anticipatory Actions Giovanni Maffei|Ivan Herreros|Marti Sanchez-Fibla|Karl J. Friston|Paul F.M.J. Verschure UPF - IBEC;|UPF;|Wellcome Trust - UCL
http://dx.doi.org/10.1101/183426 2017-09-04 Neuroscience CC BY-ND A common representation of time across visual and auditory modalities Louise Catheryne Barne|Joao R Sato|Raphael Y Camargo|Peter M.E Claessens|Marcelo S Caetano|Andre M Cravo Universidade Federal do ABC (UFABC)
http://dx.doi.org/10.1101/184309 2017-09-04 Neuroscience CC BY-NC-ND Local context influences memory for emotional stimuli but not electrophysiological markers of emotion-dependent attention Gemma E Barnacle|Dimitris Tsivilis|Alexandre Schaefer|Deborah Talmi University of Manchester;|University of Liverpool;|Monash University
http://dx.doi.org/10.1101/184531 2017-09-05 CC BY-NC-ND Oscillations synchronize amygdala-to-prefrontal primate circuits during aversive learning Aryeh H. Taub|Rony Paz Weizmann Institute of Science
http://dx.doi.org/10.1101/184515 2017-09-05 iSeg: an efficient algorithm for segmentation of genomic and epigenomic data Senthil Balaji Girimurugan|Yuhang Liu|Pei-Yau Lung|Daniel Vera|Jonathan Dennis|Hank Bass|Jinfeng Zhang Florida Gulf Coast University;|Florida State University
http://dx.doi.org/10.1101/184663 2017-09-05 Parsimonious identification of evolutionary shifts for quantitative characters Olivier Chabrol|Gilles Didier Aix Marseille Univ, CNRS, Centrale Marseille, I2M, Marseille, France;|CNRS
http://dx.doi.org/10.1101/184572 2017-09-05 CC BY-ND LRSDAY: Long-read sequencing data analysis for yeasts Jia-Xing Yue|Gianni Liti Institute for Research on Cancer and Aging, Nice (IRCAN), CNRS
http://dx.doi.org/10.1101/184705 2017-09-05 CC BY-NC-ND The Moran coalescent in a discrete one-dimensional spatial model Max Shpak|Jie Lu|Jeffrey P. Townsend St. David's Medical Center;|Fisher Scientific;|Yale University
http://dx.doi.org/10.1101/184622 2017-09-05 Pathology CC BY-NC Biological influence of extracts of cryopreserved fragments of piglets' heart and skin Liliia A. Rohoza|Iryna G. Bespalova|Mykola O. Chizh|Sergiy Ye. Halchenko|Boris P. Sandomirsky Institute for Problems of Cryobiology and Cryomedicine of the NAS of Ukraine
http://dx.doi.org/10.1101/173773 2017-09-05 Neuroscience CC BY-NC-ND Audiovisual detection at different intensities and delays Chandramouli Chandrasekaran|Matthias Gondan Stanford University;|University of Vienna
http://dx.doi.org/10.1101/184598 2017-09-05 Biophysics CC BY-NC-ND Shaping Epigenetic Memory via Genomic Bookmarking Davide Michieletto|Michael Chiang|Davide Coli|Argyris Papantonis|Enzo Orlandini|Peter R. Cook|Davide Marenduzzo University of Edinburgh;|University of Padova;|University of Cologne;|University of Oxford
http://dx.doi.org/10.1101/184648 2017-09-05 Immunology CC BY Glutamine metabolism regulates Th2 cell differentiation via the α-ketoglutarate-dependent demethylation of histone H3K27 Makoto Kuwahara|Maya Izumoto|Hiroaki Honda|Kazuki Inoue|Yuuki Imai|Junpei Suzuki|Saho Maruyama|Masaki Yasukawa|Masakatsu Yamashita Ehime University;|Hiroshima University
http://dx.doi.org/10.1101/184473 2017-09-05 Synthetic Biology CC BY-ND Synthetic negative feedback circuits using engineered small RNAs Ciaran L. Kelly|Andreas W. K. Harris|Harrison Steel|Edward J. Hancock|John T. Heap|Antonis Papachristodoulou Imperial College London;|University of Oxford;|University of Sydney
http://dx.doi.org/10.1101/184523 2017-09-05 Cell Biology Protective effect of estrogen against intervertebral disc degeneration is attenuated by miR-221 through targeting estrogen receptor Bin Sheng|Youchao Yuan|Xiangyang Liu|Yi Zhang|Hongzhe Liu|Xiongjie Shen|Bin Liu|Lei Chang Hunan Provincial People Hospital, 1st Affiliated Hospital of Hunan Normal University, No. 6
http://dx.doi.org/10.1101/185009 2017-09-05 CC BY Rescue of Conformational Dynamics in Enzyme Catalysis by Directed Evolution Renee Otten|Lin Liu|Lillian R. Kenner|Michael W. Clarkson|David Mavor|Dan S. Tawfik|Dorothee Kern|James S. Fraser Brandeis University, HHMI;|UCSF;|Brandeis University;|University of California, San Francisco;|Weizmann Institute of Science
http://dx.doi.org/10.1101/184895 2017-09-05 CC BY-NC-ND Identifying Pleiotropic Effects: A Two-Stage Approach Using Genome-Wide Association Meta-Analysis Data Xing Chen|Yi-Hsiang Hsu Molecular & Integrative Physiological Sciences, Harvard School of Public Health, Boston, MA;|HSL Institute for Aging Research and Harvard Medical School, Boston, MA
http://dx.doi.org/10.1101/184911 2017-09-05 Knockdown of Hypocretin/Orexin Attenuates Extended-Access Cocaine Self-Administration in Rats Brooke E. Schmeichel|Alessandra Matzeu|Pascale Koebel|Leandro Vendruscolo|Brigitte Kieffer|George Koob|Remi Martin-Fardon|Candice Contet NIH;|The Scripps Research Institute;|Institut de Genetique et de Biologie Moleculaire et Cellulaire;|Douglas Institute Research Centre, McGill University;|The Scripps Research Intistute
http://dx.doi.org/10.1101/184952 2017-09-05 Climbing Legumes: An Underutilized Resource With Significant Potential to Intensify Farming on Terrace Walls (FTW) for Smallholder Farmers Jaclyn C. Clark|Manish N. Raizada University of Guelph
http://dx.doi.org/10.1101/183400 2017-09-05 Sox4 drives intestinal secretory differentiation toward tuft and enteroendocrine fates Adam Gracz|Matthew J. Fordham|Danny C. Trotier|Bailey Zwarycz|Yuan-Hung Lo|Katherine Bao|Joshua Starmer|Noah F. Shroyer|Richard L. Reinhardt|Scott T. Magness University of North Carolina at Chapel Hill;|Baylor College of Medicine;|Duke University;|National Jewish Health
http://dx.doi.org/10.1101/183491 2017-09-05 CC BY-NC-ND Disrupting different Distal-less exons leads to ectopic and missing eyespots accurately modeled by reaction-diffusion mechanisms Heidi Connahs|Sham Tlili|Jelle van Creij|Tricia Y. J. Loo|Tirtha Banerjee|Timothy E. Saunders|Antonia Monteiro National University of Singapore
http://dx.doi.org/10.1101/184101 2017-09-05 From lake to estuary, the tale of two waters. A study of aquatic continuum biogeochemistry Paul Julian|Eric Milbrandt|Todd Z. Osborne University of Florida;|Sanibel Captiva Conservation Foundation
http://dx.doi.org/10.1101/184788 2017-09-05 Snord116-dependent diurnal rhythm of DNA methylation in mouse cortex Rochelle Coulson|Dag Yasui|Keith Dunaway|Ben Laufer|Annie Vogel-Ciernia|Charles Mordaunt|Theresa Totah|Janine LaSalle UC Davis School of Medicine
http://dx.doi.org/10.1101/184945 2017-09-05 A transcriptome-wide association study identifies PALMD as a susceptibility gene for calcific aortic valve stenosis Sebastien Theriault|Nathalie Gaudreault|Maxime Lamontagne|David Messika-Zeitoun|Marie-Annick Clavel|Romain Capoulade|Francois Dagenais|Philippe Pibarot|Patrick Mathieu|Yohan Bosse Laval University;|Institut universitaire de cardiologie et de pneumologie de Québec;|Bichat Hospital
http://dx.doi.org/10.1101/184739 2017-09-05 CC BY-NC-ND Local temporal variability reflects functional network integration in the human brain: On the crucial role of the thalamus Douglas Garrett|Samira Epp|Ulman Lindenberger Max Plank UCL Centre for Computational Psychiatry and Ageing Research;|Max Planck UCL Centre for Computational Psychiatry and Ageing Research
http://dx.doi.org/10.1101/184036 2017-09-05 Exploring population responses to environmental change when there's never enough data; a factor analytic approach Bethan J. Hindle|Mark Rees|Andy W. Sheppard|Pedro F. Quintana-Ascencio|Eric S. Menges|Dylan Z. Childs University of Sheffield;|CSIRO;|University of Central Florida;|Archbold Biological Station
http://dx.doi.org/10.1101/184499 2017-09-05 CC BY-NC Elucidation of the 14-3-3ζ interactome reveals critical roles of RNA splicing factors during adipogenesis Yves Mugabo|Mina Sadeghi|Nancy N. Fang|Thibault Mayor|Gareth Lim CRCHUM; University of Montreal;|University of British Columbia
http://dx.doi.org/10.1101/182691 2017-09-05 CC BY-NC-ND The SIN3A histone deacetylase complex is required for a complete transcriptional response to hypoxia Maria Tiana Cerrolaza|Barbara Acosta-Iborra|Laura Puente-Santamaria|Pablo Hernansanz|Rebecca Worsley-Hunt|Norma Masson|Francisco Garcia-Rio|David R. Mole|Peter J. Ratcliffe|Wyeth W. Wasserman|Benilde Jimenez Cuenca|Luis del Peso Departamento de Bioquimica, Universidad Autonoma de Madrid (UAM);|Centre for Molecular Medicine and Therapeutics, University of British Columbia;|Target Discovery Institute, University of Oxford;|Servicio de Neumologia, Hospital Universitario La Paz;|Henry Wellcome Building for Molecular Physiology, University of Oxford
http://dx.doi.org/10.1101/184721 2017-09-05 CC BY-NC-ND IntelliEppi: Intelligent reaction monitoring and holistic data management system for the molecular biology lab Arthur Neuberger|Zeeshan Ahmed|Thomas Dandekar University of Cambridge;|University of Connecticut Health Center;|University of Wuerzburg
http://dx.doi.org/10.1101/184713 2017-09-05 CC BY-NC-ND Rats and axolotls share a common molecular signature after spinal cord injury enriched in collagen-1 Athanasios Didangelos|Katalin Bartus|Jure Tica|Bernd Roschitzki|Elizabeth Bradbury King's College London;|ETH Zurich
http://dx.doi.org/10.1101/184465 2017-09-05 CC BY-NC-ND A Rescorla-Wagner Drift-Diffusion Model of Conditioning and Timing Andre Luzardo|Eduardo Alonso|Esther Mondragon City University of London
http://dx.doi.org/10.1101/184747 2017-09-05 Genomics CC BY-NC-ND Interoperable genome annotation with GBOL, an extendable infrastructure for functional data mining Jesse C.J. van Dam|Jasper Jan J. Koehorst|Jon Olav Vik|Peter J. Schaap|Maria Suarez-Diez Wageningen University & Research;|Norwegian University of Life Sciences
http://dx.doi.org/10.1101/184820 2017-09-05 Genetics CC BY-NC-ND GWAS Meta-Analysis of Neuroticism (N=449,484) Identifies Novel Genetic Loci and Pathways Mats Nagel|Philip R Jansen|Sven Stringer|Kyoko Watanabe|Christiaan A de Leeuw|Julien Bryois|Jeanne E Savage|Anke R Hammerschlag|Nathan Skene|Ana B Munoz-Manchado|Sten Linnasrsson|Jens Hjerling-Leffler|Tonya White|Henning Tiemeier|Tinca JC Polderman|Patrick F Sullivan|Sophie van der Sluis|Danielle Posthuma VU University;|Karolinska Institutet;|-;|Erasmus University Medical Center
http://dx.doi.org/10.1101/184762 2017-09-05 Genetics T cell activation and the HLA locus associate with latent infections of human African trypanosomiasis Paul Capewell|Bruno Bucheton|Caroline Clucas|Hamidou Ilboudo|Anneli Cooper|Taylor-Anne Gorman|Kerry O'Neill|Agapitos Patakas|Andrew Platt|Heli Vaikkinen|William Weir|Mamadou Camara|Paul Garside|Vincent Jamonneau|Annette MacLeod University of Glasgow;|Institut de Recherche pour le Developpement;|Programme National de Lutte Contre la Trypanosomose Humaine Africaine
http://dx.doi.org/10.1101/184846 2017-09-05 Genomics Using DNase Hi-C techniques to map global and local three-dimensional genome architecture at high resolution Wenxiu Ma|Ferhat Ay|Choli Lee|Gunhan Gulsoy|Xinxian Deng|Savannah Cook|Jennifer Hesson|Christopher Cavanaugh|Carol B. Ware|Anton Krumm|Jay Shendure|C. Anthony Blau|Christine M. Disteche|William S. Noble|Zhijun Duan University of Washington;|-
http://dx.doi.org/10.1101/184812 2017-09-05 Neuroscience CC BY-NC-ND Within and across-trial dynamics of human EEG reveal cooperative interplay between reinforcement learning and working memory Anne Collins|Michael Frank University of California, Berkeley;|Brown University
http://dx.doi.org/10.1101/184838 2017-09-05 Neuroscience The reality of "food porn": Larger brain responses to food-related cues than to erotic images predict cue-induced eating. Francesco Versace|David W Frank|Elise M Stevens|Menton M Deweese|Michele Guindani|Susan M Schembre The University of Texas MD Anderson Cancer Center;|The University of Oklahoma Health Sciences Center;|The University of California, Irvine
http://dx.doi.org/10.1101/184754 2017-09-05 Neuroscience CC BY-NC-ND A Neuroeconomic Framework for Creative Cognition Hause Lin|Oshin Vartanian University of Toronto
http://dx.doi.org/10.1101/180950 2017-09-06 Microbiology CC BY-NC-ND Denitrifying metabolism of the methylotrophic marine bacterium Methylophaga nitratireducenticrescens strain JAM1 Florian Mauffrey|Alexandra Cucaita|Philippe Constant|Richard Villemur INRS-Institut Armand-Frappier
http://dx.doi.org/10.1101/185165 2017-09-06 Immunology CC BY-NC-ND Assessment of CD4 T Lymphocyte Cell Levels among Hepatitis B, C and E Viruses Negative Individuals in Ibadan, southwestern Nigeria Moses Olubusuyi Adewumi|Ewean Chukwuma Omoruyi|Ijeoma Maryjoy Ifeora|Adeleye Solomon Bakarye|Akintayo Olamide Ogunwale|Adegbotega Akere|Temitope Oluwasegun Cephas Faleye|Johnson Adekunle Adeniji University of Ibadan, Nigeria;|University of Nigeria, Nsukka, Nigeria;|Oyo State College of Agriculture and Technology, Igboora, Oyo State, Nigeria;|Ekiti State University, Ado-Ekiti, Ekiti State, Nigeria
http://dx.doi.org/10.1101/181321 2017-09-06 Biochemistry Structural insights into the architecture of human Importin4_histone H3/H4_Asf1a complex and its histone H3 tail binding Jungmin Yoon|Seung Joong Kim|Sojin An|Alexander Leitner|Taeyang Jung|Ruedi Aebersold|Hans Hebert|Uhn-Soo Cho|Ji-Joon Song Korea Advanced Institute of Science and Technology;|University of California, San Francisco;|University of Michigan Medical School;|ETH Zurich;|ETH Zurich, University of Zurich;|Karolinska Institutet, KTH
http://dx.doi.org/10.1101/185132 2017-09-06 Neuroscience CC BY-NC-ND Individual alpha peak frequency predicts 10 Hz flicker effects on selective attention Rasa Gulbinaite|Tara van Viegen|Martijn Wieling|M. X. Cohen|Rufin VanRullen Centre de Recherche Cerveau & Cognition (CerCo), CNRS UMR 5549;|University of Birmingham;|University of Groningen;|Radboud University Nijmegen
http://dx.doi.org/10.1101/184929 2017-09-06 Biochemistry Synthesis of a eukaryotic chromosome reveals a role for N6-methyladenine in nucleosome organization Leslie Y. Beh|Galia T. Debelouchina|Kelsi A. Lindblad|Katarzyna Kulej|Elizabeth R. Hutton|John R. Bracht|Robert P. Sebra|Benjamin A. Garcia|Tom W. Muir|Laura F. Landweber Princeton University;|University of Pennsylvania;|American University;|Icahn School of Medicine at Mount Sinai;|Columbia University
http://dx.doi.org/10.1101/184994 2017-09-06 Developmental Biology Chromatin organization changes during the establishment and maintenance of the postmitotic state Yiqin Ma|Laura Buttitta University of Michigan
http://dx.doi.org/10.1101/185173 2017-09-06 Plant Biology CC BY-NC-ND Leveraging multiple datasets for deep leaf counting Andrei Dobrescu|Mario Valerio Giuffrida|Sotirios A. Tsaftaris University of Edinburgh;|IMT Lucca
http://dx.doi.org/10.1101/185140 2017-09-06 Biochemistry CC BY-NC-ND Interleukin-1β and -6 release from immune cells by DOPA-based melanin as free pigment or complexed to carboxymethylcellulose Koen P. Vercruysse|Tonie S. Farris|Margaret M. Whalen Tennessee State University
http://dx.doi.org/10.1101/185116 2017-09-06 Developmental Biology FACT sets a barrier for cell fate reprogramming in C. elegans and Human Ena Kolundzic|Andreas Ofenbauer|Bora Uyar|Anne Sommermeier|Stefanie Seelk|Mei He|Guelkiz Baytek|Altuna Akalin|Sebastian Diecke|Scott Allen Lacadie|Baris Tursun Berlin Inst. for Med. Syst. Biol., Max Delbrueck Ctr. for Molec. Med. in the Helmholtz Assoc.;|Berlin Inst. of Health, Germany; Max Delbrueck Ctr. for Molec. Med. in the Helmholtz Assoc.
http://dx.doi.org/10.1101/185199 2017-09-06 Cell Biology Fibroblast-derived HGF drives acinar lung cancer cell polarization through integrin-dependent RhoA-ROCK1 inhibition. Anirban Datta|Emma Sandilands|Keith E. Mostov|David M. Bryant University of California, San Francisco;|Institute of Cancer Sciences, University of Glasgow;|Institute of Cancer Sciences, University of Glasgow; The CRUK Beatson Institute, Glasgow
http://dx.doi.org/10.1101/176503 2017-09-06 Genetics CC BY The hominoid-specific gene DSCR4 is involved in regulation of human leukocyte migration Morteza Mahmoudi Saber|Marziyeh Karimiavargani|Nilmini Hettiarachchi|Michiaki Hamada|Takanori Uzawa|Yoshihiro Ito|Naruya Saitou Dept. of Electrical Engineering & Bioscience, Faculty of Science & Engineering, Waseda Univ.;|Nano Medical Engineering Laboratory, RIKEN, 2-1 Hirosawa, Wako, Japan;|Division of Population Genetics, National Institute of Genetics, Mishima, Japan;|Computational Bio Big-Data Open Innovation Laboratory, Natl. Inst. of AIST, Japan
http://dx.doi.org/10.1101/185108 2017-09-06 Synthetic Biology CC BY-NC-ND BacilloFlex: A modular DNA assembly toolkit for Bacillus subtilis synthetic biology Niels Wicke|David Radford|Valeria Verrone|Anil Wipat|Christopher E. French University of Edinburgh;|Newcastle University
http://dx.doi.org/10.1101/185181 2017-09-06 Neuroscience CC BY-NC-ND Heart-brain interactions in the MR environment: characterization of the ballistocardiogram in EEG signals collected during simultaneous fMRI Marco Marino|Quanying Liu|Mariangela Del Castello|Cristiana Corsi|Nicole Wenderoth|Dante Mantini ETH Zurich;|KU Leuven;|University of Bologna
http://dx.doi.org/10.1101/185058 2017-09-06 Microbiology Ectopic Expression of DNA Repair Enzymes Modulates Survival following Ultraviolet Irradiation Challenge Stuti P. Garg|Irina G. Minko|Erdem Coskun|Onur Erdem|Pawel Jaruga|Miral Dizdaroglu|R. Stephen Lloyd Oregon Health & Science University;|National Institute of Standards and Technology
http://dx.doi.org/10.1101/185157 2017-09-06 Bioinformatics CC BY Virtual Genome Walking: Generating gene models for the salamander Ambystoma mexicanum Teri Evans|Andrew D. Johnson|Matthew D. Loose University of Nottingham
http://dx.doi.org/10.1101/184978 2017-09-06 Neuroscience CC BY-NC-ND Brain white matter structure and language ability in preschool-aged children Matthew Walton|Deborah Dewey|Catherine Lebel University of Calgary
http://dx.doi.org/10.1101/184879 2017-09-06 Genetics CC BY-NC-ND Assessment of DNA methylation patterns in the bone and cartilage of a nonhuman primate model of osteoarthritis Genevieve Housman|Lorena M. Havill|Ellen E. Quillen|Anthony G. Comuzzie|Anne C. Stone Arizona State University;|Texas Biomedical Research Institute
http://dx.doi.org/10.1101/184507 2017-09-06 CC BY Glucocorticoid-Induced Metabolic Disturbances are Exacerbated in Obesity Innocence Harvey|Erin J. Stephenson|JeAnna R. Redd|Quynh T. Tran|Irit Hochberg|Nathan Qi|Dave Bridges University of Michigan;|University of Tennessee Health Science Center;|Rambam Health Care Campus
http://dx.doi.org/10.1101/184853 2017-09-06 CC BY-NC-ND GWAS meta-analysis (N=279,930) identifies new genes and functional links to intelligence Jeanne E. Savage|Philip R. Jansen|Sven Stringer|Kyoko Watanabe|Julien Bryois|Christiaan A. de Leeuw|Mats Nagel|Swapnil Awasthi|Peter B. Barr|Jonathan R. I. Coleman|Katrina L. Grasby|Anke R. Hammerschlag|Jakob Kaminski|Robert Karlsson|Eva Krapohl|Max Lam|Marianne Nygaard|Chandra A. Reynolds|Joey W. Trampush|Hannah Young|Delilah Zabaneh|Sara Hagg|Narelle K. Hansell|Ida K. Karlsson|Sten Linnarsson|Grant W. Montgomery|Ana B. Munoz-Manchado|Erin B. Quinlan|Gunter Schumann|Nathan Skene|Bradley T. Webb|Tonya White|Dan E. Arking|Deborah K. Attix|Dimitrios Avramopoulos|Robert M. Bilder|Panos Bitsios|Katherine E. Burdick|Tyrone D. Cannon|Ornit Chiba-Falek|Andrea Christoforou|Elizabeth T. Cirulli|Eliza Congdon|Aiden Corvin|Gail Davies|Ian J. Deary|Pamela DeRosse|Dwight Dickinson|Srdjan Djurovic|Gary Donohoe|Emily Drabant Conley|Johan G. Eriksson|Thomas Espeseth|Nelson A. Freimer|Stella Giakoumaki|Ina Giegling|Michael Gill|David C. Glahn|Ahmad R. Hariri|Alex Hatzimanolis|Matthew C. Keller|Emma Knowles|Bettina Konte|Jari Lahti|Stephanie Le Hellard|Todd Lencz|David C. Liewald|Edythe London|Astri J. Lundervold|Anil K. Malhotra|Ingrid Melle|Derek Morris|Anna C. Need|William Ollier|Aarno Palotie|Antony Payton|Neil Pendleton|Russell A. Poldrack|Katri Raikkonen|Ivar Reinvang|Panos Roussos|Dan Rujescu|Fred W. Sabb|Matthew A. Scult|Olav B. Smeland|Nikolaos Smyrnis|John M. Starr|Vidar M. Steen|Nikos C. Stefanis|Richard E. Straub|Kjetil Sundet|Aristotle N. Voineskos|Daniel R. Weinberger|Elisabeth Widen|Jin Yu|Goncalo Abecasis|Ole A. Andreassen|Gerome Breen|Lene Christiansen|Birgit Debrabant|Danielle M. Dick|Andreas Heinz|Jens Hjerling-Leffler|M. Arfan Ikram|Kenneth S. Kendler|Nicholas G. Martin|Sarah E. Medland|Nancy L. Pedersen|Robert Plomin|Tinca J. C. Polderman|Stephan Ripke|Sophie van der Sluis|Patrick F. Sullivan|Henning Tiemeier|Scott I. Vrieze|Margaret J. Wright|Danielle Posthuma VU University;|Karolinska Institutet;|Charite Universitatsmedizin Berlin;|Virginia Commonwealth University;|King's College London;|QIMR Berghofer Medical Research Institute;|Institute of Mental Health;|University of Southern Denmark;|University of California Riverside;|BrainWorkup;|University of Colorado, Boulder;|QIMR;|Erasmus Medical Center;|Johns Hopkins University School of Medicine;|Haukeland University Hospital;|UCLA Semel Institute for Neuroscience and Human Behavior;|University of Crete;|Icahn School of Medicine at Mount Sinai;|Yale University;|Duke University Medical Center;|Human Longevity, Inc.;|Trinity College Dublin;|University of Edinburgh;|The Zucker Hillside Hospital;|National Institute of Mental Health;|University of Bergen;|National University of Ireland;|23andMe;|University of Helsinki;|Oslo University Hospital;|Martin Luther University of Halle-Wittenberg;|Yale University School of Medicine;|Duke University;|Eginition Hospital;|University of Colorado;|Imperial College;|University of Manchester;|Stanford University;|University of Oslo;|University of Oregon;|Johns Hopkins University Medical Campus;|University of Toronto;|University of Michigan;|K. G. Jebsen Centre for Psychosis Research;|Erasmus University Medical Center;|University of Colorado Boulder
http://dx.doi.org/10.1101/185272 2017-09-06 Genetics CC BY-NC-ND Novel causative genes for heritable pulmonary arterial hypertension Stefan Graf|Matthias Haimel|Marta Bleda|Charaka Hadinnapola|Wei Li|Joshua Hodgson|Bin Liu|Richard M. Salmon|Mark Southwood|Laura Southgate|Rajiv D. Machado|Jennifer M. Martin|Carmen M. Treacy|Katherine Yates|Louise C. Daugherty|Olga Shamardina|Deborah Whitehorn|Simon Holden|Micheala Aldred|Harm J. Bogaard|Colin Church|Gerry Coghlan|Robin Condliffe|Paul A. Corris|Cesare Danesino|Melanie Eyries|Henning Gall|Stefano Ghio|Hossein-Ardeschir Ghofrani|J. Simon R. Gibbs|Barbara Girerd|Arjan C. Houweling|Luke Howard|Marc Humbert|David G. Kiely|Gabor Kovacs|Robert V. MacKenzie Ross|Shahin Moledina|David Montani|Michael Newnham|Andrea Olschewski|Horst Olschewski|Andrew J. Peacock|Joanna Pepke-Zaba|Inga Prokopenko|Christopher J. Rhodes|Laura Scelsi|Werner Seeger|Florent Soubrier|Jay Suntharalingam|Emilia Swietlik|Mark R. Toshner|Anton Vonk Noordegraaf|John Wharton|Quintin Waisfisz|Stephen J. Wort|Willem H. Ouwehand|Nicole Soranzo|Allan Lawrie|Paul D. Upton|Richard C. Trembath|Martin R. Wilkins|Nicholas W. Morrell Department of Medicine, University of Cambridge;|Papworth Hospital;|-;|Molecular and Clinical Sciences Research Institute, St. George's, University of London;|University of Lincoln;|Department of Haematology, University of Cambridge;|Addenbrooke's Hospital, Cambridge, UK;|Cleveland Clinic, Cleveland, Ohio, USA;|VU University Medical Center, Amsterdam, NL;|Golden Jubilee National Hospital, Glasgow, UK;|Royal Free Hospital, London, UK;|Sheffield Pulmonary Vascular Disease Unit, Royal Hallamshire Hospital, Sheffield, UK;|University of Newcastle, UK;|Department of Molecular Medicine, University of Pavia;|Departement de genetique, Hopital Pitie-Salpetriere, Paris, FR;|University of Giessen and Marburg Lung Center (UGMLC);|Fondazione IRCCS Policlinico San Matteo;|National Heart & Lung Institute, Imperial College London;|Hopital de Bicetre, Assistance Publique Hopitaux de Paris;|VU University Medical Center, Amsterdam;|Imperial College London;|Université Paris-Sud, France;|Sheffield Pulmonary Vascular Disease Unit, Royal Hallamshire Hospital, UK;|Ludwig Boltzmann Institute for Lung Vascular Research;|Royal United Hospitals Bath, UK;|Great Ormond Street Hospital, London, UK;|Papworth Hospital, UK;|Departement de genetique, Hopital Pitie-Salpetriere;|Royal Brompton Hospital, London, UK;|Department of Infection, Immunity & Cardiovascular Disease, University of Sheffield;|King's College London
http://dx.doi.org/10.1101/185033 2017-09-06 Zoology Humpback whales of the Persian Gulf Seyed M. H. Dakhteh|Sharif Ranjbar|Mostafa Moazeni|Nazanin Mohsenian|Hossein Delshab|Hamed Moshiri|Seyed M. B. Nabavi|Koen Van Waerebeek Qeshm Environment Administration of the Qeshm Free Area, Qeshm City, Iran;|Dept. of Marine Biology, Hormozgan University, Hormozgan, Iran;|Asalouyeh Office, Department of Environment of Bushehr Province, Asalouyeh, Iran;|Plan for the Land Society, Tehran, Iran;|Development of Environment of Bushehr Province, Bushehr, Iran;|Faculty of Marine Science, University of Marine Science and Technology, Khoramshahr, Iran;|Peruvian Centre for Cetacean Research (CEPEC), Lima 20, Peru
http://dx.doi.org/10.1101/185330 2017-09-06 Genomics CC BY Major flaws in "Identification of individuals by trait prediction using whole-genome" Yaniv Erlich New York Genome Center
http://dx.doi.org/10.1101/185249 2017-09-06 Cell Biology Dynamic Spatiotemporal Organization of Exocytosis During Cellular Shape Change Fabio Urbina|Shawn Gomez|Stephanie L. Gupton University of North Carolina at Chapel Hill;|UNC/NCSU Joint Dept. of Biomedical Engineering, UNC Chapel Hill/N. Carolina State Univ.
http://dx.doi.org/10.1101/185298 2017-09-06 Microbiology CC BY-NC Editing of the Human TRIM5 Gene to Introduce HIV-1 Restrictive Mutations Using CRISPR-Cas9 Caroline Dufour|Alix Claudel|Nicolas Joubarne|Natacha Merindol|Tara Maisonnet|Melodie B. Plourde|Lionel Berthoux Universite du Quebec a Trois-Rivieres
http://dx.doi.org/10.1101/185231 2017-09-06 Neuroscience The Sync/deSync model: How a synchronized hippocampus and a de-synchronized neocortex code memories George Parish|Simon Hanslmayr|Howard Bowman School of Computing, University of Kent;|University of Birmingham
http://dx.doi.org/10.1101/185306 2017-09-06 Neuroscience Global connectivity of the frontoparietal cognitive control network is related to depression symptoms in undiagnosed individuals Douglas H. Schultz|Takuya Ito|Levi I. Solomyak|Richard H. Chen|Ravi D. Mill|Kaustubh R. Kulkarni|Michael W. Cole Rutgers University-Newark
http://dx.doi.org/10.1101/185082 2017-09-06 Systems Biology CC BY-NC-ND Molecular characterization of breast cancer cell response to metabolic drugs Lucia Trilla-Fuertes|Angelo Gamez-Pozo|Jorge M. Arevalillo|Mariana Diaz-Almiron|Guillermo Prado-Vazquez|Andrea Zapater-Moros|Hilario Navarro|Rosa Aras-Lopez|Irene Dapia|Rocio Lopez-Vacas|Paolo Nanni|Sara Llorente-Armijo|Pedro Arias|Alberto M. Borobia|Paloma Main|Jaime Feliu|Enrique Espinosa|Juan Angel Fresno Vara Biomedica Molecular Medicine SL;|Hospital Universitaio La Paz;|University Nacional Educacion a Distancia (UNED);|Hospital Universitario La Paz;|Functional Genomic Center Zurich;|Hospital Universitario La Paz; Universidad Autónoma de Madrid;|Complutense University of Madrid
http://dx.doi.org/10.1101/185686 2017-09-07 Bioinformatics CC BY-NC-ND CPdock: The Complementarity Plot for Docking of Proteins: Implementing Multi-dielectric Continuum Electrostatics Sankar Basu University of Delhi
http://dx.doi.org/10.1101/184002 2017-09-07 Biochemistry CC BY-NC-ND Polysaccharide-mediated synthesis of melanins from serotonin and other 5-hydroxy indoles Koen Vercruysse|Astiney Clark|Noor Alatas|Dylan Brooks|Nafisa Hamza|Margaret Whalen Tennessee State University
http://dx.doi.org/10.1101/184770 2017-09-07 Epidemiology Relative quantification of Porphyromonas gingivalis, Treponema denticola, Tannerella forsythia and Aggregatibacter actinomycetemcomitans high-risk bacterial species in Romanian patients evaluated for periodontal disease Ion Constantin Cosac|Consuel Ionica|Attila C Ratiu|Lorand Savu GeneticLab;|GeneticLab; F. I. Rainer Anthropology Institute;|GeneticLab; University of Bucharest;|GeneticLab; Faculty of Medicine, Titu Maiorescu University
http://dx.doi.org/10.1101/184937 2017-09-07 Epidemiology Dose-dependent effects of inhaled corticosteroids on bone mineral density in postmenopausal women with asthma or COPD: A registry-based cohort study Wenjia Chen|Kate M. Johnson|J. Mark FitzGerald|Mohsen Sadatsafavi|William D. Leslie University of British Columbia;|University of Manitoba
http://dx.doi.org/10.1101/184234 2017-09-07 Epidemiology CC BY-NC Effect modification of FADS2 polymorphisms on the association between breastfeeding and intelligence: results from a collaborative meta-analysis Fernando P. Hartwig|Neil M. Davies|Bernardo L. Horta|Tarunveer S. Ahluwalia|Hans Bisgaard|Klaus Bonnelykke|Avshalom Caspi|Terrie Moffitt|Richie Poulton|Ayesha Sajjad|Henning W. Tiemeier|Albert Dalmau Bueno|Monica Guxens|Mariona Bustamante Pineda|Loreto Santa-Marina|Nadine Parker|Tomas Paus|Zdenka Pausova|Lotte Lauritzen|Theresia M. Schnurr|Kim F. Michaelsen|Torben Hansen|Wendy Oddy|Craig E. Pennell|Nicole M. Warrington|George Davey Smith|Cesar G. Victora Postgraduate Program in Epidemiology, Federal University of Pelotas, Pelotas, Brazil;|Medical Research Council Integrative Epidemiology Unit, University of Bristol, Bristol, UK;|COPSAC, Herlev and Gentofte Hospital, University of Copenhagen, Copenhagen, Denmark;|Duke University, Durham, USA;|Department of Psychology, University of Otago, Dunedin, New Zealand;|Department of Epidemiology, Erasmus University Medical Centre, Rotterdam, The Netherlands;|ISGlobal, Centre for Research in Environmental Epidemiology (CREAL), Barcelona, Spain;|CIBER Epidemiologia y Salud Publica (CIBERESP), Spain;|Rotman Research Institute, Baycrest Centre for Geriatric Care, Toronto, Canada;|Department of Nutritional Sciences, University of Toronto, Toronto, Canada;|Dept. of Nutrition, Exercise & Sports, Faculty of Science, University of Copenhagen, Denmark;|Faculty of Health and Medical Sciences, University of Copenhagen, Copenhagen, Denmark;|Menzies Institute for Medical Research, University of Tasmania, Hobart, Australia;|School of Women's and Infants' Health, The University of Western Australia, Perth, Australia
http://dx.doi.org/10.1101/185454 2017-09-07 Epidemiology Vaccine waning and mumps re-emergence in the United States Joseph A. Lewnard|Yonatan H. Grad Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/184986 2017-09-07 Epidemiology Characterising undiagnosed chronic obstructive pulmonary disease: a systematic review and meta-analysis Kate M. Johnson|Stirling Bryan|Shahzad Ghanbarian|Don D. Sin|Mohsen Sadatsafavi University of British Columbia;|Centre for Clinical Epidemiology and Evaluation;|St. Paul's Hospital
http://dx.doi.org/10.1101/184218 2017-09-07 Epidemiology Investigating causality in associations between education and smoking: A two-sample Mendelian randomization study Suzanne H. Gage|Jack Bowden|George Davey Smith|Marcus R. Munafo University of Liverpool;|University of Bristol
http://dx.doi.org/10.1101/185637 2017-09-07 CC BY-NC-ND An Algorithmic Information Calculus for Causal Discovery and Reprogramming Systems Hector Zenil|Narsis A. Kiani|Francesco Marabita|Yue Deng|Szabolcs Elias|Angelika Schmidt|Gordon Ball|Jesper Tegner Karolinska Institutet
http://dx.doi.org/10.1101/186098 2017-09-07 CC BY Origin of Slow Spontaneous Resting-State Neuronal Fluctuations in Brain Networks Giri P Krishnan|Oscar C Gonzalez|Maxim Bazhenov University of California, San Diego
http://dx.doi.org/10.1101/186007 2017-09-07 CC BY-NC-ND Inter-areal balanced amplification enhances signal propagation in a large-scale circuit model of the primate cortex Madhura R. Joglekar|Jorge F. Mejias|Guangyu Robert Yang|Xiao-Jing Wang Center for Neural Science, New York University, 4 Washington Place, New York, NY 10003
http://dx.doi.org/10.1101/186080 2017-09-07 Cryo-EM structure of the bacterial actin AlfA reveals unique assembly and ATP-binding interactions and the absence of a conserved subdomain Gulsima Usluer|Frank Dimaio|Shunkai Yang|Jesse M. Hansen|Jessica K Polka|R. Dyche Mullins|Justin Kollman University of Washington;|McGill University;|Whitehead Institute;|University of California San Francisco
http://dx.doi.org/10.1101/185280 2017-09-07 CC BY-NC-ND Mercury concentrations in Double-crested Cormorant chicks across Canada Raphael A. Lavoie|Linda M. Campbell Queen's University;|St. Mary's University
http://dx.doi.org/10.1101/185603 2017-09-07 CC BY-NC-ND Task-related effective connectivity reveals that the cortical rich club gates cortex-wide communication Mario Senden|Niels Reuter|Martijn van den Heuvel|Rainer Goebel|Gustavo Deco|Matthieu Gilson Maastricht University;|Forschungszentrum Juelich;|Brain Center Rudolf Magnus, Utrecht;|Universitat Pompeu Fabra, Barcelona
http://dx.doi.org/10.1101/185629 2017-09-07 CC BY-ND Genome-Wide Association Studies Identify 15 Genetic Markers Associated with Marmite Taste Preference Thomas Roos|Nikolay Kulemin|Ildus Ahmetov|Avi Lasarow|Keith Grimaldi DNAFit Ltd.; Ecole Polytechnique Federale de Lausanne (Lausanne, CH);|Federal Research and Clinical Centre of Physical-Chemical Medicine (Moscow, RU);|Laboratory of Molecular Genetics, Kazan State Medical University (Kazan, RU);|DNAFit Ltd.
http://dx.doi.org/10.1101/186064 2017-09-07 CC BY-NC-ND Or22 allelic variation alone does not explain differences in discrimination of yeast-produced volatiles by D. melanogaster Carolyn Elya|Allison S Quan|Kelly M Schiabor|Michael Eisen University of California Berkeley;|Ballast Point Brewing Co.
http://dx.doi.org/10.1101/186072 2017-09-07 CC BY-NC-ND Basolateral amygdala glutamatergic neurons maintain aversive emotional salience Auntora Sengupta|Joanna O.Y. Yau|Philip Jean-Richard Dit Bressel|Yu Liu|E. Zayra Millan|John M. Power|Gavan P. McNally UNSW Sydney
http://dx.doi.org/10.1101/186056 2017-09-07 CC BY-NC-ND Activation of tumor suppressor genes in breast cancer cells by a synthetic chromatin effector Kimberly C Olney|David B Nyer|Melissa A Wilson Sayres|Karmella Haynes Arizona State University
http://dx.doi.org/10.1101/185918 2017-09-07 CC BY-NC-ND A Library of Phosphoproteomic and Chromatin Signatures for Characterizing Cellular Responses to Drug Perturbations Lev Litichevskiy|Ryan Peckner|Jennifer G. Abelin|Jacob K. Asiedu|Amanda L. Creech|John F. Davis|Desiree Davison|Caitlin M. Dunning|Jarrett D. Egertson|Shawn Egri|Joshua Gould|Tak Ko|Sarah A. Johnson|David L. Lahr|Daniel Lam|Zihan Liu|Nicholas J. Lyons|Xiaodong Lu|Brendan X. MacLean|Alison E. Mungenast|Adam Officer|Ted E. Natoli|Malvina Papanastasiou|Jinal Patel|Vagisha Sharma|Courtney Toder|Andrew A. Tubelli|Jennie Z. Young|Steven A. Carr|Todd R. Golub|Aravind Subramanian|Michael J. MacCoss|Li-Huei Tsai|Jacob Jaffe The Broad Institute, 415 Main St., Cambridge, MA 02142 USA;|University of Washington, Department of Genome Sciences, 3720 15th Ave NE, Seattle WA;|Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA
http://dx.doi.org/10.1101/185991 2017-09-07 CC BY Chromatin run-on reveals nascent RNAs that differentiate normal and malignant brain tissue Tinyi Chu|Edward J Rice|Gregory T Booth|Hans H Salamanca|Zhong Wang|Leighton J Core|Sharon L Longo|Robert J Corona|Lawrence S Chin|John T Lis|Hojoong Kwak|Charles Danko Cornell University;|SUNY Upstate Medical University;|University of Connecticut
http://dx.doi.org/10.1101/186015 2017-09-07 CC BY-NC-ND Functional characterization of the ABF gene family in upland cotton (Gossypium hirsutum L.) Tyson C. C. Kerr|Haggag Abdel-Mageed|MiYoung Kang|Dakota Cryer|Randy D. Allen Oklahoma State University
http://dx.doi.org/10.1101/185942 2017-09-07 HiCTMap: Detection and Analysis of Chromosome Territory Structure and Position by High-throughput Imaging Ziad Mohamoud Jowhar|Prabhakar Gudla|Sigal Shachar|Darawalee Wangsa|Jill L Russ|Gianluca Pegoraro|Thomas Ried|Armin Raznahan|Tom Misteli National Cancer Institute;|National Institute of Mental Health
http://dx.doi.org/10.1101/182345 2017-09-07 Using gene genealogies to localize rare variants associated with complex traits in diploid populations Charith B. Karunarathna|Jinko Graham Simon Fraser University
http://dx.doi.org/10.1101/186049 2017-09-07 CC BY-NC-ND Src42A required for collective border cell migration in vivo Yasmin Sallak|Alba Yurani Torres|Hongyan Yin|Denise Montell University of California, Santa Barbara;|Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/185983 2017-09-07 CC BY-NC-ND The number of orphans in yeast and fly is drastically reduced by using combining searches in both proteomes and genomes Walter Basile|Arne Elofsson Stockholm University
http://dx.doi.org/10.1101/186023 2017-09-07 Investigation of the role of a macromolecular complex of CFTR-NHERF2-LPA2 in the fluid hemostasis and inflammatory responses in intestinal epithelial cells Shanshan Kong|Weiqiang Zhang University of Tennessee
http://dx.doi.org/10.1101/185934 2017-09-07 CC BY Hsf1 phosphorylation generates cell-to-cell variation in Hsp90 levels and promotes phenotypic plasticity Xu Zheng|Ali Beyzavi|Joanna Krakowiak|Nikit Patel|Ahmad S. Khalil|David Pincus Whitehead Institute;|Boston University
http://dx.doi.org/10.1101/185314 2017-09-07 Nitrogen conservation, conserved: 46 million years of N-recycling by the core symbionts of turtle ants Yi Hu|Jon G. Sanders|Piotr ukasik|Catherine L. D'Amelio|John S. Millar|David R. Vann|Yemin Lan|Justin A. Newton|Mark Schotanus|John T. Wertz|Daniel J. C. Kronauer|Naomi E. Pierce|Corrie S. Moreau|Philipp Engel|Jacob A. Russell Drexel University, Philadelphia, PA, USA;|Harvard University, Cambridge, MA, USA;|University of Pennsylvania, Philadelphia, PA, USA;|Calvin College, Grand Rapids, MI, USA;|The Rockefeller University, 1230 York Avenue, New York, NY, USA;|Field Museum of Natural History, Chicago, IL, USA;|University of Lausanne, Lausanne, Switzerland
http://dx.doi.org/10.1101/185520 2017-09-07 Dynorphin counteracts orexin in the paraventricular nucleus of the thalamus: cellular and behavioral evidence Alessandra Matzeu|Marsida Kallupi|Olivier George|Paul Schweitzer|Remi Martin-Fardon The Scripps Research Institute
http://dx.doi.org/10.1101/185538 2017-09-07 Administration of orexin A in the posterior paraventricular nucleus of the thalamus promotes cocaine-seeking behavior and is associated with hypothalamic activation Alessandra Matzeu|Remi Martin-Fardon The Scripps Research Institute
http://dx.doi.org/10.1101/185207 2017-09-07 Indirect assortative mating for human disease and longevity Konrad Rawlik|Oriol Canela-Xandri|Albert Tenesa Roslin Institute;|The Roslin Institute; The University of Edinburgh;|University of Edinburgh
http://dx.doi.org/10.1101/185264 2017-09-07 CC BY-NC-ND Cueing memory during sleep is optimal during slow-oscillatory up-states Maurice Goldi|Eva van Poppel|Bjorn Rasch|Thomas Schreiner University of Fribourg;|Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/184341 2017-09-07 CC BY-NC-ND Temporal dissociation of salience and prediction error responses to appetitive and aversive taste Emily Hird|Wael El-Deredy|Anthony Jones|Deborah Talmi University of Manchester
http://dx.doi.org/10.1101/185348 2017-09-07 CC BY Machine learning leveraging genomes from metagenomes identifies influential antibiotic resistance genes in the infant gut microbiome Sumayah F. Rahman|Matthew R. Olm|Michael J. Morowitz|Jillian F. Banfield University of California, Berkeley;|University of Pittsburgh
http://dx.doi.org/10.1101/185397 2017-09-07 CC BY The Impact of In-Scanner Head Motion on Structural Connectivity Derived from Diffusion Tensor Imaging Graham L. Baum|David R. Roalf|Philip A. Cook|Rastko Ciric|Adon F. G. Rosen|Cedric Xia|Mark A. Elliot|Kosha Ruparel|Ragini Verma|Birkan Tunc|Ruben C. Gur|Raquel E. Gur|Danielle S. Bassett|Theodore D. Satterthwaite University of Pennsylvania, Department of Psychiatry;|University of Pennsylvania, Department of Radiology;|University of Pennsylvania, Depts. of Bioengineering and Electrical and Systems Engineering
http://dx.doi.org/10.1101/185850 2017-09-07 CC BY-NC-ND ERAASR: An algorithm for removing electrical stimulation artifacts from multielectrode array recordings Daniel J. O'Shea|Krishna V. Shenoy Stanford University
http://dx.doi.org/10.1101/185652 2017-09-07 CC BY Complex models of sequence evolution require accurate estimators as exemplified with the invariable site plus Gamma model Lam Tung Nguyen|Arndt von Haeseler|Bui Quang Minh Center for Integrative Bioinformatics Vienna, University of Vienna, Medical University of Vienna
http://dx.doi.org/10.1101/185611 2017-09-07 CC BY-NC-ND Cued reactivation during slow-wave sleep induces connectivity changes related to memory stabilization. Ruud M. W. J. Berkers|Matthias Ekman|Eelco V. van Dongen|Atsuko Takashima|Markus Barth|Ken Paller|Guillen Fernandez Donders Institute for Brain, Cognition and Behaviour;|Donders Institute for Brain, Cognition & Behaviour;|Northwestern University
http://dx.doi.org/10.1101/185967 2017-09-07 Highly expressed genes evolve under strong epistasis from a proteome-wide scan in E. coli Eric Girard|Pouria Dasmeh|Adrian Serohijos Department of Biochemistry and Molecular Medicine, University of Montreal
http://dx.doi.org/10.1101/185843 2017-09-07 CC BY-ND mosdepth: quick coverage calculation for genomes and exomes Brent S. Pedersen|Aaron Quinlan University of Utah
http://dx.doi.org/10.1101/185868 2017-09-07 CC BY-ND A sequence-based, deep learning model accurately predicts RNA splicing branchpoints Joseph M. Paggi|Gill Bejerano Stanford University
http://dx.doi.org/10.1101/185694 2017-09-07 Pan-arthropod analysis reveals somatic piRNAs as an ancestral TE defence Samuel H. Lewis|Kaycee A. Quarles|Yujing Yang|Melanie Tanguy|Lise Frezal|Stephen A. Smith|Prashant P. Sharma|Richard Cordaux|Clement Gilbert|Isabelle Giraud|David H. Collins|Phillip D. Zamore|Eric A. Miska|Peter Sarkies|Francis M. Jiggins University of Cambridge;|Howard Hughes Medical Institute;|Wellcome Trust/Cancer Research UK Gurdon Institute;|Institut de Biologie de l'Ecole Normale Superieure;|Virginia Maryland College of Veterinary Medicine;|University of Wisconsin-Madison;|Universite de Poitiers;|CNRS Universite Paris-Sud;|University of East Anglia;|MRC London Institute of Medical Sciences
http://dx.doi.org/10.1101/185702 2017-09-07 CC BY-NC-ND Likelihood analysis of population genetic data under coalescent models: computational and inferential aspects Francois Rousset|Champak Reddy Beeravolu|Raphael Leblois CNRS;|City College of New York;|INRA
http://dx.doi.org/10.1101/185876 2017-09-07 CC BY-ND Complemented palindrome small RNAs first discovered from SARS coronavirus Chang Liu|Ze Chen|Wenyuan Shen|Yu Sun|Zhenfeng Wu|Yue Hu|Deshui Yu|Wenjun Bu|Qingsong Wang|Shan Gao Nankai University;|Chinese Academy of Agricultural Science;|Tianjin Medical University
http://dx.doi.org/10.1101/185728 2017-09-07 CC BY-NC-ND The role of hybridization during ecological divergence of southwestern white pine (Pinus strobiformis) and limber pine (P. flexilis) Mitra Menon|Justin C Bagley|Christopher Friedline|Amy V Whipple|Anna W Schoettle|Alejandro Leal-Saenz|Christian Wehenkel|Francisco Molina-Freaner|Lluvia Flores-Renteria|M. Socorro Gonzalez-Elizondo|Richard A Sniezko|Samuel A Cushman|Kristen M Waring|Andrew J Eckert Virginia Commonwealth University;|Northern Arizona University;|USDA Forest Service;|Universidad Juarez del Estado de Durango;|Universidad Nacional Autonoma de Mexico;|San Diego State University;|Instituto Politecnico Nacional;|USDA Forest Service, Dorena Genetic Resource Center
http://dx.doi.org/10.1101/185801 2017-09-07 Sparse interaction between oligodendrocyte precursor cells (NG2+ cells) and nodes of Ranvier in the central nervous system Lindsay Mitchell De Biase|Michele L. Pucak|Shin H. Kang|Stephanie N. Rodriguez|Dwight E. Bergles Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/185785 2017-09-07 CC BY-NC-ND Modeling Marek's disease virus transmission: a framework for evaluating the impact of farming practices and evolution on disease David A. Kennedy|Patricia A. Dunn|Andrew F. Read The Pennsylvania State University
http://dx.doi.org/10.1101/185835 2017-09-07 CC BY-NC-ND Presurgical language fMRI: Current practices and patient outcomes in epilepsy surgical planning Christopher F. A. Benjamin|Alexa X. Li|Hal Blumenfeld|R. Todd Constable|Rafeed Alkawadri|Stephan Bickel|Christoph Helmstaedter|Stephano Meletti|Richard Bronen|Simon K. Warfield|Juriaan M. Peters|David C. Reutens|Monika Polczynska|Dennis D. Spencer|Lawrence J. Hirsch Yale Medical School;|Quinnipiac University School of Medicine;|Stanford University;|University of Bonn;|University of Modena and Reggio Emilia;|Harvard Medical School;|University of Queensland;|University of California Los Angeles, CA USA
http://dx.doi.org/10.1101/185710 2017-09-07 When a rose is not a rose: Pyramidal neurons respond differently in healthy and epileptic human neocortex Kevin Joseph|Vidhya M. Ravi|Katerina Argiti|Thomas J. Feuerstein|Josef Zentner|Rosanna Migliore|Michele Migliore|Ulrich G. Hofmann Section for Neuroelectronic Systems, Clinic for Neurosurgery, Medical Center-Univ. Freiburg;|Clinic for Neurosurgery, Medical Center University of Freiburg;|Institute of Biophysics, National Research Council
http://dx.doi.org/10.1101/185736 2017-09-07 CC BY-NC-ND Enabling rapid cloud-based analysis of thousands of human genomes via Butler Sergei Yakneen|Sebastian Waszak|Michael Gertz|Jan O. Korbel European Molecular Biology Laboratory;|Institute of Computer Science, Heidelberg University
http://dx.doi.org/10.1101/185645 2017-09-07 CC BY-NC-ND A comparison between the neural correlates of laser and electric pain stimulation and their modulation by expectation Emily Hird|Deborah Talmi|Anthony K. P. Jones|Wael El-Deredy University of Manchester
http://dx.doi.org/10.1101/185751 2017-09-07 CC BY Temperate phages as frequency-dependent weapons in bacterial competition Xiang-Yi Li|Tim Lachnit|Sebastian Fraune|Thomas C. G. Bosch|Arne Traulsen|Michael Sieber Department of Evolutionary Biology and Environmental Studies, University of Zürich;|Zoological Institute, Christian-Albrechts-University Kiel;|Department of Evolutionary Theory, Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/185926 2017-09-07 Physiology Universal Transcriptional Responses to Different Modalities of Traumatic Stress as a Measure of Stress Exposure Moriah L. Jacobson|Lydia A. Kim|Barbara Rosati|David McKinnon Stony Brook University
http://dx.doi.org/10.1101/185074 2017-09-07 Neuroscience CC BY-NC-ND Alpha oscillations control cortical gain by modulating excitatory-inhibitory background activity. Erik J. Peterson|Bradley Voytek University of California, San Diego
http://dx.doi.org/10.1101/185546 2017-09-07 Genetics CC BY-NC-ND Transcriptional signatures of schizophrenia in hiPSC-derived NPCs and neurons are concordant with signatures from post mortem adult brains Gabriel E. Hoffman|Brigham J. Hartley|Erin Flaherty|Ian Ladran|Peter Gochman|Douglas Ruderfer|Eli A. Stahl|Judith Rapoport|Pamela Sklar|Kristen J. Brennand Icahn School of Medicine at Mount Sinai;|National Institute of Mental Health, National Institutes of Health;|Vanderbilt University Medical Center
http://dx.doi.org/10.1101/185827 2017-09-07 Developmental Biology Drosophila beta-Tubulin 97EF is upregulated at low temperature and stabilizes microtubules Faina Myachina|Fritz Bosshardt|Johannes Bischof|Moritz Kirschmann|Christian F. Lehner University of Zurich
http://dx.doi.org/10.1101/185389 2017-09-07 Neuroscience Dynamic patterns of cortical expansion during folding of the preterm human brain Kara E. Garcia|Emma Claire Robinson|Dimitrios Alexopoulos|Donna L. Dierker|Matthew F. Glasser|Timothy S. Coalson|Cynthia M. Ortinau|Daniel Rueckert|Larry A. Taber|David C. Van Essen|Cynthia E. Rogers|Christopher D. Smyser|Philip V. Bayly Washington University in St. Louis;|King's College London;|Washington University School of Medicine;|Imperial College London
http://dx.doi.org/10.1101/185413 2017-09-07 Genomics CC BY-NC Trendy: Segmented regression analysis of expression dynamics for high-throughput ordered profiling experiments Rhonda Bacher|Ning Leng|Li-Fang Chu|James Thomson|Christina Kendziorski|Ron Stewart University of Wisconsin-Madison;|Morgridge Institute for Research
http://dx.doi.org/10.1101/185892 2017-09-07 Evolutionary Biology CC BY-NC Collateral sensitivity is contingent on the repeatability of evolution Daniel Nichol|Joseph Rutter|Christopher Bryant|Peter Jeavons|Alexander Anderson|Robert Bonomo|Jacob Scott University of Oxford;|Louis Stokes Cleveland VA;|Case Western Reserve University School of Medicine;|Moffitt Cancer Center;|Cleveland Clinic
http://dx.doi.org/10.1101/185488 2017-09-07 Bioinformatics Paratope Prediction using Convolutional and Recurrent Neural Networks Edgar Liberis|Petar Velickovic|Pietro Sormanni|Michele Vendruscolo|Pietro Lio University of Cambridge
http://dx.doi.org/10.1101/185678 2017-09-07 Evolutionary Biology CC BY-NC-ND Estimating the Mutational Fitness Effects Distribution during early HIV infection Eva Bons|Roland R Regoes|Frederic Bertels ETH Zurich;|Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/182154 2017-09-07 Bioinformatics A Methodology for Evaluating the Performance of Alerting and Detection Algorithms Running on Continuous Patient Data Larry J. Eshelman|Minnan Xu-Wilson|Brian Gross|Larry Nielsen|Mohammed Saeed|Joseph J. Frassica Philips Research North America;|Philips Healthcare;|University of Michigan; Philips Healthcare
http://dx.doi.org/10.1101/185504 2017-09-07 Bioinformatics BraCeR: Reconstruction of B-cell receptor sequences and clonality inference from single-cell RNA-sequencing Ida Lindeman|Guy Emerton|Ludvig M. Sollid|Sarah Teichmann|Michael J. T. Stubbington University of Oslo and Oslo University Hospital and Wellcome Trust Sanger Institute;|Wellcome Trust Sanger Institute;|University of Oslo and Oslo University Hospital
http://dx.doi.org/10.1101/185660 2017-09-07 Cell Biology CC BY CDK1 and PLK1 co-ordinate the disassembly and re-assembly of the Nuclear Envelope in vertebrate mitosis. Ines J de Castro|Raquel Sales Gil|Lorena Ligammari|Maria Laura Di Giacinto|Paola Vagnarelli Brunel University London
http://dx.doi.org/10.1101/185496 2017-09-07 Molecular Biology Impeding transcription of expanded microsatellite repeats by deactivated Cas9 Belinda Pinto|Tanvi Saxena|Ruan Oliveira|Hector R. Mendez-Gomez|John D. Cleary|Lance T. Denes|Ona McConnell|Juan Arboleda|Guangbin Xia|Maurice Swanson|Eric T. Wang University of Florida
http://dx.doi.org/10.1101/185769 2017-09-07 Genetics Genetic Analysis of Lodging in Diverse Maize Hybrids Sara J. Larsson|Jason A. Peiffer|Jode W. Edwards|Elhan S. Ersoz|Sherry A. Flint-Garcia|James B. Holland|Michael D. McMullen|Mitchell R. Tuinstra|Cinta Romay|Edward S. Buckler DuPont Pioneer;|Driscoll's;|USDA-ARS;|Benson Hill Biosystems;|USDA-ARS, University of Missouri;|USDA-ARS, North Carolina State University;|Purdue University;|Cornell University;|USDA-ARS, Cornell University
http://dx.doi.org/10.1101/185744 2017-09-07 Bioinformatics CC BY Channel crosstalk correction in suspension and imaging mass cytometry Stephane Chevrier|Helena Crowell|Vito Riccardo Tomaso Zanotelli|Stefanie Engler|Mark D. Robinson|Bernd Bodenmiller University of Zurich
http://dx.doi.org/10.1101/184135 2017-09-07 Developmental Biology High-Resolution Dissection of Conducive Reprogramming Trajectory to Ground State Pluripotency Asaf Zviran|Nofar Mor|Yoach Rais|Hila Gingold|Shani Peles|Elad Chomsky|Sergey Viukov|Jason D. Buenrostro|Leehee Weinberger|Yair S. Manor|Vladislav Krupalnik|Mirie Zerbib|Hadas Hezroni|Diego Adhemar Jaitin|David Larastiaso|Shlomit Gilad|Sima Benjamin|Awni Mousa|Muneef Ayyash|Daoud Sheban|Jonathan Bayerl|Alejandro Aguilera Castrejon|Rada Massarwa|Itay Maza|Suhair Hanna|Ido Amit|Yonatan Stelzer|Igor Ulitsky|William J. Greenleaf|Yitzhak Pilpel|Noa Novershtern|Jacob H. Hanna Weizmann Institute of Science;|Broad Institute of MIT and Harvard;|Rambam Hospital, Haifa, Israel;|Stanford University
http://dx.doi.org/10.1101/186213 2017-09-08 Bioinformatics CC BY canvasXpress: A versatile interactive high-resolution scientific multi-panel visualization toolkit Baohong Zhang|Shanrong Zhao|Isaac Neuhaus Pfizer, Inc.;|Bristol-Myers Squibb Company
http://dx.doi.org/10.1101/186288 2017-09-08 Bioinformatics Statistical power of gene-set enrichment analysis is a function of gene set correlation structure David Swanson Oslo Centre for Biostatistics and Epidemiology
http://dx.doi.org/10.1101/186320 2017-09-08 Bioinformatics CC BY-NC A comprehensive profile of circulating RNAs in human serum Sinan Ugur Umu|Hilde Langseth|Cecilie Bucher-Jonannessen|Bastian Fromm|Andreas Keller|Eckart Meese|Marianne Lauritzen|Magnus Leithaug|Robert Lyle|Trine Rounge Department of Research, Cancer Registry of Norway, Oslo, Norway;|Dep. of Tumor Biol., Inst. for Cancer Res., Norwegian Radium Hospital, Oslo Univ.;|Department of Clinical Bioinformatics, Saarland University, 66041, Saarbruecken, Germany;|Department of Human Genetics, Saarland University, 66421, Homburg/Saar, Germany;|Dept. of Medical Genetics, Oslo University Hospital; University of Oslo, Norway
http://dx.doi.org/10.1101/186346 2017-09-08 Microbiology A single Vibrionales 16S rRNA oligotype dominates the intestinal microbiome in two geographically separated Atlantic cod populations Even Sannes Riiser|Thomas Hendricus Augustus Haverkamp|Oernulf Borgan|Kjetill Sigurd Jakobsen|Sissel Jentoft|Bastiaan Star University of Oslo
http://dx.doi.org/10.1101/186262 2017-09-08 Microbiology CC BY KCC1 Activation protects Mice from the Development of Experimental Cerebral Malaria. Elinor Hortle|Fiona Brown|Jane Stephen|David Curtis|Brendan McMorran|Simon Foote|Gaetan Burgio The Australian National University, Canberra, Australia;|Monash University, Melbourne, Australia;|The Australian National University
http://dx.doi.org/10.1101/186155 2017-09-08 Microbiology CC BY-NC-ND Infection via mosquito bite alters Zika virus replication kinetics in rhesus macaques Dawn Dudley|Christina Newman|Joseph Lalli|Laurel Stewart|Michelle Koening|Andrea Weiler|Matthew Semler|Gabrielle Barry|Katie Zarbock|Mariel Mohns|Meghan Breitbach|Nancy Schultz-Darken|Eric Peterson|Wendy Newton|Emma Mohr|Saverio Capuano|Jorge Osorio|Shelby O'Connor|David O'Connor|Thomas Friedrich|Matthew Aliota University of Wisconsin-Madison
http://dx.doi.org/10.1101/186122 2017-09-08 Neuroscience CC BY A unified framework for dissecting the effects of common signals on functional and effective connectivity analyses: power, coherence, and Granger causality Dror Cohen|Naotsugu Tsuchiya Monash University
http://dx.doi.org/10.1101/186585 2017-09-08 Electrical synapses between inhibitory neurons shape the responses of principal neurons to transient inputs in the thalamus Tuan Pham|Julie Haas Lehigh University
http://dx.doi.org/10.1101/186528 2017-09-08 CC BY An integrated analysis of the epigenetic, genetic, and transcriptional patterns associated with outcome across cancer types Joan Clara Smith|Jason Meyer Sheltzer Google, Inc.;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/186163 2017-09-08 Epidemiology CC BY-NC-ND Review of UNAIDS national estimates of men who have sex with men, gay dating application users, and HIV 90-90-90 data Reuben Granich|Somya Gupta|Alex Garner|Sean Howell Independent Public Health Consultant;|Hornet
http://dx.doi.org/10.1101/185512 2017-09-08 Epidemiology CC BY A novel data-driven model for real-time influenza forecasting Siva R. Venna|Amirhossein Tavanaei|Raju N. Gottumukkala|Vijay V. Raghavan|Anthony Maida|Stephen Nichols University of Louisiana at Lafayette;|Schumacher Clinical Partners
http://dx.doi.org/10.1101/186387 2017-09-08 Epidemiology Clustering of adult-onset diabetes into novel subgroups guides therapy and improves prediction of outcome Emma Ahlqvist|Petter Storm|Annemari Karajamaki|Mats Martinell|Mozhgan Dorkhan|Annelie Carlsson|Petter Vikman|Rashmi B. Prasad|Dina Mansour Aly|Peter Almgren|Ylva Wessman|Nael Shaat|Peter Spegel|Hindrik Mulder|Eero Lindholm|Olle Melander|Ola Hansson|Ulf Malmqvist|Ake Lernmark|Kaj Lahti|Tom Forsen|Tiinamaija Tuomi|Anders H. Rosengren|Leif Groop Lund University Diabetes Centre, Malmoe, Sweden;|Vaasa Central Hospital, Vaasa, Finland;|Uppsala University, Uppsala, Sweden;|Lund University Hospital, Sweden;|Folkhalsan Research Center, Helsinki, Finland
http://dx.doi.org/10.1101/186437 2017-09-08 Biophysics The lamellipodium is a myosin independent mechanosensor Patrick W. Oakes|Tamara C. Bidone|Yvonne Beckham|Austin V. Skeeters|Guillermina R. Ramirez-San Juan|Stephen P. Winter|Gregory A. Voth|Margaret L. Gardel University of Rochester;|University of Chicago
http://dx.doi.org/10.1101/181826 2017-09-08 Genomics CC BY-NC-ND Comment on "A genetic signature of the evolution of loss of flight in the Galapagos cormorant" Mark J. Berger|Gill Bejerano Stanford University
http://dx.doi.org/10.1101/186031 2017-09-08 Genetics CC BY-NC-ND Evolutionary Genetics of a Disease Susceptibility Locus in CDHR3 Mary B. O'Neill|Guillaume Laval|Joao Teixeira|Ann Palmenberg|Caitlin Pepperell University of Wisconsin - Madison;|Institut Pasteur
http://dx.doi.org/10.1101/186403 2017-09-08 Cancer Biology Down-regulation of LRIG1 by miR-20a modulates gastric cancer multidrug resistance Lin Zhou|Xiaowei Li|Fan Zhou|Zhi'an Jin|Di Chen|Pin Wang|Shu Zhang|Yuzheng Zhuge|Yulong Shang|Xiaoping Zou Dept. of Gastroenterol., Nanjing Drum Tower Hosp., Affil. Hosp. of Nanjing Univ. Med. School;|State Key Laboratory of Cancer Biology; Xijing Hospital of Digestive Diseases;|The Second Outpatient Department of Chengdu Army Region Authority
http://dx.doi.org/10.1101/186395 2017-09-08 Developmental Biology Nkx2.5-dependent alterations of the embryonic heart DNA methylome identify novel cis-regulatory elements in cardiac development Bushra Gorsi|Timothy Mosbruger|Megan Smith|Jonathon Hill|H. Joseph Yost University of Utah;|University of Utah; Brigham Young University
http://dx.doi.org/10.1101/185041 2017-09-08 Immunology CC BY Analysis of the immunological biomarker profile during acute Zika virus infection reveals the overexpression of CXCL10, a chemokine already linked to neuronal damage Felipe Gomes Naveca|Gemilson Pontes|Aileen Chang|George Allan Villarouco da Silva|Valdinete Alves do Nascimento|Dana Cristina da Silva Monteiro|Marineide Souza da Silva|Ligia Fernandes Abdalla|Joao Hugo Abdalla Santos|Tatiana Amaral Pires de Almeida|Matilde del Carmen Contreras Mejia|Tirza Gabrielle Ramos de Mesquita|Helia Valeria de Souza Encarnacao|Matheus de Souza Gomes|Laurence Rodrigues Amaral|Ana Carolina Campi-Azevedo|Jordana Grazziela Coelho-dos-Reis|Lis Antonelli|Andrea Teixeira-Carvalho|Olindo Martins-Filho|Rajendranath Ramasawmy Fiocruz - ILMD;|Instituto Nacional de Pesquisas da Amazonia;|George Washington University;|Universidade Federal do Amazonas;|Universidade do Estado do Amazonas;|Hospital Adventista de Manaus;|Fundação de Medicina Tropical Dr. Heitor Vieira Dourado;|Universidade Federal de Uberlândia;|Fiocruz CPqRR
http://dx.doi.org/10.1101/186270 2017-09-08 Neuroscience CC BY-NC-ND Longitudinal development of hippocampal subregions from childhood to adulthood Christian K. Tamnes|Marieke G. N. Bos|Ferdi C. van de Kamp|Sabine Peters|Eveline A. Crone University of Oslo;|Leiden University
http://dx.doi.org/10.1101/186205 2017-09-08 Microbiology CC BY-NC-ND Development of Echovirus 29 cytopathology in RD cell line might not happen within 10 days post inoculation. Moses Olubusuyi Adewumi|Temitope Oluwasegun Cephas Faleye|Olaitan Titilola Ayinde|Ukeme Ibanga Ibok|Johnson Adekunle Adeniji University of Ibadan, Nigeria;|Ekiti State University; University of Ibadan, Nigeria;|WHO National Polio Laboratory, Nigeria;|WHO National Polio Laboratory; University of Ibadan, Nigeria
http://dx.doi.org/10.1101/186239 2017-09-08 Neuroscience CC BY-NC-ND Increased axonal bouton stability during learning in the mouse model of MECP2 duplication syndrome Ryan Thomas Ash|Paul G Fahey|Jiyoung Park|Huda Y Zoghbi|Stelios M Smirnakis Brigham and Women's Hospital, Harvard Medical School;|Baylor College of Medicine
http://dx.doi.org/10.1101/186338 2017-09-08 Neuroscience CC BY Neuronal populations in the occipital cortex of the blind synchronize to the temporal dynamics of speech Markus Johannes van Ackeren|Francesca M. Barbero|Stefania Mattioni|Roberto Bottini|Olivier Collignon University of Trento;|Université catholique de Louvain
http://dx.doi.org/10.1101/185579 2017-09-08 Evolutionary Biology Genomic and transcriptomic signals of thermal tolerance in heat-tolerant corals (Platygyra daedalea) of the Arabian/Persian Gulf Nathan L. Kirk|Emily J. Howells|David Abrego|John A. Burt|Eli Meyer Oregon State University;|New York University - Abu Dhabi;|Zayed University
http://dx.doi.org/10.1101/186254 2017-09-08 Ecology CC BY-ND Invasion triple trouble: Environmental fluctuations, fluctuation-adapted invaders and fluctuation-mal-adapted communities all govern invasion success Kati Saarinen|Leena Lindstrom|Tarmo Ketola University of Jyvaskyla
http://dx.doi.org/10.1101/186197 2017-09-08 Cell Biology Inferring parameters for a lattice-free model of cell migration and proliferation using experimental data Alexander Browning|Scott W. McCue|Rachelle N. Binny|Michael J. Plank|Esha T. Shah|Matthew J. Simpson Queensland University of Technology;|Landcare Research;|University of Canterbury
http://dx.doi.org/10.1101/184432 2017-09-08 Bioinformatics CC BY-NC Trade-off shapes diversity in eco-evolutionary dynamics Farnoush Farahpour|Mohammadkarim Saeedghalati|Verena Brauer|Daniel Hoffmann University of Duisburg-Essen
http://dx.doi.org/10.1101/164707 2017-09-09 Evolutionary Biology CC BY-NC-ND Polygenic selection underlies evolution of human brain structure and behavioral traits Evan R. Beiter|Ekaterina A. Khramtsova|Celia van der Merwe|Emile Rugamika Chimusa|Corinne Simonti|Jason Stein|Paul Thompson|Simon Fisher|Dan J. Stein|John A. Capra|James A. Knowles|Barbara E. Stranger|Lea K. Davis Washington University;|University of Chicago;|University of Cape Town;|Vanderbilt University;|University of North Carolina, Chapel Hill;|Keck USC School of Medicine;|Radbound University; Max Planck Institute for Psycholinguistics;|State University of New York Downstate Medical Center
http://dx.doi.org/10.1101/186536 2017-09-09 Ecology CC BY Adult facilitation becomes competition as juvenile soapberry bugs age Meredith Cenzer University of California, Davis
http://dx.doi.org/10.1101/186544 2017-09-09 Biophysics CC BY-NC-ND Multiplane and Spectrally-Resolved Single Molecule Localization Microscopy with Industrial Grade CMOS Cameras Hazen Babcock Center for Advanced Imaging
http://dx.doi.org/10.1101/186551 2017-09-09 Microbiology CC BY Genetic and metabolic regulation of Mycobacterium tuberculosis acid growth arrest Jacob J. Baker|Robert B. Abramovitch Michigan State University
http://dx.doi.org/10.1101/186452 2017-09-09 Ecology CC BY-NC-ND DNA metabarcoding potentially reveals multi-assemblage eutrophication responses in an eastern North American river Joseph Craine|Matthew Cannon|Andrew Elmore|Steven Guinn|Noah Fierer Jonah Ventures;|University of Maryland;|University of Maryland Center for Environmental Studies;|University of Colorado
http://dx.doi.org/10.1101/186478 2017-09-09 Evolutionary Biology Avoiding ascertainment bias in the maximum likelihood inference of phylogenies based on truncated data Asif Tamuri|Nick Goldman EMBL-European Bioinformatics Institute
http://dx.doi.org/10.1101/186676 2017-09-09 Comparative Analysis Of Cell Ultrastructure With Evidences Of Programmed Death In Tissue Cultures Of Cereals Nazira Kozikeevna Bishimbayeva|Elena Vladimrovna Rakhimova Institute of Plant Biology and Biotechnology;|Institute of Botany and Phytointroduction
http://dx.doi.org/10.1101/186569 2017-09-09 Quantitative Characterization of Biological Age and Frailty Based on Locomotor Activity Records Timothy V. Pyrkov|Evgeny Getmantsev|Boris Zhurov|Konstantin Avchaciov|Mikhail Pyatnitskiy|Leonid Menshikov|Kristina Khodova|Andrei V. Gudkov|Peter O. Fedichev Gero LLC, 24/2 Novokuznetskaya Street, Moscow 119017, Russia;|Roswell Park Cancer Institute, Buffalo, NY 14263, USA
http://dx.doi.org/10.1101/186734 2017-09-09 CC BY Correlative three-dimensional fluorescence and refractive index tomography: bridging the gap between molecular specificity and quantitative bioimaging Kyoohyun Kim|WEI SUN PARK|Sangchan Na|Sangbum Kim|Taehong Kim|Won Do Heo|YongKeun Park KAIST;|Tomocube
http://dx.doi.org/10.1101/186577 2017-09-10 Ecology Extinction models of robustness for weighted ecological networks Miranda S Bane|Michael J. O. Pocock|Richard James The University of Bath;|Centre of Ecology and Hydrology
http://dx.doi.org/10.1101/186809 2017-09-10 Genomics Novel transcriptional activity and extensive allelic imbalance in the human MHC region Elizabeth Gensterblum|Weisheng Wu|Amr H. Sawalha University of Michigan
http://dx.doi.org/10.1101/186510 2017-09-10 Bioinformatics CC BY-NC-ND PDZ Domains in Microorganisms: Link Between Stress Response and Protein Synthesis Vijaykumar Yogesh Muley|Sanjeev Galande University College Cork, Ireland;|Indian Institute of Science, Education and Research, Pune, India
http://dx.doi.org/10.1101/186825 2017-09-10 Neuroscience CC BY-NC-ND The crossmodal congruency effect, a tool incorporation metric, suffers from a learning effect with repeated exposures Satinder Gill|Adam Wilson|Daniel Blustein|Jon Sensinger University of New Brunswick;|Unversity of New Brunswick
http://dx.doi.org/10.1101/186759 2017-09-10 Evolutionary Biology CC BY-NC Analysis of bacterial genomes from an evolution experiment with horizontal gene transfer shows that recombination can sometimes overwhelm selection Rohan Maddamsetti|Richard E. Lenski Harvard Medical School;|Michigan State University
http://dx.doi.org/10.1101/186304 2017-09-10 Neuroscience Impaired conscious access and abnormal attentional amplification in schizophrenia Lucie Berkovitch|Antoine Del Cul|Maxime Maheu|Stanislas Dehaene Cognitive Neuroimaging Unit CEA DRF/JOLIOT, INSERM, Univ. Paris-Sud, Univ. Paris-Saclay;|AP-HP, Groupe Hospitalier Pitie-Salpetriere, Service de Psychiatrie d'Adultes
http://dx.doi.org/10.1101/186767 2017-09-10 Evolutionary Biology CC BY-NC-ND A rainfall-manipulation experiment with 517 Arabidopsis thaliana accessions Moises Exposito-Alonso|Rocio Gomez Rodriguez|Cristina Barragan|Giovanna Capovilla|Eunyoung Chae|Jane Devos|Ezgi S. Dogan|Claudia Friedemann|Caspar Gross|Patricia Lang|Derek Lundberg|Vera Middendorf|Jorge Kageyama|Talia Karasov|Sonja Kersten|Sebastian Petersen|Leily Rabbani|Julian Regalado|Lukas Reinelt|Beth Rowan|Danelle K. Seymour|Efthymia Symeonidi|Rebecca Schwab|Diep Thi Ngoc Tran|Kavita Venkataramani|Anna-Lena Van de Weyer|Francois Vasseur|George Wang|Ronja Wedegartner|Frank Weiss|Rui Wu|Wanyan Xi|Maricris Zaidem|Wangsheng Zhu|Fernando Garcia-Arenal|Hernan A. Burbano|Oliver Bossdorf|Detlef Weigel Max Planck Institute for Developmental Biology, Tübingen, Germany;|Center for Plant Biotechnology and Genomics, Technical University of Madrid, Madrid, Spain;|Institute of Ecology and Evolution, University of Tübingen, Tübingen, Germany
http://dx.doi.org/10.1101/186742 2017-09-10 Neuroscience CC BY-ND Abdominal adiposity negatively associates with the rate of long term sequential skill learning Amira Millette|Brighid Lynch|Timothy Verstynen Carnegie Mellon University, Dept. of Psychology
http://dx.doi.org/10.1101/186692 2017-09-10 Animal Behavior and Cognition CC BY-NC-ND Positional encoding in cotton-top tamarins (Saguinus oedipus) Elisabetta Versace|Jessica R Rogge|Natalie Shelton-May|Andrea Ravignani University of Trento;|Harvard University;|Veterinary & Research Department, Sealcentre Pieterburen
http://dx.doi.org/10.1101/186874 2017-09-10 Bioinformatics CC BY-NC-ND IPCAPS: an R package for iterative pruning to capture population structure Kridsadakorn Chaichoompu|Fentaw Abegaz|Sissades Tongsima|Philip James Shaw|Anavaj Sakuntabhai|Luisa Pereira|Kristel Van Steen University of Liege;|National Center for Genetic Engineering and Biotechnology Thailand;|Institut Pasteur;|Universidade do Porto
http://dx.doi.org/10.1101/186817 2017-09-10 Neuroscience Perceptual decisions result from the continuous accumulation of memory and sensory evidence Aaron M. Bornstein|Mariam Aly|Samuel Feng|Nicholas B. Turk-Browne|Kenneth A. Norman|Jonathan D. Cohen Princeton University;|Columbia University;|Khalifa University, Abu Dhabi;|Yale University
http://dx.doi.org/10.1101/186890 2017-09-10 Cancer Biology Identification of DISE-inducing shRNAs by monitoring cellular responses Marcus Peter|Monal Patel Northwestern University
http://dx.doi.org/10.1101/181933 2017-09-10 Pharmacology and Toxicology CC BY-NC-ND Propofol induces metabolic reprogramming and cell death in a mitochondrial electron transport chain-dependent manner Chisato Sumi|Akihisa Okamoto|Hiromasa Tanaka|Kenichiro Nishi|Munenori Kusunoki|Tomohiro Shoji|Takeo Uba|Yoshiyuki Matsuo|Takehiko Adachi|Jun-Ichi Hayashi|Keizo Takenaga|Kiichi Hirota Institute of Biomedical Science, Kansai Medical University;|Department of Anesthesiology, Tazuke Kofukai Medical Institute Kitano Hospital;|University of Tsukuba;|Department of Life Science, Shimane University Faculty of Medicine
http://dx.doi.org/10.1101/186866 2017-09-10 Systems Biology CC BY-NC-ND Replication Timing Networks: a novel class of gene regulatory networks Juan Carlos Rivera-Mulia|Sebo Kim|Haitham Gabr|Tamer Kahveci|David M Gilbert Florida State University;|University of Florida
http://dx.doi.org/10.1101/186791 2017-09-10 Genetics CC BY Dose-response surface fits to drought and nitrogen limitation applied together allow mapping of loci that exhibit nonlinear responses Megan M. Chang|Danielle Allery Nail|Toni Kazic|Susan J. Simmons|Ann E. Stapleton University of North Carolina - Wilmington;|University of Missouri
http://dx.doi.org/10.1101/186858 2017-09-10 Microbiology Viable But Non-Culturable Cells Are Persister Cells Jun-Seob Kim|Nityananda Chowdhury|Thomas K Wood Pennsylvania State University
http://dx.doi.org/10.1101/184960 2017-09-10 Bioinformatics CC BY-NC-ND Understanding and mitigating some limitations of Illumina © MiSeq for environmental sequencing of fungi. Daniel Thomas|Graham Bailes|Roo Vandegrift|B. A. Roy University of Oregon
http://dx.doi.org/10.1101/186668 2017-09-10 Microbiology CC BY-NC-ND Regulated release of cryptococcal polysaccharide drives virulence and suppresses immune cell infiltration into the central nervous system Steven T. Denham|Surbhi Verma|Raymond C. Reynolds|Colleen L. Worne|Joshua M. Daugherty|Thomas E. Lane|Jessica C. S. Brown University of Utah
http://dx.doi.org/10.1101/186635 2017-09-10 Evolutionary Biology CC BY-NC-ND Population Genomics of the Foothill Yellow-Legged Frog (Rana boylii) and RADseq Parameter Choice for Large-Genome Organisms Evan McCartney-Melstad|Muge Gidis|H. Bradley Shaffer University of California, Los Angeles;|Dumlupınar University
http://dx.doi.org/10.1101/186494 2017-09-10 Genetics CC BY-NC-ND Novel full-length major histocompatibility complex class I allele discovery and haplotype definition in pig-tailed macaques Matthew Semler|Roger Wiseman|Julie Karl|Michael Graham|Samantha Gieger|David O'Connor University of Wisconsin - Madison
http://dx.doi.org/10.1101/186700 2017-09-10 Genomics Genomic evidence for population specific selection in Nilo-Saharan and Niger-Congo linguistic groups in Africa Julius Mulindwa|Harry A Noyes|Hamidou Ilboudo|Oscar Nyangiri|Mathurin Koffi|Dieudonne Mumba|Gustave Simo|John Enyaru|John Chisi|Martin Simuunza|Vincent P Alibu|Veerle Lejon|Vincent Jammoneau|Annette MacLeod|Bruno Bucheton|Christiane Hertz-Fowler|Issa Sidibe|Enock Matovu University of Makerere;|University of Liverpool;|Centre International de Recherche-Développement sur l'Elevage en zone Subhumide;|Université Jean Lorougnon Guédé;|Institut National de Recherche Biomedicale, Kinshasa;|University of Dschang;|University of Malawi;|University of Zambia;|Institut de Recherche pour le Développement (IRD), IRD-CIRAD;|University of Glasgow;|-
http://dx.doi.org/10.1101/185595 2017-09-10 Evolutionary Biology CC BY-NC-ND Heritable variation in bleaching responses and its functional genomic basis in reef-building corals (Orbicella faveolata) Katherine Dziedzic|Holland Elder|Eli Meyer Oregon State University
http://dx.doi.org/10.1101/187047 2017-09-10 CC BY-NC-ND Macroecology suggests cancer-causing papillomaviruses form non-neutral communities Marta Felez-Sanchez|Carmen Lia Murall|Ignacio G. Bravo Catalan Institute of Oncology (ICO), Barcelona, Spain;|Centre National de la Recherche Scientifique;|Centre National de la Recherche Scientifique (CNRS)
http://dx.doi.org/10.1101/187054 2017-09-10 CC BY-NC-ND De novo long-read assembly of a complex animal genome David Eccles|Jodie Chandler|Mali Camberis|Bernard Henrissat|Sergey Koren|Graham Le Gros|Jonathan Ewbank Malaghan Institute of Medical Research, Wellington, New Zealand;|CNRS UMR 7257, Aix-Marseille University, Marseille, France;|Genome Informatics Section, National Human Genome Research Institute, NIH;|Centre d'Immunologie de Marseille-Luminy, Aix Marseille Univ, CNRS, INSERM, Marseille
http://dx.doi.org/10.1101/186718 2017-09-10 Candidate genes-based investigation of susceptibility to Human African Trypanosomiasis in Côte d'Ivoire Bernadin Ahouty|Mathurin Koffi|Hamidou Ilboudo|Gustave Simo|Enock Matovu|Julius Mulindwa|Christiane Hertz-Fowler|Bruno Bucheton|Issa Sidibe|Vincent Jammoneau|Annette MacLeod|Harry Noyes|Simon-Pierre N'Guetta Felix Houphouet-Boigny University (UFHB), Cocody, Abidjan, Côte d'Ivoire;|Jean Lorougnon Guédé University (UJLoG), Daloa, Côte d'Ivoire;|Centre International de Recherche-Développement sur l'Elevage en zone Subhumide;|University of Dschang, Cameroon;|University of Makerere, Uganda;|University of Liverpool, UK;|Institut de Recherche pour le Développement (IRD), IRD-CIRAD;|University of Glasgow, UK;|Felix Houphouet Boigny University;|-
http://dx.doi.org/10.1101/187021 2017-09-10 Phenological responses to multiple environmental drivers under climate change: insights from a long-term observational study and a manipulative field experiment Susana M Wadgymar|Jane E Ogilvie|David W Inouye|Arthur E Weis|Jill T Anderson University of Georgia;|Florida State University;|University of Maryland;|University of Toronto
http://dx.doi.org/10.1101/186932 2017-09-10 CC BY-ND Estimates of vital rates and predictions of population dynamics change along a long-term monitoring program Simone Vincenzi|Dusan Jesensek|Alain J. Crivelli UCSC;|Tolmin Angling Association;|Tour Du Valat
http://dx.doi.org/10.1101/186965 2017-09-10 CC BY Evaluation of Convolutionary Neural Networks Modeling of DNA Sequences using Ordinal versus one-hot Encoding Method Allen Chieng Hoon Choong|Nung Kion Lee Universiti Malaysia Sarawak
http://dx.doi.org/10.1101/187005 2017-09-10 CC BY-ND Common framework for virtual lesion and state-dependent TMS: the facilitatory/suppressive range model of online TMS effects on behavior Juha Silvanto|Zaira Cattaneo University of Westminster;|University of Milano-Bicocca
http://dx.doi.org/10.1101/178541 2017-09-10 Characterizing the temporal dynamics of object recognition by deep neural networks: role of depth Kandan Ramakrishnan|Iris I. A. Groen|Arnold W. M. Smeulders|H. Steven Scholte|Sennay Ghebreab University of Amsterdam;|NIH
http://dx.doi.org/10.1101/186775 2017-09-10 The widespread misconception about the Japanese major biogeographic boundary, the Watase line (Tokara gap), revealed by bibliographic and beta diversity analyses Shohei Komaki|Takeshi Igawa Iwate Medical University;|Hiroshima University
http://dx.doi.org/10.1101/186411 2017-09-10 Expect to neglect: Cross-modal resource allocation in anticipation of visual load Katrin A. Bangel|Heleen A. Slagter|Ali Mazaheri University of Amsterdam, Academic Medical Centre;|University of Amsterdam;|University of Birmingham
http://dx.doi.org/10.1101/186924 2017-09-10 CC BY-NC-ND Integrative and distinctive coding of perceptual and conceptual object features in the ventral visual stream Chris B. Martin|Danielle Douglas|Rachel N. Newsome|Louisa L. Y. Man|Morgan D. Barense University of Toronto;|Mount Allison University;|Rotman Research Institute;|Queen's University
http://dx.doi.org/10.1101/187013 2017-09-10 CC BY-NC-ND A minimalist approach to protein identification G. Sampath Unaffiliated
http://dx.doi.org/10.1101/186882 2017-09-10 Rapid seasonal evolution in innate immunity of wild Drosophila melanogaster Emily L. Behrman|Virginia M. Howick|Martin Kapun|Fabian Staubach|Alan O. Bergland|Dmitri A. Petrov|Brian P. Lazzaro|Paul S. Schmidt Janelia Research Campus;|Wellcome Trust Sanger Institute;|University of Lausanne;|Albert Ludwigs University;|University of Virginia;|Stanford University;|Cornell University;|University of Pennsylvania
http://dx.doi.org/10.1101/180398 2017-09-10 CC BY Fossils know it best: using a new set of fossil calibrations to improve the temporal phylogenetic framework of murid rodents (Rodentia: Myomorpha: Muroidea: Muridae) Tatiana Aghova|Yuri Kimura|Josef Bryja|Gauthier Dobigny|Laurent Granjon|Gael J. Kergoat Institute of Vertebrate Biology of the Czech Academy of Sciences;|Department of Geology and Paleontology, National Museum of Nature and Science;|CBGP, IRD, CIRAD, INRA, Montpellier SupAgro, Univ. Montpellier;|CBGP, INRA, CIRAD, IRD, Montpellier SupAgro, Univ. Montpellier
http://dx.doi.org/10.1101/186502 2017-09-10 Instantiation of incentive value and movement invigoration by distinct midbrain dopamine circuits Benjamin Saunders|Jocelyn Richard|Elyssa Margolis|Patricia Janak Johns Hopkins University;|University of California-San Francisco
http://dx.doi.org/10.1101/186916 2017-09-10 Genetics CC BY-NC-ND POWERDRESS-mediated histone deacetylation is essential for thermomorphogenesis in Arabidopsis thaliana Celine Tasset|Avilash Singh Yadav|Sridevi Sureshkumar|Rupali Singh|Lennard van der Woude|Maxim Nekrasov|David Tremethick|Martijn van Zanten|Sureshkumar Balasubramanian Monash University;|Utrecht University;|Australian National University
http://dx.doi.org/10.1101/141945 2017-09-10 Cancer Biology Induction of DISE in ovarian cancer cells in vivo Andrea E. Murmann|Kaylin M. McMahon|Ashley Haluck-Kangas|Nandini Ravindran|Monal Patel|Calvin Law|Sonia Brockway|Jian-Jun Wei|C. Shad Thaxton|Marcus Peter Northwestern University
http://dx.doi.org/10.1101/134288 2017-09-10 Bioinformatics CC BY-ND Allosteric signalling paths in hemoglobin: a protein dynamics network analysis Emanuele Monza|George Blouin|Thomas G. Spiro|Victor Guallar Zymvol Biomodeling;|University of Washington;|Barcelona Supercomputing Center
http://dx.doi.org/10.1101/187252 2017-09-11 Neuroscience CC BY-NC Data-driven Topological Filtering based on Orthogonal Minimal Spanning Trees: Application to Multi-Group MEG Resting-State Connectivity Stavros Dimitriadis|Marios Antonakakis|Panagiotis Simos|Jack M. Fletcher|Andrew Papanicolau Inst. of Psychol. Med. & Clin. Neurosci; Cardiff Univ. Brain Research Imaging Centre;|Inst. of Biomagnetism & Biosignal Analysis, Westfalian Wilhelms-University Muenster;|School of Medicine, University of Crete, Greece;|Department of Psychology, University of Houston, TX, USA;|Dept. of Pediatrics, Univ. of Tenn. Health Sci. Ctr.; Neurosci. Inst., Le Bonheur Children's Hosp.
http://dx.doi.org/10.1101/187104 2017-09-11 Immunology CC BY-NC-ND Necrosis triggered by Mycobacterium tuberculosis alters macrophage triglyceride metabolism and inflammatory response in a DGAT1-dependent manner Neetika Jaisinghani|Stanzin Dawa|Kaurab Singh|Ananya Nandy|Dilip Menon|Purva Bhandari|Garima Khare|Anil Tyagi|Sheetal Gandotra CSIR-Institute of Genomics and Integrative Biology;|Dept of Biochemsitry, University of Delhi South Campus;|Dept. of Biochemsitry, Univ. of Delhi South Campus; Guru Gobind Singh Indraprastha Univ.
http://dx.doi.org/10.1101/187211 2017-09-11 Molecular Biology CC BY Insights into Gasdermin D activation from the crystal structure of its C-terminal domain Leonie Anton|Lorenzo Sborgi|Sebastian Hiller|Petr Broz|Timm Maier Biozentrum, University of Basel
http://dx.doi.org/10.1101/187328 2017-09-11 Systems Biology CC BY A Metabolic Reaction Balancing Web Service for Computational Systems Biology Paul D. Dobson|Pedro Mendes|Douglas B. Kell|Neil Swainston The University of Manchester;|University of Connecticut
http://dx.doi.org/10.1101/182469 2017-09-11 Physiology CC BY-NC-ND Deletion of murine IQGAP1 results in increased mTOR activation and blunted ketogenic response Hanna Erickson|Sayeepriyadarshini Anakk University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/187120 2017-09-11 Bioinformatics CC BY Capturing the Difference in Humoral Immunity between Normal and Tumor Environments from RNA Sequences of B-Cell Receptors Using Supervised Machine Learning Hiroki Konishi|Daisuke Komura|Hiroto Katoh|Shinichiro Atsumi|Hirotomo Koda|Asami Yamamoto|Seto Yasuyuki|Masashi Fukayama|Rui Yamaguchi|Seiya Imoto|Shumpei Ishikawa Dept. of Genomic Pathology, Medical Research Institute, Tokyo Medical and Dental University;|Dept. of Gastrointestinal Surgery, Graduate School of Medicine, The University of Tokyo;|Department of Pathology, Graduate School of Medicine, The University of Tokyo;|Institute of Medical Science, Human Genome Center, The University of Tokyo;|Institute of Medical Science, Health Intelligence Center;|Tokyo Medical and Dental University
http://dx.doi.org/10.1101/186940 2017-09-11 Genomics CC BY-NC-ND Comparison of seven single cell Whole Genome Amplification commercial kits using targeted sequencing Tamir Biezuner|Ofir Raz|Shiran Amir|Lilach Milo|Rivka Adar|Yael Fried|Elena Ainbinder|Ehud Shapiro Weizmann Institute of Science
http://dx.doi.org/10.1101/187062 2017-09-11 Neuroscience Reliable sensory processing in mouse visual cortex through inhibitory interactions between Somatostatin and Parvalbumin interneurons Rajeev V. Rikhye|Ming Hu|Murat Yildirim|Mriganka Sur Massachusetts Institute of Technology
http://dx.doi.org/10.1101/187260 2017-09-11 Cancer Biology CC BY-NC-ND Mutational interactions define novel cancer subgroups Jack Kuipers|Thomas Thurnherr|Giusi Moffa|Polina Suter|Jonas Behr|Ryan Goosen|Gerhard Christofori|Niko Beerenwinkel D-BSSE, ETH Zurich;|CEB, University Hospital Basel;|Department of Biomedicine, University of Basel;|ETH Zurich
http://dx.doi.org/10.1101/187310 2017-09-11 Neuroscience CC BY-NC-ND Internal amino acid state modulates yeast taste neurons to support protein homeostasis in Drosophila Kathrin Steck|Samuel J. Walker|Pavel M. Itskov|Celia Baltazar|Carlos Ribeiro Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/186361 2017-09-11 Genetics CC BY An almost nearly optimal sequential testing approach to permutation-based association testing Julian Hecker|Ingo Ruczinksi|Brent Coull|Christoph Lange Department of Biostatistics, Harvard T.H. Chan School of Public Health;|Department of Biostatistics, Bloomberg School of Public Health
http://dx.doi.org/10.1101/186353 2017-09-11 Animal Behavior and Cognition CC BY-NC-ND Filtering Methods to Improve the Accuracy of Indoor Positioning Data for Dairy Cows Matti Pastell|Lilli Frondelius|Mikko Jarvinen|Juha Backman Natural Resources Institute Finland (Luke)
http://dx.doi.org/10.1101/187336 2017-09-11 Molecular Biology Structural Design of Chimeric Antigens for Multivalent Protein Vaccines Sarah Louise Hollingshead|Ilse Jongerius|Rachel M. Exley|Steven Johnson|Susan M. Lea|Christoph M. Tang Sir William Dunn School of Pathology, University of Oxford;|University of Oxford
http://dx.doi.org/10.1101/187237 2017-09-11 Systems Biology CC BY-NC-ND Antisense transcription-dependent chromatin signature modulates sense transcription and transcript dynamics Thomas Brown|Francoise S. Howe|Struan C. Murray|Emily Seward|Scott Rata|Andrew Angel|Jane Mellor University of Oxford
http://dx.doi.org/10.1101/187088 2017-09-11 Systems Biology CC BY-NC-ND Trans-omic analysis reveals fed and fasting insulin signal across phosphoproteome, transcriptome, and metabolome Kentaro Kawata|Katsuyuki Yugi|Atsushi Hatano|Masashi Fujii|Yoko Tomizawa|Toshiya Kokaji|Takanori Sano|Kaori Y. Tanaka|Shinsuke Uda|Hiroyuki Kubota|Yutaka Suzuki|Masaki Matsumoto|Keiichi I. Nakayama|Kaori Saitoh|Keiko Kato|Ayano Ueno|Maki Ohishi|Tomoyoshi Soga|Shinya Kuroda University of Tokyo;|RIKEN;|Kyushu University;|Keio University
http://dx.doi.org/10.1101/181792 2017-09-11 Cancer Biology CC BY-NC-ND Dynamic changes in clonal architecture during disease progression in follicular lymphoma Christoffer Flensburg|Tobias Sargeant|Astrid Bosma|Roelof J. C. Kluin|Robby E. Kibbelaar|Mels Hoogendoorn|Warren S. Alexander|Andrew W. Roberts|Rene Bernards|Daphne de Jong|Ian Majewski The Walter and Eliza Hall Institute of Medical Research;|The Netherlands Cancer Institute;|Pathologie Friesland;|Medical Center Leeuwarden;|VU University Medical Center
http://dx.doi.org/10.1101/186148 2017-09-11 Genetics CC BY APC/CFZR-1 Controls SAS-5 Levels to Regulate Centrosome Duplication in Caenorhabditis elegans Jeffrey C. Medley|Lauren E. DeMeyer|Megan M. Kabara|Mi Hye Song Oakland University
http://dx.doi.org/10.1101/187195 2017-09-11 Neuroscience CC BY Standing Sentinel during Sleep: Continued Evaluation of Environmental Stimuli in the Absence of Consciousness Christine Blume|Renata del Giudice|Malgorzata Wislowska|Dominik Philipp Johannes Heib|Manuel Schabus University of Salzburg
http://dx.doi.org/10.1101/187542 2017-09-11 CC BY-ND No major flaws in "Identification of individuals by trait prediction using whole-genome sequencing data" Christoph Lippert|Riccardo Sabatini|M. Cyrus Maher|Eun Yong Kang|Seunghak Lee|Okan Arikan|Alena Harley|Axel Bernal|Peter Garst|Victor Lavrenko|Ken Yocum|Theodore M. Wong|Mingfu Zhu|Wen-Yun Yang|Chris Chang|Barry Hicks|Smritri Ramakrishnan|Haibao Tang|Amalio Telenti|Franz Och|J. Craig Venter Human Longevity, Inc.
http://dx.doi.org/10.1101/187435 2017-09-11 Real-time fluorescence and deformability cytometry - flow cytometry goes mechanics Philipp Rosendahl|Katarzyna Plak|Angela Jacobi|Martin Kraeter|Nicole Toepfner|Oliver Otto|Christoph Herold|Maria Winzi|Maik Herbig|Yan Ge|Salvatore Girardo|Katrin Wagner|Buzz Baum|Jochen Guck Biotechnology Center of the TU Dresden;|University Hospital Carl Gustav Carus, TU Dresden;|University College London
http://dx.doi.org/10.1101/187385 2017-09-11 CC BY-NC-ND The U2AF homology motif kinase 1 (UHMK1) is upregulated upon hematopoietic cell differentiation Isabella Barbutti|Joao Agostinho Machado-Neto|Vanessa Cristina Arfelli|Paula de Melo Campos|Fabiola Traina|Sara Teresinha Olalla Saad|Leticia Froehlich Archangelo Hematology and Transfusion Medicine Center, State University of Campinas (UNICAMP);|Department of Internal Medicine, Ribeirao Preto Medical School, University of Sao Paulo;|Dept. of Cellular & Molecular Biology & Pathogenic Bioagents, Ribeirao Preto Medical School
http://dx.doi.org/10.1101/187302 2017-09-11 CC BY-NC-ND Paupar LncRNA Promotes KAP1 Dependent Chromatin Changes And Regulates Subventricular Zone Neurogenesis Ioanna Pavlaki|Farah Alammari|Bin Sun|Neil Clark|Tamara Sirey|Sheena Lee|Dan J. Woodcock|Chris P. Ponting|Francis G. Szele|Keith W. Vance University of Bath;|University of Oxford;|University of Edinburgh;|University of Warwick
http://dx.doi.org/10.1101/187484 2017-09-11 Endoplasmic reticulum stress engenders immune-resistant, latent pancreatic cancer metastases Arnaud Pommier|Naishitha Anaparthy|Nicoletta Memos|Z. Larkin Kelley|Alizee Gouronnec|Jean Albrengues|Mikala Egeblad|Christine A. Iacobuzio-Donahue|Scott K. Lyons|Douglas T. Fearon Cold Spring Harbor Laboratory;|Weill-Cornell Medical College;|Memorial Sloan Kettering Cancer Center;|Cold Spring Harbor Laboratory; Weill Cornell Medical College
http://dx.doi.org/10.1101/187450 2017-09-11 CC BY-NC-ND Intratumoral Heterogeneity of Tumor Infiltration of Glioblastoma Revealed by Joint Histogram Analysis of Diffusion Tensor Imaging Chao Li|Shuo Wang|Jiun-Lin Yan|Rory J. Piper|Hongxiang Liu|Turid Torheim|Hyunjin Kim|Natalie R. Boonzaier|Rohitashwa Sinha|Tomasz Matys|Florian Markowetz|Stephen J. Price University of Cambridge
http://dx.doi.org/10.1101/187427 2017-09-11 CC BY An automated high-throughput system for phenotypic screening of chemical libraries on C. elegans and parasitic nematodes Frederick A. Partridge|Anwen E. Brown|Steven D. Buckingham|Nicky J. Willis|Graham M. Wynne|Ruth Forman|Kathryn J. Else|Alison A. Morrison|Jacqueline B. Matthews|Angela J. Russell|David A. Lomas|David B. Sattelle University College London;|University of Oxford;|University of Manchester;|Moredun Research Institute
http://dx.doi.org/10.1101/117036 2017-09-11 CC BY-NC Temporary mate removal during incubation leads to variable compensation in a biparental shorebird Martin Bulla|Mihai Valcu|Anne L. Rutten|Bart Kempenaers Dept. of Behavioural Ecology & Evolutionary Genetics, Max Planck Institute for Ornithology
http://dx.doi.org/10.1101/187278 2017-09-11 Developmental Biology Microinjection to deliver protein and mRNA into zygotes of the cnidarian endosymbiosis model Aiptasia sp. Madeline Bucher|Victor Arnold Shivas Jones|Elizabeth Ann Hambleton|Annika Guse Centre for Organismal Studies (COS), Heidelberg University
http://dx.doi.org/10.1101/187286 2017-09-11 Cell Biology A genome-wide RNAi screen identifies MASK as a positive regulator of cytokine receptor stability Katherine H. Fisher|Maria Fragiadaki|Dhamayanthi Pugazhendhi|Nina Bausek|Stephen Brown|Martin P. Zeidler University of Sheffield;|Illumina, Cambridge
http://dx.doi.org/10.1101/187070 2017-09-11 Microbiology CC BY-NC-ND Compensatory evolution facilitates the acquisition of multiple plasmids in bacteria Alfonso Santos-Lopez|Cristina Bernabe-Balas|Alvaro San Millan|Rafael Ortega-Huedo|Andreas Hoefer|Manuel Ares-Arroyo|Bruno Gonzalez-Zorn Department of Microbiology and Molecular Genetics, University of Pittsburgh, Pittsburgh, PA;|VISAVET, Facultad de Veterinaria, Universidad Complutense de Madrid, Spain;|Department of Microbiology, Ramon y Cajal University Hospital (IRYCIS), and CIBERESP. 28034, Madrid
http://dx.doi.org/10.1101/186601 2017-09-11 Neuroscience CC BY-NC-ND Time Regained: How the Human Brain Constructs Memory for Time Brendan I Cohn-Sheehy|Charan Ranganath Center for Neuroscience, University of California, Davis;|UC Davis
http://dx.doi.org/10.1101/184192 2017-09-12 Genetics Genetic markers of ADHD-related variations in intracranial volume Marieke Klein|Raymond K. Walters|Ditte Demontis|Jason L. Stein|Derrek P. Hibar|Hieab H. Adams|Janita Bralten|Nina Roth Mota|Russell Schachar|Edmund Sonuga-Barke|Manuel Mattheisen|Benjamin M. Neale|Paul M. Thompson|Sarah E. Medland|Anders D. Borglum|Stephen V. Faraone|Alejandro Arias-Vasquez|Barbara Franke Radboud University Medical Center, Donders Institute for Brain, Cognition and Behaviour;|Analytic & Translational Genetics Unit, Dept. of Medicine, Massachusetts General Hospital;|Department of Biomedicine, Aarhus University, Aarhus, Denmark;|Dept. of Genetics & Neuroscience Center, University of North Carolina, Chapel Hill;|Imaging Genetics Ctr., USC Mark & Mary Stevens Neuroimaging & Informatics Inst.;|Department of Epidemiology, Erasmus Medical Center, Rotterdam, The Netherlands;|Dept. of Psychiatry & Research Institute, The Hospital for Sick Children, University of Toronto;|Inst. of Psychiatry, Psychology & Neuroscience, King's College London;|Stanley Center for Psychiatric Research, Broad Institute of MIT and Harvard;|Imaging Genetics Center, USC Mark & Mary Stevens Neuroimaging & Informatics Institute;|Quantitative Genetics Laboratory, QIMR Berghofer Medical Research Institute, Brisbane;|Depts. of Psychiatry and of Neuroscience & Physiology, SUNY Upstate Med. Univ., Syracuse
http://dx.doi.org/10.1101/187203 2017-09-12 Bioinformatics CC BY SHAMAN: bin-free randomization, normalization and screening of Hi-C matrices Netta Mendelson Cohen|Pedro Olivares-Chauvet|Yaniv Lubling|Yael Baran|Aviezer Lifshitz|Michael Hoichman|Amos Tanay The Weizmann Institute
http://dx.doi.org/10.1101/187724 2017-09-12 Neuroscience CC BY-ND Age, sex, and puberty related development of the corpus callosum: a multi-technique diffusion MRI study Sila Genc|Charles Malpas|Gareth Ball|Tim Silk|Marc Seal The University of Melbourne;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/187476 2017-09-12 Neuroscience CC BY-NC-ND CA1 and CA3 pyramidal cell morphologies under Alzheimer's disease Amyloid beta interaction Yuri Elias Rodrigues|Josiane da Silva Freitas UFRGS;|Lund University
http://dx.doi.org/10.1101/187716 2017-09-12 Cancer Biology CC BY-NC-ND Detection of small breast tumors using tumor penetrating-polymersomes engineered to target p32 protein Lorena Simon-Gracia|Pablo Scodeller|Desire Di Silvio|Sergio Salzar Fuentes|Vanessa Gomez Vallejo|Xabier Rios|Eneko San Sebastian|Meina Suck|Federica De Lorenzi|Larissa Yokota Rizzo|Saskia von Stillfried|Kalle Kilk|Twan Lammers|Sergio E. Moya|Tambet Teesalu University of Tartu;|CIC Biomagune;|RWTH Aachen University Clinic
http://dx.doi.org/10.1101/187344 2017-09-12 Neuroscience CC BY-ND Porcupine: a visual pipeline tool for neuroimaging analysis Tim van Mourik|Lukas Snoek|Tomas Knapen|David Norris Donders Institute for Brain, Cognition and Behaviour;|University of Amsterdam, Department of Brain & Cognition;|Spinoza Centre for Neuroimaging
http://dx.doi.org/10.1101/187732 2017-09-12 Genetics Mitochondrial Dual-coding Genes in Trypanosoma brucei Laura E. Kirby|Donna Koslowsky Michigan State University
http://dx.doi.org/10.1101/187666 2017-09-12 Animal Behavior and Cognition Serial dependence is absent at the time of perception but increases in visual working memory Daniel P. Bliss|Jerome J. Sun|Mark D'Esposito NYU;|University of California, Berkeley
http://dx.doi.org/10.1101/187518 2017-09-12 Neuroscience CC BY Spreading pre-saccadic attentional resources without trade-off Michael Puntiroli|Heiner Deubel|Martin Szinte University of Neuchâtel;|Ludwig-Maximilian University of Munich;|Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/187419 2017-09-12 Genetics Whole genome sequence-based haplotypes reveal single origin of the sickle allele during the Holocene Wet Phase Daniel Shriner|Charles N. Rotimi National Human Genome Research Institute
http://dx.doi.org/10.1101/187096 2017-09-12 Genomics KoVariome: Korean National Standard Reference Variome database of whole genomes with comprehensive SNV, indel, CNV, and SV analyses Jungeun Kim|Jessica Weber|Sungwoong Jho|Jinho Jang|JeHoon Jun|Yun Sung Cho|Hak-Min Kim|Hyunho Kim|Yumi Kim|OkSung Chung|Chang Geun Kim|HyeJin Lee|Byung Chul Kim|Kyudong Han|InSong Koh|Kyun Shik Chae|Semin Lee|Jeremy Edwards|Jong Bhak Personal Genomics Institute;|Department of Biology, University of New Mexico;|Department of Biomedical Engineering, Ulsan National Institute of Science and Technology;|Geromics;|National Standard Reference Center, Korea Research Institute of Standards and Science;|Clinomics;|Dept. of Nanobiomedical Science & BK21 PLUS NBM Global Res. Ctr for Regenerative Med.;|Department of Physiology, College of Medicine, Hanyang University;|Chemistry & Chemical Biology, UNM Comprehensive Cancer Center, Univ. of New Mexico
http://dx.doi.org/10.1101/187740 2017-09-12 Evolutionary Biology CC BY-NC Early developmental morphology reflects independence from parents in social beetles Kyle M. Benowitz|Madeline E. Sparks|Elizabeth C. McKinney|Patricia J. Moore|Allen J. Moore University of Arizona;|University of Georgia
http://dx.doi.org/10.1101/187393 2017-09-12 Genomics Gene neighbourhood integrity disrupted by CTCF loss in vivo Dominic Lee|Wilson Tan|George Anene|Peter Li|Tuan Danh|Zenia Tiang|Shi Ling Ng|Motakis Efthymios|Matias Autio|Jianming Jiang|Melissa Fullwood|Shyam Prabhakar|Roger Foo Genome Institute of Singapore;|National University of Singapore
http://dx.doi.org/10.1101/187799 2017-09-12 Ecology CC BY-ND Inferring critical points of ecosystem transitions from spatial data Sabiha Majumder|Krishnapriya Tamma|Sriram Ramaswamy|Vishwesha Guttal Department of Physics, Indian Institute of Science, Bangalore;|Centre for Ecological Sciences, Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/169888 2017-09-12 Bioinformatics CC BY-NC-ND Interactive Visual Analysis of Mass Cytometry Data by Hierarchical Stochastic Neighbor Embedding Reveals Rare Cell Types Vincent van Unen|Thomas Hollt|Nicola Pezzotti|Na Li|Marcel J. T. Reinders|Elmar Eisemann|Anna Vilanova|Frits Koning|Boudewijn P. F. Lelieveldt Leiden University Medical Center;|TU Delft, Leiden University Medical Center;|TU Delft
http://dx.doi.org/10.1101/187690 2017-09-12 Immunology CC BY-NC-ND Toxoplasma gondii microneme proteins 1 and 4 bind to Toll-like receptors 2 and 4 N-glycans triggering innate immune response Aline Sardinha-Silva|Flavia C. Mendonca-Natividade|Camila F. Pinzan|Carla D. Lopes|Diego L. Costa|Damien Jacot|Fabricio F. Fernandes|Andre L. V. Zorzetto-Fernandes|Nicholas J. Gay|Alan Sher|Dragana Jankovic|Dominique Soldati-Favre|Michael E. Grigg|Maria Cristina Roque-Barreira Ribeirao Preto Medical School, University of Sao Paulo - USP (FMRP/USP);|National Institute of Allergy and Infectious Diseases, National Institutes of Health;|Department of Microbiology and Molecular Medicine, CMU, University of Geneva;|Department of Biochemistry, Cambridge University
http://dx.doi.org/10.1101/187443 2017-09-12 Developmental Biology Motility-gradient induced elongation of the vertebrate embryo Ido Regev|Karine Guevorkian|Olivier Pourquie|L. Mahadevan Ben Gurion University;|Harvard Medical School;|Harvard University
http://dx.doi.org/10.1101/187682 2017-09-12 Evolutionary Biology CC BY-NC-ND Complexity of evolutionary equilibria in static fitness landscapes Artem Kaznatcheev University of Oxford
http://dx.doi.org/10.1101/187658 2017-09-12 Genetics CC BY Exome chip meta-analysis elucidates the genetic architecture of rare coding variants in smoking and drinking behavior Dajiang J. Liu|David M. Brazel|Valerie Turcot|Xiaowei Zhan|Jian Gong|Daniel R. Barnes|Sarah Bertelsen|Yi-Ling Chou|A. Mesut Erzurumluoglu|Jessica D. Faul|Jeff Haessler|Anke R. Hammerschlag|Chris Hsu|Manav Kapoor|Dongbing Lai|Nhung Le|Christiaan A de Leeuw|Ana Loukola|Massimo Mangino|Carl A. Melbourne|Giorgio Pistis|Beenish Qaiser|Rebecca Rohde|Yaming Shao|Heather Stringham|Leah Wetherill|Wei Zhao|Arpana Agrawal|Laura Beirut|Chu Chen|Charles B. Eaton|Alison Goate|Christopher Haiman|Andrew Heath|William G. Iacono|Nicholas G. Martin|Tinca J. Polderman|Alex Reiner|John Rice|David Schlessinger|H Steven Scholte|Jennifer A. Smith|Jean-Claude Tardif|Hilary A. Tindle|Andreis R van der Leij|Michael Boehnke|Jenny Chang-Claude|Francesco Cucca|Sean P. David|Tatiana Foroud|Sharon L.R. Kardia|Charles Kooperberg|Markku Laakso|Guillaume Lettre|Pamela Madden|Matt McGue|Kari North|Danielle Posthuma|Timothy Spector|Daniel Stram|David R. Weir|Jaakko Kaprio|Goncalo R. Abecasis|Scott Vrieze Institute of Personalized Medicine, Penn State College of Medicine;|Institute for Behavioral Genetics, University of Colorado Boulder;|Montreal Heart Institute and Department of Medicine, Université de Montréal;|Department of Clinical Science, University of Texas Southwestern;|Public Health Sciences Division, Fred Hutchinson Cancer Research Center;|Department of Public Health and Primary Care, University of Cambridge;|Department of Neuroscience, Icahn School of Medicine at Mount Sinai;|Washington University;|Department of Health Sciences, University of Leicester;|Survey Research Center, Institute for Social Research, University of Michigan;|Department of Complex Trait Genetics, VU University Amsterdam;|University of Southern California;|Department of Medical and Molecular Genetics, Indiana University School of Medicine;|Department of Medical Microbiology, Southern Illinois University School of Medicine;|Institute for Molecular Medicine Finland (FIMM), University of Helsinki;|Twin Research & Genetic Epidemiology Unit, Kings College, London;|Istituto di Ricerca Genetica e Biomedica, Consiglio Nazionale delle Ricerche (CNR);|University of North Carolina, Chapel Hill;|Department of Biostatistics, University of Michigan;|Department of Epidemiology, School of Public Health, University of Michigan;|Department of Psychiatry, Washington University School of Medicine;|Department of Family Medicine, Brown University;|Department of Preventative Medicine, Keck School of Medicine, University of Southern California;|Department of Psychiatry, Washington University;|Department of Psychology, University of Minnesota;|Queensland Institute for Medical Research;|-;|Departments of Psychiatry and Mathematics, Washington University St. Louis;|National Institute on Aging, National Institutes of Health;|Department of Psychology, University of Amsterdam;|Montreal Heart Institute and Université de Montréal;|Department of Medicine, Vanderbilt University;|Department of Biostatistics, School of Public Health, University of Michigan;|Division of Cancer Epidemiology, German Cancer Research Center;|Department of Medicine, Stanford University;|University of Eastern Finland;|Department of Epidemiology, University of North Carolina, Chapel Hill;|Department of Genetic Epidemiology, Kings College, London
http://dx.doi.org/10.1101/187468 2017-09-12 Bioinformatics CC BY Sensitive and specific post-call filtering of genetic variants in xenograft and primary tumors Brian Mannakee|Uthra Balaji|Agnieszka K. Witkiewicz|Ryan N. Gutenkunst|Erik S. Knudsen University of Arizona;|University of Texas Southwest Medical Center
http://dx.doi.org/10.1101/187369 2017-09-12 Genetics CC BY-NC-ND A Genome Scan for Genes Underlying Adult Body Size Differences between Central African Pygmies and their Non-Pygmy Neighbors Trevor Pemberton|Paul Verdu|Noemie S. Becker|Cristen J. Willer|Barry S. Hewlett|Sylvie Le Bomin|Alain Froment|Noah A. Rosenberg|Evelyne Heyer University of Manitoba;|Centre Nationnal de la Recherche Scientifique;|Ludwig-Maximilians-Universitat Munchen;|University of Michigan;|Washington State University;|Musee de l'Homme;|Stanford University;|Museum National d'histoire Naturelle
http://dx.doi.org/10.1101/187492 2017-09-12 Neuroscience Frontal Eye Field inactivation diminishes Superior Colliculus activity, but delayed saccadic accumulation governs reaction time increases Tyler R. Peel|Suryadeep Dash|Stephen G. Lomber|Brian D. Corneil University of Western Ontario
http://dx.doi.org/10.1101/187633 2017-09-12 Evolutionary Biology CC BY-NC Impacts of Recurrent Hitchhiking on Divergence and Demographic Inference in Drosophila Jeremy D. Lange|John E. Pool University of Wisconsin-Madison
http://dx.doi.org/10.1101/187534 2017-09-12 Evolutionary Biology CC BY-ND Theory, practice, and conservation in the age of genomics: the Galápagos giant tortoise as a case study Stephen J. Gaughran|Maud C. Quinzin|Joshua M. Miller|Ryan C. Garrick|Danielle L. Edwards|Michael A. Russello|Nikos Poulakakis|Claudio Ciofi|Luciano B. Beheregaray|Adalgisa Caccone Yale University;|University of Mississippi;|University of California, Merced;|University of British Columbia, Oskanagan;|University of Crete;|University of Florence;|Flinders University
http://dx.doi.org/10.1101/187526 2017-09-12 Bioinformatics Methylation-To-Expression Feature Models of Breast Cancer Accurately Predict Overall Survival, Distant-Recurrence Free Survival, And Pathologic Complete Response in Multiple Cohorts Jeffrey Ahearn Thompson|Brock C. Christensen|Carmen J. Marsit Kansas University Medical Center;|Geisel School of Medicine at Dartmouth College;|Rollins School of Public Health at Emory University
http://dx.doi.org/10.1101/187641 2017-09-12 Bioinformatics dBBQs : dataBase of Bacterial Quality scores Visanu Wanchai|Preecha Patumcharoenpol|Intawat Nookaew|David Ussery University of Arkansas for Medical Sciences
http://dx.doi.org/10.1101/187625 2017-09-12 Bioinformatics Statistical machine learning of sleep and physical activity phenotypes from sensor data in 96,609 UK Biobank participants Matthew Willetts|Sven Hollowell|Louis Aslett|Chris Holmes|Aiden Doherty University of Oxford;|Durham University
http://dx.doi.org/10.1101/187245 2017-09-12 Scientific Communication and Education CC BY-NC Findings of a retrospective, controlled cohort study of the impact of a change in Nature journals' editorial policy for life sciences research on the completeness of reporting study design and execution Malcolm Robert Macleod University of Edinburgh;|-
http://dx.doi.org/10.1101/185405 2017-09-12 Neuroscience CC BY-NC-ND A core signaling mechanism at the origin of animal nociception Oscar M. Arenas|Emanuela E. Zaharieva|Alessia Para|Constanza Vasquez-Doorman|Christian P. Petersen|Marco Gallio Northwestern Neurobiology;|Northwestern Molecular Biosciences;|Northwestern Neuroscience
http://dx.doi.org/10.1101/187575 2017-09-12 Plant Biology CC BY-ND Parallels between artificial selection in temperate maize and natural selection in the cold-adapted crop-wild relative Tripsacum Lang Yan|Xianjun Lai|Oscar Rodriguez|Samira Mahboub|Rebecca L. Roston|James C. Schnable Center for Plant Science Innovation, University of Nebraska-Lincoln;|Department of Agronomy and Horticulture, University of Nebraska-Lincoln
http://dx.doi.org/10.1101/187377 2017-09-12 Genetics CC BY-NC-ND Precision genome-editing with CRISPR/Cas9 in human induced pluripotent stem cells John P. Budde|Rita Martinez|Simon Hsu|Natalie Wen|Jason A. Chen|Giovanni Coppola|Alison M. Goate|Carlos Cruchaga|Celeste Karch Washington University in St. Louis;|University of California, Los Angeles;|Icahn School of Medicine
http://dx.doi.org/10.1101/188045 2017-09-12 CC BY-NC-ND Distinct selection mechanisms for when predictions and rewards guide visual selective attention K. G. Garner|Jane E. Raymond University of Birmingham
http://dx.doi.org/10.1101/187922 2017-09-12 CC BY A zombie LIF gene in elephants is up-regulated by TP53 to induce apoptosis in response to DNA damage Juan Manuel Vazquez|Michael Sulak|Sravanthi Chigurupati|Vincent J. Lynch The University of Chicago
http://dx.doi.org/10.1101/187948 2017-09-12 CC BY-NC An ensemble code in medial prefrontal cortex links prior events to outcomes during learning Silvia Maggi|Adrien Peyrache|Mark Humphries University of Manchester;|McGill University
http://dx.doi.org/10.1101/188060 2017-09-12 Obtaining 3D Super-resolution Information from 2D Super-resolution Images through a 2D-to-3D Transformation Algorithm Andrew Ruba|Joseph Kelich|Wangxi Luo|Weidong Yang Temple University
http://dx.doi.org/10.1101/188078 2017-09-12 CC BY hmmIBD: software to infer pairwise identity by descent between haploid genotypes Stephen F. Schaffner|Aimee R. Taylor|Wesley Wong|Dyann F. Wirth|Daniel E. Neafsey Broad Institute;|Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/187963 2017-09-12 CC BY-NC-ND Towards a neuro-computational account of prism adaptation Pierre Petitet|Jill X. O'Reilly|Jacinta O'Shea University of Oxford
http://dx.doi.org/10.1101/185371 2017-09-12 CC BY-ND Effects of G2 checkpoint dynamics on the low-dose hyper-radiosensitivity Oluwole Olobatuyi|Gerda de Vries|Thomas Hillen University of Alberta
http://dx.doi.org/10.1101/188011 2017-09-12 Dynamic contrast enhancement and flexible odor codes Srinath Nizampatnam|Debajit Saha|Rishabh Chandak|Baranidharan Raman Washington University in St. Louis
http://dx.doi.org/10.1101/187815 2017-09-12 CC BY-NC Mobile nucleosomes and the accessibility of transcription factors to DNA: a modified dynamic equilibrium model Hadeel Khamis|Sergei Rudnizky|Ariel Kaplan Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/188003 2017-09-12 Systems Biology CC BY-NC-ND Predictive model identifies strategies to enhance TSP1-mediated apoptosis signaling Qianhui Wu|Stacey D Finley University of Southern California
http://dx.doi.org/10.1101/187401 2017-09-12 Developmental Biology In vivo relevance of intercellular calcium signaling in Drosophila wing development Qinfeng Wu|Pavel Aleksandrovich Brodskiy|Francisco Javier Huizar|Jamison John Jangula|Cody Narciso|Megan Kathleen Levis|Teresa Brito-Robinson|Jeremiah J. Zartman University of Notre Dame
http://dx.doi.org/10.1101/187997 2017-09-12 Evolutionary Biology Multispecies coalescent analysis unravels the non-monophyly and controversial relationships of Hexapoda Lucas A. Freitas|Beatriz Mello|Carlos G. Schrago Federal University of Rio de Janeiro
http://dx.doi.org/10.1101/187906 2017-09-12 Pharmacology and Toxicology CC BY-NC-ND Zerumbone From Zingiber zerumbet (L.) Smith: A Potential Prophylactic and Therapeutic Agent Against The Cariogenic Bacterium Streptococcus mutans Thiago Moreira da Silva|Carlos Danniel Pinheiro|Patricia Puccinelli Orlandi|Carlos Cleomir Pinheiro|Gemilson Soares Pontes Instituto Nacional de Pesquisa da Amazonia;|Instituto Leonidas e Maria Deane, Fundação Oswaldo Cruz;|Instituto Nacional de Pesquisa da Amazonia - INPA
http://dx.doi.org/10.1101/187989 2017-09-12 Neuroscience CC BY Microcircuitry of Performance Monitoring Jeffrey D Schall|Amir Sajad|David C Godlove Vanderbilt University
http://dx.doi.org/10.1101/187674 2017-09-12 Plant Biology The FACT complex is required for DNA demethylation at heterochromatin during reproduction in Arabidopsis Jennifer Frost|M. Yvonne Kim|Guen-Tae Park|Ping-Hung Hsieh|Miyuki Nakamura|Samuel Lin|Hyunjin Yoo|Jaemyung Choi|Yoko Ikeda|Tetsu Kinoshita|Yeonhee Choi|Daniel Zilberman|Robert L. Fischer University of California, Berkeley;|Seoul National University;|The Swedish University of Agricultural Sciences;|Okayama University;|Kihara Institute for Biological Research;|John Innes Centre
http://dx.doi.org/10.1101/186981 2017-09-12 Ecology Unmasking cellular response of a bloom-forming alga to virus infection by resolving expression profiling at a single-cell level Shilo Rosenwasser|Miguel J. Frada|David Pilzer|Ron Rotkopf|Assaf Vardi The Hebrew University of Jerusalem, Israel;|Weizmann Institute of Science
http://dx.doi.org/10.1101/187898 2017-09-12 Bioengineering Crossing enhanced and high fidelity SpCas9 nucleases to optimize specificity and cleavage Peter Istvan Kulcsar|Andras Talas|Krisztina Huszar|Zoltan Ligeti|Eszter Toth|Nora Weinhardt|Elfrieda Fodor|Ervin Welker Inst. of Enzymology, Research Centre for Natural Sciences of the Hungarian Acad. of Sciences;|Institute of Biochemistry, Biological Research Centre of the Hungarian Academy of Sciences
http://dx.doi.org/10.1101/185900 2017-09-12 Genetics CC BY-NC-ND Genetic analysis of very obese children with autism spectrum disorder Herman D Cortes|Rachel Wevrick University of Alberta;|Univ. of Alberta
http://dx.doi.org/10.1101/187856 2017-09-12 Neuroscience CC BY-NC-ND Analysis of two-stage task results: how changes in task structure affect what model-free and model-based strategies predict about the effects of reward and transition on the stay probability Carolina Feher da Silva|Todd A. Hare University of Zurich
http://dx.doi.org/10.1101/187914 2017-09-12 Bioengineering CC BY-NC-ND Data-driven Modeling of Thrombus Size and Shape in Aortic Dissections: Role of Hemodynamics Alireza Yazdani|He Li|Matthew Bersi|Paolo Di Achille|Joseph Insley|Jay Humphrey|George Karniadakis Brown University;|Yale University;|Argonne National Lab
http://dx.doi.org/10.1101/187559 2017-09-12 Cell Biology EPAC1 regulates endothelial Annexin A2 cell surface translocation and plasminogen activation Wenli Yang|Fang Mei|Xiaodong Cheng University of Texas Health Science Center at Houston
http://dx.doi.org/10.1101/187831 2017-09-12 Animal Behavior and Cognition CC BY Elastase-2 knockout mice display anxiogenic- and antidepressant-like phenotype: putative role for BDNF metabolism in prefrontal cortex Cassiano Ricardo Alves Faria Diniz|Christiane Becari Ribeiro|Angelina Lesnikova|Caroline Biojone|Maria Cristina Oliveira Salgado|Helio Cesar Salgado|Leonardo Barbosa Moraes Resstel|Francisco Silveira Guimaraes|Eero Castren|Plinio Casarotto|Samia Joca University of Sao Paulo;|Mayo Clinic;|University of Helsinki
http://dx.doi.org/10.1101/188052 2017-09-13 Biochemistry Evaluating the Functional Pore Size of Chloroplast TOC and TIC Protein Translocons Iniyan Ganesan|Lan-Xin Shi|Mathias Labs|Steven M. Theg University of California, Davis
http://dx.doi.org/10.1101/187708 2017-09-13 Neuroscience Assessing the Involvement of Angiogenic Factors in Hyperlipidemia Induced Alteration in Brain Angiogenesis Tasneem Alniqrish|Saed Khawaldeh Jordan University of Science and Technology;|Erasmus+ Joint Program in Medical Imaging and Applications
http://dx.doi.org/10.1101/188235 2017-09-13 Genetics CC BY-NC-ND Comparison of GWAS models to identify non-additive genetic control of flowering time in sunflower hybrids Fanny Bonnafous|Ghislain Fievet|Nicolas Blanchet|Marie-Claude Boniface|Sebastien Carrere|Jerome Gouzy|Ludovic Legrand|Gwenola Marage|Emmanuelle Bret-Mestries|Stephane Munos|Nicolas Pouilly|Patrick Vincourt|Nicolas B. Langlade|Brigitte Mangin INRA;|TERRES INOVIA
http://dx.doi.org/10.1101/187294 2017-09-13 Neuroscience CC BY Dual Competition between the Basal Ganglia and the Cortex: from Action-Outcome to Stimulus-Response Meropi Topalidou|Daisuke Kase|Thomas Boraud|Nicolas P Rougier Inria;|CNRS
http://dx.doi.org/10.1101/188185 2017-09-13 Evolutionary Biology CC BY-NC-ND Thermal Tolerance is linked with Virulence in a Fish Pathogen Roghaieh Ashrafi|Matthieu Bruneaux|Lotta-Riina Sundberg|Katja Pulkkinen|Janne Valkonen|Tarmo Ketola University of Jyvaskyla
http://dx.doi.org/10.1101/188318 2017-09-13 Neuroscience Increased Activity of Tyrosine Hydroxylase Leads to Elevated Amphetamine Response and Markers of Oxidative Stress in Transgenic Mice Laura M. Vecchio|M. Kristel Bermejo|Amy Rose Dunn|Marija Milenkovic|Nikhil Urs|Amy Ramsey|Gary W. Miller|Ali Salahpour University of Toronto;|Emory University;|University of Florida;|University Toronto
http://dx.doi.org/10.1101/188227 2017-09-13 Ecology CC BY-NC-ND Epigenome-associated phenotypic acclimatization to ocean acidification in a reef-building coral Yi Jin Liew|Didier Zoccola|Yong Li|Eric Tambutte|Alexander A. Venn|Craig T. Michell|Guoxin Cui|Eva S. Deutekom|Jaap A. Kaandorp|Christian R. Voolstra|Sylvain Foret|Denis Allemand|Sylvie Tambutte|Manuel Aranda King Abdullah University of Science and Technology;|Centre Scientifique de Monaco;|University of Amsterdam;|Australian National University
http://dx.doi.org/10.1101/188334 2017-09-13 Genetics CC BY Genome-wide analysis of genetic risk factors for rheumatic heart disease in Aboriginal Australians provides support for pathogenic molecular mimicry Lesley-Ann Gray|Heather A. D'Antoine|Steven Y. C. Tong|Melita McKinnon|Dawn Bessarab|Ngiare Brown|Bo Remenyi|Andrew Steer|Genevieve Syn|Jenefer M. Blackwell|Michael Inouye|Jonathan R. Carapetis School of BioSciences, University of Melbourne;|Menzies School of Health Research, Charles Darwin University;|Centre for Aboriginal Medical and Dental Health, University of Western Australia;|School of Education, University of Wollongong;|Murdoch Childrens Research Institute;|Telethon Kids Institute, University of Western Australia
http://dx.doi.org/10.1101/188243 2017-09-13 Biophysics CC BY Anoctamin 9/TMEM16J is a Cation Channel Activated by cAMP/PKA Signal Hyungsup Kim|Hyesu Kim|Jesun Lee|Byeongjun Lee|Heeryang Kim|Jooyoung Jung|Mi-Ock Lee|Uhtaek Oh Seoul National University;|Korea Institute of Science and Technology (KIST)
http://dx.doi.org/10.1101/188268 2017-09-13 Bioinformatics CC BY-NC Population networks from DNA sequences: methodological developments Brigitte Schaeffer|Violaine Nicolas|Frederic Austerlitz|Catherine Laredo INRA;|MNHN
http://dx.doi.org/10.1101/186460 2017-09-13 Neuroscience Aberrant brain response after auditory deviance in PTSD compared to trauma controls: An EEG study. Katrin A. Bangel|Susanne van Buschbach|Dirk J.H. Smit|Miranda Olff|Ali Mazaheri University of Amsterdam, Academic Medical Centre;|Academic Medical Centre Amsterdam;|University of Birmingham
http://dx.doi.org/10.1101/188359 2017-09-13 Animal Behavior and Cognition Fish perform like mammals and birds in inhibitory motor control tasks Tyrone Lucon-Xiccato|Elia Gatto|Angelo Bisazza University of Padova
http://dx.doi.org/10.1101/188086 2017-09-13 Genetics CC BY-NC-ND Quantification of frequency-dependent genetic architectures and action of negative selection in 25 UK Biobank traits Armin Schoech|Daniel Jordan|Po-Ru Loh|Steven Gazal|Luke O'Connor|Daniel J. Balick|Pier F. Palamara|Hilary Finucane|Shamil R. Sunyaev|Alkes L. Price Harvard University;|Icahn School of Medicine at Mount Sinai;|University of Oxford;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/188250 2017-09-13 Plant Biology CC BY Comparison of gene expression patterns of Kappaphycus alvarezii (Rhodophyta, Solieriaceae) under different light wavelengths and CO2 enrichment Thien Vun Yee|Kenneth Francis Rodrigues|Wilson Yong Thau Lym|Clemente Michael Wong Vui Ling Universiti Malaysia Sabah
http://dx.doi.org/10.1101/188326 2017-09-13 Neuroscience Modulation of visual gamma oscillation by excitatory drive and the excitation/inhibition balance in the visual cortex Elena V. Orekhova|Olga V. Sysoeva|Justin F. Schneiderman|Sebastian Lundstrom|Ilia A. Galuta|Dzerasa E. Goiaeva|Andrey O. Prokofyev|Bushra Riaz|Courtney Keeler|Nouchine Hadjikhani|Christopher Gillberg|Tatiana Stroganova University of Gothenburg, Gillberg Neuropsychiatry Centre;|Moscow State University of Psychology and Education, MEG Centre;|MedTech West;|Moscow State University of Psychology and Education;|University of Gothenburg, Inst. Neurosci. & Physiol.;|University of Gothenburg, Gillberg Neuropsychiatry Centre (GNC)
http://dx.doi.org/10.1101/188169 2017-09-13 Biophysics Endogenous α-SYN protein analysis on human brain tissues using single-molecule pull-down assay Goun Je|Benjamin Croop|Sambuddha Basu|Jialei Tang|Kyu Young Han|Yoon-Seong Kim Burnett School of Biomedical Sciences, College of Medicine, University of Central Florida;|CREOL, The College of Optics and Photonics, University of Central Florida
http://dx.doi.org/10.1101/188276 2017-09-13 Evolutionary Biology CC BY-NC-ND Drivers of diversity in individual life courses: Sensitivity of the population entropy of a Markov chain Ulrich Karl Steiner|Shripad Tuljapurkar University of Southern Denmark;|Stanford University
http://dx.doi.org/10.1101/187872 2017-09-13 Molecular Biology CC BY-ND Minimizing carry-over PCR contamination in expanded CAG/CTG repeat instability applications Lorene Aeschbach|Vincent Dion University of Lausanne
http://dx.doi.org/10.1101/188136 2017-09-13 Biochemistry Crystal structure of BrlR reveals a potential pyocyanin binding site Harikiran Raju|Rukmini Sundararajan|Rohan Sharma Department of Biophysics, Molecular Biology and Bioinformatics, University of Calcutta
http://dx.doi.org/10.1101/188110 2017-09-13 Genetics CC BY-NC-ND Discordant association of the CREBRF rs373863828 minor allele with increased body mass index and protection from type 2 diabetes in Māori and Pacific (Polynesian) people living in New Zealand Mohanraj Krishnan|Tanya J Major|Ruth K Topless|Ofa Dewes|Lennex Yu|John MD Thompson|Lesley McCowan|Janak de Zoysa|Lisa K Stamp|Nicola Dalbeth|Jennie Harre Hindmarsh|Nuku Rapana|Ranjan Deka|Winston WH Eng|Daniel E Weeks|Ryan L Minster|Stephen T McGarvey|Satupa'itea Viali|Phillip Wilcox|David Grattan|Peter R Shepherd|Andrew N Shelling|Rinki Murphy|Tony R Merriman University of Auckland;|University of Otago;|University of Aucklabd;|Waitemata District Health Board;|Ngati Porou Hauora Charitable Trust;|Pukapuka Community of New Zealand Inc;|University of Cincinnati;|University of Pittsburgh;|Brown University;|Samoa National Health Service
http://dx.doi.org/10.1101/188557 2017-09-13 CC BY-NC Motif signatures of transcribed enhancers Dimitrios Kleftogiannis|Haitham Ashoor|Nikolaos Zarokanellos|Vladimir B. Bajic Institute of Cancer Research (ICR);|KAUST
http://dx.doi.org/10.1101/188409 2017-09-13 CC BY-NC-ND Stochastic dispersal increases the rate of upstream spread: a case study with green crabs on the northwest Atlantic coast Ali Gharouni|Myriam A. Barbeau|Joel Chasse|Lin Wang|James Watmough Department of Mathematics and Statistics, University of New Brunswick, Fredericton;|Department of Biology, University of New Brunswick, Fredericton;|Fisheries and Oceans Canada, Gulf Fisheries Centre, Moncton, NB
http://dx.doi.org/10.1101/188417 2017-09-13 CC BY-NC Development and validation of a new walking pace function using crowd-sourced GPS data Paul Pharoah University of Cambridge
http://dx.doi.org/10.1101/188516 2017-09-13 CC BY-NC-ND MASCOT: Parameter and state inference under the marginal structured coalescent approximation Nicola Felix Mueller|David Alan Rasmussen|Tanja Stadler ETH Zurich
http://dx.doi.org/10.1101/188581 2017-09-13 clusterSeq: methods for identifying co-expression in high-throughput sequencing data Thomas J. Hardcastle|Irene Papatheodorou University of Cambridge;|European Bioinformatics Institute
http://dx.doi.org/10.1101/188565 2017-09-13 CC BY-ND Insights into the molecular changes associated with postnatal human brain development: an integrated transcriptomics and proteomics study Michael S. Breen|Sureyya Ozcan|Jordan M. Ramsey|Nitin Rustogi|Michael G. Gottshalk|Maree J. Webster|Cyndi Shannon Weickert|Joseph D. Buxbaum|Sabine Bahn Icahn School of Medicine at Mount Sinai;|University of Cambridge;|Stanley Medical Research Institute;|Neuroscience Research Australia
http://dx.doi.org/10.1101/188524 2017-09-13 Characterizing highly dynamic conformational states: the transcription bubble in RNAP-promoter open complex as an example Eitan Lerner|Shimon Weiss Department of Chemistry & Biochemistry, University of California, Los Angeles
http://dx.doi.org/10.1101/188433 2017-09-13 Lipid droplet and peroxisome biogenesis occur at the same ER subdomains. Amit S. Joshi|Vineet Choudhary|Tim P. Levine|William A. Prinz National Institutes of Health;|University College London
http://dx.doi.org/10.1101/188425 2017-09-13 Biochemistry CC BY A Cdk1 phosphomimic mutant of MCAK impairs microtubule end recognition. Hannah R Belsham|Claire T Friel University of Nottingham
http://dx.doi.org/10.1101/188441 2017-09-13 Molecular Biology A SUMO-dependent feedback loop senses and controls the biogenesis of nuclear pore subunits Jerome O ROUVIERE|Manuel BULFONI|Alex TUCK|Bertrand COSSON|Frederic DEVAUX|Benoit PALANCADE Institut Jacques Monod, CNRS, UMR 7592, Univ Paris Diderot, Sorbonne Paris Cite, Paris, France;|Universite Paris Diderot, Sorbonne Paris Cite, Epigenetics and Cell Fate, UMR7216, CNRS, F-75013, Pa;|Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh, EH9 3BF, UK;|Sorbonne Universites, Universite Pierre et Marie Curie (UPMC), CNRS, IBPS
http://dx.doi.org/10.1101/188391 2017-09-13 Bioengineering CC BY-NC-ND Systemic and vascular inflammation in an in-vitro model of central obesity Arti Ahluwalia|Alessandra Misto|Federico Vozzi|Chiara Magliaro|Giorgio Mattei|Maria Cristina Marescotti|Angelo Avogaro|Elisabetta Iori University of Pisa;|Italian National Council of Research;|University of Padova
http://dx.doi.org/10.1101/188383 2017-09-13 Biochemistry CC BY-NC Nucleolin internalizes Bothrops asper Lys49 phospholipase A2 forming cell surface amyloid-like assemblies Maria Lina Massimino|Morena Simonato|Barbara Spolaore|Cinzia Franchin|Giogio Arrigoni|Oriano Marin|Laura Monturiol-Gross|Julian Fernandez|Bruno Lomonte|Fiorella Tonello Istituto di Neuroscienze, CNR, Via Ugo Bassi 58/B, 35131, Padova, Italy;|Dipartimento di Scienze del Farmaco, Università di Padova;|Dipartimento di Scienze Biomediche, Università di Padova;|Inst. Clodomiro Picado, Facultad de Microbiologia, Univ. de Costa Rica, San José
http://dx.doi.org/10.1101/188474 2017-09-13 Genetics The evolutionary impact of Intragenic FliA Promoters in Proteobacteria Devon Fitzgerald|Carol Smith|Pascal Lapierre|Joseph Wade Department of Biomedical Sciences, School of Public Health, University at Albany;|Wadsworth Center, New York State Department of Health;|Wadsworth Center
http://dx.doi.org/10.1101/188466 2017-09-13 Neuroscience CC BY-NC-ND Evidence for a long-term protection of wheel-running exercise against cocaine psychomotor sensitization in adolescent but not in young adult mice Louis-Ferdinand Lespine|Ezio Tirelli University of Liege
http://dx.doi.org/10.1101/188482 2017-09-13 Synthetic Biology Characterization of Azotobacter vinelandii and Kits for Its Synthetic Biology Applications King Pong Leung|Jacky Fong Chuen Loo|Leo Chi U Seak|Tung Faat Lai|Kevin Yuk Lap Yip|Siu Kai Kong|Ting Fung Chan|King Ming Chan The Chinese University of Hong Kong
http://dx.doi.org/10.1101/188490 2017-09-13 Bioinformatics CC BY CscoreTool: Fast Hi-C Compartment Analysis at High Resolution Xiaobin Zheng|Yixian Zheng Carnegie Institution for Science
http://dx.doi.org/10.1101/188375 2017-09-13 Cancer Biology A potential link between tuberculosis and lung cancer through non-coding RNAs Debmalya Barh|Sandeep Tiwari|Ranjith N. Kumavath|Vasco Azevedo IIOAB, UFMG;|UFMG;|Central University of Kerala, Kasaragod, India
http://dx.doi.org/10.1101/188870 2017-09-14 CC BY Global determinants of navigation ability Antoine Coutrot|Ricardo Silva|Ed Manley|Will de Cothi|Saber Sami|Veronique Bohbot|Jan Wiener|Christoph Holscher|Ruth C. Dalton|Michael Hornberger|Hugo Spiers University College London;|University of East Anglia;|McGill University;|Bournemouth University;|ETH Zurich;|Northumbria University
http://dx.doi.org/10.1101/188656 2017-09-14 CC BY-NC-ND A whole genome analysis of the red-crowned crane provides insight into avian longevity HyeJin Lee|Oksung Chung|Yun Sung Cho|Sungwoong Jho|JeHoon Jun|Jessica A. Weber|Jungeun Kim|Jeongheui Lim|Jeremy Scott Edwards|Woon Kee Paek|Jong Bhak Genome Research Foundation;|University of New Mexico;|National Science Museum
http://dx.doi.org/10.1101/188888 2017-09-14 Cortical Connectivity In A Macaque Model Of Congenital Blindness Loic Magrou|Pascal Barone|Nikola T. Markov|Herbert Killackey|Pascale Giroud|Michel Berland|Kenneth Knoblauch|Colette Dehay|Henry Kennedy Univ. Lyon, Universite Claude Bernard Lyon 1, INSERM, Stem Cell & Brain Research Institute;|Centre De Recherche Cerveau & Cognition, CNRS, UMR 5549;|Princeton Neuroscience Institute and Department of Psychology, Princeton University;|Department of Neurobiology and Behavior, University of California, Irvine;|Fac. de Med. Lyon-Sud, Service de Gynecologie Obstetrique, Centre Hospitalier Lyon-Sud
http://dx.doi.org/10.1101/188862 2017-09-14 CC BY-NC-ND Quantitative mapping of fluorescently tagged cellular proteins using FCS-calibrated four dimensional imaging Antonio Z Politi|Yin Cai|Nike Walther|M. Julius Hossain|Birgit Koch|Malte Wachsmuth|Jan Ellenberg European Molecular Biology Laboratory;|Roche SIS;|LUXENDO GmbH
http://dx.doi.org/10.1101/188722 2017-09-14 CC BY-NC-ND Pathways of DNA unlinking: A story of stepwise simplification Robert Stolz|Masaaki Yoshida|Reuben Brasher|Michelle Flanner|Kai Ishihara|David J. Sherratt|Koya Shimokawa|Mariel Vazquez University of California Davis;|Takamatsu-cho City Office;|Microsoft;|Yamaguchi University;|University of Oxford;|Saitama University
http://dx.doi.org/10.1101/188854 2017-09-14 Trait evolution with jumps: illusionary normality Krzysztof Bartoszek Uppsala University
http://dx.doi.org/10.1101/188789 2017-09-14 Neuroscience Single synapses control mossy cell firing Alexander Drakew|Urban Maier|Anja Tippmann|Michael Frotscher Institute for Structural Neurobiology, ZMNH, UKE Hamburg Eppendorf;|Systems Neuroscience, J.-F.-B. Inst. for Zool. and Anthropol., Univ. Goettingen
http://dx.doi.org/10.1101/188797 2017-09-14 Genomics Data quality of Whole Genome Bisulfite Sequencing on Illumina platforms Amanda Raine|Ulrika Liljedahl|Jessica Nordlund Uppsala University, Department of Medical Sciences
http://dx.doi.org/10.1101/188821 2017-09-14 Bioinformatics CC BY-NC Organisation of feed-forward loop motifs reveals architectural principles in natural and engineered networks Thomas E. Gorochowski|Claire S. Grierson|Mario di Bernardo University of Bristol
http://dx.doi.org/10.1101/188615 2017-09-14 Bioengineering CC BY Controller for microfluidic large-scale integration Jonathan White|Aaron M. Streets University of California, Berkeley
http://dx.doi.org/10.1101/188680 2017-09-14 Molecular Biology Allosteric effector ppGpp potentiates the inhibition of transcript initiation by DksA Vadim Molodtsov|Elena Sineva|Lu Zhang|Xuhui Huang|Michael Cashel|Sarah E. Ades|Katsuhiko Murakami Penn State University;|Chinese Academy of Sciences;|The Hong Kong University of Science and Technology;|National Institutes of Health
http://dx.doi.org/10.1101/188706 2017-09-14 Neuroscience CC BY A Comprehensive Cloud Framework for Accurate and Reliable Human Connectome Estimation and Meganalysis Gregory Kiar|Eric Bridgeford|Vikram Chandrashekhar|Disa Mhembere|Randal Burns|William Gray Roncal|Joshua Vogelstein Johns Hopkins University;|Johns Hopkins Univeristy;|Johns Hopkins University Applied Physics Laboratory
http://dx.doi.org/10.1101/188698 2017-09-14 Cell Biology CC BY-NC-ND Cell size and growth rate are modulated by TORC2-dependent signals Rafael Lucena|Maria Alcaide-Gavilan|Katherine Schubert|Maybo He|Matthew Domnauer|Catherine Marquer|Douglas Kellogg University of California, Santa Cruz;|Columbia University Medical Center
http://dx.doi.org/10.1101/188730 2017-09-14 Cancer Biology Efficacy of SHP2 phosphatase inhibition in cancers with nucleotide-cycling oncogenic RAS, RAS-GTP dependent oncogenic BRAF and NF1 loss Robert J. Nichols|Franziska Haderk|Carlos Stahlhut|Christopher J. Schulze|Golzar Hemmati|David Wildes|Christos Tzitzilonis|Kasia Mordec|Abby Marquez|Jason Romero|Daphne Hsieh|Gert Kiss|Elena S. Koltun|Adrian L. Gill|Mallika Singh|Mark A. Goldsmith|Jacqueline A. M. Smith|Trever G. Bivona Revolution Medicines;|University of California, San Francisco
http://dx.doi.org/10.1101/188607 2017-09-14 Ecology CC BY-NC-ND Four fundamental processes of community assembly Joshua Ladau|Steven J. Schwager Gladstone Institutes;|Department of Biological Statistics and Computational Biology, Cornell University
http://dx.doi.org/10.1101/188623 2017-09-14 Genomics CC BY-NC-ND Minor allele frequency thresholds strongly affect population structure inference with genomic datasets Ethan B. Linck|C. J. Battey University of Washington
http://dx.doi.org/10.1101/187609 2017-09-14 Cancer Biology CC BY-NC-ND Selective and mechanistic sources of recurrent rearrangements across the cancer genome Jeremiah Anthony Wala|Ofer Shapira|Yilong Li|David Craft|Steven E. Schumacher|Marcin Imielinski|James E. Haber|Nicola Roberts|Xiaotong Yao|Chip Stewart|Cheng-Zhong Zhang|Jose Tubio|Young Seok Ju|Peter Campbell|Joachim Weischenfeldt|Rameen Beroukhim Broad Institute;|SBGD Inc.;|Massachusetts General Hospital;|New York Genome Center;|Brandeis University;|University of Cambridge;|Harvard Medical School;|University of Vigo;|Sanger Institute;|Rigshospitalet, University of Copenhagen;|-
http://dx.doi.org/10.1101/171439 2017-09-14 Genomics Integrated analysis of DSB patterns reveals precisely DSB formation mechanisms following replication fork collapse Yingjie Zhu|Anna Biernacka|Benjamin Pardo|Romain Forey|Norbert Dojer|Jules Nde|Bernard Fongang|Raziyeh Yousefi|Abhishek Mitra|Ji Li|Magdalena Skrzypczak|Andrzej Kudlicki|Philippe Pasero|Krzysztof Ginalski|Maga Rowicka Department of Biochemistry and Molecular Biology, University of Texas Medical Branch, Galveston, TX;|Laboratory of Bioinformatics and Systems Biology, Centre of New Technologies, University of Warsaw;|IGH Institute of Human Genetics, Montpellier, France;|Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston
http://dx.doi.org/10.1101/182956 2017-09-14 Bioinformatics CC BY accuMUlate: A mutation caller designed for mutation accumulation experiments David Winter|Steven H. Wu|Abigail A. Howell|Ricardo Azevedo|Rebecca Zufall|Reed Cartwright Massey University;|Biodesign Institute, Arizona State University;|Department of Biology and Biochemistry, University of Houston
http://dx.doi.org/10.1101/188599 2017-09-14 Bioinformatics CC BY-NC-ND xenoGI: reconstructing the history of genomic island insertions in clades of closely related bacteria Eliot C. Bush|Anne E. Clark|Carissa A. DeRanek|Alexander Eng|Juliet Forman|Kevin Heath|Alexander B. Lee|Daniel M. Stoebel|Zunyan Wang|Matthew Wilber|Helen Wu Harvey Mudd College
http://dx.doi.org/10.1101/188532 2017-09-14 Pleiotropy in enhancer function is encoded through diverse genetic architectures Ella Preger-Ben Noon|Gonzalo Sabaris|Daniela Ortiz|Jonathan Sager|Anna Liebowitz|David L. Stern|Nicolas Frankel Janelia Research Campus, Virginia, USA;|Dept. de Ecologia, Genet. y Evolucion, IEGEBA-CONICET, Universidad de Buenos Aires;|Janelia Research Campus, Ashburn, Virginia, USA;|Department of Molecular Biology, Princeton University, USA;|Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires
http://dx.doi.org/10.1101/189076 2017-09-14 CC BY Systematic Mendelian randomization framework elucidates hundreds of genetic loci which may influence disease through changes in DNA methylation levels Tom G. Richardson|Philip C. Haycock|Jie Zheng|Nicholas J. Timpson|Tom R. Gaunt|George Davey Smith|Caroline L. Relton|Gibran Hemani MRC Integrative Epidemiology Unit, University of Bristol
http://dx.doi.org/10.1101/189019 2017-09-14 Inferring the selection window in antimicrobial resistance using deep mutational scanning data and biophysics-based fitness models Pouria Dasmeh|Anh-Tien Ton|Caroline Quach|Adrian Serohijos University of Montreal
http://dx.doi.org/10.1101/189134 2017-09-14 CC BY-NC-ND Reactive astrocytes - comprehending when neurons play 4'33" Vladislav Volman|Maxim Bazhenov L3 Applied Technologies;|UC San Diego
http://dx.doi.org/10.1101/188813 2017-09-14 Ecology Biological communities as interacting compartments: thermodynamic properties and diversity indices Fernando Meloni|Gilberto Medeiros Nakamura|Alexandre Souto Martinez FFCLRP-USP
http://dx.doi.org/10.1101/188995 2017-09-14 Microbiology Formation of functional, non-amyloidogenic fibres by recombinant Bacillus subtilis TasA Elliot Erskine|Ryan Morris|Marieke Schor|Chris Earl|Rachel M.C. Gillespie|Keith Bromley|Tetyana Sukhodub|Lauren Clark|Paul Fyfe|Louise Serpell|Nicola Stanley-Wall|Cait E. MacPhee University of Dundee;|University of Edinburgh;|Edinburgh University;|University of Sussex
http://dx.doi.org/10.1101/189068 2017-09-14 Bioinformatics CC BY-NC-ND FlashFry: a fast and flexible tool for large-scale CRISPR target design Aaron McKenna|Jay Shendure University of Washington
http://dx.doi.org/10.1101/189092 2017-09-14 Bioinformatics Massive Mining of Publicly Available RNA-seq Data from Human and Mouse Alexander Lachmann|Denis Torre|Alexandra B. Keenan|Kathleen M. Jagodnik|Hyojin J. Lee|Moshe C. Silverstein|Lily Wang|Avi Ma'ayan Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/189050 2017-09-14 Biophysics CC BY Systematic mapping of the free energy landscapes of a growing immunoglobulin domain identifies a kinetic intermediate associated with co-translational proline isomerization Christopher A. Waudby|Maria-Evangelia Karyadi|Tomasz Wlodarski|Anais M. E. Cassaignau|Sammy Chan|Julian M. Schmidt-Engler|Anne S. Wentink|Carlo Camilloni|Michele Vendruscolo|Lisa D. Cabrita|John Christodoulou University College London;|Università degli studi di Milano;|University of Cambridge
http://dx.doi.org/10.1101/188664 2017-09-14 Neuroscience Age-related differences in prestimulus subsequent memory effects assessed with event-related potentials Joshua D. Koen|Erin D. Horne|Nedra Hauck|Michael D. Rugg University of Texas at Dallas
http://dx.doi.org/10.1101/188458 2017-09-14 Biophysics CC BY-NC-ND Single-molecule DNA unzipping reveals asymmetric modulation of the transcription factor Egr-1 by its binding site sequence and context Sergei Rudnizky|Hadeel Khamis|Omri Malik|Allison Squires|Amit Meller|Philippa Melamed|Ariel Kaplan Technion - Israel Institute of Technology;|Boston University
http://dx.doi.org/10.1101/189035 2017-09-14 Neuroscience CC BY Conservation of preparatory neural events regardless of how movement is initiated Antonio Homero Lara|Gamaleldin F. Elsayed|John Cunningham|Mark M. Churchland Columbia University Medical Center;|Columbia University
http://dx.doi.org/10.1101/188755 2017-09-14 Genomics Measuring the reproducibility and quality of Hi-C data Galip Yardimci|Hakan Ozadam|Michael E.G. Sauria|Oana Ursu|Koon-Kiu Yan|Tao Yang|Abhijit Chakraborty|Arya Kaul|Bryan R Lajoie|Fan Song|Ye Zhan|Ferhat Ay|Mark Gerstein|Anshul Kundaje|Qunhua Li|James Taylor|Feng Yue|Job Dekker|William S Noble University of Washington;|Program in Systems Biology, University of Massachusetts Medical School;|Departments of Biology and Computer Science, Johns Hopkins University;|Department of Genetics, Stanford University;|Department of Computational Biology, St. Jude Children's Research Hospital;|Bioinformatics and Genomics Program, Huck Institutes of the Life Sciences, Penn State University;|La Jolla Institute for Allergy and Immunology;|Bioinformatics and Genomics Program, Huck Institutes of the Life Sciences, Penn State Universty;|University of Massachusetts Medical School;|La Jolla Institute for Allergy and Immunology, La Jolla;|Program in Computational Biology and Bioinformatics, Yale University;|Department of Genetics, Department of Computer Science, Stanford University;|Department of Statistics, Pennsylvania State University;|Department of Biochemistry and Molecular Biology, The Pennsylvania State University;|Howard Hughes Medical Institute, University of Massachusetts Medical School;|Department of Genome Sciences, University of Washington
http://dx.doi.org/10.1101/189001 2017-09-14 Neuroscience CC BY-NC Assessing robustness against potential publication bias in coordinate based fMRI meta-analyses using the Fail-Safe N Freya Acar|Ruth Seurinck|Simon B. Eickhoff|Beatrijs Moerkerke Ghent University;|Heinrich Heine University Dusseldorf and Research Centre Julich
http://dx.doi.org/10.1101/188938 2017-09-14 Neuroscience Associations between memory traces emerge in a generic neural circuit model through STDP Christoph Pokorny|Matias J. Ison|Arjun Rao|Robert Legenstein|Christos Papadimitriou|Wolfgang Maass Graz University of Technology;|University of Nottingham;|UC Berkeley
http://dx.doi.org/10.1101/188912 2017-09-14 Plant Biology CC BY Phytophthora palmivora establishes tissue-specific intracellular infection structures in the earliest divergent land plant lineage Philip Carella|Anna Gogleva|Marta Tomaselli|Carolin Alfs|Sebastian Schornack University of Cambridge, Sainsbury Laboratory
http://dx.doi.org/10.1101/188961 2017-09-14 Genomics CC BY-NC-ND Genetic analysis of isoform usage in the human anti-viral response reveals influenza-specific regulation of ERAP2 transcripts under balancing selection Ye Jimmie Chun|Jenny Chen|Alexandra-Chloe Villani|Meena Subramaniam|Rachel E Gate|Tushar Bhangale|Mark N Lee|Towfique Raj|Raktima Raychowdhury|Weibo Li|Noga Rogel|Selina H Imboywa|Portia I Chipendo|Cristin McCabe|Michelle H Lee|Irene Y Frohlich|Barbara E Stranger|Philip L De Jager|Aviv Regev|Tim Behrens|Nir Hacohen University of California, San Francisco;|Broad Institute;|Genentech Inc.;|Harvard Medical School;|University of Chicago
http://dx.doi.org/10.1101/187138 2017-09-14 Genomics Dose-dependency of heterochromatin domains reveals subtelomeric structuration in budding yeast Antoine Hocher|Myriam Ruault|Mickael Garnier|Marc Descrimes|Antonin Morillon|Angela Taddei Institut Curie, PSL Research University, CNRS, UMR3664, Sorbonne Universities
http://dx.doi.org/10.1101/183582 2017-09-14 Bioinformatics CC BY-NC Molecular characterization of breast and lung tumors by integration of multiple data types with sparse-factor analysis Tycho Bismeijer|Sander Canisius|Lodewyk Wessels Netherlands Cancer Institure;|The Netherlands Cancer Institute;|Netherlands Cancer Institute
http://dx.doi.org/10.1101/188904 2017-09-14 Bioinformatics seq-seq-pan: Building a computational pan-genome data structure on whole genome alignment Christine Jandrasits|Piotr W. Dabrowski|Stephan Fuchs|Bernhard Y. Renard Robert Koch Institute;|Robert Koch Institute, Wernigerode Branch
http://dx.doi.org/10.1101/188953 2017-09-14 Animal Behavior and Cognition CC BY-NC-ND Collective mechanical adaptation of honeybee swarms Orit Peleg|Jacob M. Peters|Mary K. Salcedo|Lakshminarayanan Mahadevan Harvard University
http://dx.doi.org/10.1101/188896 2017-09-14 Genomics CC BY-NC-ND A method for allocating low-coverage sequencing resources by targeting haplotypes rather than individuals Roger Ros-Freixedes|Serap Gonen|Gregor Gorjanc|John M. Hickey The Roslin Institute and Royal (Dick) School of Veterinary Studies, The University of Edinburgh
http://dx.doi.org/10.1101/188847 2017-09-14 Molecular Biology CC BY-NC-ND Generation and validation of homozygous fluorescent knock-in cells using genome editing Birgit Koch|Bianca Nijmeijer|Moritz Kueblbeck|Yin Cai|Nike Walther|Jan Ellenberg European Molecular Biology Laboratory;|Roche SIS
http://dx.doi.org/10.1101/188839 2017-09-14 Neuroscience CC BY-NC-ND Cholecystokinin release triggered by presynaptic NMDA receptors produces LTP and sound-sound associative memory formation Xiao Li|Chen Xi|Yin Ting Wong|Haitao Wang|Hemin Feng|Xuejiao Zheng|Jingyu Feng|Joewel T. Baibado|Robert Jesky|Yujie Peng|Zhedi Wang|Hui Xie|Wenjian Sun|Zicong Zhang|Xu Zhang|Ling He|Nan Zhang|Zijian Zhang|Peng Tang|Jun-Feng Su|Ling-Li Hu|Qing Liu|Xiao-Bin He|Ailian Tan|Xia Sun|Min Li|Kelvin Wong|Xiaoyu Wang|Yi Ping Guo|Fuqiang Xu|Jufang He Department of Biomedical Sciences, City University of Hong Kong, Kowloon Tong, Hong Kong;|Key Laboratory of Regenerative Biology, Guangzhou Institute of Biomedicine and Health, CAS, Guangzho;|Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences, Wuhan, China;|School of Medicine, Hangzhou Normal University, Hangzhou, China
http://dx.doi.org/10.1101/189183 2017-09-15 CC BY-NC Deep learning of the splicing (epi)genetic code reveals a novel candidate mechanism linking histone modifications to ESC fate decision Yungang Xu|Yongcui Wang|Jiesi Luo|Weiling Zhao|Xiaobo Zhou University of Texas Health Science Center at Houston;|Northwest Institute of Plateau Biology, Chinese Academy of Sciences;|Wake Forest School of Medicine
http://dx.doi.org/10.1101/187823 2017-09-15 CC BY-NC-ND Optimization-based synthesis of stochastic biocircuits with statistical specifications Yuta Sakurai|Yutaka Hori Keio University
http://dx.doi.org/10.1101/189159 2017-09-15 CC BY-NC-ND Real-time DNA barcoding in a remote rainforest using nanopore sequencing Aaron Pomerantz|Nicolas Penafiel|Alejandro Arteaga|Lucas Bustamante|Frank Pichardo|Luis A Coloma|Cesar L Barrio-Amoros|David Salazar-Valenzuela|Stefan Prost University of California Berkeley;|Universidad Tecnologica Indoamerica;|Tropical Herping;|Fundacion Otonga;|Doc Frog Expeditions;|Stanford University
http://dx.doi.org/10.1101/172106 2017-09-15 Cell Biology CC BY ATR is a multifunctional regulator of male mouse meiosis Alexander Widger|Shantha K Mahadevaiah|Julian Lange|Elias ElInati|Jasmin Zohren|Takayuki Hirota|Marcello Stanzione|Obah Ojarikre|Valdone Maciulyte|Dirk de Rooij|Attila Toth|Scott Keeney|James MA Turner Sex Chromosome Biology Lab, the Francis Crick Institute, 1 Midland Road, London, NW1 1AT, UK;|Molecular Biology Program, Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center;|Institute of Physiological Chemistry, Faculty of Medicine at the TU Dresden, Fetscherstrasse 74 0130;|Center for Reproductive Medicine, Academic Medical Center, University of Amsterdam, Amsterdam 1105 A
http://dx.doi.org/10.1101/189399 2017-09-15 Neuroscience CC BY Sensory noise increases metacognitive efficiency Ji Won Bang|Medha Shekhar|Dobromir Rahnev Georgia Institute of Technology
http://dx.doi.org/10.1101/189191 2017-09-15 Neuroscience CC BY A novel mechanism for volitional locomotion in larval zebrafish David E Ehrlich|David Schoppik NYU School of Medicine;|NYU Langone School of Medicine
http://dx.doi.org/10.1101/189266 2017-09-15 Genetics CC BY A global Brassica pest and a sympatric cryptic ally, Plutella australiana (Lepidoptera: Plutellidae), show strong divergence despite the capacity to hybridize Kym D Perry|Gregory J Baker|Kevin J Powis|Joanne K Kent|Christopher M Ward|Simon W Baxter University of Adelaide, Australia. South Australian Research & Development Institute, Australia;|South Australian Research & Development Institute, Adelaide, Australia;|University of Adelaide, Australia
http://dx.doi.org/10.1101/189274 2017-09-15 Microbiology CC BY-NC-ND N VITRO AND IN VIVO CHARACTERISATION OF ISOLATES OF CRYPTOCOCCUS NEOFORMANS CAUSING MENINGITIS IN HIV-INFECTED AND UNINFECTED PATIENTS IN VIETNAM Thanh T Lam|Dena Toffaletti|Jennifer Tenor|Charles Giamberardino|Greg Sempowski|Yohannes Asfaw|Trieu Hai Phan|Anh Van Duong|Trinh Mai Nguyen|Lan Phu Huong Nguyen|Chau Thi Hong Tran|Philip M Ashton|Justin Beardsley|Chau Van Vinh Nguyen|Guy E Thwaites|Stephen Baker|John R Perfect|Jeremy N Day Oxford University Clinical Research Unit;|Duke University;|Hospital for Tropical Diseases
http://dx.doi.org/10.1101/189217 2017-09-15 Neuroscience Repeated performance in problem-solving tasks attenuates human cortical responses Meir Meshulam|Tal Golan|Michal Harel|David Groppe|Corey Keller|Pierre Megevand|Ashesh Mehta|Rafael Malach Weizmann Institute of Science;|The Hebrew University of Jerusalem;|Feinstein Institute for Medical Research;|Hofstra Northwell School of Medicine
http://dx.doi.org/10.1101/187849 2017-09-15 Epidemiology CC BY Detecting and correcting for bias in Mendelian randomization analyses using gene-by-environment interactions Wes Spiller|David Slichter|Jack Bowden|George Davey Smith University of Bristol;|Binghamton University
http://dx.doi.org/10.1101/189282 2017-09-15 Neuroscience CC BY-NC-ND Attentional fluctuations induce shared variability in macaque primary visual cortex George H. Denfield|Alexander S. Ecker|Tori J. Shinn|Matthias Bethge|Andreas S. Tolias Baylor College of Medicine;|Centre for Integrative Neuroscience, Tubingen;|Bernstein Center for Computational Neuroscience
http://dx.doi.org/10.1101/189332 2017-09-15 Genetics CC BY-NC-ND Genome-wide Variants of Eurasian Facial Shape Differentiation and a prospective model of DNA based Face Prediction Lu Qiao|Yajun Yang|Pengcheng Fu|Sile Hu|Hang Zhou|Shouneng Peng|Jingze Tan|Yan Lu|Haiyi Lou|Dongsheng Lu|Sijie Wu|Jing Guo|Li Jin|Yaqun Guan|Sijia Wang|Shuhua Xu|Kun Tang Chinese Academy of Sciences (CAS) Laboratory of Computational Biology;|Fudan University;|The First People's Hospital of Chenzhou;|Xinjiang Medical University
http://dx.doi.org/10.1101/189142 2017-09-15 Bioinformatics SodaPop: A computational suite for simulating the dynamics of asexual populations Louis Gauthier|Remicia Di Franco|Adrian Serohijos University of Montreal
http://dx.doi.org/10.1101/189324 2017-09-15 Physiology SCGN Administration prevents Insulin Resistance and Diabetic Complications in High-Fat Diet Fed Animals Anand Kumar Sharma|Radhika Khandelwal|Swathi Chadalawada|N Sai Ram|Avinash Raj|Jerald Mahesh Kumar|Yogendra Sharma CSIR-Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/189365 2017-09-15 Biophysics CC BY Spatial cytoskeleton organization supports targeted intracellular transport Anne E. Hafner|Heiko Rieger Saarland University
http://dx.doi.org/10.1101/189316 2017-09-15 Molecular Biology CC BY Atomic structure of the mitochondrial inner membrane AAA+ protease YME1 reveals the mechanism of substrate processing Cristina Puchades|Anthony J. Rampello|Mia Shin|Christopher J. Giuliano|R. Luke Wiseman|Steven E. Glynn|Gabriel C. Lander The Scripps Research Institute;|Stony Brook University
http://dx.doi.org/10.1101/186593 2017-09-15 Epidemiology CC BY-NC-ND Evaluation of Metrics for Benchmarking Antimicrobial Use in the United Kingdom Dairy Industry Harriet Mills|Andrea Turner|Lisa Morgans|Jonathan Massey|Hannah Schubert|Gwen Rees|Fraser Broadfoot|David C. Barrett|Andrew Dowsey|Kristen K Reyher Bristol Veterinary School and MRC Integrative Epidemiology Unit, University of Bristol;|Bristol Veterinary School, University of Bristol;|Veterinary Medicines Directorate
http://dx.doi.org/10.1101/186973 2017-09-15 Epidemiology CC BY-NC-ND Ceasing the use of the highest priority critically important antimicrobials does not adversely affect production, health or welfare parameters in dairy cows Andrea Turner|David Tisdall|David C. Barrett|Sarah Wood|Andrew Dowsey|Kristen K. Reyher University of Bristol, Bristol Veterinary School;|University of Surrey School of Veterinary Medicine
http://dx.doi.org/10.1101/189167 2017-09-15 Epidemiology CC BY fingertipsR: an R package for accessing population health information in England Sebastian Fox|Julian Flowers|Simon Thelwall|Daniel Flint|Doris Hain Public Health England
http://dx.doi.org/10.1101/189043 2017-09-15 Epidemiology The Microbiomes of Pancreatic Tissue in Pancreatic Cancer and Non-Cancer Subjects Erika del Castillo|Richard Meier|Devin C. Koestler|Tsute Chen|Bruce J. Paster|Kevin P. Charpentier|Karl T. Kelsey|Jacques Izard|Dominique S. Michaud Tufts University;|University of Kansas Medical Center;|Forsyth Institute;|Rhode Island Hospital;|Brown University;|University of Nebraska
http://dx.doi.org/10.1101/189340 2017-09-15 Cancer Biology The Early Diagnosis in Lung Cancer by the Detection of Circulating Tumor DNA Geng Tian|Xiaohua Li|Yuancai Xie|Feiyue Xu|Dan Yu|Fengjun Cao|Xuanbin Wang|Fenglei Yu|Weiquan Zhong|Shixin Lu|Xiaonian Tu|Xumei Yao|Jiankui He|Chaoyu Liu Department of Oncology, Shenzhen Second Peoples Hospital, Shenzhen, China;|Shenzhen GeneHealth Bio Tech Co., Ltd., Shenzhen, Guangdong, 518053, China;|Thoracic Department, Peking University Shenzhen Hospital, Shenzhen, China;|Renmin Hospital, Hubei University of Medicine, Shiyan, 442000, China;|The Second Xiangya Hospital of Central South University, Changsha, China;|Huizhou Third Peoples Hospital of Guangzhou Medical University, Huizhou, China;|South University of Science and Technology of China, Shenzhen, 518055, China
http://dx.doi.org/10.1101/189175 2017-09-15 Biophysics In silico mechanobiochemical modeling of morphogenesis in cell monolayers Hongyan Yuan|Bahador Marzban University of Rhode Island
http://dx.doi.org/10.1101/189357 2017-09-15 Synthetic Biology CC BY-NC PartsGenie: an integrated tool for optimising and sharing synthetic biology parts Neil Swainston|Mark Dunstan|Adrian J Jervis|Christopher J Robinson|Pablo Carbonell|Alan R Williams|Jean-Loup Faulon|Nigel S Scrutton|Douglas B Kell University of Manchester
http://dx.doi.org/10.1101/189704 2017-09-15 A survey of DNA methylation polymorphism identifies environmentally responsive co-regulated networks of epigenetic variation in the human genome Paras Garg|Ricky S Joshi|Corey Watson|Andrew James Sharp Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai, New York
http://dx.doi.org/10.1101/189688 2017-09-15 CC BY-ND Inferring Continuous and Discrete Population Genetic Structure Across Space Gideon Bradburd|Graham Coop|Peter Ralph Michigan State University;|University of California: Davis;|University of Oregon
http://dx.doi.org/10.1101/189670 2017-09-15 Inter-Chromosomal Linkage Reveals Errors in the 1000 Genomes Dataset Fabrizio Mafessoni|Rashmi Prasad B|Leif Groop|Ola Hansson|kay Pruefer Max Planck For Evolutionary Anthropology, Leipzig;|Lund University Diabetes Center, Malmo;|Lund University Diabetes Center, Malmo. Finnish Institute for Molecular Medicine (FIMM), Helsinki;|Lund University Diabetes Center, Malmo.
http://dx.doi.org/10.1101/189696 2017-09-15 The drivers and consequences of unstable Plasmodium dynamics: A 26-year study of three malaria parasite species infecting a tropical lizard Luisa Otero|Jos J Schall|Virnaliz Cruz|Kristen Aaltonen|Miguel Acevedo University of Puerto Rico;|University of Vermont;|Akins High School, Austin, TX
http://dx.doi.org/10.1101/189712 2017-09-15 CC BY-NC-ND Mutational burden of giant synaptic genes may be the cause of Alzheimer′s disease Sourena Soheili-nezhad|Mojtaba Zarei Imaging Genetics Center, Mark and Mary Stevens Neuroimaging and Informatics Institute;|School of Cognitive Sciences, Institute for Research in Fundamental Sciences
http://dx.doi.org/10.1101/188771 2017-09-15 CC BY-NC-ND A New Evidence of Lubrication Hypothesis on Nephila pilipes Spider Silk Spinning Hsuan-Chen Wu|Shang-Ru Wu|Jen-Chang Yang National Taiwan University;|Taipei Medical University
http://dx.doi.org/10.1101/189639 2017-09-15 CC BY-NC-ND EIF4A3 associated splicing and nonsense mediated decay defined by a systems analysis with novel small molecule inhibitors Alborz Mazloomian|Shinsuke Araki|Momoko Oohori|Damian Yap|Shoichi Nakao|Atsushi Nakanishi|Sohrab Shah|Samuel Aparicio BC Cancer Agency;|Takeda Pharmaceutical Company
http://dx.doi.org/10.1101/189118 2017-09-15 CC BY-ND SnapperDB: A database solution for routine sequencing analysis of bacterial isolates Timothy J Dallman|Philip Ashton|Ulf Schafer|Aleksey Jironkin|Anais Painset|Sharif Shaaban|Hassan Hartman|Richard Myers|Anthony Underwood|Claire Jenkins|Kathie Grant Public Health England;|Oxford University Clinical Research Unit;|Roslin Institute, University of Edinburgh, Scotland
http://dx.doi.org/10.1101/189407 2017-09-15 CC BY Pre-post synaptic alignment through neuroligin tunes synaptic transmission efficiency Eric Hosy|Daniel Choquet|Thomas M Bartol|Terrence J Sejnowski|Olivier Thoumine|Mathieu Letellier|Benjamin Compans|Kalina Haas|Dolors Grillo-Bosch|Matthieu Sainlos CNRS, University of Bordeaux;|University of Bordeaux, France;|Howard Hughes Medical Institute, Salk Institute for Biological Studies;|CNRS;|Univ. Bordeaux, Interdisciplinary Institute for Neuroscience, CNRS;|University of Cambridge;|none
http://dx.doi.org/10.1101/189654 2017-09-15 CC BY-ND High-throughput identification of RNA nuclear enrichment sequences Chinmay J Shukla|Alexandra L McCorkindale|Chiara Gerhardinger|Keegan D Korthauer|Moran N Cabili|David M Shechner|Rafael A Irizarry|Philipp G Maass|John L Rinn Harvard University;|Broad Institute
http://dx.doi.org/10.1101/189647 2017-09-15 CC BY-NC NF90/ILF3 is a transcription factor that promotes proliferation over differentiation by hierarchical regulation in K562 erythroleukemia cells Ting-Hsuan Wu|Lingfang Shi|Jessika Adrian|Minyi Shi|Ramesh V. Nair|Michael P. Snyder|Peter N. Kao Stanford University School of Medicine;|Stanford University
http://dx.doi.org/10.1101/189662 2017-09-15 CC BY-NC-ND S1-seq assay for mapping processed DNA ends Eleni Mimitou|Scott Keeney Memorial Sloan Kettering Cancer Center;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/188151 2017-09-15 CC BY-NC The cost of heat waves and droughts for global crop production Zia Mehrabi|Navin Ramankutty University of British Columbia
http://dx.doi.org/10.1101/189084 2017-09-15 CC BY-NC-ND On information metrics for spatial coding Bryan Souza|Rodrigo Pavao|Hindiael Belchior|Adriano Tort Federal University of Rio Grande do Norte;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/188037 2017-09-15 CC BY HyDe: a Python package for genome-scale hybridization detection Paul D Blischak|Julia Chifman|Andrea D Wolfe|Laura S Kubatko The Ohio State University;|American University
http://dx.doi.org/10.1101/189258 2017-09-15 CC BY Telomere repeats induce domains of H3K27 methylation in Neurospora Kirsty Jamieson|Kevin J McNaught|Tereza Ormsby|Neena A. Leggett|Shinji Honda|Eric U Selker University of Oregon, United States;|University of Fukui, United States
http://dx.doi.org/10.1101/189449 2017-09-15 CC BY plot2DO: a tool to assess the quality and distribution of genomic data Razvan V Chereji National Institutes of Health
http://dx.doi.org/10.1101/189589 2017-09-15 Biomarker evaluation of plasma microRNA-122, high-mobility group box-1 and keratin-18 in acute gallstone disease Francesca Th'ng|Bastiaan Vliegenthart|Jonathan D Lea|Daniel J Antoine|James W Dear|Damian James Mole NHS;|University of Edinburgh;|University of Liverpool;|NHS Lothian
http://dx.doi.org/10.1101/189597 2017-09-15 CC BY Invariant errors reveal limitations in motor correction rather than constraints on error sensitivity Hyosub Kim|John Ryan Morehead|Darius Parvin|Reza Moazzezi|Richard Ivry University of California, Berkeley;|Harvard University;|Berkeley, CA
http://dx.doi.org/10.1101/188979 2017-09-15 CC BY Selenzyme: Enzyme selection tool for pathway design Pablo Carbonell|Jerry Wong|Neil Swainston|Eriko Takano|Nicholas J Turner|Nigel S Scrutton|Douglas B Kell|Rainer Breitling|Jean-Loup Faulon The University of Manchester
http://dx.doi.org/10.1101/188920 2017-09-15 CC BY PlasmidTron: assembling the cause of phenotypes from NGS data Andrew J Page|Alexander Wailan|Yan Shao|Kim Judge|Gordon Dougan|Elizabeth J. Klemm|Nicholas R. Thomson|Jacqueline A. Keane Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/189209 2017-09-15 CC BY-NC-ND Time-conditional properties of branches in coalescent gene trees Alexander Platt Temple University
http://dx.doi.org/10.1101/188094 2017-09-15 CC BY-ND Genetic Diversity Turns a New PAGE in Our Understanding of Complex Traits Genevieve Wojcik|Mariaelisa Graff|Katherine K Nishimura|Ran Tao|Jeffrey Haessler|Christopher R Gignoux|Heather M Highland|Yesha M Patel|Elena P Sorokin|Christy L Avery|Gillian M Belbin|Stephanie A Bien|Iona Cheng|Chani J Hodonsky|Laura M Huckins|Janina Jeff|Anne E Justice|Jonathan M Kocarnik|Unhee Lim|Bridget M Lin|Yingchang Lu|Sarah C Nelson|Sung-Shim L Park|Michael H Preuss|Melissa A Richard|Claudia Schurmann|Veronica W Setiawan|Karan Vahi|Abhishek Vishnu|Marie Verbanck|Ryan Walker|Kristin L Young|Niha Zubair|Jose Luis Ambite|Eric Boerwinkle|Erwin Bottinger|Carlos D Bustamante|Christian Caberto|Matthew P Conomos|Ewa Deelman|Ron Do|Kimberly Doheny|Lindsay Fernandez-Rhodes|Myriam Fornage|Gerardo Heiss|Lucia A Hindorff|Rebecca D Jackson|Regina James|Cecelia A Laurie|Cathy C Laurie|Yuqing Li|Dan-Yu Lin|Girish Nadkarni|Loreall C Pooler|Alexander P Reiner|Jane Romm|Chiara Sabati|Xin Sheng|Eli A Stahl|Daniel O Stram|Timothy A Thornton|Christina L Wassel|Lynne R Wilkens|Sachi Yoneyama|Steven Buyske|Chris Haiman|Charles Kooperberg|Loic Le Marchand|Ruth JF Loos|Tara C Matise|Kari E North|Ulrike Peters|Eimear E Kenny|Christopher S Carlson Stanford University, Stanford, CA;|University of North Carolina at Chapel Hill, Chapel Hill, NC;|Fred Hutchinson Cancer Research Center, Seattle, WA;|Vanderbilt University Medical Center, Nashville, TN;|University of Southern California, Los Angeles, CA;|Icahn School of Medicine at Mount Sinai, New York, NY;|Cancer Prevention Institute of California, Fremont, CA;|University of Hawaii Cancer Center, Honolulu, HI;|University of Washington, Seattle, WA;|The University of Texas Health Science Center, Houston, TX;|Information Sciences Institute, University of Southern California, Marina del Rey, CA;|University of Texas, Houston, TX;|University of Hawaii, Honolulu, HI;|Johns Hopkins University, Baltimore, MD;|NIH National Human Genome Research Institute, Bethesda, MD;|Ohio State Medical Center, Columbus, OH;|NIH National Institute on Minority Health and Health Disparities, Bethesda, MD;|University of Vermont College of Medicine, Burlington, VT;|Rutgers University, New Brunswick, NJ
http://dx.doi.org/10.1101/189621 2017-09-15 Neuroscience ELMOD1 stimulates ARF6-GTP hydrolysis to stabilize apical structures in developing vestibular hair cells Jocelyn F Krey|Rachel A Dumont|Philip A Wilmarth|Larry L David|Kenneth R Johnson|Peter G Barr-Gillespie Oregon Health & Science University;|The Jackson Laboratory
http://dx.doi.org/10.1101/189605 2017-09-15 Cell Biology CC BY-NC-ND Dynamic changes in oligomeric complexes of UPR sensors induced by misfolded proteins in the ER Arunkumar Sundaram|Suhila Appathurai|Malaiyalam Mariappan Yale University
http://dx.doi.org/10.1101/189506 2017-09-15 Neuroscience CC BY-NC-ND Adaptive coding for dynamic sensory inference Wiktor Mlynarski|Ann M Hermundstad Massachusetts Institute of Technology;|Janelia Research Campus, HHMI
http://dx.doi.org/10.1101/189480 2017-09-15 Physiology CC BY-NC-ND The separation of auditory experience and the temporal structure of MEG recorded brain activity Chris Allen Cardiff University
http://dx.doi.org/10.1101/189456 2017-09-15 Developmental Biology CC BY-NC-ND CATaDa reveals global remodelling of chromatin accessibility during stem cell differentiation in vivo Gabriel N Aughey|Alicia Estacio Gomez|Jamie Thomson|Hang Yin|Tony D Southall Imperial College London
http://dx.doi.org/10.1101/189464 2017-09-15 Neuroscience CC BY-NC-ND The brain compass: a perspective on how self-motion updates the head direction cell attractor Jean Laurens|Dora Angelaki Baylor College of Medicine
http://dx.doi.org/10.1101/189522 2017-09-15 Neuroscience CC BY-NC-ND Failure to reactivate salient episodic information during indirect and direct tests of memory retrieval Mason H Price|Jeffrey D Johnson University of Missouri
http://dx.doi.org/10.1101/189571 2017-09-15 Genomics CC BY-NC-ND Transcription factor co-binding patterns drive conserved regulatory outcomes Adam G Diehl|Alan P Boyle University of Michigan
http://dx.doi.org/10.1101/189431 2017-09-15 Bioinformatics CC BY-NC Redkmer: An assembly-free pipeline for the identification of abundant and specific X-chromosome target sequences for X-shredding by CRISPR endonucleases Philippos Aris Papathanos|Nikolai Windbichler University of Perugia;|Imperial College London
http://dx.doi.org/10.1101/189746 2017-09-16 Molecular Biology Sequences enriched in Alu repeats drive nuclear localization of long RNAs in human cells Yoav Lubelsky|Igor Ulitsky Weizmann Institute of Science
http://dx.doi.org/10.1101/189852 2017-09-16 CC BY-ND Dynamic and Depth Dependent Nanomechanical Properties of Dorsal Ruffles in Live Cells and Biopolymeric Hydrogels Varun Vyas|Melani Solomon|Gerard G. M. D'Souza|Bryan D. Huey University of Connecticut;|Pharmaceutical Sciences, Massachusetts College of Pharmacy & Health Sciences
http://dx.doi.org/10.1101/189795 2017-09-16 CC BY Phylogeny-corrected identification of microbial gene families relevant to human gut colonization Patrick H Bradley|Stephen Nayfach|Katherine S Pollard Gladstone Institutes, UCSF;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/189829 2017-09-16 CC BY-NC-ND Post-fire Quercus alba fitness in a stressed plant community Kevin Milla University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/189837 2017-09-16 CC BY-NC-ND Generalised Complementarity Analysis: identifying the most precious places for the conservation of Species, Functional and Phylogenetic Diversity David A Nipperess Macquarie University
http://dx.doi.org/10.1101/189787 2017-09-16 CC BY Large-Scale Analysis of Disease Pathways in the Human Interactome Monica Agrawal|Marinka Zitnik|Jure Leskovec Stanford University
http://dx.doi.org/10.1101/189753 2017-09-16 Ancient exapted transposable elements drive nuclear localisation of lncRNAs Joana Carlevaro-Fita|Monalisa Das|Taisia Polidori|Carmen Navarro|Rory Johnson University of Bern;|University of Granada
http://dx.doi.org/10.1101/189761 2017-09-16 CC BY Evolution and Engineering of Allosteric Regulation in Protein Kinases David Pincus|Jai Pandey|Pau Creixell|Orna Resnekov|Kimberly A Reynolds Whitehead Institute for Biomedical Research;|Koch Cancer Center, MIT;|La Canada Rd;|Green Center for Systems Biology, UTSW
http://dx.doi.org/10.1101/189720 2017-09-16 CC BY-NC-ND Leaf shedding as a bacterial defense in Arabidopsis cauline leaves Osric Rahul Patharkar|Walter Gassmann|John C Walker University of Missouri
http://dx.doi.org/10.1101/190033 2017-09-17 Biochemistry CC BY-NC-ND Unique ATP-cone-driven allosteric regulation of ribonucleotide reductase via the radical-generating subunit Inna Rozman Grinberg|Daniel Lundin|Mahmudul Hasan|Mikael Crona|Venkateswara Rao Jonna|Christoph Loderer|Margareta Sahlin|Natalia Markova|Ilya Borovok|Gustav Berggren|Anders Hofer|Derek T Logan|Britt-Marie Sjoberg Stockholm University;|Lund University;|Umeå University;|Malvern Instruments Inc.;|Tel-Aviv University;|Uppsala University
http://dx.doi.org/10.1101/189878 2017-09-17 Systems Biology CC BY Simulating the Idling Behavior of Escherichia Coli Herbert Weidner Hochschule Aschaffenburg
http://dx.doi.org/10.1101/189944 2017-09-17 Neuroscience Indexing sensory plasticity: Evidence for distinct Predictive Coding and Hebbian Learning mechanisms in the cerebral cortex Meg J Spriggs|Rachael L Sumner|Rebecca L McMillan|Rosalyn J Moran|Ian J Kirk|Suresh D Muthukumaraswamy School of Psychology, The University of Auckland;|School of Pharmacy, The University of Auckland;|Department Engineering Mathematics, University of Bristol
http://dx.doi.org/10.1101/189928 2017-09-17 Bioinformatics CC BY DeepLung: 3D Deep Convolutional Nets for Automated Pulmonary Nodule Detection and Classification Wentao Zhu|Chaochun Liu|Wei Fan|Xiaohui Xie University of California, Irvine;|Baidu Research
http://dx.doi.org/10.1101/161869 2017-09-17 Genetics Mitotic systemic genomic instability in yeast Nadia M. V. Sampaio|Aline Rodrigues Prause|V. P. Ajith|Theodore M. Gurol|Mary J. Chapman|Ewa P. Malc|Parijat Chakraborty|Fabiana M. Duarte|Guadalupe M. Aguirre|Pedro A. Tizei|Goncalo A. G. Pereira|Piotr A. Mieczkowski|Koodali T. Nishant|Juan Lucas Argueso Colorado State University;|Indian Institute of Science Education and Research;|University of North Carolina;|Universidade Estadual de Campinas
http://dx.doi.org/10.1101/189902 2017-09-17 Microbiology CC BY-NC-ND Isolation and identification of enteroviruses from sewage and sewage-contaminated water samples from Ibadan, Nigeria, 2012-2013. Johnson A. Adeniji|Adetunji O. Adewale|TEMITOPE O.C. FALEYE|Moses Olubusuyi O. Adewumi University of Ibadan, Ibadan, Oyo State, Nigeria.;|Ekiti State University, Ado Ekiti, Ekiti, State, Nigeria.
http://dx.doi.org/10.1101/189969 2017-09-17 Neuroscience CC BY-NC-ND On mechanisms of Transcranial Magnetic Stimulation (TMS): How brain state and baseline performance level determine behavioral effects of TMS Juha Silvanto|Silvia Bona|Zaira Cattaneo University of Westminster;|University of Milano-Bicocca
http://dx.doi.org/10.1101/189845 2017-09-17 Genetics CC BY-NC-ND Functional Difference of Mitochondrial Genome and Its Association with Traits of Common Complex Diseases in Humans Young Min Cho|Kyong Soo Park|Youngmi Pak|Masashi Tanaka|Hong Kyu Lee Seoul National University;|Kyung Hee University;|Tokyo Metropolitan Geriatric Hospital;|Eulji University
http://dx.doi.org/10.1101/189233 2017-09-17 Cancer Biology CC BY-NC-ND In-depth characterization of the cisplatin mutational signature in a human cell line and in esophageal and liver tumors Arnoud Boot|Mini Huang|Alvin Wei Tian Ng|Yoshiiku Kawakami|Kazuaki Chayama|Bin Tean Teh|Hidewaki Nakagawa|Steven G Rozen Duke-NUS Medical School;|Duke-NUS medical school;|Hiroshima University School of Medicine;|National Cancer Centre Singapore;|RIKEN Center for Integrative Medical Sciences
http://dx.doi.org/10.1101/189985 2017-09-17 Neuroscience CC BY-NC-ND What's Up: an assessment of Causal Inference in the Perception of Verticality Ksander Nikolas de Winkel|Mikhail Katliar|Daniel Diers|Heinrich H Buelthoff Max Planck Institute for Biological Cybernetics;|Max Plnack Institute for BIological Cybernetics
http://dx.doi.org/10.1101/189738 2017-09-17 Evolutionary Biology Insights into Origin and Evolution of α-proteobacterial Gene Transfer Agents Migun Shakya|Shannon M Soucy|Olga Zhaxybayeva Dartmouth College
http://dx.doi.org/10.1101/190322 2017-09-18 The virome of Drosophila suzukii, an invasive pest of soft fruit Nathan C Medd|Simon Fellous|Madoka Nakai|Anne Xuereb|Jerry V Cross|Darren J Obbard University of Edinburgh;|INRA;|Tokyo University of Agriculture and Technology;|NIAB-EMR
http://dx.doi.org/10.1101/190223 2017-09-18 Bioinformatics CC BY-NC METHimpute: Imputation-guided construction of complete methylomes from WGBS data Aaron Sebastian Taudt|David Roquis|Amaryllis Vidalis|Rene Wardenaar|Frank Johannes|Maria Colome Tatche European Research Institute for the Biology of Ageing (ERIBA);|Department of Plant Sciences, Hans Eisenmann-Zentrum for Agricultural Sciences, TU Munich;|Institute of Computational Biology, Helmholtz Zentrum Munich, Germany
http://dx.doi.org/10.1101/190199 2017-09-18 Bioinformatics CC BY Gene-level differential analysis at transcript-level resolution Lynn Yi|Harold Pimentel|Nicolas L. Bray|Lior Pachter Caltech;|Stanford University;|Berkeley
http://dx.doi.org/10.1101/190165 2017-09-18 Genetics CC BY-NC-ND Association between alcohol consumption and Alzheimer's disease: A Mendelian Randomization Study Shea J Andrews|Kaarin J Anstey Australian National University
http://dx.doi.org/10.1101/190173 2017-09-18 Plant Biology The ERA-related GTPase AtERG2 associated with mitochondria 18S RNA is essential for early embryo development in Arabidopsis Pengyu Cheng|Hongjuan Li|Linlin Yuan|Huiyong Li|Lele Xi|Junjie Zhang|Jin Liu|Yingdian Wang|Heping Zhao|Huixin Zhao|Shengcheng Han Beijing Normal University;|Xinjiang Normal University
http://dx.doi.org/10.1101/190215 2017-09-18 Biochemistry RecBCD possesses strong coupling between DNA and nucleotides binding that may propel stepping mechanism during translocation Vera Gaydar|Rani Zananir|Or Dvir|Ariel Kaplan|Arnon Henn Technion-Israel Institute of Technology
http://dx.doi.org/10.1101/190108 2017-09-18 Neuroscience CC BY-NC-ND Understanding short-term interactions between arousal and attention in infants and children: applying the Aston-Jones framework. Sam Wass University of East London
http://dx.doi.org/10.1101/190041 2017-09-18 Bioinformatics CC BY-NC-ND Inferring demographic parameters in bacterial genomic data using Bayesian and hybrid phylogenetic methods Sebastian Duchene|David Duchene|Jemma Geoghegan|Zoe Anne Dyson|Jane Hawkey|Kathryn E Holt University of Melbourne;|University of Sydney;|Macquarie University
http://dx.doi.org/10.1101/190157 2017-09-18 Bioinformatics CC BY-NC-ND A closer look at cross-validation for assessing the accuracy of gene regulatory networks and models Shayan Tabe-Bordbar|Amin Emad|Sihai Dave Zhao|Saurabh Sinha University of Illinois at Urbana-Champaign;|Department of Statistics, University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/189803 2017-09-18 Evolutionary Biology CC BY-NC-ND Pervasive contingency and entrenchment in a billion years of Hsp90 evolution Tyler N. Starr|Julia M. Flynn|Parul Mishra|Daniel N.A. Bolon|Joseph W Thornton University of Chicago;|University of Massachusetts Medical School, Wooster
http://dx.doi.org/10.1101/190231 2017-09-18 Bioinformatics CC BY-NC-ND An extensive enhancer-promoter map generated by genome-scale analysis of enhancer and gene activity patterns Tom Aharon Hait|David Amar|Ron Shamir|Ran Elkon Tel Aviv University;|Stanford University
http://dx.doi.org/10.1101/186445 2017-09-17 Neuroscience CC BY-NC-ND Single-cell transcriptomic profiling of progenitors of the oligodendrocyte lineage reveals transcriptional convergence during development Sueli Marques|Darya Vanichkina|David van Bruggen|Elisa Floriddia|Hermany Munguba|Leif Varemo|Stefania Giacomello|Ana Mendanha Falcao|Mandy Meijer|S Samudyata|Simone Codeluppi|Asa Bjorklund|Sten Linnarsson|Jens Hjerling-Leffler|Ryan Taft|Goncalo Castelo-Branco Karolinska Institutet;|Gene and Stem Cell Therapy Program, Centenary Institute, University of Sydney, Australia;|Science for Life Laboratory;|Institute for Molecular Bioscience, University of Queensland, Australia
http://dx.doi.org/10.1101/190140 2017-09-17 Cancer Biology CC BY-ND Nonlinear dynamical shaping of the fitness landscape of an evolving tumor to combat competitive release Jeffrey West|Yongqian Ma|Paul K Newton H. Lee Moffitt Cancer Center & Research Institute;|University of Southern California
http://dx.doi.org/10.1101/189373 2017-09-17 Cell Biology CC BY-NC-ND Correlative live and super-resolution imaging reveals the dynamic structure of replication domains Wanqing Xiang|M. Julia Roberti|Jean-Karim Heriche|Sebastian Huet|Stephanie Alexander|Jan Ellenberg European Molecular Biology Laboratory;|Leica Microsystems;|Universite de Rennes 1
http://dx.doi.org/10.1101/190538 2017-09-18 Receptor-mediated Drp1 oligomerization on endoplasmic reticulum Wei-Ke Ji|Rajarshi Chakrabarti|Xintao Fan|Lori Schoenfeld|Stefan Strack|Henry N. Higgs Geisel School of Medicine at Dartmouth;|Carver School of Medicine, University of Iowa
http://dx.doi.org/10.1101/190348 2017-09-18 CC BY-NC ABLE: an Activity-Based Level Set Segmentation Algorithm for Two-Photon Calcium Imaging Data Stephanie Reynolds|Therese Abrahamsson|Renaud Schuck|P. Jesper Sjostrom|Simon R Schultz|Pier Luigi Dragotti Imperial College London;|The Research Institute of the McGill University Health Centre
http://dx.doi.org/10.1101/190363 2017-09-18 Differential distribution of Neandertal genomic signatures in human mitochondrial haplogroups Renata C Ferreira|Camila R Rodrigues|James R Broach|Marcelo RS Briones Federal University of Sao Paulo, Brazil;|Pennsylvania State University
http://dx.doi.org/10.1101/190124 2017-09-18 Accurate Genomic Prediction Of Human Height Louis Lello|Steven G Avery|Laurent Tellier|Ana Vazquez|Gustavo de los Campos|Stephen D. H. Hsu Michigan State University;|Cognitive Genomics Laboratory, BGI
http://dx.doi.org/10.1101/190389 2017-09-18 CC BY-NC-ND A Yeast Global Genetic Screen Reveals that Metformin Induces an Iron Deficiency-Like State Bram Stynen|Diala Abd-Rabbo|Jacqueline Kowarzyk|Leonor Miller-Fleming|Markus Ralser|Stephen Michnick Université de Montréal;|University of Cambridge
http://dx.doi.org/10.1101/190397 2017-09-18 Modified penetrance of coding variants by cis-regulatory variation shapes human traits Stephane E Castel|Alejandra Cervera|Pejman Mohammadi|Francois Aguet|Ferran Reverter|Aaron Wolman|Roderic Guigo|Ana Vasileva|Tuuli Lappalainen New York Genome Center, NY, USA;|University of Helsinki, Finland;|New York Genome Center, NY;|Broad Institute of MIT and Harvard, Cambridge, USA;|Centre for Genomic Regulation, Barcelona, Spain
http://dx.doi.org/10.1101/190454 2017-09-18 Identifying structural variants using linked-read sequencing data Rebecca Elyanow|Hsin-Ta Wu|Benjamin J Raphael Brown University;|Princeton University
http://dx.doi.org/10.1101/190264 2017-09-18 CC BY Deciphering cell lineage specification during male sex determination with single-cell RNA sequencing Isabelle Stevant|Yasmine Neirijnck|Christelle Borel|Jessica Escoffier|Lee B Smith|Stylianos E Antonarakis|Emmanouil T Dermitzakis|Serge Nef University of Geneva;|University of Grenoble;|University of Edinburgh
http://dx.doi.org/10.1101/187591 2017-09-18 Epidemiology CC BY-NC-ND Preliminary results of models to predict areas in the Americas with increased likelihood of Zika virus transmission in 2017. Jason Asher|Christopher Barker|Grace Chen|Derek Cummings|Matteo Chinazzi|Shelby Daniel-Wayman|Marc Fischer|Neil Ferguson|Dean Follman|M. Elizabeth Halloran|Michael Johansson|Kiersten Kugeler|Jennifer Kwan|Justin Lessler|Ira M. Longini|Stefano Merler|Andrew Monaghan|Ana Pastore y Piontti|Alex Perkins|D. Rebecca Prevots|Robert Reiner|Luca Rossi|Isabel Rodriguez-Barraquer|Amir S. Siraj|Kaiyuan Sun|Alessandro Vespignani|Qian Zhang Biomedical Advanced Research and Development Authority, Washington, DC, USA;|University of California, Davis, California, USA;|National Institutes of Health, Bethesda, MD;|Johns Hopkins, Bloomberg School of Public Health, MD, USA; University of Florida, FL, USA;|Northeastern University, Boston, Massachusetts, USA;|National Institutes of Health, Bethesda, MD, USA;|Centers for Disease Control and Prevention, Fort Collins, Colorado and San Juan, Puerto Rico, USA;|Imperial College, London, UK;|Fred Hutchinson Center, Seattle, WA, USA; University of Washington, Seattle, Washington, USA;|Institutes of Health, Bethesda, MD, USA;|Johns Hopkins, Bloomberg School of Public Health, Baltimore, Maryland, USA;|University of Florida, Gainesville, Florida, USA;|Bruno Kessler Foundation, Trento, Italy;|National Center for Atmospheric Research, Boulder, Colorado, USA;|University of Notre Dame, Notre Dame, Indiana, USA;|Institute for Scientific Interchange Foundation, Turin, Italy;|Johns Hopkins, Bloomberg School of Public Health, MD, USA; University of California, CA,USA;|University of California, San Francisco, California, USA
http://dx.doi.org/10.1101/189225 2017-09-18 Epidemiology CC BY-NC-ND Sociodemographic patterning in the oral microbiome of a diverse sample of New Yorkers Audrey Renson|Heidi E Jones|Francesco Beghini|Nicola Segata|Christine Zolnik|Mykhaylo Usyk|Lorna Thorpe|Robert Burk|Levi D Waldron|Jennifer B Dowd CUNY School of Public Health;|Centre for Integrative Biology, University of Trento, Trento, Italy;|Albert Einstein College of Medicine; Long Island University;|Albert Einstein College of Medicine;|NYU School of Medicine, Department of Population Health;|Kings College London, Department of Global Health and Social Medicine
http://dx.doi.org/10.1101/186833 2017-09-18 Epidemiology CC BY-NC-ND Two diseases, same person: moving towards a combined HIV and TB continuum of care Reuben Granich|Somya Gupta Independent Public Health Consultant
http://dx.doi.org/10.1101/190447 2017-09-18 Neuroscience CC BY-NC-ND A brain wide circuit model of heat evoked swimming behavior in larval zebrafish Martin Haesemeyer|Drew N Robson|Jennifer M Li|Alexander F Schier|Florian Engert Harvard University;|The Rowland Institute at Harvard
http://dx.doi.org/10.1101/190314 2017-09-18 Microbiology The differentially expressed translationally controlled tumor proteins TCTP1 and TCTP2 in Trypanosoma brucei Borka Jojic|Simona Amodeo|Torsten Ochsenreiter Institute of Cell Biology, University of Bern, Switzerland;|Insitute of Cell Biology, University of Bern, Switzerland
http://dx.doi.org/10.1101/190280 2017-09-18 Bioinformatics CC BY-ND k-mer Distributions of Aminoacid Sequences are Optimised Across the Proteome Alexey Anatolievich Morozov LIN SB RAS
http://dx.doi.org/10.1101/190272 2017-09-18 Animal Behavior and Cognition CC BY Effect of vertical slit turbulence on metabolism and swimming behavior of juvenile grass carp (ctenopharyngodon idella) Xi Yuan|Qing Jiang|Xu Meng|Zhiying Tu|Yihong Zhou|Yingping Huang College of Hydraulic Environmental Engineering, Three Gorges University;|College of Hydraulic Environmental Engineering,Three Gorges University;|Three Gorges University
http://dx.doi.org/10.1101/190421 2017-09-18 Microbiology CC BY Methods matter: Influential purification and analysis parameters for intracellular parasite metabolomics Maureen A. Carey|Vincent Covelli|Audrey Brown|Jessica G. Cooper|Jennifer L. Guler University of Virginia;|Providence-St. Joseph Health;|University of Delaware
http://dx.doi.org/10.1101/189027 2017-09-18 Molecular Biology CC BY-NC-ND An "invisible" ubiquitin conformation is required for efficient phosphorylation by PINK1 Christina Gladkova|Alexander F. Schubert|Jane L. Wagstaff|Jonathan N. Pruneda|Stefan M.V. Freund|David Komander Medical Research Council Laboratory of Molecular Biology
http://dx.doi.org/10.1101/190413 2017-09-18 Ecology Symbiodinium functional diversity and clade specificity under global change stressors Sarah W. Davies|Justin B Ries|Adrian Marchetti|Rafaela Granzotti|Karl D Castillo Boston University;|Northeastern University;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/190439 2017-09-18 Genetics CC BY-NC-ND Genetic interactions between the chromosome axis-associated protein Hop1 and homologous recombination determinants in Schizosaccharomyces pombe Simon David Brown|Olga Dorota Jarosinska|Alexander Lorenz University of Aberdeen
http://dx.doi.org/10.1101/190249 2017-09-18 Genetics CC BY-NC-ND Coalescent theory of migration network motifs Nicolas Alcala|Amy Goldberg|Uma Ramakrishnan|Noah A Rosenberg Stanford University;|National Centre for Biological Sciences, Bangalore
http://dx.doi.org/10.1101/190488 2017-09-19 A Cdk9-PP1 switch regulates the elongation-termination transition of RNA polymerase II Pabitra K Parua|Gregory T Booth|Miriam Sanso|Bradley Benjamin|Jason C Tanny|John T Lis|Robert P Fisher Icahn School of Medicine at Mount Sinai;|Cornell University;|McGill University
http://dx.doi.org/10.1101/190355 2017-09-19 Neuroscience CC BY-NC-ND Structural priming is supported by different components of non-declarative memory: Evidence from priming across the lifespan Evelien Heyselaar|Linda Wheeldon|Katrien Segaert Max Planck Institute for Psycholinguistics;|University of Agder;|University of Birmingham
http://dx.doi.org/10.1101/190207 2017-09-19 Neuroscience CC BY-NC-ND A blood-based signature of cerebral spinal fluid Aβ1-42 status Benjamin Goudey|Bowen J Fung|Christine Schrieber|Noel G Faux IBM Research -- Australia;|School of Psychological Sciences, The University of Melbourne.
http://dx.doi.org/10.1101/190462 2017-09-19 Neuroscience CC BY-NC-ND Limitations of compensatory plasticity: the organization of the primary sensorimotor cortex in foot-using bilateral upper limb dysplasics Ella Striem-Amit|Gilles Vannuscorps|Alfonso Caramazza Harvard University
http://dx.doi.org/10.1101/190504 2017-09-19 Neuroscience CA2 Neuronal Activity Controls Hippocampal Oscillations and Social Behavior Georgia Alexander|Logan Brown|Shannon Farris|Daniel Lustberg|Caroline Pantazis|Bernd Gloss|Nicholas Plummer|Natallia Riddick|Sheryl Moy|Patricia Jensen|Serena Dudek National Institute of Environmental Health Sciences/NIH;|Brain Health Institute, Rutgers University;|University of North Carolina School of Medicine
http://dx.doi.org/10.1101/190470 2017-09-19 Neuroscience CC BY-NC-ND Using spatiotemporal source separation to identify prominent features in multichannel data without sinusoidal filters Michael X Cohen Radboud University
http://dx.doi.org/10.1101/190553 2017-09-19 Cancer Biology CC BY-NC-ND Harnessing the adaptive potential of mechanoresponsive proteins to overwhelm pancreatic cancer dissemination and invasion Alexandra Surcel|Eric S Schiffhauer|Dustin Thomas|Qingfeng Zhu|Kathleen DiNapoli|Maik Herbig|Oliver Otto|Jochen Guck|Elizabeth Jaffee|Pablo Iglesias|Robert Anders|Douglas Robinson Johns Hopkins University School of Medicine;|Biotechnology Center, TU Dresden;|Johns Hopkins University
http://dx.doi.org/10.1101/190603 2017-09-19 Biochemistry CC BY-NC-ND RNA binding and HEPN nuclease activation are decoupled in CRISPR-Cas13a Akshay Tambe|Alexandra East-Seletsky|Gavin J Knott|Jennifer A Doudna|Mitchell R O'Connell University of California, Berkeley;|University of Rochester
http://dx.doi.org/10.1101/188672 2017-09-19 Evolutionary Biology Integration of anatomy ontologies and Evo-Devo using structured Markov chains suggests a new framework for modeling discrete phenotypic traits Sergei Tarasov National Institute for Mathematical & Biological Synthesis (NIMBioS)
http://dx.doi.org/10.1101/190520 2017-09-19 Molecular Biology CC BY-NC-ND Big trouble with little inserts: boundaries in metagenomic screenings using lacZα based vectors Luana de Fatima Alves|Tiago Cabral Borelli|Caua Antunes Westmann|Rafael Silva-Rocha|Maria-Eugenia Guazzaroni University of Sao Paulo - FMRP;|University of Sao Paulo - FFCLRP;|University of Sao Paulo-FFCLRP
http://dx.doi.org/10.1101/190546 2017-09-19 Systems Biology CC BY-NC-ND Functional genomics of lipid metabolism in the oleaginous yeast Rhodosporidium toruloides Samuel Coradetti|Dominic Pinel|Gina Geiselman|Masakazu Ito|Stephen Mondo|Morgann Reilly|Ya-Fang Cheng|Stefan Bauer|Igor Grigoriev|John Gladden|Blake Simmons|Rachel Brem|Adam Arkin|Jeffrey Skerker Buck Institute;|University of California, Berkeley;|US DOE, Joint Genome Institute;|US DOE, Joint BioEnergy Institute;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/190595 2017-09-19 Neuroscience CC BY-NC-ND The hidden spatial dimension of alpha: 10 Hz perceptual echoes propagate as periodic travelling waves in the human brain. Rufin VanRullen|Diego Lozano-Soldevilla Centre de Recherche Cerveau et Cognition
http://dx.doi.org/10.1101/190405 2017-09-19 Physiology Diminished dynamic cerebral autoregulatory capacity with forced oscillations in mean arterial pressure with elevated cardiorespiratory fitness Lawrence Labrecque|Kevan Rahimaly|Sarah Imhoff|Myriam Paquette|Olivier Le Blanc|Simon Malenfant|Samuel JE Lucas|Damian M. Bailey|Jonathan D Smirl|Patrice Brassard Laval University;|University of Birmingham;|University of South Wales;|University of British Columbia
http://dx.doi.org/10.1101/190116 2017-09-19 Neuroscience Progression of regional grey matter atrophy in multiple sclerosis Arman Eshaghi|Razvan V. Marinescu|Alexandra L. Young|Nicholas C. Firth|Ferran Prados|M Jorge Cardoso|Carmen Tur|Floriana De Angelis|Niamh Cawley|Wallace Brownlee|Nicola De Stefano|M. Laura Stromillo|Marco Battaglini|Serena Ruggieri|Claudio Gasperini|Massimo Filippi|Maria A. Rocca|Alex Rovira|Jaume Sastre-Garriga|Jeroen Geurts|Hugo Vrenken|Viktor Wottschel|Cyra E Leurs|Bernard Uitdehaag|Lukas Pirpamer|Christian Enzinger|Sebastien Ourselin|Claudia A.G. Wheeler-Kingshott|Declan Chard|Alan J Thompson|Frederik Barkhof|Daniel C. Alexander|Olga Ciccarelli University College London;|University of Siena;|University of Rome Sapienza;|Vita-Salute San Raffaele University;|Universitat Autonoma de Barcelona;|VU University Medical Center;|Medical University of Graz
http://dx.doi.org/10.1101/190066 2017-09-19 Genomics CC BY-NC-ND Recent African gene flow responsible for excess of old rare genetic variation in Great Britain Alexander Platt|Jody Hey Temple University
http://dx.doi.org/10.1101/191007 2017-09-19 CC BY Progressive change in killer-like receptor and GPR56 expression defines cytokine production of human CD4+ T memory cells Kim-Long Truong|Stephan Schlickeiser|Katrin Vogt|David Boes|Julia Schumann|Christine Appelt|Mathias Streitz|Gerald Grutz|Christian Meisel|Stefan Tomiuk|Julia Polansky|Andreas Pascher|Igor Sauer|Undine Gerlach|Birgit Sawitzki Charité - Universitätsmedizin Berlin;|Milteny Biotec GmbH;|Charité - Universitätsmedizin
http://dx.doi.org/10.1101/191098 2017-09-19 Structured illumination to spatially map chromatin motions Keith Bonin|Amanda Smelser|Naike Salvador-Moreno|George Holzwarth|Kevin Wang|Preston Levi|Pierre-Alexandre Vidi Wake Forest University;|Wake Forest University Health Sciences;|Waker Forest University
http://dx.doi.org/10.1101/187179 2017-09-19 CC BY-NC-ND Loss of generalist plant species and functional diversity decreases the robustness of a seed dispersal network Vinicius A. G. Bastazini|Vanderlei J. Debastiani|Bethania O. Azambuja|Paulo R. Guimaraes|Valerio D. Pillar Theoretical and Experimental Ecology Station, CNRS-UPSU;|Universidade Federal do Rio Grande do Sul;|Universidade de Sao Paulo
http://dx.doi.org/10.1101/191080 2017-09-19 Bioinformatics CC BY-NC-ND Testing the moderation of quantitative gene by environment interactions in unrelated individuals Rasool Tahmasbi|Luke M Evans|Eric Turkheimer|Matthew C. Keller University of Colorado, Boulder;|University of Virginia
http://dx.doi.org/10.1101/190967 2017-09-19 Plant Biology CC BY-NC-ND Functional Modeling of Plant Growth Dynamics Yuhang Xu|Yumou Qiu|James Schnable University of Nebraska
http://dx.doi.org/10.1101/191106 2017-09-19 Evolutionary Biology CC BY-NC-ND Stability of subsystem solutions in agent-based models Matjaz Perc University of Maribor
http://dx.doi.org/10.1101/190793 2017-09-19 Animal Behavior and Cognition Precopulatory behavior and sexual conflict in the desert locust Yftach Golov|Jan Rillich|Ally Harari|Amir Ayali Tel Aviv University;|Volcani Center
http://dx.doi.org/10.1101/190686 2017-09-19 Systems Biology CC BY-NC-ND The Cell-Cycle Transcriptional Network Generates and Transmits a Pulse of Transcription Once Each Cell Cycle Chun-Yi Cho|Christina M. Kelliher|Steven B. Haase Duke University
http://dx.doi.org/10.1101/190694 2017-09-19 Bioinformatics CC BY-NC-ND Superior ab initio Identification, Annotation and Characterisation of TEs and Segmental Duplications from Genome Assemblies. LU ZENG|R Daniel Kortschak|Joy M Raison|Terry Bertozzi|David L Adelson The University of Adelaide;|Evolutionary Biology Unit, South Australian Museum
http://dx.doi.org/10.1101/190702 2017-09-19 Microbiology Loss of bone marrow cells including CD34+ cells following CCR5-tropic HIV-1 infection of humanized NOD/SCID/JAK3null mice and partial protection of those cells by a promotor-targeting shRNA Tetsuo Tsukamoto Kindai University Faculty of Medicine
http://dx.doi.org/10.1101/190728 2017-09-19 Plant Biology CC BY-NC-ND The partial duplication of an E3-ligase gene in Triticeae species mediates resistance to powdery mildew fungi Jeyaraman Rajaraman|Dimitar Douchkov|Stefanie Lueck|Goetz Hensel|Daniela Nowara|Maria Pogoda|Twan Rutten|Tobias Meitzel|Caroline Hoefle|Ralph Hueckelhoven|Joern Klinkenberg|Marco Trujillo|Eva Bauer|Thomas Schmutzer|Axel Himmelbach|Martin Mascher|Barbara Lazzari|Nils Stein|Jochen Kumlehn|Patrick Schweizer Leibniz Institute of Plant Genetics and Crop Plant Research;|Technical University of Munich;|Leibniz Institute of Plant Biochemistry;|IPK Gatersleben;|Parco Technologico Padano
http://dx.doi.org/10.1101/190710 2017-09-19 Physiology Effects of regional differences on the urinary proteomes of healthy Chinese individuals Jianqiang Wu|Weiwei Qin|Li Pan|Fanshuang Zhang|Xiaorong Wang|Biao Zhang|Guangliang Shan|Youhe Gao Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences;|Beijing Normal University
http://dx.doi.org/10.1101/191049 2017-09-19 Cell Biology C. elegans DBL-1/BMP Regulates Lipid Accumulation via Interaction with Insulin Signaling James Clark|Michael Meade|Gehan Ranepura|David H Hall|Cathy Savage-Dunn Queens College and the Graduate Center, CUNY;|Queens College, CUNY;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/190975 2017-09-19 Neuroscience Microglia remodel synapses by presynaptic trogocytosis and spine head filopodia induction Laetitia Weinhard|Urte Neniskyte|Giulia di Bartolomei|Giulia Bolasco|Pedro Machado|Nicole Schieber|Melanie Exiga|Auguste Vadisiute|Angelo Raggioli|Andreas Schertel|Yannick Schwab|Cornelius T. Gross Epigenetics & Neurobiology Unit, European Molecular Biology Laboratory (EMBL), Italy;|Electron Microscopy Core Facility, European Molecular Biology Laboratory (EMBL), Germany;|Cell Biology and Biophysics Unit, European Molecular Biology Laboratory (EMBL), Germany;|Carl Zeiss Microscopy GmbH, ZEISS Group, Carl-Zeiss-Str. 22, 73447 Oberkochen, Germany
http://dx.doi.org/10.1101/190892 2017-09-19 Genomics CC BY Integration of human pancreatic islet genomic data refines regulatory mechanisms at Type 2 Diabetes susceptibility loci Matthias Thurner|Martijn van de Bunt|Kyle Gaulton|Amy Barrett|Amanda J Bennett|Jason M Torres|Vibe Nylander|Anubha Mahajan|Christopher G Bell|Robert Lowe|Stephan Beck|Vardhman K Rakyan|Anna L Gloyn|Mark I McCarthy University of Oxford;|University of California, San Diego;|Kings College London and University of Southampton;|Barts and The London School of Medicine and Dentistry;|University College London;|University of Oxford and Oxford NIHR Biomedical Research Centre
http://dx.doi.org/10.1101/190751 2017-09-19 Biochemistry Biogenesis of a mitochondrial DNA inheritance machinery in the mitochondrial outer membrane Andre Schneider|Sandro Kaser|Mathilde Willemin|Felix Schnarwiler|Bernd Schimanski|Daniel Poveda Huertes|Silke Oeljeklaus|Bettina Warscheid|Chris Meisinger University of Bern;|University of Freiburg
http://dx.doi.org/10.1101/191031 2017-09-19 Immunology CC BY-NC A novel combination of cyclophosphamide and anti-ICOS mAb prevents tumor growth by affecting regulatory T cells in mice with a human immune system Aude Burlion|Rodrigo Ramos|Kelhia Sendeyo|Aurelien Corneau|Christine Caux|Eliane Piaggio|Christophe Caux|gilles marodon Universite Pierre et Marie Curie/INSERM/CNRS;|Institut Curie;|Universite Pierre et Marie Curie;|Universite Claude Bernard/INSERM;|Institt Curie
http://dx.doi.org/10.1101/190744 2017-09-19 Microbiology CC BY-NC-ND Cryo-EM reconstruction of AlfA from Bacillus subtilis reveals the structure of a simplified actin-like filament at 3.4 Å resolution Andrzej Szewczak-Harris|Jan Lowe MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/190843 2017-09-19 Evolutionary Biology CC BY-NC-ND The gateway into Remote Oceania: new insights from genome-wide data Irina Pugach|Ana T. Duggan|D. Andrew Merriwether|Francoise R. Friedlaender|Jonathan S. Friedlaender|Mark Stoneking Max Planck Institute for Evolutionary Anthropology, Department of Evolutionary Genetics;|McMaster University, Department of Anthropology;|Department of Anthropology, Binghamton University;|Department of Anthropology, Temple University;|Department of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology
http://dx.doi.org/10.1101/190959 2017-09-19 Genetics CC BY-NC Genome-scale transcriptional regulatory network models of psychiatric and neurodegenerative disorders Jocelynn R Pearl|Dani E Bergey|Cory C Funk|Bijoya Basu|Rediet Oshone|Paul Shannon|Leroy Hood|Nathan D Price|Carlo Colantuoni|Seth A Ament University of Washington;|Institute for Systems Biology;|University of Maryland School of Medicine
http://dx.doi.org/10.1101/190926 2017-09-19 Bioinformatics CC BY Efficient management and analysis of large-scale genome-wide data with two R packages: bigstatsr and bigsnpr Florian Prive|Hugues Aschard|Michael G. B. Blum Universite Grenoble Alpes;|Institut Pasteur
http://dx.doi.org/10.1101/190934 2017-09-19 Bioinformatics CC BY-NC Recentrifuge: robust comparative analysis and contamination removal for metagenomic data Jose Manuel Marti Institute for Integrative Systems Biology (I2SysBio)
http://dx.doi.org/10.1101/190918 2017-09-19 Evolutionary Biology CC BY-NC-ND Effects of multiple sources of genetic drift on pathogen variation within hosts David Kennedy|Greg Dwyer The Pennsylvania State University;|University of Chicago
http://dx.doi.org/10.1101/190900 2017-09-19 Microbiology CC BY-NC Decoupling of the nuclear division cycle and cell size control in the coenocytic cycle of the ichthyosporean Sphaeroforma arctica Andrej Ondracka|Inaki Ruiz-Trillo Institut de Biologia Evolutiva (CSIC-Universitat Pompeu Fabra), Passeig Maritim de la Barceloneta 37
http://dx.doi.org/10.1101/190991 2017-09-19 Neuroscience CC BY-NC-ND The foraging perspective on economic choice Benjamin Hayden University of Minnesota
http://dx.doi.org/10.1101/190868 2017-09-19 Synthetic Biology Gene synthesis allows biologists to source genes from farther away in the tree of life Aditya Kunjapur|Philipp Pfingstag|Neil C Thompson Harvard Medical School;|School of Management, Technical University of Munich, Munich, Germany;|Sloan School of Management, Massachusetts Institute of Technology, Cambridge, MA, USA
http://dx.doi.org/10.1101/191064 2017-09-19 Cancer Biology CC BY Curated compendium of human transcriptional biomarker data Nathan P Golightly|Anna I Bischoff|Avery Bell|Parker D Hollingsworth|Stephen R Piccolo Brigham Young University, Department of Biology
http://dx.doi.org/10.1101/190769 2017-09-19 Evolutionary Biology CC BY-NC Evolutionary rate shifts suggest species-specific adaptation events in HIV-1 and SIV Maoz Gelbart|Adi Stern Tel Aviv University
http://dx.doi.org/10.1101/190801 2017-09-19 Animal Behavior and Cognition CC BY-NC-ND Retrosplenial cortex and its role in spatial cognition Anna S Mitchell|Rafa Czajkowski|Ningyu Zhang|Kate Jeffery|Andrew Nelson University of Oxford;|Nencki Institute;|University College London;|Cardiff University
http://dx.doi.org/10.1101/190678 2017-09-19 Neuroscience CC BY Untangling Sequences: Behavior vs. External Causes Subutai Ahmad|Jeff Hawkins Numenta, Inc.
http://dx.doi.org/10.1101/190652 2017-09-19 Cell Biology Simultaneously measuring image features and resolution in live-cell STED images Andrew E. S. Barentine|Lena K. Schroeder|Michael Graff|David Baddeley|Joerg Bewersdorf Yale University;|University of Auckland
http://dx.doi.org/10.1101/190660 2017-09-19 Neuroscience Brain-behavior patterns define a dimensional biotype in medication-naïve adults with attention-deficit hyperactivity disorder Hsiang-Yuan Lin|Luca Cocchi|Andrew Zalesky|Jinglei Lv|Alistair Perry|Wen-Yih Isaac Tseng|Prantik Kundu|Michael Breakspear|Susan Shur-Fen Gau National Taiwan University Hospital and College of Medicine, Taipei, Taiwan;|QIMR Berghofer Medical Research Institute, Brisbane, Queensland, Australia;|The University of Melbourne, Melbourne, Victoria, Australia;|National Taiwan University College of Medicine, Taipei, Taiwan;|Icahn School of Medicine at Mount Sinai, New York, NY, USA
http://dx.doi.org/10.1101/190587 2017-09-19 Microbiology The Cryptococcus neoformans Titan cell is an inducible and regulated morphotype underlying pathogenesis Ivy M Dambuza|Thomas Drake|Ambre Chapuis|Leanne Taylor-Smith|Nathalie LeGrave|Tim Rasmussen|Matthew C Fisher|Tihana Bicanic|Thomas S Harrison|Marcel Jaspars|Robin C May|Gordon D Brown|Raif Yuecel|Donna M MacCallum|Elizabeth R Ballou University of Aberdeen, Institute of Medical Sciences;|University of Birmingham, School of Biosciences;|University of Aberdeen;|Universitat Wurzburg;|Imperial College London;|St. George's University of London;|University of Birmingham
http://dx.doi.org/10.1101/190827 2017-09-19 Animal Behavior and Cognition Genetic differences in the behavioral organization of binge eating, conditioned food reward, and compulsive-like eating in C57BL/6J and DBA/2J strains Richard K Babbs|Julia C Kelliher|Julia L Scotellaro|Neema Yazdani|Qiu T Ruan|Megan K Mulligan|Camron D Bryant Laboratory of Addiction Genetics, Boston University School of Medicine;|Boston University Undergraduate Research Opportunity Program (UROP);|NIGMS Training Program in Biomolecular Pharmacology, Boston University School of Medicine;|Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center
http://dx.doi.org/10.1101/190819 2017-09-19 Bioengineering Effects of mechanical loading on cortical defect repair using a novel mechanobiological model of bone healing Chao Liu|Robert Carrera|Vittoria Flamini|Lena Kenny|Pamela Cabahug-Zuckerman|Benson George|Daniel Hunter|Bo Liu|Gurpreet Singh|Philipp Leucht|Kenneth A Mann|Jill A Helms|Alesha B Castillo New York University;|Stanford University;|SUNY Upstate Medical University
http://dx.doi.org/10.1101/190835 2017-09-19 Biochemistry Out-of-Register Aβ42 Assemblies as Models for Neurotoxic Oligomers and Fibrils Wenhui Xi|Elliott Vanderford|Ulrich Hansmann University of Oklahoma
http://dx.doi.org/10.1101/190785 2017-09-19 Molecular Biology CC BY-NC-ND MULTILOCUS SEQUENCE TYPING REVEALS A UNIQUE CO-DOMINANT POPULATION STRUCTURE OF CRYPTOCOCCUS NEOFORMANS VAR. GRUBII IN VIETNAM Thanh Tuan Lam|Trieu Hai Phan|Sayaphet Rattanavong|Trinh Mai Nguyen|Anh Van Duong|Cherrelle Dacon|Thu Nha Hoang|Lan Phu Huong Nguyen|Chau Thi Hong Tran|Viengmon Davong|Chau Van Vinh Nguyen|Guy E. Thwaites|Maciej F. Boni|David Dance|Philip M. Ashton|Jeremy N Day Oxford University Clinical Research Unit;|Laos-Oxford-Mahosot Hospital Wellcome Trust Research Unit;|Sir William Dunn School of Pathology, University of Oxford, UK;|Hospital for Tropical Diseases, Ho Chi Minh City, Vietnam
http://dx.doi.org/10.1101/190512 2017-09-19 Molecular Biology Cdk9 regulates a promoter-proximal checkpoint to modulate RNA Polymerase II elongation rate Gregory T Booth|Pabitra K Parua|Miriam Sanso|Robert P Fisher|John T Lis Cornell University;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/188946 2017-09-19 Cell Biology CC BY-NC-ND Regulator of calcineurin-2 is a ciliary protein with a role in cilia length control. Nicola Stevenson|Dylan Bergen|Amadeus Xu|Emily Wyatt|Freya Henry|Janine McCaughey|Laura Vuolo|Chrissy Hammond|David Stephens University of Bristol
http://dx.doi.org/10.1101/191155 2017-09-20 Binge-like Acquisition of α-pyrrolidinopentiophenone (α-PVP) Self-Administration in Female Rats Mehrak Javadi-Paydar|Yanabel Grant|Sophia A Vandewater|K M Creehan|Jacques D Nguyen|Tobin J Dickerson|Michael A Taffe The Scripps Research Institute
http://dx.doi.org/10.1101/191452 2017-09-20 CC BY-NC Genetic Identification of Novel Separase regulators in Caenorhabditis elegans Michael Melesse|Dillon E. Sloan|Joseph T. Benthal|Quincey Caylor|Krishen Gosine|Xiaofei Bai|Joshua N. Bembenek Department of Biochemistry, Cellular and Molecular Biology, University of Tennessee, Knoxville, TN
http://dx.doi.org/10.1101/191700 2017-09-20 CC BY-NC-ND Targeting histone deacetylase activity to arrest cell growth and promote neural differentiation in Ewing sarcoma Barbara Kunzler Souza|Patricia Luciana da Costa Lopez|Pamela Rossi Menegotto|Igor Araujo Vieira|Nathalia Kersting|Ana Lucia Abujamra|Andre T. Brunetto|Algemir L. Brunetto|Lauro Gregianin|Caroline Brunetto de Farias|Carol J. Thiele|Rafael Roesler Federal University of Rio Grande do Sul;|Children's Cancer Institute;|National Institutes of Health
http://dx.doi.org/10.1101/191684 2017-09-20 CC BY-NC-ND Dephosphorylation is the Mechanism of Fibroblast Growth Factor Inhibition of Guanylyl Cyclase-B Jerid W. Robinson|Jeremy R. Egbert|Julia Davydova|Hannes Schmidt|Laurinda A Jaffe|Lincoln R. Potter University of Minnesota;|University of Connecticut Health Center;|University of Tubingen
http://dx.doi.org/10.1101/191197 2017-09-20 CC BY Quantification of anti-parasite and anti-disease immunity to malaria as a function of age and exposure Isabel Rodriguez-Barraquer|Emmanuel Arinaitwe|Prasanna Jagannathan|Moses Kamya|Phillip Rosenthal|John Rek|Grant Dorsey|Joaniter Nankabirwa|Sarah G Staedke|Maxwell Kilama|Chris Drakeley|Isaac Ssewanyan|David L Smith|Bryan Greenhouse University of California, San Francisco, United States;|Infectious Diseases Research Collaboration, Uganda;|Stanford University, United States;|Makerere University College of Health Sciences, Uganda;|Infectious Diseases Resarch Collaboration, United States;|London School of Hygiene and Tropical Medicine, Uganda;|National Institutes of Health, United States
http://dx.doi.org/10.1101/191163 2017-09-20 CC BY-ND Competing effects of indirect protection and clustering on the power of cluster-randomized controlled vaccine trials Matt D. T. Hitchings|Marc Lipsitch|Steve Bellan Harvard T.H. Chan School of Public Health;|University of Georgia
http://dx.doi.org/10.1101/191130 2017-09-20 Ecology CC BY Forecasting biodiversity in breeding birds using best practices David J Harris|Shawn Taylor|Ethan P White University of Florida
http://dx.doi.org/10.1101/190876 2017-09-20 Bioinformatics CC BY-NC-ND LDJump: Estimating Variable Recombination Rates from Population Genetic Data Philipp Hermann|Angelika Heissl|Irene Tiemann-Boege|Andreas Futschik Johannes Kepler University Linz
http://dx.doi.org/10.1101/191593 2017-09-20 Biochemistry CC BY-NC-ND PyFolding: An open-source software package for graphing, analysis and simulation of thermodynamic and kinetic models of protein folding Alan R Lowe|Albert Perez-Riba|Laura S Itzhaki|Ewan Main University College London;|University of Cambridge;|Queen Mary University of London
http://dx.doi.org/10.1101/191122 2017-09-20 Genomics CC BY-NC-ND High-Throughput Identification of Genetic Variation Impact on pre-mRNA Splicing Efficiency Scott I Adamson|Lijun Zhan|Brenton R Graveley UConn Health
http://dx.doi.org/10.1101/191437 2017-09-20 Cell Biology CC BY-NC-ND Cyclin A2 localises in the cytoplasm at the S/G2 transition to activate Plk1 Helena Silva Cascales|Kamila Burdova|Erik Mullers|Henriette Stoy|Patrick von Morgen|Libor Macurek|Arne Lindqvist Karolinska Institutet;|Institute of Molecular Genetics, Academy of Sciences of the Czech Republic
http://dx.doi.org/10.1101/191239 2017-09-20 Biochemistry CC BY-NC Lipid-Uptake Pathways and Lipid-Protein interactions in P-glycoprotein Revealed by Coarse-Grained Molecular Dynamics Simulations Estefania Barreto-Ojeda|Valentina Corradi|Ruo-Xu Gu|D. Peter Tieleman University of Calgary
http://dx.doi.org/10.1101/191205 2017-09-20 Systems Biology CC BY High Peak Density Artifacts in Fourier Transform Mass Spectra and their Effects on Data Analysis Joshua M Mitchell|Robert M Flight|Qingjun Wang|Woo-Young Kang|Richard M Higashi|Teresa W-M Fan|Andrew N Lane|Hunter N.B. Moseley University of Kentucky
http://dx.doi.org/10.1101/191221 2017-09-20 Cancer Biology Targeting temporal dynamics of microenvironmental factors halts tumor migration and alleviates effects of dynamic tumor heterogeneity Manjulata Singh|Xiao-Jun Tian|Vera S. Donnenberg|Alan M. Watson|Jingyu Zhang|Laura P. Stabile|Simon C. Watkins|Jianhua Xing|Shilpa Sant University of Pittsburgh;|UPMC-Hillman Cancer Center
http://dx.doi.org/10.1101/189563 2017-09-20 Neuroscience LRP1 Regulates Peroxisome Biogenesis and Cholesterol Homeostasis in Oligodendrocytes and is Required in CNS Myelin Development and Repair Jing-Ping Lin|Yevgeniya A Mironova|Peter Shrager|Roman J Giger University of Michigan;|University of Rochester Medical Center
http://dx.doi.org/10.1101/191346 2017-09-20 Pharmacology and Toxicology Acute and chronic toxicity assessment of benzylpenicillin G residue in cooked meat Cheng Cui|Xiang Zhang|Yan Cai|Shiying Lu|Qi Hui|Xilin Liu|Pan Hu|Lingjiu Liu|Fengfeng Shi|Waqas Ahmad|Yanyan Liu|Ke Zhao|Feifei Zhai|Hong Zhang|Yangzhen Xiang|Yansong Li|Honglin Ren|Pengpeng Xiao|Yang Wang|Zengshan Liu Institute of Zoonoses, Jilin University, Changchun, Jilin, 130062, China.;|Changchun Institute of Biological Products, Changchun, Jilin, 130012, China.;|School of Pharmacy, Wenzhou Medical University, Wenzhou, Zhejiang, 325035, China.;|China-Japan Union Hospital of Jilin University, Changchun, Jilin, 130033, China.;|College of Veterinary and Animal Sciences, Jhang 35200, Pakistan.
http://dx.doi.org/10.1101/191262 2017-09-20 Neuroscience CC BY-NC-ND Functional Brain Network Estimation with Time Series Self-scrubbing Weikai Li|Lishan Qiao|Zhengxia Wang|Dinggang Shen Chongqing Jiaotong University;|Liaocheng University;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/191585 2017-09-20 Microbiology CC BY-NC-ND Comprehensive analysis of central carbon metabolism reveals multiple connections between nutrients, biosynthetic capacity, and cell morphology in Escherichia coli Corey S. Westfall|Petra Levin Washington University in St. Louis;|Washington University
http://dx.doi.org/10.1101/191494 2017-09-20 Neuroscience Binding language: Structuring sentences through precisely timed oscillatory mechanisms Katrien Segaert|Ali Mazaheri|Peter Hagoort University of Birmingham;|Max Planck Institute for Psycholinguistics
http://dx.doi.org/10.1101/191486 2017-09-20 Biophysics CC BY-NC Lipid-protein interactions are unique fingerprints for membrane proteins Valentina Corradi|Eduardo Mendez-Villuendas|Helgi Ingolfsson|Ruo-Xu Gu|Iwona Siuda|Manuel N Melo|Anastassiia Moussatova|Christine Degagne|Besian I. Sejdiu|Gurpreet Singh|Tsjerk Wassenaar|Karelia Hortencia Delgado Magnero|Siewert J. Marrink|D. Peter Tieleman University of Calgary;|University of Groningen
http://dx.doi.org/10.1101/191502 2017-09-20 Neuroscience CC BY-NC-ND Whole-brain vasculature reconstruction at the single capillary level Antonino Paolo Di Giovanna|Alessandro Tibo|Ludovico Silvestri|Marie Caroline Muellenbroich|Irene Costantini|Anna Letizia Allegra Mascaro|Leonardo Sacconi|Paolo Frasconi|Francesco Saverio Pavone European Laboratory for Non-linear Spectroscopy, University of Florence, Italy;|Department of Information Engineering (DINFO), University of Florence, Italy;|National Institute of Optics, National Research Council, Italy;|Neuroscience Institute, National Research Council, Pisa, Italy
http://dx.doi.org/10.1101/191353 2017-09-20 Microbiology Wine yeast phenomics: a standardized fermentation method for assessing quantitative traits of Saccharomyces cerevisiae strains in enological conditions. Emilien Peltier|Margaux Bernard|Marine Trujillo|Duyen Prodhomme|Jean-Christophe Barbe|Yves Gibon|Philippe Marullo Univ. Bordeaux, ISVV, Unite de recherche OEnologie EA 4577, USC 1366 INRA, Bordeaux INP;|INRA, University of Bordeaux, UMR 1332 Fruit Biology and Pathology
http://dx.doi.org/10.1101/189381 2017-09-20 Microbiology CC BY-NC Pharmacodynamic Considerations of Collateral Sensitivity in Design of Antibiotic Treatment Regimen Klas I Udekwu|Howie Weiss Stockholm University;|Georgia Institute of Technology
http://dx.doi.org/10.1101/191288 2017-09-20 Bioinformatics CC BY-NC-ND MEBS, a software platform to evaluate large (meta)genomic collections according to their metabolic machinery: unraveling the sulfur cycle Valerie De Anda|Icoquih Zapata-Penasco|Augusto Cesar Poot Hernandez|Luis Enrique Fruns|Bruno Contreras Moreira|Valeria Souza Departamento de Ecologia Evolutiva, Instituto de Ecologia UNAM;|Instituto Mexicano del Petroleo;|Instituto de Investigaciones en Matematicas Aplicadas y en Sistemas. UNAM;|Estacion Experimental Aula Dei EEAD-CSIC
http://dx.doi.org/10.1101/191544 2017-09-20 Neuroscience CC BY-NC-ND Enhanced food-related responses in the ventral medial prefrontal cortex in orexin-deficient narcolepsy patients Ruth J. van Holst|Lieneke Katharina Janssen|Petra van Mierlo|Gert Jan Lammers|Roshan Cools|Sebastiaan Overeem|Esther Aarts Academic Medical Center;|Max Planck Institute for Human Cognitive and Brain Sciences;|Sleep Medicine Center Kempenhaeghe;|Sleep-Wake Center SEIN; Dep. of Neurology, Leiden University Medical Center;|Donders Institute for Brain, Cognition and Behaviour;|Dept. of Neurologu, Radboud University Medical Center; Sleep Medicine Center Kempenhaeghe
http://dx.doi.org/10.1101/188987 2017-09-20 Cell Biology A molecular model of the mitochondrial genome segregation machinery in Trypanosoma brucei Anneliese Hoffmann|Sandro Kaser|Martin Jakob|Simona Amodeo|Camille Peitsch|Jiri Tyc|Sue Vaughan|Benoit Zuber|Andre Schneider|Torsten Ochsenreiter University of Bern;|Oxford Brookes University
http://dx.doi.org/10.1101/191510 2017-09-20 Evolutionary Biology CC BY-NC-ND Superior stimulation of female fecundity by subordinate males provides a mechanism for telegony Sonia Pascoal|Benjamin JM Jarrett|Emma Evans|Rebecca M Kilner University of Cambridge
http://dx.doi.org/10.1101/191320 2017-09-20 Neuroscience CC BY-NC TMS SMART - Scalp Mapping of Annoyance Ratings and Twitches caused by Transcranial Magnetic Stimulation Lotte Meteyard|Nick Holmes University of Reading;|University of Nottingham
http://dx.doi.org/10.1101/191536 2017-09-20 Cell Biology CC BY-NC-ND Nano-scale size holes in ER sheets provide an alternative to tubules for highly-curved membranes Lena K. Schroeder|Andrew E.S. Barentine|Sarah Schweighofer|David Baddeley|Joerg Bewersdorf|Shirin Bahmanyar Yale University
http://dx.doi.org/10.1101/191403 2017-09-20 Microbiology CC BY-NC-ND Proteomic identification of Axc, a novel beta-lactamase with carbapenemase activity in a meropenem-resistant clinical isolate of Achromobacter xylosoxidans Frank Fleurbaaij|Alex A. Henneman|Jeroen Corver|Cornelis W. Knetsch|Wiep Klaas Smits|Sjoerd T. Nauta|Martin Giera|Irina Dragan|Nitin Kumar|Trevor D. Lawley|Aswin Verhoeven|Hans C. van Leeuwen|Ed Kuijper|Paul Hensbergen Center for Proteomics and Metabolomics, Leiden University Medical Center;|Department of Medical Microbiology, Leiden University Medical Center;|0000-0002-9760-1878;|Host-Microbiota Interactions Laboratory, Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/191379 2017-09-20 Molecular Biology Urinary candidate biomarkers in an experimental autoimmune myocarditis rat model Mindi Zhao|Jianqiang Wu|Xundou Li|Youhe Gao Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences/Peking Union Medical Colleg;|Beijing Normal University
http://dx.doi.org/10.1101/190579 2017-09-20 Bioengineering The Role Of Circle Of Willis Anatomy Variations In Cardio-embolic Stroke - A Patient-specific Simulation Based Study. Debanjan Mukherjee|Neel D. Jani|Jared Narvid|Shawn C. Shadden University of California Berkeley;|University of California San Francisco
http://dx.doi.org/10.1101/191361 2017-09-20 Neuroscience CC BY-NC-ND Controlling striatal function via anterior frontal cortex stimulation Mieke van Holstein|Monja Frobose|Jacinta O'Shea|Esther Aarts|Roshan Cools Radboud University;|University of Oxford
http://dx.doi.org/10.1101/191445 2017-09-20 Microbiology CC BY-NC-ND Genetic diversity and mother-child overlap of the gut associated microbiota determined by reduced genome sequencing Anuradha Ravi|Ekaterina Avershina|Inga Leena Angell|Jane Ludvigsen|Prashanth Manohar|Sumathi Padmanaban|Ramesh Nachimuthu|Knut Rudi NMBU;|VIT University;|Nishanth Hospital
http://dx.doi.org/10.1101/191338 2017-09-20 Systems Biology CC BY-NC-ND Non-canonical circadian oscillations in Drosophila S2 cells drive gene-expression cycles coupled to metabolic oscillations Guillaume Rey|Nikolay B. Milev|Utham K. Valekunja|Ratnasekhar Ch|Sandipan Ray|Mariana Silva Dos Santos|Andras D. Nagy|Robin Antrobus|James I. MacRae|Akhilesh B. Reddy The Francis Crick Institute;|Cambridge Institute for Medical Research, University of Cambridge
http://dx.doi.org/10.1101/191528 2017-09-20 Immunology CC BY-NC-ND Evaluating the Role of Cell-free Fetal DNA in Inflammation and Spontaneous Preterm Birth. Sara R van Boeckel|Heather MacPherson|Donald J Davidson|Jane E Norman|Sarah J Stock MRC Centre for Reproductive Health, University of Edinburgh, QMRI, Edinburgh, United Kingdom;|MRC Centre for Inflammation Research, University of Edinburgh, QMRI, Edinburgh, United Kingdom
http://dx.doi.org/10.1101/191981 2017-09-21 Role of midbody remnant in meiosis II creating tethered polar bodies Alex McDougall|Celine Hebras|Gerard Pruliere|David Burgess|Vlad Costache|Remi Dumollard|Janet Chenevert Sorbonne Universities/CNRS, Observatoire Oceanologique;|Boston College, MA 0246 USA
http://dx.doi.org/10.1101/191957 2017-09-21 CC BY-NC Phasor based single-molecule localization microscopy in 3D (pSMLM-3D): an algorithm for MHz localization rates using standard CPUs Koen Martens|Arjen N. Bader|Sander Baas|Bernd Rieger|Johannes Hohlbein Wageningen University & Research;|Delft University of Technology
http://dx.doi.org/10.1101/191577 2017-09-21 CC BY Stochastic Resonance Mediates the State-Dependent Effect of Periodic Stimulation on Cortical Alpha Oscillations Jeremie Lefebvre|Axel Hutt|Flavio Frohlich Krembil Research Institute;|Deutscher Wetterdienst;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/192112 2017-09-21 Evolutionary Biology CC BY-NC-ND Comparative analysis of 24 chloroplast genomes yields highly informative genetic markers for the Brazil nut family (Lecythidaceae) Ashley M Thomson|Oscar M. Vargas|Christopher W Dick Lakehead University;|University of Michigan
http://dx.doi.org/10.1101/192096 2017-09-21 Microbiology CC BY-NC USA300 MRSA lineages persist on multiple body sites following infection Timothy D Read|Robert A Petit|Zachary Yin|Tuyaa Montgomery|Moira C McNulty|Michael Z David Emory University;|University of Chicago;|University of Pennsylvania
http://dx.doi.org/10.1101/192062 2017-09-21 Microbiology CC BY-ND Pseudomonas aeruginosa type IV minor pilins and PilY1 regulate virulence by modulating FimS-AlgR activity Victoria A. Marko|Sara L.N. Kilmury|Lesley T. MacNeil|Lori L. Burrows McMaster University
http://dx.doi.org/10.1101/191833 2017-09-21 Cell Biology Spatial and temporal translocation of PKCα in single endothelial cell in response to focal mechanical stimulus Masataka Arai|Toshihiro Sera|Takumi Hasegawa|Susumu Kudo Kyushu University
http://dx.doi.org/10.1101/190090 2017-09-21 Evolutionary Biology CC BY-ND Subfunctionalization versus neofunctionalization after whole-genome duplication Simen R. Sandve|Rori V. Rohlfs|Torgeir R. Hvidsten Norwegian University of Life Sciences;|San Francisco State University
http://dx.doi.org/10.1101/191767 2017-09-20 Bioinformatics CC BY-NC BioSankey: Visualizing microbial communities and gene expression data over time Alexander Platzer|Julia Polzin|Ping Penny Han|Klaus Rembart|Thomas Nussbaumer University Clinic for Internal Medicine III, Medical University of Vienna, Austria;|Division of Microbial Ecology, Department of Microbial Ecology, University of Vienna, Austria;|Department of Microbiology and Ecosystem Science, University of Vienna
http://dx.doi.org/10.1101/191775 2017-09-20 Animal Behavior and Cognition Impaired hippocampal representation of place in the Fmr1-knockout mouse model of Fragile X syndrome Tara Arbab|Cyriel MA Pennartz|Francesco P Battaglia Netherlands Institute for Neuroscience;|University of Amsterdam;|Radboud Universiteit Nijmegen
http://dx.doi.org/10.1101/191817 2017-09-20 Neuroscience A Dynamic Bayesian Observer Model Reveals Origins of Bias in Visual Path Integration Kaushik J Lakshminarasimhan|Marina Petsalis|Hyeshin Park|Gregory C DeAngelis|Xaq Pitkow|Dora E Angelaki Baylor College of Medicine;|Baylor College of Medicine, McGovern Medical School;|University of Rochester;|Baylor College of Medicine, Rice University
http://dx.doi.org/10.1101/191635 2017-09-20 Neuroscience Tolerance of chronic HDACi-administration used for treatment of neurological and visceral disease including lung pathogenesis. Md. Suhail Alam|Bruce Cooper|Kasturi Haldar University of Notre Dame;|Purdue University
http://dx.doi.org/10.1101/191791 2017-09-20 Neuroscience Experience-dependent neuroplasticity of the developing hypothalamus: integrative epigenomic approaches Annie Vogel Ciernia|Ben I Laufer|Keith W Dunaway|Charles E Mordaunt|Rochelle L Coulson|Theresa S Totah|Danielle S Stolzenberg|Jaime C Frahm|Akanksha Singh-Taylor|Tallie Z Baram|Janine M LaSalle|Dag H Yasui UC Davis;|Active Motif;|UC Irvine
http://dx.doi.org/10.1101/191619 2017-09-20 Molecular Biology CC BY-NC-ND A Sequel to Sanger: Amplicon Sequencing That Scales Paul DN Hebert|Thomas WA Braukmann|Sean WJ Prosser|Sujeevan Ratnasingham|Jeremy R deWaard|Natalia V Ivanova|Daniel H Janzen|Winnie Hallwachs|Suresh Naik|Jayme E Sones|Evgeny V Zakharov Centre for Biodiversity Genomics, University of Guelph;|Department of Biology, University of Pennsylvania
http://dx.doi.org/10.1101/191148 2017-09-20 Neuroscience CC BY Acute Social Stress Engages Synergistic Activity of Stress Mediators in the VTA to Promote Pavlovian Reward Learning Hitoshi Morikawa|Jorge Tovar-Diaz|Matthew B Pomrenze|Bahram Pahlavan|Russell Kan|Michael Drew University of Texas at Austin, United States
http://dx.doi.org/10.1101/191759 2017-09-20 Bioinformatics MuClone: Somatic mutation detection and classification through probabilistic integration of clonal population structure Fatemeh Dorri|Sean Jewell|Alexandre Bouchard-Cote|Sohrab Shah University of British Columbia;|University of Washington
http://dx.doi.org/10.1101/190330 2017-09-20 Cancer Biology CC BY-NC-ND The whole-genome panorama of cancer drivers Radhakrishnan Sabarinathan|Oriol Pich|Inigo Martincorena|Carlota Rubio-Perez|Malene Juul|Jeremiah Wala|Steven Schumacher|Ofer Shapira|Nikos Sidiropoulos|Sebastian Waszak|David Tamborero|Loris Mularoni|Esther Rheinbay|Henrik Hornshoj|Jordi Deu-Pons|Ferran Muinos|Johanna Bertl|Qianyun Guo|Joachim Weischenfeldt|Jan O Korbel|Gad Getz|Peter J Campbell|Jakob S Pedersen|Rameen Beroukhim|Abel Perez-Gonzalez|Nuria Lopez-Bigas Institute for Research in Biomedicine (IRB Barcelona);|Wellcome Trust Sanger Institute;|Department of Molecular Medicine (MOMA), Aarhus University Hospital;|Broad Institute of Harvard and MIT;|BRIC/Finsen Laboratory, Rigshospitalet;|European Molecular Biology Laboratory, Genome Biology Unit;|Bioinformatics Research Centre (BiRC) Aarhus University;|Cancer Genome Project, Wellcome Trust Sanger Institute;|-
http://dx.doi.org/10.1101/191015 2017-09-20 Neuroscience CC BY Catecholaminergic modulation of the avoidance of cognitive control Monja I Frobose|Jennifer C Swart|Jennifer L Cook|Dirk EM Geurts|Hanneke EM den Ouden|Roshan Cools Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen, The Netherlands;|School of Psychology, University of Birmingham, Edgbaston, Birmingham, United Kingdom;|Dept psychiatry, Radboud University Medical Centre, Nijmegen, The Netherlands
http://dx.doi.org/10.1101/191718 2017-09-20 Neuroscience CC BY-ND A simplified electronic circuit for combined single-cell stimulation and recording using loose cell-attached electrodes Ben W Strowbridge|R. Todd Pressler Case Western Reserve University
http://dx.doi.org/10.1101/191668 2017-09-20 Microbiology Identification of environmental and genetic factors important for Cryptococcus neoformans titan cell formation using new in vitro inducing conditions Benjamin Hommel|Liliane Mukaremera|Radames J. B. Cordero|Christopher A Desjardins|Aude Sturny-Leclere|John Perfect|James A Fraser|Arturo Casadevall|Christina A Cuomo|Francoise Dromer|Kirsten Nielsen|Alexandre Alanio Institut Pasteur;|University of Minnesota;|Johns Hopkins Bloomberg School of Public Health;|Broad Institute of MIT and Harvard;|Duke University Medical Center;|The University of Queensland
http://dx.doi.org/10.1101/191627 2017-09-20 Evolutionary Biology Sweeping genomic remodeling through repeated selection of alternatively adapted haplotypes occurs in the first decades after marine stickleback colonize new freshwater ponds Susan Bassham|Julian Catchen|Emily Lescak|Frank A von Hippel|William A Cresko University of Oregon;|University of Illinois at Urbana-Champaign;|University of Alaska Anchorage, University of Alaska Fairbanks;|Northern Arizona University
http://dx.doi.org/10.1101/191247 2017-09-20 Animal Behavior and Cognition Neuronal rhythms orchestrate cell assembles to distinguish perceptual categories Morteza Moazami Goudarzi|Jason Cromer|Jefferson Roy|Earl K. Miller MIT
http://dx.doi.org/10.1101/191189 2017-09-20 Neuroscience Memory entrainment by visually evoked theta-gamma coupling in the human brain Moritz Koster|Ulla Martens|Thomas Gruber Free University Berlin;|University of Osnabrück
http://dx.doi.org/10.1101/191213 2017-09-20 Genomics Genetic drivers of repeat expansion disorders localize to 3-D chromatin domain boundaries James Sun|Linda Zhou|Daniel J Emerson|Thomas G. Gilgenast|Katelyn Titus|Jonathan A. Beagan|Jennifer E. Phillips-Cremins University of Pennsylvania
http://dx.doi.org/10.1101/185355 2017-09-20 Genomics CC BY-NC-ND Pervasive epistasis in cell proliferation pathways modulates neurodevelopmental defects of autism-associated 16p11.2 deletion Janani Iyer|Mayanglambam Dhruba Singh|Matthew Jensen|Payal Patel|Lucilla Pizzo|Emily Huber|Haley Koerselman|Alexis T. Weiner|Paola Lepanto|Komal Vadodaria|Alexis Kubina|Qingyu Wang|Abigail Talbert|Sneha Yennawar|Jose Badano|J. Robert Manak|Melissa M. Rolls|Arjun Krishnan|Santhosh Girirajan Penn State University;|University of Iowa;|Institut Pasteur de Montevideo;|Michigan State University
http://dx.doi.org/10.1101/191742 2017-09-20 Biophysics Single-molecule diffusometry reveals the nucleotide-dependent oligomerization pathways of Nicotiana tabacum Rubisco activase Quan Wang|Andrew J Serban|Rebekka M Wachter|W.E. Moerner Princeton University;|Arizona State University;|Stanford University
http://dx.doi.org/10.1101/192302 2017-09-21 CC BY-ND hichipper: A preprocessing pipeline for assessing library quality and DNA loops from HiChIP data Caleb Lareau|Martin Aryee Harvard University;|Massachusetts General Hopsital
http://dx.doi.org/10.1101/192278 2017-09-21 CC BY Salient Experiences are Represented by Unique Transcriptional Signatures in the Brain Diptendu Mukherjee|Bogna Marta Ignatowska-Jankowska|Eyal Itskovits|Ben Jerry Gonzales|Hagit Turm|Liz Izakson|Doron Haritan|Noa Bleistein|Chen Cohen|Ido Amit|Tal Shay|Brad Grueter|Alon Zaslaver|Ami Citri The Hebrew University, Israel;|The Hebrew University of Jerusalem, Israel;|Weizmann Institute, Israel;|Ben-Gurion University of the Negev, Israel;|Vanderbilt University School of Medicine, Israel;|Hebrew University of Jerusalem, Israel
http://dx.doi.org/10.1101/192377 2017-09-21 CC BY A random dot kinematogram for online visual psychophysics Sivananda Rajananda|Hakwan Lau|Brian Odegaard University of California-Los Angeles
http://dx.doi.org/10.1101/192260 2017-09-21 CC BY-NC A mechanistic perspective of ecological networks highlights the contribution of alternative interaction strategies Danis Kiziridis|Lynne Boddy|Daniel C. Eastwood|Chenggui Yuan|Mike S. Fowler Swansea University;|Cardiff University
http://dx.doi.org/10.1101/192286 2017-09-21 CC BY-NC-ND A pan-cancer landscape of interactions between solid tumors and infiltrating immune cell populations David Tamborero|Carlota Rubio-Perez|Ferran Muinos|Radhakrishnan Sabarinathan|Josep M M Piulats|Aura Muntasell|Rodrigo Dientsmann|Nuria Lopez-Bigas|Abel Gonzalez-Perez Department of Experimental and Health Sciences, University Pompeu Fabra;|Institute for Research in Biomedicine, The Barcelona Institute of Science and Technology;|Department of Medical Oncology, Institut Catala d'Oncologia-IDIBELL, CIBERONC;|Hospital del Mar Medical Research Institute;|Vall d'Hebron Institute of Oncology
http://dx.doi.org/10.1101/192351 2017-09-21 CC BY-NC The Parasite Extinction Assessment & Red List: an open-source, online biodiversity database for neglected symbionts Colin J Carlson|Oliver C Muellerklein|Anna J. Phillips|Kevin R Burgio|Giovanni Castaldo|Carrie A Cizauskas|Graeme S Cumming|Tad A Dallas|Jorge Dona|Nyeema Harris|Roger Jovani|Zhongqi Miao|Heather Proctor|Hyun Seok Yoon|Wayne M Getz University of California Berkeley;|Smithsonian Institution;|University of Connecticut;|James Cook University;|University of California Davis;|Estacion Biologica de Donana;|University of Michigan;|University of Alberta
http://dx.doi.org/10.1101/192336 2017-09-21 CC BY-NC-ND Working Memory Load Modulates Neuronal Coupling Dimitris A Pinotsis|Timothy J Buschman|Earl K Miller MIT;|Princeton University
http://dx.doi.org/10.1101/191940 2017-09-21 Spatial modeling of the membrane-cytosolic interface in protein kinase signal transduction Wolfgang Giese|Gregor Milicic|Andreas Schroder|Edda Klipp Humboldt-Universität;|University of Salzburg;|Humboldt Universität zu Berlin
http://dx.doi.org/10.1101/192005 2017-09-21 CC BY gene2drug: a Computational Tool for Pathway-based Rational Drug Repositioning Francesco Napolitano|Diego Carrella|Barbara Mandriani|Sandra Pisonero|Francesco Sirci|Diego Medina|Nicola Brunetti-Pierri|Diego di Bernardo Telethon Institute of Genetics and Medicine (TIGEM)
http://dx.doi.org/10.1101/191890 2017-09-21 Cell Biology Streamlined histone-based fluorescence lifetime imaging microscopy reveals ATM regulation of chromatin compaction Alice Sherrard|Paul Bishop|Melanie Panagi|Maria Beatriz Villagomez|Dominic Alibhai|Abderrahmane Kaidi University of Bristol
http://dx.doi.org/10.1101/190306 2017-09-21 Microbiology CC BY The Gram-positive model organism Bacillus subtilis does not form detectable cardiolipin-specific lipid domains Alex-Rose Pogmore|Kenneth H. Seistrup|Henrik Strahl Newcastle University
http://dx.doi.org/10.1101/175117 2017-09-21 Microbiology Actin assembly-inducing protein ActA promotes FcγRIa-mediated Listeria internalization Sofya S. Perelman|Michael E. Abrams|Neal M. Alto Department of Microbiology, University of Texas Southwestern Medical Center, Dallas, Texas, USA
http://dx.doi.org/10.1101/127712 2017-09-21 Genetics De novo damaging coding mutations are strongly associated with obsessive-compulsive disorder and overlap with autism Carolina Cappi|Melody E Oliphant|Zsanett Peter|Gwyneth Zai|Catherine AW Sullivan|Abha R Gupta|Ellen J Hoffman|Manmeet Virdee|A. Jeremy Willsey|Roseli G Shavitt|Euripedes C Miguel|James L Kennedy|Margaret A Richter|Thomas V Fernandez University of Sao Paulo;|Yale University School of Medicine;|Centre for Addiction and Mental Health; University of Toronto;|University of California San Francisco;|University of Toronto; Sunnybrook Research Institute
http://dx.doi.org/10.1101/189613 2017-09-21 Neuroscience CC BY-NC Rictor/TORC2 mediates gut-to-brain signaling in the regulation of phenotypic plasticity in C. elegans Michael O'Donnell|Pin-Hao Chao|Jan Kammenga|Piali Sengupta Brandeis University;|Wageningen University
http://dx.doi.org/10.1101/187351 2017-09-21 Genetics CC BY-ND Maternal depression and child behaviours: sex-dependent mediation by glucocorticoid receptor gene methylation in a longitudinal study from pregnancy to age 5 years Jonathan Hill|Andrew Pickles|Nicola Wright|John P Quinn|Chris Murgatroyd|Helen Sharp School of Psychology and Clinical Language Sciences, University of Reading;|Institute of Psychiatry, Psychology and Neuroscience, King's College London;|Department of Psychological Science, University of Liverpool;|Dept of Molecular and Clinical Pharmacology, University of Liverpool;|School of Healthcare Science, Manchester Metropolitan University
http://dx.doi.org/10.1101/190983 2017-09-21 Neuroscience CC BY-NC-ND Grip force adjustments reflect prediction of dynamic consequences in varying gravitoinertial fields Olivier White|Jean-Louis Thonnard|Philippe Lefevre|Joachim Hermsdorfer Universite de Bourgogne-Franche Comte;|Institute of Neuroscience, Universite catholique de Louvain;|Institute of Human Movement Science, Department of Sport and Health Sciences, Technische Universi
http://dx.doi.org/10.1101/191254 2017-09-21 Bioinformatics CC BY-NC An Interpretable Framework for Clustering Single-Cell RNA-Seq Datasets Jesse M Zhang|Jue Fan|H. Christina Fan|David Rosenfeld|David N. Tse Stanford University;|BD Genomics
http://dx.doi.org/10.1101/192039 2017-09-21 Systems Biology CC BY-NC-ND Distributed and dynamic intracellular organization of extracellular information Alejandro A Granados|Julian M Pietsch|Sarah Cepeda-Humerez|Gasper Tkacik|Peter S Swain Imperial College London;|University of Edinburgh;|IST Austria
http://dx.doi.org/10.1101/192104 2017-09-21 Cancer Biology CC BY-NC DNAJB1-PRKACA fusion kinase drives tumorigenesis and interacts with β-catenin and the liver regenerative response. Edward R Kastenhuber|Gadi Lalazar|Darjus F Tschaharganeh|Shauna L Houlihan|Timour Baslan|Chi-Chao Chen|David Requena|Sha Tian|Benedikt Bosbach|John E Wilkinson|Sanford M Simon|Scott W Lowe Memorial Sloan Kettering Cancer Center;|Rockefeller University;|DKFZ German Cancer Research Center;|Pfizer;|University of Michigan
http://dx.doi.org/10.1101/191858 2017-09-21 Bioinformatics CC BY-NC-ND vU-net: accurate cell edge segmentation in time-lapse fluorescence live cell images based on convolutional neural network Chuangqi Wang|Xitong Zhang|Yenyu Chen|Kwonmoo Lee Worcester Polytechnic Institute
http://dx.doi.org/10.1101/191296 2017-09-21 Systems Biology A duplex MIPs-based biological-computational cell lineage discovery platform Liming Tao|Ofir Raz|Zipora Marx|Tamir Biezuner|Shiran Amir|Lilach Milo|Rivka Adar|Amos Onn|Noa Chapal-Ilani|Veronika Berman|Ron Levy|Barak Oron|Ehud Shapiro Weizmann Institute of Sciences
http://dx.doi.org/10.1101/191874 2017-09-21 Bioinformatics CC BY-NC-ND A space and time-efficient index for the compacted colored de Bruijn graph Fatemeh Almodaresi|Hirak Sarkar|Rob Patro Stony Brook University
http://dx.doi.org/10.1101/191916 2017-09-21 Neuroscience CC BY-NC-ND Changes in alpha activity reveal that social opinion modulates attention allocation during face processing Evelien Heyselaar|Ali Mazaheri|Peter Hagoort|Katrien Segaert Max Planck Institute for Psycholinguistics;|University of Birmingham;|Max Planck Institute for Psycholinguistics; Donders Institute for Brain, Cognition, and Behaviour
http://dx.doi.org/10.1101/191569 2017-09-21 Genetics CC BY-NC-ND Neolithization of North Africa involved the migration of people from both the Levant and Europe Rosa Fregel|Fernado L. Mendez|Youssef Bokbot|Dimas Martin-Socas|Maria D. Camalich-Massieu|Maria C. Avila-Arcos|Peter A. Underhill|Beth Shapiro|Genevieve L Wojcik|Morten Rasmussen|Andre E. R. Soares|Joshua Kapp|Alexandra Sockell|Francisco J. Rodriguez-Santos|Abdeslam Mikdad|Jonathan Santana|Aioze Trujillo-Mederos|Carlos D. Bustamante Stanford University;|Institut National des Sciences de l'Archeologie et du Patrimoine;|Universidad de La Laguna;|International Laboratory for Human Genome Research, National University of Mexico;|University of California Santa Cruz;|Stanford University School of Medicine;|Instituto Internacional de Investigaciones Prehistoricas de Cantabria;|Durham University
http://dx.doi.org/10.1101/191866 2017-09-21 Developmental Biology CC BY-NC-ND The kinases PIG-1 and PAR-1 act in redundant pathways to regulate asymmetric division in the EMS blastomere of C. elegans. Malgorzata J. Liro|Diane G. Morton|Lesilee S. Rose University of California, Davis;|Cornell University
http://dx.doi.org/10.1101/191841 2017-09-21 Neuroscience Brief optogenetic inhibition of rat lateral or ventrolateral periaqueductal gray augments the acquisition of Pavlovian fear conditioning. Neda Assareh|Elena Bagley|Pascal Carrive|Gavan P McNally UNSW Sydney;|University of Sydney
http://dx.doi.org/10.1101/191783 2017-09-21 Scientific Communication and Education CC BY-ND Enabling Precision Medicine via standard communication of NGS provenance, analysis, and results Gil Alterovitz|Dennis A. Dean|Carole Goble|Michael R Crusoe|Stian Soiland-Reyes|Amanda Bell|Anais Hayes|Charles Hadley H. King|Elaine Johanson|Elaine E Thompson|Eric Donaldson|Hsinyi S Tsang|Jeremy Goecks|Jonas S Almeida|Lydia Guo|Mark Walderhaug|Paul Walsh|Robel Kahsay|Toby Bloom|Yuching Lai|Vahan Simonyan|Raja Mazumder Harvard/MIT Division of Health Sciences and Technology, Harvard Medical School, Boston, MA 02115, US;|Seven Bridges, Cambridge MA, 02142, USA,;|School of Computer Science, The University of Manchester, Manchester, M13 9PL, UK,;|Common Workflow Language Project, Vlinius, Lithuania;|The Department of Biochemistry & Molecular Medicine, The George Washington University Medical Center;|US Food and Drug Administration, Silver Spring MD 20993, United States of America;|Center for Biomedical Informatics and Information Technology, Nat'l Cancer Institute;|Computational Biology Program, Oregon Health & Science University, Portland OR, 97239, USA;|Stony Brook University, School of Medicine and College of Engineering and Applied Sciences;|Wellesley College, Wellesley, MA 02481, United States of America;|Nsilico Life Science, Nova Center, Belfield Innovation Park, University College Dublin, Ireland;|New York Genome Center, New York, NY 10013, USA;|DDL Diagnostic Laboratory, 2288 ER, Rijswijk, Netherlands
http://dx.doi.org/10.1101/191999 2017-09-21 Evolutionary Biology CC BY-NC-ND Long-lived rodents reveal signatures of positive selection in genes associated with lifespan and eusociality Arne Sahm|Martin Bens|Karol Szafranski|Susanne Holtze|Marco Groth|Matthias Goerlach|Cornelis Calkhoven|Christine Mueller|Matthias Schwab|Hans Armin Kestler|Alessandro Cellerino|Hynek Burda|Thomas Hildebrandt|Philip Dammann|Matthias Platzer Leibniz Institute on Aging - Fritz Lipmann Institute (FLI);|Leibniz Institute for Zoo and Wildlife Research;|European Research Institute for the Biology of Ageing (ERIBA), University of Groningen;|Jena University Hospital-Friedrich Schiller University;|Institute of Medical Systems Biology, Ulm University;|Laboratory of Biology Bio@SNS, Scuola Normale Superiore, Pisa;|Department of General Zoology, Faculty of Biology, University of Duisburg-Essen;|University Hospital, University of Duisburg-Essen
http://dx.doi.org/10.1101/192120 2017-09-21 Bioinformatics CC BY-NC-ND Prediction of residue-residue contacts in CASP12 targets from its predicted tertiary structures Piyush Agrawal|Sandeep Singh|Gandharva Nagpal|Deepti Sethi|Gajendra P.S. Raghava CSIR-IMTECH;|1. Institute of Microbial Technology, Chandigarh, India; 2. IIIT Delhi, Delhi, India
http://dx.doi.org/10.1101/192203 2017-09-21 Genomics CC BY-NC-ND Pinaceae show elevated rates of gene duplication and gene loss that are robust to incomplete gene annotation Claudio Casola|Tomasz E Koralewski Texas A&M University
http://dx.doi.org/10.1101/192161 2017-09-21 Microbiology CC BY-NC-ND Clofazimine targets essential nucleoid associated protein, mycobacterial integration host factor (mIHF), in Mycobacterium tuberculosis Wanliang Shi|Shuo Zhang|Jie Feng|Peng Cui|Wenhong Zhang|Ying Zhang Johns Hopkins University;|Fudan University
http://dx.doi.org/10.1101/192013 2017-09-21 Ecology CC BY-NC-ND BipartGraph: An interactive application to plot bipartite ecological networks Javier Garcia-Algarra|Juan Manuel Manuel Pastor|Mary Luz Mouronte|Javier Galeano Universidad Pontificia Comillas;|Universidad Politecnica de Madrid;|Universidad Francisco de Vitoria
http://dx.doi.org/10.1101/191882 2017-09-21 Neuroscience CC BY-NC-ND Modeling the schizophrenias: subunit-specific NMDAR antagonism dissociates oscillatory signatures of frontal hypofunction and hippocampal hyperfunction Benjamin Rafael Pittman-Polletta|Kun Hu|Bernat Kocsis Boston University;|Brigham & Women's Hospital/Harvard Medical School;|Beth Israel Deaconess Medical Center/Harvard Medical School
http://dx.doi.org/10.1101/191924 2017-09-21 Immunology CC BY-NC-ND A novel strategy to express different antigens from one modified vaccinia Ankara vaccine vector Katharina B Lauer|Edward A Mc Kenzie|Yper Hall|Chikkana P.C. Gowda|Paul Klapper|Pamela J Vallely|Ray Borrow|Miles W Carroll|Thomas J Blanchard University of Manchester;|Public Health England
http://dx.doi.org/10.1101/192211 2017-09-21 Bioinformatics Updating the 97% identity threshold for 16S ribosomal RNA OTUs Robert C Edgar Independent Scientist
http://dx.doi.org/10.1101/192740 2017-09-22 CC BY-NC Paternal-age-related de novo mutations and risk for five disorders Jacob Taylor|Jean-Christophe P.G. Debost|Sarah U. Morton|Emilie M. Wigdor|Henrike O. Heyne|Dennis Lal|Daniel P. Howrigan|Alex Bloemendal|Janne T. Larsen|Jack A. Kosmicki|Daniel J. Weiner|Jason Homsy|Jonathan G. Seidman|Christine E. Seidman|Esben Agerbo|John J. McGrath|Preben Bo Mortensen|Liselotte Petersen|Mark J. Daly|Elise B. Robinson Broad Institute;|Aarhus University;|Harvard Medical School;|Massachusetts General Hospital;|-;|University of Queensland;|Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/192435 2017-09-22 CC BY A near complete haplotype-phased genome of the dikaryotic wheat stripe rust fungus Puccinia striiformis f. sp. tritici reveals high inter-haplome diversity Benjamin Schwessinger|Jana Sperschneider|William Cuddy|Marisa Miller|Diana Garnica|Jen Taylor|Peter Dodds|Melania Figueroa|Park Robert|John Rathjen Australian National University;|CSIRO;|University of Sydney;|USDA-ARS/University of Minnesota;|University of Minnesota;|Australian National Unviersity
http://dx.doi.org/10.1101/190637 2017-09-22 Image-based profiling can discriminate the effects of inhibitors on signaling pathways under differential ligand stimulation Kenji Tanabe|Yuji Henmi|Masanobu Satake Tokyo Women's Medical University;|Sendai Akamon College
http://dx.doi.org/10.1101/192773 2017-09-22 Quantifying Seasonal and Diel Variation in Anopheline and Culex Human Biting Rates in Southern Ecuador Sadie J. Ryan|Catherine A. Lippi|Philipp H. Boersch-Supan|Naveed Heydari|Mercy Silva|Jefferson Adrian|Leonardo F Noblecilla|Efrain B Ayala|Mayling D Encalada|David A Larsen|Jesse T Krisher|Lyndsay Krisher|Lauren Fregosi|Anna M Stewart-Ibarra University of Florida;|SUNY Upstate Medical University;|Ministerio de Salud Publica, Machala, Ecuador;|Minsterio de Salud Publica, Machala, Ecuador;|Universidad Tecnica de Machala, Ecuador;|Ministerio de Salud Publica, Quito, Ecuador;|Syracuse University;|Cornell University;|University of Colorado, Denver
http://dx.doi.org/10.1101/191601 2017-09-22 Modeling Epidemics: A Primer and Numerus Software Implementation Wayne M. Getz|Richard Salter|Oliver Muellerklein|Hyun S Yoon|Krti Tallam University of California at Berkeley;|Numerus LLC
http://dx.doi.org/10.1101/192575 2017-09-22 CC BY-NC-ND The Asian tiger mosquito, Aedes albopictus (Skuse, 1894), a vector of dengue, chikungunya and zika, reaches Portugal Eduardo Marabuto|Maria Teresa Rebelo Faculty of Sciences, University of Lisbon;|University of Lisbon, Faculty of Sciences
http://dx.doi.org/10.1101/192880 2017-09-22 Done in 100 ms: Path-dependent visuomotor transformation in the human upper limb Chao Gu|J. Andrew Pruszynski|Paul L Gribble|Brian D Corneil University of Western Ontario;|The University of Western Ontario
http://dx.doi.org/10.1101/192898 2017-09-22 CC BY NECAPs are negative regulators of the AP2 clathrin adaptor complex Gwendolyn M Beacham|Edward A Partlow|Jeffrey J Lange|Gunther Hollopeter Cornell University, United States;|Stowers Institute for Medical Research, United States
http://dx.doi.org/10.1101/192849 2017-09-22 A high-throughput fluorescent indicator displacement assay and principal component/cluster data analysis for determination of ligand-nucleic acid structural selectivity Rafael del Villar-Guerra|Robert D Gray|John O Trent|Jonathan Chaires University of Louisville
http://dx.doi.org/10.1101/191726 2017-09-22 CC BY-NC-ND Spillover effects of a combined water, sanitation, and handwashing intervention in rural Bangladesh: a randomized controlled trial Jade Benjamin-Chung|Nuhu Amin|Ayse Ercumen|Benjamin F Arnold|Alan E Hubbard|Leanne Unicomb|Mahbubur Rahman|Stephen P Luby|John M Colford University of California, Berkeley;|International Centre for Diarrhoeal Disease Research, Bangladesh;|Stanford University
http://dx.doi.org/10.1101/192922 2017-09-22 CC BY-NC-ND Chromatin accessibility profiling uncovers genetic- and T2D disease state-associated changes in cis-regulatory element use in human islets Shubham Khetan|Romy Kursawe|Ahrim Youn|Nathan Lawlor|Eladio Marquez|Duygu Ucar|Michael L Stitzel The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/192914 2017-09-22 CC BY-ND UniProt Genomic Mapping for Deciphering Functional Effects of Missense Variants Peter McGarvey|Andrew Nightingale|Jie Luo|Hongzhan Huang|Maria-Jesus Martin|Cathy Wu Georgetown University Medical Center;|EMBL-EBI;|University of Delaware;|-
http://dx.doi.org/10.1101/192815 2017-09-22 Sodium valproate rescues expression of TRANK1 in iPSC-derived neural cells that carry a genetic variant associated with serious mental illness Xueying Jiang|Sevilla D Detera-Wadleigh|Nirmala Akula|Barbara S Mallon|Liping Hou|Tiaojiang Xiao|Gary Felsenfeld|Xinglong Gu|Francis J McMahon National Institute of Mental Health;|National Institute of Neurological Disorders and Stroke;|National Institute of Diabetes, Digestive, and Kidney Diseases
http://dx.doi.org/10.1101/192625 2017-09-22 CC BY-NC-ND Two rsaM homologues encode central regulatory elements modulating quorum sensing expression in Burkholderia thailandensis Eric Deziel|Servane Le Guillouzer|Marie-Christine Groleau INRS-Institut Armand-Frappier
http://dx.doi.org/10.1101/192757 2017-09-22 CC BY Integrated analysis sheds light on evolutionary trajectories of young transcription start sites in the human genome Cai Li|Boris Lenhard|Nicholas M. Luscombe Francis Crick Institute;|Imperial College London
http://dx.doi.org/10.1101/192807 2017-09-22 CC BY-NC-ND Eco-evolutionary dynamics and collective dispersal: implications for salmon metapopulation robustness Justin D Yeakel|Jean P Gibert|Peter A H Westley|Jonathan W. Moore University of California Merced;|University of Alaska Fairbanks;|Simon Fraser University
http://dx.doi.org/10.1101/190561 2017-09-22 CC BY Combining radiomics and mathematical modeling to elucidate mechanisms of resistance to immune checkpoint blockade in non-small cell lung cancer Daryoush Saeed-Vafa|Rafael Bravo|Jamie A. Dean|Asmaa El-Kenawi|Nathaniel Mon Pere|Maximilian Strobl|Charlie Daniels|Olya Stringfield|Mehdi Damaghi|Ilke Tunali|Liam Brown|Lee Curtin|Daniel Nichol|Hailee Peck|Robert J. Gillies|Jill Gallaher H. Lee Moffitt Cancer Center;|Dana-Farber Cancer Institute;|Interuniversity Institute of Bioinformatics, Université Libre de Bruxelles;|University of Oxford;|University of Cambridge;|University of Nottingham;|University of Minnesota
http://dx.doi.org/10.1101/189100 2017-09-22 Integrative genomics analysis identifies ACVR1B as a candidate causal gene of emphysema distribution in non-alpha 1-antitrypsin deficient smokers Adel Boueiz|Robert Chase|Andrew Lamb|Sool Lee|Zun Zar Chi Naing|Michael H Cho|Margaret M Parker|Craig P Hersh|James D Crapo|Andrew B Stergachis|Ruth Tal-Singer|Dawn L DeMeo|Edwin K Silverman|Peter J Castaldi Brigham and Women's Hospital;|National Jewish Health;|GSK, King of Prussia
http://dx.doi.org/10.1101/192641 2017-09-22 CC BY-NC-ND A model species for agricultural pest genomics: the genome of the Colorado potato beetle, Leptinotarsa decemlineata (Coleoptera: Chrysomelidae) Sean D. Schoville|Yolanda H. Chen|Martin N N. Andersson|Joshua B. Benoit|Anita Bhandari|Julia H. Bowsher|Kristian Brevik|Kaat Cappelle|Mei-Ju M. Chen|Anna K. Childers|Christopher Childers|Olivier Christiaens|Justin Clements|Elena N. Elpidina|Patamarerk Engsontia|Markus Friedrich|Inmaculada Garcia-Robles|Chandan Goswami|Alessandro Grapputo|Kristina Gruden|Marcin Grynberg|Bernard Henrissat|Emily C. Jennings|Jeffery W. Jones|Megha Kalsi|Sher Afzal Afzal Khan|Abhishek Kumar|Fei Li|Vincent Lombard|Xingzhou Ma|Alexander Martynov|Nicholas J. Miller|Robert F. Mitchell|Monica Munoz-Torres|Ania Muszewska|Brenda Oppert|Subba Reddy Palli|Kristen A. Panfilio|Yannick Pauchet|Lindsey C. Perkin|Marko Petek|Monica F. Poelchau|Eric Record|Joseph P. Rinehart|Hugh M. Robertson|Andrew J. Rosendale|Victor Manuel M. Ruiz Arroyo|Guy Smagghe|Zsofia Szendrei|Elise M. Szuter|Gregg W.C. Thomas|Alex S. Torson|Iris M. Vargas Jentzsch|Matthew T. Weirauch|Ashley D. Yates|George D. Yocum|June-Sun Yoon|Stephen Richards University of Wisconsin-Madison;|University of Vermont;|Lund University;|University of Cincinnati;|Christian-Albrechts-University at Kiel;|North Dakota State University;|Ghent University;|USDA-ARS National Agricultural Library;|USDA-ARS Bee Research Lab;|Lomonosov Moscow State University;|Prince of Songkla University;|Wayne State University;|University of Valencia;|National Institute of Science Education and Research;|University of Padova;|National Institute of Biology, Slovenia;|Polish Academy of Sciences;|Aix-Marseille Universite;|University of Kentucky;|Texas A&M University, College Station;|Nanjing Agricultural University;|Skolkovo Institute of Science and Technolog;|Illinois Institute of Technology;|University of Wisconsin-Oshkosh;|Lawrence Berkeley National Laboratory;|USDA-ARS Center for Grain and Animal Health Research;|University of Cologne;|Max Planck Institute for Chemical Ecology, Jena;|USDA-ARS Insect Genetics and Biochemistry Research Unit;|University of Illinois at Urbana-Champaign;|Michigan State University;|Indiana University;|Cincinnati Children's Hospital Medical Center;|The Ohio State University;|Baylor College of Medicine
http://dx.doi.org/10.1101/186627 2017-09-22 Bioengineering Compact Standalone Platform for Neural Recording with Real-Time Spike Sorting and Data Logging Song Luan|Ian Williams|Michal Maslik|Yan Liu|Felipe de Carvalho|Andrew Jackson|Rodrigo Quian Quiroga|Timothy G Constandinou Centre for Bio-Inspired Technology, Imperial College London;|Institute of Neuroscience, Newcastle University;|Centre for Systems Neuroscience, University of Leicester
http://dx.doi.org/10.1101/192393 2017-09-22 Cancer Biology CC BY-NC-ND Revealing ETC-1922159 affected unknown 3rd order WNT10B-X-X combinations, in silico Mengsha Gong|Kibeom Kim|Christopher Frick|Micheal Abrams|Shriprakash Sinha|Ty Basinger|Lea Goentoro|Viviana Gardinaru|Frances Arnold|Richard Murray|Stephan Mayo|Thomas Rosenbaum Caltech;|Independent Researcher
http://dx.doi.org/10.1101/192708 2017-09-22 Genomics CC BY A high throughput screen for active human transposable elements Erika M Kvikstad|Paolo Piazza|Jenny C Taylor|Gerton Lunter University of Oxford;|Imperial College London
http://dx.doi.org/10.1101/192724 2017-09-22 Biophysics Mechanisms of improved specificity of engineered Cas9s revealed by single molecule analysis Digvijay Singh|Yanbo Wang|John Mallon|Olivia Yang|Jingyi Fei|Anustup Poddar|Damon Ceylan|Scott Bailey|Taekjip Ha Johns Hopkins University School of Medicine;|University of Chicago;|Johns Hopkins University
http://dx.doi.org/10.1101/192617 2017-09-22 Microbiology CC BY-NC-ND Social behavior in bees influences the abundance of Sodalis (Enterobacteriaceae) symbionts Benjamin ER Rubin|Jon G Sanders|Kyle M Turner|Naomi E Pierce|Sarah D Kocher Princeton University;|University of California San Diego;|Harvard University
http://dx.doi.org/10.1101/192500 2017-09-22 Biochemistry Molecular basis for the maintenance of lipid asymmetry in the outer membrane of Escherichia coli Jiang Yeow|Kang Wei Tan|Daniel A Holdbrook|Zhi-Soon Chong|Jan K Marzinek|Peter J Bond|Shu-Sin Chng National University of Singapore;|Bioinformatics Institute, A*STAR
http://dx.doi.org/10.1101/192674 2017-09-22 Cell Biology Actin enhances ER-mitochondrial calcium transfer and IMM constriction during mitochondrial division Rajarshi Chakrabarti|Wei-Ke Ji|Radu V Stan|Jaime de Juan-Sanz|Timothy A Ryan|Henry N Higgs Department of Biochemistry and Cell Biology, Geisel School of Medicine at Dartmouth. Hanover NH;|Department of Biochemistry, Weill Cornell Medical College, New York NY;|Department of Biochemistry and Cell Biology, Geisel School of Medicine at Dartmouth, Hanover NH
http://dx.doi.org/10.1101/192583 2017-09-22 Neuroscience CC BY-NC-ND Dysconnection of right parietal and frontal cortex in neglect syndrome Martin J. Dietz|Joergen F. Nielsen|Andreas Roepstorff|Marta I. Garrido Aarhus University;|The University of Queensland
http://dx.doi.org/10.1101/192716 2017-09-22 Cancer Biology CC BY Population-level distribution and putative immunogenicity of cancer neoepitopes Mary A Wood|Mayur Paralkar|Mihir P Paralkar|Austin Nguyen|Adam J Struck|Kyle Ellrott|Adam Margolin|Abhinav Nellore|Reid F Thompson Oregon Health and Science University;|Carnegie Mellon University;|Oregon State University
http://dx.doi.org/10.1101/192526 2017-09-22 Physiology CC BY-ND Cold-hearted bats: Cardiac function and metabolism of small bats during torpor at subzero temperatures Shannon E Currie|Clare Stawski|Fritz Geiser Leibniz Institute for Zoo and Wildlife Research;|University of New England
http://dx.doi.org/10.1101/169656 2017-09-22 Neuroscience Dynamical modulation of theta-gamma coupling during REM sleep Mojtaba Bandarabadi|Richard Boyce|Carolina Gutierrez Herrera|Claudio Bassetti|Sylvain Williams|Kaspar Schindler|Antoine Adamantidis University of Bern;|McGill University
http://dx.doi.org/10.1101/192518 2017-09-22 Neuroscience CC BY-NC Stimulus familiarity and expectation jointly modulate neural activity in the visual ventral stream Mariya E Manahova|Pim Mostert|Peter Kok|Jan-Mathijs Schoffelen|Floris P de Lange Radboud University Nijmegen, Donders Institute for Brain, Cognition and Behaviour;|Yale University
http://dx.doi.org/10.1101/192385 2017-09-22 Bioinformatics CC BY-NC-ND ANTENNA, a Multi-Rank, Multi-Layered Recommender System for Inferring Reliable Drug-Gene-Disease Associations: Repurposing Diazoxide as a Targeted Anti-Cancer Therapy Annie Wang|Hansaim Lim|Shu-Yuan Cheng|Lei Xie The Bronx High School of Science;|The City University of New York
http://dx.doi.org/10.1101/192195 2017-09-22 Systems Biology CC BY-NC-ND Promoter architecture determines co-translational regulation of mRNA Maria Lorena Espinar Calvo|Miquel Angel Schikora Tamarit|Julia Domingo Espinos|Lucas B Carey Bioinformatics and Genomics Programme, Centre for Genomic Regulation (CRG), 88 Dr. 10 Aiguader, 080;|Universitat Pompeu Fabra (UPF), Barcelona, Spain.;|EMBL-CRG Systems Biology Research Unit, Centre for Genomic Regulation (CRG), The Barcelona Institute;|Pompeu Fabra Univ.
http://dx.doi.org/10.1101/192492 2017-09-22 Cancer Biology Drosophila larval brain neoplasms present tumour-type dependent genome instability Fabrizio Rossi|Camille Stephan-Otto Attolini|Jose Luis Mosquera|Cayetano Gonzalez Institute for Research in Biomedicine (IRB Barcelona)
http://dx.doi.org/10.1101/192401 2017-09-22 Systems Biology CC BY Interaction Between Host MicroRNAs and the Gut Microbiota in Colorectal Cancer Ce Yuan|Michael Burns|Subbaya Subramanian|Ran Blekhman University of Minnesota;|Loyola University
http://dx.doi.org/10.1101/192070 2017-09-22 Neuroscience CC BY-NC Auditory brainstem responses to continuous natural speech in human listeners Ross K Maddox|Adrian K C Lee University of Rochester;|University of Washington
http://dx.doi.org/10.1101/192559 2017-09-22 Bioengineering Deep-learning based hologram classification for molecular diagnostics Sung-Jin Kim|Bing Zhao|Hyungsoon Im|Jouha Min|Nuri Choi|Cesar M. Castro|Ralph Weissleder|Hakho Lee|Kwonmoo Lee Worcester Polytechnic Institute;|Massachusetts General Hospital
http://dx.doi.org/10.1101/192419 2017-09-22 Neuroscience CC BY-NC-ND Effects of tDCS Dosage on Working Memory in Healthy Participants Stevan Nikolin|Donel Martin|Colleen K Loo|Tjeerd W. Boonstra University of New South Wales
http://dx.doi.org/10.1101/190629 2017-09-22 Evolutionary Biology CC BY The genomic landscape at a late stage of stickleback speciation: high genomic divergence interspersed by small localized regions of introgression Jun Kitano|Mark Ravinet|Kohta Yoshida|Atsushi Toyoda|Asao Fujiyama|Shuji Shigenobu National Institute of Genetics;|National Institute of Basic Biology
http://dx.doi.org/10.1101/192468 2017-09-22 Ecology CC BY-NC-ND R2ucare: An R package to perform goodness-of-fit tests for capture-recapture models Olivier Gimenez|Jean-Dominique Lebreton|Remi Choquet|Roger Pradel CNRS
http://dx.doi.org/10.1101/188177 2017-09-22 Epidemiology CC BY-NC-ND Food environments and obesity: cannot see the fat for the restaurants? John Speakman|Mohsen Mazidi Institute of Genetics and Developmental Biology
http://dx.doi.org/10.1101/191932 2017-09-22 Immunology CC BY Aging Of Antiviral CD8+ Memory T Cells Fosters Increased Survival, Metabolic Adaptations And Lymphoid Tissue Homing Bennett Davenport|Jens Eberlein|Verena van der Heide|Kevin Jhun|Tom Nguyen|Francisco Victorino|Andrew Trotta|Jerry Chipuk|Zhengzi Yi|Weijia Zhang|Eric Clambey|Donald K Scott|Dirk Homann University of Colorado Denver;|Icahn School of Medicine at Mount Sinai;|University of Colorado
http://dx.doi.org/10.1101/192021 2017-09-22 Immunology Stage-specific ISG expression reveals functional convergence of type I and II IFNs in SIV infection Nadia Echebli|Nicolas Tchitchek|Stephanie Dupuy|Timothee Bruel|Caroline Pereira Bittencourt Passaes|Nathalie Bosquet|Roger Le Grand|Christine Bourgeois|Benoit Favier|Remi Cheynier|Olivier Lambotte|Bruno Vaslin Université Paris Sud;|CEA;|Université Paris Descartes;|Institut Pasteur;|Institute of Emerging Diseases and Innovative Therapies (IMETI), CEA;|Commissariat a l'Energie Atomique;|INSERM;|Inserm U1012
http://dx.doi.org/10.1101/191965 2017-09-22 Cell Biology CC BY-NC-ND Propagating actomyosin-generated force to intercellular junction Vivian W. Tang University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/192047 2017-09-22 Bioengineering CC BY MICCS: A Fully Programmable Multipurpose Integrated Cell Culture System Timothy Kassis|Paola M. Perez|Chloe J. W. Yang|Luis R. Soenksen|David L. Trumper|Linda G. Griffith Massachusetts Institute of Technology
http://dx.doi.org/10.1101/191825 2017-09-22 Evolutionary Biology Natural selection on plasticity of thermal traits in a highly seasonal environment Leonardo D Bacigalupe|Aura M Barria|Avia Gonzalez-Mendez|Manuel Ruiz-Aravena|Juan Diego Gaitan-Espitia|Mark Trinder|Barry Sinervo Instituto de Ciencias Ambientales y Evolutivas, Facultad de Ciencias, Universidad Austral de Chile;|School of Biological Sciences, Faculty of Sciences, Engineering & Technology, University of Tasmania;|CSIRO Oceans and Atmosphere, GPO Box 1538, Hobart 7001, TAS, Australia;|MacArthur Green, 95 South Woodside Road, Glasgow, UK;|Department of Ecology and Evolutionary Biology, University of California, Santa Cruz, CA, 95064, USA
http://dx.doi.org/10.1101/192245 2017-09-22 Neuroscience CC BY-NC-ND The neurobiology of agrammatic sentence comprehension: a lesion study Corianne Rogalsky|Arianna N. LaCroix|Kuan-Hua Chen|Steven W. Anderson|Hanna Damasio|Tracy Love|Gregory Hickok Arizona State University;|University of California, Berkeley;|University of Iowa;|University of Southern California;|San Diego State University;|greg.hickok@uci.edu
http://dx.doi.org/10.1101/191395 2017-09-22 Genomics CC BY Single Cell RNA Sequencing of stem cell-derived retinal ganglion cells. Maciej Daniszewski|Anne Senabouth|Quan Nguyen|Duncan E Crombie|Samuel W Lukowski|Tejal Kulkarni|Donald J Zack|Alice Pebay|Joseph E Powell|Alex Hewitt Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital, East Melbourne, Australia;|Institute for Molecular Bioscience, University of Queensland, St Lucia, Brisbane, Australia;|Wilmer Eye Institute, Johns Hopkins University School of Medicine, Baltimore, MD, USA;|School of Medicine, Menzies Institute for Medical Research, University of Tasmania, Australia
http://dx.doi.org/10.1101/192237 2017-09-22 Epidemiology CC BY Selection bias in instrumental variable analyses Rachael A Hughes|Neil M Davies|George Davey Smith|Kate Tilling University of Bristol
http://dx.doi.org/10.1101/192971 2017-09-23 CC BY Filling Gaps in Bacterial Amino Acid Biosynthesis Pathways with High-throughput Genetics Morgan Price|Grant M Zane|Jennifer V Kuehl|Ryan A Melnyk|Judy D Wall|Adam M Deutschbauer|Adam P Arkin Lawrence Berkeley Lab;|University of Missouri
http://dx.doi.org/10.1101/192856 2017-09-23 CC BY Extracting Evidence Fragments for Distant Supervision of Molecular Interactions Gully A Burns|Pradeep Dasigi|Eduard H. Hovy University of Southern California;|Carnegie Mellon University
http://dx.doi.org/10.1101/192997 2017-09-23 CC BY-NC Microglia from offspring of dams with allergic asthma exhibit epigenomic alterations in genes dysregulated in autism Annie Vogel Ciernia|Milo Careaga|Janine LaSalle|Paul Ashwood University of California, Davis
http://dx.doi.org/10.1101/192567 2017-09-23 Progesterone receptor maintains estrogen receptor gene expression by regulating DNA methylation in hormone-free breast cancer cells Gaetano Verde|Lara I De Llobet|Roni H.G.Wright|Javier Quilez|Sandra Peiro|Francois Le Dily|Miguel Beato Centre for Genomic Regulation;|Vall d Hebron Institute of Oncology
http://dx.doi.org/10.1101/193094 2017-09-23 miRNAgFree: prediction and profiling of novel microRNAs without genome assembly Ernesto L. Aparicio|Antonio Rueda|Bastian Fromm|Cristina Gomez-Martin|Ricardo Lebron|Jose L Oliver|Juan A Marchal|Michail Kotsyfakis|Michael Hackenberg University of Granada;|Genomics England;|Oslo University Hospital;|6Biology Center of the Czech Academy of Sciences
http://dx.doi.org/10.1101/193144 2017-09-23 CC BY-ND Multi-platform discovery of haplotype-resolved structural variation in human genomes Mark J.P. Chaisson|Ashley D. Sanders|Xuefang Zhao|Ankit Malhotra|David Porubsky|Tobias Rausch|Eugene J. Gardner|Oscar Rodriguez|Li Guo|Ryan L. Collins|Xian Fan|Jia Wen|Robert E. Handsaker|Susan Fairley|Zev N. Kronenberg|Xiangmeng Kong|Fereydoun Hormozdiari|Dillon Lee|Aaron M. Wenger|Alex Hastie|Danny Antaki|Peter Audano|Harrison Brand|Stuart Cantsilieris|Han Cao|Eliza Cerveira|Chong Chen|Xintong Chen|Chen-Shan Chin|Zechen Chong|Nelson T. Chuang|Deanna M. Church|Laura Clarke|Andrew Farrell|Joey Flores|Timur Galeev|Gorkin David|Madhusudan Gujral|Victor Guryev|William Haynes-Heaton|Jonas Korlach|Sushant Kumar|Jee Young Kwon|Jong Eun Lee|Joyce Lee|Wan-Ping Lee|Sau Peng Lee|Patrick Marks|Karine Valud-Martinez|Sascha Meiers|Katherine M. Munson|Fabio Navarro|Bradley J. Nelson|Conor Nodzak|Amina Noor|Sofia Kyriazopoulou-Panagiotopoulou|Andy Pang|Yunjiang Qiu|Gabriel Rosanio|Mallory Ryan|Adrian Stutz|Diana C.J. Spierings|Alistair Ward|AnneMarie E. Welsch|Ming Xiao|Wei Xu|Chengsheng Zhang|Qihui Zhu|Xiangqun Zheng-Bradley|Goo Jun|Li Ding|Chong Lek Koh|Bing Ren|Paul Flicek|Ken Chen|Mark B. Gerstein|Pui-Yan Kwok|Peter M. Lansdorp|Gabor Marth|Jonathan Sebat|Xinghua Shi|Ali Bashir|Kai Ye|Scott E. Devine|Michael Talkowski|Ryan E. Mills|Tobias Marschall|Jan Korbel|Evan E. Eichler|Charles Lee University of Washington;|European Molecular Biology Laboratory;|University of Michigan;|Jackson Laboratories;|European Research Institute for the Biology of Ageing, University of Groningen;|University of Maryland;|Icahn School of Medicine, Mount Sinai;|Xi an Jiao Tong University;|Harvard Medical School;|M.D. Anderson;|U.N.C. Charlotte;|Stanley Center for Psychiatric Research; Harvard Medical School;|European Molecular Biology Laboratory, European Bioinformatics Institute;|Yale;|University of California, Davis;|University of Utah School of Medicine;|Pacific Biosciences;|BioNano Genomics;|University of California, San Diego;|10X Genomics;|University of Utah;|Illumina;|University of Groningen;|DNA Link;|TreeCode Sdn Bhd;|University of North Carolina;|Drexel University;|The University of Texas Health Science Center at Housto;|Washington University School of Medicine;|University of Malaya;|University of California, San Francisco;|BC Cancer Agency;|Icahn School of Medicine at Mount Sinai;|Xi an Jiao Tong University;|Harvard Medical School;|Saarland University
http://dx.doi.org/10.1101/192872 2017-09-23 CC BY-NC-ND Strelka2: Fast and accurate variant calling for clinical sequencing applications Sangtae Kim|Konrad Scheffler|Aaron L Halpern|Mitchell A Bekritsky|Eunho Noh|Morten Kallberg|Xiaoyu Chen|Doruk Beyter|Peter Krusche|Christopher T Saunders Illumina, Inc.;|Illumina Cambridge Ltd.;|University of California San Diego
http://dx.doi.org/10.1101/193037 2017-09-23 CC BY-NC-ND A common pattern of DNase-I footprinting throughout the human mtDNA unveils clues for a chromatin-like organization Amit Blumberg|Charles G. Danko|Anshul Kundaje|Dan Mishmar Ben Gurion University of the Negev;|Cornell University;|Stanford University;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/191809 2017-09-23 CC BY-NC-ND CRISPR/Cas9-mediated resistance to cauliflower mosaic virus Haijie Liu|Cara Soyars|Jianhui Li|Qili Fei|Guijuan He|Brenda A. Peterson|Blake C. Meyers|Zachary L. Nimchuk|Xiaofeng Wang Virginia Tech;|University of North Carolina at Chapel Hill;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/182329 2017-09-23 Olfactory sensation promotes social motivation in the mouse. Tsung-Han Kuo|Sandeepa Dey|Norah Koblesky|Sourish Mukhopadhyay|Lisa Stowers National Tsing Hua University;|The Scripps Research Institute;|University of California, San Diego
http://dx.doi.org/10.1101/193169 2017-09-23 CC BY Predicting drug safety and communicating risk: benefits of a Bayesian approach Stanley E Lazic|Nicholas Edmunds|Christopher E Pollard AstraZeneca;|Drug Safety and Metabolism, AstraZeneca
http://dx.doi.org/10.1101/192591 2017-09-23 CC BY-NC-ND Contribution of the β-glucosidase BglC to the Onset of the Pathogenic Lifestyle of Streptomyces scabies Samuel Jourdan|Isolde M Francis|Benoit Deflandre|Elodie Tenconi|Jennifer Riley|Soren Planckaert|Pierre Tocquin|Loic Martinet|Bart Devreese|Rosemary Loria|Sebastien Rigali University of Liege;|California State University, Bakersfield;|Ghent University;|University of Florida
http://dx.doi.org/10.1101/192823 2017-09-23 CC BY Effective reserve: a latent variable to improve outcome prediction in stroke Markus D Schirmer|Mark R Etherton|Adrian V Dalca|Anne-Katrin Giese|Lisa Cloonan|Ona Wu|Polina Golland|Natalia S Rost Harvard Medical School;|Massachusetts Institute of Technology;|Athinoula A Martinos Center for Biomedical Engineering
http://dx.doi.org/10.1101/193011 2017-09-23 CC BY-NC-ND Genetic validation of bipolar disorder identified by automated phenotyping using electronic health records Chia-Yen Chen|Phil Lee|Victor Castro|Jessica Minnier|Alexander Charney|Eli Stahl|Douglas Ruderfer|Shawn Murphy|Vivian Gainer|Tianxi Cai|Ian Jones|Carlos Pato|Michele Pato|Mikael Landen|Pamela Sklar|Roy Perlis|Jordan Smoller Massachusetts General Hospital;|Oregon Health & Sciences University;|Icahn School of Medicine at Mount Sinai;|Vanderbilt University Medical Center;|Harvard T.H. Chan School of Public Health;|Cardiff University;|SUNY Downstate Medical Center;|Karolinska Institutet
http://dx.doi.org/10.1101/193003 2017-09-23 Long-term cardiovascular re-programming by short-term perinatal exposure to nicotine's main metabolite cotinine Stefano Bastianini|Viviana Lo Martire|Alessandro Silvani|Giovanna Zoccoli|Chiara Berteotti|Hugo Lagercrantz|Anders Arner|Gary Cohen University of Bologna;|Karolinska Institutet
http://dx.doi.org/10.1101/192963 2017-09-23 Synthetic Biology CC BY-NC-ND A plasmid-based Escherichia coli gene expression system with cell-to-cell variation below the extrinsic noise limit Zach Hensel ITQB NOVA
http://dx.doi.org/10.1101/193029 2017-09-23 Synthetic Biology Biosensor libraries harness large classes of binding domains for allosteric transcription regulators Javier F. Juarez|Begona Lecube-Azpeitia|Stuart L. Brown|George M. Church Harvard Medical School
http://dx.doi.org/10.1101/193045 2017-09-23 Biophysics CC BY-NC Structure and function of the intermembrane space domain of mammalian FoF1 ATP synthase Niels Fischer|Victoria Beilsten-Edmands|Dror Chorev|Florian Hauer|Chimari Jiko|Satoru Shimada|Kyoko Shinzawa-Itoh|Carol Robinson|Holger Stark|Christoph Gerle Max Planck Institute for Biophysical Chemistry;|Oxford University;|Osaka University;|University of Hyogo
http://dx.doi.org/10.1101/192799 2017-09-23 Molecular Biology CC BY-NC-ND Characterization and Validation of a Novel Group of Type V, Class 2 Nucleases for in vivo Genome Editing Matthew B Begemann|Benjamin N Gray|Emma January|Anna Singer|Dylan C Kelser|Yonghua He|Haijun Liu|Hongjie Guo|Alex Jordan|Thomas P Brutnell|Todd C Mockler|Mohammed Oufattole Benson Hill Biosystems
http://dx.doi.org/10.1101/193250 2017-09-24 CC BY-NC-ND Predictive orientation remapping maintains a stable retinal percept T. Scott Murdison|Gunnar Blohm|Frank Bremmer Oculus;|Queen's University;|Philipps-Universität Marburg
http://dx.doi.org/10.1101/193193 2017-09-24 CC BY-NC WHOLE GENOME BISULPHITE SEQUENCING USING THE ILLUMINA HISEQ X SYSTEM Masako Suzuki|Will Liao|Frank Wos|Andrew D Johnston|Justin DeGrazia|Jennifer Ishii|Toby Bloom|Michael C Zody|Soren Germer|John M Greally Albert Einstein College of Medicine;|New York Genome Center
http://dx.doi.org/10.1101/193243 2017-09-24 Daily activity and visual discrimination reflects the eye organization of weaver ant Oecophylla smaragdina (Insecta: Hymenoptera: Formicidae) Monalisa Mishra|Snigdha Bhadani NIT Rourkela
http://dx.doi.org/10.1101/193276 2017-09-24 CC BY-NC-ND Systematic identification of cancer-specific MHC-binding peptides with RAVEN Michaela C Baldauf|Julia S Gerke|Andreas Kirschner|Franziska Blaeschke|Manuel Effenberger|Kilian Schober|Rebeca Alba Rubio|Takayuki Kanaseki|Merve M Kiran|Marlene Dallmayer|Julian Musa|Nusret Akpolat|Ayse N Akatli|Fernando C Rosman|Ozlem Ozen|Shintaro Sugita|Tadashi Hasegawa|Haruhiko Sugimura|Daniel Baumhoer|Maximilian ML Knott|Giuseppina Sannino|Aruna Marchetto|Jing Li|Dirk H Busch|Tobias Feuchtinger|Shunya Ohmura|Martin F Orth|Uwe Thiel|Thomas Kirchner|Thomas GP Grunewald Max-Eder Research Group for Pediatric Sarcoma Biology, Institute of Pathology, Medical Faculty, LMU;|Childrens Cancer Research Center, Technische Universitaet Muenchen (TUM), Munich, Germany;|Dr. von Haunersches Childrens Hospital, LMU Munich, Munich, Germany;|Institute for Medical Microbiology, Immunology and Hygiene, TU Munich, Munich, Germany;|Department of Pathology, Sapporo Medical University, Sapporo, Japan;|Department of Pathology, Medical Faculty, Yildirim Beyazit University, Ankara, Turkey;|Department of Pathology, Turgut Ozal Medical Center, Inonu University, Malatya, Turkey;|Hospital Municipal Jesus, Rio de Janeiro, Brazil;|Department of Pathology, Medical Faculty, Başkent University Hospital, Ankara, Turkey;|Department of Tumor Pathology, Hamamatsu School of Medicine, Hamamatsu, Japan;|Bone Tumor Reference Center, Institute of Pathology of the University Hospital of Basel, Switzerland;|Institute of Pathology, Medical Faculty, LMU Munich, Munich, Germany
http://dx.doi.org/10.1101/192443 2017-09-24 Evolutionary Transitions in Heritability and Individuality Pierrick Bourrat Macquarie University
http://dx.doi.org/10.1101/193219 2017-09-24 CC BY-NC CUT&RUN: Targeted in situ genome-wide profiling with high efficiency for low cell numbers Peter J. Skene|Steven Henikoff Fred Hutchinson Cancer Reseearch Center
http://dx.doi.org/10.1101/193334 2017-09-24 Neuroscience CC BY-NC-ND Adaptation to a Space-variant Visuomotor Delay can Cause Neglect-like Effects on Drawing Symmetry Chen Avraham|Guy Avraham|Ferdinando Mussa-Ivaldi|Ilana Nisky Ben-Gurion University of the Negev;|Rehabilitation Institute of Chicago
http://dx.doi.org/10.1101/192658 2017-09-24 Neuroscience CC BY-NC-ND Perimenstrual Symptom Exacerbation in Borderline Personality Disorder: Evidence from Multilevel Models and the Carolina Premenstrual Assessment Scoring System Tory Eisenlohr-Moul|Katja M Schmalenberger|Sarah Owens|Jessica R Peters|Danyelle N Dawson|Susan S Girdler University of North Carolina at Chapel Hill;|Heidelberg University;|Brown University
http://dx.doi.org/10.1101/193110 2017-09-24 Physiology Bcl11b is a Newly Identified Regulator of Vascular Smooth Muscle Phenotype and Arterial Stiffness Jeff Arni Valisno|Pavania Elavalakanar|Christopher Nicholson|Kuldeep Singh|Dorina Avram|Richard A. Cohen|Gary F. Mitchell|Kathleen G. Morgan|Francesca Seta Boston University School of Medicine;|Boston University;|University of Florida;|Cardiovascular Engineering
http://dx.doi.org/10.1101/193235 2017-09-24 Neuroscience CC BY-NC-ND Effector-dependent response deterioration by stochastic transformations reveals mixed reference frames for decisions T. Scott Murdison|Dominic Standage|Philippe Lefevre|Gunnar Blohm Oculus;|Queen's University;|Université Catholique de Louvain
http://dx.doi.org/10.1101/193326 2017-09-24 Genomics CC BY Human Ageing Genomic Resources: 2018 Update Robi Tacutu|Daniel Thornton|Emily Johnson|Arie Budovsky|Diogo Barardo|Thomas Craig|Gilad Lehmann|Dmitri Toren|Vadim Fraifeld|Joao Pedro de Magalhaes University of Liverpool;|Ben-Gurion University of the Negev;|National University of Singapore
http://dx.doi.org/10.1101/193342 2017-09-24 Neuroscience CC BY-NC-ND 2D:4D and spatial abilities: From rats to humans Nils Muller|Siobhan Campbell|Mio Nonaka|Thomas Rost|G Pipa|Boris Konrad|Axel Steiger|Micheal Czisch|Guillen Fernandez|Martin Dresler|Lisa Genzel Donders Institute;|University of Edinburgh;|University of Osnabrueck;|MPI Psychiatry
http://dx.doi.org/10.1101/193201 2017-09-24 Neuroscience CC BY-NC-ND Electrophysiological correlates of semantic dissimilarity reflect the comprehension of natural, narrative speech. Michael P Broderick|Andrew J Anderson|Giovanni M Di Liberto|Michael J Crosse|Edmund C Lalor Trinity College Dublin;|University of Rochester;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/193292 2017-09-24 Cancer Biology A Mechanism of ATF5 Anti-Apoptotic Action that Promotes Leukemia Cells Survival Stephan Persengiev BIOCONSP Biomedical Consulting, The Hague, The Netherlands
http://dx.doi.org/10.1101/193375 2017-09-24 CC BY-NC-ND Interphase Human Chromosome Exhibits Out of Equilibrium Glassy Dynamics Guang Shi|Lei Liu|Changbong Hyeon|Dave Thirumalai University of Maryland;|Korea Institute for Advanced Study;|University of Texas at Austin
http://dx.doi.org/10.1101/193185 2017-09-24 Epidemiology CC BY-NC-ND Insights into Hepatitis C Transmission in Young Persons who Inject Drugs: Results From a Dynamic Modeling Approach Informed by State-Level Public Health Surveillance Data Rachel E Gicquelais|Betsy Foxman|Joseph Coyle|Marisa C Eisenberg University of Michigan, Ann Arbor;|Michigan Department of Health and Human Services
http://dx.doi.org/10.1101/193391 2017-09-24 Bioinformatics CC BY-NC Efficient Multi-task chemogenomics for drug specificity prediction Benoit Playe|Chloe-Agathe Azencott|Veronique Stoven Mines ParisTech;|Mines ParusTech
http://dx.doi.org/10.1101/192765 2017-09-24 Genetics CC BY In vivo, chromatin is a fluctuating polymer chain at equilibrium constrained by internal friction Marius Socol|Renjie Wang|Daniel Jost|Pascal Carrivain|Vincent Dahirel|Amel Zedek|Christophe Normand|Kerstin Bystricky|Jean-Marc Victor|Olivier Gadal|Aurelien Bancaud LAAS - CNRS;|Henan University of Technology;|CNRS;|CNRS - ENS Lyon;|CNRS - UPMC;|CNRS - UT3PS;|Univ Paris 6 - CNRS;|University of Toulouse
http://dx.doi.org/10.1101/193466 2017-09-25 Molecular Biology CC BY-NC-ND CRISPR/Cas9 cleavages in budding yeast reveal templated insertions and strand-specific insertion/deletion profiles Brenda R. Lemos|Adam C. Kaplan|Ji Eun Bae|Alexander Ferazzoli|James Kuo|Ranjith P. Anand|David P. Waterman|James E. Haber Brandeis Univeristy;|Brandeis University
http://dx.doi.org/10.1101/193615 2017-09-25 Immunology CC BY-NC-ND Sepsis: Partial least squares structural equation modelling (PLS-SEM) suggests a critical role for anti-inflammatory responses in clinical severity Ratnadeep Mukherjee|Pijus Barman|Pravat Thatoi|Birendra Prusty|Rina Tripathy|Bidyut Das|Balachandran Ravindran Institute of Life Sciences;|SCB Medical College
http://dx.doi.org/10.1101/193672 2017-09-25 Microbiology CC BY Isolation of phosphate solubilizing Pseudomonas strains from apple rhizosphere in the Trans Himalayan region of Himachal Pradesh, India Ranjna Sharma|Joginder Pal|Mohinder Kaur Dr. Y. S. Parmar University - Solan
http://dx.doi.org/10.1101/193623 2017-09-25 Biophysics Development of noninvasive biomarkers of response to proteasome inhibitor therapy (ixazomib) by imaging disrupted protein homeostasis in mouse models of solid tumors Yanan Zhu|Rajiv Ramasawmy|Sean Peter Johnson|Valerie Taylor|Alasdair Gibb|R. Barbara Pedley|Nibedita Chattopadhyay|Mark F. Lythgoe|Xavier Golay|Daniel Bradley|Simon Walker-Samuel University College London;|Takeda Pharmaceutical International Corporation
http://dx.doi.org/10.1101/193631 2017-09-25 Systems Biology Integrated pathogen load and dual transcriptome analysis of systemic host-pathogen interactions in severe malaria Hyun Jae Lee|Michael Walther|Athina Georgiadou|Davis Nwakanma|Lindsay B. Stewart|Michael Levin|Thomas D. Otto|David J. Conway|Lachlan J. Coin|Aubrey J. Cunnington Institute for Molecular Bioscience, University of Queensland, Brisbane, Australia;|Medical Research Council Gambia Unit, Fajara, The Gambia;|Section of Paediatrics, Imperial College, London, UK;|Dept. of Pathogen Molecular Biology, London School of Hygiene and Tropical Medicine, UK;|Wellcome Trust Sanger Centre, Hinxton, United Kingdom
http://dx.doi.org/10.1101/193656 2017-09-25 Biophysics Non-invasive measurement of hepatic venous oxygen saturation (ShvO2) with quantitative susceptibility mapping in normal mouse liver and livers bearing colorectal metastases Eoin Finnerty|Rajiv Ramasawmy|James O'Callaghan|John Connell|Mark F. Lythgoe|Karin Shmueli|David Thomas|Simon Walker-Samuel University College London
http://dx.doi.org/10.1101/193607 2017-09-25 Bioinformatics CC BY QuiXoT: quantification and statistics of high-throughput proteomics by stable isotope labelling Marco Trevisan-Herraz|Inmaculada Jorge|Elena Bonzon-Kulichenko|Pedro Navarro|Jesus Vazquez Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC);|Centro de Biología Molecular Severo Ochoa (CBMSO)
http://dx.doi.org/10.1101/193581 2017-09-25 Immunology Antibodies set boundaries limiting microbial metabolite penetration and the resultant mammalian host response Yasuhiro Uchimura|Tobias Fuhrer|Hai Li|Melissa A. Lawson|Michael Zimmermann|Mercedes Gomez de Aguero|Bahtiyar Yilmaz|Francesca Ronchi|Marcel Sorribas|Siegfried Hapfelmeier|Stephanie C. Ganal-Vonarburg|Kathy D. McCoy|Uwe Sauer|Andrew J. Macpherson Department of Biomedical Research, University of Bern, 3010 Bern, Switzerland;|Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland;|Institute for Infectious Diseases, University of Bern, 3010 Bern, Switzerland
http://dx.doi.org/10.1101/193599 2017-09-25 Systems Biology Reprogramming, oscillations and transdifferentiation in epigenetic landscapes Bivash Kaity|Ratan Sarkar|Buddhapriya Chakrabarti|Mithun K. Mitra Indian Institute of Technology, Bombay;|Indian Institute of Science, Bangalore;|University of Sheffield
http://dx.doi.org/10.1101/193318 2017-09-25 Neuroscience CC BY-NC-ND Synaptic co-transmission of acetylcholine and GABA regulates hippocampal states Virag T. Takacs|Csaba Cserep|Daniel Schlingloff|Balazs Posfai|Andras Szonyi|Katalin E. Sos|Zsuzsanna Kornyei|Adam Denes|Attila I. Gulyas|Tamas F. Freund|Gabor Nyiri Institute of Experimental Medicine
http://dx.doi.org/10.1101/193540 2017-09-25 Microbiology Cryptococcus neoformans can form titan-like cells in vitro in response to multiple signals that require the activation of several transduction pathways Nuria Trevijano-Contador|Suelen A. Rossi|Haroldo C. de Oliveira|Irene Llorente|Ines Correia|Jesus Pla|Angel Zaballos|Joaquin Arino|Oscar Zaragoza National Centre for Microbiology, Instituto de Salud Carlos III;|Department of Microbiology II, Complutense University of Madrid, Madrid, Spain;|Genomics Unit, Core Scientific Services, Instituto de Salud Carlos III, Majadahonda, Spain;|Institut de Biotecnologia i Biomedicina, UAB, Barcelona, Spain
http://dx.doi.org/10.1101/193557 2017-09-25 Bioinformatics CC BY Natural changes in light interact with circadian regulation at promoters to control gene expression in cyanobacteria Joseph Robert Piechura|Kapil Amarnath|Erin K. O'Shea Harvard University;|HHMI, Harvard University Faculty of Arts & Sciences Center for Systems Biology
http://dx.doi.org/10.1101/193524 2017-09-25 Pharmacology and Toxicology Proteomic Characterization Of The Venom Of Five Bombus (Thoracobombus) Species Nezahat Pinar Barkan|Mustafa Bilal Bayazit|Fatma Duygu Ozel Demiralp Hacettepe University, Department of Biology;|University of Lausanne, Department of Fundamental Neurosciences;|Ankara University, Faculty of Engineering, Biomedical Engineering
http://dx.doi.org/10.1101/191478 2017-09-25 Microbiology CC BY-NC-ND Prasinovirus attack of Ostreococcus is furtive by day but savage by night Evelyne Derelle|Sheree Yau|Herve Moreau|Nigel H Grimsley Integrative Marine Biology Laboratory (BIOM), CNRS UMR7232, Sorbonne Universities
http://dx.doi.org/10.1101/193367 2017-09-25 Synthetic Biology CC BY-NC-ND An automated model test system for systematic development and improvement of gene expression models Alexander C Reis|Howard Salis Pennsylvania State University;|Penn State University
http://dx.doi.org/10.1101/193417 2017-09-25 Genetics CC BY-NC-ND Separating an allele associated with late flowering and slow maturation of Arabidopsis thaliana from population structure Yanjun Zan|Xiao Feng|Zheng Ning|Weilin Xu|Qianhui Wan|Dongyu Zeng|Ziyi Zeng|Yang Liu|Xia Shen Uppsala University;|Sun Yat-sen University;|Karolinska Institutet;|University of Edinburgh
http://dx.doi.org/10.1101/193359 2017-09-25 Molecular Biology Differential Impacts of Dietary Modification on Individual Metabolic Phenotypes and their Relationship to Blood Pressure: Evidence of Latent Dietary Responder Sub-phenotypes Ruey Leng Loo|Xin Zou|Lawrence Appel|Jeremy Nicholson|Elaine Holmes University of Kent;|Shanghai Jiao Tong University;|Johns Hopkins Bloomberg School of Public Health;|Imperial College
http://dx.doi.org/10.1101/181529 2017-09-25 Bioengineering CC BY-ND PERFORMANCE OF AN AMBULATORY DRY-EEG DEVICE FOR AUDITORY CLOSED-LOOP STIMULATIONS IN THE HOME ENVIRONMENT Eden Debellemaniere|Stanislas Chambon|Clemence Pinaud|Valentin Thorey|Damien Leger|Mounir Chennaoui|Pierrick J Arnal|Mathieu N Galtier Research & Algorithms Team, Rythm sas / EA7330 VIFASOM, Hotel Dieu, APHP, Universite Descartes/ IRBA;|Research & Algorithms Team, Rythm sas / LTCI, Telecom ParisTech, Universite Paris-Saclay, Paris;|Research & Algorithms Team, Rythm sas;|EA7330 VIFASOM, Hotel Dieu Paris, APHP, Universite Paris Descartes, Paris;|Unite Fatigue et Vigilance, Neurosciences et contraintes operationnelles, IRBA, Bretigny-sur-Orge
http://dx.doi.org/10.1101/193516 2017-09-25 Bioengineering CC BY-ND Depth Dependent Nanomechanical Analysis of Extracellular Matrix in Multicell Spheroids. Varun Vyas|Melani Solomon|Gerard G. M. D'Souza|Bryan D. Huey University of Connecticut;|Pharmaceutical Sciences, Massachusetts College of Pharmacy & Health Sciences
http://dx.doi.org/10.1101/192732 2017-09-25 Ecology CC BY-NC-ND Expedited Assessment of Terrestrial Arthropod Diversity by Coupling Malaise Traps with DNA Barcoding Jeremy R. deWaard|Valerie Levesque-Beaudin|Stephanie L. deWaard|Natalia V. Ivanova|Jaclyn T.A. McKeown|Renee Miskie|Suresh Naik|Kate Perez|Sujeevan Ratnasingham|Crystal N. Sobel|Jayme E. Sones|Claudia Steinke|Angela C. Telfer|Andrew D. Young|Monica R. Young|Evgeny V. Zakharov|Paul D.N. Hebert Centre for Biodiversity Genomics, University of Guelph;|Department of Biology, Carleton University
http://dx.doi.org/10.1101/193433 2017-09-25 Physiology CC BY The importance of geometry in the corneal micropocket assay James A Grogan|Anthony J Connor|Joe M Pitt-Francis|Philip K Maini|Helen M Byrne Wolfson Centre for Mathematical Biology, Mathematical Institute, University of Oxford, Oxford, UK;|Department of Computer Science, University of Oxford, Oxford, UK
http://dx.doi.org/10.1101/193508 2017-09-25 Neuroscience CC BY-NC-ND Layer-Specific Molecular Dynamics of PKMζ in Sensorimotor Cortex During Acquisition and Storage of Procedural Memory Peng P. Gao|Jeffrey H. Goodman|Todd C. Sacktor|Joseph T. Francis SUNY Downstate Medical Center
http://dx.doi.org/10.1101/193474 2017-09-25 Cell Biology Architecture of mammalian centriole distal appendages accommodates distinct blade and matrix functional elements T. Tony Yang|Weng Man Chong|Won-Jing Wang|Gregory Mazo|Barbara Tanos|Zhengmin Chen|Minh Nguyet Thi Tran|Yi-De Chen|Rueyhung Roc Weng|Chia-En Huang|Wann-Neng Jane|Meng-Fu Bryan Tsou|Jung-Chi Liao Institute of Atomic and Molecular Sciences, Academia Sinica;|Institute of Biochemistry and Molecular Biology, National Yang Ming University;|Cell Biology Program, Memorial Sloan-Kettering Cancer Center;|Institute of Cancer Research;|Institute of Plant and Microbial Biology, Academia Sinica
http://dx.doi.org/10.1101/193425 2017-09-25 Evolutionary Biology CC BY-NC-ND An experimental test of the mutation-selection balance model for the maintenance of genetic variance in fitness components Nathaniel P Sharp|Aneil F Agrawal University of British Columbia;|University of Toronto
http://dx.doi.org/10.1101/193441 2017-09-25 Cancer Biology CC BY-NC-ND High concentrations of boric acid induce autophagy in cancer cell lines Ruslan Al-Ali|Rogelio Gonzalez-Sarmiento Molecular Medicine Unit -IBSAL, Departament of Medicine, University of Salamanca-University hospital;|olecular Medicine Unit -IBSAL, Departament of Medicine, University of Salamanca-University hospital
http://dx.doi.org/10.1101/193839 2017-09-25 CC BY-NC-ND Demography and selection shape transcriptomic divergence in field crickets Thomas Blankers|Sibelle Vilaca|Isabelle Waurick|David Gray|Matthias Hennig|Camila Mazzoni|Frieder Mayer|Emma Berdan Cornell University;|Trent University;|Naturkundemuseum Berlin;|California State University Northridge;|Humboldt-University Berlin;|Berlin Center for Genomics in Biodiversity Research;|University of Gothenburg
http://dx.doi.org/10.1101/193847 2017-09-25 CC BY-NC-ND Dephosphorylation of the NPR2 guanylyl cyclase contributes to inhibition of bone growth by fibroblast growth factor Leia C. Shuhaibar|Jerid W. Robinson|Ninna P. Shuhaibar|Jeremy R. Egbert|Giulia Vigone|Valentina Baena|Deborah Kaback|Siu-Pok Yee|Robert Feil|Melanie C. Fisher|Caroline N. Dealy|Lincoln R. Potter|Laurinda A. Jaffe University of Connecticut Health Center;|University of Minnesota;|University of Tubingen
http://dx.doi.org/10.1101/193854 2017-09-25 CC BY SETDB1 prevents TET2-dependent activation of IAP retroelements in naïve embryonic stem cells Ozgen Deniz|Lorenzo de la Rica|Kevin C. L. Cheng|Dominik Spensberger|Miguel R. Branco Blizard Institute, QMUL;|CIMR, University of Cambridge
http://dx.doi.org/10.1101/193805 2017-09-25 CC BY-NC Copy number heterogeneity, large origin tandem repeats, and interspecies recombination in HHV-6A and HHV-6B reference strains Alexander Greninger|Pavitra Roychoudhury|Negar Makhsous|Derek Hanson|Jill Chase|Gerhard Krueger|Hong Xie|Meei-Li Huang|Lindsay Saunders|Dharam Ablashi|David M. Koelle|Linda Cook|Keith R. Jerome University of Washington;|HHV-6 Foundation;|Texas Medical Center
http://dx.doi.org/10.1101/193797 2017-09-25 CC BY-NC-ND Developing an in silico minimum inhibitory concentration panel test for Klebsiella pneumoniae Marcus Nguyen|Thomas Brettin|S. Wesley Long|Randall J. Olsen|James M. Musser|Robert Olson|Maulik Shukla|Rick L. Stevens|Fangfang Xia|Hyunseung Yoo|James Davis University of Chicago Computation Institute;|Argonne National Laboratory;|Houston Methodist Hospital
http://dx.doi.org/10.1101/193730 2017-09-25 Deep learning diffusion fingerprinting to detect brain tumour response to chemotherapy Thomas A. Roberts|Ben Hipwell|Giulia Agliardi|Angela d'Esposito|Valerie Taylor|Mark F. Lythgoe|Simon Walker-Samuel University College London
http://dx.doi.org/10.1101/193698 2017-09-25 Continuous rearrangement of the postsynaptic gephyrin scaffolding domain: a super-resolution quantified and energetic approach Pamela C. Rodriguez|Leandro G. Almeida|Antoine Triller IBENS
http://dx.doi.org/10.1101/192484 2017-09-25 Sensory neuropathy-causing mutations in ATL3 cause aberrant ER membrane tethering Michiel Krols|Sammy Detry|Bob Asselbergh|Leonardo Almeida-Souza|Anna Kremer|Saskia Lippens|Riet de Rycke|Vicky De Winter|Franz-Josef Muller|Ingo Kurth|Harvey T. McMahon|Savvas N. Savvides|Vincent Timmerman|Sophie Janssens University of Antwerp;|Ghent University;|MRC Laboratory of Molecular Biology, Cambridge, UK;|University Hospital Schleswig-Holstein;|RWTH Aachen University
http://dx.doi.org/10.1101/193748 2017-09-25 Human olfactory cortex contributes to emotional and perceptual aspects of aversive associative learning and memory Yuqi You|Lucas Novak|Kevin Clancy|Wen Li Florida State University
http://dx.doi.org/10.1101/193722 2017-09-25 CC BY-NC PSGfinder: fast identification of genes under divergent positive selection using the dynamic windows method Joel Tuberosa|Juan I. Montoya-Burgos University of Geneva, Switzerland
http://dx.doi.org/10.1101/194506 2017-09-26 CC BY-NC-ND Genetic Adaptation of C. elegans to Environment Changes I: Multigenerational Analysis of the Transcriptome Irem Celen|Jung H. Doh|Chandran Sabanayagam University of Delaware
http://dx.doi.org/10.1101/190496 2017-09-26 CC BY-ND Internal Protein Motions in Molecular Dynamics Simulations of Bragg and Diffuse X-ray Scattering Michael Wall Los Alamos National Laboratory
http://dx.doi.org/10.1101/194175 2017-09-26 Developmental Biology CC BY Cell-type heterogeneity in the zebrafish olfactory placode is generated from progenitors within preplacodal ectoderm Raphael Aguillon|Julie Batut|Pascale Dufourcq|Romain Madelaine|Arul Subramanian|Thomas F. Schilling|Patrick Blader Université de Toulouse III, UPS/CNRS;|Stanford Center for Sleep Sciences and Medicine, Stanford University;|University of California, Irvine
http://dx.doi.org/10.1101/194043 2017-09-26 Ecology CC BY-NC-ND Effects of confinement on body mass and site fidelity of feral pigeons during the setting-up of pigeon houses. Julien Gasparini|Lise Dauphin|Justine Favreliere|Adrien Frantz|Lisa Jacquin|Charlotte Recapet|Anne-Caroline Prevot University of Pierre and Marie Curie;|Museum Nationale d'histoire Naturelle de Paris;|University Toulouse 3 Paul Sabatier;|University of la Rochelle;|Museum national d'histoire Naturelle de Paris
http://dx.doi.org/10.1101/194118 2017-09-26 Bioinformatics CC BY-ND Gauss-power mixing distributions comprehensively describe stochastic variations in RNA-seq data Akinori Awazu|Takahiro Tanabe|Mari Kamitani|Ayumi Tezuka|Atsushi J Nagano Hiroshima University;|Kyoto University;|Ryukoku University
http://dx.doi.org/10.1101/193573 2017-09-26 Genetics CC BY-NC-ND The contribution of common genetic risk variants for ADHD to a general factor of childhood psychopathology Isabell Brikell|Henrik Larsson|Yi Lu|Erik Pettersson|Qi Chen|Ralf Kuja-Halkola|Robert Karlsson|Benjamin B. Lahey|Paul Lichtenstein|Joanna Martin Karolinska Institutet;|Karolinska Institutet; Orebro University;|Karolinska Institutet; QIMR Berghofer Medical Research Institute;|University of Chicago;|Cardiff University; Karolinska Institutet
http://dx.doi.org/10.1101/194027 2017-09-26 Microbiology CC BY Impaired competence in flagellar mutants of Bacillus subtilis is connected to the regulatory network governed by DegU Theresa Hoelscher|Tina Schiklang|Anna Dragos|Anne-Kathrin Dietel|Christian Kost|Akos T. Kovacs Terrestrial Biofilms Group, Institute of Microbiology, Friedrich Schiller University Jena;|Experimental Ecology and Evolution Group, Max Planck Institute for Chemical Ecology, Jena;|Department of Ecology, School of Biology/Chemistry, University of Osnabrueck;|Bacterial Interactions and Evolution Group, Technical University of Denmark
http://dx.doi.org/10.1101/193771 2017-09-26 Cancer Biology Enhancers mapping uncovers phenotypic heterogeneity and evolution in patients with luminal breast cancer. Darren Patten|Giacomo Corleone|Balazs Gyorffy|Edina Erdos|Alina Saiakhova|Kate Goddard|Andrea Vingiani|Sami Shousha|Lorinc Sandor Pongor|Dimitri Hadjiminas|Gaia Schiavon|Peter Barry|Carlo Palmieri|Charles Coombes|Peter Scacheri|Giancarlo Pruneri|Luca Magnani Imperial College London;|Hungarian Academy of Sciences;|University of Debrecen;|Case Western Reserve University;|Imperial College Healthcare NHS Trust;|European Institute of Oncology;|AstraZeneca;|The Royal Marsden NHS Foundation Trust;|NHS Foundation Trust and Royal Liverpool University Hospital;|Fondazione IRCCS Istituto Nazionale Tumori; University of Milan
http://dx.doi.org/10.1101/193938 2017-09-26 Genomics Leveraging lung tissue transcriptome to uncover candidate causal genes in COPD genetic associations Ma'en Obeidat|Maxime Lamontagne|Jean-Christophe Berube|Michael H. Cho|Brian D. Hobbs|Kim de Jong|H. Marike Boezen|David Nickle|Ke Hao|Wim Timens|Maarten van den Berge|Philippe Joubert|Michel Laviolette|Don D. Sin|Peter D. Pare|Yohan Bosse University of British Columbia;|Institut universitaire de cardiologie et de pneumologie de Québec;|Brigham and Women's Hospital;|University of Groningen;|-;|Merck Research Laboratories;|Icahn School of Medicine at Mount Sinai;|Laval University
http://dx.doi.org/10.1101/193870 2017-09-26 Bioinformatics CC BY-NC-ND A literature review at genome scale: improving clinical variant assessment Christopher Cassa|Daniel M. Jordan|Ivan Adzhubei|Shamil Sunyaev Brigham & Women's Hospital, Harvard Medical School;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/193714 2017-09-26 Ecology CC BY-NC-ND Fitness effects and transmission of phoretic nematodes of the burying beetle, Nicrophorus vespilloides Yin Wang|Daniel Rozen Institute of Biology, Leiden
http://dx.doi.org/10.1101/194092 2017-09-26 Neuroscience Hippocampal atrophy and intrinsic brain network alterations relate to impaired capacity for mind wandering in neurodegeneration Claire O'Callaghan|James Shine|John Hodges|Jessica Andrews-Hanna|Muireann Irish University of Cambridge;|University of Sydney;|University of Colorado Boulder
http://dx.doi.org/10.1101/193987 2017-09-26 Neuroscience CC BY-NC-ND A neural decoder for learned vocal behavior Ezequiel Arneodo|Shukai Chen|Vikash Gilja|Timothy Q. Gentner University of California San Diego;|Department of Bioengineering, University of California San Diego;|Department of Electrical and Computer Engineering, University of California San Diego;|Kavli Institute for Brain and Mind
http://dx.doi.org/10.1101/194134 2017-09-26 Neuroscience CC BY Name Conditioning in Event-Related Brain Potentials Boris Kotchoubey|Yuri G. Pavlov University of Tuebingen;|University of Tuebingen, Ural Federal University
http://dx.doi.org/10.1101/193490 2017-09-26 Genomics Improved Prokaryotic Gene Prediction Yields Insights into Transcription and Translation Mechanisms on Whole Genome Scale Alexandre Lomsadze|Karl Gemayel|Shiyuyun Tang|Mark Borodovsky Gerogia Tech;|Georgia Tech
http://dx.doi.org/10.1101/194084 2017-09-26 Evolutionary Biology CC BY-NC-ND Determinants of genetic structure of the Sub-Saharan parasitic wasp Cotesia sesamiae Antoine Branca|Bruno P. Le Ru|Paul-Andre Calatayud|Julius O. Obonyo|Boaz Musyoka|Claire Capdevielle-Dulac|Laure Kaiser-Arnauld|Jean-Francois Silvain|Jeremy Gauthier|Corentin Paillusson|Philippe Gayral|Elisabeth Herniou|Stephane Dupas Ecologie, Systematics & Evolution, Univ. Paris-Sud, CNRS, Paris-Saclay, AgroParisTech;|UMR Evolution, Genome, Comportement, Ecologie, CNRS-IRD-Univ. Paris-Sud, IDEEV, ICIPE;|ICIPE (African Insect Science for Food and Health);|UMR Evolution, Genome, Comportement, Ecologie, CNRS-IRD-Univ. Paris-Sud, IDEEV;|Institut de Recherche sur la Biologie de Insecte, Univ. François Rabelais
http://dx.doi.org/10.1101/192955 2017-09-26 Ecology CC BY-NC-ND Smallholder agriculture and the fate of a hyperdiverse tropical biota Jacob B Socolar|Elvis H Valderrama Sandoval|David S Wilcove University of Connecticut;|Universidad Nacional de la Amazonia Peruana;|Princeton University
http://dx.doi.org/10.1101/193920 2017-09-26 Genomics CC BY-NC-ND Systemic Markers of Adaptive and Innate Immunity Are Associated with COPD Severity and Spirometric Disease Progression Eitan Halper-Stromberg|Jeong H. Yun|Margaret M. Parker|Ruth M. Tal-Singer|Amit Gaggar|Edwin K. Silverman|Sonia Leach|Russell P. Bowler|Peter J. Castaldi University of Colorado School of Medicine;|Brigham and Women's Hospital;|GSK;|University of Alabama at Birmingham;|National Jewish Health
http://dx.doi.org/10.1101/193789 2017-09-26 Cancer Biology CC BY Non-canonical aberrant DNA hypermethylation in glioma Agustin Fernandez|Gustavo F. Bayon|Marta I. Sierra|Rocio G. Urdinguio|Estela G. Torano|Maria Garcia|Antonella Carella|Virginia Lopez|Pablo Santamarina|Thalia Belmonte|Juan Ramon Tejedor|Isabel Cobo|Pablo Menendez|Cristina Mangas|Cecilia Ferrero|Luis Rodrigo|Aurora Astudillo|Ignacio Ortea|Sergio Cueto|Pablo Rodriguez-Gonzalez|J. Ignacio Garcia Alonso|Manuela Mollejo|Barbara Melendez|Gemma Dominguez|Felix Bonilla|Mario F. Fraga Universidad de Oviedo;|Institute of Oncology of Asturias (IUOPA), HUCA, Universidad de Oviedo;|Nanomaterials and Nanotechnology Research Center (CINN-CSIC), Universidad de Oviedo;|Institute of Oncology of Asturias (IUOPA), ISPA-HUCA, Universidad de Oviedo;|Josep Carreras Leukemia Research Inst.; Department of Biomedicine, University of Barcelona;|Josep Carreras Leukemia Reserach Institute;|Hospital Universitario Central de Asturias (HUCA);|Maimonides Institute for Biomedical Research;|University of Oviedo;|Hospital Virgen de la Salud;|Hospital Universitario Puerta de Hierro;|CINN-CSIC
http://dx.doi.org/10.1101/191676 2017-09-26 Evolutionary Biology CC BY-NC-ND Seasonal influenza circulation patterns and projections for Sep 2017 to Sep 2018 Trevor Bedford|Richard Neher Fred Hutchinson Cancer Research Center;|University of Basel
http://dx.doi.org/10.1101/193912 2017-09-26 Bioinformatics DAFi: A Directed Recursive Filtering and Clustering Approach to Data-Driven Identification of Cell Populations from Polychromatic Flow Cytometry Data Alexandra J Lee|Ivan Chang|Julie G Burel|Cecilia S Lindestam Arlehamn|Daniela Weiskopf|Bjoern Peters|Alessandro Sette|Richard H Scheuermann|Yu Qian J. Craig Venter Institute;|La Jolla Institute for Allergy and Immunology
http://dx.doi.org/10.1101/194159 2017-09-26 Biophysics CC BY-NC The mechano-chemistry of reverse transcriptase Omri Malik|Hadeel Khamis|Sergei Rudnizky|Ariel Kaplan Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/193755 2017-09-26 Scientific Communication and Education Award or Reward? Which comes first, NIH funding or research impact? Lucas C Parra|Lukas Hirsch City College of New York
http://dx.doi.org/10.1101/193904 2017-09-26 Biophysics CC BY-NC-ND Comprehensive, high-resolution binding energy landscapes reveal context dependencies of transcription factor binding Daniel D Le|Tyler C Shimko|Arjun K Aditham|Allison M Keys|Yaron Orenstein|Polly Fordyce Stanford University;|Ben-Gurion University
http://dx.doi.org/10.1101/195065 2017-09-27 CC BY-NC Enriched pathogen diversity under host-type heterogeneity and immune-mediated competition Pamela P. Martinez|Robert J. Woods|Mercedes Pascual University of Chicago;|University of Michigan
http://dx.doi.org/10.1101/194076 2017-09-27 CC BY Age at first birth in women is genetically associated with increased risk of schizophrenia Guiyan Ni|Jacob Gratten|Naomi R. Wray|Sang Hong Lee University of New England;|University of Queensland;|-;|University of South Australia
http://dx.doi.org/10.1101/195081 2017-09-27 CC BY-NC-ND Intragenus variation in a Chemokine Receptor Gene (CCR5) in Homo Kara C. Hoover University of Alaska
http://dx.doi.org/10.1101/195149 2017-09-27 CC BY-NC PharmacoDB: an integrative database for mining in vitro anticancer drug screening studies Petr Smirnov|Victor Kofia|Alexander Maru|Mark Freeman|Chantal Ho|Nehme El-Hachem|George-Alexandru Adam|Wail Ba-alawi|Zhaleh Safikhani|Benjamin Haibe-Kains University Health Network
http://dx.doi.org/10.1101/195123 2017-09-27 CC BY-NC-ND Chronic intermittent nicotine delivery with lung alveolar region-targeted aerosol technology produces circadian blood pharmacokinetics in rats resembling human smokers Xuesi Max Shao|Siyu Liu|Eon S Lee|David Fung|Hua Pei|Jing Liang|Ross Mudgway|Jingxi Zhang|Jack L Feldman|Yifang Zhu|Stan Louie|Xinmin S Xie David Geffen School of Medicine at UCLA, Los Angeles, CA, USA;|School of Pharmacy University of Southern California, Los Angeles, CA, USA;|Dept. of Environmental Health Sciences, UCLA Fielding School of Public Health, Los Angeles, CA;|School of Pharmacy University of Southern California, Los Angeles, CA;|Department of Neurobiology, David Geffen School of Medicine at UCLA, Los Angeles, CA;|AfaSci Research Laboratories, AfaSci Inc., Redwood City, CA
http://dx.doi.org/10.1101/195180 2017-09-27 CC BY-NC-ND Entering the era of conservation genomics: Cost-effective assembly of the African wild dog genome using linked long reads Ellie E Armstrong|Ryan W. Taylor|Stefan Prost|Peter Blinston|Esther van der Meer|Hillary Madzikanda|Olivia Mufute|Roseline Mandisodza|John Steulpnagel|Claudio Sillero-Zubiri|Dmitri Petrov Stanford University;|Painted Dog Conservation;|The Zimbabwe Parks & Wildlife Management Authority;|10x Genomics, Inc.;|University of Oxford
http://dx.doi.org/10.1101/195099 2017-09-27 CC BY-NC-ND Inhaled nicotine equivalent to cigarette smoking disrupts systemic and uterine hemodynamics and induces cardiac arrhythmia in pregnant rats Xuesi Max Shao|Hector E. Lopez-Valdes|Jing Liang|Jack L. Feldman David Geffen School of Medicine at UCLA, Los Angeles, CA, USA;|Faculty of Medicine, Universidad Nacional Autonoma de Mexico, Mexico City, Mexico;|University of Southern California School of Pharmacy, Los Angeles, CA, USA
http://dx.doi.org/10.1101/195040 2017-09-27 CC BY-NC-ND Sub-threshold resonance organizes activity and optimizes learning in neural networks. James P. Roach|Aleksandra Pidde|Eitan Katz|Jiaxing Wu|Nicolette Ognjanovski|Sara J. Aton|Michal R. Zochowski University of Michigan
http://dx.doi.org/10.1101/194795 2017-09-27 Individual nephron proteomes connect morphology and function in proteinuric kidney disease Martin Hoehne|Christian Frese|Florian Grahammer|Claudia Dafinger|Giuliano Ciarimboli|Linus Butt|Julia Binz|Matthias Hackl|Mahdieh Rahmatollahi|Martin Kann|Simon Schneider|Mehmet Altintas|Bernhard Schermer|Thomas Reinheckel|Heike Goebel|Jochen Reiser|Tobias Huber|Rafael Kramann|Tamina Seeger-Nukpezah|Max Liebau|Bodo Beck|Thomas Benzing|Andreas Beyer|Markus Rinschen University Hospital Cologne;|CECAD;|University Hospital Hamburg;|University of Muenster;|University Hospital Freiburg;|Rush University;|University of Freiburg;|RWTH Aachen
http://dx.doi.org/10.1101/195131 2017-09-27 CC BY-NC-ND The architecture and design of ecological null models Joshua Ladau Gladstone Institutes
http://dx.doi.org/10.1101/194381 2017-09-27 Quaddles: A multidimensional 3D object set with parametrically-controlled and customizable features Marcus Robert Watson|Benjamin Voloh|Milad Naghizadeh|Thilo Womelsdorf York University;|Vanderbilt University
http://dx.doi.org/10.1101/195115 2017-09-27 CC BY Global analysis of specificity determinants in eukaryotic protein kinases David Bradley|Cristina Vieitez|Vinothini Rajeeve|Pedro R. Cutillas|Pedro Beltrao EMBL-EBI;|EMBL;|Barts Cancer Institute, Queen Mary University of London
http://dx.doi.org/10.1101/194837 2017-09-27 The distribution of crossovers, and the measure of total recombination Carl Veller|Martin Nowak Harvard University
http://dx.doi.org/10.1101/194936 2017-09-27 CC BY-NC-ND Successful optimization of CRISPR/Cas9-mediated defined point mutation knock-in using allele-specific PCR assays in zebrafish Sergey V. Prykhozhij|Charlotte Fuller|Shelby L. Steele|Chansey J. Veinotte|Babak Razaghi|Christopher McMaster|Adam Shlien|David Malkin|Jason N. Berman Dalhousie University;|Appili Therapeutics;|University of Toronto
http://dx.doi.org/10.1101/194019 2017-09-27 CC BY Estimation of genetic correlation using linkage disequilibrium score regression and genomic restricted maximum likelihood Guiyan Ni|Gerhard Moser|Naomi R. Wray|Sang Hong Lee University of New England;|-;|University of Queensland;|University of South Australia
http://dx.doi.org/10.1101/194993 2017-09-27 Human replication licensing factor Cdt1 directly links mitotic kinetochores to spindle microtubules Shivangi Agarwal|Kyle Smith|Yizhuo Zhou|Aussie Suzuki|Richard McKenney|Dileep Varma Northwestern University;|UNC Chapel Hill;|UC Davis
http://dx.doi.org/10.1101/194969 2017-09-27 CC BY-NC-ND Traditional Norwegian Kveik Yeasts: Underexplored Domesticated Saccharomyces cerevisiae Yeasts Richard Preiss|Caroline Tyrawa|George van der Merwe Escarpment Laboratories;|University of Guelph
http://dx.doi.org/10.1101/195073 2017-09-27 CC BY Spatially uniform establishment of chromatin accessibility in the early Drosophila embryo Jenna E. Haines|Michael B. Eisen University of California, Berkeley
http://dx.doi.org/10.1101/195016 2017-09-27 CC BY-NC-ND Improved prediction of Bovine Leucocyte Antigens (BoLA) presented ligands by use of MS eluted ligands and in-vitro binding data; impact for the identification T cell epitopes Morten Nielsen|Tim Connelley|Nicola Ternette Department of Bio and Health Informatics, The Technical University of Denmark;|The Roslin Institute, Edinburgh, Midlothian EH25 9RG, UK;|The Jenner Institute, Target Discovery Institute Mass Spectrometry Laboratory, Oxford, UK
http://dx.doi.org/10.1101/194712 2017-09-27 CC BY Approximate Bayesian computation reveals the importance of repeated measurements for parameterising cell-based models of growing tissues Jochen Kursawe|Ruth E. Baker|Alexander George Fletcher University of Oxford;|University of Sheffield
http://dx.doi.org/10.1101/194951 2017-09-27 The CLAVATA receptor FASCIATED EAR2 responds to different CLE peptides by signaling through different downstream effectors. Byoung Il Je|Fang Xu|Qingyu Wu|Lei Liu|Robert Meeley|David Jackson Cold Spring Harbor Laboratory;|DuPont Pioneer, Agricultural Biotechnology
http://dx.doi.org/10.1101/195008 2017-09-27 CC BY-NC-ND Inferring processes of community assembly from macroscopic patterns: the case for inclusive and mechanistic approaches Mikael Pontarp|Ake Brannstrom|Owen Petchey University of Zurich;|Umea Universitet
http://dx.doi.org/10.1101/194944 2017-09-27 CC BY-NC-ND Mixed model association for biobank-scale data sets Po-Ru Loh|Gleb Kichaev|Steven Gazal|Armin P. Schoech|Alkes L. Price Brigham and Women's Hospital and Harvard Medical School;|University of California, Los Angeles;|Harvard T. H. Chan School of Public Health
http://dx.doi.org/10.1101/194829 2017-09-27 Neural coding of fine-grained object knowledge in perirhinal cortex Amy Rose Price|Michael F. Bonner|Jonathan E. Peelle|Murray Grossman Princeton University;|University of Pennsylvania;|Washington University in St. Louis
http://dx.doi.org/10.1101/194886 2017-09-27 Kinetics of HIV-Specific CTL Responses Plays a Minimal Role in Determining HIV Escape Dynamics Yiding Yang|Vitaly V. Ganusov University of Tennessee
http://dx.doi.org/10.1101/194977 2017-09-27 CC BY-NC-ND Assessing the quality of supplementary sensory feedback using a crossmodal congruency task Daniel Blustein|Adam Wilson|Jon Sensinger University of New Brunswick
http://dx.doi.org/10.1101/194845 2017-09-27 Cancer Biology CC BY-ND A system-wide approach to monitor responses to synergistic BRAF and EGFR inhibition in colorectal cancer cells Anna Ressa|Evert Bosdriesz|Joep de Ligt|Sara Mainardi|Gianluca Maddalo|Anirudh Prahallad|Myrthe Jager|Lisanne de la Fonteijne|Martin Fitzpatrick|Stijn Groten|A. F. Maarten Altelaar|Rene R. Bernards|Edwin Cuppen|Lodewyk Wessels|Albert J. R. Heck Utrecht University;|VU University, Amsterdam, The Netherlands;|University Medical Center Utrecht, Utrecht University;|Netherlands Cancer Institute (NKI);|KTH Royal Institute of Technology;|The Netherlands Cancer Institute;|Hubrecht Institute, KNAW and University Medical Centre Utrecht;|Netherlands Cancer Institute
http://dx.doi.org/10.1101/194589 2017-09-27 Microbiology CC BY-NC-ND Stress granule-inducing eukaryotic translation initiation factor 4A inhibitors block influenza A virus replication Patrick D. Slaine|Mariel Kleer|Nathan Smith|Denys A. Khaperskyy|Craig McCormick Dalhousie University
http://dx.doi.org/10.1101/194308 2017-09-27 Ecology CC BY FENNEC - Functional Exploration of Natural Networks and Ecological Communities Markus J. Ankenbrand|Sonja C. Y. Hohlfeld|Frank Foerster|Alexander Keller University of Wuerzburg;|Fraunhofer Institute for Molecular Biology and Applied Ecology IME, Giessen
http://dx.doi.org/10.1101/194852 2017-09-27 Developmental Biology CC BY-NC-ND Transcriptional control by Sall4 in blastocysts facilitates lineage commitment of inner cell mass cells Anzy Miller|Sarah Gharbi|Charles Etienne-Dumeau|Ryuichi Nishinakamura|Brian Hendrich University of Cambridge;|Kumamoto University
http://dx.doi.org/10.1101/193458 2017-09-27 Bioengineering Non-Elastic Remodeling of the 3D Extracellular Matrix by Cell-Generated Forces Andrea Malandrino|Michael Mak|Xavier Trepat|Roger D. Kamm Massachusetts Institute of Technology;|Yale University;|Institute for Bioengineering of Catalonia
http://dx.doi.org/10.1101/193813 2017-09-27 Evolutionary Biology CC BY-NC Gene transfers, like fossils, can date the Tree of Life Adrian A. Davin|Eric Tannier|Tom A. Williams|Bastien Boussau|Vincent Daubin|Gergely J. Szollosi Universite Lyon 1;|INRIA; Universite Lyon 1;|University of Bristol;|CNRS, Universite Lyon 1;|MTA-ELTE Lendulet Evolutionary Genomics Research Group; Eotvos Lorand University
http://dx.doi.org/10.1101/194621 2017-09-27 Neuroscience CC BY-NC Real Time Estimation of Population Receptive Fields Using Gradient Descent Mario Senden Maastricht University
http://dx.doi.org/10.1101/194563 2017-09-27 Neuroscience CC BY-NC-ND MatClassRSA: A Matlab toolbox for M/EEG classification and visualization of proximity matrices Bernard C. Wang|Anthony M. Norcia|Blair Kaneshiro Stanford University
http://dx.doi.org/10.1101/194753 2017-09-27 Paleontology History is written by the victors: the effect of the push of the past on the fossil record Graham E. Budd|Richard P. Mann Uppsala University;|University of Leeds
http://dx.doi.org/10.1101/194571 2017-09-27 Biophysics Quantification of cellular distribution as Poisson process in 3D matrix using a multiview light-sheet microscope Warren Colomb|Matthew Osmond|Charles Durfee|Melissa D. Krebs|Susanta K. Sarkar Colorado School of Mines
http://dx.doi.org/10.1101/194597 2017-09-27 Bioinformatics CC BY The Generalized Data Model for Clinical Research Mark D. Danese|Marc Halperin|Jennifer Duryea|Ryan Duryea Outcomes Insights, Inc.
http://dx.doi.org/10.1101/194605 2017-09-27 Bioengineering Fundamentals of injection molding for microfluidic cell-based assays Ulri N. Lee|Xiaojing Su|David J. Guckenberger|Ashley M. Dostie|Tianzi Zhang|Erwin Berthier|Ashleigh B. Theberge University of Washington;|Salus Discovery LLC
http://dx.doi.org/10.1101/194746 2017-09-27 Cell Biology CC BY-NC-ND Uncoordinated centrosome duplication cycle underlies the instability of non-diploid states in mammalian somatic cells Kan Yaguchi|Ryo Matsui|Takahiro Yamamoto|Yuki Tsukada|Atsuko Shibanuma|Keiko Kamimura|Toshiaki Koda|Ryota Uehara Graduate School of Life Science, Hokkaido University;|Graduate School of Science, Nagoya University;|Creative Research Institution, Hokkaido University
http://dx.doi.org/10.1101/174656 2017-09-27 Ecology CC BY-NC Otolith microchemistry identifies diadromous populations of Patagonian river fishes Dominique Alo|Cristian Correa|Horacio Samaniego|Corey A. Krabbenhoft|Thomas F. Turner Pontificia Universidad Catolica de Chile;|Universidad Austral de Chile;|Wayne State University;|University of New Mexico
http://dx.doi.org/10.1101/194530 2017-09-27 Bioinformatics CC BY-NC-ND Fast and Accurate Genomic Analyses using Genome Graphs Goran Rakocevic|Vladimir Semenyuk|James Spencer|John Browning|Ivan Johnson|Vladan Arsenijevic|Jelena Nadj|Kaushik Ghose|Maria C. Suciu|Sun-Gou Ji|Gulfem Demir|Lizao Li|Berke C. Toptas|Alexey Dolgoborodov|Bjoern Pollex|Peter Komar|Yilong Li|Milos Popovic|Wan-Ping Lee|Morten Kallberg|Amit Jain|Deniz Kural Seven Bridges Genomics, Inc, Cambridge, MA 02140
http://dx.doi.org/10.1101/194654 2017-09-27 Biophysics GLP-1 receptor agonist ameliorates obesity-induced chronic kidney injury via restoring renal lipid and energy metabolism homeostasis: revealed by metabolomics Chengshi Wang|Ling Li|Shuyun Liu|Guangneng Liao|Lan Li|Younan Chen|Jingqiu Cheng|Yanrong Lu|Jingping Liu Key Laboratory of Transplant Engineering & Immunology, West China Hospital, Sichuan Univ.;|Division of Nephrology, Kidney Research Institute, West China Hospital, Sichuan University
http://dx.doi.org/10.1101/194340 2017-09-27 Ecology Goodness of fit checks for binomial N-mixture models Jonas Knape|Debora Arlt|Frederic Barraquand|Ake Berg|Mathieu Chevalier|Tomas Part|Alejandro Ruete|Micha Zmihorski Swedish University of Agricultural Sciences;|University of Bordeaux;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/194738 2017-09-27 Evolutionary Biology Genomic signature of experimental adaptation of Staphylococcus aureus to a natural combination of insect antimicrobial peptides Olga Makarova|Paul Johnston|Alexandro Rodriguez-Rojas|Baydaa el-Shazely|Javier Moreno-Morales|Jens Rolff Freie Universität Berlin
http://dx.doi.org/10.1101/194613 2017-09-27 Cell Biology Resolving ESCRT-III spirals at the intercellular bridge of dividing cells using 3D STORM imaging Inna Goliand|Tali Dadosh|Natalie Elia Ben Gurion University;|Weizman Institute;|Ben Gurion University of the Negev
http://dx.doi.org/10.1101/194670 2017-09-27 Genomics Integrative Statistical Inferences for Drug Sensitivity Biomarkers in Cancer Ehsan Ullah|Saila Shama|Noora Al Muftah|Ian Richard Thompson|Reda Rawi|Raghvendra Mall|Halima Bensmail Qatar Computing Institute, HBKU;|University of Toronto;|Harvard School of Public Health;|Qatar Biomedical Research Institute, HBKU;|National Institute of Allergy and Infectious Diseases, NIH
http://dx.doi.org/10.1101/194266 2017-09-27 Genetics Genome-wide Association Study Links APOEϵ4 and BACE1 Variants with Plasma Amyloid β Levels Vincent Chouraki|Sven J. van der Lee|Benjamin Grenier-Boley|Jeannette Simino|Hieab Adams|Giuseppe Tosto|Charles White|Natalie Terzikhan|Carlos Cruchaga|Maria J. Knol|Shuo Li|Susanna Schraen|Megan L. Grove|Claudia L. Satizabal|Najaf Amin|Claudine Berr|Steven Younkin|Rebecca F. Gottesman|Luc Buee|Alexa Beiser|David S. Knopman|Andre Uitterlinden|Charles DeCarli|Jan Bressler|Anita DeStefano|Jean-Francois Dartigues|Qiong Yang|Eric Boerwinkle|Christophe Tzourio|Myriam Fornage|M. Arfan Ikram|Philippe Amouyel|Phil de Jager|Christiane Reitz|Thomas H. Mosley|Jean-Charles Lambert|Sudha Seshadri|Cornelia van Duijn Lille University School of Medicine;|Alzheimer Center, Department of Neurology, VU University Medical Center;|Lille University, Inserm, Lille University Hospital, Institut Pasteur de Lille, U1167 - RID-AGE;|University of Mississippi Medical Center;|Erasmus MC;|Taub Institute for Research on Alzheimer's Disease and the Aging Brain;|Broad Institute;|Department of Respiratory Medicine, Ghent University Hospital;|Department of Psychiatry, Washington University in St. Louis, Saint Louis, Missouri, USA;|Department of Epidemiology, Erasmus Medical Center, Rotterdam, The Netherlands;|Boston University School of Public Health;|Lille University, CHU-Lille, Inserm, UF de Neurobiologie, CBPG, Lille, France;|School of Public Health, The University of Texas Health Science Center at Houston;|Boston University;|INSERM U1061, University of Montpellier, Montpellier, France;|Department of Neuroscience, Mayo Clinic, Jacksonville, Florida 32224, USA;|-;|Johns Hopkins University School of Medicine;|Lille University, Inserm, Lille University Hospital, URM-S1172;|Department of Neurology, Mayo Clinic College of Medicine, Rochester, MN, USA;|Department of Internal Medicine, Erasmus Medical Center, Rotterdam, The Netherlands;|Department of Neurology, University of California at Davis, Davis, CA, USA;|The University of Texas Health Science Center at Houston;|INSERM, UMR1219, Bordeaux Univ., Bordeaux Population Health Research Center, France;|Columbia University Medical Center
http://dx.doi.org/10.1101/194704 2017-09-27 Molecular Biology Allosteric Activation of p300 Autoacetylation by the Tumor Suppressor p53 Stephanie Kaypee|Raka Ghosh|Smitha Asoka Sahadevan|Manidip Shasmal|Piya Ghosh|Neeladri Roy|Jayati Sengupta|Siddhartha Roy|Tapas K. Kundu Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore;|Bose Institute, Kolkata;|CSIR-Indian Institute of Chemical Biology, Kolkata
http://dx.doi.org/10.1101/194688 2017-09-27 Ecology Bdellovibrio and like organisms bacterial predators are not equally distributed in peri-alpine lakes Benoit Paix|Stephan Jacquet INRA
http://dx.doi.org/10.1101/194225 2017-09-27 Bioengineering CC BY-NC-ND Evaluating Internal Model Strength and Performance of Myoelectric Prosthesis Control Strategies Ahmed W. Shehata|Erik J. Scheme|Jonathon W. Sensinger University of New Brunswick
http://dx.doi.org/10.1101/194282 2017-09-27 Bioengineering Hydrogel encapsulation of living organisms for long-term microscopy Kyra Burnett|Eric Edsinger|Dirk R. Albrecht Worcester Polytechnic Institute;|Marine Biological Laboratory
http://dx.doi.org/10.1101/193664 2017-09-27 Microbiology Direct PCR offers a fast and reliable alternative to conventional DNA isolation methods for animal gut microbiomes Elin Videvall|Maria Strandh|Anel Engelbrecht|Schalk Cloete|Charlie K. Cornwallis Lund University;|Western Cape Department of Agriculture
http://dx.doi.org/10.1101/194480 2017-09-27 Bioinformatics CC BY-NC-ND A distributed algorithm to maintain and repair the trail networks of arboreal ants Arjun Chandrasekhar|Deborah M. Gordon|Saket Navlakha UCSD;|Stanford;|Salk Institute
http://dx.doi.org/10.1101/194191 2017-09-27 Physiology CC BY-NC-ND A preliminary analysis of the association between perceived stigma and HIV-related pain Antonia L. Wadley|Tamar Pincus|Michael Evangeli Brain Function Research Group, Faculty of Health Sciences, University of the Witwatersrand;|Department of Psychology, Royal Holloway University of London, London, UK
http://dx.doi.org/10.1101/191056 2017-09-27 Bioinformatics Reconstruction of developmental landscapes by optimal-transport analysis of single-cell gene expression sheds light on cellular reprogramming. Geoffrey Schiebinger|Jian Shu|Marcin Tabaka|Brian Cleary|Vidya Subramanian|Aryeh Solomon|Siyan Liu|Stacie Lin|Peter Berube|Lia Lee|Jenny Chen|Justin Brumbaugh|Philippe Rigollet|Konrad Hochedlinger|Rudolf Jaenisch|Aviv Regev|Eric Lander Broad Institute of MIT and Harvard; MIT Center for Statistics;|Broad Institute of MIT and Harvard; Whitehead Institute for Biomedical Research;|Broad Institute of MIT and Harvard;|Broad Institute of MIT and Harvard; Computational and Systems Biology Program, MIT;|Broad Institute of MIT and Harvard; Biochemistry Program, Wellesley College;|Broad Institute of MIT and Harvard; Department of Biology, MIT;|Broad Institute of MIT and Harvard; Harvard-MIT Division of Health Sciences and Technology;|Department of Stem Cell and Regenerative Biology, Harvard University;|Department of Mathematics, Massachusetts Institute of Technology;|Dept. of Stem Cell and Regenerative Biology, Harvard; Howard Hughes Medical Institute;|Whitehead Institute for Biomedical Research; Computational & Systems Biology Program, MIT;|Broad Institute of MIT & Harvard; Dept. of Biology, MIT; Howard Hughes Medical Institute;|Broad Inst. of MIT and Harvard; Dept. of Biology, MIT; Systems Biology, Harvard Med. School
http://dx.doi.org/10.1101/194290 2017-09-27 Genetics Genome-wide interaction study of stress-sensitivity and its prediction of major depressive disorder in UK Biobank and Generation Scotland Aleix Arnau Soler|Pippa Thomson|Mark Adams|Caroline Hayward Institute of Genetics and Molecular Medicine (IGMM);|University of Edinburgh;|-
http://dx.doi.org/10.1101/194365 2017-09-27 Neuroscience CC BY-NC-ND MACS - a new SPM toolbox for model assessment, comparison and selection Joram Soch|Carsten Allefeld Bernstein Center for Computational Neuroscience, Berlin
http://dx.doi.org/10.1101/194514 2017-09-27 Molecular Biology CC BY-NC-ND Transcriptional development of phospholipid and lipoprotein metabolism in different intestinal regions of Atlantic salmon (Salmo salar) fry Yang Jin|Rolf Erik Olsen|Mari-Ann Ostensen|Gareth Benjamin Gillard|Sven Arild Korsvoll|Nina Santi|Arne Bjorke Gjuvsland|Jon Olav Vik|Jacob Seilo Torgersen|Simen Rod Sandve|Yngvar Olsen Norwegian University of Science and Technology;|Norwegian University of Life Sciences;|AquaGen AS
http://dx.doi.org/10.1101/194522 2017-09-27 Developmental Biology CC BY-NC Small RNAs are trafficked from the epididymis to developing mammalian sperm Upasna Sharma|Fengyun Sun|Brian Reichholf|Veronika Herzog|Stefan Ameres|Oliver Rando UMMS;|IMBA
http://dx.doi.org/10.1101/194415 2017-09-27 Neuroscience CC BY-NC-ND Olfactory fear conditioning non-specifically enhances glomerular odor responses and increases representational overlap of learned and neutral odors Jordan M. Ross|Max L. Fletcher University of Tennessee Health Science Center
http://dx.doi.org/10.1101/193136 2017-09-27 Genomics High-resolution genome-wide functional dissection of transcriptional regulatory regions in human Xinchen Wang|Liang He|Sarah Goggin|Alham Saadat|Li Wang|Melina Claussnitzer|Manolis Kellis MIT;|Broad Institute
http://dx.doi.org/10.1101/193995 2017-09-27 Genomics CC BY Extreme heterogeneity of influenza virus infection in single cells Alistair B. Russell|Cole Trapnell|Jesse D. Bloom Fred Hutchinson Cancer Research Center;|University of Washington
http://dx.doi.org/10.1101/194456 2017-09-27 Bioengineering A synthetic stroma-free germinal center niche using material-surface driven polyvalent signaling efficiently induces antigen-specific humoral immunity ex vivo Kyung-Ho Roh|Hannah K Wilson|Pallab Pradhan|Kevin Bai|Caitlin D Bohannon|Gordon Dale|Jardin A Leleux|Joshy Jacob|Krishnendu Roy University of Alabama - Huntsville;|Georgia Tech;|Emory University;|Georgia Institute of Technology
http://dx.doi.org/10.1101/194407 2017-09-27 Neuroscience CC BY-NC-ND Smart switching in feedforward control of grip force during manipulation of elastic objects Olivier White|Amir Karniel|Raz Leib|Charalambos Papaxanthis|Ilana Nisky Universite de Bourgogne-Franche Comte;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/194241 2017-09-27 Microbiology A universal, genome-wide guide finder for CRISPR/Cas9 targeting in microbial genomes Michelle Spoto|Elizabeth Fleming|Julia Oh The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/193961 2017-09-27 Neuroscience New evidence of a rhythmic priming effect that enhances grammaticality judgments in children Alexander Chern|Barbara Tillmann|Chloe Vaughan|Reyna L. Gordon Department of Otolaryngology, Vanderbilt University Medical Center;|Lyon Neuroscience Research Center;|Department of Hearing and Speech Sciences, Vanderbilt University School of Medicine
http://dx.doi.org/10.1101/194316 2017-09-27 Neuroscience The Complex Simplicity of the Brittle Star Nervous System Olga Zueva|Maleana Khoury|Thomas Heinzeller|Daria Mashanova|Vladimir Mashanov University of North Florida, Jacksonville, FL;|Ludwig-Maximilians-University Munich;|Mandarin High School, Jacksonville, FL
http://dx.doi.org/10.1101/194324 2017-09-27 Synthetic Biology CC BY Low cost and open source multi-fluorescence imaging system for teaching and research in biology and bioengineering Isaac Nunez|Tamara Matute|Roberto Herrera|Juan Keymer|Tim Marzullo|Tim Rudge|Fernan Federici Pontificia Universidad Catolica de Chile;|Backyard Brains
http://dx.doi.org/10.1101/194399 2017-09-27 Genomics CC BY-NC-ND Rare Variant Burden in Known Dystonia Genes in Population Controls and Sporadic Dystonia Patients Liz Cirulli Rogers|Patrick Hickey|Samantha Tracy|Julia Johnson|Zachary Caffall|Kaylin Tsukuyama|Burton Scott|Mark Stacy|Nicole Calakos Duke University
http://dx.doi.org/10.1101/193946 2017-09-27 Microbiology CC BY-NC-ND Histone deacetylase inhibition reduces deleterious cytokine release induced by ingenol stimulation Erin T. Larragoite|Laura J. Martins|Adam M. Spivak|Racheal A. Nell|Vicente Planelles Department of Pathology, University of Utah, Salt Lake City, United States;|Department of Medicine, University of Utah School of Medicine, Salt Lake City, United States
http://dx.doi.org/10.1101/192054 2017-09-27 Animal Behavior and Cognition Hormonal regulation of women′s prosocial, but not sexual, responses to kinship cues Iris J J Holzleitner|Amanda C Hahn|Claire I Fisher|Anthony J Lee|Kieran J O'Shea|Benedict C Jones|Lisa M DeBruine University of Glasgow;|Humboldt State University
http://dx.doi.org/10.1101/194464 2017-09-27 Bioinformatics CC BY Profiling DNA Methylation Differences Between Inbred Mouse Strains on the Illumina Human Infinium MethylationEPIC Microarray Hemant Gujar|Jane W Liang|Nicholas C Wong|Khyobeni Mozhui University of Tennessee Health Science Center;|Monash Bioinformatics Platform, Monash University
http://dx.doi.org/10.1101/194431 2017-09-27 Bioinformatics MeDEStrand: an improved method to infer genome-wide absolute methylation level from DNA enrichment experiment Jingting Xu|Shimeng Liu|Ping Yin|Serdar Bulun|Yang Dai University of Illinois at Chicago, Department of Bioengineering;|Feinberg School of Medicine, Northwestern University;|University of Illinois at Chicago
http://dx.doi.org/10.1101/194472 2017-09-27 Pharmacology and Toxicology CC BY-NC-ND Genetic differences in the aryl hydrocarbon receptor and CYP1A2 affect susceptibility to developmental polychlorinated biphenyl exposure in mice: Relevance to studies of human neurological disorders Kelsey Klinefelter|Molly Kromme Hooven|Chloe Bates|Breann T Colter|Alexandra Dailey|Smitha Krishnan Infante|Izabela Kania-Korwel|Hans-Joachim Lehmler|Alejandro Lopez-Juarez|Clare Pickering Ludwig|Christine Perdan Curran Northern Kentucky University;|University of Iowa Department of Occupational and Environmental Health;|Cincinnati Children's Medical Center
http://dx.doi.org/10.1101/193862 2017-09-27 Neuroscience Using Temporal ICA to Selectively Remove Global Noise While Preserving Global Signal in Functional MRI Data Matthew F Glasser|Timothy S Coalson|Janine D Bijsterbosch|Samuel J Harrison|Michael P Harms|Alan Anticevic|David C Van Essen|Stephen M Smith Washington University;|University of Oxford
http://dx.doi.org/10.1101/194449 2017-09-27 Plant Biology CC BY-NC-ND Arabidopsis phenotyping through Geometric Morphometrics Carlos A. Manacorda|Sebastian Asurmendi INTA
http://dx.doi.org/10.1101/195438 2017-09-28 CC BY-ND Odonata diversity of the eastern region of Bangladesh with four new addition to the Bangladeshi dragonfly fauna Md Kawsar Khan Macquarie University
http://dx.doi.org/10.1101/195602 2017-09-28 Neuroscience CC BY-NC-ND Gradual progression from sensory to task-related processing in cerebral cortex Scott L. Brincat|Markus Siegel|Constantin von Nicolai|Earl K. Miller MIT;|University of Tuebingen
http://dx.doi.org/10.1101/195586 2017-09-28 Neuroscience Coupling of autonomic and central events during sleep boosts declarative memory consolidation Mohsen Naji|Giri Krishnan|Elizabeth A. McDevitt|Maxim Bazhenov|Sara C. Mednick University of California San Diego;|University of California Riverside
http://dx.doi.org/10.1101/183368 2017-09-28 Molecular Biology Infant Transmitted/Founder HIV-1 Viruses from Peripartum Transmission are Neutralization Resistant to Paired Maternal Plasma Amit Kumar|Claire E. P. Smith|Elena E. Giorgi|Joshua Eudailey|David R. Martinez|Karina Yusim|Ayooluwa O. Douglas|Lisa Stamper|Erin McGuire|Celia C. LaBranche|David C. Montefiori|Genevieve G. F. Amouou|Feng Gao|Sallie R. Permar Duke Human Vaccine Institute;|Duke University;|Los Alamos National Laboratory;|Los Alamos National University
http://dx.doi.org/10.1101/195420 2017-09-28 Cell Biology Force dependence of filopodia adhesion: involvement of myosin II and formins Naila O. Alieva|Artem K. Efremov|Shiqiong Hu|Dongmyung Oh|Zhongwen Chen|Meenubharathi Natarajan|Hui Ting Ong|Antoine Jegou|Guillaume Romet-Lemonne|Jay T. Groves|Michael P. Sheetz|Jie Yan|Alexander D. Bershadsky Mechanobiology Institute, National University of Singapore, T-lab, 5A Engineering Drive 1;|Institut Jacques Monod, 15 rue Helene Brion 75205 Paris cedex 13, France;|Department of Chemistry, University of California, Berkeley, CA, 94720, USA;|Department of Biological Sciences, Columbia University, New York, New York 10027, USA;|Department of Physics, National University of Singapore, Singapore 117542, Singapore;|Weizmann Institute of Science, Herzl St 234, Rehovot, 7610001, Israel
http://dx.doi.org/10.1101/195453 2017-09-28 Neuroscience Selective Maintenance of Value Information Helps Resolve the Exploration/Exploitation Dilemma Michael Hallquist|Alexandre Dombrovski Penn State University;|University of Pittsburgh
http://dx.doi.org/10.1101/195545 2017-09-28 Genetics CC BY-NC-ND Improved Score Statistics for Meta-analysis in Single-variant and Gene-level Association Studies Jingjing Yang|Sai Chen|Goncalo Abecasis Emory University School of Medicine;|University of Michigan;|-
http://dx.doi.org/10.1101/195552 2017-09-28 Neuroscience CC BY Thalamocortical and Intracortical Laminar Connectivity Determines Sleep Spindle Properties Giri P. Krishnan|Burke Q. Rosen|Jen-Yung Chen|Lyle Muller|Terrence J. Sejnowski|Sydney S. Cash|Eric Halgren|Maxim Bazhenov UC San Diego;|Salk Institute, La Jolla;|Massachusetts General Hospital and Harvard University, Boston, MA
http://dx.doi.org/10.1101/195537 2017-09-28 Genetics Universal Panel Testing of Pancreatic Cancer Cases for Cancer Predisposition Erin L. Young|Bryony A. Thompson|Deborah W. Neklason|Angela K. Snow|Matthew A. Firpo|Theresa Werner|Russell Bell|Nykole R. Sutherland|Ken R. Smith|Justin Berger|Alison Fraser|Amanda Gammon|Cathryn Koptiuch|Wendy K. Kohlmann|Leigh Neumayer|David E. Goldgar|Sean J. Mulvihill|Lisa A. Albright|Sean V. Tavtigian University of Utah
http://dx.doi.org/10.1101/195206 2017-09-28 Cell Biology MicroRNA miR-128 represses LINE-1 (L1) retrotransposition by downregulating the nuclear import factor TNPO1 Adam Idica|Evgueni Sevrioukov|Dimitri Zisoulis|Matthias Hamdorf|Iben Daugaard|Pavan Kadandale|Irene Pedersen University of California, Irvine
http://dx.doi.org/10.1101/194720 2017-09-28 Bioinformatics OpenEHR modeling for genomics in clinical practice Cecilia Mascia|Paolo Uva|Simone Leo|Gianluigi Zanetti CRS4
http://dx.doi.org/10.1101/194811 2017-09-28 Cell Biology Characterization of the Novel Mitochondrial Genome Replication Factor MiRF172 in Trypanosoma brucei Simona Amodeo|Martin Jakob|Torsten Ochsenreiter University of Bern
http://dx.doi.org/10.1101/194647 2017-09-28 Microbiology CC BY Abundance and diversity of the fecal resistome in slaughter pigs and broilers in nine European countries Patrick Munk|Berith Elkr Knudsen|Oksana Lukjacenko|Ana Sofia Ribeiro Duarte|Roosmarjin E. C. Luiken|Liese Van Gompel|Lidwien A. M. Smit|Heike Schmitt|Alejandro Dorado Garcia|Rasmus Borup Hansen|Thomas Nordahl Petersen|Alex Bossers|Etienne Ruppe|Haitske Graveland|Alieda van Essen|Bruno Gonzalez-Zorn|Gabriel Moyano|Pascal Sanders|Claire Chauvin|Julie David|Antonio Battisti|Andrea Caprioli|Jeroen Dewulf|Thomas Blaha|Katharina Wadepohl|Maximiliane Brandt|Dariusz Wasyl|Magdalena Skarzynska|Magdalena Zajac|Hristo Daskalov|Helmut W. Saatkamp|Katharina D. C. Stark|Ole Lund|Tine Hald|Sunje Johanna Pamp|Hakan Vigre|Dick Heederik|Jaap Wagenaar|Dik Mevius|Frank Mller Aarestrup Research Group for Genomic Epidemiology, Natl. Food Inst., Technical University of Denmark;|Institute for Risk Assessment Sciences, Utrecht University;|Intomics A/S, Denmark;|Genomic Research Laboratory, Hopitaux Universitaires de Geneve;|Utrecht University, Netherlands;|Wageningen Bioveterinary Research, Lelystad, The Netherlands;|Complutense University of Madrid, Spain;|ANSES, France;|Istituto Zooprofilattico Sperimentale del Lazio e della Toscana, Italy;|Ghent University, Belgium;|University of Veterinary Medicine Hannover, Germany;|National Veterinary Research Institute, Poland;|National Diagnostic Research Veterinary Institute;|Safoso, Switzerland
http://dx.doi.org/10.1101/195271 2017-09-28 Neuroscience Representational confusion: the plausible consequence of demeaning your data Fernando M Ramirez Bernstein Center for Computational Neuroscience Berlin
http://dx.doi.org/10.1101/195529 2017-09-28 Cell Biology CC BY Development of an Intrinsic Skin Sensor for Blood Glucose Level with CRISPR-mediated Genome Editing in Epidermal Stem Cells Jiping Yue|Yuanyuan Li|Xuewen Gou|Xiaoyang Wu University of Chicago
http://dx.doi.org/10.1101/195347 2017-09-28 Genetics LFASS: Label-Free Automated Survival Scoring for High-Throughput Nematode Assays Alexandre Emmanuel Benedetto|Timothee Bambade|Catherine Shui Shan Au|Jennifer M. Tullet|Hairuo Dang|Kalina Cetnar|Filipe Gomes Cabreiro|David Gems Biomedical and Life Sciences, Lancaster University, Lancaster, UK;|Institute of Healthy Ageing, University College London, London, UK;|School of Biosciences, University of Kent, Canterbury, UK;|Institute of Structural and Molecular Biology, University College London, London, UK
http://dx.doi.org/10.1101/195339 2017-09-28 Systems Biology CC BY-NC-ND Impact of spatial organization on a novel auxotrophic interaction among soil microbes Xue Jiang|Christian Zerfass|Ruth Eichmann|Munehiro Asally|Patrick Schaefer|Orkun Soyer University of Warwick
http://dx.doi.org/10.1101/195412 2017-09-28 Ecology CC BY-NC-ND Interconnections accelerate collapse in a socio-ecological metapopulation Zachary Dockstader|Chris T. Bauch|Madhur Anand University of Waterloo;|University of Guelph
http://dx.doi.org/10.1101/195321 2017-09-28 Cell Biology Distinct prophase arrest mechanisms in human male meiosis Sabrina Z. Jan|Aldo Jongejan|Cindy M. Korver|Saskia K. M. van Daalen|Ans M. M. van Pelt|Sjoerd Repping|Geert Hamer Academic Medical Center
http://dx.doi.org/10.1101/195396 2017-09-28 Ecology CC BY-NC-ND Global Land Use Implications of Dietary Trends: A Tragedy of the Commons Sarah Rizvi|Chris Pagnutti|Chris T. Bauch|Madhur Anand University of Guelph;|University of Waterloo
http://dx.doi.org/10.1101/195487 2017-09-28 Genomics CC BY Acute condensin depletion causes genome decompaction without altering the level of global gene expression in Saccharomyces cerevisiae Matthew Robert Paul|Tovah Elise Markowitz|Andreas Hochwagen|Sevinc Ercan Department of Biology and Center for Genomics and Systems Biology, NYU
http://dx.doi.org/10.1101/195511 2017-09-28 Cell Biology Interferon-inducible miR-128 modulates HIV-1 replication by targeting TNPO3 mRNA Irene Pedersen|Aurore Bochnakiem|Dimitri Zisoulis|Adam Idica|Anjie Zhen|Vineet KewalRamani|Iben Daugaard|Matthias Hamdorf|Scott Kitchen|KyeongEun Lee University of California, Irvine;|University of California, Los Angeles;|National Cancer Institute
http://dx.doi.org/10.1101/194050 2017-09-28 Evolutionary Biology CC BY-NC-ND Phylogenetic Comparative Methods on Phylogenetic Networks with Reticulations Paul Bastide|Claudia Solis-Lemus|Ricardo Kriebel|Kenneth William Sparks|Cecile Ane UMR MIA-Paris, AgroParisTech, INRA, Université Paris-Saclay, 75005, Paris, France;|Emory University;|University of Wisconsin - Madison
http://dx.doi.org/10.1101/195164 2017-09-28 Neuroscience CC BY Subtypes of functional brain connectivity as early markers of neurodegeneration in Alzheimer's disease Pierre Orban|Angela Tam|Sebastian Urchs|Melissa Savard|Cecile Madjar|AmanPreet Badhwar|Christian Dansereau|Jacob Vogel|Amir Shmuel|Alain Dagher|Sylvia Villeneuve|Judes Poirier|Pedro Rosa-Neto|John Breitner|Pierre Bellec Montreal University;|McGill University;|Douglas Mental Health University Institute, Research Centre;|Centre de recherche de l'Institut universitaire de geriatrie de Montreal;|Departement d'informatique et recherche operationnelle, Universite de Montreal;|-
http://dx.doi.org/10.1101/193706 2017-09-28 Developmental Biology The HoxD Cluster is a Dynamic and Resilient TAD Boundary Controling the Segregation of Antagonistic Regulatory Landscapes Eddie Rodriguez-Carballo|Lucille Lopez-Delisle|Ye Zhan|Pierre Fabre|Leonardo Beccari|Imane El-Idrissi|Thi Hahn Nguyen Huynh|Hakan Ozadam|Job Dekker|Denis Duboule University of Geneva, Switzerland;|Federal Institute of Technology Lausanne, Switzerland;|University of Massachusetts Medical School, Howard Hughes Medical Institute, USA
http://dx.doi.org/10.1101/195305 2017-09-28 Cancer Biology Massive expression of germ cell specific genes is a hallmark of cancer and a potential target for novel treatment development Jan Willem Bruggeman|Jan J. B. Koster|Sjoerd Repping|Geert Hamer Academic Medical Center
http://dx.doi.org/10.1101/195362 2017-09-28 Immunology CC BY-NC-ND Development of a high-throughput bead based assay system to measure HIV-1 specific immune signatures in clinical samples Thomas Liechti|Claus Kadelka|Hanna Ebner|Nikolas Friedrich|Roger D. Kouyos|Huldrych F. Gunthard|Alexandra Trkola Institute of Medical Virology, University of Zurich;|University Hospital Zurich, University of Zurich
http://dx.doi.org/10.1101/195230 2017-09-28 Bioinformatics CC BY-ND Integrative pipeline for profiling DNA copy number and inferring tumor phylogeny Yuchao Jiang|Hao Chen|Zilu Zhou|Nancy R. Zhang University of North Carolina, Chapel Hill;|University of California, Davis;|University of Pennsylvania
http://dx.doi.org/10.1101/195214 2017-09-28 Cancer Biology CC BY-NC-ND ATRX, DAXX or MEN1 mutant pancreatic neuroendocrine tumors are a distinct alpha-cell signature subgroup Chang Chan|Saurabh Laddha|Peter Lewis|Matthew Koletsky|Kenneth Robzyk|Edaise Da Silva|Paula Torres|Brian Untch|Promita Bose|Timothy Chan|David Klimstra|C. David Allis|Laura Tang Rutgers Cancer Institute of New Jersey;|Wisconsin Institute for Discovery;|Rockefeller University;|Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/195172 2017-09-28 Neuroscience CC BY-NC-ND Neonatal Zika virus infection causes epileptic seizures, viral persistence and long-term behavioral impairment Isis N. O. Souza|Paula S. Frost|Julia V. Franca|Jessica Barbosa|Romulo L. S. Neris|Leandro Freitas|Daniel J. L. L. Pinheiro|Gilda Neves|Leila Chimelli|Fernanda G. De Felice|Esper A. Cavalheiro|Sergio T. Ferreira|Andrea T. Da Poian|Iranaia Assuncao-Miranda|Claudia Figueiredo|Julia R. Clarke Federal University of Rio de Janeiro;|Federal University of Sao Paulo;|State Institute of Brain Paulo Niemeyer
http://dx.doi.org/10.1101/193268 2017-09-28 Neuroscience CC BY-NC-ND Age-related decline in behavioral discrimination of amplitude modulation frequencies compared to envelope-following responses Jesyin Lai|Edward L. Bartlett Oregon Health and Science University;|Purdue University
http://dx.doi.org/10.1101/195354 2017-09-28 Cancer Biology A screen for combination therapies in BRAF/NRAS wild type melanoma identifies nilotinib plus MEK inhibitor as a synergistic combination Marco Ranzani|Kristel Kemper|Magali Michaut|Oscar Krijgsman|Nanne Aben|Vivek Iyer|Kim Wong|Theodoros I Roumeliotis|Martin Del Castillo Velasco-Herrera|Jeremie Nsengimana|Gemma Turner|Nicola Thompson|Aida Shahrabi|Marcela Sjoberg|Mamunur Rashid|Anneliese O Speak|Vera Grinkevich|Fiona Behan|David Tamborero|Francesco Iorio|Stijn van Dongen|Graham R Bignell|Clara Alsinet|Sofia Chen|Emmanuelle Supper|Ken Dutton-Regester|Antonia Pritchard|Chi Wong|Anton Enright|Julia Newton-Bishop|Ultan McDermott|Nicholas K Hayward|Jyoti S Choudhary|Kosuke Yusa|Lodewyk Wessels|Mathew J Garnett|Daniel Peeper|David J Adams Experimental Cancer Genetics, The Wellcome Trust Sanger Institute, Hinxton, Cambridge;|Division of Molecular Oncology, The Netherlands Cancer Institute, 1066 CX Amsterdam;|Division of Molecular Carcinogenesis, The Netherlands Cancer Institute, 1066 CX Amsterdam;|Experimental Cancer Genetics, The Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA;|Mass Spectrometry, The Wellcome Trust Sanger Institute, and Functional Proteomics Group, ICR;|Leeds Institute of Cancer and Pathology, University of Leeds, St James's University Hospital;|Cancer Genome Project, The Wellcome Trust Sanger Institute, Hinxton, Cambridge, CB10 1SA;|Research Program on Biomedical Informatics, IMIM Hospital del Mar Medical Research Inst Barcelona;|European Molecular Biology Laboratory - European Bioinformatics Institute, Cambridge, CB10 1SD;|Oncogenomics Laboratory, QIMR Berghofer, Medical Research Institute, Brisbane, Queensland, Australia;|Oncogenomics Laboratory, QIMR Berghofer, Medical Research Institute, Brisbane, Queensland;|Cellular Genomics, The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA
http://dx.doi.org/10.1101/195263 2017-09-28 Cancer Biology Mutational signatures reveal the role of RAD52 in p53-independent p21 driven genomic instability Panagiotis Galanos|George Pappas|Alexander Polyzos|Athanassios Kotsinas|Ioanna Svolaki|Nikos Giakoumakis|Christina Glytsou|Ioannis Pateras|Umakanta Swain|Vassilis Souliotis|Alexander Georgakilas|Nicholas Geacintov|Luca Scorrano|Claudia Lukas|Jiri Lukas|Zvi Livneh|Zoi Lygerou|Claus Storgaard Sorensen|Jiri Bartek|Vassilis Gorgoulis National Kapodistrian University of Athens;|Biomedical Research Foundation of the Academy of Athens;|University of Patras, Greece;|University of Padova, Padova;|Weizmann Institute of Science, Rehovot;|National Hellenic Research Foundation, Athens;|National Technical University of Athens;|New York University;|University of Copenhagen;|Danish Cancer Society Research Centre
http://dx.doi.org/10.1101/195503 2017-09-28 Biophysics Insights into cerebral haemodynamics and oxygenation utilising in vivo mural cell imaging and mathematical modelling Paul Sweeney|Simon Walker-Samuel|Rebecca J Shipley University College London
http://dx.doi.org/10.1101/193953 2017-09-28 Epidemiology CC BY-NC-ND The GENIUS Approach to Robust Mendelian Randomization Inference Eric Tchetgen Tchetgen|BaoLuo Sun|Stefan Walter Harvard University;|Genome Institute of Singapore;|University of California
http://dx.doi.org/10.1101/193649 2017-09-28 Epidemiology CC BY-NC Quantifying ethical tradeoffs for vaccine efficacy trials during severe epidemics Steven E. Bellan|Juliet R. C. Pulliam|Rieke van der Graaf|Spencer J. Fox|Jonathan Dushoff|Lauren Ancel Meyers University of Georgia;|Stellenbosch University;|Utrecht Medical Center;|The University of Texas at Austin;|McMaster University
http://dx.doi.org/10.1101/194142 2017-09-28 Epidemiology Interactions between immunotoxicants and parasite stress: implications for host health Ross D. Booton|Ryo Yamaguchi|James A. R. Marshall|Dylan Z. Childs|Yoh Iwasa University of Sheffield;|Tokyo Metropolitan University;|Kyushu University
http://dx.doi.org/10.1101/195255 2017-09-28 Plant Biology Which are major players, canonical or non-canonical strigolactones? Koichi Yoneyama|Xiaonan Xie|Kaori Yoneyama|Takaya Kisugi|Takahito Nomura|Yoshifumi Nakatani|Kohki Akiyama|Christopher S. P. McErlean Utsunomiya University;|Ehime University;|Laboratory of Racing Chemistry;|Osaka Prefecture University;|The University of Sydney
http://dx.doi.org/10.1101/194662 2017-09-28 Animal Behavior and Cognition CC BY-NC-ND A cross-cultural study of sex-typicality and averageness: Correlation between frontal and lateral measures of human faces Dariusz P. Danel|Jaroslava Varella Valentova|Oscar R. Sanchez|Juan D. Leongomez|Marco A. C. Varella|Karel Kleisner Ludwik Hirszfeld Inst. of Immunology & Experimental Therapy, Polish Academy of Sciences;|Department of Experimental Psychology, Institute of Psychology, University of Sao Paulo;|Human Behaviour Lab, Faculty of Psychology, El Bosque University;|Department of Philosophy and History of Sciences, Faculty of Sciences, Charles University
http://dx.doi.org/10.1101/194100 2017-09-28 Animal Behavior and Cognition Behavioral diversity assisting obstacle navigation during group transportation in ant Shohei Utsunomiya|Atsuko Takamatsu Waseda University
http://dx.doi.org/10.1101/195057 2017-09-28 Immunology Method for identification of condition-associated public antigen receptor sequences Mikhail V. Pogorelyy|Anastasia A. Minervina|Dmitriy M. Chudakov|Ilgar Z. Mamedov|Yury B. Lebedev|Thierry Mora|Aleksandra M. Walczak Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry of Russian Academy of Sciences;|Ecole Normale Superieure, Paris
http://dx.doi.org/10.1101/196279 2017-09-29 CC BY CYK-4 functions independently of its centralspindlin partner ZEN-4 to cellularize oocytes in germline syncytia Kian-Yong Lee|Rebecca A. Green|Edgar Gutierrez|J. Sebastian Gomez-Cavazos|Irina Kolotuev|Shaohe Wang|Arshad Desai|Alex Groisman|Karen Oegema Ludwig Institute for Cancer Research;|University of California, San Diego;|University of Lausanne
http://dx.doi.org/10.1101/196220 2017-09-29 CC BY A Connectome Wide Functional Signature of Broad Risk for Mental Illness Maxwell L. Elliott|Adrienne L. Romer|Annchen R. Knodt|Ahmad R. Hariri Duke University
http://dx.doi.org/10.1101/196097 2017-09-29 A novel dimeric active site and regulation mechanism revealed by the crystal structure of iPLA2β Konstantin R. Malley|Olga Koroleva|Ian Miller|Ruslan Sanishvili|Christopher M. Jenkins|Richard W. Gross|Sergey Korolev Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine;|GM/CA@APS, Advanced Photon Source, Argonne National Laboratory, Argonne, IL;|Department of Medicine, Washington University School of Medicine
http://dx.doi.org/10.1101/196238 2017-09-29 CC BY-NC-ND Functional analyses of the CIF1-CIF2 complex in Trypanosoma brucei identify the structural motifs required for complex formation and cytokinesis Huiqing Hu|Paul Majneri|Dielan Li|Yasuhiro Kurasawa|Tai An|Gang Dong|Ziyin Li University of Texas Medical School at Houston;|Medical University of Vienna
http://dx.doi.org/10.1101/195958 2017-09-29 Discovery of global regulators of 3′ untranslated region processing in cancers with KAPAC Andreas J Gruber|Ralf Schmidt|Souvik Ghosh|Georges Martin|Andreas R Gruber|Erik van Nimwegen|Mihaela Zavolan University of Basel
http://dx.doi.org/10.1101/196089 2017-09-29 Improving the Generation and Selection of Virtual Populations in Quantitative Systems Pharmacology Models Theodore R. Rieger|Richard J. Allen|Lukas Bystricky|Yuzhou Chen|Glen Colopy|Yifan Cui|Angelica Gonzalez|Yifei Liu|Rebecca White|Rebecca Everett|H. T. Banks|Cynthia J. Musante Pfizer, Inc.;|Florida State University;|University of Texas - Dallas;|Oxford University;|University of North Carolina - Chapel Hill;|University of Arizona;|University of Wisconsin - Madison;|North Carolina State University
http://dx.doi.org/10.1101/196014 2017-09-29 CC BY-NC-ND Prediction of the intestinal resistome by a novel 3D-based method Etienne Ruppe|Amine Ghozlane|Julien Tap|Nicolas Pons|Anne-Sophie Alvarez|Nicolas Maziers|Trinidad Cuesta|Sara Hernando-Amado|Jose Luis Martinez|Teresa Coque|Fernando Baquero|Val F. Lanza|Luis Maiz|Tiphaine Goulenok|Victoire de Lastours|Nawal Amor|Bruno Fantin|Ingrid Wieder|Antoine Andremont|Willem van Schaik|Malbert Rogers|Xinglin Zhang|Rob J.L Willems|Alexandre G De Brevern|Jean-Michel Batto|Herve Blottiere|Pierre Leonard|Veronique Lejard|Aline Letur|Florence Levenez|Kevin Weiszer|Florence Haimet|Joel Dore|Sean P Kennedy|Stanislav Dusko Ehrlich INSERM/Universite Paris 7;|Institut Pasteur;|Danone Nutricia Research;|MGP MetaGenoPolis, INRA, Universite Paris-Saclay, 78350 Jouy en Josas, France;|Centro Nacional de Biotecnologia, CSIC, Madrid, Spain;|Servicio de Microbiologia. Instituto, Ramon y Cajal de Investigacion Sanitaria, Madrid, Spain;|Unit for Cystic Fibrosis, Ramon y Cajal University Hospital, Madrid, Spain;|Internal Medicine Department, Beaujon Hospital, AP-HP, Clichy, France;|Bacteriology Laboratory, Bichat-Claude Bernard Hospital, AP-HP, Paris, France;|Department of Medical Microbiology, University Medical Center Utrecht, Utrecht, the Netherlands;|INSERM UMR_S 1134, Paris Diderot University, Sorbonne Paris Cite, INTS, GR-Ex, Paris, France
http://dx.doi.org/10.1101/193078 2017-09-29 CC BY-NC-ND Defective synapse maturation and enhanced synaptic plasticity in Shank2-/- mice Stephanie Wegener|Arne Buschler|A. Vanessa Stempel|Sarah A. Shoichet|Denise Manahan-Vaughan|Dietmar Schmitz Charite Universitaetsmedizin Berlin;|Ruhr University Bochum
http://dx.doi.org/10.1101/195917 2017-09-29 CC BY-NC-ND Estimating sampling completeness of interactions in quantitative bipartite ecological networks: incorporating variation in species specialisation Callum J. Macgregor|Darren M. Evans|Michael J. O. Pocock University of York;|Newcastle University;|Centre for Ecology and Hydrology
http://dx.doi.org/10.1101/196188 2017-09-29 How stimulation frequency and intensity impact on the long-lasting effects of coordinated reset stimulation Thanos Manos|Magteld Zeitler|Peter Tass Research Centre Juelich;|Stanford University
http://dx.doi.org/10.1101/196170 2017-09-29 Transplanted Adult Neural Stem Cells Express Sonic Hedgehog In Vivo and Suppress White Matter Neuroinflammation After Experimental Traumatic Brain Injury Genevieve M. Sullivan|Regina C. Armstrong Uniformed Services University APG
http://dx.doi.org/10.1101/196055 2017-09-29 CC BY-NC-ND Genetic pleiotropy between mood disorders, metabolic, and endocrine traits in a multigenerational pedigree Rachel L Kember|Liping Hou|Xiao Ji|Lars H Andersen|Arpita Ghorai|Lisa N Estrella|Laura Almasy|Francis J McMahon|Christopher David Brown|Maja Bucan University of Pennsylvania;|NIMH;|Lancaster General Health;|Children's Hospital of Philadelphia;|National Institute of Mental Health
http://dx.doi.org/10.1101/195651 2017-09-29 CC BY-NC-ND Employing single-stranded DNA donors for the high-throughput production of conditional knockout alleles in mice Denise G. Lanza|Angelina Gaspero|Isabel Lorenzo|Lan Liao|Ping Zheng|Ying Wang|Yu Deng|Chonghui Cheng|Chuansheng Zhang|Matthew N. Rasband|John R. Seavitt|Francisco J. DeMayo|Jianming Xu|Mary E. Dickinson|Arthur L. Beaudet|Jason D. Heaney Baylor College of Medicine;|National Institute of Environmental Health Sciences
http://dx.doi.org/10.1101/196147 2017-09-29 Molecular Biology CC BY-NC-ND Spatial RNA proximities reveal a bipartite nuclear transcriptome and territories of differential density and transcription elongation rates Jorg Morf|Steven W. Wingett|Irene Farabella|Jonathan Cairns|Mayra Furlan-Magaril|Xin Liu|Frank F. Craig|Simon Andrews|Marc A. Marti-Renom|Peter Fraser Babraham Institute, Cambridge, UK;|Center for Genomic Regulation (CRG), Barcelona, Spain;|Instituto de Fisiologia Celular, Universidad Nacional Autonoma, Mexico;|Sphere Fluidics Limited, Cambridge, UK
http://dx.doi.org/10.1101/196063 2017-09-29 Neuroscience Cognitive deficits and increases in creatine precursors in a brain-specific knockout of the creatine transporter gene Slc6a8 Kenea C Udobi|Amanda N Kokenge|Emily Hautman|Gabriela Ullo|Julie Coene|Michael T Williams|Charles V Vorhees|Aloise Mabondzo|Matthew R Skelton Cincinnati Children's Research Foundation;|Universite Paris Saclay
http://dx.doi.org/10.1101/196121 2017-09-29 Plant Biology CC BY-NC-ND indCAPS: A tool for designing screening primers for CRISPR/Cas9 mutagenesis events Charles Hodgens|Zachary Nimchuk|Joseph Kieber University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/196105 2017-09-29 Neuroscience Mapping nonapoptotic caspase activity with a transgenic reporter in mice Peter Nicholls|Thomas Pack|Nikhil Urs|Sunil Kumar|Gabor Turu|Evan Calabrese|Wendy Roberts|Ping Fan|Valeriy Ostapchenko|Monica Guzman|Flavio Beraldo|Vania Prado|Marco Prado|Ivan Spasojevic|Joshua Snyder|Kafui Dzirasa|G. Allan Johnson|Marc Caron Duke University;|University of Western Ontario
http://dx.doi.org/10.1101/195834 2017-09-29 Physiology Understanding Functional Roles of Native Pentose-Specific Transporters for Activating Dormant Pentose Metabolism in Yarrowia lipolytica Seunghyun Ryu|Cong T. Trinh University of Tennessee Knoxville
http://dx.doi.org/10.1101/195461 2017-09-29 Neuroscience CC BY-NC-ND Induction and Relief of Curiosity Elicit Parietal and Frontal Activity Lieke L. F. van Lieshout|Annelinde R. E. Vandenbroucke|Nils C. J. Muller|Roshan Cools|Floris P. de Lange Radboud University Nijmegen, Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/196030 2017-09-29 Neuroscience Music training improves the ability to understand speech-in-noise in older adults Benjamin Rich Zendel|Greg L West|Sylvie Belleville|Isabelle Peretz Memorial University of Newfoundland;|Universite de Montreal
http://dx.doi.org/10.1101/194761 2017-09-29 Ecology CC BY-NC Experimental warming reduces the diversity and functional potential of the Sphagnum microbiome Alyssa A. Carrell|Max Kolton|Melissa J. Warren|Dale A. Pelletier|Jennifer B. Glass|Joel E. Kostka|Paul J. Hanson|David J. Weston University of Tennessee, Knoxville;|Georgia Institute of Technology;|Oak Ridge National Laboratory
http://dx.doi.org/10.1101/195909 2017-09-29 Epidemiology CC BY-NC-ND Metabolic characterization of menopause: cross-sectional and longitudinal evidence Qin Wang|Diana Lucia Santos Ferreira|Scott M. Nelson|Naveed Sattar|Mika Ala-Korpela|Deborah A. Lawlor University of Oulu;|University of Bristol;|University of Glasgow
http://dx.doi.org/10.1101/163691 2017-09-29 Epidemiology CC BY-ND Phylodynamic assessment of intervention strategies for the West African Ebola virus outbreak Simon Dellicour|Guy Baele|Gytis Dudas|Nuno R. Faria|Oliver G. Pybus|Marc A. Suchard|Andrew Rambaut|Philippe Lemey KU Leuven-University of Leuven;|Fred Hutchinson Cancer Research Center;|University of Oxford;|University of California;|University of Edinburgh
http://dx.doi.org/10.1101/195388 2017-09-29 Epidemiology CC BY-NC-ND Spatial correlation as an early warning signal of regime shifts in a multiplex disease-behaviour network Peter C. Jentsch|Chris T. Bauch University of Waterloo
http://dx.doi.org/10.1101/194985 2017-09-29 Epidemiology Nasal and aerosol shedding of infectious influenza virus - a community based study Jing Yan|Michael Grantham|Jovan Pantelic|Paul Jacob Bueno de Mesquita|Barbara Albert|Fenjie Liu|Sheryl Ehrman|Donald K. Milton University of Maryland School of Public Health;|Missouri Western State University;|University of California Berkeley;|San Jose State University;|-
http://dx.doi.org/10.1101/195990 2017-09-29 Epidemiology Parallel progress in perceived age and life expectancy Ulrich Steiner|Lisbeth Aagaard Larsen|Kaare Christensen University of Southern Denmark;|The Danish Aging Research Center, University of Southern Denmark, Odense, Denmark
http://dx.doi.org/10.1101/195842 2017-09-29 Neuroscience Simultaneous representation of a spectrum of dynamically changing value estimates during decision making David Meder|Nils Kolling|Lennart Verhagen|Marco Wittmann|Jacqueline Scholl|Kristoffer Hougaard Madsen|Oliver Hulme|Timothy Behrens|Matthew Rushworth Department of Experimental Psychology, University of Oxford;|Danish Research Centre for Magnetic Resonance, Copenhagen University Hospital Hvidovre;|Oxford Centre for Functional MRI of the Brain, University of Oxford
http://dx.doi.org/10.1101/195982 2017-09-29 Neuroscience CC BY-NC-ND State-Based Delay Representation and Its Transfer from a Game of Pong to Reaching and Tracking Guy Avraham|Raz Leib|Assaf Pressman|Lucia S. Simo|Amir Karniel|Lior Shmuelof|Ferdinando A. Mussa-Ivaldi|Ilana Nisky Ben-Gurion University of the Negev;|Northwestern University
http://dx.doi.org/10.1101/195867 2017-09-29 Ecology CC BY-ND Complexity of the Relationship between Life Expectancy and Overlap of Lifespans Julia A. Barthold Jones|Adam Lenart|Annette Baudisch University of Southern Denmark
http://dx.doi.org/10.1101/195826 2017-09-29 Bioinformatics SAMSA2: A standalone metatranscriptome analysis pipeline Samuel T. Westreich|Michelle L. Treiber|David A. Mills|Ian Korf|Danielle G. Lemay University of California, Davis;|USDA ARS Western Human Nutrition Research Center
http://dx.doi.org/10.1101/195891 2017-09-29 Plant Biology Karrikin-sensing protein KAI2 is a new player in regulating root growth patterns Stephanie M. Swarbreck|Yannick Guerringue|Elsa Matthus|Fiona J. C. Jamieson|Julia M. Davies University of Cambridge;|ENS Lyon;|University of Oxford
http://dx.doi.org/10.1101/195784 2017-09-29 Microbiology PHENOS: a high-throughput and flexible tool for microorganism growth phenotyping on solid media David B. H. Barton|Danae Georghiou|Neelam Dave|Majed Alghamdi|Thomas Walsh|Edward J. Louis|Steven S. Foster University of Leicester
http://dx.doi.org/10.1101/194126 2017-09-29 Microbiology BldC delays entry into development to produce a sustained period of vegetative growth in Streptomyces venezuelae Matthew James Bush|Mahmoud J. Al-Bassam|Govind Chandra|Kim Findlay|Mark J. Buttner John Innes Centre
http://dx.doi.org/10.1101/196071 2017-09-29 Genomics CC BY-NC Genome-wide association study of social relationship satisfaction: significant loci and correlations with psychiatric conditions Varun Warrier|Thomas Bourgeron|Simon Baron-Cohen University of Cambridge;|Institut Pasteur
http://dx.doi.org/10.1101/192369 2017-09-29 Cancer Biology Reconstructing the Molecular Life History of Gliomas Floris Barthel|Pieter Wesseling|Roel Verhaak The Jackson Laboratory;|VU University Medical Center;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/195859 2017-09-29 Biophysics CC BY Evaluation of MRI sequences for quantitative T1 brain mapping Panagiotis Tsialios|Michael Thrippleton|Cyril Pernet Department of Biomedical Engineering, Technological Educational Institute of Athens;|Centre for Clinical Brain Sciences, University of Edinburgh
http://dx.doi.org/10.1101/195875 2017-09-29 Cancer Biology Activation of the Androgen Receptor gene by BORIS/CTCFL in prostate cancer cells Yukti Hari-Gupta|Georgia-Xanthi Kita|Dawn Farrar|Elena Klenova University of Essex
http://dx.doi.org/10.1101/195933 2017-09-29 Genetics CC BY-NC-ND Genome-wide association analysis identifies 26 novel loci for asthma, hay fever and eczema Weronica E. Ek|Mathias Rask-Andersen|Torgny Karlsson|Asa Johansson Science for Life Laboratory
http://dx.doi.org/10.1101/195800 2017-09-29 Neuroscience CC BY-NC-ND Structural network maturation of the preterm human brain Tengda Zhao|Virendra Mishra|Tina Jeon|Minhui Ouyang|Qinmu Peng|Lina Chalak|Jessica Lee Wisnowski|Roy Heyne|Nancy Rollins|Ni Shu|Hao Huang State Key Lab of Cognitive Neurosci. & Learning & IDG; McGovern Inst. for Brain Research;|Advanced Imaging Research Center, University of Texas Southwestern Medical Center;|Radiology Research Children Hospital of Philadelphia;|Department of Pediatrics, University of Texas Southwestern Medical Center;|Department of Radiology, Children Hospital Los Angeles, Keck School of Medicine;|Department of Radiology, Perelman School of Medicine, University of Pennsylvania
http://dx.doi.org/10.1101/195743 2017-09-29 Evolutionary Biology CC BY Desert Tortoises in the Genomic Age: Population Genetics and the Landscape H. Bradley Shaffer|Evan McCartney-Melstad|Peter L. Ralph|Gideon Bradburd|Erik Lundgren|Jannet Vu|Bridgette Hagerty|Fran Sandmeier|Chava Weitzman|C. Richard Tracy University of California, Los Angeles;|University of Oregon;|Michigan State University;|University of Southern California;|York College of Pennsylvania;|Colorado State University - Pueblo;|University of Nevada, Reno
http://dx.doi.org/10.1101/196006 2017-09-29 Neuroscience CC BY Embryonic and postnatal neurogenesis produce functionally distinct subclasses of dopaminergic neuron Elisa Galliano|Eleonora Franzoni|Marine Breton|Annisa N. Chand|Darren J. Byrne|Venkatesh N. Murthy|Matthew S. Grubb King's College London; Harvard University;|King's College London;|Centre de Recherche en Neurosciences de Lyon;|Institut fur Neuropathologie, Charite - Universitatsmedizin Berlin;|Harvard University
http://dx.doi.org/10.1101/195966 2017-09-29 Cell Biology CC BY-NC-ND CRISPR-Based DNA Imaging in Living Cells Reveals Cell Cycle-Dependent Chromosome Dynamics Hanhui Ma|Li-Chun Tu|Ardalan Naseri|Yu-Chieh Chung|David Grunwald|Shaojie Zhang|Thoru Pederson University of Massachusetts Medical School;|University of Central Florida;|University of Tokyo
http://dx.doi.org/10.1101/195883 2017-09-29 Plant Biology Green microalga Trebouxia sp. produces strigolactone-related compounds Iva Smykalova|Michaela Ludvikova|Eliska Ondrackova|Borivoj Klejdus|Sandrine Bonhomme|Olga Kronusova|Ales Soukup|Martin Rozmos|Beate Guzow-Krzeminska|Radoslava Matusova Agritec, Ltd., CZ;|Mendel University in Brno, CZ;|INRA, AgroParisTech, FR;|Ecofuel Laboratories Ltd., CZ;|Charles University;|Masaryk University, CZ;|University of Gdańsk, PL;|Plant Science and Biodiversity Center SAS, SK
http://dx.doi.org/10.1101/195776 2017-09-29 Bioengineering CC BY-NC-ND High-throughput creation and functional profiling of eukaryotic DNA sequence variant libraries using CRISPR/Cas9 Xiaoge Guo|Alejandro Chavez|Angela Tung|Yingleong Chan|Ryan Cecchi|Santiago Lopez Garnier|Christian Kaas|Eric Kelsic|Max Schubert|James DiCarlo|James Collins|George Church Wyss Institute at Harvard University
http://dx.doi.org/10.1101/195446 2017-09-29 Genetics CC BY A multi-locus association analysis method integrating phenotype and expression data reveals multiple novel associations to flowering time variation in wild-collected Arabidopsis thaliana Yanjun Zan|Orjan Carlborg Uppsala University
http://dx.doi.org/10.1101/195792 2017-09-29 Neuroscience CC BY-NC-ND Visual evidence accumulation behavior in unrestrained mice Onyekachi Odoemene|Hien Nguyen|Anne K. Churchland Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/195727 2017-09-28 Biophysics Accessibility of the Shine-Dalgarno sequence dictates N-terminal codon bias in E. coli Sanchari Bhattacharyya|William M Jacobs|Bharat Adkar|Jin Yan|Wenli Zhang|Eugene Shakhnovich Harvard University;|Sichuan University;|Jiangnan University
http://dx.doi.org/10.1101/195693 2017-09-28 Cancer Biology CC BY-NC-ND EWS-FLI-1 creates a cell surface microenvironment conducive to IGF signaling by inducing pappalysin-1. Panneerselvam Jayabal|Peter J. Houghton|Yuzuru Shiio The University of Texas Health Science Center;|The University of Texas Health Science Center at San Antonio
http://dx.doi.org/10.1101/195750 2017-09-28 Cancer Biology MTH1 deficiency selectively increases non-cytotoxic oxidative DNA damage in lung cancer cells: more bad news than good? Hussein H.K. Abbas|Kheloud M.H. Alhamoudi|Mark D. Evans|George D.D. Jones|Steven S Foster University of Leicester;|De Montfort University
http://dx.doi.org/10.1101/195719 2017-09-28 Bioengineering CC BY-NC-ND Zwitterionic hydrogels modulate the foreign body response in a modulus-dependent manner Lauren E Jansen|Luke D Amer|Esther Y-T Chen|Thuy V Nguyen|Leila Saleh|Todd S Emrick|Wendy F Liu|Stephanie J Bryant|Shelly Peyton University of Massachusetts, Amherst;|University of Colorado, Boulder;|University of California, Irvine
http://dx.doi.org/10.1101/195677 2017-09-28 Evolutionary Biology The fractional coalescent Somayeh Mashayekhi|Peter Beerli Florida State University
http://dx.doi.org/10.1101/195594 2017-09-28 Ecology CC BY Ecosystem functional response across precipitation extremes in a sagebrush steppe Andrew T. Tredennick|Andrew Kleinhesselink|J. Bret Taylor|Peter Adler Utah State University;|University of California, Los Angeles;|USDA
http://dx.doi.org/10.1101/195644 2017-09-28 Genetics CC BY-ND Identification of genome-wide significant shared genomic segments in large extended Utah families at high risk for completed suicide Hilary Coon|Todd M. Darlington|W. Brandon Callor|Elliott Ferris|Alison Fraser|Zhe Yu|Nancy William|Sujan C. Das|Sheila E. Crowell|Megan Puzia|Michael Klein|Anna Docherty|Leslie Jerominski|Dale S. Cannon|Ken R. Smith|Brooks Keeshin|Amanda V. Bakian|Erik Christensen|Nicola J. Camp|Douglas Gray University of Utah School of Medicine;|University of Utah;|Utah State Office of the Medical Examiner;|Pedigree & Population Resource, Huntsman Cancer Center;|Pedigree & Population Resource, Huntsman Cancer Institute
http://dx.doi.org/10.1101/195628 2017-09-28 Cell Biology Cell size-dependent regulation of Wee1 localization by Cdr2 cortical nodes Corey A. H. Allard|Hannah E. Opalko|Ko-Wei Liu|Uche Medoh|James B. Moseley Dartmouth
http://dx.doi.org/10.1101/195669 2017-09-28 Evolutionary Biology CC BY-NC-ND Integrating phylogenetic and network approaches to study gene family evolution: the case of the AGAMOUS family of floral genes Daniel S. Carvalho|James C. Schnable|Ana Maria R. Almeida University of Nebraska-Lincoln;|California State University - East Bay
http://dx.doi.org/10.1101/195685 2017-09-28 Microbiology CC BY-NC-ND In vivo structures of the Helicobacter pylori cag type IV secretion system Yi-Wei Chang|Carrie L. Shaffer|Lee A. Rettberg|Debnath Ghosal|Grant J. Jensen California Institute of Technology;|Howard Hughes Medical Institute;|California Institute of Technology; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/193565 2017-09-28 Genetics CC BY-NC-ND Unexpected CRISPR off-target mutation pattern in vivo are not typically germline-like Zhiting Wei|Funan He|Guohui Chuai|Hanhui Ma|Zhixi Su|Qi Liu Tongji University;|Fudan University;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/195495 2017-09-28 Cell Biology Microtubule regulation of integrin-based adhesions is mediated by myosin-IIA Yukako Nishimura|Nisha Mohd Rafiq|Sergey V. Plotnikov|Zhen Zhang|Visalatchi Thiagarajan|Meenubharathi Natarajan|Gareth E. Jones|Pakorn Kanchanawong|Alexander D. Bershadsky Mechanobiology Institute, National University of Singapore;|Department of Cell and Systems Biology, University of Toronto;|Randall Division of Cell & Molecular Biophysics, King's College London
http://dx.doi.org/10.1101/188102 2017-09-28 Cancer Biology CC BY Dietary xenoestrogens significantly alter cellular metabolism induced by palbociclib/letrozole combination cancer therapy Benedikt Warth|Ana Granados|Tao Huan|Mingliang Fang|Erica M. Forsberg|H. Paul Benton|Laura Goetz|Caroline Johnson|Gary Siuzdak The Scripps Research Institute;|Scripps Clinic Medical Group;|Yale University, School of Public Health
http://dx.doi.org/10.1101/195768 2017-09-28 Genomics CC BY-NC-ND Ascertainment bias can create the illusion of genetic health disparities Michelle S Kim|Kane P Patel|Andrew K Teng|Ali J Berens|Joseph Lachance Georgia Institute of Technology
http://dx.doi.org/10.1101/196600 2017-09-30 CC BY-NC A LaeA- and BrlA-dependent cellular network governs tissue-specific secondary metabolism in the human pathogen Aspergillus fumigatus Abigail Lind|Fang Yun Lim|Alexandra Soukup|Nancy Keller|Antonis Rokas Vanderbilt University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/196436 2017-09-30 CC BY-NC-ND Brief targeted memory reactivation during the awake state enhances memory stability and benefits the weakest memories Arielle Tambini|Alice Berners-Lee|Lila Davachi University of California, Berkeley;|Johns Hopkins University School of Medicine;|New York University
http://dx.doi.org/10.1101/196410 2017-09-30 Amygdalar atrophy as the genetically mediated hub of limbic degeneration in Alzheimer's disease Sourena Soheili-Nezhad|Neda Jahanshad|Afsaneh Tajer|Sebastian Guelfi|Reza Khosrowabadi|Hamidreza Pouretemad|Andrew J. Saykin|Paul M. Thompson|Mojtaba Zarei Imaging Genetics Center, Stevens Neuroimaging and Informatics Institute;|Imaging Genetics Center, Stevens Neuroimaging and Informatics Institute;|School of Cognitive Sciences, Institute for Research in Fundamental Sciences (IPM);|Reta Lila Weston Research Laboratories, Department of Molecular Neuroscience;|Institute for Cognitive and Brain Sciences, Shahid Beheshti University;|Center for Neuroimaging, Department of Radiology and Imaging Sciences
http://dx.doi.org/10.1101/196212 2017-09-30 CC BY-NC-ND Time-resolved neural reinstatement and separation during memory decisions in human hippocampus Lynn Lohnas|Katherine Duncan|Werner K. Doyle|Orrin Devinsky|Lila Davachi New York University;|University of Toronto
http://dx.doi.org/10.1101/196709 2017-09-30 CC BY High-throughput cancer hypothesis testing with an integrated PhysiCell-EMEWS workflow Jonathan Ozik|Nicholson Collier|Justin Wozniak|Charles Macal|Chase Cockrell|Samuel Friedman|Ahmadreza Ghaffarizadeh|Randy Heiland|Gary An|Paul Macklin Argonne National Lab;|University of Chicago;|OptoKnowledge Systems;|University of Southern California;|Indiana University
http://dx.doi.org/10.1101/196394 2017-09-30 CC BY Linear models enable powerful differential activity analysis in massively parallel reporter assays Leslie Myint|Dimitrios G. Avramopoulos|Loyal A. Goff|Kasper Hansen Johns Hopkins University
http://dx.doi.org/10.1101/196691 2017-09-30 Membrane Proteins Significantly Restrict Exosome Mobility Mikhail Skliar|Vasiliy Chernyshev|David Belnap|Samer Hakami|Inge Stijleman|Rakesh Rachamadugu|Philip Bernard University of Utah;|Skolkovo Institute of Science and Technology, Moscow, Russia
http://dx.doi.org/10.1101/196592 2017-09-30 CC BY Modulation of high frequency by low-frequency Oscillations in the basal ganglia Davoud Nouri|Reza Ebrahimpour|Amin Mirzaei IPM;|BrainLinks-BrainTools, University of Freiburg, Freiburg, Germany
http://dx.doi.org/10.1101/196733 2017-09-30 Quantifying male and female pheromone-based mate choice in Caenorhabditis nematodes using a novel microfluidic technique Flora Borne|Katja R. Kasimatis|Patrick C Phillips Ecole Normale Superieure Paris-Saclay;|University of Oregon
http://dx.doi.org/10.1101/196543 2017-09-30 CC BY-NC-ND Modeling the Role of Striatum in Stochastic Multi Context Tasks Sabyasachi Shivkumar|V. Srinivasa Chakravarthy|Nicolas P. Rougier Indian Institute of Technology, Madras;|INRIA
http://dx.doi.org/10.1101/196535 2017-09-30 JIP2 haploinsufficiency contributes to neurodevelopmental abnormalities in human pluripotent stem cell-derived neural progenitors and cortical neurons. Reinhard Roessler|Johanna Goldmann|Chikdu Shivalila|Rudolf Jaenisch Whitehead Institute
http://dx.doi.org/10.1101/196444 2017-09-30 Biochemistry CC BY-NC-ND A combinatorial approach for the synthesis of multi-phosphorylated peptides: new tool for studying phosphorylation patterns in proteins Mamidi Samarasimhareddy|Daniel Mayer|Norman Metanis|Dmitry Veprintsev|Mattan Hurevich|Assaf Friedler The Hebrew University of Jerusalem;|Paul Scherrer Institute
http://dx.doi.org/10.1101/196386 2017-09-30 Neuroscience CC BY-NC-ND Transcriptomic characterization of MRI contrast, focused on the T1-w/T2-w ratio in the cerebral cortex Jacob Ritchie|Spiro Pantazatos|Leon French University of Toronto;|Columbia University;|Centre for Addiction and Mental Health
http://dx.doi.org/10.1101/180745 2017-09-30 Plant Biology CC BY-NC-ND Consistent Reanalysis of Genome-wide Imprinting Studies in Plants Using Generalized Linear Models Increases Concordance across Datasets Stefan Wyder|Michael T Raissig|Ueli Grossniklaus University of Zurich
http://dx.doi.org/10.1101/196345 2017-09-30 Biophysics CC BY-NC Nucleation of multiple buckled structures in intertwined DNA double helices Sumitabha Brahmachari|Kathryn H Gunn|Rebecca D Giuntoli|Alfonso Mondragon|John F Marko Northwestern University
http://dx.doi.org/10.1101/196428 2017-09-30 Neuroscience CC BY-NC Multiphoton minimal inertia scanning for fast acquisition of neural activity signals Renaud Schuck|Mary Ann Go|Stefania Garasto|Stephanie Reynolds|Pier Luigi Dragotti|Simon Schultz Imperial College London
http://dx.doi.org/10.1101/195701 2017-09-30 Pathology CC BY-NC-ND Ocular and uteroplacental pathology in macaque congenital Zika virus infection Emma L Mohr|Lindsey N Block|Christina M Newman|Laurel M Stewart|Michelle Koenig|Matthew Semler|Meghan E Breitbach|Leandro B.C. Teixeira|Xiankun Zeng|Andrea M Weiler|Gabrielle L Barry|Troy H Thoong|Gregory J Wiepz|Dawn M Dudley|Heather A Simmons|Andres Mejia|Terry K Morgan|M. Shahriar Salamat|Sarah Kohn|Kathleen M Antony|Matthew T Aliota|Mariel S Mohns|Jennifer M Hayes|Nancy Schultz-Darken|Michele L Schotzko|Eric Peterson|Saverio Capuano|Jorge E Osorio|Shelby L O'Connor|Thomas C Friedrich|David H O'Connor|Thaddeus G Golos University of Wisconsin Madison School of Medicine and Public Health;|Department of Pathology and Laboratory Medicine, University of Wisconsin-Madison;|Department of Pathobiological Sciences, University of Wisconsin-Madison;|United States Army Medical Research Institute of Infectious Diseases, Fort Detrick, Frederick, Ma;|Wisconsin National Primate Research Center, University of Wisconsin-Madison;|Departments of Pathology and Obstetrics & Gynecology, Oregon Health & Science University;|Department of Radiology, University of Wisconsin-Madison;|Department of Obstetrics and Gynecology, University of Wisconsin-Madison;|Department of Pathobiological Sciences, University of Wisconsin-Madison, Wisconsin National Prim;|Department of Pathology and Laboratory Medicine, University of Wisconsin-Madiso
http://dx.doi.org/10.1101/182238 2017-09-30 Pathology CC BY-NC-ND Pangenomic analysis reveals pathogen-specific regions and novel effector candidates in Fusarium oxysporum f.sp. cepae Andrew D Armitage|Andrew Taylor|Maria K Sobczyk|Laura Baxter|Bethany P.J. Greenfield|Helen J Bates|Fiona Wilson|Alison C Jackson|Sascha Ott|Richard Harrison|John P. Clarkson NIAB EMR;|University of Warwick
http://dx.doi.org/10.1101/195248 2017-09-30 Ecology CC BY-NC-ND Response to Qian et al (2017): Daily and seasonal climate variations are both critical in the evolution of species′ elevational range size Wei-Ping Chan|I-Ching Chen|Robert K. Colwell|Wei-Chung Liu|Cho-ying Huang|Sheng-Feng Shen Academia Sinica;|National Cheng Kung University;|University of Connecticut;|National Taiwan University
http://dx.doi.org/10.1101/196311 2017-09-30 Bioinformatics CC BY-NC-ND Lancet: genome-wide somatic variant calling using localized colored DeBruijn graphs Giuseppe Narzisi|Andre Corvelo|Kanika Arora|Ewa Bergmann|Minita Shah|Rajeeva Musunuri|Anne-Katrin Emde|Nicolas Robine|Vladimir Vacic|Michael C. Zody New York Genome Center;|Illumina;|23andMe
http://dx.doi.org/10.1101/196295 2017-09-30 Biochemistry Short-term stabilities of 21 amino acids in dried blood spots Jun Han|Rehan Higgins|Mark D. Lim|Karen Lin|Juncong Yang|Christoph H. Borchers University of Victoria - Genome BC Proteomics Centre;|The Bill & Melinda Gates Foundation
http://dx.doi.org/10.1101/196337 2017-09-30 Cancer Biology CC BY-NC-ND Somatic inactivating PTPRJ mutations and dysregulated pathways identified in canine melanoma by integrated comparative genomic analysis William P. D. Hendricks|Victoria Zismann|Karthigayini Sivaprakasam|Christophe Legendre|Kelsey Poorman|Waibhav Tembe|Jeffrey Kiefer|Winnie Liang|Valerie DeLuca|Mitchell Stark|Alison Ruhe|Roe Froman|Nicholas Duesbury|Megan Washington|Jessica Aldrich|Mark Neff|Matthew Huentelman|Nicholas Hayward|Kevin Brown|Douglas Thamm|Gerry Post|Chand Khanna|Barbara Davis|Matthew Breen|Aleksandar Sekulic|Jeffrey Trent Translational Genomics Research Institute (TGen);|Mayo Clinic;|The University of Queensland;|University of California Davis;|Van Andel Research Institute;|Spectrum Health;|Translational Genomics Research Institute;|QIMR Berghofer Medical Research Institute;|National Cancer Institute;|Colorade State University Flint Animal Cancer Center;|The Veterinary Cancer Center;|Innogenics Inc.;|North Carolina State University;|The Translational Genomics Research Institute (TGen)
http://dx.doi.org/10.1101/196113 2017-09-30 Neuroscience Comparing average network signals and neural mass signals in systems with low-synchrony Prejaas Tewarie|Andreas Daffertshofer|Bob W van Dijk Department of Neurology, Neuroscience Campus Amsterdam, VU University Medical Center;|Research Institute MOVE, VU University Amsterdam Netherlands;|Dept of Clinical Neurophysiology and Magnetoencephalography Cntr, Neuroscience Campus Amsterdam
http://dx.doi.org/10.1101/196378 2017-09-30 Evolutionary Biology CC BY-ND Phylofactorization - theory and challenges Alex Washburne Montana State University
http://dx.doi.org/10.1101/196352 2017-09-30 Ecology CC BY-NC-ND Effects of anthropogenic wildfire activity in low elevation Pacific island vegetation communities in French Polynesia Erica A Newman|Carlea A Winkler|David H Hembry University of Arizona;|University of California Berkeley
http://dx.doi.org/10.1101/196451 2017-09-30 Neuroscience CC BY-NC Multiscale simulation of peripheral neural signaling Carl Lubba|Yann Le Guen|Sarah Jarvis|Nick Jones|Simon Cork|Amir Eftekhar|Simon R Schultz Imperial College London
http://dx.doi.org/10.1101/196469 2017-09-30 Evolutionary Biology CC BY-NC Conflict between heterozygote advantage and hybrid incompatibility in haplodiploids (and sex chromosomes) Ana-Hermina Ghenu|Alexandre Blanckaert|Roger K. Butlin|Jonna Kulmuni|Claudia Bank Instituto Gulbenkian de Ciencia;|University of Sheffield;|Helsinki University
http://dx.doi.org/10.1101/196659 2017-10-01 CC BY Assessment of the need for separate test set and number of medical images necessary for deep learning: a sub-sampling study Ariel Rokem|Yue Wu|Aaron Y Lee The University of Washington
http://dx.doi.org/10.1101/196782 2017-10-01 CC BY-ND How is structural divergence related to evolutionary information? Diego Javier Zea|Alexander Miguel Monzon|Gustavo Parisi|Cristina Marino-Buslje Fundacion Instituto Leloir;|Universidad Nacional de Quilmes
http://dx.doi.org/10.1101/196766 2017-10-01 CC BY Safety evaluation of soy leghemoglobin protein preparation derived from Pichia pastoris, intended for use as a flavor catalyst in plant-based meat Rachel Z. Fraser|Mithila Shitut|Puja Agrawal|Odete Mendes|Sue Klapholz Impossible Foods;|Product Safety Labs
http://dx.doi.org/10.1101/196634 2017-10-01 Neuroscience CC BY-NC-ND Mapping Cortical Brain Asymmetry in 17,141 Healthy Individuals Worldwide via the ENIGMA Consortium Xiang-Zhen Kong|Samuel Mathias|Tulio Guadalupe|Christoph Abe|Ingrid Agartz|Theophilus N. Akudjedu|Andre Aleman|Saud Alhusaini|Nicholas B. Allen|David Ames|Ole A. Andreassen|Nicola J. Armstrong|Felipe Bergo|Mark E. Bastin|Albert Batalla|Jochen Bauer|Bernhard Baune|Ramona Baur|Joseph Biederman|Sara K. Blaine|Premika Boedhoe|Erlend Ben|Anushree Bose|Janita Bralten|Daniel Brandeis|Silvia Brem|Henry Brodaty|Henrieke Brohl|Jan Buitelaar|Christian Burger|Robin Bulow|Vince Calhoun|Anna Calvo|Erick Jorge Canales-Rodriguez|Jose M. Canive|Dara M. Cannon|Elisabeth C. Caparelli|Francisco X. Castellanos|Gianpiero L. Cavalleri|Fernando Cendes|Tiffany Moukbel Chaim-Avancini|Kaylita Chantiluke|Qun-lin Chen|Xiayu Chen|Yuqi Cheng|Anastasia Christakou|Vincent P. Clark|David Coghill|Colm G. Connolly|Annette Conzelmann|Aldo Cordova-Palomera|Janna Cousijn|Tim Crow|Ana Cubillo|Anders Dale|Udo Dannlowski|Sara Ambrosino de Bruttopilo|Patrick de Zeeuw|Ian J. Deary|Norman Delanty|Damion V. Demeter|Adriana Di Martino|Bruno Dietsche|N. Trung Doan|Colin P. Doherty|Alysa Doyle|Margaretha Dramsdahl|Sarah Durston|Eric Earl|Stefan Ehrlich|Carl Johan Ekman|Torbjrn Elvsashagen|Jeffery N. Epstein|Damien A. Fair|Stephen Faraone|Helena Fatouros-Bergman|Geraldo Busatto Filho|Lena Flyckt|Katharina Forster|John Foxe|Thomas Frodl|Paola Fuentes-Claramonte|Janice Fullerton|Hugh Garavan|Danielle do Santos Garcia|Ian H. Gotlib|Anna E. Goudriaan|Hans Jorgen Grabe|Nynke A. Groenewold|Dominik Grotegerd|Oliver Gruber|Tiril Gurholt|Jan Haavik|Brandon Hager|Tim Hahn|Narelle K. Hansell|Mathew A. Harris|Catharina Hartman|Maria del Carmen Valdes Hernandez|Dirk Heslenfeld|Rob Hester|Beng-Choon Ho|Tiffany C. Ho|Pieter Hoekstra|Ruth J. van Holst|Martine Hoogman|Marie F. Hvik|Fleur M. Howells|Kenneth Hugdahl|Chaim Huyser|Martin Ingvar|Lourdes Irwin|Akari Ishikawa|Anthony James|Terry Jernigan|Erik G E G Jonsson|Claas Kahler|Vasily Kaleda|Clare Kelly|Michael Kerich|Anisha Keshavan|Sabin Khadka|Tilo Kircher|Gregor Kohls|Kerstin Konrad|Ozlem Korucuoglu|Bernd Kramer|Axel Krug|Jun Soo Kwon|Nanda Lambregts-Rommelse|Mikael Landen|Luisa Lazaro|Irina Lebedeva|Rhoshel Lenroot|Klaus-Peter Lesch|Qinqin Li|Kelvin O. Lim|Jia Liu|Christine Lochner|Edythe D. London|Vera Lonning|Valentina Lorenzetti|Michelle Luciano|Maartje Luijten|Astri J. Lundervold|Scott Mackey|Frank P. MacMaster|Sophie Maingault|Charles B. Malpas|Ulrik F. Malt|David Mataix-Cols|Andrew R. Mayer|Hazel McCarthy|Michael P. Milham|Philip B. Mitchell|Bryon A. Mueller|Susana Munoz Maniega|Bernard Mazoyer|Colm McDonald|Quinn McLellan|Katie L. McMahon|Genevieve McPhilemy|Reza Momenan|Angelica M. Morales|Janardhanan C. Narayanaswamy|Jose Carlos Vasques Moreira|Stener Nerland|Liam Nestor|Erik Newman|Joel T. Nigg|Jan-Egil Nordvik|Stephanie Novotny|Eileen Oberwelland|Ruth L. O'Gorman|Jaap Oosterlaan|Bob Oranje|Catherine Orr|Bronwyn Overs|Paul Pauli|Martin Paulus|Kerstin Plessen|Georg G. von Polier|Edith Pomarol-Clotet|Jiang Qiu|Joaquim Radua|Josep Antoni Ramos-Quiroga|Y.C. Janardhan Reddy|Andreas Reif|Gloria Roberts|Pedro Rosa|Natalie Royle|Katya Rubia|Matthew D. Sacchet|Perminder S. Sachdev|Raymond Salvador|Rocio Santos-Martin|Lianne Schmaal|Lisanne Schweren|Larry Seidman|Jochen Seitz|Mauricio Henriques Serpa|Philip Shaw|Timothy J. Silk|Alan N. Simmons|Egle Simulionyte|Rajita Sinha|Zsuzsika Sjoerds|Runar Elle Smelror|Joan Carlos Soliva|Nadia Solowij|Scott R. Sponheim|Dan J. Stein|Elliot A. Stein|Michael Stevens|Lachlan T. Strike|Gustavo Sudre|Jing Sui|Leanne Tamm|Hendrik S. Temmingh|Robert J. Thoma|Alexander Tomyshev|Giulia Tronchin|Jessica Turner|Anne Uhlmann|Theo G.M. van Erp|Odile van den Heuvel|Dennis van der Meer|Liza van Eijk|Alasdair Vance|Ilya M. Veer|Dick J. Veltman|Ganesan Venkatasubramanian|Oscar Vilarroya|Yolanda Vives-Gilabert|Henry Volzke|Susanne Walitza|Henrik Walter|Esther Walton|Joanna M. Wardlaw|Wei Wen|Lars T. Westlye|Christopher D. Whelan|Tonya White|Reinout W. Wiers|Margaret J. Wright|Katharina Wittfeld|Tony T. Yang|Clarissa L. Yasuda|Yuliya Yoncheva|Murat Yucel|Je-Yeon Yun|Marcus Vinicius Zanetti|Zonglei Zhen|Xing-xing Zhu|Georg C. Ziegler|Kathrin Zierhut|Greig I. de Zubicaray|David C. Glahn|Barbara Franke|Fabrice Crivello|Nathalie Tzourio-Mazoyer|Simon E. Fisher|Paul M. Thompson|Clyde Francks Language & Genetics Department, Max Planck Institute for Psycholinguistics, The Netherlands;|Department of Psychiatry, Yale School of Medicine, New Haven, CT 06519, USA;|Department of Clinical Neuroscience, Osher Centre, Karolinska Institutet, Stockholm, Sweden;|Norwegian Centre for Mental Disorders Research;|National University of Ireland Galway, H91 TK33 Galway Ireland, Republic of Ireland;|University Medical Center Groningen, University of Groningen, The Netherlands;|Royal College of Surgeons in Ireland, Dublin, Ireland;|The National Centre of Excellence in Youth Mental Health, Parkville, Australia;|National Ageing Research Institute, Melbourne, Australia;|Oslo University Hospital & Institute of Clinical Medicine, University of Oslo, Oslo, Norway;|Mathematics and Statistics, Murdoch University, Perth, Australia;|Laboratory of Neuroimaging, Department of Neurology, University of Campinas;|University of Edinburgh;|Radboud University Medical Centre, Nijmegen, The Netherlands;|University of Munster;|Discipline of Psychiatry, University of Adelaide, Australia;|University of Wurzburg;|Department of Psychiatry, Harvard Medical School, Boston, Mass, USA;|Department of Psychiatry, Yale University School of Medicine, New Haven, CT;|Department of Psychiatry, VU university Medical Center, Amsterdam, The Netherlands;|Department of Psychiatric Research, Diakonhjemmet Hospital, Oslo, Norway;|Department of Psychiatry, National Institute of Mental Health and Neurosciences, Bengaluru, India;|Radboud University Medical Center, Nijmegen, The Netherlands;|University of Zurich, Zurich, Switzerland;|Centre for Healthy Brain Ageing, School of Psychiatry, UNSW Australia;|Department of Psychiatry and Psychotherapy Philipps-University Marburg, Germany;|Donders Institute for Brain, Cognition and Behaviour, Nijmegen, The Netherlands;|University Medicine Greifswald, Greifswald, Germany;|The Mind Research Network, Albuquerque, NM 87106, United States;|August Pi I Sunyer Biomedical Research Institute (IDIBAPS), Barcelona, Spain;|FIDMAG Germanes Hospitalaries Research Foundation, Barcelona, Spain;|Departments of Psychiatry and Neurosciences, University of New Mexico;|National Institutes of Health, Baltimore, Maryland, USA;|The Child Study Center at NYU Langone Medical Center, New York, USA;|University of Sao Paulo;|Psychology and Neuroscience, Department of Child and Adolescent Psychiatry, London, UK;|School of Psychology, Southwest University, Chongqing, China;|Faculty of Psychology, Beijing Normal University, Beijing, China;|Department of Psychiatry, First Affiliated Hospital of Kunming Medical University, Kunming, China;|Department of Child Psychiatry, Institute of Psychiatry, King's College London, London WC2R 2LS, UK;|Departments of Paediatrics and Psychiatry, University of Melbourne. Victoria, Australia;|University of California, San Francisco, 401 Parnassus Avenue, San Francisco, CA, USA;|University of Tubingen;|Department of Developmental Psychology, University of Amsterdam, Amsterdam, The Netherlands;|SANE POWIC, University Department of Psychiatry, Warneford Hospital, Oxford, UK;|Departments of Neurosciences and Radiology, University of California, San Diego, San Diego, CA,USA;|Department of Psychiatry, University Medical Center Utrecht, Utrecht, The Netherlands;|Department of Behavioral Neuroscience at Oregon Health & Science University, Portland, OR, USA;|Neurology Department, St. James's Hospital, Dublin, Ireland;|Massachusetts General Hospital, Harvard Medical School, Boston, MA,USA;|Region Zealand, Psychiatry, Roskilde, Denmark;|Technische Universitat Dresden;|Institute of Clinical Medicine, University of Oslo, Oslo, Norway;|University of Cincinnati College of Medicine, Cincinnati, OH, USA;|Department of Behavioral Neuroscience, Oregon Health & Science University, USA;|Department of Biomedicine, University of Bergen, Bergen, Norway;|Centre for Psychiatry Research, Karolinska Institutet, Stockholm, Sweden;|German Center for Neurodegenerative Diseases (DZNE), Rostock/Greifswald, Germany;|Department of Neuroscience, University of Rochester School of Medicine and Dentistry;|University Hospital, Otto-von-Guericke-University, Magdeburg, Germany;|Neuroscience Research Australia, Sydney, NSW, Australia;|Department of Psychiatry, University of Vermont, Burlington, VT, USA;|Laboratory of Neuroimaging, Department of Neurology, University of Campinas, Campinas, Brazil;|Department of Psychology, Stanford University, USA;|Academic Medical Center, University of Amsterdam, Amsterdam, The Netherlands;|Department of Psychiatry and Psychotherapy, University Medicine Greifswald, Germany;|Department of General Psychiatry, Heidelberg University, Heidelberg, Germany;|K. G. Jebsen Centre for Psychosis Research, Institute of Clinical Medicine, University of Oslo, Oslo;|Massachusetts Mental Health Center, Boston, MA, USA;|Queensland Brain Institute, University of Queensland, Brisbane, Australia;|University Medical Center Groningen, Department of Psychiatry, Groningen, The Netherlands;|Department of Cognitive Psychology, VU University Amsterdam, Amsterdam, The Netherlands;|School of Psychological Sciences, University of Melbourne, Melbourne, Australia;|Department of Psychiatry, University of Iowa College of Medicine, Iowa City, Iowa, USA;|Department of Clinical Medicine, University of Bergen, Bergen, Norway;|Department of Psychiatry and Mental Health, University of Cape Town, South Africa;|Department of Psychiatry, Haukeland University Hospital, Bergen, Norway;|De Bascule, Academic Center for Child and Adolescent Psychiatry, Amsterdam;|Department of Psychiatry, Oregon Health & Science University, Portland, OR, USA;|University Department of Psychiatry, Warneford Hospital, Oxford, UK;|Departments of Cognitive Science, Psychiatry, Radiology, University of California, San Diego, CA, US;|Division of Mental Health and Addiction, Oslo University Hospital, Oslo, Norway;|Mental Health Research Center, Moscow, Russia;|Department of Psychiatry, University of Dublin, Trinity College Dublin, Dublin, Ireland;|National Institute on Alcohol Abuse and Alcoholism, National Institutes of Health, Baltimore, MD, US;|Massachusetts Institute of Technology, Cambridge, Boston, USA;|Olin Neuropsychiatry Research Center, Hartford CT, USA;|Department of Psychiatry and Psychotherapy, Philipps-University Marburg, Germany;|Department of Child and Adolescent Psychiatry, University Hospital Aachen, Aachen, Germany;|Department of Psychiatry, Washington University School of Medicine, St Louis, MO, USA;|Department of Psychiatry, Seoul National University College of Medicine, Seoul, Republic of Korea;|Department of Psychiatry, Radboud University Medical Center, Nijmegen, The Netherlands;|Hospital Clinic, Barcelona, Spain;|School of Psychiatry, University of New South Wales, Sydney, NSW, Australia;|Department of Psychiatry, University of Minnesota, Minneapolis, MN, USA;|Department of Psychiatry, Stellenbosch University, South Africa;|Department of Psychiatry and Biobehavioral Sciences, University of California, Los Angeles, CA, USA;|Institute of Psychology Health and Society, University of Liverpool, Liverpool, UK;|Behavioural Science Institute, Radboud University, Nijmegen, The Netherlands;|University of Bergen, Bergen, Norway;|Departments of Psychiatry and Pediatrics, University of Calgary, Calgary AB, Canada;|Universite de Bordeaux;|Royal Children׳s Hospital, Melbourne, Australia;|Department of Research and Education, Oslo University Hospital, Oslo, Norway;|The Mind Research Network, Albuquerque, NM 87106;|Department of Psychiatry, Trinity College Dublin, Dublin, Ireland;|Center for the Developing Brain, Child Mind Institute, New York, USA;|Department of Neuroscience, Cumming School of Medicine, University of Calgary, Calgary, AB, Canada;|Centre for Advanced Imaging, University of Queensland, Brisbane, Australia;|Department of Psychiatry, National Institute of Mental Health And Neurosciences, Bengaluru, India;|Division of Brian Sciences, Imperial College London, London, UK;|Center for Human Development, University of California, San Diego, CA, USA;|Sunnaas Rehabilitation Hospital HT, Nesodden, Norway;|University Children's Hospital, Zurich, Switzerland;|Clinical Neuropsychology Section, Vrije Universiteit Amsterdam, Amsterdam, The Netherlands;|Laureate Institute for Brain Research, Tulsa, Oklahoma, USA;|Universitat Autonoma de Barcelona;|University Hospital Frankfurt, Frankfurt, Germany;|Department of Child and Adolescent Psychiatry, London, UK;|Department of Psychiatry and Behavioral Sciences, Stanford University, USA;|Department of Psychiatry and Psychology, University of Barcelona, Barcelona, Spain;|Orygen, The National Centre of Excellence in Youth Mental Health, Parkville, Australia;|Neurobehavioral Clinical Research Section, National Human Genome Research Institute, Bethesda, USA;|Murdoch Childrens Research Institute, Royal Children׳s Hospital, Melbourne, Australia;|Department of Psychiatry, University of California, San Diego, 9500 Gilman Dr., La Jolla, CA, USA.;|Max Planck Institute for Human Cognitive and Brain Sciences;|University of Wollongong, Wollongong, Australia;|Minneapolis VA Health Care System & University of Minnesota, Minneapolis, MN, USA;|National Institute on Drug Abuse, National Institutes of Health, Baltimore, Maryland, USA;|The Mind Research Network, Albuquerque, NM, USA;|Cincinnati Children's Hospital Medical Center, Cincinnati, OH, USA;|Department of Psychiatry and Behavioral Sciences, University of New Mexico, Albuquerque, NM, USA;|Department of Psychology and Neuroscience Institute, Georgia State University, Atlanta GA 30302;|Department of Psychiatry and Human Behavior, University of California, Irvine, Irvine, USA;|Department of Psychiatry, VU university medical center, Amsterdam, The Netherlands;|School of Psychology, University of Queensland, Brisbane, Australia;|University of Melbourne, Melbourne, Victoria, Australia;|Department of Psychiatry and Psychotherapy, Campus Mitte, Berlin, Germany;|Department of Psychiatry, VU University Medical Center, Amsterdam, the Netherlands;|INNDACYT, Barcelona, Spain;|Institute for Community Medicine, University Medicine Greifswald, Germany;|Department of Psychology, Georgia State University, Atlanta GA, USA;|Erasmus University Medical Centre, Rotterdam, Netherlands;|Department of Psychology, University of Amsterdam, Amsterdam, The Netherlands;|Monash University, Melbourne, Australia;|Seoul National University Hospital, Seoul, Republic of Korea;|Queensland University of Technology, Brisbane, Australia;|Department of Psychiatry, Yale University, New Haven, CT, USA;|Language and Genetics Department, Max Planck Institute for Psycholinguistics;|Keck School of Medicine of the University of Southern California, Los Angeles, CA, USA;|Language and Genetics Department, Max Planck Institute for Psycholinguistics, The Netherlands
http://dx.doi.org/10.1101/196840 2017-10-01 Bioinformatics CC BY-NC-ND The Impact of Random Models on Clustering Similarity Alexander J. Gates|Yong-Yeol Ahn Indiana University
http://dx.doi.org/10.1101/196774 2017-10-01 Microbiology Rice paddy Nitrospirae encode and express genes related to sulfate respiration: proposal of the new genus Candidatus Sulfobium Sarah Zecchin|Ralf C. Mueller|Jana Seifert|Ulrich Stingl|Karthik Anantharaman|Martin van Bergen|Lucia Cavalca|Michael Pester University of Konstanz;|University of Hohenheim;|University of Florida;|University of California, Berkeley;|Helmholtz Centre for Environmental Research;|University of Milano;|Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures
http://dx.doi.org/10.1101/196899 2017-10-01 Cell Biology Exchange protein directly activated by cAMP plays a critical role in regulation of vascular fibrinolysis Xi He|Aleksandra Drelich|Qing Chang|Dejun Gong|Yixuan Zhou|Yue Qu|Shangyi Yu|Yuan Yang|Jiao Qian|Yuan Qiu|Shao-Jun Tang|Angelo Gaitas|Thomas Ksiazek|Zhiyun Xu|Maki Wakamiya|Fanglin Lu|Bin Gong University of Texas Medical Branch at Galveston;|Shanghai Changhai Hospital;|Texas Tech University, Lubbock;|Florida International University, Miami
http://dx.doi.org/10.1101/196790 2017-10-01 Genetics Relating C-reactive Protein to Psychopathology after Cardiac Surgery and Intensive Care Unit Admission: A Mendelian Randomization Study Lotte Kok|Bochao Lin|Juliette Broersen|Erwin Bekema|Jelena Medic|Kristel van Eijk|Manon Hillegers|Dieuwke Veldhuijzen|Jurjen Luykx University Medical Center Utrecht;|Erasmus Medical Center Rotterdam;|Leiden University
http://dx.doi.org/10.1101/196857 2017-10-01 Cancer Biology CC BY Adenylate kinase-4 modulates oxidative stress and stabilizes HIF-1α to drive lung cancer metastasis Yi-Hua Jan|Tsung-Ching Lai|Chih-Jen Yang|Yuan-Feng Lin|Ming-Shyan Huang|Michael Hsiao Academia Sinica;|Kaohsiung Medical University Hospital;|Taipei Medical University
http://dx.doi.org/10.1101/196287 2017-10-01 Neuroscience CC BY-NC-ND Learning naturalistic temporal structure in the posterior medial network Mariam Aly|Janice Chen|Nicholas B. Turk-Browne|Uri Hasson Columbia University;|Johns Hopkins University;|Yale University;|Princeton University
http://dx.doi.org/10.1101/196907 2017-10-01 Ecology Carbon pool trends and dynamics within a subtropical peatland during long-term restoration Paul Julian|Stefan Gerber|Alan L. Wright|Binhe Gu|Todd Z. Osborne University of Florida;|South Florida Water Management District
http://dx.doi.org/10.1101/196824 2017-10-02 CC BY Optimal Therapy Scheduling Based on a Pair of Collaterally Sensitive Drugs Nara Yoon|Robert Vander Velde|Andriy Marusyk|Jacob Scott epartment of Translational Hematology and Oncology Research, Cleveland Clinic;|Department of Molecular Medicine, University of South Florida;|Department of Cancer Imaging and Metabolism, Moffitt Cancer Center;|Department of Translational Hematology and Oncology Research, Cleveland Clinic
http://dx.doi.org/10.1101/196923 2017-10-02 CC BY-NC-ND Compositional clustering in task structure learning Nicholas T Franklin|Michael J Frank Harvard University;|Brown University
http://dx.doi.org/10.1101/183764 2017-10-02 Microbiology Dual RNAseq shows the human mucosal immunity protein, MUC13, is a hallmark of Plasmodium exoerythrocytic infection Gregory LaMonte|Pamela Orjuela-Sanchez|Lawrence Wang|Shangzhong Li|Justine Swann|Annie Cowell|Bing Yu Zou|Alyaa Abdel- Haleem Mohamed|Zaira Villa-Galarce|Marta Moreno|Carlos Tong-Rios|Joseph Vinetz|Nathan Lewis|Elizabeth A Winzeler University of California, San Diego;|King Abdullah University of Science and Technology;|Universidad Peruana Cayetano Heredia
http://dx.doi.org/10.1101/196758 2017-10-02 Neuroscience CC BY-NC-ND Offline Replay Supports Planning: fMRI Evidence from Reward Revaluation Ida Momennejad|A. Ross Otto|Nathaniel D. Daw|Kenneth Andrew Norman Department of Psychology and Princeton Neuroscience Institute, Princeton University;|Department of Psychology at McGill University
http://dx.doi.org/10.1101/196915 2017-10-02 Systems Biology CC BY Enter the matrix: Interpreting unsupervised feature learning with matrix decomposition to discover hidden knowledge in high-throughput omics data Genevieve L. Stein-O'Brien|Raman Arora|Aedin C. Culhane|Alexander Favorov|Casey Greene|Loyal A. Goff|Yifeng Li|Alioune Ngom|Michael F. Ochs|Yanun Xu|Elana Fertig Johns Hopkins School of Medicine, Baltimore, MD;|Institute for Data Intensive Engineering & Science, Johns Hopkins University;|Dana-Farber Cancer Institute & Harvard T. H. Chan School of Public Health;|Vavilov Institute of General Genetics, Moscow, Russia;|Department of Pharmacology, Perelman School of Medicine, University of Pennsylvania;|Digital Technologies Research Centre, National Research Council Canada;|School of Computer Science, University of Windsor, Ontario, Canada;|Department of Mathematics and Statistics, The College of New Jersey;|Johns Hopkins University, Baltimore, MD;|Sidney Kimmel Comprehensive Cancer Center, Johns Hopkins School of Medicine
http://dx.doi.org/10.1101/197475 2017-10-02 CC BY-ND MreB Filaments Create Rod Shape By Aligning Along Principal Membrane Curvature. Saman Hussain|Carl N Wivagg|Piotr Szwedziak|Felix Wong|Kaitlin Schaefer|Thierry Izore|Lars D Renner|Yingjie Sun|Alexandre Wilson Bisson Filho|Suzanne Walker|Ariel Amir|Jan Lowe|ETHAN C GARNER Department of Molecular and Cellular Biology, Harvard University, Cambridge, United States;|MRC Laboratory of Molecular Biology, Cambridge, United Kingdom;|Harvard John A. Paulson School of Engineering and Applied Sciences, Cambridge, MA, United States;|Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA, United States;|Leibniz Institute of Polymer Research, Dresden, Germany
http://dx.doi.org/10.1101/191171 2017-10-02 Novel Compensatory Mechanisms Enable the Mutant KCNT1 Channels to Induce Seizures Salleh Ehaideb|Gentry Decker|Petrina Smith|Daniel Davis|Bing Zhang University of Missouri
http://dx.doi.org/10.1101/197400 2017-10-02 Conditional Robust Calibration (CRC): a new computational Bayesian methodology for model parameters estimation and identifiability analysis Fortunato Bianconi|Lorenzo Tomassoni|Chiara Antonini|Paolo Valigi Univeristy of Perugia
http://dx.doi.org/10.1101/196865 2017-10-02 Magnetic resonance imaging does not reveal structural alterations in the brain of synesthetes Michel Dojat|Fabrizio Pizzagalli|Jean-Michel Hupe Inserm;|Cnrs
http://dx.doi.org/10.1101/197285 2017-10-02 CC BY-NC-ND Current Speech Motor Control Models: An Overview of Architectures & Properties Benjamin Parrell|Adam C. Lammert|Gregory Ciccarelli|Thomas F. Quatieri University of Delaware;|MIT Lincoln Laboratory
http://dx.doi.org/10.1101/197392 2017-10-02 Degeneracy in the robust expression of spectral selectivity, subthreshold oscillations and intrinsic excitability of entorhinal stellate cells Divyansh Mittal|Rishikesh Narayanan Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/196949 2017-10-02 CC BY-NC-ND Neural data science: accelerating the experiment-analysis-theory cycle in large-scale neuroscience Liam Paninski|John Cunningham Columbia University
http://dx.doi.org/10.1101/197194 2017-10-02 Partial restoration of mutational robustness after addition of genetic polymorphism and in the presence of sexual selection Caroline Nieberding|Gilles San Martin|Suzanne Saenko|Cerisse Allen|Paul Brakefield|Bertanne Visser Universite catholique de Louvain;|Leiden University;|University of Montana;|University of Cambridge
http://dx.doi.org/10.1101/197020 2017-10-02 Hunters or gardeners? Linking community structure and function of trap-associated microbes to the nutrient acquisition strategy of a carnivorous plant Dagmara Sirova|Jiri Barta|Karel Simek|Thomas Posch|Jiri Pech|James Stone|Jakub Borovec|Lubomir Adamec|Jaroslav Vrba Biology Centre CAS;|University of South Bohemia;|University of Zurich;|University of Alaska, Fairbanks;|Institute of Experimental Botany CAS
http://dx.doi.org/10.1101/197277 2017-10-02 Reproducibility of importance extraction methods in neural network based fMRI classification Athanasios Gotsopoulos|Heini Saarimaki|Enrico Glerean|Iiro P. Jaaskelainen|Mikko Sams|Lauri Nummenmaa|Jouko Lampinen Aalto University;|University of Turku
http://dx.doi.org/10.1101/197590 2017-10-02 CC BY-NC-ND Thalamostriatal and cerebellothalamic pathways in a songbird, the Bengalese finch David A Nicholson|Todd Roberts|Samuel J Sober Emory University;|UT Southwestern
http://dx.doi.org/10.1101/197483 2017-10-02 A State Space Model of a Visuomotor Rotation Experiment Mireille E Broucke University of Toronto
http://dx.doi.org/10.1101/197368 2017-10-02 CC BY-NC-ND The genome sequence of the soft-rot fungus Penicillium purpurogenum reveals a high gene dosage for lignocellulolytic enzymes Jaime Eyzaguirre|Wladimir Mardones|Alex Di Genova|Maria Paz Cortes|Dante Travisany|Alejandro Maass Universidad Andres Bello;|Universidad de Chile
http://dx.doi.org/10.1101/197103 2017-10-02 CC BY-NC-ND Timing of gene expression in a cell-fate decision system Delphine Aymoz|Carme Sole|Jean-Jerrold Pierre|Marta Schmitt|Eulalia de Nadal|Francesc Posas|Serge Pelet University of Lausanne;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/197525 2017-10-02 CC BY-NC-ND Biomechanics of the peafowl's crest: a potential mechanosensory role for feathers during social display Suzanne Amador Kane|Daniel Van Beveren|Roslyn Dakin Haverford College;|University of British Columbia
http://dx.doi.org/10.1101/196964 2017-10-02 CC BY Competitive learning modulates memory consolidation during sleep. James Antony|Larry Y Cheng|Paula Pacheco|Ken Paller|Kenneth Norman Princeton University;|Northwestern University
http://dx.doi.org/10.1101/197541 2017-10-02 CC BY-NC Methods in field chronobiology Davide Dominoni|Susanne Akesson|Raymond Klaassen|Kamiel Spoelstra|Martin Bulla Netherlands Institute of Ecology and University of Glasgow;|Lund University;|University of Groningen;|Netherlands Institute of Ecology;|Max Planck Institute for Ornithology, NIOZ, CZU
http://dx.doi.org/10.1101/196204 2017-10-02 The effects of long-term atorvastatin use on the cytoarchitecture of new and older neurons of sensorimotor nucleus HVC in a juvenile songbird model Shuk C. Tsoi|Alicia C. Barrientos|Carolyn L. Pytte|David S. Vicario|Mimi L. Phan The Graduate Center, CUNY;|Queens College and The Graduate Center, CUNY;|Rutgers, The State University of New Jersey
http://dx.doi.org/10.1101/197087 2017-10-02 Epistatic interactions drive biased gene retention in the face of massive nuclear introgression Evan S Forsythe|Andrew DL Nelson|Mark A Beilstein University of Arizona School of Plant Sciences;|School of Plant Sciences, University of Arizona
http://dx.doi.org/10.1101/197293 2017-10-02 The dynamic evolution of Drosophila innubila Nudivirus Tom Hill|Robert Unckless University of Kansas
http://dx.doi.org/10.1101/197129 2017-10-02 CC BY-NC Assessing Selectivity in the Basal Ganglia: The "Gearbox" Hypothesis Zafeirios Fountas|Murray Shanahan Imperial College London
http://dx.doi.org/10.1101/196998 2017-10-02 CC BY-NC-ND FastViromeExplorer: A Pipeline for Virus and Phage Identification and Abundance Profiling in Metagenomics Data Saima Sultana Tithi|Roderick V. Jensen|Liqing Zhang Virginia Tech
http://dx.doi.org/10.1101/196303 2017-10-02 CC BY-NC-ND A unified web platform for network-based analyses of genomic data Taibo Li|April Kim|Johnathan Mercer|Joseph Rosenbluh|Heiko Horn|Liraz Greenfeld|David An|Andrew Zimmer|Arthur Liberzon|Jon Bistline|Ted Natoli|Yang Li|Aviad Tsherniak|Rajiv Narayan|Aravind Subramanian|Ted Liefeld|Bang Wong|Dawn Thompson|Sarah Calvo|Steve Carr|Jesse Boehm|Jake Jaffe|Jill Mesirov|Nir Hacohen|Aviv Regev|Kasper Lage Broad Institute, Mass General Hospital, Johns Hopkins University;|Broad Institute of MIT and Harvard, Mass General Hospital;|Broad Institute of MIT and Harvard, Dana-Farber Cancer Institute;|Broad Institute of MIT and Harvard;|Broad Institute, Harvard, Mass General Hospital;|Broad Institute, UCSD;|Broad Institute, Mass General Hospital, Harvard Medical School;|Broad Institute, MIT;|Harvard, Broad Institute, Mass General Hospital
http://dx.doi.org/10.1101/195974 2017-10-02 CC BY-NC-ND Probing the evolutionary robustness of anti-virulence treatments targeting iron uptake in Pseudomonas aeruginosa Chiara Rezzoagli|David Wilson|Michael Weigert|Stefan Wyder|Rolf Kuemmerli University of Zurich
http://dx.doi.org/10.1101/197426 2017-10-02 CC BY-ND Hierarchical brain network for face and voice integration of emotion expression Jodie Davies-Thompson|Giulia V Elli|Mohamed Rezk|Stefania Benetti|Markus Johannes Van Ackeren|Olivier Collignon National Institute of Health Research (NIHR) Nottingham Biomedical Research Centre, UK;|Department of Psychological & Brain Sciences, John Hopkins University, Baltimore, USA;|Institute of research in Psychology (IPSY), Institute of Neuroscience (IoNS), University of Louvain;|Crossmodal Perception and Plasticity Laboratory, Center of Mind/Brain Sciences, University of Trento
http://dx.doi.org/10.1101/196816 2017-10-02 CC BY-NC-ND DIETARY AND DEVELOPMENTAL SHIFTS IN BUTTERFLY-ASSOCIATED BACTERIAL COMMUNITIES Kruttika Phalnikar|Krushnamegh Kunte|Deepa Agashe National Centre for Biologial Sciences
http://dx.doi.org/10.1101/196501 2017-10-02 CC BY Adaptation in plant genomes: bigger isn't better, but it's probably different Wenbin Mei|Markus G Stetter|Daniel J Gates|Michelle Stitzer|Jeffrey Ross-Ibarra University of California, Davis
http://dx.doi.org/10.1101/197210 2017-10-02 CC BY-NC Initiation, elongation and realignment during influenza virus mRNA synthesis Aartjan te Velthuis|Judith Oymans University of Cambridge;|University of Oxford
http://dx.doi.org/10.1101/197301 2017-10-02 C3D: A tool to predict 3D genomic interactions between cis-regulatory elements Tahmid Mehdi|Swneke D Bailey|Paul Guilhamon|Mathieu Lupien Princess Margaret Cancer Centre;|Ontario Cancer Institute
http://dx.doi.org/10.1101/197418 2017-10-02 CC BY-NC-ND Modeling transcription factor combinatorics in promoters and enhancers Jimmy Vandel|Oceane Cassan|Sophie Lebre|Charles-Henri Lecellier|Laurent Brehelin IBC, LIRMM, CNRS, Univ. Montpellier;|IBC, IMAG, CNRS, Univ. Montpellier, Univ. Paul Valery;|IBC, IGMM, CNRS, Univ. Montpellier;|IBC - LIRMM - Univ. Montpellier - CNRS
http://dx.doi.org/10.1101/196931 2017-10-02 CC BY-NC-ND Novel genes required for the fitness of Streptococcus pyogenes in human saliva Luchang Zhu|Amelia Charbonneau|Andrew Waller|Randall Olsen|Stephen Beres|James Musser Houston Methodist Research Institute;|Animal Health Trust
http://dx.doi.org/10.1101/197095 2017-10-02 Fit to speak - Physical fitness is related to less language decline in ageing Katrien Segaert|Sam J.E. Lucas|Claire V. Burley|Pieter Segaert|Anne E Milner|Matt Ryan|Linda Wheeldon University of Birmingham;|KU Leuven;|King's College London;|University of Agder
http://dx.doi.org/10.1101/197566 2017-10-02 CC BY-NC Mechanics and buckling of biopolymeric shells and cell nuclei Edward J Banigan|Andrew D Stephens|John F Marko Massachusetts Institute of Technology;|Northwestern University
http://dx.doi.org/10.1101/197467 2017-10-02 Inhibition of mitochondrial fission preserves photoreceptors after retinal detachment Xiangjun She|Xinmin Lu|Tong Li|Junran Sun|Jian Liang|Yuanqi Zhai|Shiqi Yang|Qing Gu|Fang Wei|Hong Zhu|Fenghua Wang|Xueting Luo|Xiaodong Sun Department of Ophthalmology, Shanghai General Hospital, Shanghai;|Shanghai Key Laboratory of Fundus Diseases, Shanghai, China;|Shanghai Engineering Center for Visual Science and Photomedicine, Shanghai, China
http://dx.doi.org/10.1101/197236 2017-10-02 CC BY-ND DNA-Demethylating Agents enhance cytolytic activity of CD8+ T Cells and anti-tumor immunity Helen Loo Yau|Ankur Chakravarthy|Felipe C Almeida|David Allard|Rajat Singhania|Ilias Ettayebi|Shu Y Shen|Tiago Medina|Parinaz Mehdipour|Beatriz Morancho|Sandra Pommey|Christian Klein|Gustavo Amarante-Mendes|David Roulois|Marcus Butler|Joaquin Arribas|John Stagg|Daniel D De Carvalho University of Toronto;|Princess Margaret Cancer Centre;|University of Montreal;|Vall d Hebron Institute of Oncology (VHIO);|Roche Pharmaceutical Research and Early Development;|Instituto de Ciencias Biomedicas, Universidade de Sao Paulo;|UMR U1236, INSERM, Universite de Rennes 1
http://dx.doi.org/10.1101/194035 2017-10-02 CC BY-NC-ND A framework for generating interactive reports for cancer genome analysis Ai Okada|Kenichi Chiba|Hiroko Tanaka|Satoru Miyano|Yuichi Shiraishi The University of Tokyo
http://dx.doi.org/10.1101/197509 2017-10-02 CC BY-ND Genetic reagents for making split-GAL4 lines in Drosophila Heather Dionne|Karen Hibbard|Amanda Cavallaro|Jui-Chun Kao|Gerald M Rubin Janelia Research Campus/HHMI
http://dx.doi.org/10.1101/197202 2017-10-02 CC BY-NC-ND The plastid-nucleus located DNA/RNA binding protein WHIRLY1 regulates microRNA-levels during stress Aleksandra Swida-Barteczka|Anja Krieger-Liszkay|Wolfgang Bilger|Ulrike Voigt|Goetz Hensel|Zofia Szweykowska-Kulinska|Karin Krupinska Department of Gene Expression, Adam Mickiewicz University in Poznan;|Institute for Integrative Biology of the Cell, Universite Paris-Sud, Universite Paris-Saclay;|Institute of Botany, Christian-Albrechts-University, Kiel;|Leibniz Institute of Plant Genetics and Crop Plant Research (IPK), Seeland/Gatersleben
http://dx.doi.org/10.1101/197517 2017-10-02 Deep Convolutional Neural Networks Enable Discrimination of Heterogeneous Digital Pathology Images Pegah Khosravi|Ehsan Kazemi|Marcin Imielinski|Olivier Elemento|Iman Hajirasouliha Weill Cornell Medicine of Cornell University;|Yale Institute for Network Science, Yale University
http://dx.doi.org/10.1101/197269 2017-10-02 CC BY Peatland Acidobacteria with a dissimilatory sulfur metabolism Bela Hausmann|Claus Pelikan|Craig W. Herbold|Stephan Koestlbacher|Mads Albertsen|Stephanie A. Eichorst|Tijana Glavina del Rio|Martin Huemer|Per H. Nielsen|Thomas Rattei|Ulrich Stingl|Susannah G. Tringe|Daniela Trojan|Cecilia Wentrup|Dagmar Woebken|Michael Pester|Alexander Loy University of Vienna;|Aalborg University;|US Department of Energy Joint Genome Institute;|University of Florida;|Leibniz Institute DSMZ
http://dx.doi.org/10.1101/197491 2017-10-02 CC BY Hierarchical organization endows the kinase domain with regulatory plasticity Pau Creixell|Jai P Pandey|Antonio Palmeri|Marc C Santa-Olalla|Rama Ranganathan|David Pincus|Michael B. Yaffe Koch Cancer Center, MIT;|Whitehead Institute for Biomedical Research;|CITRE;|UTSW;|Whitehead Institute;|Koch Cancer Institute, MIT
http://dx.doi.org/10.1101/195560 2017-10-02 Cell Biology miR-128-induced LINE-1 restriction is dependent on down-regulation of hnRNPA1 Irene Pedersen|Lianna Fung|Herlinda Guzman|Evgueni Sevrioukov|Adam Idica|Eddie Park|Aurore Bochnakien|Iben Daugaard|Douglas Jury|Ali Mortazavi|Dimitri Zisoulis University of California, Irvine;|University of California, Los Angeles
http://dx.doi.org/10.1101/197046 2017-10-02 Bioengineering A radial pillar device (RAPID) for continuous and high-throughput separation of multi-sized particles Ninad Dileep Mehendale|Oshin Sharma|Claudy Dcosta|Debjani Paul Indian Institute of Technology Bombay;|IITB
http://dx.doi.org/10.1101/197186 2017-10-02 Biochemistry Neuropathic mutations in MORC2 perturb GHKL ATPase dimerization dynamics and epigenetic silencing by multiple structural mechanisms Christopher H Douse|Stuart Bloor|Yangci Liu|Maria Shamin|Iva A Tchasovnikarova|Richard T Timms|Paul J Lehner|Yorgo Modis University of Cambridge
http://dx.doi.org/10.1101/197152 2017-10-02 Biophysics A simple and powerful analysis of lateral subdiffusion using single particle tracking Marianne RENNER|Lili WANG|Sabine LEVI|Laetitia hennekinne|Antoine TRILLER Inserm;|Nikon Instrument Shanghai;|IBENS-Inserm-CNRS
http://dx.doi.org/10.1101/196980 2017-10-02 Bioengineering Directed evolution of TurboID for efficient proximity labeling in living cells and organisms Tess C Branon|Justin A Bosch|Ariana D Sanchez|Namrata D Udeshi|Tanya Svinkina|Steven A Carr|Jessica L Feldman|Norbert Perrimon|Alice Y Ting Massachusetts Institute of Technology;|Harvard Medical School;|Stanford University;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/196139 2017-10-02 Cancer Biology Glioma Through the Looking GLASS: the Glioma Longitudinal Analysis consortium, molecular evolution of diffuse gliomas Roel Verhaak -;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/197012 2017-10-02 Neuroscience Treatment-resistant depression and peripheral C-reactive protein Samuel R Chamberlain|Jonatha Cavanagh|Peter de Boer|Valeria Mondelli|Declan Jones|Wayne Drevets|Philip Cowen|Neil Harrison|Linda Pointon|Carmine Pariante|Edward T Bullmore University of Cambridge;|University of Glasgow;|Janssen Pharmaceutica NV;|Kings College, London;|Janssen Research & Development, LLC;|University of Oxford;|University of Sussex;|-
http://dx.doi.org/10.1101/197145 2017-10-03 Immunology CC BY IRF4 haploinsufficiency in a family with Whipple’s disease Antoine Guerin|Gaspard Kerner|Nico Marr|Janet G Markle|Florence Fenollar|Natalie Wong|Sabri Boughorbel|Danielle T Avery|Cindy Ma|Salim Bougarn|Matthieu Bouaziz|Vivien Beziat|Erika Della Mina|Tomi Lazarovt|Lisa Worley|Tina Nguyen|Etienne Patin|Caroline Deswarte|Ruben Martinez-Barricarte|Soraya Boucherit|Xavier Ayral|Sophie Edouard|Stephanie Boisson-Dupuis|Vimel Rattina|Benedetta Bigio|Guillaume Vogt|Frederic Geissmann|Lluis Quintana-Murci|Damien Chaussabel|Stuart Tangye|Didier Raoult|Laurent Abel|Jacinta Bustamante|Jean-Laurent Casanova Imagine Institut;|Sidra Medical and Research Center;|The Rockefeller University;|University Aix-Marseille (URMITE);|Garvan Institute of Medical Research;|Memorial Sloan Kettering Cancer Center;|Institut Pasteur;|Cochin Hospital
http://dx.doi.org/10.1101/197699 2017-10-03 Developmental Biology CC BY Identifying developmentally important genes with single-cell RNA-seq from an embryo Garth R Ilsley|Ritsuko Suyama|Takeshi Noda|Nori Satoh|Nicholas M Luscombe OIST Graduate University
http://dx.doi.org/10.1101/197616 2017-10-03 Synthetic Biology Native and engineered clifednamide biosynthesis in multiple Streptomyces spp. YuncI Qi|Edward Ding|Joshua Blodgett Washington University in St. Louis;|Washington University in St Louis
http://dx.doi.org/10.1101/196261 2017-10-03 Biophysics CC BY-NC Chromatin Organization by an Interplay of Loop Extrusion and Compartmental Segregation Johannes Nuebler|Geoffrey Fudenberg|Maxim Imakaev|Nezar Abdennur|Leonid Mirny Massachusetts Institute of Technology, Cambridge, MA 02139, USA;|University of California, San Francisco, Gladstone Institutes, San Francisco, CA 94158
http://dx.doi.org/10.1101/197558 2017-10-03 Biochemistry Structural Basis for Katanin Self-Assembly Stanley Nithiananatham|Francis McNally|Jawdat Al-Bassam Department of Molecular Cellular Biology, University of California, Davis;|Molecular Cellular Biology, University of California, Davis
http://dx.doi.org/10.1101/197376 2017-10-02 Cancer Biology Fibroblasts from metastatic sites induce broad-spectrum drug desensitization via modulation of mitochondrial priming Benjamin D. Landry|Thomas Leete|Ryan Richards|Peter Cruz-Gordillo|Gary Ren|Alyssa D. Schwartz|Shelly R. Peyton|Michael J Lee University of Massachusetts Medical School;|University of Massachusetts, Amherst
http://dx.doi.org/10.1101/196642 2017-10-02 Neuroscience Dissociable signatures of visual salience and behavioral relevance across attentional priority maps in human cortex Thomas Sprague|Sirawaj Itthipuripat|Vy Vo|John T Serences New York University;|UCSD
http://dx.doi.org/10.1101/197640 2017-10-02 Genetics Genome-wide homology analysis reveals new insights into the origin of the wheat B genome Wei Zhang|Mingyi Zhang|Xianwen Zhu|Yaping Cao|Qing Sun|Guojia Ma|Shiaoman Chao|Changhui Yan|Steven Xu|Xiwen Cai North Dakota State University;|USDA-ARS
http://dx.doi.org/10.1101/195578 2017-10-02 Cell Biology CC BY-ND Atg8 is essential specifically for an autophagy-independent function in apicoplast biogenesis in blood-stage malaria parasites Marta Walczak|Suresh M Ganesan|Jacquin C Niles|Ellen Yeh Stanford University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/193383 2017-10-02 Neuroscience CC BY-NC OnACID: Online Analysis of Calcium Imaging Data in Real Time Andrea Giovannucci|Johannes Friedrich|Matthew Kaufman|Anne K. Churchland|Dmitri Chklovskii|Liam Paninski|Eftychios A. Pnevmatikakis Flatiron Institute;|Cold Spring Harbor Laboratory;|Columbia University
http://dx.doi.org/10.1101/197459 2017-10-02 Genetics CC BY-NC-ND Genetic Analysis of Deep Phenotyping Projects in Common Disorders Elliot S Gershon|Godfrey Pearlson|Matcheri S Keshavan|Carol Tamminga|Brett Clementz|Peter F Buckley|Ney Alliey-Rodriguez|Chunyu Liu|John A Sweeney|Sarah Keedy|Shashwath Meda|Neeraj Tandon|Rebecca Shafee|Jeffrey R Bishop|Elena I Ivleva University of Chicago;|Yale University Departments of Psychiatry & Neuroscience;|Harvard Medical School, Department of Psychiatry;|Department of Psychiatry, University of Texas Southwestern Medical Center;|Department of Psychology, University of Georgia, Athens;|School of Medicine Virginia Commonwealth University;|University of Illinois at Chicago;|Beth Israel Deaconess Medical Center, Dept of Psychiatry, Harvard Medical School;|Department of Genetics, Harvard Medical School;|Department of Clinical and Experimental Pharmacology, University of Minnesota
http://dx.doi.org/10.1101/197731 2017-10-03 Cell Biology CC BY-NC-ND Mitochondrial Methylation Two-Peak Profile Absent in Parkinson's Disease Patient Andre X. C. N. Valente|Qiwen Liao|Guy Rohkin|Raquel Bouca-Machado|Leonor Correia Guedes|Joaquim J. Ferreira|Simon Ming-Yuen Lee Center for Neurosciences and Cell Biology;|University of Macau;|Girihlet;|Instituto de Medicina Molecular
http://dx.doi.org/10.1101/197848 2017-10-03 Molecular Biology The cohesin ring uses its hinge to organize DNA using non-topological as well as topological mechanisms Madhusudhan Srinivasan|Johanna Scheinost|Naomi Petela|Thomas Gligoris|Maria Wissler|Sugako Ogushi|James Collier|Menelaos Voulgaris|Alexander Kurze|Kok-Lung Chan|Bin Hu|Vincenzo Costanzo|Kim Nasmyth Biochemistry University of Oxford;|University Of Sussex;|University Of Sheffield;|IFOM Milan
http://dx.doi.org/10.1101/197822 2017-10-03 Systems Biology CC BY-NC-ND Revisiting the erythroid-myeloid lineage decision - a data-driven dynamical model analysis Jose Teles|Victor Olariu|Carsten Peterson Sainsbury Laboratory, University of Cambridge, Cambridge, UK;|Computational Biology, Lund University, Lund, Sweden
http://dx.doi.org/10.1101/198010 2017-10-03 Bioinformatics Predicting cancer outcomes from histology and genomics using convolutional networks Pooya Mobadersany|Safoora Yousefi|Mohamed Amgad|David A Gutman|Jill S Barnholtz-Sloan|Jose Enrique Velazquez Vega|Daniel J Brat|Lee A.D. Cooper Emory University;|Case Western Reserve University
http://dx.doi.org/10.1101/197962 2017-10-03 Genetics Allele-specific editing of rhodopsin P23H knock-in mice broadens therapeutic potential of CRISPR/Cas for dominant genetic diseases Pingjuan Li|Benjamin P. Kleinstiver|Mihoko Y. Leon|Michelle S. Prew|Daniel Navarro-Gomez|Scott H. Greenwald|Eric A. Pierce|J. Keith Joung|Qin Liu Ocular Genomics Institute, Massachusetts Eye & Ear, Harvard Medical School;|Molecular Pathology Unit & Center for Cancer Research, Massachusetts General Hospital
http://dx.doi.org/10.1101/197905 2017-10-03 Neuroscience CC BY-NC-ND RhoGEF9 splice isoforms influence neuronal maturation and synapse formation downstream of a2 GABAA receptors Claire deGroot|Amalia Floriou-Servou|Yuan-Chen Tsai|Simon Frueh|Manuela Kohler|Georgia Parkin|Cornelia Schwerdel|Giovanna Bosshard|Kai Kaila|Jean-Marc Fritschy|Shiva Tyagarajan Institute of Pharmacology and Toxicology, University of Zurich;|University of Helsinki
http://dx.doi.org/10.1101/197608 2017-10-03 Neuroscience CC BY-NC-ND Predictive Coding of Novel versus Familiar Stimuli in the Primary Visual Cortex Jan Homann|Sue Ann Koay|Alistair M. Glidden|David W. Tank|Michael J. Berry Princeton University
http://dx.doi.org/10.1101/197988 2017-10-03 Animal Behavior and Cognition Females prefer cooperative males even when cooperative behavior is unobserved: evidence from the mound-building mouse, Mus spicilegus Arnaud Tognetti|Michel Raymond|Guila Ganem|Charlotte Faurie Institute for Advanced Study in Toulouse;|Institute of Evolutionary Sciences (ISEM), University of Montpellier, CNRS, IRD, EPHE
http://dx.doi.org/10.1101/196881 2017-10-03 Bioinformatics Comparative Transcriptomics of Mango (Mangifera indica L.) Cultivars Provide Insights of Biochemical Pathways Involved in Flavor and Color Waqasuddin Khan|Safina Abdul Razzak|M. Kamran Azim Jamil-ur-Rahman Center for Genome Research, PCMD, ICCBS, Univ. of Karachi, Pakistan;|Mohammad Ali Jinnah University, Karachi 75400, Pakistan
http://dx.doi.org/10.1101/198044 2017-10-03 Systems Biology A blueprint for human whole-cell modeling Balazs Szigeti|Yosef D. Roth|John A. P. Sekar|Arthur P. Goldberg|Saahith C. Pochiraju|Jonathan R. Karr Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/197889 2017-10-03 Genomics CC BY-NC-ND Profiling and leveraging relatedness in a precision medicine cohort of 92,455 exomes Jeffrey Staples|Evan K Maxwell|Nehal Gosalia|Claudia Gonzaga-Jauregui|Christopher Snyder|Alicia Hawes|John Penn|Ricardo Ulloa|Xiadong Bai|Alexander E Lopez|Cristopher V Van Hout|Colm O'Dushlaine|Tanya M Teslovich|Shane E McCarthy|Suganthi Balasubramanian|H Lester Kirchner|Joseph B Leader|Michael F Murray|David H Ledbetter|Alan R Shuldiner|George Yancoupolos|Frederick E Dewey|David J Carey|John D Overton|Aris Baras|Lukas Habegger|Jeffrey G Reid Regeneron Genetics Center;|Rochester Institute of Technology;|Geisinger Health System;|Regeneron Pharmaceuticals Inc.
http://dx.doi.org/10.1101/197954 2017-10-03 Ecology CC BY-NC-ND Networks of genetic similarity reveal non-neutral processes shape strain structure in Plasmodium falciparum Qixin He|Shai Pilosof|Kathryn E. Tiedje|Shazia Ruybal-Pesantez|Yael Artzy-Randrup|Edward B. Baskerville|Karen Day|Mercedes Pascual Department of Ecology and Evolution, University of Chicago;|School of BioSciences, Bio21 Institute/University of Melbourne, Melbourne, Australia;|IBED, University of Amsterdam
http://dx.doi.org/10.1101/197004 2017-10-03 Zoology CC BY Diet predicts milk composition in primates Gregory E. Blomquist|Katie Hinde|Lauren A. Milligan Newmark University of Missouri;|Arizona State University;|Mira Costa College
http://dx.doi.org/10.1101/197624 2017-10-03 Neuroscience CC BY-NC Mechanisms underlying serotonergic excitation of callosal projection neurons Emily K Stephens|Arielle L Baker|Allan T Gulledge Geisel School of Medicine at Dartmouth College
http://dx.doi.org/10.1101/197798 2017-10-03 Bioinformatics CC BY-NC-ND Comparison of RNA-seq and Microarray Platforms for Splice Event Detection using a Cross-Platform Algorithm Juan P. Romero|Maria Ortiz-Estevez|Ander Muniategui|Soraya Carrancio|Fernando J. de Miguel|Fernando Carazo|Luis M. Montuenga|Remco Loos|Ruben Pio|Matthew W. B. Trotter|Angel Rubio CEIT and TECNUN, Universidad de Navarra;|Celgene Institute for Translational Research Europe, Celgene Corporation;|Program in Solid Tumors and Biomarkers, CIMA, University of Navarra
http://dx.doi.org/10.1101/197830 2017-10-03 Genomics CC BY-ND Comparative analysis of the genomes of Stylophora pistillata and Acropora digitifera provides evidence for extensive differences between species of corals Christian R Voolstra|Yong Li|Yi Jin Liew|Sebastian Baumgarten|Didier Zoccola|Jean-Francois Flot|Sylvie Tambutte|Denis Allemand|Manuel Aranda KAUST;|CSM Monaco;|Institut Pasteur
http://dx.doi.org/10.1101/197665 2017-10-03 Neuroscience CC BY-NC-ND The experience of vivid autobiographical reminiscence is supported by personal semantic representations in the precuneus Vishnu Sreekumar|Dylan M Nielson|Troy A Smith|Simon J Dennis|Per B Sederberg National Institutes of Health;|National Institute of Mental Health;|University of North Georgia;|University of Melbourne;|University of Virginia
http://dx.doi.org/10.1101/197947 2017-10-03 Microbiology Interactions of pathogenic and commensal strains of Mannheimia haemolytica with differentiated bovine airway epithelial cells grown at an air-liquid interface Daniel Cozens|Erin Sutherland|Miquel Lauder|Geraldine Taylor|Catherine C. Berry|Robert L. Davies University of Glasgow;|The Pirbright Institute
http://dx.doi.org/10.1101/197814 2017-10-03 Microbiology Temporal differentiation of bovine airway epithelial cells grown at an air-liquid interface Daniel Cozens|Erin Sutherland|Francesco Marchesi|Geraldine Taylor|Catherine C. Berry|Robert L. Davies University of Glasgow;|The Pirbright Institute
http://dx.doi.org/10.1101/197764 2017-10-03 Neuroscience CC BY-NC Single-exposure visual memory judgments are reflected in IT cortex Travis Meyer|Nicole C Rust University of Pennsylvania
http://dx.doi.org/10.1101/197913 2017-10-03 Bioinformatics Association Analysis and Meta-Analysis of Multi-allelic Variants for Large Scale Sequence Data Xiaowei Zhan|Sai Chen|Yu Jiang|Mengzhen Liu|William G Iacono|John K Hewitt|John E Hokanson|Kenneth Krauter|Markku Laakso|Kevin W Li|Sharon M Lutz|Matthew McGue|Anita Pandit|Gregory JM Zajac|Michael Boehnke|Goncalo R Abecasis|Bibo Jiang|Scott I Vrieze|Dajiang J Liu Department of Clinical Science, University of Texas Southwestern Medical Center, Dallas, TX;|Illumina Inc. 5200 Illuminay Way, San Diego, CA;|Department of Public Health Sciences, Penn State College of Medicine, Hershey, PA;|Department of Psychology, University of Minnesota, Minneapolis, MN;|Department of Psychiatry, University of Minnesota, Minneapolis, MN;|Institute for Behavioral Genetics, University of Colorado Boulder;|Department of Epidemiology, School of Public Health, University of Colorado Denver, Aurora, Colorado;|Department of Medicine, University of Eastern Finland and Kuopio University Hospital, Finland;|Center of Statistical Genetics, Department of Biostatistcs, University of Michigan, Ann Arbor, MI;|Department of Biostatistics and Informatics, University of Colorado, Anschutz Campus, Aurora, CO
http://dx.doi.org/10.1101/197756 2017-10-03 Evolutionary Biology CC BY-NC-ND Independent erosion of conserved transcription factor binding sites points to shared hindlimb, vision, and scrotum loss in different mammals Mark J Berger|Aaron M Wenger|Harendra Guturu|Gill Bejerano Stanford University
http://dx.doi.org/10.1101/198036 2017-10-03 Molecular Biology CC BY-NC-ND A Feed-forward Relay between Bicoid and Orthodenticle Regulates the Timing of Embryonic Patterning in Drosophila Rhea Datta|Jia Ling|Jesse Kurland|Xiaotong Ren|Xu Zhe|Gozde Yucel|Jackie Moore|Leila Shokri|Isabel Baker|Timothy Bishop|Paolo Struffi|Rimma Levina|Martha Bulyk|Robert Johnston|Stephen Small New York University;|Harvard Medical School;|Johns Hopkins University
http://dx.doi.org/10.1101/197715 2017-10-03 Bioinformatics CC BY-NC-ND NGSphy: phylogenomic simulation of next-generation sequencing data Merly Escalona|Sara Rocha|David Posada University of Vigo
http://dx.doi.org/10.1101/197574 2017-10-03 Cancer Biology Classification and Mutation Prediction from Non-Small Cell Lung Cancer Histopathology Images using Deep Learning Nicolas Coudray|Andre L Moreira|Theodore Sakellaropoulos|David Fenyo|Narges Razavian|Aristotelis Tsirigos New York University;|National Technical University of Athens
http://dx.doi.org/10.1101/197921 2017-10-03 Plant Biology Impaired phloem loading in genome-edited triple knock-out mutants of SWEET13 sucrose transporters Wolf Frommer|Margot Bezrutczyk|Thomas Hartwig|Mark Horschman|Si Nian Char|Jinliang Yang|Bing Yang|Davide Sosso Heinrich Heine University Duesseldorf;|Heinrich Heine University;|Carnegie Science;|Iowa State University;|Iowa Sate University
http://dx.doi.org/10.1101/197939 2017-10-03 Genomics RES complex is associated with intron definition and required for zebrafish early embryogenesis Juan Fernandez|Miguel Moreno-Mateos|Andre Gohr|Shun Chan|Manuel Irimia|Antonio Giraldez Yale University School of Medicine;|Centre for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/197244 2017-10-03 Genomics CC BY-ND bigSCale: An Analytical Framework for Big-Scale Single-Cell Data Giovanni Iacono|Elisabetta Mereu|Amy Guillaumet-Adkins|Roser Corominas|Ivon Cusco|Gustavo Rodriguez-Esteban|Marta Gut|Luis Alberto Perez-Jurado|Ivo Gut|Holger Heyn Centre for Genomic Regulation (CNAG-CRG);|University Pompeu Fabra (UPF)
http://dx.doi.org/10.1101/198325 2017-10-04 SWEET11 and 15 as key players in seed filling in rice Jungil Yang|Dangping Luo|Bing Yang|Wolf Frommer|Joon-Seob Eom Max Planck Institute for Plant Breeding;|Iowa State University;|Heinrich Heine University of Duesseldorf
http://dx.doi.org/10.1101/197806 2017-10-04 CC BY-NC-ND Scopoletin 8-hydroxylase: a novel enzyme involved in coumarin biosynthesis and iron-deficiency responses in Arabidopsis Joanna Siwinska|Kinga Wcisla|Alexandre Olry|Jeremy Grosjean|Alain Hehn|Frederic Bourgaud|Andrew Meharg|Manus Carey|Ewa Lojkowska|Anna Ihnatowicz Intercollegiate Faculty of Biotechnology, Univ. of Gdansk; Medical Univ. of Gdansk;|Univ. de Lorraine, INRA, Laboratoire Agronomie et Environnement Nancy-Colmar;|Institute for Global Food Security, Queen's University Belfast
http://dx.doi.org/10.1101/197855 2017-10-04 CC BY-NC Linking nitrogen load to the structure and function of wetland soil and rhizosphere microbial communities Eric R. Hester|Sarah F. Harpenslager|Josepha M. H. van Diggelen|Leon L. Lamers|Mike S. M. Jetten|Claudia Luke|Sebastian Lucker|Cornelia U. Welte Department of Microbiology, Radboud University;|Department of Aquatic Ecology and Environmental Biology, Radboud University;|B-WARE Research Center
http://dx.doi.org/10.1101/198283 2017-10-04 Root type and soil phosphate determine the taxonomic landscape of colonizing fungi and the transcriptome of field-grown maize roots Peng Yu|Chao Wang|Jutta Baldauf|Huanhuan Tai|Caroline Gutjahr|Frank Hochholdinger|Chunjian Li Crop Functional Genomics, University of Bonn;|Chinese Academy of Sciences, Institute of Genetics and Developmental Biology;|University of Cologne, Botanical Institute, Cluster of Excellence on Plant Sciences;|LMU Munich;|China Agricultural University, Department of Plant Nutrition
http://dx.doi.org/10.1101/181644 2017-10-04 Cell Biology CC BY-NC LITE microscopy: a technique for high numerical aperture, low photobleaching fluorescence imaging Tanner C Fadero|Therese M Gerbich|Kishan Rana|Aussie Suzuki|Matthew DiSalvo|Kristina N Schaefer|Jennifer K Heppert|Thomas C Boothby|Bob Goldstein|Mark Peifer|Nancy L Allbritton|Amy S Gladfelter|Amy S Maddox|Paul S Maddox UNC-Chapel Hill
http://dx.doi.org/10.1101/197632 2017-10-04 Evolutionary Biology Association theory: a new framework for analyzing social evolution Owen Michael Gilbert University of Texas at Austin
http://dx.doi.org/10.1101/198069 2017-10-04 Cell Biology CC BY-NC-ND ZMPSTE24 Missense Mutations that Cause Progeroid Diseases Decrease Prelamin A Cleavage Activity, Protein Stability, or Both Eric Spear|Erh-Ting Hsu|Laiyin Nie|Elisabeth P. Carpenter|Christine Hrycyna|Susan Michaelis The Johns Hopkins University School of Medicine;|Purdue University;|University of Oxford
http://dx.doi.org/10.1101/197533 2017-10-04 Pathology CC BY-NC-ND A Novel Uropathogenic Escherichia Coli Genome (strain D3) and Comparative Analysis with Other Uropathogenic and Nonpathogenic Strains Brian B Nadel|Shawn J Cokus|Marco Morselli|Laura J Marinelli|Robert L Modlin|Joe Distefano|Matteo Pellegrini University of California, Los Angeles
http://dx.doi.org/10.1101/198093 2017-10-04 Neuroscience CC BY-NC-ND Defining subtypes of autism spectrum disorder using static and dynamic functional connectivity Amanda Kathleen Easson|Zainab Fatima|Anthony R McIntosh University of Toronto; Rotman Research Institute, Baycrest Health Sciences;|York University;|Rotman Research Institute, Baycrest Health Sciences; University of Toronto
http://dx.doi.org/10.1101/198341 2017-10-04 CC BY-NC-ND Allosteric Modulation of Conformational Dynamics in Human Hsp90?: A Computational Study David L. Penkler|Canan Atilgan|Ozlem Tastan Bishop Rhodes University;|Sabanci University
http://dx.doi.org/10.1101/198515 2017-10-04 CC BY-NC-ND When Less is More: Enhanced Statistical Learning After Disruption of Bilateral DLPFC Geza Gergely Ambrus|Karolina Janacsek|Anna B. C. Trimborn|Gyula Kovacs|Dezso Nemeth Institute of Psychology, Friedrich Schiller University Jena;|Institute of Psychology, Eotvos Lorand University;|Eotvos Lorand University
http://dx.doi.org/10.1101/198457 2017-10-04 CC BY-NC-ND Introduction of single nucleotide variations into the promoter region of the mouse kidney anion exchanger 1 gene downstream of a TATA box changes its transcriptional activity. Takumi Takeuchi|Mami Hattori-Kato Dept. of Urology, Japan Org. of Occupational Health & Safety, Kanto Rosai Hospital
http://dx.doi.org/10.1101/198184 2017-10-04 A Single Mechanosensitive Channel Protects Francisella tularensis subsp. holarctica from Hypoosmotic Shock and Promotes Survival in the Aquatic Environment. David R. Williamson|Kalyan K. Dewan|Tanmay Patel|Catherine M. Wastella|Gang Ning|Girish S. Kirimanjeswara Pennsylvania State University
http://dx.doi.org/10.1101/198622 2017-10-04 The Proteus mirabilis rffG gene is essential for swarm-associated cell elongation through an Rcs-mediated pathway Kristin Little|Murray J. Tipping|Karine Gibbs Harvard University
http://dx.doi.org/10.1101/197160 2017-10-04 CC BY Non-predictive online spatial coding in the posterior parietal cortex when aiming ahead for catching Sinead A. Reid|Joost C. Dessing Queen's University Belfast
http://dx.doi.org/10.1101/198317 2017-10-04 CC BY-NC-ND A subcortical circuit linking the cerebellum to the basal ganglia engaged in vocal learning Ludivine Pidoux|Pascale Leblanc|Arthur Leblois CNRS
http://dx.doi.org/10.1101/198218 2017-10-04 On a 'failed' attempt to manipulate conscious perception with transcranial magnetic stimulation to prefrontal cortex Eugene Ruby|Brian Maniscalco|Hakwan Lau|Megan A.K. Peters Department of Psychology, University of California, Los Angeles;|Neuroscience Institute, New York University Langone Medical Center;|Department of Psychology, University of California Los Angeles;|Department of Bioengineering, University of California Riverside, Riverside
http://dx.doi.org/10.1101/198192 2017-10-04 CC BY-NC-ND Second-order freeriding on antisocial punishment restores the effectiveness of prosocial punishment Attila Szolnoki|Matjaz Perc Hungarian Academy of Sciences;|University of Maribor
http://dx.doi.org/10.1101/197780 2017-10-04 CC BY-NC-ND Improved management facilitates return of an iconic fish species Brian R. MacKenzie|Kim Aarestrup|Mads Christoffersen|Mark R. Payne|Claus Sorensen|Henrik S. Lund|Michele Casini Technical University of Denmark;|Marinexperten.dk;|Danish Fishermen Producer Organisation;|Swedish University of Agricultural Sciences
http://dx.doi.org/10.1101/198176 2017-10-04 Identification of a Small Molecule Inhibitor of the Aminoglycoside 6'-N-Acetyltransferase Type Ib [AAC(6')-Ib] Using Mixture-Based Combinatorial Libraries Tung Tran|Kevin Chiem|Saumya Jani|Brock Arivett|David Lin|Rupali Lad|Veronica Jimenez|Mary Farone|Ginamarie Debevec|Radleigh Santos|Marc Giulianotti|Clemencia Pinilla|Marcelo Tolmasky California State University Fullerton;|Middle Tennessee State University;|Torrey Pines Institute for Molecular Studies
http://dx.doi.org/10.1101/198614 2017-10-04 CC BY-NC-ND Methods in Description and Validation of Local Metagenetic Microbial Communities David Christopher Molik|Michael Pfrender|Scott Emrich University of Notre Dame
http://dx.doi.org/10.1101/194167 2017-10-04 CC BY-NC-ND Genetic study links components of the autonomous nervous system to heart-rate profile during exercise Niek Verweij|Yordi J. van de Vegte|Pim van der Harst University of Groningen, University Medical Center Groningen, Dept. of Cardiology;|University of Groningen, University Medical Center Groningen, Dept. of Genetics
http://dx.doi.org/10.1101/197970 2017-10-04 CC BY-NC-ND Immune-active microenvironment in small cell carcinoma of the ovary, hypercalcemic type: rationale for immune checkpoint blockade Petar Jelinic|Jacob Ricca|Elke Van Oudenhove|Narciso Olvera|Taha Merghoub|Douglas A Levine|Dmitriy Zamarin Laura and Isaac Perlmutter Cancer Center, NYU Langone Medical Center;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/197772 2017-10-04 A set informative multiple autosomal markers for human identification: forensic research and population genetics analysis in a Chinese Xinjiang Hui group Tong Xie|Yuxin Guo|Ling Chen|Yunchun Tai|Yongsong Zhou|Yating Fang|Pingming Qiu|Bofeng Zhu Southern Medical University;|Xi'an Jiaotong University
http://dx.doi.org/10.1101/198390 2017-10-04 CC BY-NC-ND Evolving building blocks of rhythm: How human cognition creates music via cultural transmission Andrea Ravignani|Bill Thompson|Thomas Grossi|Tania Delgado|Simon Kirby Sealcentre Pieterburen;|Language and Cognition Department, Max Planck Institute for Psycholinguistics;|Centre for Language Evolution, University of Edinburgh;|Department of Cognitive Science, University of California, San Diego
http://dx.doi.org/10.1101/197749 2017-10-04 Platelet enrichment from whole blood in a clog-free microfluidic radial pillar device (RAPID) Ninad Dileep Mehendale|Oshin Sharma|Claudy D'Costa|Debjani Paul Indian Institute of Technology Bombay;|IITB
http://dx.doi.org/10.1101/198697 2017-10-04 Introducing prescribed biases in out of equilibrium Markov models Purushottam Dixit Columbia University
http://dx.doi.org/10.1101/197582 2017-10-04 CC BY-NC-ND Individual differences in locomotor function predict the capacity to reduce asymmetry and modify the energetic cost of walking post-stroke Natalia Sanchez|James M. Finley University of Southern California
http://dx.doi.org/10.1101/198424 2017-10-04 A longitudinal analysis of men's intrasexual competitiveness, state anxiety, salivary testosterone, and salivary cortisol Jaimie Torrance|Amanda Hahn|Michal Kandrik|Lisa DeBruine|Benedict Jones University of Glasgow;|Humboldt State University;|VU Amsterdam
http://dx.doi.org/10.1101/198580 2017-10-04 ECM cross-linking regulates invadopodia dynamics Kamyar Esmaeili Pourfarhangi|Aviv Bergman|Bojana Gligorijevic Temple University;|Albert Einstein College of Medicine
http://dx.doi.org/10.1101/198382 2017-10-04 CC BY-NC-ND The Object Space Task for mice and rats Lisa Genzel|Evelien Schut|Tim Schroeder|Ronny Eichler|Gulberk Bayraktar|Nikkie Cornelisse|Hussein Gareth|Federico Giuliani|Angela Gomez|Sidney Hulzebos|Joanne Igoli|Stefanos Loizou|Irene Navarro Lobato|Luc Nijssen|Luca Reinik|Olaf Stoutjedijk|Minou Verheag|Francesco Battaglia Donders Institute
http://dx.doi.org/10.1101/198333 2017-10-04 Identification of Cancer-associated Metabolic Vulnerabilities by Modeling Multi-objective Optimality in Metabolism Ziwei Dai|Liyan Xu|Hongrong Hu|Kun Liao|Shuye Deng|Qiyi Chen|Shiyu Yang|Qian Wang|Shuaishi Gao|Bo Li|Luhua Lai Duke University, United States;|Sun Yatsen University, China;|Peking University, China
http://dx.doi.org/10.1101/198291 2017-10-04 CC BY NDC80 clustering modulates microtubule dynamics under force Vladimir A. Volkov|Pim J. Huis in 't Veld|Marileen Dogterom|Andrea Musacchio Dept. of Bionanoscience, Faculty of Applied Sciences, Delft Univ. of Technology;|Dept. of Mechanistic Cell Biology, Max Planck Institute of Molecular Physiology
http://dx.doi.org/10.1101/198507 2017-10-04 CC BY Shearing in flow environment promotes evolution of social behavior in microbial populations Gurdip Uppal|Dervis Vural University of Notre Dame, United States
http://dx.doi.org/10.1101/198408 2017-10-04 CC BY Temporal profiling of redox-dependent heterogeneity in single cells Meytal Radzinski|Rosi Fassler|Ohad Yogev|William Breuer|Jenia Gutin|Tommer Ravid|Nir Friedman|Maya Schuldiner|Nadav Shai|Dana Reichmann Hebrew University of Jerusalem;|Weizmann Institute of Science
http://dx.doi.org/10.1101/198523 2017-10-04 Getting in shape and swimming: the role of cortical forces and membrane heterogeneity in eukaryotic cells Hao Wu|Marco Avila Ponce de Leon|Hans Othmer University of Minnesota Twin Cities
http://dx.doi.org/10.1101/198465 2017-10-04 CC BY-NC-ND The miR-96/RARγ signaling axis governs androgen signaling and PCa progression Mark D. Long|Prashant K. Singh|James R. Russell|Gerard Llimos|Spencer Rosario|Abbas Rizvi|Henry Withers|Patrick R. van den Berg|Jason Kirk|Lara E. Sucheston-Campbell|Dominic J. Smiraglia|Moray J. Campbell Roswell Park Cancer Institute;|The Ohio State University
http://dx.doi.org/10.1101/198267 2017-10-04 CC BY Ixodes scapularis does not harbor a stable midgut microbiome Benjamin D. Ross|Beth Hayes|Matthew C. Radey|Xia Lee|Tanya Josek|Jenna Bjork|David Neitzel|Susan Paskewitz|Seemay Chou|Joseph D. Mougous University of Washington;|University of California San Francisco;|University of Wisconsin Madison;|University of Illinois Urbana-Champaign;|Minnesota Department of Health
http://dx.doi.org/10.1101/198531 2017-10-04 Bioinformatics CC BY The Elastic Network Contact Model applied to RNA: enhanced accuracy for conformational space prediction Olivier Mailhot|Vincent Frappier|Francois Major|Rafael Najmanovich University of Montreal;|MIT
http://dx.doi.org/10.1101/198168 2017-10-04 Systems Biology CC BY-NC-ND Evolution-informed forecasting of seasonal influenza A (H3N2) Xiangjun Du|Aaron A. King|Robert J. Woods|Mercedes Pascual University of Chicago;|University of Michigan
http://dx.doi.org/10.1101/198275 2017-10-04 Cell Biology CC BY-NC-ND Disruption of dual zygotic spindle assembly shows epigenetic asymmetry to be chromosome intrinsic Judith Reichmann|Bianca Nijmeijer|M. Julius Hossain|Manuel Eguren|Isabell Schneider|Antonio Z. Politi|M. Julia Roberti|Lars Hufnagel|Takashi Hiiragi|Jan Ellenberg European Molecular Biology Laboratory (EMBL);|Leica Microsystems
http://dx.doi.org/10.1101/198572 2017-10-04 Developmental Biology CC BY R-spondins can potentiate WNT signaling without LGR receptors Andres M. Lebensohn|Rajat Rohatgi Stanford University School of Medicine
http://dx.doi.org/10.1101/196956 2017-10-04 Neuroscience A circadian clock in the blood-brain barrier regulates xenobiotic efflux from the brain Shirley L Zhang|Zhifeng Yue|Denice M Arnold|Amita Sehgal University of Pennsylvania;|Howard Hughes Medical Institute, University of Pennsylvania
http://dx.doi.org/10.1101/198101 2017-10-04 Cancer Biology CC BY-NC-ND The interface of malignant and immunologic clonal dynamics in high-grade serous ovarian cancer Allen W. Zhang|Andrew McPherson|Katy Milne|David R. Kroeger|Phineas T. Hamilton|Alex Miranda|Tyler Funnell|Sonya Laan|Dawn R. Cochrane|Jamie L. P. Lim|Winnie Yang|Andrew Roth|Maia A. Smith|Camila de Souza|Julie Ho|Kane Tse|Thomas Zeng|Inna Shlafman|Michael R. Mayo|Richard Moore|Henrik Failmezger|Andreas Heindl|Yi Kan Wang|Ali Bashashati|Scott D. Brown|Daniel Lai|Adrian N. C. Wan|Cydney B. Nielsen|Alexandre Bouchard-Cote|Yinyin Yuan|Wyeth W. Wasserman|C. Blake Gilks|Anthony N. Karnezis|Samuel Aparicio|Jessica N. McAlpine|David G. Huntsman|Robert A. Holt|Brad H. Nelson|Sohrab P. Shah Department of Molecular Oncology, BC Cancer Agency, Vancouver, BC, Canada;|Deeley Research Centre, BC Cancer Agency, Victoria, BC, Canada;|Ludwig Institute for Cancer Research, University of Oxford, Oxford, UK;|Department of Anatomical Pathology, Vancouver General Hospital, BC, Canada;|Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver, Canada;|Centre for Evolution and Cancer, The Institute of Cancer Research, London, UK;|Dept. of Pathology & Laboratory Medicine, Univ. of British Columbia, Vancouver;|Department of Statistics, University of British Columbia, Vancouver, BC, Canada;|BC Children's Hospital Research, Vancouver, BC, Canada;|Dept. of Gynecology & Obstetrics, Univ. of British Columbia, Vancouver, Canada
http://dx.doi.org/10.1101/198481 2017-10-04 Microbiology CC BY-NC-ND A Multimodal Strategy Used By A Large c-di-GMP Network Kurt Dahlstrom|Alan Collins|Georgia Doing|Jacyln Taroni|Timothy Gauvin|Casey Greene|Deborah Hogan|George O'Toole Geisel School of Medicine at Dartmouth;|University of Pennsylvania
http://dx.doi.org/10.1101/196022 2017-10-04 Immunology CC BY An unbiased reconstruction of the T helper cell type 2 differentiation network Johan Henriksson|Xi Chen|Tomas Gomes|Ricardo Miragaia|Ubaid Ullah|Jhuma Pramanik|Kerstin Meyer|Kosuke Yusa|Riita Lahesmaa|Sarah A. Teichmann Wellcome Trust Sanger Institute;|Turku Centre for Biotechnology
http://dx.doi.org/10.1101/198671 2017-10-05 CC BY-NC-ND Grid cell co-activity patterns during sleep reflect spatial overlap of grid fields during active behaviors Sean G. Trettel|John B. Trimper|Ernie Hwaun|Ila R. Fiete|Laura L. Colgin Center for Learning and Memory, University of Texas at Austin
http://dx.doi.org/10.1101/198887 2017-10-05 CC BY-NC Directed functional connectivity using dynamic graphical models Simon Schwab|Ruth Harbord|Valerio Zerbi|Lloyd Elliott|Soroosh Afyouni|Jim Q. Smith|Mark W. Woolrich|Stephen M. Smith|Thomas E. Nichols University of Oxford;|University of Warwick;|ETH Zurich
http://dx.doi.org/10.1101/198788 2017-10-05 CC BY Occipital tACS bursts during a visual task impact ongoing neural oscillation power, coherence and LZW complexity Marta Castellano|David Ibanez-Soria|Eleni Kroupi|Javier Acedo|Michela Campolo|Xenia Martinez|Aureli Soria-Frisch|Josep Valls-Sole|Ajay Verma|Giulio Ruffini Starlab Barcelona SL;|Starlab Barcelona SL;|Neuroelectrics Corp.;|Neurology Dept., Hospital Clinic & IDIBAPS (Inst. d'Investigacio Augusti Pi i Sunyer);|Biogen Inc.
http://dx.doi.org/10.1101/198366 2017-10-05 CC BY Modeling neuron-glia interactions with the Brian 2 simulator Marcel Stimberg|Dan F. M. Goodman|Romain Brette|Maurizio De Pitta Institut de la Vision;|Imperial College London;|INRIA Rhône-Alpes
http://dx.doi.org/10.1101/198895 2017-10-05 CC BY-NC-ND Control of Cardiac Mitochondrial Fuel Selection by Calcium Sunil M. Kandel|Santosh K. Dasika|Ranjan K. Dash|Daniel A. Beard University of Michigan;|Medical College of Wisconsin
http://dx.doi.org/10.1101/198762 2017-10-05 CC BY-NC-ND Symbiodinium genomes reveal adaptive evolution of functions related to symbiosis Huanle Liu|Timothy G. Stephens|Raul Gonzalez-Pech|Victor H. Beltran|Bruno Lapeyre|Pim Bongaerts|Ira Cooke|David G. Bourne|Sylvain Foret|David John Miller|Madeleine J. H. van Oppen|Christian R. Voolstra|Mark A. Ragan|Cheong Xin Chan The University of Queensland;|Australian Institute of Marine Science;|James Cook University;|Australian National University;|The University of Melbourne;|KAUST
http://dx.doi.org/10.1101/198499 2017-10-05 CC BY-NC-ND Correlation structure of grid cells is preserved during sleep Richard J. Gardner|Li Lu|Tanja Wernle|May-Britt Moser|Edvard I. Moser Kavli Institute for Systems Neuroscience and Centre for Neural Computation;|Department of Neuroscience, Baylor College of Medicine, Houston, USA;|Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland
http://dx.doi.org/10.1101/198663 2017-10-05 CC BY-NC-ND Molecular function limits divergent protein evolution on planetary timescales Mariam Konate|German Plata|Jimin Park|Harris H. Wang|Dennis Vitkup Division of Cancer Treatment and Diagnosis, National Cancer Institute;|Department of Systems Biology, Columbia University
http://dx.doi.org/10.1101/196048 2017-10-05 Genetics Multiethnic Meta-analysis Identifies New Loci for Pulmonary Function Annah B. Wyss|Tamar Sofer|Mi Kyeong Lee|Natalie Terzikhan|Jennifer N. Nguyen|Lies Lahousse|Jeanne C. Latourelle|Albert Vernon Smith|Traci M. Bartz|Mary F. Feitosa|Wei Gao|Tarunveer S. Ahluwalia|Wenbo Tang|Christopher Oldmeadow|Qing Duan|Kim de Jong|Mary K. Wojczynski|Xin-Qun Wang|Raymond Noordam|Fernando Pires Hartwig|Victoria E. Jackson|Tianyuan Wang|Ma'en Obeidat|Brian D. Hobbs|Tianxiao Huan|Gleb Kichaev|Jianping Jin|Mariaelisa Graff|Tamara B. Harris|Ravi Kalhan|Susan R. Heckbert|Lavinia Paternoster|Kristin M. Burkart|Yongmei Liu|Elizabeth G. Holliday|James G. Wilson|Judith M. Vonk|Jason Sanders|R. Graham Barr|Renee de Mutsert|Ana Maria Baptista Menezes|Hieab H. H. Adams|Maarten van den Berge|Roby Joehanes|Lenore J. Launer|Alanna C. Morrison|Colleen M. Sitlani|Juan C. Celedon|Stephen B. Kritchevsky|Rodney J. Scott|Kaare Christensen|Jerome I. Rotter|Tobias N. Bonten|Fernando Cesar Wehrmeister|Yohan Bosse|Nora Franceschini|Jennifer A. Brody|Robert C. Kaplan|Kurt Lohman|Mark McEvoy|Michael A. Province|Frits R. Rosendaal|Kent D. Taylor|David C. Nickle|Vilmundur Gudnason|Kari E. North|Myriam Fornage|Bruce M. Psaty|Richard H. Myers|George O'Connor|Torben Hansen|Cathy C. Laurie|Pat Cassano|Joohon Sung|Woo Jin Kim|John R. Attia|Leslie Lange|H. Marike Boezen|Bharat Thyagarajan|Stephen S. Rich|Dennis O. Mook-Kanamori|Bernardo Lessa Horta|Andre G. Uitterlinden|Don D. Sin|Hae Kyung Im|Michael H. Cho|Guy G. Brusselle|Sina A. Gharib|Josee Dupuis|Ani Manichaikul|Stephanie J. London Epidemiology Branch, National Institute of Environmental Health Sciences;|Department of Biostatistics, University of Washington;|Department of Epidemiology, Erasmus University Medical Center;|Center for Public Health Genomics, University of Virginia;|Department of Neurology, Boston University School of Medicine;|Icelandic Heart Association;|Cardiovascular Health Research Unit, Dept. of Biostatistics, Univ. of Washington;|Div. of Statistical Genomics, Dept. of Genetics, Washington Univ. School of Med.;|Department of Biostatistics, Boston University School of Public Health;|Novo Nordisk Foundation Ctr. for Basic Metabolic Research, Univ. of Copenhagen;|Division of Nutritional Sciences, Cornell University;|Hunter Medical Research Institute and Faculty of Health, University of Newcastle;|Department of Genetics, University of North Carolina;|Univ. of Groningen, University Medical Center Groningen, Dept. of Epidemiology;|Division of Biostatistics, Department of Public Health Sciences, University of Virginia;|Dept. of Internal Medicine, Section Gerontology & Geriatrics, Leiden Univ. Med. Ctr.;|Postgraduate Program in Epidemiology, Federal University of Pelotas;|Department of Health Sciences, University of Leicester;|Integrative Bioinformatics Support Group, Natl. Inst. of Environ. Health Sciences;|University of British Columbia Center for Heart Lung Innovation, St. Paul's Hospital;|Channing Division of Network Medicine, Brigham and Womens Hospital;|National Heart, Lung, and Blood Institute;|University of California Los Angeles;|Westat;|Department of Epidemiology, University of North Carolina Chapel Hill;|Laboratory of Epidemiology and Population Sciences, National Institute on Aging;|Div. of Pulmonary & Critical Care Med., Northwestern Univ. Feinberg School of Med.;|Cardiovascular Health Research Unit, Dept. of Epidemiology, Univ. of Washington;|MRC Integrative Epidemiol. Unit, Schl. of Social & Community Med., Univ. of Bristol;|Division of Pulmonary, Allergy & Critical Care Medicine, Columbia University;|Wake Forest School of Medicine;|Department of Physiology and Biophysics, University of Mississippi Medical Center;|Department of Medicine, Massachusetts General Hospital;|Department of Medicine, College of Physicians and Surgeons, Columbia University;|Department of Clinical Epidemiology, Leiden University Medical Center;|Univ. of Groningen, Univ. Medical Center Groningen, Dept. of Pulmonary Diseases;|Hebrew SeniorLife, Harvard University;|Laboratory of Epidemiology & Population Sciences, Natl. Inst. on Aging, NIH;|Dept. of Epidemiology, Human Genetics, & Environmental Sciences, Univ. of Texas;|Cardiovascular Health Research Unit, Department of Medicine, Univ. of Washington;|Div. of Pulmonary Medicine, Allergy, & Immunology, Childrens Hospital of Pittsburgh;|Sticht Center on Aging, Wake Forest School of Medicine;|Dept. of Epidemiology, Biostatistics & Biodemography, Univ. of Southern Denmark;|Inst. for Translational Genomics & Population Sciences, Harbor-UCLA Medical Ctr.;|Department of Public Health and Primary Care, Leiden University Medical Center;|Postgraduate Program in Epidemiology, Federal Univ. of Pelotas, Pelotas, Brazil;|Department of Molecular Medicine, Laval University;|Department of Epidemiology, University of North Carolina;|Dept. of Epidemiology and Population Health, Albert Einstein College of Medicine;|Merck Research Laboratories, GpGx, Merck & Co., Inc.;|-;|Brown Foundation Inst. of Molec. Medicine & Human Genetics Ctr., Univ. of Texas;|Cardiovascular Health Research Unit, Dept. of Medicine, University of Washington;|Pulmonary Center, Department of Medicine, Boston University School of Medicine;|Department of Epidemiology, School of Public Health, Seoul National University;|Dept. of Internal Medicine & Environmental Health Center, Kangwon National Univ.;|University of Colorado Denver;|Department of Laboratory Medicine and Pathology, University of Minnesota;|Department of Internal Medicine, Erasmus University Medical Center;|Section of Genetic Medicine, The University of Chicago;|Computational Med. Core, Ctr. for Lung Biology, Dept. of Med., Univ. of Washington
http://dx.doi.org/10.1101/198705 2017-10-05 Neuroscience CC BY-ND A natural variant and an engineered mutation in a GPCR promote DEET resistance in C. elegans Emily Jane Dennis|Xin Jin|May Dobosiewicz|Laura B. Duvall|Philip S. Hartman|Cornelia I. Bargmann|Leslie B. Vosshall The Rockefeller University;|Texas Christian University
http://dx.doi.org/10.1101/198747 2017-10-05 Neuroscience CC BY Oscillatory Networks of High-Level Mental Alignment: A Perspective-Taking MEG Study Robert A. Seymour|Hongfang Wang|Gina Rippon|Klaus Kessler Aston Brain Centre;|Aston University
http://dx.doi.org/10.1101/198648 2017-10-05 Neuroscience CC BY-NC The VT GAL4, LexA, and split-GAL4 driver line collections for targeted expression in the Drosophila nervous system Laszlo Tirian|Barry Dickson Research Institute of Molecular Pathology;|Janelia Research Campus
http://dx.doi.org/10.1101/193482 2017-10-05 Evolutionary Biology Genetic load and mutational meltdown in cancer cell populations Yuezheng Zhang|Yawei Li|Tianqi Zhu|Xu Shen|Yong Tao|Tao Li|Xueying Li|Di Wang|Qin Ma|Zheng Hu|Jialin Liu|Caihong Zheng|Jue Ruan|Jun Cai|Chung-I Wu|Hurng-Yi Wang|Xuemei Lu Beijing Institute of Genomics, Chinese Academy of Sciences;|Academy of Mathematics and Systems Science, Chinese Academy of Sciences;|School of Life Sciences, Peking University;|National Taiwan University
http://dx.doi.org/10.1101/198689 2017-10-05 Systems Biology CC BY-NC-ND Predicting microRNA targeting efficacy in Drosophila Vikram Agarwal|Alexander O. Subtelny|Prathapan Thiru|Igor Ulitsky|David P. Bartel Whitehead Institute for Biomedical Research, Massachusetts Institute of Technology;|Whitehead Institute for Biomedical Research;|Weizmann Institute of Science
http://dx.doi.org/10.1101/198713 2017-10-05 Genomics CC BY-NC-ND Hi-C deconvolution of a human gut microbiome yields high-quality draft genomes and reveals plasmid-genome interactions. Maximilian O. Press|Andrew H. Wiser|Zev N. Kronenberg|Kyle W. Langford|Migun Shakya|Chien-Chi Lo|Kathryn A. Mueller|Shawn T. Sullivan|Patrick S. G. Chain|Ivan Liachko Phase Genomics;|Bioscience Division, Los Alamos National Laboratory
http://dx.doi.org/10.1101/198135 2017-10-05 Bioengineering CC BY-NC-ND Control of Thiol-Maleimide Reaction Kinetics in PEG Hydrogel Networks Lauren E. Jansen|Lenny Negron-Pineiro|Sualyneth Galarza|Shelly Peyton University of Massachusetts, Amherst
http://dx.doi.org/10.1101/198598 2017-10-05 Plant Biology CC BY-NC-ND Gene expression dynamics and inter-tissue recognition mechanisms during tissue fusion at the Arabidopsis graft junction Charles W. Melnyk|Alexander Gabel|Thomas J. Hardcastle|Sarah Robinson|Shunsuke Miyashima|Ivo Grosse|Elliot M. Meyerowitz Department of Plant Biology, SLU, Almas alle 5, 756 51 Uppsala, Sweden;|Institute of Computer Science, Martin Luther University Halle-Wittenberg, Germany;|Department of Plant Sciences, University of Cambridge, Cambridge, UK;|Institute of Plant Science, University of Bern, Switzerland;|Graduate School of Biological Sciences, NAIST, 8916-5 Takayama, Ikoma, Japan;|California Institute of Technology, Pasadena, CA 91125, USA
http://dx.doi.org/10.1101/199075 2017-10-05 CC BY Sleep and the gut microbiome: antibiotic-induced depletion of the gut microbiota reduces nocturnal sleep in mice Jonathan Elliott Lendrum|Bradley Seebach|Barrett Klein|Sumei Liu University of Wisconsin - La Crosse
http://dx.doi.org/10.1101/199000 2017-10-05 Genomic MET amplification occurs early in NF1-related malignant peripheral nerve sheath tumor (MPNST) progression and is a potent therapeutic target Jacqueline D. Peacock|Matthew G. Pridgeon|Elizabeth A. Tovar|Curt J. Essenburg|Megan J. Bowman|Zachary Madaj|Julie Koeman|Jamie Grit|Rebecca D. Dodd|Diana M. Cardona|Mark Chen|David Kirsch|Flavio Maina|Rosanna Dono|Mary E. Winn|Carrie R. Graveel|Matthew R. Steensma Center for Cancer and Cell Biology, Van Andel Research Institute;|Helen DeVos Children's Hospital, Spectrum Health System;|Bioinformatics and Biostatistics Core, Van Andel Research Institute;|Genomics Core, Van Andel Research Institute;|Department of Radiation Oncology, Duke University Medical Center;|Department of Pathology, Duke University Medical Center;|Aix-Marseille Université, CNRS, IBDM, Marseille, France
http://dx.doi.org/10.1101/198960 2017-10-05 CC BY-NC-ND Testing the role of the Red Queen and Court Jester as drivers of the macroevolution of Apollo butterflies Fabien L. Condamine|Jonathan Rolland|Sebastian Hohna|Felix A. H. Sperling|Isabel Sanmartin CNRS;|University of Lausanne;|Ludwig-Maximilian-Universitat Munchen;|University of Alberta;|CSIC
http://dx.doi.org/10.1101/198655 2017-10-05 Defining the Layers of a Sensory Cilium with STORM and Cryo-Electron Nanoscopies Michael A. Robichaux|Valencia L. Potter|Zhixian Zhang|Feng He|Michael F. Schmid|Theodore G. Wensel Baylor College of Medicine;|SLAC Linear Accelerator Laboratory
http://dx.doi.org/10.1101/199125 2017-10-05 CC BY Enigmatic Diphyllatea eukaryotes: Culturing and targeted PacBio RS amplicon sequencing reveals a higher order taxonomic diversity and global distribution Russell Orr|Sen Zhao|Dag Klaveness|Akinori Yabuki|Keiji Ikeda|Watanabe Makoto|Kamran Shalchian-Tabrizi University of Oslo;|Oslo University Hospital-Radiumhospitalet;|Japan Agency for Marine-Earth Sciences and Technology (JAMSTEC);|University of Tsukuba
http://dx.doi.org/10.1101/199059 2017-10-05 Differential Brd4-bound enhancers drive critical sex differences in glioblastoma Najla Kfoury|Zongtai Qi|Aldrin Kay Yuen Yim|Kristopher Berrett|Sumithra Sankararaman|Lauren Broestl|Xuhua Chen|Michael Wilkinson|Joseph Ippolito|Jay Gertz|Robi Mitra|Joshua B. Rubin Washington University in St. Louis;|Huntsman Cancer Institute, University of Utah
http://dx.doi.org/10.1101/199067 2017-10-05 CC BY Haystack: systematic analysis of the variation of epigenetic states and cell-type specific regulatory elements Luca Pinello|Rick Farouni|Guo-Cheng Yuan Massachusetts General Hospital; Harvard Medical School;|Dana-Farber Cancer Institute; Harvard School of Public Health
http://dx.doi.org/10.1101/199141 2017-10-05 CC BY-NC-ND Prediction of human Plasmodium sex specific gene by homology search: a systematic review and meta-synthesis Mitsuhiro Odaka|Amen Sassy|Shymmaa Khatab|Linh Tran|Khaled Ismaeil|Sameh Elawady|Mariam Abdelkhalek|Samar Salman|Heba Gad|Muhammed Khaled Elfaituri|Sara Morsy|Nguyen Tien Huy|Kenji Hirayama Faculty of Medicine, Nagasaki University School of Medicine, Japan;|Faculty of Pharmacy, Cairo University, Egypt;|Cairo Fatemic Hospital, Egypt;|Institute of Research and Development, Duy Tan University, Da Nang, Viet Nam;|Faculty of Medicine, Ain Shams University, Egypt;|Faculty of Medicine, Tanta University, Egypt;|Tanta University Hospital, Egypt;|Faculty of Medicine, Tripoli University, Tripoli, Libya;|Department of Immunogenetics, Institute of Tropical Medicine (NEKKEN)
http://dx.doi.org/10.1101/198754 2017-10-05 CC BY-NC-ND In the absence of apoptosis, myeloid cells arrest when deprived of growth factor, but remain viable without ATG5-dependent autophagy or uptake of glucose or glutamine. Li Dong|Boris Reljic|Lisa M. Lindqvist|David L. Vaux|Hoanh Tran The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/199026 2017-10-05 Oncogenic RAS-MET signal interactions are modulated by P53 status in NF1-related MPNSTs Matthew G Pridgeon|Elizabeth A Tovar|Curt J Essenburg|Zachary Madaj|Elissa A Boguslawski|Patrick S Dischinger|Jacqueline D Peacock|Flavio Maina|Rosanna Dono|Mary E Winn|Carrie R Graveel|Matthew R Steensma Helen DeVos Children's Hospital, Spectrum Health System, Grand Rapids, MI, USA;|Center for Cancer and Cell Biology, Van Andel Research Institute, Grand Rapids, MI, USA;|Genomics, Bioinformatics & Biostatistics Core, Van Andel Research Institute, Grand Rapids, MI;|Aix-Marseille Université, IBDM, Marseille, France
http://dx.doi.org/10.1101/198796 2017-10-05 CC BY Immunological tolerance, pregnancy and pre-eclampsia: the roles of semen microbes and the father Louise C. Kenny|Douglas B. Kell University College Cort;|The University of Manchester
http://dx.doi.org/10.1101/199109 2017-10-05 CC BY-NC-ND Gestational low-protein intake enhances the whole kidney miR-192 and miR-200 family expression and epithelial-to-mesenchymal transition in adult male offspring Leticia B. Sene|Vitor Hugo G. Rizzi|Jose A. R. Gontijo|Patricia A. Boer UNESP;|UNICAMP
http://dx.doi.org/10.1101/199117 2017-10-05 Computational model of brainstem circuit for state dependent control of hypoglossal motoneurons Mohsen Naji|Maxim Komarov|Giri Krishnan|Atul Malhotra|Frank Powell|Irma Rukhadze|Victor Fenik|Maxim Bazhenov University of California San Diego;|UCLA School of Medicine;|VA Greater Los Angeles Healthcare System
http://dx.doi.org/10.1101/199083 2017-10-05 CC BY-NC-ND Phylostratigraphic analysis of tumor and developmental transcriptomes reveals relationship between oncogenesis, phylogenesis and ontogenesis Joseph Zhou|Luis Cisneros|Theo Knijnenburg|Kalliopi Trachana|Paul Davies|Sui Huang Institute for Systems Biology;|BEYOND Center for Fundamental Concepts in Science, Arizona State University
http://dx.doi.org/10.1101/199174 2017-10-05 CC BY-NC-ND Htz1 and Set1 Regulates Ergosterol Levels in Response to Environmental Stress Kubra Aslan|Bilge Ozaydin Gazi University;|Zymochem Inc.
http://dx.doi.org/10.1101/198937 2017-10-05 Microbiology CC BY-NC-ND Cell surface associated LapA of Pseudomonas fluorescens is anchored inside its Type-1 Secretion TolC-like Pore T. Jarrod Smith|Holger Sondermann|George O'Toole Geisel School of Medicine at Dartmouth;|Cornell University
http://dx.doi.org/10.1101/198978 2017-10-05 Cell Biology CC BY-NC-ND Cell Cycle Control by Nuclear Sequestration of CDC20 and CDH1 mRNA in Plant Stem Cells Weibing Yang|Raymond Wightman|Elliot M. Meyerowitz Sainsbury Laboratory, University of Cambridge, Cambridge, CB2 1LR, UK;|California Institute of Technology, Pasadena, CA 91125, USA
http://dx.doi.org/10.1101/198986 2017-10-05 Cell Biology CC BY Cellular reconstitution of apoptotic cell clearance reveals a multi-step phosphorylation mechanism for Draper receptor triggering Adam P. Williamson|Ronald D. Vale University of California, San Francisco;|University of California San Francisco
http://dx.doi.org/10.1101/199018 2017-10-05 Evolutionary Biology CC BY-NC-ND An epigenetic mechanism for cavefish eye degeneration Aniket Gore|Kelly Tomins|James Iben|Li Ma|Daniel Castranova|Andrew Davis|Amy Parkhurst|William Jeffery|Brant Weinstein NICHD, NIH;|University of Maryland, College Park
http://dx.doi.org/10.1101/198903 2017-10-05 Cancer Biology CC BY-ND Immuno-phenotypes of Pancreatic Ductal Adenocarcinoma: Metaanalysis of transcriptional subtypes Ines de Santiago|Christopher Yau|Mark Middleton|Michael Dustin|Florian Markowetz|Shivan Sivakumar CRUK Cambridge Institute, University of Cambridge;|Centre for Computational Biology, University of Birmingham;|Department of Oncology, University of Oxford;|Kennedy Institute, University of Oxford
http://dx.doi.org/10.1101/198945 2017-10-05 Evolutionary Biology Hox-logic of preadaptations for social insect symbiosis in rove beetles Joseph Parker|K. Taro Eldredge|Isaiah Thomas|Rory Coleman|Steven Davis California Institute of Technology;|University of Kansas;|Columbia University;|Rockefeller University;|American Museum of Natural History
http://dx.doi.org/10.1101/198820 2017-10-05 Microbiology Auranofin inhibits virulence in Pseudomonas aeruginosa Leon Zhen Wei Tan|Ziyan Hong|Joey Kuok Hoong Yam|May Margarette Santillan Salido|Bau Yi Woo|Sam Fong Yau Li|Liang Yang|Michael Givskov|Shu-Sin Chng Singapore Center for Environmental Life Sciences Engineering;|National University of Singapore
http://dx.doi.org/10.1101/198002 2017-10-05 Neuroscience Discriminability of numerosity-evoked fMRI activity patterns in human intra-parietal cortex reflects behavioral numerical acuity Gabriel Lasne|Manuela Piazza|Stanislas Dehaene|Andreas Kleinschmidt|Evelyn Eger INSERM U. 992, CEA Neurospin, France;|Center for Mind/Brain Sciences, University of Trento, Italy;|Departement of Clinical Neurosciences, University of Geneva, Switzerland
http://dx.doi.org/10.1101/198911 2017-10-05 Genetics CC BY-NC Bayesian multiple logistic regression for meta-analyses of GWAS Saikat Banerjee|Lingyao Zeng|Heribert Schunkert|Johannes Soeding Max Planck Institute for Biophysical Chemistry;|German Heart Centre
http://dx.doi.org/10.1101/198838 2017-10-05 Neuroscience CC BY-NC-ND Neural oscillations during conditional associative learning Alex Clarke|Brooke M. Roberts|Charan Ranganath University of California Davis
http://dx.doi.org/10.1101/198739 2017-10-05 Microbiology Cell surface vimentin is involved in matrix stiffness-dependent infection of endothelial cells by Listeria monocytogenes Effie E. Bastounis|Yi-Ting Yeh|Julie A. Theriot Stanford University School of Medicine;|University of California San Diego
http://dx.doi.org/10.1101/198309 2017-10-05 Cancer Biology CC BY Forward-reverse mutation cycles between stages of cancer development Taobo Hu|Yogesh Kumar|Iram Shazia|Shen-Jia Duan|Yi Li|Lei Chen|Jin-Fei Chen|Rong Yin|Ava Kwong|Gilberto Ka-Kit Leung|Wai-Kin Mat|Zhenggang Wu|Xi Long|Cheuk-Hin Chan|Peggy Lee|Siu-Kin Ng|Timothy Y. C. Ho|Jianfeng Yang|Xiaofan Ding|Shui-Ying Tsang|Xuqing Zhou|Dan-Hua Zhang|En-Xiang Zhou|Lin Xu|Wai-Sang Poon|Hong-Yang Wang|Hong Xue Hong Kong University of Science and Technology;|The Second Xiangya Hospital, Central South University;|The Chinese University of Hong Kong;|Eastern Hepatobiliary Surgery Institute, Second Military Medical University;|Nanjing Medical University;|Jiangsu Key Laboratory of Cancer Molecular Biology and Translational Medicine;|University of Hong Kong;|-
http://dx.doi.org/10.1101/199349 2017-10-06 Cancer Biology A novel zebrafish intestinal tumor model reveals a role for cyp7a1-dependent tumor-liver crosstalk in tumor's adverse effects on host Sora Enya|Koichi Kawakami|Yutaka Suzuki|Shinpei Kawaoka Advanced Telecommunications Research Institute International;|National Institute of Genetics;|The University of Tokyo
http://dx.doi.org/10.1101/199307 2017-10-06 Biophysics CC BY-NC-ND Pausing controls branching between productive and non-productive pathways during initial transcription David Dulin|David L. V. Bauer|Anssi M. Malinen|Jacob J. W. Bakermans|Martin Kaller|Zakia Morichaud|Ivan Petushkov|Martin Depken|Konstantin Brodolin|Andrey Kulbachinskiy|Achillefs N. Kapanidis FAU Erlangen-Nuremberg, Germany;|University of Oxford, UK;|University of Turku, Finland;|University of Montpellier, France;|Russian Academy of Sciences, Russia;|Delft University of Technology, The Netherlands
http://dx.doi.org/10.1101/198358 2017-10-06 Cancer Biology Melanoma proteomics unravels major differences related to mutational status Lucia Trilla-Fuertes|Angelo Gamez-Pozo|Guillermo Prado-Vazquez|Andrea Zapater-Moros|Mariana Diaz-Almiron|Claudia Fortes|Rocio Lopez-Vacas|Ivan Marquez-Rodas|Ainara Soria|Juan Angel Fresno Vara|Enrique Espinosa Biomedica Molecular Medicine SL;|Hospital Universitario La Paz;|Functional Genomics Center Zurich;|Hospital Universitario Gregorio Maranon;|Hospital Universitario Ramon y Cajal
http://dx.doi.org/10.1101/190132 2017-10-06 Genomics Single-cell transcriptome analysis identifies distinct cell types and intercellular niche signaling in a primary gastric organoid model Jiamin Chen|Billy T. Lau|Noemi Andor|Sue M. Grimes|Christine Handy|Christina Wood-Bouwens|Hanlee P. Ji Stanford University School of Medicine
http://dx.doi.org/10.1101/195198 2017-10-06 Cancer Biology miR-128 inhibits telomerase activity by targeting TERT mRNA Herlinda Guzman|Katie Sanders|Adam Idica|Aurore Bochnakian|Douglas Jury|Iben Daugaard|Dimitri G. Zisoulis|Irene Pedersen University of California, Irvine
http://dx.doi.org/10.1101/199539 2017-10-06 The cell cycle regulatory DREAM complex is disrupted by high expression of oncogenic B-Myb Audra N. Iness|Jessica Felthousen|Varsha Ananthapadmanabhan|Keelan Z. Guiley|Mikhail Dozmorov|Seth M. Rubin|Larisa Litovchick Virginia Commonwealth University;|University of California Santa Cruz
http://dx.doi.org/10.1101/199596 2017-10-06 CC BY Genome analysis reveals evolutionary mechanisms of adaptation in systemic dimorphic fungi Jose F. Munoz|Juan G. McEwen|Oliver K. Clay|Christina A. Cuomo Broad Institute of MIT and Harvard;|Universidad de Antioquia
http://dx.doi.org/10.1101/199554 2017-10-06 CC BY-NC-ND Ontology-based similarity calculations with an improved annotation model Sebastian Koehler NeuroCure Cluster of Excellence
http://dx.doi.org/10.1101/193896 2017-10-06 CC BY-NC-ND Reduction in major transcription factor binding domain families during the evolution of the avian lineage Allie M. Graham|Jason S. Presnell Oregon State University;|University of Miami
http://dx.doi.org/10.1101/193177 2017-10-06 The impact of surveillance and control on highly pathogenic avian influenza outbreaks in poultry in Dhaka division, Bangladesh Edward M. Hill|Thomas House|Madhur S. Dhingra|Wantanee Kalpravidh|Subhash Morzaria|Muzaffar G. Osmani|Eric Brum|Mat Yamage|Md. A. Kalam|Diann J. Prosser|John Y. Takekawa|Xiangming Xiao|Marius Gilbert|Michael J. Tildesley University of Warwick, UK;|The University of Manchester, UK;|Université Libre de Bruxelles, Belgium;|FAO, Regional Office for Asia and the Pacific, Thailand;|FAO, Rome, Italy;|Department of Livestock Services, Bangladesh;|Emergency Centre for Transboundary Animal Diseases (ECTAD), FAO, Bangladesh;|Institute of Epidemiology, Disease Control and Research (IEDCR), Bangladesh;|USGS Patuxent Wildlife Research Center, USA;|U.S. Geological Survey, USA;|University of Oklahoma, USA
http://dx.doi.org/10.1101/198721 2017-10-06 CC BY-NC-ND Therapeutic importance of timely immunophenotyping of breast cancer in a resource-constrained setting: a retrospective hospital-based cohort study Arturo Lopez Pineda|Mario Felipe Rodriguez Moran|Cleto Alvarez Aguilar|Sarah Marlenne Fuentes Valle|Roman Acosta Rosales|Carlos D. Bustamante Stanford University;|Universidad Michoacana de San Nicolas de Hidalgo;|Mexican Institute of Social Security
http://dx.doi.org/10.1101/199414 2017-10-06 Cell Biology Requirement of the Dynein-adaptor Spindly for mitotic and post-mitotic functions in Drosophila Giuliana D. Clemente|Matthew R. Hannaford|Jens Januschke|Eric R. Griffis|Hans-Arno J. Muller University of Dundee;|Universitaet Kassel
http://dx.doi.org/10.1101/199463 2017-10-06 Cell Biology CC BY-NC-ND Electron microscopic evidence that Aip1 disintegrates cofilin-saturated F-actin domains in the presence of coronin Vivian W. Tang|Ambika V. Nadkarni|William Brieher University of Illinois, Urbana-Champaign;|University of California, Berkeley
http://dx.doi.org/10.1101/199315 2017-10-06 Bioinformatics VASC: dimension reduction and visualization of single cell RNA sequencing data by deep variational autoencoder Dongfang Wang|Jin Gu Tsinghua University;|Tsinghua Univerisity
http://dx.doi.org/10.1101/199364 2017-10-06 Neuroscience Encoding of Tactile Context in the Mouse Visual Cortex Steffen Kandler|Dun Mao|Bruce L. McNaughton|Vincent Bonin Neuro-Electronics Research Flanders;|University of Lethbridge;|University of Lethbridge; University of California Irvine
http://dx.doi.org/10.1101/199265 2017-10-06 Neuroscience CC BY-NC-ND Top-down expectation effects of food labels on motivation Joost Wegman|Ilke van Loon|Paul Smeets|Roshan Cools|Esther Aarts Donders Institute for Brain, Cognition & Behaviour, Radboud University, Nijmegen;|Div. of Human Nutrition, Wageningen University & Research, The Netherlands
http://dx.doi.org/10.1101/199273 2017-10-06 Neuroscience CC BY-NC-ND Exploiting modal demultiplexing properties of tapered optical fibers for tailored optogenetic stimulation Marco Pisanello|Filippo Pisano|Leonardo Sileo|Emanuela Maglie|Elisa Bellistri|Barbara Spagnolo|Gil Mandelbaum|Bernardo L. Sabatini|Massimo De Vittorio|Ferruccio Pisanello Istituto Italiano di Tecnologia - Center for Biomolecular Nanotechnologies;|Dept. of Neurobiology, Howard Hughes Medical Institute, Harvard Medical School
http://dx.doi.org/10.1101/199208 2017-10-06 Ecology CC BY Demonstration of the potential of environmental DNA as a tool for the detection of avian species Masayuki Ushio|Koichi Murata|Tetsuya Sado|Isao Nishiumi|Masamichi Takeshita|Wataru Iwasaki|Masaki Miya PREST, JST; Kyoto University;|Nihon University; Yokohama Zoological Gardens ZOORASIA;|Natural History Museum and Institute, Chiba;|National Museum of Nature and Science;|The University of Tokyo
http://dx.doi.org/10.1101/199224 2017-10-06 Genomics CC BY-ND Genome-wide characterization of copy number variants in epilepsy patients Jean Monlong|Simon L. Girard|Caroline Meloche|Maxime Cadieux-Dion|Danielle M. Andrade|Ron G. Lafreniere|Micheline Gravel|Dan Spiegelman|Alexandre Dionne-Laporte|Cyrus Boelman|Fadi Hamdan|Jacques L. Michaud|Guy Rouleau|Berge A. Minassian|Guillaume Bourque|Patrick Cossette Department of Human Genetics, McGill University, Montreal, Canada;|Universite du Quebec a Chicoutimi, Chicoutimi, Canada;|Centre de Recherche du Centre Hospitalier de l'Universite de Montreal, Canada;|Toronto Western Hospital, University of Toronto, Toronto, Canada;|Montreal Neurological Institute, McGill University, Montreal, Canada;|Division of Neurology, The Hospital for Sick Children, Toronto, Canada;|CHU Sainte-Justine Research Center, Montreal, Canada
http://dx.doi.org/10.1101/197434 2017-10-06 Cancer Biology CC BY-NC-ND Repurposing non-cancer Drugs in Oncology — How many drugs are out there? Pan Pantziarka|Vidula Sukhatme|Lydie Meheus|Vikas P. Sukhatme|Gauthier Bouche The Anticancer Fund;|GlobalCures, Inc.;|Beth Israel Deaconess Medical Center and Harvard Medical School
http://dx.doi.org/10.1101/199380 2017-10-06 Neuroscience Expectation-induced modulation of metastable activity underlies faster coding of sensory stimuli Luca Mazzucato|Giancarlo La Camera|Alfredo Fontanini Stony Brook University
http://dx.doi.org/10.1101/199406 2017-10-06 Neuroscience CC BY-NC Linked dimensions of psychopathology and connectivity in functional brain networks Cedric Huchuan Xia|Zongming Ma|Rastko Ciric|Shi Gu|Richard F Betzel|Antonia N Kaczkurkin|Monica E Calkin|Philip A Cook|Angel Garcia de la Garza|Simon Vandekar|Tyler M Moore|David R Roalf|Kosha Ruparel|Daniel H Wolf|Christos Davatzikos|Ruben C Gur|Raquel E Gur|Russell T Shinohara|Danielle S Bassett|Theodore D Satterthwaite Perelman School of Medicine, University of Pennsylvania;|The Wharton School, University of Pennsylvania;|School of Engineering and Applied Science, University of Pennsylvania
http://dx.doi.org/10.1101/199299 2017-10-06 Neuroscience CC BY-NC-ND Cross-task contributions of fronto-basal ganglia circuitry in response inhibition and conflict-induced slowing Sara Jahfari|K. Richard Ridderinkhof|Anne Gabrielle Eva Collins|Tomas Knapen|Lourens Waldorp|Michael J. Frank Vrije Universiteit van Amsterdam;|University of Amsterdam;|University of California, Berkeley;|Vrije Universiteit Amsterdam;|Brown University
http://dx.doi.org/10.1101/199323 2017-10-06 Genomics The common origin of symmetry and structure in genetic sequences Giampaolo Cristadoro|Mirko Degli Esposti|Eduardo G. Altmann Dipartimento di Matematica, Università di Bologna;|School of Mathematics and Statistics, University of Sydney
http://dx.doi.org/10.1101/199331 2017-10-06 Neuroscience CC BY-NC-ND Age-dependent Pavlovian biases influence motor decision-making Xiuli Chen|Robb Rutledge|Harriet Brown|Ray Dolan|Sven Bestmann|Joseph M. Galea University of Birmingham;|University College London
http://dx.doi.org/10.1101/199372 2017-10-06 Neuroscience The circadian hippocampus and its reprogramming in epilepsy: impact for chronotherapeutics Konrad Debski|Nicholas Ceglia|Antoine Ghestem|Anton Ivanov|Giulio Emilio Brancati|Sonja Broer|Anna Bot|Alexander Muller|Susanne Schoch|Albert Becker|Wolfgang Loscher|Paolo Sassone-Corsi|Katarzyna Lukasiuk|Pierre Baldi|Christophe Bernard Epileptogenesis Lab, Nencki Inst. of Experimental Biology, Polish Acad. of Sciences;|University of California - Irvine;|INSERM, INS;|University of Veterinary Medicine, Hannover;|University of Bonn
http://dx.doi.org/10.1101/199430 2017-10-06 Animal Behavior and Cognition CC BY Egg viability decreases rapidly with time since ovulation in the rainbow darter: implications for the costs of choosiness Rachel L. Moran|Rachel M. Soukup|Muchu Zhou|Rebecca C. Fuller University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/199190 2017-10-06 Neuroscience CC BY-NC-ND Attending to what and where: Background connectivity integrates categorical and spatial attention Alexa Tompary|Naseem Al-Aidroos|Nicholas Turk-Browne University of Pennsylvania;|University of Guelph;|Yale University
http://dx.doi.org/10.1101/199216 2017-10-06 Neuroscience CC BY-NC-ND A low-level perceptual correlate of behavioral and clinical deficits in ADHD Andra Mihali|Allison G. Young|Lenard A. Adler|Michael M. Halassa|Wei Ji Ma New York University;|New York University Langone Medical Center;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/199257 2017-10-06 Plant Biology CC BY-NC-ND De novo assemblies of high-quality reference transcriptomes identifies Rosaceae-common and Rosa-specific encoding genes Shubin Li|Micai Zhong|Xue Dong|Xiaodong Jiang|Yibo Sun|Dezhu Li|Kaixue Tang|Jin-Yong Hu Flower Research Institute, Yunnan Academy of Agricultural Sciences;|Key Lab. for Plant Diversity & Biogeography of East Asia, Kunming Inst. of Botany;|Germplasm Bank of Wild Species, Kunming Institute of Botany, CAS;|Kunming Institute of Botany, Chinese Academy of Sciences
http://dx.doi.org/10.1101/198564 2017-10-06 Epidemiology CC BY-NC-ND Application of benchmark analysis for mixed contaminant exposures: Mutual adjustment of two perfluoroalkylate substances associated with immunotoxicity Esben Budtz-Joergensen|Philippe Grandjean University of Copenhagen;|University of Southern Denmark
http://dx.doi.org/10.1101/198051 2017-10-06 Epidemiology CC BY-ND Simulations for Designing and Interpreting Intervention Trials in Infectious Diseases M Elizabeth Halloran|Kari Auranen|Sarah Baird|Nicole E Basta|Steve Bellan|Ron Brookmeyer|Ben Cooper|Victor DeGruttola|James Hughes|Justin Lessler|Eric T Lofgren|Ira Longini|Jukka-Pekka Onnela|Berk Ozler|George Seage|Thomas A Smith|Alessandro Vespignani|Emilia Vynnycky|Marc Lipsitch Fred Hutchinson Cancer Research Center and University of Washington;|Department of Mathematics and Statistics, University of Turku, Turku, Finland;|Institute for International Economic Policy, The George Washington University, Washington DC, USA;|Department of Epidemiology, University of Minnesota, Minneapolis MN, USA;|Department of Epidemiology and Biostatistics, University of Georgia, Athens GA, USA;|Department of Biostatistics, UCLA, Los Angeles CA, USA;|Mahidol Oxford Tropical Medicine Research Unit, Bangkok, Thailand;|Department of Biostatistics, Harvard T.H. Chan School of Public Health, Boston MA, USA;|Department of Biostatistics, University of Washington, Seattle WA, USA;|Department of Epidemiology, Johns Hopkins School of Public Health, Baltimore MD, USA;|Paul G. Allen School for Global Animal Health, Washington State University, Pullman WA, USA;|Department of Biostatistics, University of Florida, Gainesville FL, USA;|World Bank, Washington DC, USA;|Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston MA, USA;|Swiss Tropical and Public Health Institute, Basel, Switzerland;|Network Science Institute, Northeastern University, Boston MA, USA;|London School of Hygiene and Tropical Medicine, London, UK
http://dx.doi.org/10.1101/196675 2017-10-06 Epidemiology CC BY A 30-minute nucleic acid amplification point-of-care test for genital Chlamydia trachomatis infection in women: a prospective, multi-centre study of diagnostic accuracy Emma M. Harding-Esch|Emma C. Cousins|S.-L. Christine Chow|Laura T. Phillips|Catherine L. Hall|Nicholas Cooper|Sebastian S. Fuller|Achyuta V. Nori|Rajul Patel|Sathish Thomas-William|Gary Whitlock|Sarah Edwards|Marc Green|John Clarkson|Ben Arlett|J. Kevin Dunbar|Catherine M. Lowndes|Syed Tariq Sadiq St. George's, University of London;|Public Health England;|Solent Sexual Health;|Musgrove Park Hospital;|56 Dean Street, Chelsea & Westminster Hospital NHS Foundation Trust;|Health Hertfordshire Chelsea and Westminster NHS Foundation Trust;|Atlas Genetics Ltd.
http://dx.doi.org/10.1101/196972 2017-10-06 Epidemiology CC BY-NC-ND 90-90-90, epidemic control, and ending AIDS: review of global situation and recommendations Reuben Granich|Brian G Williams|Somya Gupta|Jose M Zuniga Independent Public Health Consultant;|South African Centre for Epidemiological Modelling and Analysis (SACEMA), Stellenbosch, South Africa;|International Association of Providers of AIDS Care
http://dx.doi.org/10.1101/198952 2017-10-06 Epidemiology CC BY-NC Zika virus outbreak in Cabo Verde Islands, West Africa: early epidemiological findings Jose Lourenco|Maria de Lourdes Monteiro|Tomas Valdez|Julio Monteiro Rodrigues|Oliver Pybus|Nuno Rodrigues Faria University of Oxford;|Ministry of Health, Praia, Cabo Verde
http://dx.doi.org/10.1101/199570 2017-10-06 Genomics CC BY Evidence-Based Design and Evaluation of a Whole Genome Sequencing Clinical Report for the Reference Microbiology Laboratory Anamaria Crisan|Geoffrey McKee|Tamara Munzner|Jennifer Leigh Gardy University of British Columbia;|British Columbia Centre for Disease Control, University of British Columbia
http://dx.doi.org/10.1101/199521 2017-10-06 Neuroscience Attractor dynamics in networks with learning rules inferred from in vivo data Ulises Pereira|Nicolas Brunel The University of Chicago;|Duke University
http://dx.doi.org/10.1101/199448 2017-10-06 Cancer Biology CC BY Clinical and genomic crosstalk between glucocorticoid receptor and estrogen receptor α in endometrial cancer Jeffery M. Vahrenkamp|Chieh-Hsiang Yang|Adriana C. Rodriguez|Aliyah Almomen|Kristofer Berrett|Alexis N. Trujillo|Katrin P. Guillen|Bryan E. Welm|Elke A. Jarboe|Margit M. Janat-Amsbury|Jason Gertz University of Utah;|University of New Mexico
http://dx.doi.org/10.1101/199786 2017-10-07 CC BY-NC-ND Cryptic phylogeographic history sheds light on the generation of species diversity in sky-island mountains Kai He|Tao Wan|Klaus-Peter Koepfli|Wei Jin|Shao-Ying Liu|Xue-Long Jiang Kunming Institute of Zoology;|Smithsonian Conservation Biology Institute;|Sichuan Academy of Forestry
http://dx.doi.org/10.1101/199703 2017-10-07 CC BY-NC-ND Hierarchy of transcriptomic specialization across human cortex captured by myelin map topography Josh B. Burt|Murat Demirtas|William J. Eckner|Natasha M. Navejar|Jie Lisa Ji|William J. Martin|Alberto Bernacchia|Alan Anticevic|John D. Murray Yale University;|Tulane University;|BlackThorn Therapeutics;|University of Cambridge
http://dx.doi.org/10.1101/199729 2017-10-07 CC BY-NC-ND Enhancer identification and activity evaluation in the red flour beetle, Tribolium castaneum Yi-Ting Lai|Kevin D. Deem|Ferran Borras-Castells|Nagraj Sambrani|Heike Rudolf|Kushal Suryamohan|Ezzat El-Sherif|Marc S. Halfon|Daniel J. McKay|Yoshinori Tomoyasu Miami University;|Friedrich-Alexander-Universitat Erlangen-Nurnberg;|State University of New York at Buffalo;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/199778 2017-10-07 CC BY-NC-ND Revealing intricate acto-myosin dynamics at a membrane surface using interferometric scattering microscopy Darius Koester|Nikolas Hundt|Gavin C. Young|Adam Fineberg|Philipp Kukura|Satyajit Mayor University Warwick, National Centre for Biological Sciences;|University of Oxford;|National Centre for Biological Sciences
http://dx.doi.org/10.1101/199505 2017-10-07 High Dynamic Range Bacterial Cell Detection in a Novel "Lab-In-A-Comb" for High-Throughput Antibiotic Susceptibility Testing of Clinical Urine Samples Jeremy Pivetal|Martin J. Woodward|Nuno M. Reis|Alexander D. Edwards University of Reading;|University of Bath
http://dx.doi.org/10.1101/199760 2017-10-07 CC BY-NC Idiosyncratic genome degradation in a bacterial endosymbiont of periodical cicadas Matthew A. Campbell|Piotr ukasik|Chris Simon|John P. McCutcheon University of Montana;|University of Connecticut
http://dx.doi.org/10.1101/199653 2017-10-07 Short linear motifs in intrinsically disordered regions modulate HOG signaling capacity Bob Strome|Ian Shen Hsu|Mitchell Li Cheong Man|Taraneh Zarin|Alex N. Nguyen Ba|Alan M. Moses University of Toronto
http://dx.doi.org/10.1101/199612 2017-10-07 CC BY-NC-ND Glutathione S-transferases: unexpected roles in astrocyte activation and astrocyte-microglia communication during brain inflammation Shin-ichi Kano|Eric Y. Choi|Eisuke Dohi|Indigo V. L. Rose|Daniel J. Chang|Ashley M. Wilson|Brian D. Lo|Takashi Imai|Akira Sawa Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/199422 2017-10-07 CC BY-NC-ND Repurposed kinase inhibitors and β-lactams as a novel therapy for antibiotic resistant bacteria Nathan Wlodarchak|Nathan Teachout|Rebecca Procknow|Jeff Beczkiewicz|Adam Schaenzer|Kenneth Satyshur|Martin Pavelka|Bill Zuercher|Dave Drewry|John-Demian Sauer|Rob Striker University of Wisconsin-Madison;|University of Rochester Medical Center;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/199661 2017-10-07 CC BY Eye opening differentially modulates inhibitory synaptic transmission in the developing visual cortex Wuqiang Guan|Jun-Wei Cao|Lin-Yun Liu|Zhi-Hao Zhao|Yinghui Fu|Yong-Chun Yu Fudan University
http://dx.doi.org/10.1101/199687 2017-10-07 CC BY-NC-ND Electrophysiological indices of anterior cingulate cortex function reveal changing levels of cognitive effort and reward valuation that sustain task performance Akina Umemoto|Michael Inzlicht|Clay B. Holroyd University of Victoria;|University of Toronto
http://dx.doi.org/10.1101/199893 2017-10-07 CC BY-ND A strategy to exploit surrogate sire technology in livestock breeding programs Paolo Gottardo|Gregor Gorjanc|Mara Battagin|Chris Robert Gaynor|Janez Jenko|Roger Ros Freixedes|Bruce Whitelaw|Alan Mileham|William Herring|John Hickey The Roslin Institute;|Genus plc
http://dx.doi.org/10.1101/199828 2017-10-07 CC BY-NC-ND Investigating genetic correlations and causal effects between caffeine consumption and sleep behaviours Jorien L. Treur|Mark Gibson|Amy E. Taylor|Peter Rogers|Marcus R. Munafo University of Bristol
http://dx.doi.org/10.1101/199638 2017-10-07 CC BY Hey2 restricts cardiac progenitor addition to the developing heart Natalie Gibb|Savo Lazic|Ashish R. Deshwar|Xuefei Yuan|Michael D. Wilson|Ian C. Scott The Hospital for Sick Children;|University of Toronto;|University of Toronto Research Institute
http://dx.doi.org/10.1101/199679 2017-10-07 CC BY Transgenerational dynamics of rDNA copy number in Drosophila male germline stem cells Kevin L. Lu|Jonathan O. Nelson|Natalie Warsinger-Pepe|Yukiko M. Yamashita University of Michigan
http://dx.doi.org/10.1101/199646 2017-10-07 CC BY Peripherally-induced regulatory T cells contribute to the control of autoimmune diabetes Cornelia Schuster|Fangzhu Zhao|Stephan Kissler Joslin Diabetes Center, United States
http://dx.doi.org/10.1101/199802 2017-10-07 CC BY-NC-ND Temperature and Water Quality-Related Patterns in Sediment-Associated Symbiodinium Communities Impact Symbiont Uptake and Fitness of Juvenile Acroporid Corals Kate Quigley|Line Bay|Bette Willis James Cook University;|Australian Institute of Marine Science
http://dx.doi.org/10.1101/199562 2017-10-07 Neuroscience CC BY Energy Exchanges at Contact Events Guide Sensorimotor Integration Across Intermodal Delays Ali Farshchiansadegh|Alessandra Sciutti|Ilana Nisky|Assaf Pressman|Ferdinando A. Mussa-Ivaldi Northwestern University;|Italian Institute of Technology;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/200170 2017-10-08 CC BY-NC-ND Detection of complex structural variation from paired-end sequencing data Joseph G. Arthur|Xi Chen|Bo Zhou|Alexander E. Urban|Wing Hung Wong Stanford University
http://dx.doi.org/10.1101/199547 2017-10-08 Deciphering programs of transcriptional regulation by combined deconvolution of multiple omics layers Daniel Huebschmann|Nils Kurzawa|Sebastian Steinhauser|Philipp Rentzsch|Stephen Kraemer|Carolin Andresen|Jeongbin Park|Roland Eils|Matthias Schlesner|Carl Herrmann Institute for Pharmacy and Molecular Biotechnology (IPMB), Heidelberg;|European Molecular Biology Laboratory (EMBL), Heidelberg;|The Francis Crick Institute and Imperial College London, Kings Cross, London;|Berlin Institute of Health (BIH, Berlin, Germany;|German Cancer Research Center (DKFZ), Heidelberg, Germany
http://dx.doi.org/10.1101/199711 2017-10-08 CC BY-NC-ND Gum Arabic promotes oxidation and ester hydrolysis. Koen Vercruysse|Lauren Tyler|Jade Readus Tennessee State University
http://dx.doi.org/10.1101/199927 2017-10-08 Large-scale screening of rare genetic variants in humans reveals frequent splicing disruptions Rocky Cheung|Kimberly D. Insigne|David Yao|Christina P. Burghard|Eric M. Jones|Daniel B. Goodman|Sriram Kosuri University of California, Los Angeles;|Stanford University;|University of California, San Franscisco
http://dx.doi.org/10.1101/199950 2017-10-08 Bioinformatics Delta integrates 3D physical structure with topology and genomic data of chromosomes Bixia Tang|Feifei Li|Jing Li|Wenming Zhao|Zhihua Zhang CAS Key Laboratory of Genome Sciences & Information, Beijing Inst. of Genomics;|BIG Data Center (BIGD), Beijing Institute of Genomics, Chinese Acad. of Sciences
http://dx.doi.org/10.1101/200006 2017-10-08 Molecular Biology CC BY-ND Codon-Dependent Translational Accuracy Controls Protein Quality in Escherichia coli but not in Saccharomyces cerevisiae Lyne Josse|Connor D. D. Sampson|Mick F. Tuite|Kevin Howland|Tobias von der Haar School of Biosciences, University of Kent
http://dx.doi.org/10.1101/199943 2017-10-08 Cell Biology CC BY-NC Dynamical localization of a thylakoid membrane binding protein is required for acquisition of photosynthetic competency Andrian Gutu|Frederick Chang|Erin K. O'Shea HHMI; Harvard University Faculty of Arts & Sciences Center for Systems Biology;|Harvard University, Department of Molecular and Cellular Biology
http://dx.doi.org/10.1101/200014 2017-10-08 Biophysics A spontaneously blinking fluorescent protein for simple single laser super-resolution live cell imaging Yoshiyuki Arai|Hiroki Takauchi|Yuhei Ogami|Satsuki Fujiwara|Masahiro Nakano|Takeharu Nagai Osaka University
http://dx.doi.org/10.1101/199935 2017-10-08 Microbiology High-throughput fitness profiling of Zika virus E protein reveals different roles for N-linked glycosylation during infection of mammalian and mosquito cells Danyang Gong|Tian-hao Zhang|Dawei Zhao|Yushen Du|Travis J. Chapa|Yuan Shi|Laurie Wang|Deisy Contreras|Gang Zeng|Pei-yong Shi|Ting-Ting Wu|Vaithilingaraja Arumugaswami|Ren Sun Department of Molecular and Medical Pharmacology, UCLA;|Department of Molecular Biophysics and Biochemistry, Yale University;|Board of Governors Regenerative Medicine Institute, Cedars-Sinai Medical Center;|Department of Urology, UCLA;|Dept. of Biochemistry & Molecular Biology, University of Texas Medical Branch
http://dx.doi.org/10.1101/199992 2017-10-08 Synthetic Biology CC BY-NC-ND Droplet-based microfluidic analysis and screening of single plant cells Ziyi Yu|Christian R. Boehm|Julian M. Hibberd|Chris Abell|Jim Haseloff|Steven J. Burgess|Ivan Reyna-Llorens University of Cambridge;|Max Planck Institute for Molecular Plant Physiology
http://dx.doi.org/10.1101/199901 2017-10-08 Neuroscience CC BY-NC-ND Development differentially sculpts receptive fields across human visual cortex Jesse Gomez|Vaidehi Natu|Brianna Jeska|Michael Barnett|Kalanit Grill-Spector Stanford University;|University of Pennsylvania
http://dx.doi.org/10.1101/200147 2017-10-09 CC BY-NC-ND Re-Identification of Individuals in Genomic Data-Sharing Beacons via Allele Inference Nora von Thenen|Erman Ayday|A. Ercument Cicek Bilkent University;|Bilkent University & Carnegie Mellon University
http://dx.doi.org/10.1101/200352 2017-10-09 CC BY Landscape genomic prediction for restoration of a Eucalyptus foundation species under climate change Megan Ann Supple|Jason G Bragg|Linda M Broadhurst|Adrienne B Nicotra|Margaret Byrne|Rose L Andrew|Abigail Widdup|Nicola C Aitken|Justin Borevitz The Australian National University, Australia;|Commonwealth Scientific and Industrial Research Organisation, Australia;|Department of Parks and Wildlife Western Australia, Australia;|University of New England, Australia
http://dx.doi.org/10.1101/200360 2017-10-09 CC BY Cis-regulatory evolution integrated the Bric-à-brac transcription factors into a novel fruit fly gene regulatory network Thomas Michael Williams|Mark Rebeiz|Eric M Camino|Maxwell J Roeske|Sumant Grover University of Dayton, United States;|University of Pittsburgh, United States
http://dx.doi.org/10.1101/200477 2017-10-09 Nasty Prophages and the Dynamics of Antibiotic-Tolerant Persister Cells Alexander Harms|Cinzia Fino|Michael Askvad Srensen|Szabolcs Semsey|Kenn Gerdes Centre of Excellence for Bacterial Stress Response and Persistence, University of Copenhagen (Kk);|Centre of Excellence for Bacterial Stress Response and Persistence, University of Copenhagen (DK)
http://dx.doi.org/10.1101/200287 2017-10-09 CC BY-NC-ND Necklace: combining reference and assembled transcriptomes for RNA-Seq analysis Nadia M Davidson|Alicia Oshlack Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/200303 2017-10-09 CC BY-NC Nitrate modulates stem cell dynamics by regulating WUSCHEL expression through cytokinins Benoit Landrein|Pau Formosa-Jordan|Alice Malivert|Christoph Schuster|Charles W. Melnyk|Weibing Yang|Colin Turnbull|Elliot M. Meyerowitz|James C.W. Locke|Henrik Jonsson University of Cambridge;|Imperial College London
http://dx.doi.org/10.1101/200337 2017-10-09 Umbilical Cord Blood Diagnostics for Early Onset Sepsis in Premature Infants: Detection of Bacterial DNA and Systemic Inflammatory Response Leena Mithal|Michael Malczynski|Chao Qi|Stefan Green|Patrick C. Seed|Karen K. Mestan Northwestern University Feinberg School of Medicine;|Northwestern Memorial Hospital;|University of Illinois at Chicago
http://dx.doi.org/10.1101/200410 2017-10-09 RNA-binding activity of TRIM25 is mediated by its PRY/SPRY domain and is required for ubiquitination Nila Roy Choudhury|Gregory Heikel|Maryia Trubitsyna|Peter Kubik|Jakub Stanislaw Nowak|Shaun Webb|Sander Granneman|Christos Spanos|Juri Rappsilber|Alfredo Castello Palomares|Gracjan Michlewski University of Edinburgh;|University of Oxford
http://dx.doi.org/10.1101/196329 2017-10-09 Cell Biology CLASP stabilizes microtubule plus ends after severing to facilitate light-induced microtubule reorientation Jelmer J Lindeboom|Masayoshi Nakamura|Marco Saltini|Anneke Hibbel|Ankit Walia|Tijs Keetlaar|Anne Mie C Emons|John C Sedbrook|Viktor Kirik|Bela M Mulder|David W Ehrhardt Carnegie Institution for Science;|Institute of Transformative Biomolecules;|Institute AMOLF;|Wageningen University;|Sainsbury Laboratory;|Illinois State University
http://dx.doi.org/10.1101/200261 2017-10-09 Molecular Biology CC BY Microfluidic Transfection for High-Throughput Mammalian Protein Expression Kristina Woodruff|Sebastian Josef Maerkl Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/200428 2017-10-09 Cell Biology CC BY Rab5 and Alsin regulate stress-activated cytoprotective signaling on mitochondria FoSheng Hsu|Stephanie Spannl|Charles Ferguson|Anthony A Hyman|Robert G Parton|Marino Zerial Max Planck Institute of Molecular Cell Biology and Genetics, Germany;|Institute for Molecular Bioscience, Germany
http://dx.doi.org/10.1101/200386 2017-10-09 Neuroscience CC BY-ND Dissociating ego- and allocentric neglect after stroke: prevalence, laterality and outcome predictors Nele Demeyere|Celine Gillebert University of Oxford;|Katholieke Universiteit Leuven
http://dx.doi.org/10.1101/200345 2017-10-09 Bioinformatics CC BY-NC-ND Assessment of batch-correction methods for scRNA-seq data with a new test metric Maren Buttner|Zhichao Miao|Alexander Wolf|Sarah A Teichmann|Fabian J Theis HelmholtzZentrum Muenchen;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/200402 2017-10-09 Neuroscience The role of m6A-RNA methylation in stress response regulation Mareen Engel|Simone Roeh|Carola Eggert|Paul M. Kaplick|Lisa Tietze|Janine Arloth|Peter Weber|Monika Rex-Haffner|Mira Jakovcevski|Manfred Uhr|Matthias Eder|Carsten T. Wotjak|Mathias V. Schmidt|Jan M. Deussing|Elisabeth B. Binder|Alon Chen Max Planck Institute of Psychiatry
http://dx.doi.org/10.1101/200576 2017-10-09 CC BY Hippocampus, retrosplenial and parahippocampal cortices encode multi-compartment 3D space in a hierarchical manner Misun Kim|Eleanor A Maguire University College London
http://dx.doi.org/10.1101/200675 2017-10-09 CC BY-NC-ND High-Precision Automated Reconstruction of Neurons with Flood-filling Networks Micha Januszewski|Jorgen Kornfeld|Peter H Li|Art Pope|Tim Blakely|Larry Lindsey|Jeremy B Maitin-Shepard|Mike Tyka|Winfried Denk|Viren Jain Google Research;|Max Planck Institute of Neurobiology
http://dx.doi.org/10.1101/200436 2017-10-09 Identification of Memory Reactivation during Sleep by EEG Classification Suliman Belal|James Cousins|Wael El-Deredy|Laura Parkes|Jules Schneider|Hikaru Tsujimura|Alexia Zoumpoulaki|Marta Perapoch|Penelope A Lewis Cardiff University;|3Cognitive Neuroscience Laboratory, Duke-NUS Graduate Medical School;|School of Biological Sciences, Division of Neuroscience &Experimental Psychology, Uni. of Manchester;|CUBRIC, School of Psychology, Cardiff University;|School of Computer Sciences, Cardiff University
http://dx.doi.org/10.1101/200543 2017-10-09 CC BY-ND Algorithmic complexity of EEG as a prognosis biomarker of neurodegeneration in idiopathic rapid eye movement behavior disorder (RBD) Giulio Ruffini|David Ibanez|Eleni Kroupi|Jean-Francois Gagnon|Jacques Montplaisir|Ronald B. Postuma|Aureli Soria-Frisch Neuroelectrics;|Starlab Barcelona;|Centre for Advanced Research in Sleep Medicine, Hopital du Sacre-Coeur de Montreal, Montreal
http://dx.doi.org/10.1101/200444 2017-10-09 CC BY-NC-ND A dynamical model of TCRβ gene recombination: Coupling the initiation of Dβ-Jβ rearrangement to TCRβ allelic exclusion Sebastien Jaeger|Ricardo Lima|Arnaud Meyroneinc|Marie Bonnet|Edgardo Ugalde|Pierre Ferrier Centre d'Immunologie de Marseille-Luminy (CIML);|Centre de Physique Théorique (CPT);|Departamento de Matemáticas, Instituto Venezolano de Investigaciones Científicas;|Instituto de Física, Universidad Autónoma de San Luis Potosí
http://dx.doi.org/10.1101/200162 2017-10-09 Neuroscience Phencyclidine discoordinates hippocampal network activity but not place fields Hsin-Yi Kao|Dino Dvorak|EunHye Park|Jana Kenney|Eduard Kelemen|Andre A Fenton Center for Neural Science, New York University;|Institute of Physiology, Czech Academy of Sciences;|6National Institute of Mental Health, Klecany, Czech Republic;|Neuroscience Institute at the New York University Langone Medical Center
http://dx.doi.org/10.1101/200469 2017-10-09 Genetics CC BY-NC-ND A parametric interpretation of Bayesian Nonparametric Inference from Gene Genealogies: linking ecological, population genetics and evolutionary processes Jose Miguel Ponciano University of Florida
http://dx.doi.org/10.1101/172452 2017-10-09 Neuroscience Propagation of BOLD activity reveals directed interactions across human visual cortex Nicolas Gravel|Remco J Renken|Ben M Harvey|Gustavo Deco|Frans W Cornelissen|Matthieu Gilson Laboratory of Experimental Ophthalmology, University Medical Center Groningen, The Netherlands;|NeuroImaging Center, University Medical Center Groningen, The Netherlands;|Experimental Psychology, Helmholtz Institute, Utrecht University, The Netherlands;|Center for Brain and Cognition, Universitat Pompeu Fabra, Barcelona, Spain
http://dx.doi.org/10.1101/200527 2017-10-09 Bioinformatics DGIdb 3.0: a redesign and expansion of the drug-gene interaction database Kelsy C Cotto|Alex Handler Wagner|Yang-Yang Feng|Susanna Kiwala|Adam C Coffman|Gregory Spies|Alex Wollam|Nicholas C Spies|Obi L Griffith|Malachi Griffith McDonnell Genome Institute, Washington University School of Medicine
http://dx.doi.org/10.1101/200535 2017-10-09 Bioinformatics CC BY-NC-ND A transcriptome and literature guided algorithm for reconstruction of pathways to assess activity of telomere maintenance mechanisms Lilit Nersisyan|Arsen Arakelyan Bioinformatics Group, Institute of Molecular Biology, NAS, Armenia
http://dx.doi.org/10.1101/200451 2017-10-09 Bioinformatics Community assessment of cancer drug combination screens identifies strategies for synergy prediction Michael Patrick Menden|Dennis Wang|Yuanfang Guan|Michael Mason|Bence Szalai|Krishna C Bulusu|Thomas Yu|Jaewoo Kang|Minji Jeon|Russ Wolfinger|Tin Nguyen|Mikhail Zaslavskiy|In Sock Jang|Zara Ghazoui|Mehmet Eren Ahsen|Robert Vogel|Elias Chaibub Neto|Thea Norman|Eric KY Tang|Mathew J Garnett|Giovanni Di Veroli|Stephen Fawell|Gustavo Stolovitzky|Justin Guinney|Jonathan R Dry|Julio Saez-Rodriguez AstraZeneca;|University of Sheffield;|University of Michigan;|Sage Bionetworks;|RWTH Aachen;|Korea University;|SAS Institute;|University of Nevada;|Independent consultant in computational biology;|-;|IBM;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/195941 2017-10-09 Neuroscience CC BY-NC-ND Speech tracking in auditory and motor regions reflects distinct linguistic features Anne Keitel|Joachim Gross|Christoph Kayser University of Glasgow;|University of Muenster;|Bielefeld University
http://dx.doi.org/10.1101/200329 2017-10-09 Bioinformatics Vital Signs Analysis Algorithm Detects Inflammatory Response in Premature Infants with Late Onset Sepsis and Necrotizing Enterocolitis Leena Mithal|Ram Yogev|Hannah L. Palac|Daniel Kaminsky|Ilan Gur|Karen K. Mestan Northwestern University Feinberg School of Medicine;|Bikurofe Institute;|Bikurofe Institute; St. Joseph Hospital
http://dx.doi.org/10.1101/200188 2017-10-09 Cancer Biology CC BY Combined analysis of genome sequencing and RNA-motifs reveals novel damaging non-coding mutations in human tumors Babita Singh|Juan Luis L Trincado Alonso|PJ Tatlow|Stephen R Piccolo|Eduardo Eyras Pompeu Fabra University, Barcelona, Spain;|Department of Biology, Brigham Young University, Utah, USA;|Pompeu Fabra University & ICREA, Barcelona, Spain
http://dx.doi.org/10.1101/198879 2017-10-09 Neuroscience Experience-dependent modulation of behavioral features in sensory navigation of nematodes and bats revealed by machine learning Shuhei J. Yamazaki|Yosuke Ikejiri|Fumie Hiramatsu|Kosuke Fujita|Yuki Tanimoto|Yasufumi Yamada|Koichi Hashimoto|Shizuko Hiryu|Takuya Maekawa|Koutarou D. Kimura Graduate School of Science, Osaka University;|Faculty of Life and Medical Sciences, Doshisha University;|Graduate School of Information Sciences, Tohoku University;|Graduate School of Information Science and Technology, Osaka University;|Osaka University
http://dx.doi.org/10.1101/200279 2017-10-09 Biophysics Investigating low-velocity fluid flow in tumours using convection-MRI Simon Walker-Samuel|Thomas A Roberts|Rajiv Ramasawmy|Jake Burrell|S Peter Johnson|Bernard Siow|Simon Richardson|Miguel Goncalves|Douglas Pendse|Simon P. Robinson|R, Barbara Pedley|Mark F. Lythgoe University College London;|The Institute of Cancer Research;|University College Hospital
http://dx.doi.org/10.1101/200311 2017-10-09 Genetics Mapfuser: an integrative toolbox for consensus map construction and Marey maps Dennis van Muijen|Ram Basnet|Nathalie Dek|Chris Maliepaard|Evert Gutteling Rijk Zwaan The Netherlands B.V.;|Wageningen University, Plant Breeding
http://dx.doi.org/10.1101/199604 2017-10-09 Developmental Biology Comparing Cell Division- and Cell Reproduction-based Cell Lineage Analysis for Early Embryogenesis of Caenorhabditis elegans Shi V. Liu Eagle Institute of Molecular Medicine
http://dx.doi.org/10.1101/200212 2017-10-09 Ecology CC BY-NC-ND The geometry of the distance-decay of similarity in ecological communities Joshua Ladau|Jessica L. Green|Katherine S. Pollard Gladstone Institutes;|Institute of Ecology and Evolution, University of Oregon;|Gladstone Institutes, UCSF
http://dx.doi.org/10.1101/198846 2017-10-09 Bioinformatics CC BY Backbone brackets and arginine tweezers delineate class I and class II aminoacyl tRNA synthetases Florian Kaiser|Sebastian Bittrich|Sebastian Salentin|Christoph Leberecht|V. Joachim Haupt|Sarah Krautwurst|Michael Schroeder|Dirk Labudde University of Applied Sciences Mittweida;|Biotechnology Center (BIOTEC), TU Dresden
http://dx.doi.org/10.1101/200246 2017-10-09 Paleontology CC BY-NC-ND An Early Devonian permineralized rhyniopsid from the Battery Point Formation of Gaspe (Canada) Kelly C Pfeiler|Alexandru MF Tomescu Humboldt State University
http://dx.doi.org/10.1101/200220 2017-10-09 Neuroscience Vagal Nerve Stimulation Triggers Wide-Spread Evoked Responses and Changes in Large-Scale Functional Connectivity in Rat Brains Jiayue Cao|Kun-Han Lu|Terry L Powley|Zhongming Liu Purdue University
http://dx.doi.org/10.1101/200196 2017-10-09 Neuroscience OPRM1 A118G and serum β-endorphin interact with sex and digit ratio (2D:4D) to influence risk and course of alcohol dependence Jordan Bruno Gegenhuber|Christian Weinland|Johannes Kornhuber|Christiane Muehle|Bernd Lenz Friedrich-Alexander University Erlangen-Nuremberg (FAU)
http://dx.doi.org/10.1101/200097 2017-10-09 Ecology Distress feeding of depredatory birds in Sunflower and Sorghum protected by bioacoustics S. S. Mahesh|Vaidyula Vasudeva Rao|Gugloth Surender|D. A. Kiran kumar|Kummari Swamy Grus Ecosciences, Rajaji nagar, Rajajina;|All India Network Project on Vertebrate Pest Management, PJTS Agricultural Univ.;|Prof. Jayashankar Telangana State Agricultural University
http://dx.doi.org/10.1101/200121 2017-10-09 Neuroscience Working Memory Training Integrates Visual Cortex into Beta-Band Networks in Congenitally Blind Individuals Johanna M. Rimmele|Helene Gudi-Mindermann|Guido Nolte|Brigitte Roeder|Andreas K. Engel Department of Neuroscience Max-Planck-Institute for Empirical Aesthetics;|Biological Psychology and Neuropsychology University of Hamburg;|Department of Neurophysiology and Pathophysiology University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/200295 2017-10-09 Plant Biology CC BY-NC-ND NAC-NOR mutations in tomato Penjar accessions attenuate multiple metabolic processes and prolong the fruit shelf life Rakesh Kumar|Vajir Tamboli|Rameshwar Sharma|Yellamaraju Sreelakshmi University of Hyderabad
http://dx.doi.org/10.1101/200782 2017-10-10 Evolutionary Biology Genomic divergence footprints in the bracovirus of Cotesia sesamiae identified by targeted re-sequencing approach Jeremy Gauthier|Philippe Gayral|Bruno Le Ru|Severine Jancek|Stephane Dupas|Laure Kaiser|Gabor Gyapay|Elisabeth A Herniou Institut de Recherche sur la Biologie de l Insecte;|Laboratoire Evolution, Genomes, Comportement et Ecologie;|Commissariat a l Energie Atomique, Genoscope
http://dx.doi.org/10.1101/200683 2017-10-10 Bioinformatics CC BY Practical computational reproducibility in the life sciences Bjorn Gruning|John Chilton|Johannes Koster|Ryan Dale|Jeremy Goecks|Rolf Backofen|Anton Nekrutenko|James Taylor Albert-Ludwigs-University;|The Pennsylvania State University;|University of Duisburg-Essen;|National Institute of Diabetes and Digestive and Kidney Diseases;|Oregon Health & Sciences University;|Johns Hopkins University
http://dx.doi.org/10.1101/201012 2017-10-10 Genomics CC BY Variants in RNA-Seq data show a continued mutation rate during strain preservation of Schizophyllum commune Thies Gehrmann|Jordi F Pelkmans|Luis G Lugones|Han A B Wosten|Thomas Abeel|Marcel J T Reinders Delft University of Technology;|Microbiology, Utrecht University;|Delft Bioinformatics Lab, Delft University of Technology
http://dx.doi.org/10.1101/200923 2017-10-10 Systems Biology CC BY-NC-ND Tree-ensemble analysis tests for presence of multifurcations in single cell data Will Macnair|Laura De Vargas Roditi|Stefan Ganscha|Manfred Claassen ETH Zurich;|University Hospital Zurich
http://dx.doi.org/10.1101/200766 2017-10-10 Genomics Whole genome sequence and comparative analysis of Borrelia burgdorferi MM1 Neda Jabbari|Gustavo Glusman|Christopher G. Lausted Institute for Systems Biology
http://dx.doi.org/10.1101/200691 2017-10-10 Biochemistry CC BY Error-prone bypass of DNA lesions during lagging strand replication is a common source of germline and cancer mutations Vladimir Seplyarskiy|Maria A. Andrianova|Sergey I. Nikolaev|Georgii A. Bazykin|Shamil R. Sunyaev Division of Genetics, Brigham and Women s Hospital, Harvard Medical School, Boston, MA, USA;|Institute for Information Transmission Problems of the Russian Academy of Sciences (Kharkevich Inst;|Department of Genetic Medicine and Development, University of Geneva, Switzerland.;|Skolkovo Institute of Science and Technology, Skolkovo, Russia
http://dx.doi.org/10.1101/200204 2017-10-10 Biochemistry CC BY-NC-ND The centrosomin CM2 domain is a multi-functional binding domain with distinct cell cycle roles Y. Rose Citron|Carey J. Fagerstrom|Bettina Keszthelyi|Bo Huang|Nasser M Rusan|Mark J S Kelly|David A. Agard University of California, San Francisco;|National Heart, Lung, and Blood Institute, National Institutes of Health;|University of California, San Francisco & Chan Zuckerberg Biohub;|University of California, San Francisco & Howard Hughes Medical Institute
http://dx.doi.org/10.1101/200584 2017-10-10 Biophysics How epigenome drives chromatin folding and dynamics, insights from efficient coarse-grained models of chromosomes Surya K. Ghosh|Daniel Jost Univ Grenoble Alpes, CNRS, TIMC-IMAG, F-38000 Grenoble, France
http://dx.doi.org/10.1101/199240 2017-10-10 Biochemistry Development of a riboswitch-based platform for live cell imaging of RNAs in mammalian cells Esther Braselmann|Aleksandra J Wierzba|Jacob T Polaski|Mikoaj Chrominski|Dilara Batan|Dorota Gryko|Robert T Batey|Amy E Palmer University of Colorado Boulder;|Polish Academy of Sciences
http://dx.doi.org/10.1101/200105 2017-10-10 Biochemistry CC BY The importance of the photosynthetic Gibbs effect in the elucidation of the Calvin-Benson-Bassham Cycle Oliver Ebenhoeh|Stephanie Spelberg Heinrich Heine University Duesseldorf
http://dx.doi.org/10.1101/200980 2017-10-10 CC BY Heartfelt Face Perception via the Interoceptive Pathway – a MEG study Jaejoong Kim|Hyeong-dong Park|Ko Woon Kim|Dong Woo Shin|Sanghyun Lim|Hyukchan Kwon|Min-Young Kim|Kiwoong Kim|Bumseok Jeong KAIST;|Ecole Polytechnique Fédérale de Lausanne (EPFL);|Chonbuk National University Hospital;|KRISS
http://dx.doi.org/10.1101/200873 2017-10-10 Neural signatures of dynamic emotion constructs in the human brain Tijl Grootswagers|Briana L. Kennedy|Steven B. Most|Thomas A. Carlson University of Sydney;|University of Southern California;|University of New South Wales
http://dx.doi.org/10.1101/199885 2017-10-10 CC BY-NC-ND Using the three dimensional shape of plant cells to predict probabilities of cell division orientation Pablo Martinez|Lindy Allsman|Kenneth A Brakke|Christopher Hoyt|Jordan Hayes|Carolyn G Rasmussen University of California, Riverside;|Susquehanna University;|Harvey Mudd College
http://dx.doi.org/10.1101/201251 2017-10-10 The response to selection in Glycoside Hydrolase Family 13 structures: A comparative quantitative genetics approach Jose Sergio Hleap|Christian Blouin McGill University;|Dalhousie University
http://dx.doi.org/10.1101/201038 2017-10-10 Measurement of leaf day respiration using a new isotopic disequilibrium method compared with the Laisk method Xiao Ying Gong|Guillaume Tcherkez|Johannes Wenig|Rudi Schaeufele|Hans Schnyder Technical University of Munich;|Australian National University
http://dx.doi.org/10.1101/200857 2017-10-10 CC BY-NC Dilated Convolutions for Modeling Long-Distance Genomic Dependencies Ankit Gupta|Alexander M Rush Harvard University
http://dx.doi.org/10.1101/201053 2017-10-10 CC BY-NC Time-Consistent Reconciliation Maps and Forbidden Time Travel Nikolai Njgaard|Manuela Gei|Peter F Stadler|Daniel Merkle|Nicolas Wieseke|Marc Hellmuth University of Greifswald;|University of Leipzig;|Univ Leipzig;|SDU
http://dx.doi.org/10.1101/200774 2017-10-10 CC BY Decoupled Maternal and Zygotic Genetic Effects Shape the Evolution of Development Christina Zakas|Jennifer Deutscher|Alex Kay|Matthew Rockman New York University
http://dx.doi.org/10.1101/198432 2017-10-10 CC BY Neural Correlates of Motor Imagery, Action Observation, and Movement Execution: A Comparison Across Quantitative Meta-Analyses Robert M Hardwick|Svenja Caspers|Simon B Eickhoff|Stephan P Swinnen KU Leuven;|Research Center Juelich/Heinrich-Heine University Dusseldorf
http://dx.doi.org/10.1101/201186 2017-10-10 CC BY-NC Biopipe: A Lightweight System Enabling Comparison of Bioinformatics Tools and Workflows Saima Sultana Tithi|Jiyoung Lee|Liqing Zhang|Song Li|Na Meng Virginia Tech
http://dx.doi.org/10.1101/199356 2017-10-10 CC BY-NC Probabilistic data integration identifies reliable gametocyte-specific proteins and transcripts in malaria parasites Lisette Meerstein-Kessel|Robin van der Lee|Will Stone|Kjerstin Lanke|David A Baker|Pietro Alano|Francesco Silvestrini|Chris J Janse|Shahid M Khan|Marga van de Vegte-Bolmer|Wouter Graumans|Rianne Siebelink-Stoter|Taco WA Kooij|Matthias Marti|Chris Drakeley|Joseph J Campo|Teunis JP van Dam|Robert Sauerwein|Teun Bousema|Martijn A Huynen Radboud University Medical Center;|London School of Hygiene and Tropical Medicine;|Istituto Superiore di Sanita;|Leiden University Medical Center;|College of Medical Veterinary and Life Sciences University of Glasgow;|Antigen Discovery Inc Irvine CA
http://dx.doi.org/10.1101/200840 2017-10-10 CC BY-NC-ND Alzheimer's Genetic Risk Score linked to Incident Mild Behavioral Impairment Shea Andrews|Zahinoor Ismail|Kaarin J Anstey|Moyra Mortby Australian National University;|Hotchkiss Brain Institute, University of Calgary, Calgary, Canada;|Centre for Research on Ageing, Health and Wellbeing, ANU, Canberra, Australia
http://dx.doi.org/10.1101/201228 2017-10-10 Development of cross-orientation suppression and size tuning and the role of experience Marjena Popovic|Andrea K Stacy|Charlotte E Oettgen|Mihwa Kang|Roshan Nanu|Derek L Wise|Jozsef Fiser|Stephen D Van Hooser University of Rochester;|Brandeis University;|Bates College;|Central European University
http://dx.doi.org/10.1101/200790 2017-10-10 CC BY-NC-ND Characterization and remediation of sample index swaps by non-redundant dual indexing on massively parallel sequencing platforms Maura Costello|Mark Fleharty|Justin Abreu|Yossi Farjoun|Steven Ferriera|Laurie Holmes|Tom Howd|Tamara Mason|Gina Vicente|Michael Dasilva|Wendy Brodeur|Timothy DeSmet|Sheila Dodge|Niall J. Lennon|Stacey Gabriel The Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/201152 2017-10-10 CC BY-NC Touching proteins with virtual bare hands: how to visualize protein-drug complexes and their dynamics in virtual reality Erick Martins Ratamero|Dom Bellini|Christopher Dowson|Rudolf A Roemer University of Warwick
http://dx.doi.org/10.1101/200709 2017-10-10 CC BY-ND Aqueous ethanol permeation across Sterlitech flat sheet aquaporin membranes Jeremy Lewis|Ali Alshami University of North Dakota
http://dx.doi.org/10.1101/200493 2017-10-10 Cell Biology CC BY-NC Force-dependent ligand sensing enables αVβ3 integrin to differentiate between fibronectin and high-affinity ligands Michael Bachmann|Markus Schafer|Kai Weienbruch|Vasyl Mykuliak|Lia Heiser|Clemens M. Franz|Vesa Hytonen|Bernhard Wehrle-Haller|Martin Bastmeyer Zoological Institute, Cell- and Neurobiology, Karlsruhe Institute of Technology (KIT);|Faculty of Medicine and Life Sciences and BioMediTech, University of Tampere;|DFG-Center for Functional Nanostructures, Karlsruhe Institute of Technology (KIT);|Department of Cell Physiology and Metabolism, University of Geneva
http://dx.doi.org/10.1101/200907 2017-10-10 Biophysics CC BY-NC-ND Energetic costs, precision, and efficiency of a biological motor in cargo transport Wonseok Hwang|Changbong Hyeon Korea Institute of Advanced Study;|Korea Institute for Advanced Study
http://dx.doi.org/10.1101/200824 2017-10-10 Neuroscience CC BY-NC-ND Population-scale organization of cerebellar granule neuron signaling during a visuomotor behavior Sherika J.G. Sylvester|Melanie M. Lee|Alexandro Ramirez|Sukbin Lim|Mark S. Goldman|Emre R.F. Aksay Inst. for Computational Biomedicine & Dept. of Physiology and Biophysics, Weill Cornell Medicine;|Center for Neuroscience, University of California at Davis
http://dx.doi.org/10.1101/200253 2017-10-10 Neuroscience Adult Neurogenesis Conserves Hippocampal Learning Capacity Jahangir Alam|Takashi Kitamura|Yoshito Saitoh|Noriaki Ohkawa|Takashi Kondo|Kaoru Inokuchi University of Toyama;|University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/200154 2017-10-10 Developmental Biology WDR11-mediated Hedgehog signalling defects underlie a new ciliopathy related to Kallmann syndrome Yeon-Joo Kim|Daniel Osborn|Ji-Young Lee|Masatake Araki|Kimi Araki|Timothy Mohun|Johanna E M Kansakoski|Nina Brandstack|Hyun-Taek Kim|Francesc Miralles|Cheol-Hee Kim|Nigel A Brown|Hyung-Goo Kim|Juan Pedro Martinez-Barbera|Paris Ataliotis|Taneli Raivio|Lawrence C Layman|Soo-Hyun Kim Molecular and Clinical Sciences Research Institute, St. Georges, University of London;|Institute of Resource Development and Analysis, Kumamoto University;|Francis Crick Institute;|Helsinki University Central Hospital;|Chungnam National University;|Medical College of Georgia, Augusta University;|Birth Defects Research Centre, UCL Great Ormond Street Institute of Child Health
http://dx.doi.org/10.1101/200816 2017-10-10 Cancer Biology Restoring p53 Function and Silencing REV3L Suppresses the Cancerous Metabolic Phenotype in Cisplatin Treated Human Non-Small Lung Carcinoma Cells Linghao Kong|Michael M Murata|Michelle A Digman Laboratory for Fluorescence Dynamics, Department of Biomedical Engineering, UC Irvine
http://dx.doi.org/10.1101/200501 2017-10-10 Developmental Biology CC BY-NC-ND A common molecular logic determines embryonic stem cell self-renewal and reprogramming Sara-Jane Dunn|Meng Amy Li|Elena Carbognin|Austin G Smith|Graziano Martello Microsoft Research, Cambridge, UK;|Wellcome Trust - Medical Research Council Cambridge Stem Cell Institute, University of Cambridge, UK;|Department of Molecular Medicine, University of Padua, Italy;|University of Padua
http://dx.doi.org/10.1101/200659 2017-10-10 Genetics Diverse laboratory colonies of Aedes aegypti harbor the same adult midgut bacterial microbiome Laura B. Dickson|Amine Ghozlane|Stevenn Volant|Christiane Bouchier|Laurence Ma|Anubis Vega-Rua|Isabelle Dusfour|Davy Jiolle|Christophe Paupy|Martin N. Mayanja|Alain Kohl|Julius J. Lutwama|Veasna Duong|Louis Lambrechts Pasteur Institute;|Institut Pasteur de la Guadeloupe;|Institut Pasteur de la Guyane;|IRD;|Uganda Virus Research Institute;|9MRC-University of Glasgow Centre for Virus Research;|Institut Pasteur in Cambodia
http://dx.doi.org/10.1101/201087 2017-10-10 Animal Behavior and Cognition CC BY-NC-ND Open Source LED controller for circadian experiments Maite Ogueta|Luis Garcia Rodriguez Univeristy of Muenster (WWU)
http://dx.doi.org/10.1101/201061 2017-10-10 Neuroscience CC BY-NC Bayesian Optimisation for Neuroimaging Pre-processing in Brain Age Prediction Jenessa Lancaster|Romy Lorenz|Rob Leech|James H Cole Imperial College London
http://dx.doi.org/10.1101/200550 2017-10-10 Bioengineering Enzymatic synthesis of gene-length single-stranded DNA Remi Veneziano|Tyson R Shepherd|Sakul Ratanalert|Leila Bellou|Chaoqun Tao|Mark Bathe Massachusetts Institute of Technology
http://dx.doi.org/10.1101/200667 2017-10-10 Plant Biology Characterization of Thylakoid Division Using Chloroplast Dividing Mutants in Arabidopsis Jonathan Ho|Warren Kwan|Vivian Li|Steven Theg University of California - Davis
http://dx.doi.org/10.1101/201194 2017-10-10 Evolutionary Biology Motility in multicellular Chlamydomonas reinhardtii Margrethe Boyd|Matthew D Herron|Frank Rosenzweig University of Montana;|Georgia Institute of Technology
http://dx.doi.org/10.1101/200592 2017-10-10 Immunology Development of a novel Francisella tularensis Live Vaccine Strain expressing ovalbumin provides insight into Francisella tularensis-specific CD8+ T cell responses. David E Place|David R Williamson|Yevgeniy Yuzefpolskiy|Bhuvana Katkere|Surojit Sarkar|Vandana Kalia|Girish S Kirimanjeswara Pennsylvania State University
http://dx.doi.org/10.1101/201079 2017-10-10 Biophysics CC BY-NC Simple nanofluidic devices for high-throughput, non-equilibrium studies at the single-molecule level Carel Fijen|Mattia Fontana|Serge G. Lemay|Klaus Mathwig|Johannes Hohlbein Wageningen University & Research;|University of Twente;|University of Groningen
http://dx.doi.org/10.1101/200915 2017-10-10 Bioinformatics CC BY-NC-ND SSEalign: accurate function prediction of bacterial unannotated protein, based on effective training dataset Zhiyuan Yang|Stephen Kwok-Wing Tsui The Chinese University of Hong Kong
http://dx.doi.org/10.1101/200725 2017-10-10 Evolutionary Biology CC BY-NC-ND Compensatory evolution via cryptic genetic variation: Distinct trajectories to phenotypic and fitness recovery Sudarshan Chari|Christian Marier|Cody Porter|Emmalee Northrop|Alexandra Belinky|Ian Dworkin BEACON Center for the study of Evolution in Action,Michigan State University & Princeton University;|Department of Integrative Biology, Michigan State University;|McMaster University
http://dx.doi.org/10.1101/201160 2017-10-10 Systems Biology CC BY-NC-ND Origins of fractional control in regulated cell death Luis C Santos|Robert Vogel|Jerry E Chipuk|Marc R Birtwistle|Gustavo Stolovitzky|Pablo Meyer Mount Sinai School of Medicine;|IBM research;|Clemson University
http://dx.doi.org/10.1101/201020 2017-10-10 Genomics CC BY-ND Biological Insights Into Muscular Strength: Genetic Findings in the UK Biobank Emmi Tikkanen|Stefan Gustafsson|David Amar|Anna Shcherbina|Daryl Waggott|Euan Ashley|Erik Ingelsson Stanford University;|Uppsala University
http://dx.doi.org/10.1101/200931 2017-10-10 Neuroscience Neocortical microdissection at columnar and laminar resolution for molecular interrogation Koen Kole|Tansu Celikel Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/201616 2017-10-11 Bioengineering CC BY Quantitative in vivo evaluation of the reverse β-oxidation pathway for fatty acid production in Saccharomyces cerevisiae Paulo Goncalves Teixeira|Verena Siewers|Jens Nielsen Chalmers University of Technology;|Chalmers University of Technology; Technical University of Denmark
http://dx.doi.org/10.1101/200063 2017-10-11 Epidemiology CC BY Dynamics and Control of Infections on Social Networks of Population Types Brian Gerard Williams|Chris Dye SACEMA;|World Health Organisation
http://dx.doi.org/10.1101/195313 2017-10-11 Epidemiology CC BY The relative fitness of drug resistant Mycobacterium tuberculosis: a modelling study of household transmission in Lima, Peru Gwenan M Knight|Mirko Zimic|Sebastian Funk|Robert H Filman|Jon S Friedland|Louis Grandjean Imperial College London;|Universidad Peruana Cayetano Heredia;|London School of Hygiene & Tropical Medicine;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/200964 2017-10-11 Systems Biology CC BY-NC-ND Gene set enrichment analysis using RNA-seq-based condition-specific metabolic networks Van Du T Tran|Sebastien Moretti|Alix T Coste|Sara Amorim-Vaz|Dominique Sanglard|Marco Pagni SIB Swiss Institute of Bioinformatics;|Institute of Microbiology, University Hospital Lausanne and University Hospital Center
http://dx.doi.org/10.1101/197707 2017-10-11 Ecology CC BY-NC-ND An agent-based model of the Foraging Ascomycete Hypothesis Daniel C Thomas|Roo Vandegrift|Bitty Roy University of Oregon
http://dx.doi.org/10.1101/200733 2017-10-11 Epidemiology Pneumococcal phenotype and interaction with nontypeable Haemophilus influenzae as determinants of otitis media progression Joseph A Lewnard|Noga Givon-Lavi|Paula A. Tahtinen|Ron Dagan Harvard TH Chan School of Public Health;|Faculty of Health Sciences, Ben-Gurion University of the Negev;|Department of Paediatric and Adolescent Medicine, University of Turku and Turku University Hospital
http://dx.doi.org/10.1101/201426 2017-10-11 Evolutionary Biology Horizontal Gene Transfer Can Help Maintain the Equilibrium of Microbial Communities Yuhang Fan|Yandong Xiao|Babak Momeni|Yang-Yu Liu Channing Division of Network Medicine, Brigham and Women's Hospital, Harvard Medical School;|Department of Biology, Boston College
http://dx.doi.org/10.1101/201327 2017-10-11 Evolutionary Biology CC BY-NC-ND Using phylogenomic data to explore the effects of relaxed clocks and calibration strategies on divergence time estimation: Primates as a test case Mario dos Reis|Gregg F Gunnell|Jose Barba-Montoya|Alex Wilkins|Ziheng Yang|Anne Yoder Queen Mary University of London;|Duke Lemur Center;|University College London;|The Ohio State University;|Duke University
http://dx.doi.org/10.1101/200378 2017-10-11 Epidemiology CC BY Improving the visualisation, interpretation and analysis of two-sample summary data Mendelian randomization via the radial plot and radial regression Jack Bowden|Wesley Spiller|Fabiola Del-Greco|Nuala Sheehan|John Thompson|Cosetta Minelli|George Davey Smith University of Bristol;|Institute for Biomedicine, Eurac;|University of Leicester;|Imperial College, London
http://dx.doi.org/10.1101/200998 2017-10-11 CC BY-NC-ND A multi-modal approach to decomposing standard neuropsychological test performance: Symbol Search Nicolas Langer|Erica J Ho|Andreas Pedroni|Lindsay M Alexander|Enitan T Marcelle|Kenneth Schuster|Michael P Milham|Simon P Kelly Center for the Developing Brain, Child Mind Institute, New York, NY, USA;|Center for the Developing Brain, Chil; Department of Psychology, Yale University, New Haven, CT, USA;|Methods of Plasticity Research, Department of Psychology, University of Zurich, Zurich, Switzerland;|Center for the Developing Brain, Child Mind Institute, New York, NY, USA; Department of Psychology;|School of Electrical and Electronic Engineering, University College Dublin, Ireland
http://dx.doi.org/10.1101/201269 2017-10-11 CC BY Imbalanced amplification: A mechanism of amplification and suppression from local imbalance of excitation and inhibition in cortical circuits Christopher Ebsch|Robert Rosenbaum University of Notre Dame
http://dx.doi.org/10.1101/201285 2017-10-11 Electrophysiological Signature Reveals Laminar Structure of the Porcine Hippocampus Alexandra V Ulyanova|Paul F Koch|Michael R Grovola|Kevin D Browne|Robin J Russo|Christopher D Adam|Douglas H Smith|H. Isaac Chen|Victoria E Johnson|D. Kacy Cullen|John A Wolf University of Pennsylvania;|University of Pennsylvania, Corporal Michael J. Crescenz Veterans Affairs Medical Center;|University of Pennsylvania, Corporal Michael J. Crescenz Veterans Affair Medical Center
http://dx.doi.org/10.1101/201954 2017-10-11 Hemispheric lateralization of Heschl's gyrus and amygdala subdivisions are involved in differentiating happy and sad acoustic emotion Francis A. M. Manno|Juan Fernandez-Ruiz|Fernando A. Barrios Universidad Nacional Autonoma de Mexico, Instituto de Neurobiologia;|Universidad Nacional Autonoma de Mexico, Facultad de Medicina;|Universidad Nacional Autonoma de Mexico, Instituto de Neurobiolgia
http://dx.doi.org/10.1101/201665 2017-10-11 Leaf rolling in maize crops: from leaf scoring to canopy level measurements for phenotyping Frederic Baret|Simon Madec|Kamran Irfan|Jeremy Lopez|Alexis Comar|Matthieu Hemmerle|Dan Dutartre-Cohen|Sebastien Praud|Marie-Helene Tixier INRA;|BIOGEMMA;|HIPHEN
http://dx.doi.org/10.1101/201475 2017-10-11 CC BY-NC-ND N6-methyladenosine modification and the YTHDF2 reader protein play cell type specific roles in lytic viral gene expression during Kaposi's sarcoma-associated herpesvirus infection Charles Hesser|John Karijolich|Dan Dominissini|Chuan He|Britt A Glaunsinger UC Berkeley;|Vanderbilt University;|Chaim Sheba Medical Center;|University of Chicago;|University of California, Berkeley
http://dx.doi.org/10.1101/201277 2017-10-11 CC BY-NC-ND Protein-protein interactions with fructose-1-kinase alter function of the central Escherichia coli transcription regulator, Cra Dipika Singh|Max S. Fairlamb|Kelly S. Harrison|Chamitha Weeramange|Sarah Meinhardt|Sudheer Tungtur|Benjamin F. Rau|P. Scott Hefty|Aron W. Fenton|Liskin Swint-Kruse The University of Kansas Medical Center;|The University of Kansas - Lawrence;|The University of Kanas Medical Center
http://dx.doi.org/10.1101/201137 2017-10-11 Transcriptomic Dynamics of a non-coding trinucleotide repeat expansion disorder SCA12 in iPSC derived neuronal cells: signatures of interferon induced response Deepak Kumar|Parashar Dhapola|Ashaq Hussain|Rintu Kutum|Achal Kumar Srivastava|Mitali Mukerji|Odity Mukherjee|Mohammed Faruq CSIR-Institute of Genomics and Integrative Biology (CSIR -IGIB);|Jamia Hamdard (Hamdard University), New Delhi;|All India Institute of Medical Sciences, New Delhi;|CSIR- Institute of Genomics and Integrative Biology;|Institute of Stem Cells and Regenerative Medicine (InStem), Bangalore
http://dx.doi.org/10.1101/201707 2017-10-11 CC BY-NC-ND Long-range inputs and H-current regulate different modes of operation in a multiscale model of mouse M1 microcircuits Salvador Dura-Bernal|Samuel A Neymotin|Benjamin A Suter|Gordon MG Shepherd|William W Lytton SUNY Downstate;|Brown University;|IST Austria;|Northwestern University
http://dx.doi.org/10.1101/201731 2017-10-11 Molecular evolutionary trends and feeding ecology diversification in the Hemiptera, anchored by the milkweed bug genome Kristen A. Panfilio|Iris M. Vargas Jentzsch|Joshua B. Benoit|Deniz Erezyilmaz|Yuichiro Suzuki|Stefano Colella|Hugh M. Robertson|Monica F. Poelchau|Robert M. Waterhouse|Panagiotis Ioannidis|Matthew T. Weirauch|Daniel S.T. Hughes|Shwetha C. Murali|John H. Werren|Chris G.C. Jacobs|Elizabeth J. Duncan|David Armisen|Barbara M.I. Vreede|Patrice Baa-Puyoulet|Chloe S. Berger|Chun-che Chang|Hsu Chao|Mei-Ju M. Chen|Yen-Ta Chen|Christopher P. Childers|Ariel D. Chipman|Andrew G. Cridge|Antonin J.J. Crumiere|Peter K. Dearden|Elise M. Didion|Huyen Dinh|harshavardhan doddapaneni|Amanda Dolan|Shannon Dugan-Perez|Cassandra G. Extavour|Gerard Febvvay|Markus Friedrich|Neta Ginzburg|Yi Han|Peter Heger|Thorsten Horn|Yi-min Hsiao|Emily C. Jennings|J. Spencer Johnston|Tamsin E. Jones|Jeffery W. Jones|Abderrahman Khila|Stefan Koelzer|Viera Kovacova|Megan Leask|Sandra L. Lee|Chien-Yueh Lee|Mackenzie R. Lovegrove|Hsiao-Ling Lu|Yong Lu|Patricia J. Moore|Monica C. Munoz-Torres|Donna M. Muzny|Subba R. Palli|Nicolas Parisot|Leslie Pick|Megan Porter|Jiaxin Qu|Peter N. Refki|Rose Richter|Rolando Rivera-Pomar|Andrew J. Rosendale|Siegfried Roth|Lena Sachs|M. Emilia Santos|Jan Seibert|Essia Sghaier|Jayendra N. Shukla|Richard J. Stancliffe|Olivia Tidswell|Lucila Traverso|Maurijn van der Zee|Severine Viala|Kim C. Worley|Evgeny M. Zdobnov|Richard A. Gibbs|Stephen Richards Institute for Zoology: Developmental Biology, University of Cologne, Germany;|Department of Biological Sciences, University of Cincinnati, Cincinnati, Ohio, USA;|Stony Brook University, Stony Brook, New York, USA;|Wellesley College, Wellesley, Massachusetts, USA;|Univ Lyon, INSA-Lyon, INRA, BF2I, UMR0203, F-69621, Villeurbanne, France;|University of Illinois at Urbana-Champaign, Urbana, Illinois, USA;|National Agricultural Library, Beltsville, Maryland, USA;|University of Geneva, Geneva, Switzerland;|Cincinnati Children's Hospital Medical Center, University of Cincinnati, Cincinnati, Ohio, USA;|Human Genome Sequencing Center, Baylor College of Medicine, Houston, Texas, USA;|Department of Biology, University of Rochester, Rochester, New York, USA;|Institute of Biology, Leiden University, Netherlands;|Department of Biochemistry and Genomics Aotearoa, University of Otago, Dunedin, New Zealand;|Institut de Génomique Fonctionnelle de Lyon, France;|The Hebrew University of Jerusalem, Israel;|National Taiwan University, Taipei, Taiwan;|Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA;|Department of Biological Sciences, Wayne State University, Detroit, Michigan, USA;|Institute for Genetics, University of Cologne, Germany;|Department of Entomology, Texas A&M University, College Station, Texas, USA;|CECAD, University of Cologne, Cologne, Germany;|University of Maryland, College Park, Maryland, USA;|University of Georgia, Athens, Georgia, USA;|Lawrence Berkeley National Laboratory, Berkeley, California, USA;|University of Kentucky, Lexington, Kentucky, USA;|Department of Biology, University of Hawai'i at Mānoa, Honolulu, Hawaii, USA;|Centro de Bioinvestigaciones, Universidad Nacional del Noroeste de Buenos Aires, Argentina;|Argelander-Institut für Astronomie, Universität Bonn, Bonn, Germany;|Universidad Nacional de La Plata, La Plata, Argentina
http://dx.doi.org/10.1101/201699 2017-10-11 CC BY-NC-ND Acetylcholine reconfigures hippocampal circuits to enable rapid formation of overlapping memory ensembles Luke Yuri Prince|Krasimira Tsaneva-Atanasova|Claudia Clopath|Jack R Mellor University of Bristol;|University of Exeter;|Imperial College London
http://dx.doi.org/10.1101/201988 2017-10-11 GEMBS: high through-put processing pipeline for DNA methylation data from Whole Genome Bisulfite Sequencing (WGBS) Angelika Merkel|Marcos Fernandez-Callejo|Eloi Casals|Santiago Marco-Sola|Ronald Schuyler|Simon C. Heath Centro Nacional de Analisis Genomico (CNAG-CRG)
http://dx.doi.org/10.1101/201145 2017-10-11 CC BY-NC-ND A Bioinformatics Pipeline for Whole Exome Sequencing: Overview of the Processing and Steps from Raw Data to Downstream Analysis Narendra Meena|Praveen Mathur|Krishna Mohan Medicherla|Prashanth Suravajhala Birla Institute of Scientific Research;|SMS Medical College and Hospital
http://dx.doi.org/10.1101/201566 2017-10-11 Angiogenesis inhibiting capacity of Basella rubra and Syszygium cumini fruit extracts using chorioallantoic membrane assay Milton Norman Medina|Hannah Galang|Pedrito Castillo University of Mindanao
http://dx.doi.org/10.1101/201558 2017-10-11 The Drosophila Eukaryotic Initiation Factor eIF6 affects development by regulating apoptosis via the ecdysone pathway Arianna Russo|Guido Gatti|Roberta Alfieri|Elisa Pesce|Kelly Soanes|Sara Ricciardi|Cristina Cheroni|Thomas Vaccari|Stefano Biffo|Piera Calamita INGM, National Institute of Molecular Genetics, Romeo ed Enrica Invernizzi, Milan, Italy;|DBS, Universita degli Studi di Milano;|Aquatic and Crop Resource Development - National Research Council of Canada
http://dx.doi.org/10.1101/201384 2017-10-11 Ancestral perinatal obesogen exposure results in a transgenerational thrifty phenotype in mice Raquel Chamorro-Garcia|Carlos Diaz-Castillo|Bassem M Shoucri|Heidi Kaech|Ron Leavitt|Toshi Shioda|Bruce Blumberg University of California Irvine;|ETH, Zurich;|Massachusetts General Hospital
http://dx.doi.org/10.1101/201301 2017-10-11 Neural code uses self-information principle to organize the brain's universal cell-assembly coding Meng Li|Kun Xie|Hui Kuang|Jun Liu|Deheng Wang|Grace E Fox|Zhifeng Shi|Liang Chen|Fang Zhao|Ying Mao|Joe Tsien Augusta University;|Department of Neuropathology, Huashan Hospital, Fudan University;|Medical College of Georiga, Augusta University
http://dx.doi.org/10.1101/201293 2017-10-11 Molecules of map plasticity in the somatosensory cortex Koen Kole|Wim Scheenen|Paul Tiesinga|Tansu Celikel Donders Institute for Brain, Cognition and Behaviour;|Radboud University
http://dx.doi.org/10.1101/202002 2017-10-11 CC BY-NC-ND Meta-analysis of massive parallel reporter assay enables functional regulatory elements prediction Anat Kreimer|Zhongxia Yan|Nadav Ahituv|Nir Yosef University of California, Berkeley, California;|University of California, San Francisco, San Francisco, California
http://dx.doi.org/10.1101/201749 2017-10-11 CC BY-NC-ND Tonic and transient oscillatory brain activity during acute exercise Luis F Ciria|Antonio Luque-Casado|Daniel Sanabria|Plamen Ch Ivanov|Darias Holgado|Pandelis Perakakis University of Granada;|Pablo de Olavide University;|Boston University;|Loyola Andalucia University
http://dx.doi.org/10.1101/201590 2017-10-11 CC BY-NC-ND An automated barcode tracking system for behavioural studies in birds Gustavo Alarcon-Nieto|Jacob Graving|James A. Klarevas-Irby|Adriana Maldonado-Chaparro|Inge Mueller|Damien Farine Chair of Biodiversity and Collective Behaviour, Department of Biology, University of Konstanz;|Department of Collective Behaviour, Max Planck Institute for Ornithology, Konstanz;|Department of Migration and ImmunoEcology, Max-Planck Institute of Ornithology, Radolfzell
http://dx.doi.org/10.1101/200238 2017-10-11 Continuous interdomain orientation distributions reveal components of binding thermodynamics Yang Qi|Jeffrey W Martin|Adam W Barb|Francois Thelot|Anthony Yan|Bruce R Donald|Terrence G Oas Duke University;|Iowa State University
http://dx.doi.org/10.1101/201798 2017-10-11 Sexual lineage specific DNA methylation regulates Arabidopsis meiosis James Walker|Hongbo Gao|Jingyi Zhang|Billy Aldridge|Martin Vickers|James D Higgins|Xiaoqi Feng Department of Cell and Developmental Biology, John Innes Centre, Norwich NR4 7UH, UK;|Department of Genetics, University of Leicester, University Road, Leicester LE1 7RH, UK
http://dx.doi.org/10.1101/201830 2017-10-11 CC BY A critical comparison of technologies for a plant genome sequencing project Pirita Paajanen|George Kettleborough|Elena Lopez-Girona|Michael Giolai|Darren Heavens|David Baker|Ashleigh Lister|Gail Wilde|Ingo Hein|Iain Macaulay|Glenn J. Bryan|Matthew D. Clark Earlham Institute;|The James Hutton Institute
http://dx.doi.org/10.1101/201772 2017-10-11 CC BY-NC-ND Atypical functional connectivity in adolescents and adults with persistent and remitted ADHD Giorgia Michelini|Joseph Jurgiel|Ioannis Bakolis|Celeste HM Cheung|Philip Asherson|Sandra K Loo|Jonna Kuntsi|Iman Mohammad-Rezazadeh Institute of Psychiatry, Psychology & Neuroscience, King's College London;|Semel Institute for Neuroscience and Human Behavior, University of California, Los Angeles (UCLA)
http://dx.doi.org/10.1101/201624 2017-10-11 CC BY-NC-ND Subject- and behavior-specific signatures extracted from fMRI data using whole-brain effective connectivity Vicente Pallares|Andrea Insabato|Ana Sanjuan|Simone Kuehn|Dante Mantini|Gustavo Deco|Matthieu Gilson Universitat Pompeu Fabra;|Max Planck Institute for Human Development;|KU Leuven
http://dx.doi.org/10.1101/201913 2017-10-11 CC BY-NC-ND Mutational analysis of the human Xbp1 translational arrest peptide and construction of arrest-enhanced variants Nina Schiller|Anastasia Magoulopoulou|Florian Cymer|Gunnar Von Heijne Department of Biochemistry and Biophysics, Stockholm University, SE-106 91 Stockholm, Sweden
http://dx.doi.org/10.1101/200972 2017-10-11 CC BY-NC Placozoans are eumetazoans related to Cnidaria Christopher E. Laumer|Harald Gruber-Vodicka|Michael G. Hadfield|Vicki B. Pearse|Ana Riesgo|John C. Marioni|Gonzalo Giribet EMBL-EBI;|Max Planck Institute for Marine Microbiology;|University of Hawaiʻi at Mānoa;|University of California, Santa Cruz, Institute of Marine Sciences;|The Natural History Museum;|European Molecular Biology Laboratory - European Bioinformatics Institute;|Harvard University
http://dx.doi.org/10.1101/200865 2017-10-11 Predicting aging of brain metabolic topography using variational autoencoder Hongyoon Choi|Hyejin Kang|Dong Soo Lee Seoul National University College of Medicine
http://dx.doi.org/10.1101/200071 2017-10-11 Peer-Led Team Learning Improves Minority Student Retention in STEM Majors Jeremy Sloane|Julia J. Snyder|Jason R. Wiles Syracuse University
http://dx.doi.org/10.1101/201103 2017-10-11 Cnidarian cell type diversity revealed by whole-organism single-cell RNA-seq analysis Arnau Sebe-Pedros|Elad Chomsky|Baptiste Saudemont|Marie-Pierre Mailhe|Flora Pleisser|Justine Renno|Yann Loe-Mie|Aviezer Lifshitz|Zohar Mukamel|Sandrine Schmutz|Sophie Nouvault|Francois Spitz|Amos Tanay|Heather Marlow Weizmann Institute of Science;|Institut Pasteur
http://dx.doi.org/10.1101/201889 2017-10-11 CC BY-NC-ND Persistent DNA-break potential near telomeres increases initiation of meiotic recombination on small chromosomes Vijayalakshmi Venganalore Subramanian|Tovah E. Markowitz|Luis Andre Vale Silva|Pedro San-Segundo|Nancy M Hollingsworth|Andreas Hochwagen New York University;|University of Salamanca;|Stony Brook University
http://dx.doi.org/10.1101/201756 2017-10-11 Temporal expectation modulates cortical dynamics of sensory memory Anna Wilsch|Molly J Henry|Bjoern Herrmann|Christoph S Herrmann|Jonas Obleser University of Oldenburg, Oldenburg, Germany;|Western University, London, Ontario, Canada;|University of Luebeck, Luebeck, Germany
http://dx.doi.org/10.1101/201681 2017-10-11 Systematic evaluation of statistical methods for identifying looping interactions in 5C data Jennifer E Phillips-Cremins|Thomas G Gilgenast University of Pennsylvania
http://dx.doi.org/10.1101/198473 2017-10-11 CC BY-NC-ND A helicase-containing module defines a family of pCD630-like plasmids in Clostridium difficile Wiep Klaas Smits|J. Scott Weese|Adam P. Roberts|Celine Harmanus|Bastian Hornung Leiden University Medical Center;|University of Guelph;|Liverpool School of Tropical Medicine
http://dx.doi.org/10.1101/199489 2017-10-11 CC BY-NC-ND MatchMiner: An open source computational platform for real-time matching of cancer patients to precision medicine clinical trials using genomic and clinical criteria James Lindsay|Catherine Del Vecchio Fitz|Zachary Zwiesler|Priti Kumari|Bernd Van Der Veen|Tamba Monrose|Tali Mazor|Susan Barry|Adem Albayrak|Michael Tung|Khanh Do|Brian Beardslee|Geoffrey Shapiro|John Methot|Lynette Sholl|Laura E. MacConaill|Neil Lindeman|Bruce Johnson|Barrett Rollins|Chris Sander|Michael Hassett|Ethan Cerami Dana-Farber Cancer Institute;|The Hyve
http://dx.doi.org/10.1101/200394 2017-10-11 An alignment method for nucleic acid sequences against annotated genomes Koen Deforche Emweb bvba
http://dx.doi.org/10.1101/198234 2017-10-11 Genetic analysis of over one million people identifies 535 novel loci for blood pressure. Evangelos Evangelou|Helen R. Warren|David Mosen-Ansorena|Borbala Mifsud|Raha Pazoki|He Gao|Georgios Ntritsos|Niki Dimou|Claudia P. Cabrera|Ibrahim Karaman|Fu Liang Ng|Marina Evangelou|Katarzyna Witkowska|Evan Tzanis|Jacklyn N. Hellwege|Ayush Giri|Digna R. Velez Edwards|Yan V. Sun|Kelly Cho|J. Michael Gaziano|Peter W. F. Wilson|Philip S. Tsao|Csaba P. Kovesdy|Tonu Esko|Reedik Magi|Lili Milani|Peter Almgren|Thibaud Boutin|Stephanie Debette|Jun Ding|Franco Giulianini|Elizabeth G. Holliday|Anne U. Jackson|Ruifang Li-Gao|Wei-Yu Lin|Jian'an Luan|Massimo Mangino|Christopher Oldmeadow|Bram Prins|Yong Qian|Muralidharan Sargurupremraj|Nabi Shah|Praveen Surendran|Sebastien Theriault|Niek Verweij|Sara M. Willems|Jing-Hua Zhao|Philippe Amouyel|John Connell|Renee de Mutsert|Alex S. F. Doney|Martin Farrall|Cristina Menni|Andrew D. Morris|Raymond Noordam|Guillaume Pare|Neil R. Poulter|Denis C. Shields|Alice Stanton|Simon Thom|Goncalo Abecasis|Najaf Amin|Dan E. Arking|Kristin L. Ayers|Caterina M. Barbieri|Chiara Batini|Joshua C. Bis|Tineka Blake|Murielle Bochud|Michael Boehnke|Eric Boerwinkle|Dorret I. Boomsma|Erwin Bottinger|Peter S. Braund|Marco Brumat|Archie Campbell|Harry Campbell|Aravinda Chakravarti|John C. Chambers|Ganesh Chauhan|Marina Ciullo|Massimiliano Cocca|Francis Collins|Heather J. Cordell|Gail Davies|Martin H. de Borst|Eco de Geus|Ian Deary|Joris Deelen|Fabiola M. Del Greco|Cumhur Y. Demirkale|Marcus Dorr|Georg B. Ehret|Roberto Elosua|Stefan Enroth|A. Mesut Erzurumluoglu|Teresa Ferreira|Mattias Franberg|Oscar H. Franco|Ilaria Gandin|Paolo Gasparini|Vilmantas Giedraitis|Christian Gieger|Giorgia Girotto|Anuj Goel|Alan J. Gow|Vilmundur Gudnason|Xiuqing Guo|Ulf Gyllensten|Anders Hamsten|Tamara B. Harris|Sarah E. Harris|Catharina A. Hartman|Aki S. Havulinna|Andrew A. Hicks|Edith Hofer|Albert Hofman|Jouke-Jan Hottenga|Jennifer E. Huffman|Shih-Jen Hwang|Erik Ingelsson|Alan James|Rick Jansen|Marjo-Riitta Jarvelin|Roby Joehanes|Asa Johansson|Andrew D. Johnson|Peter Joshi|Pekka Jousilahti|J. Wouter Jukema|Antti M. Jula|Mika Kahonen|Sekar Kathiresan|Bernard D. Keavney|Kay-Tee Khaw|Paul Knekt|Joanne Knight|Ivana Kolcic|Jaspal S. Kooner|Seppo Koskinen|Kati Kristiansson|Zoltan Kutalik|Maris Laan|Marty Larson|Lenore J. Launer|Benjamin Lehne|Terho Lehtimaki|Daniel Levy|David C. M. Liewald|Li Lin|Lars Lind|Cecilia M. Lindgren|Yongmei Liu|Ruth J. F. Loos|Lorna M. Lopez|Lingchan Lu|Leo-Pekka Lyytikainen|Anubha Mahajan|Chrysovalanto Mamasoula|Jaume Marrugat|Jonathan Marten|Yuri Milaneschi|Anna Morgan|Andrew P. Morris|Alanna C. Morrison|Mike A. Nalls|Priyanka Nandakumar|Christopher P. Nelson|Christopher Newton-Cheh|Teemu Niiranen|Ilja M. Nolte|Teresa Nutile|Albertine J. Oldehinkel|Ben A. Oostra|Paul F. O'Reilly|Elin Org|Sandosh Padmanabhan|Walter Palmas|Arno Palotie|Alison Pattie|Brenda W. J. H. Penninx|Markus Perola|Peter J. Munson|Annette Peters|Ozren Polasek|Peter P. Pramstaller|Nguyen Quang Tri|Olli T. Raitakari|Meixia Ren|Rainer Rettig|Kenneth Rice|Paul M. Ridker|Janina S. Reid|Harriette Riese|Samuli Ripatti|Antonietta Robino|Lynda M. Rose|Jerome I. Rotter|Igor Rudan|Daniella Ruggiero|Yasaman Saba|Cinzia F. Sala|Veikko Salomaa|Nilesh J. Samani|Antti-Pekka Sarin|Rheinhold Schmidt|Helena Schmidt|Nick Shrine|David Siscovick|Albert V. Smith|Harold Schneider|Siim Sober|Rossella Sorice|John M. Starr|David J. Stott|David P. Strachan|Rona J. Strawbridge|Johan Sundstrom|Morris A. Swertz|Kent D. Taylor|Alexander Teumer|Martin D. Tobin|Daniela Toniolo|Michela Traglia|Stella Trompet|Jaakko Tuomilehto|Christophe Tzourio|Andre G. Uitterlinden|Ahmad Vaez|Peter J. van der Most|Cornelia M. van Duijn|Anne-Claire Vergnaud|Germaine C. Verwoert|Veronique Vitart|Uwe Volker|Peter Vollenweider|Dragana Vuckovic|Hugh Watkins|Sarah H. Wild|Gonneke Willemsen|James F. Wilson|Alan F. Wright|Jie Yao|Tatijana Zemunik|Weihua Zhang|John R. Attia|Adam S. Butterworth|Daniel I. Chasman|David Conen|Francesco Cucca|John Danesh|Caroline Hayward|Joanna M. M. Howson|Markku Laakso|Edward G. Lakatta|Claudia Langenberg|Ollie Melander|Dennis O. Mook-Kanamori|Patricia B. Munroe|Colin N. A. Palmer|Lorenz Risch|Robert A. Scott|Rodney J. Scott|Peter Sever|Timothy D. Spector|Pim van der Harst|Nicholas J. Wareham|Eleftheria Zeggini|Morris J. Brown|Andres Metspalu|Adriana M. Hung|Christopher O'Donnell|Todd L. Edwards|Bruce M. Psaty|Ioanna Tzoulaki|Michael R. Barnes|Louise V. Wain|Paul Elliott|Mark J. Caulfield Dept. of Hygiene & Epidemiol., Univ. of Ioannina Medical School, Ioannina, Greece;|William Harvey Research Inst., Barts & London School of Med., Queen Mary Univ.;|Dept. of Epidemiology and Biostatistics, Imperial College London, London, UK;|Vanderbilt University Medical Center, USA;|Emory University Rollins School of Public Health, USA;|Massachusetts Veterans Epidemiology Research and Information Center, USA;|Emory Clinical Cardiovascular Research Institute, USA;|Stanford University School of Medicine, USA;|Memphis VA Medical Center, USA;|Estonian Genome Center, University of Tartu, Tartu, Estonia;|University of Tartu, Estonia;|Lund University, Sweden;|University of Edinburgh, UK;|University of Bordeaux, France;|Lab of Genetics and Genomics, NIA/NIH, USA;|Brigham and Women's Hospital and Harvard Medical School, USA;|University of Newcastle, Australia;|University of Michigan, Ann Arbor, USA;|Leiden University Medical Center, Netherlands;|University of Cambridge, UK;|University of Cambridge School of Clinical Medicine, UK;|Dept. of Twin Research and Genetic Epidemiology, King's College London, UK;|Wellcome Trust Sanger Institute, UK;|Univ. of Bordeaux, Bordeaux Population Health Research Center, INSERM, France;|Div. of Molecular & Clinical Medicine, School of Medicine, University of Dundee, UK;|MRC/BHF Cardiovascular Epidemiology Unit, Univ. of Cambridge, Cambridge, UK;|Department of Pathology and Molecular Medicine, McMaster University, Canada;|University Medical Center Groningen, Groningen, The Netherlands;|MRC Epidemiology Unit, Univ. of Cambridge School of Clinical Medicine, UK;|University of Lille, Inserm, Centre Hosp. Univ. Lille, France;|University of Dundee, Ninewells Hospital & Medical School, Dundee, UK;|Dept. of Clinical Epidemiology, Leiden Univ. Medical Center, Leiden, the Netherlands;|Division of Molecular & Clinical Medicine, School of Medicine, Univ. of Dundee, UK;|Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, UK;|Usher Institute of Population Health Sciences & Informatics, Univ. of Edinburgh, UK;|Department of Internal Medicine, Leiden University Medical Center, the Netherlands;|Dept. of Pathology & Molecular Medicine, McMaster University, Hamilton, Canada;|School of Public Health, Imperial College London, London, UK;|School of Medicine, University College Dublin, Ireland;|Molecular and Cellular Therapeutics, Royal College of Surgeons in Ireland, Ireland;|International Centre for Circulatory Health, Imperial College London, London, UK;|Center for Statistical Genetics, Dept. of Biostatistics, Univ. of Michigan, Ann Arbor;|Genetic Epidemiology Unit, Dept. of Epidemiology, Erasmus MC, Rotterdam;|McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University;|Icahn School of Medicine at Mount Sinai, New York, NY, USA;|Division of Genetics and Cell Biology, San Raffaele Scientific Institute, Milano, Italy;|Department of Health Sciences, University of Leicester, Leicester, UK;|Cardiovascular Health Res. Unit, Dept. of Medicine, Univ. of Washington, Seattle;|Institute of Social & Preventive Medicine, Univ. Hospital of Lausanne, Switzerland;|School of Public Health, Univ. of Texas Health Science Center at Houston, USA;|Dept. of Biological Psychology, Univ. of Amsterdam, Amsterdam, the Netherlands;|Icachn School of Medicine at Mount Sinai, New York, USA;|Department of Cardiovascular Sciences, University of Leicester, Leicester, UK;|Dept. of Medical, Surgical and Health Sciences, University of Trieste, Trieste, Italy;|Institute of Genetics & Molecular Medicine, University of Edinburgh, Edinburgh, UK;|McKusick-Nathans Institute of Genetic Medicine, Johns Hopkins University, USA;|INSERM U 1219, Bordeaux Population Health center, Bordeaux, France;|Institute of Genetics and Biophysics;|Institute for Maternal and Child Health - IRCCS Burlo Garofolo, Trieste, Italy;|National Human Genome Research Institute, NIH, Bethesda, USA;|Institute of Genetic Medicine, Newcastle University, Newcastle upon Tyne, UK;|Centre for Cognitive Ageing & Cognitive Epidemiology, Univ. of Edinburgh, UK;|Division of Nephrology, University Medical Center, the Netherlands;|Dept. of Molecular Epidemiology, Leiden University Medical Center, the Netherlands;|Institute for Biomedicine, Affiliated Institute of University of Lubeck, Bolzano, Italy;|Center for Information Technology, NIH, USA;|Dept. of Internal Medicine B, University Medicine Greifswald, Greifswald, Germany;|Cardiovascular Epidemiology and Genetics, IMIM. Dr Aiguader 88, Barcelona, Spain;|Dept. of Immunology, Genetics and Pathology, Uppsala Universitet, Sweden;|Department of Health Sciences, University of Leicester, UK;|Li Ka Shing Centre for Health Information and Discovery, University of Oxford, UK;|Department of Medicine Solna, L8:03, Karolinska Institutet, Stockholm, Sweden;|Department of Epidemiology, Erasmus MC, Rotterdam, The Netherlands;|IRCCS-Burlo Garofalo Children Hospital, Via dell Istria 65, Trieste, Italy;|Dept. of Public Health and Caring Sciences, Geriatrics, Uppsala 752 37, Sweden;|Research Unit of Molecular Epidemiology, Helmholtz Zentrum Munchen, Germany;|Dept. of Medical, Surgical & Health Sciences, Univ. of Trieste;|Division of Cardiovascular Medicine, Radcliffe Dept. of Medicine, Univ. of Oxford;|Centre for Cognitive Ageing & Cognitive Epidemiology, Univ. of Edinburgh;|Icelandic Heart Assoication, Kopavogur, Iceland;|Inst. for Translational Genomics & Population Sci., Dept. of Pediatrics, LABioMed;|Dept. of Immunology, Genetics & Pathology, Uppsala Univ., Science for Life Lab.;|Cardiovascular Medicine Unit, Dept. of Medicine Solna, L8:03, Karolinska Institutet;|Intramural Res. Prog/, Lab. of Epidemiol., Demog., & Biometry, Natl. Inst. of Aging;|Dept. of Psychiatry, Univ. Medical Center Groningen, Groningen, the Netherlands;|Dept. of Public Health Solutions, Natl. Inst. for Health & Welfare, Helsinki;|Institute for Biomedicine, Eurac Research, Affiliated Institute of University of Lubeck;|Clinical Division of Neurogeriatrics, Dept. of Neurology, Medical University of Graz;|Department of Epidemiology, Erasmus MC, Rotterdam, 3000CA, the Netherlands;|Dept. of Biological Psychiatry, VU Univ. Medical Center, the Netherlands;|MRC Human Genetics Unit, IGMM, Univ. of Edinburgh, Western General Hospital;|Pop. Science Branch, Div. of Intramural Research, Natl. Heart Lung & Blood Inst.;|Dept. of Medical Sciences, Molecular Epidemiology & Science for Life Laboratory;|Dept. of Pulmonary Physiology & Sleep, Sir Charles Gairdner Hospital;|Dept. of Psychiatry, VU University Medical Center, Amsterdam, the Netherlands;|MRC-PHE Ctr. for Environ. & Health, School of Public Health, Imperial Coll. London;|Hebrew SeniorLife, Harvard Medical School, Boston;|National Heart, Lung & Blood Institute's Framingham Heart Study;|Ctr. for Global Health Res., Usher Inst. of Population Health Sciences & Informatics;|Dept. of Public Health Solutions, National Inst. for Health & Welfare, Helsinki;|Dept. of Cardiology, Leiden University Medical Center, Leiden, The Netherlands;|Dept. of Public Health Solutions, National Institute for Health & Welfare, Helsinki;|Dept. of Clinical Physiology, Tampere University Hospital, Tampere 33521, Finland;|Cardiovascular Res. Ctr. & Ctr. for Human Genetics, Massachusetts General Hosp.;|Div. of Cardiovascular Sciences, School of Medical Sciences, Univ. of Manchester;|Dept. of Public Health & Primary Care, Inst. of Public Health, Univ. of Cambridge;|Data Science Institute and Lancaster Medical School, Furness College, Lancaster;|Department of Public Health, Faculty of Medicine, University of Split, Croatia;|Department of Cardiology, Ealing Hospital, Middlesex UB1 3HW, UK;|Inst. of Social & Preventive Medicine, University Hospital of Lausanne, Switzerland;|Institute of Biomedicine and Translational Medicine, University of Tartu, Tartu;|National Heart, Lung and Blood Institute's Framingham Heart Study;|Lab. of Epidemiology, Demography, & Biometry, National Institute on Aging;|Department of Clinical Chemistry, Fimlab Laboratories, Tampere, Finland;|National Heart, Lung and Blood Institute, Population Sciences Branch, Bethesda;|Cardiology, Department of Medicine, Geneva University Hospital, Switzerland;|Dept. of Medical Sciences, Cardiovascular Epidemiology, Uppsala Univ., Sweden;|Program in Medical and Population Genetics, Broad Institute, Cambridge, USA;|Division of Public Health Sciences, Wake Forest School of Medicine, Weston-Salem;|MRC Epidemiology Unit, University of Cambridge, Institute of Metabolic Science;|Centre for Cognitive Ageing and Cognitive Epidemiology, University of Edinburgh;|Icachn School of Medicine Mount Sinai, New York, USA;|Institute of Health and Society, Newcastle University, Newcastle upon Tyne, UK;|Cardiovascular Epidemiology and Genetics, IMIM, Barcelona, Spain;|MRC Human Genetics Unit, IGMM, University of Edinburgh, Edinburgh, UK;|Dept. of Medical, Surgical &Health Sciences, University of Trieste, Trieste, Italy;|Department of Biostatistics, University of Liverpool, Liverpool, UK;|Dept. of Epidemiol., Human Genetics & Environ. Sciences, Univ. of Texas, Houston;|Data Tecnica International, Glen Echo, MD, USA;|McKusick-Nathans Inst. of Genetic Medicine, Johns Hopkins University;|Center for Genomic Medicine, Massachusetts General Hospital, Boston, USA;|Dept. of Public Health Solutions, National Inst. for Health and Welfare, Helsinki;|Dept. of Epidemiology, Univ. Medical Center Groningen, Groningen, the Netherlands;|Interdisciplinary Center Psychopathology & Emotion Regulation, Univ. of Groningen;|SGDP Centre, Inst. of Psychiatry, Psychology & Neurosci., King's College London;|Institute of Cardiovascular and Medicine, University of Glasgow, Glasgow, UK;|Department of Medicine, Columbia University Medical Center, New York, USA;|Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland;|Department of Psychology, University of Edinburgh, Edinburgh, UK;|Dept. of Public Health Solutions, Natl. Inst. for Health & Welfare, Helsinki, Finland;|Center for Information Technology, U.S. National Institutes of Health, USA;|Institute of Epidemiology II, Helmholtz Zentrum Munchen, Neuherberg, Germany;|Department of Public Health, Faculty of Medicine, University of Split, Split, Croatia;|Institute for Biomedicine, Affiliated Institute of the University of Lbeck, Bolzano, Italy;|Center for Information Technology, U.S. National Institutes of Health, U.S.A.;|Department of Clinical & Nuclear Medicine, Turku University Hospital, Turku, Finland;|Institute of Physiology, University Medicine Greifswald, Karlsburg, Germany;|Department of Biostatistics, University of Washington, Seattle, USA;|Division of Preventive Medicine, Brigham and Women's Hospital, Boston, USA;|Institute for Maternal & Child Health IRCCS Burlo Garofolo, Trieste, Italy;|LABioMed at Harbor-UCLA Medical Center, Torrance, USA;|Usher Institute of Population Health Sciences & Informatics, Univ. of Edinburgh;|Institute of Genetics & Biophysics;|Institute of Molecular Biology & Biochemistry, Medical University of Graz, Austria;|Dept. of Public Health Solutions, National Institute for Health and Welfare, Helsinki;|Department of Neurology, Medical University of Graz, Auenbrugg, Austria;|The New York Academy of Medicine, New York, USA;|Dept. of Epidemiology, University Medical Center Groningen, the Netherlands;|Institute of Biomedicine & Translational Medicine, University of Tartu, Tartu;|Centre for Cognitive Ageing & Cognitive Epidemiology, University of Edinburgh;|Institute of Cardiovascular and Medical Sciences, University of Glasgow, UK;|Population Health Research Institute, St George's, University of London, UK;|Cardiovascular Medicine Unit, Department of Medicine Solna, Karolinska Institutet;|Dept. of Medical Sciences, Cardiovascular Epidemiology, Uppsala University;|Department of Genetics, University Medical Center Groningen, the Netherlands;|LABioMed at Harbor-UCLA Medical Center;|Institute for Community Medicine, University Medicine Greifswald, Germany;|Department of Cardiology, Leiden University Medical Center, The Netherlands;|Dasman Diabetes Institute, Dasman, Kuwait;|INSERM U 1219, Bordeaux Population Health Center, Bordeaux, France;|Department of Epidemiology, Erasmus MC, Rotterdam, the Netherlands;|Department of Epidemiology, University Medical Center Groningen, The Netherlands;|Department of Epidemiology, University Medical Center Groningen, Netherlands;|Genetic Epidemiology Unit, Department of Epidemiology, Erasmus MC, Rotterdam;|Interfaculty Inst. for Genetics & Functional Genomics, Univ. Medicine Greifswald;|Department of Internal Medicine, University Hospital, CHUV, Lausanne, Switzerland;|Experimental Genetics Division, Sidra Medical and Research Center, Doha, Qatar;|Radcliffe Department of Medicine, University of Oxford, Oxford, UK;|Usher Institute of Population Health Sciences & Informatics, University of Edinburgh;|Dept. of Biological Psychiatry, VU Univ. Medical Center, Amsterdam;|Usher Institute of Population Health Sciences and Informatics, Univ. of Edinburgh;|MRC Human Genetics Unit, IGMM, Univ. of Edinburgh, Western General Hospital;|LABioMed at UCLA MeicalCenter, Torrance, USA;|Department of Biology, Faculty of Medicine, University of Split, Split, Croatia;|Department of Cardiology, Ealing Hospital, Middlesex, UK;|Hunter Medical Res. Inst. & Faculty of Health, Univ. of Newcastle, NSW, Australia;|MRC/BHF Cardiovascular Epidemiology Unit, University of Cambridge;|Division of Cardiology, University Hospital, Basel, Switzerland;|Department of Biomedical Sciences, University of Sassari, Sassari, Italy;|MRC/BHF Cardiovascular Epidemiology Unit, University of Cambridge, UK;|Inst. of Clinical Medicine, Univ. of Eastern Finland and Kuopio University, Finland;|Laboratory of Cardiovascular Science, NIA/NIH, Baltimore, USA;|MRC Epidemiology Unit, University of Cambridge School of Clinical Medicine;|Department of Clinical Sciences, Malmo, Lund University, Malmo, Sweden;|Dept. of Clinical Epidemiology, Leiden University Medical Center, The Netherlands;|Division of Molecular and Clinical Medicine, School of Medicine, Univ. of Dundee;|Labormedizinisches Zentrum Dr. Risch, Schaan, Liechtenstein;|MRC Epidemiology Unit, Univ. of Cambridge School of Clinical Medicine;|National Heart and Lung Institute, Imperial College London, London, UK;|Department of Twin Research and Genetic Epidemiology, King's College London;|Department of Cardiology, University Medical Center Groningen, The Netherlands;|Wellcome Trust Sanger Institute, Hinxton, UK;|Nashville VA (TVHS) & Vanderbilt University, USA;|Brigham and Women's Hospital, Harvard Medical School, Boston, USA;|Div. of Epidemiology, Inst. for Medicine & Public Health, Vanderbilt Univ.;|Dept. of Medicine, Epidemiology & Health Services, Univ. of Washington, Seattle
http://dx.doi.org/10.1101/201640 2017-10-11 CC BY-NC-ND Evolving better RNAfold C source code W B Langdon University College London
http://dx.doi.org/10.1101/201863 2017-10-11 CC BY-NC-ND The Opportunity Cost of Time Modulates Cognitive Effort A. Ross Otto|Nathaniel Daw McGill University;|Princeton University
http://dx.doi.org/10.1101/201905 2017-10-11 CC BY-NC-ND Geometric Classification of Brain Network Dynamics via Donic Derivative Discriminants Matthew F Singh|Todd Braver|ShiNung Ching Washington University in St. Louis
http://dx.doi.org/10.1101/201822 2017-10-11 Moderate-Throughput Identification and Comparison of Campylobacter-Infecting Bacteriophages Tylor J Johnson|Janette M Shank|Kishen M Patel|Maribel D Paredes|Esther D Lee|Mary K Mitchell|Thomas G Denes|Jeremiah G Johnson University of Tennessee
http://dx.doi.org/10.1101/201764 2017-10-11 CC BY Deep convolutional models improve predictions of macaque V1 responses to natural images Santiago A Cadena|George H Denfield|Edgar Y Walker|Leon A Gatys|Andreas S Tolias|Matthias Bethge|Alexander S Ecker University of Tübingen, Germany;|Baylor College of Medicine, Houston, TX
http://dx.doi.org/10.1101/201715 2017-10-11 CC BY-NC-ND Parental allele-specific genome architecture and transcription during the cell cycle Haiming Chen|Sijia Liu|Laura Seaman|Cyrus Najarian|Weisheng Wu|Mats Ljungman|Gerald Higgins|Alfred Hero|Max Wicha|Indika Rajapakse University of Michigan
http://dx.doi.org/10.1101/201723 2017-10-11 Asymmetric migration decreases stability but increases resilience in a heterogeneous metacommunity Anurag Limdi|Alfonso Perez-Escudero|Aming Li|Jeff Gore Massachusetts Institute of Technology;|Northeastern University
http://dx.doi.org/10.1101/201517 2017-10-11 Genomics CC BY Accurate design of translational output by a neural network model of ribosome distribution Robert J Tunney|Nicholas J McGlincy|Monica E Graham|Nicki Naddaf|Lior Pachter|Liana Lareau University of California, Berkeley;|California Institute of Technology
http://dx.doi.org/10.1101/201319 2017-10-11 Physiology CC BY-NC-ND The converse effects of speed and gravity on the energetics of walking and running S Javad Hasaneini|Ryan T Schroeder|John EA Bertram|Andy Ruina Cornell University;|University of Calgary
http://dx.doi.org/10.1101/201350 2017-10-11 Plant Biology CC BY-NC-ND Identification and characterization of Gypsophila paniculata color morphs in Sleeping Bear Dunes National Lakeshore, MI, USA. Marisa L Yang|Emma Rice|Hailee Leimbach-Mas|Charlyn G Partridge University of California, Berkeley;|Grand Valley State University
http://dx.doi.org/10.1101/201376 2017-10-11 Evolutionary Biology CC BY-NC Dissecting the basis of novel trait evolution in a radiation with widespread phylogenetic discordance Meng Wu|Jamie L Kostyun|Matthew W. Hahn|Leonie Moyle Indiana University, Bloomington;|Indiana University
http://dx.doi.org/10.1101/201442 2017-10-11 Bioinformatics CC BY InfoTrim: A DNA Read Quality Trimmer Using Entropy Jacob Porter|Liqing Zhang Virginia Tech
http://dx.doi.org/10.1101/201434 2017-10-11 Microbiology CC BY-NC-ND Comprehensive skin microbiome analysis reveals the uniqueness of human-associated microbial communities among the class Mammalia Ashley Anne Ross|Kirsten Muller|J Scott Weese|Josh Neufeld University of Waterloo;|University of Guelph
http://dx.doi.org/10.1101/201392 2017-10-11 Evolutionary Biology Gene duplicates cause hybrid lethality between sympatric species of Mimulus Matthew Zuellig|Andrea L Sweigart University of Georgia
http://dx.doi.org/10.1101/199166 2017-10-11 Cell Biology CC BY Stable centrosomal roots disentangle to allow interphase centriole independence Robert Mahen Imperial College London
http://dx.doi.org/10.1101/201459 2017-10-11 Genomics Tandem repeats contribute to coding sequence variation in bumblebees (Hymenoptera: Apidae) Xiaomeng Zhao|Long Su|Sarah Schaack|Cheng Sun Institute of Apicultural Research, Chinese Academy of Agricultural Sciences;|Reed College, Department of Biology
http://dx.doi.org/10.1101/201004 2017-10-11 Molecular Biology CC BY Actin and Src-family kinases regulate nuclear YAP1 and its export Nil Ege|Anna M Dowbaj|Ming Jiang|Michael Howell|Robert P Jenkins|Erik Sahai Tumour Cell Biology Laboratory, The Francis Crick Institute, London, NW1 1AT, UK;|High throughput Screening, The Francis Crick Institute, London, NW1 1AT, UK
http://dx.doi.org/10.1101/201525 2017-10-11 Microbiology IFITM proteins inhibit HIV-1 protein synthesis Wing Yiu Lee|Chen Liang|Richard Sloan Queen Mary University of London;|McGill University AIDS Centre, Lady Davis Institute;|University of Edinburgh
http://dx.doi.org/10.1101/201400 2017-10-12 Epidemiology Antenatal Screening for Group B Streptococcus in the Setting of Preterm Premature Rupture of Membranes: Empiric versus Culture-based Prophylaxis Leena B. Mithal|Nirali Shah|Anna Romanova|Emily S. Miller Northwestern University Feinberg School of Medicine
http://dx.doi.org/10.1101/201939 2017-10-12 Animal Behavior and Cognition CC BY-NC-ND Memory Guides the Comprehension of Event Changes for Older and Younger Adults Chris Wahlheim|Jeff Zacks University of North Carolina at Greensboro;|Washington University in St. Louis
http://dx.doi.org/10.1101/202770 2017-10-13 Cancer Biology CC BY-NC-ND Thermal proteome profiling of breast cancer cells reveals proteasomal activation by CDK4/6 inhibitor palbociclib Teemu P. Miettinen|Julien Peltier|Anetta Hartlova|Marek Gierlinski|Valerie M. Jansen|Matthias Trost|Mikael Bjorklund Division of Cell and Developmental Biology, University of Dundee, Dundee, UK;|Institute for Cell and Molecular Biosciences, Newcastle University, Newcastle upon Tyne, UK;|Division of Computational Biology, University of Dundee, Dundee, UK;|Division of Hematology-Oncology, Vanderbilt University Medical Center, Nashville, USA
http://dx.doi.org/10.1101/202705 2017-10-13 Cell Biology CC BY Contact inhibitory Eph signalling decouples EGFR activity from vesicular recycling to generate contextual plasticity Wayne Stallaert|Ola Sabet|Yannick Bruggemann|Lisa Baak|Philippe Bastiaens Max Planck Institute of Molecular Physiology
http://dx.doi.org/10.1101/202895 2017-10-13 Cell Biology TPXL-1 Activates Aurora A to Clear Contractile Ring Components from the Polar Cortex During Cytokinesis Sriyash Mangal|Jennifer Sacher|Taekyung Kim|Daniel Sampaio Osorio|Fumio Motegi|Ana Xavier Carvalho|Karen Oegema|Esther Zanin Center for Integrated Protein Science CIPSM, Department Biology II, Ludwig-Maximilians University;|Department of Cellular and Molecular Medicine, Ludwig Institute for Cancer Research, UCSD;|Instituto de Biologia Molecular e Celular, Universidade do Porto;|Research Link, National University of Singapore
http://dx.doi.org/10.1101/202820 2017-10-13 Biochemistry CC BY Extensive non-canonical phosphorylation in human cells revealed using strong-anion exchange-mediated phosphoproteomics Gemma Hardman|Simon Perkins|Zheng Ruan|Natarajan Kannan|Philip Brownridge|Dominic P Byrne|Patrick A Eyers|Andrew R Jones|Claire E Eyers University of Liverpool;|University of Georgia
http://dx.doi.org/10.1101/200113 2017-10-13 Genetics CC BY Haplotype sharing provides insights into fine-scale population history and disease in Finland Alicia R Martin|Konrad J Karczewski|Sini Kerminen|Mitja Kurki|Antti-Pekka Sarin|Mykyta Artomov|Johan G Eriksson|Tonu Esko|Giulio Genovese|Aki S Havulinna|Jaako Kaprio|Alexandra Konradi|Laszlo Koranyi|Anna Kostareva|Minna Mannikko|Andres Metspalu|Markus Perola|Rashmi B Prasad|Olli Raitakari|Oxana Rotar|Veikko Salomaa|Leif Groop|Aarno Palotie|Benjamin M Neale|Samuli Ripatti|Matti Pirinen|Mark J Daly Massachusetts General Hospital;|Institute for Molecular Medicine Finland (FIMM);|National Institute for Health and Welfare of Finland (THL);|Estonian Genome Center;|Broad Institute;|Almazov National Medical Research Centre, Saint Petersburg, Russia;|Heart Center Foundation, DRC, Balatonfured, Hungary;|Center for Life Course Health Research, Faculty of Medicine, University of Oulu, Oulu, Finland;|Lund University Diabetes Centre;|Turku University Hospital
http://dx.doi.org/10.1101/200758 2017-10-13 Bioinformatics CC BY A Deep Recurrent Neural Network Discovers Complex Biological Rules to Decipher RNA Protein-Coding Potential Steven T Hill|Rachael C Kuintzle|Amy Teegarden|Erich Merrill|Padideh Danaee|David A Hendrix Oregon State University, now at NY Genome Center;|Oregon State University, now at California Institute of Technology;|Oregon State University
http://dx.doi.org/10.1101/200139 2017-10-13 Genetics CC BY An Unexpectedly Complex Architecture for Skin Pigmentation in Africans Alicia R Martin|Meng Lin|Julie M Granka|Justin W Myrick|Xiaomin Liu|Alexandra Sockell|Elizabeth G Atkinson|Cedric J Werely|Marlo Moller|Manjinder S Sandhu|David M Kingsley|Eileen G Hoal|Xiao Liu|Mark J Daly|Marcus W Feldman|Christopher R Gignoux|Carlos D Bustamante|Brenna M Henn Massachusetts General Hospital;|Department of Ecology and Evolution, SUNY Stony Brook, NY 11794;|Department of Biological Sciences, Stanford University, Stanford, CA, 94305;|BGI-Shenzhen, Shenzhen, China;|Department of Genetics, Stanford University, Stanford, CA, 94305;|Stellenbosch University, Tygerberg, South Africa;|Wellcome Trust Sanger Institute, Genome Campus, Hinxton, England;|Department of Developmental Biology, Stanford University, Stanford, California, USA
http://dx.doi.org/10.1101/201632 2017-10-13 Ecology CC BY-NC-ND Fitting functional responses: Direct parameter estimation by simulating differential equations Benjamin Rosenbaum|Bjoern C. Rall German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig
http://dx.doi.org/10.1101/202119 2017-10-13 Evolutionary Biology CC BY-NC-ND A taxogenomics approach uncovers a new genus in the phylum Placozoa Michael Eitel|Warren Francis|Hans-Jurgen Osigus|Stefan Krebs|Sergio Vargas|Helmut Blum|Gray Argust Williams|Bernd Schierwater|Gert Worheide LMU Muenchen;|University of South Denmark;|ITZ Hannover;|University of Hong Kong
http://dx.doi.org/10.1101/201483 2017-10-13 Genetics CC BY-NC-ND Contrasting maternal and paternal genetic variation of hunter-gatherer groups in Thailand Wibhu Kutanan|Jatupol Kampuansai|Piya Changmai|Pavel Flegontov|Roland Schroeder|Enrico Macholdt|Alexander Huebner|Daoroong Kangwanpong|Mark Stoneking Khon Kaen University, Thailand; Max Planck Institute for Evolutionary Anthropology, Germany;|Chiang Mai University, Thailand;|University of Ostrava, Czech Republic;|University of Ostrava/Czech Academy of Sciences, Czech Republic;|Max Planck Institute for Evolutionary Anthropology, Germany
http://dx.doi.org/10.1101/135780 2017-10-13 Evolutionary Biology CC BY-NC Evolutionary Rescue Over A Fitness Landscape Yoann Anciaux|Luis-Miguel Chevin|Ophelie Ronce|Guillaume Martin ISEM CNRS UMR 5554;|CNRS CEFE
http://dx.doi.org/10.1101/202010 2017-10-12 Cell Biology Efficient genome editing in primary cells and in vivo using viral-derived "Nanoblades" loaded with Cas9/sgRNA ribonucleoproteins Philippe E. Mangeot|Valerie Rissons|Floriane Fusil|Aline Marnef|Emilie Laurent|Juliana Blin|Virginie Mournetas|Emmanuelle Massourides|Thibault J. M. Sohier|Antoine Corbin|Fabien Aube|Christian Pinset|Laurent Schaeffer|Gaelle Legube|Francois-Loic Cosset|Els Verhoeyen|Theophile Ohlmann|Emiliano P. Ricci Intl. Center for Infectiology Research, Inserm, U1111, Univ. Claude Bernard Lyon;|Inst. NeuroMyoGene, CNRS 5310, INSERM U121, Faculte de Medecine Lyon Est;|LBCMCP, Centre de Biologie Integrative, CNRS, Univ. de Toulouse;|I-STEM/CECS, Inserm UMR861;|Lab. of Biology & Modelling of the Cell, Univ. Lyon; Univ. Claude Bernard, CNRS
http://dx.doi.org/10.1101/201996 2017-10-12 Biochemistry CC BY-NC-ND Sequence, Structure and Context Preferences of Human RNA Binding Proteins Daniel Dominguez|Peter Freese|Maria S. Alexis|Amanda Su|Myles Hochman|Tsultrim Palden|Cassandra Bazile|Nicole J. Lambert|Eric L. Van Nostrand|Gabriel A. Pratt|Gene W. Yeo|Brenton Graveley|Christopher B. Burge MIT;|UCSD;|UConn Health
http://dx.doi.org/10.1101/202028 2017-10-12 Biophysics CC BY-NC-ND Evaluation of variability in human protein X-ray structures Risa Anzai|Yoshiki Asami|Waka Inoue|Hina Ueno|Koya Yamada|Tetsuji Okada Gakushuin University
http://dx.doi.org/10.1101/201962 2017-10-12 Neuroscience A mathematical and computational model of the calcium dynamics in Caenorhabditis elegans ASH sensory neuron Ehsan Mirzakhalili|Bogdan Epureanu|Eleni Gourgou University of Michigan
http://dx.doi.org/10.1101/202283 2017-10-12 Animal Behavior and Cognition Anxiety-like but not despair-like behaviors are further aggravated by chronic mild stress in the early stages of APPswe/PS1dE9 transgenic mice Jun-Ying Gao|Ying Chen|Dong-Yuan Su|Charles Marshall|Ming Xiao Nanjing Medical University;|University of Kentucky
http://dx.doi.org/10.1101/202077 2017-10-12 Bioinformatics CC BY Identifying accurate metagenome and amplicon software via a meta-analysis of benchmarking studies Paul P. Gardner|Renee J. Watson|Xochitl C. Morgan|Jenny L. Draper|Robert D. Finn|Sergio E. Morales|Matthew B. Stott University of Canterbury;|University of Otago;|Institute of Environmental Science and Research;|European Molecular Biology Laboratory, European Bioinformatics Institute
http://dx.doi.org/10.1101/202275 2017-10-12 Immunology CC BY-ND The Effect of Targeted Vaccination Against Mycobacterium Avium ssp. Paratuberculosis (MAP) in a Multiple Sclerosis Mouse Model: Implications for Causation Michael Warmoth Spectrum Health
http://dx.doi.org/10.1101/202143 2017-10-12 Neuroscience Theta phase coordinated memory reactivation reoccurs in a slow-oscillatory rhythm during NREM sleep Thomas Schreiner|Christian F. Doeller|Ole Jensen|Bjorn Rasch|Tobias Staudigl Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen;|Kavli Institute for Systems Neuroscience, Centre for Neural Computation, Trondheim;|Centre for Human Brain Health, School of Psychology, University of Birmingham, UK;|Department of Psychology, University of Fribourg, Fribourg, Switzerland
http://dx.doi.org/10.1101/202382 2017-10-12 Neuroscience CC BY-ND The language of music: Common neural codes for structured sequences in music and natural language Jeffrey N. Chiang|Matthew H. Rosenberg|Carolyn A. Bufford|Daniel Stephens|Antonio Lysy|Martin M. Monti UCLA
http://dx.doi.org/10.1101/202358 2017-10-12 Microbiology CC BY-NC-ND Two SecA/SecY Systems with Distinct Roles in the Ecological Adaptations of Bacteria Xiaowei Jiang|Mario A. Fares Trinity College, Dublin
http://dx.doi.org/10.1101/202341 2017-10-12 Synthetic Biology CC BY A cell-free synthetic biochemistry platform for raspberry ketone production Simon J Moore|Tommaso Tosi|Yonek B Hleba|David Bell|Karen Polizzi|Paul Freemont Imperial College London
http://dx.doi.org/10.1101/202259 2017-10-12 Synthetic Biology Spatially organizing biochemistry: choosing a strategy to translate synthetic biology to the factory Christopher Jakobson|Danielle Tullman-Ercek|Niall Mangan Stanford University School of Medicine;|Northwestern University, United States
http://dx.doi.org/10.1101/202200 2017-10-12 Bioinformatics CC BY-NC-ND The optimization of mRNA expression level by its intrinsic properties — insights from codon usage pattern and structural stability of mRNA Manish Prakash Victor|Debarun Acharya|Tina Begum|Tapash Chandra Ghosh Bose Institute;|University of Lausanne
http://dx.doi.org/10.1101/202374 2017-10-12 Neuroscience CC BY Phase-tuned neuronal firing encodes human contextual representations for navigational goals Andrew J. Watrous|Jonathan Miller|Salman E. Qasim|Itzhak Fried|Joshua Jacobs Columbia University;|University of California, Los Angeles
http://dx.doi.org/10.1101/202242 2017-10-12 Microbiology CC BY-NC-ND Potential for Methanosarcina to contribute to uranium reduction during acetate-promoted groundwater bioremediation Dawn E. Holmes|Roberto Orelana|Ludovic Giloteaux|Li-Ying Wang|Pravin Malla Shrestha|Kenneth Williams|Derek R. Lovley|Amelia-Elena Rotaru Department of Physical & Biological Sciences, Western New England University;|Department of Microbiology, University of Massachusetts Amherst, Amherst, MA;|Department of Molecular Biology and Genetics, Cornell University, Ithaca, New York;|Energy Biosciences Institute, University of California Berkeley, Berkeley, CA;|Lawrence Berkeley National Laboratory, Berkeley, CA;|Department of Biology, University of Southern Denmark, Odense, Denmark
http://dx.doi.org/10.1101/202473 2017-10-12 Cell Biology Control of Mast Cell Regulated Exocytosis by Munc13 Proteins Elsa M. Rodarte|Marco A. Ramos|Alfredo J. Davalos|Daniel C. Moreira|David Sebastian Moreno|Eduardo Israel Cardenas|Alejandro Isaac Rodarte|Youlia Petrova|Sofia Molina|Luis E. Rendon|Elizabeth Sanchez|Keegan Breaux|Alejandro Tortoriello|John Manllo|Erika A. Gonzalez|Michael J. Tuvim|Burton F. Dickey|Alan R. Burns|Ruth Heidelberger|Roberto Adachi The University of Texas Health Science Center at Houston;|The University of Texas MD Anderson Cancer Center;|Tecnologico de Monterrey, Escuela de Medicina y Ciencias de la Salud;|University of Houston
http://dx.doi.org/10.1101/202226 2017-10-12 Systems Biology CC BY Functional pathways for metabolic network-based data analysis: the MetPath algorithm Gianluca Mattei|Daniel C. Zielinski|Zhuohui Gan|Matteo Ramazzotti|Bernhard O. Palsson University of Florence;|University of California, San Diego
http://dx.doi.org/10.1101/202184 2017-10-12 Biophysics CC BY-NC-ND Identification and functional analyses of cardiolipin binding sites on the bacterial Sec translocase Robin Adam Corey|Euan Pyle|William John Allen|Bruno Miroux|Ignacio Arechaga|Argyris Politis|Ian Collinson University of Bristol;|King's College London, Imperial College London;|Institut de Biologie Physico-Chimique;|Universidad de Cantabria;|King's College London
http://dx.doi.org/10.1101/202416 2017-10-12 Bioinformatics CC BY-NC-ND Revising transcriptome assemblies with phylogenetic information in Agalma1.0 August Guang|Mark Howison|Felipe Zapata|Charles E. Lawrence|Casey Dunn Brown University;|University of California Los Angeles;|Yale University
http://dx.doi.org/10.1101/202150 2017-10-12 Biophysics ATP-induced asymmetric pre-protein folding: a potential driver of protein translocation? Robin Adam Corey|William John Allen|Ian Collinson University of Bristol
http://dx.doi.org/10.1101/202424 2017-10-12 Neuroscience Across-subjects classification of stimulus modality from human MEG high frequency activity Britta U. Westner|Sarang S. Dalal|Simon Hanslmayr|Tobias Staudigl University of Konstanz;|Aarhus University;|University of Birmingham;|Donders Centre for Cognitive Neuroimaging
http://dx.doi.org/10.1101/202291 2017-10-12 Cancer Biology Identification of potential blood-derived extracellular vesicles biomarkers to diagnose and predict distant metastases in ER+ breast cancer patients Zia Hamidi|Eduardo Tejero|Ronny Schmidt|Rod Tucker|Ana Pedro Ana Pedro Laboratories, Ltd.;|Sciomics GmbH
http://dx.doi.org/10.1101/202432 2017-10-12 Biophysics Authentic Enzyme Intermediates Captured "on-the-fly" by Mix-and-Inject Serial Crystallography Jose Olmos|Suraj Pandey|Jose M. Martin-Garcia|George Calvey|Andrea Katz|Juray Knoska|Christopher Kupitz|Mark S. Hunter|Mengning Liang|Dominik Oberthuer|Oleksandr Yefanov|Max Wiedorn|Michael Heymann|Mark Holl|Kanupriya Pande|Anton Barty|Mitchell D. Miller|Stephan Stern|Shatabdi Roy-Chowdhury|Jesse D. Coe|Nirupa Nagaratnam|James Zook|Tyler Norwood|Ishwor Poudyal|David Xu|Jason Koglin|Matt Seaberg|Yun Zhao|Sasa Bajt|Thomas Grant|Valerio Mariani|Garrett Nelson|Ganesh Subramanian|Euiyoung Bae|Raimund Fromme|Russel Fung|Peter Schwander|Matthias Frank|Thomas White|Uwe Weierstall|Nadia Zatsepin|John Spence|Petra Fromme|Henry N. Chapman|Lois Pollack|Lee Tremblay|Abbas Ourmazd|George N. Phillips|Marius Schmidt Rice University;|University of Wisconsin-Milwaukee;|Arizona State University;|Cornell University;|Center for Free Electron Laser Science;|Stanford Linear Accelerator Center;|Max Planck Institut fuer Biochemie;|Lawrence Berkeley National Laboratory;|Deutsches Elektronen Synchrotron;|Hauptmann Woodward Institute, University of Buffalo;|Seoul National University;|Lawrence Livermore National Laboratory;|4Marbles Inc.
http://dx.doi.org/10.1101/202069 2017-10-12 Bioengineering Restoration longevity among geriatric and adult special needs patients Daniel J. Caplan|Yan Li|Wenjie Wang|Sangwook Kang|Leonardo Marchini|Howard Cowen|Jun Yan University of Iowa;|University of Connecticut;|Yonsei University
http://dx.doi.org/10.1101/202176 2017-10-12 Neuroscience CC BY-NC-ND Alpha Oscillatory Activity Prior to Encoding Modulates Memory Consolidation during Wake but not Sleep Zachariah R. Cross|Amanda Santamaria|Andrew W. Corcoran|Phillip M. Alday|Scott Coussens|Mark J. Kohler Centre for Cognitive and Systems Neuroscience, University of South Australia;|Cognition and Philosophy Laboratory, Monash University;|Max Planck Institute for Psycholinguistics
http://dx.doi.org/10.1101/199034 2017-10-12 Biophysics Molecular structure of human KATP in complex with ATP and ADP Kenneth Lee|Jue Chen|Roderick MacKinnon The Rockefeller University
http://dx.doi.org/10.1101/201970 2017-10-12 Cell Biology CC BY-NC-ND Single cell transcriptional profiling reveals cellular diversity, communication, and sexual dimorphism in the mouse heart Daniel A. Skelly|Galen T. Squiers|Micheal A. McLellan|Mohan T. Bolisetty|Paul Robson|Nadia Rosenthal|Alexander R. Pinto The Jackson Laboratory
http://dx.doi.org/10.1101/198416 2017-10-12 Molecular Biology CC BY Detection of functional protein domains by unbiased genome-wide forward genetic screening Mareike Herzog|Fabio Puddu|Julia Coates|Nicola J Geisler|Josep V Forment|Stephen P Jackson The Wellcome/CRUK Gurdon Institute and Department of Biochemistry, University of Cambridge, UK
http://dx.doi.org/10.1101/202036 2017-10-12 Molecular Biology CC BY-NC-ND LIN28 selectively modulates a subclass of let-7 microRNAs Dmytro Ustianenko|Hua-Sheng Chiu|Sebastien M. Weyn-Vanhentenryck|Pavel Sumazin|Chaolin Zhang Columbia University;|Baylor College of Medicine
http://dx.doi.org/10.1101/202390 2017-10-12 Cell Biology CC BY-NC-ND Ki-67 and condensins support the integrity of mitotic chromosomes through distinct mechanisms Masatoshi Takagi|Takao Ono|Toyoaki Natsume|Chiyomi Sakamoto|Mitsuyoshi Nakao|Noriko Saitoh|Masato T. Kanemaki|Tatsuya Hirano|Naoko Imamoto RIKEN;|NIG;|IMEG, Kumamoto University;|The Cancer Institute of JFCR
http://dx.doi.org/10.1101/203059 2017-10-13 CC BY-NC-ND Plasmodium falciparum infection during pregnancy impairs fetal head growth: prospective and populational-based retrospective studies Jamille G. Dombrowski|Rodrigo M. Souza|Flavia A. Lima|Carla L. Bandeira|Oscar Murillo|Douglas S. Costa|Erika P. M. Peixoto|Marielton P. Cunha|Paolo M.A. Zanotto|Estela Bevilacqua|Marcos A.G. Grisotto|Antonio C.P. Lima|Julio M. Singer|Susana Campino|Taane G. Clark|Sabrina Epiphanio|Ligia A. Goncalves|Claudio R.F. Marinho Department of Parasitology, Institute of Biomedical Sciences, University of Sao Paulo, Brazil;|Department of Microbiology, Institute of Biomedical Sciences, University of Sao Paulo, Brazil;|Dept. of Cell and Developmental Biology, Institute of Biomedical Sciences, University of Sao Paulo,;|CEUMA University, Maranhao, Brazil;|Department of Statistics, Institute of Mathematics and Statistics, University of Sao Paulo, Brazil;|Faculty of Infectious and Tropical Diseases, London School of Hygiene & Tropical Medicine, UK;|Faculty of Epidemiology and Population Health, London School of Hygiene & Tropical Medicine, UK;|Dept. of Clinical and Toxicological Analyses, School of Pharmaceutical Sciences, University of Sao P
http://dx.doi.org/10.1101/202879 2017-10-13 CC BY-NC-ND The Genetic Chain Rule for Probabilistic Kinship Estimation Brian S Helfer|Philip Fremont-Smith|Darrell O Ricke MIT Lincoln Laboratory
http://dx.doi.org/10.1101/202366 2017-10-13 CC BY-NC Morphogen dynamics control patterning in a stem cell model of the human embryo Idse Heemskerk|Kari Burt|Matthew Miller|Sapna Chabra|M. Cecilia Guerra|Aryeh Warmflash Rice University
http://dx.doi.org/10.1101/202648 2017-10-13 CC BY-NC-ND Towards a neuroscientific understanding of play: A neuropsychological coding framework for analysing infant-adult play patterns Dave Neale|Kaili Clackson|Stanimira Georgieva|Hatice Dedetas|Sam Wass|Victoria Leong University of Cambridge;|University of East London
http://dx.doi.org/10.1101/202986 2017-10-13 CC BY Cardio- and neurometabolic effects of lower-body pressure supported exercise in obese non-diabetic women: Resetting autonomic imbalance? Ellen M. Godwin|Anthony D. Uglialoro|Andaleeb Ali|Leah Yearwood|Mary Ann Banerji|John G. Kral Long Island University;|SUNY Downstate Medical Center
http://dx.doi.org/10.1101/198606 2017-10-13 6-OHDA-induced dopaminergic neurodegeneration in C. elegans is promoted by the engulfment pathway and inhibited by the transthyretin-related protein TTR-33 Sarah-Lena Offenburger|Xue Yan Ho|Theresa Tachie-Menson|Sean Coakley|Massimo A. Hilliard|Anton Gartner School of Life Sciences, University of Dundee;|Clem Jones Centre for Ageing Dementia Research, Queensland Brain Institute
http://dx.doi.org/10.1101/202317 2017-10-13 CC BY-NC GM-CSF negatively regulates early IL-10 mediated responses Ruud H. P. Wilbers|Lotte B. Westerhof|Debbie R. van Raaij|Geert Smant|Jaap Bakker|Arjen Schots Wageningen University & Research
http://dx.doi.org/10.1101/201897 2017-10-13 CC BY FACSanadu: Graphical user interface for rapid visualization and quantification of flow cytometry data Thomas R. Burglin|Johan Henriksson University of Basel, Dept. of Biomedicine;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/202440 2017-10-13 Coupling of Polo kinase activation to nuclear localization by a bifunctional NLS is required during mitotic entry. David Kachaner|Damien Garrido|Haytham Mehsen|Karine Normandin|Hugo Lavoie|Vincent Archambault IRIC - Universite de Montreal
http://dx.doi.org/10.1101/202218 2017-10-13 Strong homeostatic TCR signals induce formation of self-tolerant virtual memory CD8 T cells Ales Drobek|Alena Moudra|Daniel Mueller|Martina Huranova|Veronika Horkova|Michaela Pribikova|Robert Ivanek|Susanne Oberle|Dietmar Zehn|Kathy D. McCoy|Peter Draber|Ondrej Stepanek Institute of Molecular Genetics, Czech Academy of Sciences, Czech Republic;|Department of Biomedicine, University Hospital and University of Basel, Switzerland;|Sanofi Genzyme, Gulmmatt, 6340 Baar, Switzerland;|School of Life Sciences Weihenstephan, Technical University of Munich, Germany;|Cumming School of Medicine, University of Calgary, Alberta, Canada
http://dx.doi.org/10.1101/202481 2017-10-13 CC BY-NC-ND Modular environmental pleiotropy of genes involved in local adaptation to climate despite physical linkage Katie Lotterhos|Kathryn Hodgins|Sam Yeaman|Jon Degner|Sally Aitken Northeastern University;|School of Biological Sciences, Monash University, Wellington Rd, Clayton VIC 3800;|University of Calgary;|University of British Columbia
http://dx.doi.org/10.1101/202853 2017-10-13 CC BY Modified hCFTR mRNA restores normal lung function in a mouse model of cystic fibrosis A. K. M. Ashiqul Haque|Alexander Dewerth|Justin S. Antony|Joachim Riethmuller|Ngadhnjim Latifi|Hanzey Yasar|Petra Weinmann|Nicoletta Pedemonte|Elvira Sondo|Julie Laval|Patrick Schlegel|Christian Seitz|Brigitta Loretz|Claus-Michael Lehr|Rupert Handgretinger|Michael S. D. Kormann University of Tübingen;|Helmholtz Institute for Pharmaceutical Research Saarland (HIPS);|Istituto Giannina Gaslini;|Saarland University
http://dx.doi.org/10.1101/202499 2017-10-13 Four new induced pluripotent stem cell lines produced from northern white rhinoceros with non-integrating reprogramming factors Marisa L. Korody|Cullen Pivaroff|Thomas D. Nguyen|Suzanne E. Peterson|Oliver A. Ryder|Jeanne F. Loring San Diego Zoo Institute for Conservation Research, Escondido CA 92026 USA;|Department of Molecular Medicine, The Scripps Research Institute, La Jolla CA
http://dx.doi.org/10.1101/202515 2017-10-13 CC BY-NC-ND Shared High Value Research Resources: The CamCAN Human Lifespan Neuroimaging Dataset Processed on the Open Science Grid Donald Krieger|Paul Shepard|Ben Zusman|Anirban Jana|David O. Okonkwo University of Pittsburgh;|Pittsburgh Supercomputing Center
http://dx.doi.org/10.1101/202671 2017-10-13 CC BY-NC-ND The Smc5/6 complex belongs to a novel class of evolutionary-constrained restriction factors and is antagonized by all mammalian hepatitis B virus X proteins Fabien Filleton|Fabien Abdul|Laetitia Gerossier|Alexia Paturel|Janet Hall|Michel Strubin|Lucie Etienne CIRI, Centre International de Recherche en Infectiologie, Lyon, France;|Dept. of Microbiology & Molecular Medicine, Univ. Medical Centre; Univ. of Geneva;|CRCL
http://dx.doi.org/10.1101/202465 2017-10-13 CC BY Proteolytic control of centrosome activity by APC/C-Polo maintains oocyte fate in Drosophila Alexis L. Braun|Francesco Meghini|Gema Villa-Fombuena|Elisa M. Fernandez|Morgane Guermont|Maria D. Martin-Bermudo|Acaimo Gonzalez-Reyes|Yuu Kimata University of Cambridge;|Department of Cambridge, University of Cambridge, Cambridge, CB2 3EH, UK;|Ctr. Andaluz de Biologia del Desarrollo, CSIC; Univ. Pablo de Olavide
http://dx.doi.org/10.1101/202598 2017-10-13 An Mtb-Human Protein-Protein Interaction Map Reveals that Bacterial LpqN Antagonizes CBL, a Host Ubiquitin Ligase that Regulates the Balance Between Anti-Viral and Anti-Bacterial Responses Bennett H. Penn|Zoe Netter|Jeffery R. Johnson|Yamini M. Ohol|Cyrus Maher|Samantha L. Bell|John Von Dollen|Xiaotang Du|Alex Choi|Kristina Geiger|Trevor Parry|Mayumi Naramura|Gwendolyn M. Jang|Tasha Johnson|Chen Chen|Stefanie Jaeger|Michael Shales|Dan A. Portnoy|Ryan Hernandez|Laurent Coscoy|Nevan J. Krogan|Jeffery Cox University of California Davis;|University of California Berkeley;|University of California San Francisco;|University of Nebraska
http://dx.doi.org/10.1101/202580 2017-10-13 CC BY-NC-ND A unified computational framework for modeling genome-wide nucleosome landscape Hu Jin|Alex I. Finnegan|Jun S. Song University of Illinois, Urbana-Champaign
http://dx.doi.org/10.1101/202689 2017-10-13 CC BY Temporally discontinuous engagement of the vmPFC in remote memory retrieval Daniel N. Barry|Martin J. Chadwick|Eleanor A. Maguire University College London
http://dx.doi.org/10.1101/203067 2017-10-13 Mutations in C. elegans neuroligin-like glit-1, the apoptosis pathway and the calcium chaperone crt-1 increase dopaminergic neurodegeneration after 6-OHDA treatment Sarah-Lena Offenburger|Elisabeth Jongsma|Anton Gartner CRG Barcelona;|School of Life Sciences, University of Dundee
http://dx.doi.org/10.1101/203000 2017-10-13 CC BY-NC-ND The Antiviral and Cancer Genomic DNA Deaminase APOBEC3H Is Regulated by a RNA-Mediated Dimerization Mechanism Reuben Harris|Nadine Shaban|Ke Shi|Kate Lauer|Michael Carpenter|Christopher Richards|Michael Lopresti|Daniel Salamango|Jiayi Wang|Surajit Banerjee|William Brown|Hideki Aihara University of Minnesota;|Cornell University
http://dx.doi.org/10.1101/202531 2017-10-13 Passenger mutations can accelerate tumor suppressor gene inactivation in cancer evolution Dominik Wodarz|Alan Newell|Natalia Komarova University of California, Irvine;|University of Arizona
http://dx.doi.org/10.1101/201343 2017-10-13 CC BY-NC-ND Rapid genome sequencing for outbreak analysis of the emerging human fungal pathogen Candida auris Johanna Rhodes|Alireza Abdolrasouli|Rhys A Farrer|Christina A Cuomo|David M Aanensen|Darius Armstrong-James|Matthew C Fisher|Silke Schelenz Imperial College London;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/202630 2017-10-13 CC BY-NC Working memory and reasoning tasks are associated with different modes of large-scale brain dynamics in healthy older adults Alexander V. Lebedev|Jonna Nilsson|Martin Lovden Aging Research Center, Karolinska Institutet and Stockholm University
http://dx.doi.org/10.1101/202606 2017-10-13 CC BY-NC Simulating human sleep spindle MEG and EEG from ion channel and circuit level dynamics Burke Q. Rosen|Giri Krishnan|Pavel Sanda|Maxim Komarov|Terrence Sejnowski|Nikolai Rulkov|Maxim Bazhenov|Eric Halgren University of California, San Diego;|The Salk Institute
http://dx.doi.org/10.1101/202903 2017-10-13 CC BY Addressing confounding artifacts in reconstruction of gene co-expression networks Princy Parsana|Claire Ruberman|Andrew E. Jaffe|Michael C. Schatz|Alexis Battle|Jeffery T. Leek Department of Computer Science, Johns Hopkins University, Baltimore, MD, USA;|Dept. of Biostatistics, Johns Hopkins Bloomberg School of Public Health;|Lieber Institute for Brain Development, Johns Hopkins Medical Campus;|Department of Biostatistics, Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/202978 2017-10-13 CC BY-NC-ND Bird songs on the shelf: assessing vocal activity and output using data hidden in sound archives Oscar Laverde-R.|Paula Caycedo-Rosales|Paulo-C. Pulgarin-R.|Carlos Daniel Cadena Pontificia Universidad Javeriana;|Fundacion Biodiversa Colombia. Bogota, D. C.;|Universidad de los Andes
http://dx.doi.org/10.1101/202655 2017-10-13 CC BY-NC-ND Unsupervised detection of cell-assembly sequences with edit similarity score Keita Watanabe|Tatsuya Haga|David R. Euston|Masami Tatsuno|Tomoki Fukai The University of Tokyo & RIKEN Brain Science Institute;|RIKEN Brain Science Institute, Hirosawa 2-1, Wako, Saitama 351-0198, Japan;|Univ. Lethbridge, Lethbridge, AB, Canada
http://dx.doi.org/10.1101/202663 2017-10-13 CC BY-NC-ND Experimental infection of cattle with Mycobacterium tuberculosis isolates shows the attenuation of the human tubercle bacillus for cattle Bernardo Villarreal-Ramos|Stefan Berg|Adam Whelan|Sebastien Holbert|Florence Carreras|Francisco J. Salguero|Bhagwati Khatri|Kerri M. Malone|Kevin Rue-Albrecht|Ronan Shaughnessy|Alicia M. Smyth|Gobena Ameni|Abraham Aseffa|Pierre Sarradin|Nathalie Winter|Martin Vordermeier|Stephen V. Gordon Animal and Plant Health Agency, Weybridge, Surrey, UK;|Infectiologie et Sante Publique, INRA, Nouzilly, France;|Dept. of Pathology & Infectious Diseases, School of Veterinary Med., Univ. of Surrey;|UCD School of Veterinary Medicine, University College Dublin, Ireland;|Aklilu Lemma Institute of Pathobiology, Addis Ababa University, Ethiopia;|Armauer Hansen Research Institute, Addis Ababa, Ethiopia;|Plate-Forme d'Infectiologie Experimentale, Nouzilly, France
http://dx.doi.org/10.1101/202937 2017-10-13 CC BY Genomic Locus Modulating IOP in the BXD RI Mouse Strains Rebecca A King|Ying Li|Jiaxing Wang|Felix Struebing|Eldon Geisert Emory School of Medicine;|Emory University;|Emory Univeristy
http://dx.doi.org/10.1101/203034 2017-10-13 Action boosts episodic memory encoding in humans via engagement of a noradrenergic system. Mar Yebra|Ana Galarza-Vallejo|Vanesa Soto-Leon|Javier J Gonzalez-Rosa|Archy O de Berker|Sven Bestmann|Antonio Oliviero|Marijn CW Kroes|Bryan A Strange Laboratory for Clinical Neuroscience, Universidad Politecnica de Madrid;|Hospital Nacional de Paraplejicos, FENNSI Group, Toledo, Spain;|Laboratory for Clinical Neuroscience, Universidad Politecnica de Madrid.;|Sobell Department of Motor Neuroscience and Movement Disorders, UCL Institute of Neurology.;|Department of Psychology, and Center for Neural Science, New York University, New York, NY, USA.
http://dx.doi.org/10.1101/203042 2017-10-13 Heterogeneity in local density allows a positive evolutionary relationship between self-fertilisation and dispersal James G Rodger|Pietro Landi|Cang Hui Department of Mathematical Sciences, Stellenbosch University
http://dx.doi.org/10.1101/203158 2017-10-13 High-throughput single-cell DNA sequencing of AML tumors with droplet microfluidics Maurizio Pellegrino|Adam Sciambi|Sebastian Treusch|Kaustubh Gokhale|Jose Jacob|Tina X. Chen|William Oldham|Robert Durruthy-Durruthy|Jairo Matthews|Hagop Kantarjian|P. Andrew Futreal|Keith W. Jones|Koichi Takahashi|Dennis J. Eastburn Mission Bio, Inc.;|UT MD Anderson Cancer Center
http://dx.doi.org/10.1101/203018 2017-10-13 CC BY-NC-ND Paleo-Eskimo genetic legacy across North America Pavel Flegontov|Nefize Ezgi Altinisik|Piya Changmai|Nadin Rohland|Swapan Mallick|Deborah A. Bolnick|Francesca Candilio|Olga Flegontova|Choongwon Jeong|Thomas K. Harper|Denise Keating|Douglas J. Kennett|Alexander M. Kim|Thiseas C. Lamnidis|Inigo Olalde|Jennifer Raff|Robert A. Sattler|Pontus Skoglund|Edward J. Vajda|Sergey Vasilyev|Elizaveta Veselovskaya|M. Geoffrey Hayes|Dennis H. O'Rourke|Ron Pinhasi|Johannes Krause|David Reich|Stephan Schiffels Department of Biology and Ecology, Faculty of Science, University of Ostrava, Czech Republic;|Department of Genetics, Harvard Medical School, Boston, USA;|Department of Anthropology, University of Texas at Austin, Austin, USA;|Earth Institute and School of Archaeology, University College Dublin, Dublin, Ireland;|Institute of Parasitology, Czech Academy of Sciences, Ceske Budejovice, Czech Republic;|Department of Archaeogenetics, Max Planck Institute for the Science of Human History, Jena, Germany;|Department of Anthropology, Pennsylvania State University, University Park, USA;|Department of Anthropology, University of Kansas, Lawrence, USA;|Tanana Chiefs Conference, Fairbanks, USA;|Department of Modern and Classical Languages, Western Washington University, Bellingham, USA;|Institute of Ethnology and Anthropology, Russian Academy of Sciences, Moscow, Russia;|Feinberg School of Medicine, Northwestern University, Chicago, USA;|Department of Anthropology, University of Vienna, Vienna, Austria
http://dx.doi.org/10.1101/202994 2017-10-13 RECONSTITUTION OF HELICAL SOLUBLE α-SYNUCLEIN THROUGH TRANSIENT INTERACTION WITH LIPID INTERFACES Matteo Rovere|John B Sanderson|Luis Fonseca-Ornelas|Tim Bartels Ann Romney Center for Neurologic Diseases, Brigham and Women's Hospital and Harvard Medical School
http://dx.doi.org/10.1101/203083 2017-10-13 The correspondence problem: which brain maps are significantly similar? Aaron Alexander-Bloch|Simon N. Vandekar|Russell T. Shinohara|Siyuan Liu|Theodore D. Satterthwaite|David C. Glahn|Armin Raznahan Yale;|University of Pennsylvania;|National Institute of Mental Health, Intramural Program;|Yale University
http://dx.doi.org/10.1101/203117 2017-10-13 Blindfold learning of an accurate neural metric Christophe Gardella|Olivier Marre|Thierry Mora Ecole normale superieure;|Vision Institute, Paris
http://dx.doi.org/10.1101/200881 2017-10-13 CC BY An interventional Soylent diet increases the Bacteroidetes to Firmicutes ratio in human gut microbiome communities: a randomized controlled trial Ryan H. Hsu|Dylan M. McCormick|Mitchell Lee J. Seitz|Lauren M. Lui|Harneet S. Rishi|Adam P. Arkin University of California, Berkeley;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/203125 2017-10-13 Comprehensive single cell RNAseq analysis of the kidney reveals novel cell types and unexpected cell plasticity Jihwan Park|Rojesh Shrestha|Chengxiang Qiu|Ayano Kondo|Shizheng Huang|Max Werth|Mingyao Li|Jonathan Barasch|Katalin Susztak University of Pennsylvania;|Columbia University
http://dx.doi.org/10.1101/201574 2017-10-13 CC BY Target immunity levels for achieving and maintaining measles elimination Sebastian Funk|Jennifer K. Knapp|Emmaculate Lebo|Susan E. Reef|Alya J. Dabbagh|Katrina Kretsinger|Mark Jit|W. John Edmunds|Peter M. Strebel London School of Hygiene & Tropical Medicine;|Centres for Disease Control and Prevention, Atlanta, United States;|World Health Organization, Geneva, Switzerland;|GAVI Alliance, Geneva, Switzerland
http://dx.doi.org/10.1101/202697 2017-10-13 Induction of autophagy by trehalose limits opportunistic mycobacterial infections in HIV-infected macrophages Vartika Sharma|Muzamil Makhdoomi|Purnima Kumar|Nabab Khan|Sarman Singh|H. N. Verma|Kalpana Luthra|Sovan Sarkar|Dhiraj Kumar ICGEB;|AIIMS;|JNU;|University of Birmingham
http://dx.doi.org/10.1101/202622 2017-10-13 Cell Biology A novel core promoter element induces bidirectional transcription in CpG island Amin Mahpour|Dominic Smiraglia|Benjamin S. Scruggs|Irwin Gelman|Toru Ouchi Roswell Park Cancer Institute;|Roswell Park Cancer institute;|Washington University School of Medicine
http://dx.doi.org/10.1101/202861 2017-10-13 Genetics CC BY Modernized tools for streamlined genetic manipulation of wild and diverse symbiotic bacteria Travis J. Wiles|Elena S. Wall|Brandon H. Schlomann|Edouard A. Hay|Raghuveer Parthasarathy|Karen Guillemin University of Oregon
http://dx.doi.org/10.1101/165431 2017-10-13 Neuroscience Comparative transcriptome profiling of the human and mouse dorsal root ganglia: An RNA-seq-based resource for pain and sensory neuroscience research Pradipta Ray|Andrew Torck|Lilyana Quigley|Andi Wangzhou|Matthew Neiman|Chandranshu Rao|Tiffany Lam|Ji-Young Kim|Tae Hoon Kim|Michael Q. Zhang|Gregory Dussor|Theodore J. Price School of Behavioral and Brain Sciences, The University of Texas at Dallas;|Department of Biological Sciences, The University of Texas at Dallas
http://dx.doi.org/10.1101/202721 2017-10-13 Plant Biology CC BY-NC-ND What's in the box? Authentication of Echinacea herbal products using DNA metabarcoding and HPTLC Ancuta Cristina Raclariu|Carmen Elena Tebrencu|Mihael Cristi Ichim|Oana Teodora Ciuperca|Anne Krag Brysting|Hugo J de Boer University of Oslo;|Research and Processing Center for Medicinal Plants Plantavorel S.A.;|Stejarul Research Centre for Biological Sciences
http://dx.doi.org/10.1101/202713 2017-10-13 Physiology Females recruit faster alpha motor neurons than males during the patellar stretch reflex: evidence for neurophysiological sexual dimorphism Georgina Tindell|Paul A Smith University Hospital of North Tees;|University of Nottingham
http://dx.doi.org/10.1101/202044 2017-10-13 Genetics CC BY-NC Identification of genetic factors controlling domestication-related traits in cowpea (Vigna unguiculata L. Walp) Sassoum Lo|Maria Munoz-Amatriain|Ousmane Boukar|Ira Herniter|Ndiaga Cisse|Yi-Ning Guo|Philip A. Roberts|Shizhong Xu|Christian Fatokun|Timothy J. Close University of California Riverside;|International Institute of Tropical Agriculture;|Centre d'Etude Regional pour l'Amelioration de l'Adaptation a la Secheresse
http://dx.doi.org/10.1101/202747 2017-10-13 Biochemistry Base-resolution mapping reveals distinct m1A methylome in nuclear- and mitochondrial-encoded transcripts Xiaoyu Li|Xushen Xiong|Meiling Zhang|Kun Wang|Ying Chen|Jun Zhou|Yuanhui Mao|Jia Lv|Danyang Yi|Xiao-Wei Chen|Chu Wang|Shu-Bing Qian|Chengqi Yi Peking University
http://dx.doi.org/10.1101/202812 2017-10-13 Microbiology Plasmodium falciparum dipeptidyl aminopeptidase 3 activity is important for efficient erythrocyte invasion. Christine Lehmann|Michelle Ser Ying Tan|Laura E de Vries|Ilaria Russo|Mateo Isidrio Sanchez|Dan A Goldberg|Edgar Deu The Francis Crick Institute;|Faculty of Life Sciences, University of Manchester;|Department of Genetic, Stanford School of Medicine;|Departments of Molecular Microbiology and Medicine, Washington University School of Medicine
http://dx.doi.org/10.1101/202804 2017-10-13 Microbiology CC BY-NC-ND H2S mediates interbacterial communication through the air reverting intrinsic antibiotic resistance Daniel Thomas-Lopez|Laura Carrilero|Stephanie Matrat|Natalia Montero|Stephane Claverol|Milos R Filipovic|Bruno Gonzalez-Zorn Facultad de Veterinaria and VISAVET, Universidad Complutense de Madrid, Spain;|Plateforme Proteome, Centre Genomique Fonctionnelle de Bordeaux, Universite de Bordeaux, France;|University of Bordeaux and CNRS; IBGC, UMR 5095, Bordeaux, France
http://dx.doi.org/10.1101/201533 2017-10-13 Genetics CC BY-ND Autosomal recessive coding variants explain only a small proportion of undiagnosed developmental disorders in the British Isles Hilary C. Martin|Wendy D. Jones|James Stephenson|Juliet Handsaker|Giuseppe Gallone|Jeremy F. McRae|Elena Prigmore|Patrick Short|Mari Niemi|Joanna Kaplanis|Elizabeth Radford|Nadia Akawi|Meena Balasubramanian|John Dean|Rachel Horton|Alice Hulbert|Diana S. Johnson|Katie Johnson|Dhavendra Kumar|Sally Ann Lynch|Sarju G. Mehta|Jenny Morton|Michael J. Parker|Miranda Splitt|Peter D. Turnpenny|Pradeep C. Vasudevan|Michael Wright|Caroline F. Wright|David R. FitzPatrick|Helen V. Firth|Matthew E. Hurles|Jeffrey C. Barrett Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, U.K.;|Div. of Cardiovascular Medicine, Radcliffe Department of Medicine, Univ. of Oxford;|Sheffield Clinical Genetics Service, Sheffield Childrens NHS Foundation Trust;|Department of Genetics, Aberdeen Royal Infirmary, Aberdeen, U.K.;|Wessex Clinical Genetics Service, G Level, Princess Anne Hospital, Southampton;|Cheshire & Merseyside Clin. Genetic Service, Liverpool Womens NHS Found. Trust;|Department of Clinical Genetics, City Hospital Campus, Nottingham, U.K.;|Institute of Cancer and Genetics, University Hospital of Wales, Cardiff, U.K.;|Temple Street Childrens Hospital, Dublin, Ireland;|Dept. of Clinical Genetics, Cambridge Univ. Hospitals NHS Foundation Trust;|Clinical Genetics Unit, Birmingham Womens Hospital, Edgbaston, U.K.;|Sheffield Clinical Genetics Service, Sheffield Childrens Hospital, Western Bank;|Northern Genetics Service, Newcastle upon Tyne Hospitals, NHS Foundation Trust;|Clinical Genetics, Royal Devon and Exeter NHS Foundation Trust, Exeter, U.K.;|Dept. of Clinical Genetics, University Hospitals of Leicester NHS Trust, U.K.;|Northern Genetics Service, Newcastle upon Tyne Hospitals, NHS Foundation Trust, Newcastle;|University of Exeter Medical School, Institute of Biomedical and Clinical Science;|MRC Human Genetics Unit, MRC IGMM, Univ. of Edinburgh, Western General Hosp.
http://dx.doi.org/10.1101/202887 2017-10-13 Bioinformatics CC BY-NC-ND HYPO: A database of hypothetical human proteins Vijayaraghava Seshadri Sundararajan|Girik Malik|Johny Ijaq|Anuj Kumar|Partha Sarathi Das|Shidhi P R|Achuthsankar S Nair|Prashanth Suravajhala|Pawan Dhar Environmental Health Institute, National Environment Agency, Singapore 138667;|The Research Institute at Nationwide Childrens Hospital, Department of Pediatrics, OSU, USA.;|Department of Zoology, Osmania University, Hyderabad 50007, India;|Uttarakhand Council for Biotechnology (UCB), Prem Nagar, Dehradun-248007, India;|Department of Microbiology, Vidyasagar University, Midnapore;|Department of Computational Biology and Bioinformatics, University of Kerala,Thiruvanantapuram;|Department of Biotechnology and Bioinformatics, Birla Institute of Scientific Research, Jaipur;|School of Biotechnology, Jawaharlal Nehru University, New Delhi 110067, India
http://dx.doi.org/10.1101/201947 2017-10-13 Bioinformatics CC BY Detecting T cell receptor rearrangements in silico from non-targeted DNA-sequencing (WGS/WES) Lara McGrath|Tristan Lubinski|J. Carl Barrett|Humphrey Gardner AstraZeneca;|Evelo Biosciences
http://dx.doi.org/10.1101/203331 2017-10-14 CC BY Single-cell transcriptional dynamics of flavivirus infection Fabio Zanini|Szu-Yuan Pu|Elena Bekerman|Shirit Einav|Stephen R. Quake Bioengineering Department, Stanford University;|Dept. of Medicine, Division of Infectious Diseases, Stanford School of Medicine;|Depts. of Engineering and Appl. Physics, Stanford Univ.; Chan Zuckerberg Biohub
http://dx.doi.org/10.1101/203307 2017-10-14 CC BY-NC-ND The genomics of local adaptation in trees: Are we out of the woods yet? Brandon M. Lind|Mitra Menon|Connie E. Bolte|Trevor M. Faske|Andrew J. Eckert Virginia Commonwealth University - Integrative Life Sciences;|Virginia Commonwealth University - Department of Biology
http://dx.doi.org/10.1101/203356 2017-10-14 Transcriptome analysis reveals the differences between cellular response to ribosomal stress and translational stress Md. Shamsuzzaman|Brian Gregory|Vincent Bruno|Lasse Lindahl University of Maryland Baltimore County;|Institute for Genome Sciences, University of Maryland School of Medicine
http://dx.doi.org/10.1101/203349 2017-10-14 CC BY-NC-ND Relevance of host cell surface glycan structure for cell specificity of influenza A virus Markus Kastner|Andreas Karner|Rong Zhu|Qiang Huang|Dandan Zhang|Jianping Liu|Andreas Geissner|Anne Sadewasser|Markus Lesch|Xenia Woermann|Alexander Karlas|Peter Seeberger|Thorsten Wolff|Peter Hinterdorfer|Andreas Herrmann|Christian Sieben Biochemistry and Molecular Biology, Pennsylvania State University, United States;|Institute for Biophysics, Johannes Kepler University Linz, Austria;|School of Life Sciences, Fudan University, Shanghai, China;|Max Planck Institute for Colloids and Interfaces, Potsdam, Germany;|Div. of Influenza & other Respiratory Viruses, Robert Koch-Institute, Berlin, Germany;|Molecular Biology Dept., Max Planck Institute for Infection Biology, Berlin, Germany;|Department of Biology, Humboldt Universitaet zu Berlin, Berlin, Germany
http://dx.doi.org/10.1101/203323 2017-10-14 Awake fMRI Reveals Covert Arousal in Aggressive Dogs Under Social Resource Threat Peter Cook|Ashley Prichard|Mark Spivak|Gregory S. Berns New College of Florida;|Emory University;|Comprehensive Pet Therapy
http://dx.doi.org/10.1101/203257 2017-10-14 CC BY-ND Polygenic risk scores applied to a single cohort reveal pleiotropy among hundreds of human phenotypes Adam Socrates|Tom Bond|Ville Karhunen|Juha Auvinen|Cornelius Rietveld|Juha Veijola|Marjo-Riitta Jarvelin|Paul O'Reilly King's College London;|Imperial College London;|University of Oulu;|Erasmus University Rotterdam
http://dx.doi.org/10.1101/203224 2017-10-14 CC BY Genome-wide and high-density CRISPR-Cas9 screens identify point mutations in PARP1 causing PARP inhibitor resistance Stephen J. Pettitt|Dragomir B. Krastev|Inger Brandsma|Amy Drean|Feifei Song|Radoslav Aleksandrov|Maria I. Harrell|Malini Menon|Rachel Brough|James Campbell|Jessica Frankum|Michael Ranes|Helen N. Pemberton|Rumana Rafiq|Kerry Fenwick|Amanda Swain|Sebastian Guettler|Jung-Min Lee|Elizabeth M. Swisher|Stoyno Stoynov|Kosuke Yusa|Alan Ashworth|Christopher J. Lord Institute of Cancer Research;|Bulgarian Acadamy of Sciences;|University of Washington School of Medicine;|Center for Cancer Research, National Cancer Institute;|Bulgarian Academy of Sciences;|Wellcome Trust Sanger Institute;|UCSF Helen Diller Family Comprehensive Cancer Center
http://dx.doi.org/10.1101/203232 2017-10-14 CC BY Cell-specific modulation of nuclear pore complexes controls cell cycle entry during asymmetric division Arun Kumar|Priyanka Sharma|Zhanna Shcheprova|Anne Daulny|Trinidad Sanmartin|Irene Matucci|Charlotta Funaya|Miguel Beato|Manuel Mendoza Centre for Genomic Regulation (CRG);|Center for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/201095 2017-10-14 CC BY Skill Acquisition and Habit Formation as Distinct Effects of Practice Robert M Hardwick|Alexander D Forrence|John W Krakauer|Adrian M Haith KU Leuven;|Johns Hopkins University
http://dx.doi.org/10.1101/203141 2017-10-14 CC BY-NC Decisions are expedited through multiple neural adjustments spanning the sensorimotor hierarchy Natalie A Steinemann|Redmond G O'Connell|Simon P Kelly City College of New York, Columbia University;|Trinity College Dublin;|City College of New York, University College Dublin
http://dx.doi.org/10.1101/203380 2017-10-15 Genetics Leveraging molecular QTL to understand the genetic architecture of diseases and complex traits Farhad Hormozdiari|Steven Gazal|Bryce van de Geijn|Hilary Finucane|Chelsea J.-T. Ju|Po-Ru Loh|Armin Schoech|Yakir Reshef|Xuanyao Liu|Luke O'Connor|Alexander Gusev|Eleazar Eskin|Alkes Price Department of Epidemiology, Harvard T.H. Chan School of Public Health, Boston, MA;|Program in Medical and Population Genetics, Broad Institute of MIT and Harvard, Cambridge, MA;|UCLA;|Division of Genetics, Dept of Medicine, Brigham and Women's Hospital and Harvard Medical School;|Department of Computer Science, Harvard University, Cambridge, MA 02138, USA;|Dana Farber Cancer Institute, Harvard Medical School, Boston, MA 02115, USA
http://dx.doi.org/10.1101/203372 2017-10-15 Biochemistry Methods for addressing the protein-protein interaction between histone deacetylase 6 and ubiquitin Carolina dos Santos Passos|Nathalie Deschamps|Yun Choi|Robert E Cohen|Remo Perozzo|Alessandra Nurisso|Claudia Simoes-Pires University of Geneva;|Colorado State University
http://dx.doi.org/10.1101/203448 2017-10-15 Discrete attractor dynamics underlying selective persistent activity in frontal cortex Hidehiko K Inagaki|Lorenzo Fontolan|Sandro Romani|Karel Svoboda Janelia Research Campus, HHMI
http://dx.doi.org/10.1101/203695 2017-10-15 CC BY-NC-ND Sexual conflict and STDs: coevolution of sexually antagonistic host traits with a sexually transmitted disease Alison M. Wardlaw|Aneil F. Agrawal University of Minnesota;|University of Toronto
http://dx.doi.org/10.1101/203505 2017-10-15 CC BY-NC-ND Interference with Prdm9-controlled meiotic chromosome asynapsis overrides hybrid sterility in mice Sona Gregorova|Vaclav Gergelits|Irena Chvatalova|Tanmoy Bhattacharyya|Barbora Valiskova|Vladana Fotopulosova|Petr Jansa|Diana Wiatrowska|Jiri Forejt Institute of Molecular Genetics, Academy of Sciences of the Czech Republic;|The National Institute of Public Health;|The Jackson Laboratory, 600 Main Street, Bar Harbor, ME 04609, USA
http://dx.doi.org/10.1101/203596 2017-10-15 Multi-step regulation of transcription kinetics explains the non-linear relation between RNA polymerase II density and mRNA expression in Dosage Compensation Pouria Dasmeh University of Montreal
http://dx.doi.org/10.1101/203638 2017-10-15 CC BY SIRT2 and lysine fatty acylation regulate the oncogenic activity of K-Ras4a Hui Jing|Xiaoyu Zhang|Stephanie A. Wisner|Xiao Chen|Nicole A. Spiegelman|Maurine E. Linder|Hening Lin Cornell University;|Cornell University College of Veterinary Medicine;|Howard Hughes Medical Institute, Cornell University
http://dx.doi.org/10.1101/203539 2017-10-15 Csde1 cooperates with Strap to control translation of erythroid transcripts Kat S. Moore|Nurcan Yagci|Floris van Alphen|Alexander B. Meijer|Peter A. C. 't Hoen|Marieke M. von Lindern Hematopoiesis Dept., Sanquin Research; Landsteiner Laboratorium AMC/UvA;|Dept. of Research Facilities, Sanquin Research;|Plasma Prot. Dept., Sanquin Res.; Biomolec. Mass Spec. & Proteomics Dept., UU;|Dept. of Human Genetics, Leiden University Medical Center
http://dx.doi.org/10.1101/203406 2017-10-15 Resting-state connectivity predicts patient-specific effects of deep brain stimulation for Parkinson's disease Xiaoyu Chen|Chencheng Zhang|Yuxin Li|Pei Huang|Qian Lv|Wenwen Yu|Shengdi Chen|Bomin Sun|Zheng Wang Institute of Neuroscience, Shanghai Institute for Biological Sciences, CAS;|Dept. of Functional Neurosurgery, Ruijin Hospital, Shanghai Jiao Tong University;|Department of Radiology, Huashan Hospital, Fudan University;|Department of Neurology, Ruijin Hospital, Shanghai Jiao Tong University
http://dx.doi.org/10.1101/203513 2017-10-15 SPANOL (SPectral ANalysis Of Lobes): A spectral clustering framework for individual and group parcellation of cortical surfaces in lobes Julien Lefevre|Antonietta Pepe|Jennifer Muscato|Francois De Guio|Nadine Girard|Guillaume Auzias|David Germanaud Aix Marseille Univ., Univ. Toulon, CNRS, ENSAM, LSIS, Marseille, France;|Aix Marseille Univ., CNRS, INT, Inst. Neurosci. Timone, Marseille, France;|University Paris Diderot, Sorbonne Paris Cite, UMR-S 1161 INSERM, Paris, France;|APHM, Hopital de la Timone, Service de Neuroradiologie, Marseille, France;|CEA, Neurospin, UNIACT, Equipe neuropediatrie, Gif-sur-Yvette, France
http://dx.doi.org/10.1101/203521 2017-10-15 Weighted burden analysis of exome-sequenced case-control sample implicates synaptic genes in schizophrenia aetiology David Curtis|Leda Coelewij|Shou-Hwa Liu|Jack Humphrey|Richard Mott University College London;|UCL Genetics Institute, University College London;|Dept. of Neurodegenerative Disease, UCL Inst. of Neurology, Univ. College London
http://dx.doi.org/10.1101/203299 2017-10-15 CC BY-ND Paternal easiRNAs regulate parental genome dosage in Arabidopsis German Martinez|Philip Wolff|Zhenxing Wang|Jordi Moreno-Romero|Juan Santos-Gonzalez|Lei Liu Conze|Christopher DeFraia|Keith Slotkin|Claudia Kohler Swedish University of Agricultural Science;|The Ohio State University
http://dx.doi.org/10.1101/203604 2017-10-15 CC BY-NC-ND Stretching the skin of the fingertip creates a perceptual and motor illusion of touching a harder spring Mor Farajian|Raz Leib|Tomer Zaidenberg|Ferdinando Mussa-Ivaldi|Ilana Nisky Ben-Gurion University of the Negev;|Northwestern University
http://dx.doi.org/10.1101/203612 2017-10-15 microRNA-triggered transposon small RNAs mediate genome dosage response Filipe Borges|Jean-Sebastien Parent|Frederic van Ex|Philip Wolff|German Martinez|Claudia Kohler|Robert A Martienssen Howard Hughes Medical Institute, Cold Spring Harbor Laboratory;|Cold Spring Harbor Laboratory;|Swedish University of Agricultural Sciences and Linnean Center of Plant Biology
http://dx.doi.org/10.1101/203554 2017-10-15 CC BY Genomics in healthcare: GA4GH looks to 2022 Ewan Birney|Jessica Vamathevan|Peter Goodhand EMBL;|Ontarior Institute for Cancer Research
http://dx.doi.org/10.1101/203398 2017-10-15 CC BY Streptococcus pneumoniae possesses an unexpectedly large bacteriocin repertoire Reza Rezaei Javan|Andries J. van Tonder|James P. King|Angela B. Brueggemann University of Oxford
http://dx.doi.org/10.1101/203661 2017-10-15 CC BY New Insights into the Conformational Activation of Full-Length Integrin Tamara C. Bidone|Anirban Polley|Aleksander E. P. Durumeric|Tristan Driscoll|Daniel Iwamoto|David Calderwood|Martin A. Schwartz|Gregory A. Voth University of Chicago;|Columbia University;|Yale University;|Yale University School of Medicine;|The University of Chicago
http://dx.doi.org/10.1101/203547 2017-10-15 CC BY-NC-ND Sequence fingerprints distinguish erroneous from correct predictions of Intrinsically Disordered Protein Regions K. M. Saravanan|Keith Dunker|Sankaran Krishnaswamy University of Madras;|Indiana University School of Medicine;|Institute of Mathematical Sciences
http://dx.doi.org/10.1101/203497 2017-10-15 Csde1 binds transcripts involved in protein homeostasis and controls their expression in erythropoiesis Kat S. Moore|Nurcan Yagci|Floris van Alphen|Nahuel A. Paolini|Rastislav horos|Ntsiki M. Held|Riekelt H. Houtkooper|Emile van den Akker|Alexander B. Meijer|Peter A. C. 't Hoen|Marieke von Lindern Dept. of Hematopoiesis, Sanquin Research; Landsteiner Laboratorium AMC/UvA;|Dept. of Research Facilities, Sanquin Research;|European Molecular Biology Laboratory;|Laboratory Genetic Metabolic Diseases, Academic Medical Center;|Dept. of Hematopoiesis, Sanquin Research; Landsteiner Laboratory AMC/UvA;|Dept. of Plasma Prot., Sanquin; Dept. of Biomolec. Mass Spec. & Proteomics, UU;|Center for Human and Clinical Genetics, LUMC
http://dx.doi.org/10.1101/203646 2017-10-15 CC BY-NC-ND Reproductive mode, stem cells and regeneration in a freshwater cnidarian with post-reproductive senescence Flora Sebestyen|Zoltan Barta|Jacint Tokolyi University of Debrecen
http://dx.doi.org/10.1101/203422 2017-10-15 Neuroscience In vivo brain activity imaging of interactively locomoting mice Shigenori Inagaki|Masakazu Agetsuma|Shinya Ohara|Toshio Iijima|Tetsuichi Wazawa|Yoshiyuki Arai|Takeharu Nagai Osaka University;|Osaka University; National Institute for Physiological Sciences;|Tohoku University
http://dx.doi.org/10.1101/203414 2017-10-15 Neuroscience Low-dimensional and monotonic preparatory activity in mouse anterior lateral motor cortex Hidehiko K. Inagaki|Miho Inagaki|Sandro Romani|Karel Svoboda Janelia Research Campus, HHMI
http://dx.doi.org/10.1101/202507 2017-10-16 CC BY Homeostatic feedback, not early activity, modulates development of two-state patterned activity in the C. elegans egg-laying circuit Bhavya Ravi|Jessica Garcia|Kevin M. Collins University of Miami
http://dx.doi.org/10.1101/204156 2017-10-16 CC BY-NC The Phonetics-Phonology Relationship in the Neurobiology of Language Mirko Grimaldi University of Salento (Lecce - Italy)
http://dx.doi.org/10.1101/204016 2017-10-16 CC BY HTX: a tool for the exploration and visualization of high-throughput image assays Carlos Arteta|Victor Lempitsky|Jaroslav Zak|Xin Lu|Alison Noble|Andrew Zisserman University of Oxford;|Skolkovo Institute of Science and Technology;|The Scripps Research Institute
http://dx.doi.org/10.1101/203976 2017-10-16 CC BY Non-invasive detection of bladder cancer through the analysis of driver gene mutations and aneuploidy Simeon U. Springer|Maria Del Carmen Rodriguez Pena|Lu Li|Christopher Douville|Yuxuan Wang|Josh Cohen|Diana Taheri|Natalie Silliman|Joy Schaeffer|Janine Ptak|Lisa Dobbyn|Maria Papoli|Isaac Kinde|Bahman Afsari|Aline C. Tregnago|Stephania M. Bezerra|Christopher VandenBussche|Kazutoshi Fujita|Dilek Ertoy|Isabela W. Cunha|Lijia Yu|Mark Schoenberg|Trinity J. Bivalacqua|Kathleen G. Dickman|Arthur P. Grollman|Luis A. Diaz|Rachel Karchin|Ralph H. Hruban|Cristian Tomasetti|Nickolas Papadopoulos|Ken W. Kinzler|Bert Vogelstein|George J. Netto Johns Hopkins University;|University of Alabama at Birmingham;|Johns Hopkins School of Medicine;|Isfahan University of Medical Sciences;|Howard Hughes Medical Institute, Ludwig Center;|AC Camargo Cancer Center;|Osaka University;|Hacettepe University;|Montefiore Medical Center;|Stony Brook University;|Johns Hopkins Kimmel Cancer Center
http://dx.doi.org/10.1101/204008 2017-10-16 Deficit in parietal memory network underlies auditory hallucination: a longitudinal study Qian Guo|Yang Hu|Botao Zeng|Yingying Tang|Tianhong Zhang|Jinhong Wang|Georg Northoff|Chunbo Li|Donald Goff|Jijun Wang|Zhi Yang Shanghai Mental Health Center, Shanghai Jiao Tong University School of Medicine, Shanghai, China;|Qingdao Mental Health Center, Qingdao, China;|Royal's Institute of Mental Health Research, University of Ottawa, Ottawa, ON, Canada;|Department of Psychiatry, NYU Langone Medical Center, New York, USA
http://dx.doi.org/10.1101/203877 2017-10-16 CC BY-NC-ND Mud sticks after all: Chronically implanted microelectrodes but not electrical stimulation cause c-fos expression along their trajectory Patrick Pflueger|Richard Charles Pinnell|Nadja Martini|Ulrich Hofmann Medical Center University of Freiburg
http://dx.doi.org/10.1101/151134 2017-10-16 Propagation of spike timing and firing rate in feedforward networks reconstituted in vitro Jeremie Barral|Xiao-Jing Wang|Alex D Reyes Center for Neural Science
http://dx.doi.org/10.1101/204057 2017-10-16 CC BY p53 suppresses mutagenic RAD52 and POLθ pathways by orchestrating DNA replication restart homeostasis Sunetra Roy|Karl-Heinz Tomaszowski|Jessica W. Luzwick|Soyoung Park|Jun Li|Maureen Murphy|Katharina Schlacher Michigan State University;|University of Texas MD Anderson Cancer Center;|The Wistar Institute
http://dx.doi.org/10.1101/203752 2017-10-16 CC BY-ND Cluster Headache: Comparing Clustering Tools for 10X Single Cell Sequencing Data Saskia Freytag|Ingrid Lonnstedt|Milica Ng|Melanie Bahlo Walter and Eliza Hall Insitute of Medical Research;|CSL Limited, Bio21 Institute, 3010 Parkville, Australia;|Walter and Eliza Hall Insititute of Medical Research
http://dx.doi.org/10.1101/202408 2017-10-16 Transcranial real-time in vivo recording of electrophysiological neural activity in the rodent brain with near-infrared photoacoustic voltage-sensitive dye imaging Jeeun Kang|Haichong K. Zhang|Shilpa D. Kadam|Fedorko Julie|Heather Valentine|Jin U. Kang|Arman Rahmim|Albert Gjedde|Leslie M. Loew|Dean F. Wong|Emad M. Boctor Johns Hopkins University;|Johns Hopkins Medical Institute;|University of Copenhagen;|University of Connecticut Health
http://dx.doi.org/10.1101/203927 2017-10-16 CC BY-NC Improved imputation of summary statistics for realistic settings Sina Rueger|Aaron McDaid|Zoltan Kutalik Lausanne University Hospital
http://dx.doi.org/10.1101/203943 2017-10-16 Degeneracy in hippocampal physiology and plasticity Rahul Kumar Rathour|Rishikesh Narayanan Indian Institute of Science, Bangalore
http://dx.doi.org/10.1101/203869 2017-10-16 CC BY-NC-ND Atmospheric CO2 availability does not equate to increased nodularin production in diazotrophic cyanobacteria, but does induce varying responses in net photosynthesis and N2 fixation rates. Nicola Wannicke|Michelle M. Gehringer Leibniz-Institute for Baltic Sea Research, Rostock, Germany;|Technical University Kaiserslautern
http://dx.doi.org/10.1101/204248 2017-10-16 Rats optimally accumulate and discount evidence in a dynamic environment Alex Piet|Ahmed El Hady|Carlos D Brody Princeton Neuroscience Institute;|Princeton Neuroscience Institute, Howard Hughes Medical Institute.
http://dx.doi.org/10.1101/204388 2017-10-16 Analysis of hierarchical organization in gene expression networks reveals underlying principles of collective tumor cell dissemination and metastatic aggressiveness of inflammatory breast cancer Shubham Tripathi|Mohit Kumar Jolly|Wendy A. Woodward|Herbert Levine|Michael W. Deem Rice University;|MD Anderson Cancer Center
http://dx.doi.org/10.1101/204214 2017-10-16 Effect of cellular de-differentiation on the dynamics and evolution of tissue and tumor cells in mathematical models with feedback regulation Dominik Wodarz University of California, Irvine
http://dx.doi.org/10.1101/203901 2017-10-16 Deciphering the regulation mechanism in biochemical networks by a systems-biology approach Bernardo Mello|Yuhai Tu IBM T. J. Watson Research Center
http://dx.doi.org/10.1101/203737 2017-10-16 Using experience to improve: How errors shape behavior and brain activity in monkeys Jose L. Pardo-Vazquez|Carlos Acuna Champalimaud Research;|Universidade de Santiago de Compostela
http://dx.doi.org/10.1101/204271 2017-10-16 CC BY A control theoretic model of adaptive behavior in dynamic environments Harrison Ritz|Matthew R Nassar|Michael J Frank|Amitai Shenhav Brown University
http://dx.doi.org/10.1101/204230 2017-10-16 CC BY-ND Chromosome loss rate in cells of different ploidy can be explained by spindle self-organization Ivan Jelenic|Anna M. Selmecki|Liedewij Laan|Nenad Pavin Faculty of Science, University of Zagreb, Bijenička cesta 32, 10000 Zagreb, Croatia;|Department of Medical Microbiology and Immunology, Creighton University Medical School, Omaha, NE;|Delft University of Technology
http://dx.doi.org/10.1101/203968 2017-10-16 CC BY Non-invasive detection of upper tract urothelial carcinomas through the analysis of driver gene mutations and aneuploidy in urine Simeon U. Springer|Chung-Hsin Chen|Lu Li|Christopher Douville|Yuxuan Wang|Josh Cohen|Bahman Afsari|Ludmila Danilova|Natalie Silliman|Joy Schaeffer|Janine Ptak|Lisa Dobbyn|Maria Papoli|Isaac Kinde|Chao-Yuan Huang|Chia-Tung Shun|Rachel Karchin|George J. Netto|Robert J. Turesky|Byeong Hwa Yun|Thomas A. Rosenquist|Ralph H. Hruban|Yeong-Shiau Pu|Arthur P. Grollman|Cristian Tomasetti|Nickolas Papadopoulos|Ken W. Kinzler|Bert Vogelstein|Kathleen G. Dickman Johns Hopkins University;|National Taiwan University Hospital;|Johns Hopkins School of Medicine;|Johns Hopkins University School of Medicine;|Howard Hughes Medical Institute, Ludwig Center;|University of Alabama at Birmingham;|University of Minnesota;|Stony Brook University
http://dx.doi.org/10.1101/204354 2017-10-16 Antagonism in olfactory receptor neurons and its implications for the perception of odor mixtures Gautam Reddy|Joseph Zak|Massimo Vergassola|Venkatesh N. Murthy University of California San Diego, La Jolla, CA, USA;|Harvard University, Cambridge, MA, USA
http://dx.doi.org/10.1101/204222 2017-10-16 Transcranial alternating current stimulation induces long-term augmentation of neural connectivity and sustained anxiety reduction Kevin J. Clancy|Sarah K. Baisley|Alejandro Albizu|Nicholas Kartvelishvili|Mingzhou Ding|Wen Li Florida State University
http://dx.doi.org/10.1101/204305 2017-10-16 CC BY-NC-ND Assessing bimanual motor skills with optical neuroimaging Arun Nemani|Meryem A Yucel|Uwe Kruger|Denise W Gee|Clairice A Cooper|Steven D Schwaitzberg|Suvranu De|Xavier Intes Rensselaer Polytechnic Institute;|Massachusetts General Hospital;|University at Buffalo
http://dx.doi.org/10.1101/202929 2017-10-16 CC BY-NC-ND Multivariate genome-wide association study of rapid automatized naming and rapid alternating stimulus in Hispanic and African American youth. Dongnhu Truong|Andrew K. Adams|Richard Boada|Jan C. Frijters|Dina E. Hill|Maureen W. Lovett|Mark E. Mahone|Erik G. Willcutt|Maryanne Wolf|John C. Defries|Simon E. Fisher|Clyde Francks|Alessandro Gialluisi|Richard K. Olson|Bruce Pennington|Shelley D. Smith|Joan Bosson-Heenan|Jeffrey R. Gruen Yale School of Medicine;|University of Colorado School of Medicine;|Brock University;|University of New Mexico;|The Hospital for Sick Children;|Kennedy Krieger Institute;|University of Colorado Boulder;|Tufts University;|-;|Max Planck Institute for Psycholinguistics;|University of Denver;|University of Nebraska Medical Center
http://dx.doi.org/10.1101/203919 2017-10-16 Amplification-free, CRISPR-Cas9 Targeted Enrichment and SMRT Sequencing of Repeat-Expansion Disease Causative Genomic Regions Yu-Chih Tsai|David Greenberg|James Powell|Ida Hoijer|Adam Ameur|Maya Strahl|Ethan Ellis|Inger Jonasson|Ricardo Mouro Pinto|Vanessa Wheeler|Melissa L. Smith|Ulf Gyllensten|Robert Sebra|Jonas Korlach|Tyson A. Clark Pacific Biosciences;|Icahn School of Medicine at Mount Sinai;|Uppsala University;|Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/204339 2017-10-16 CC BY-NC-ND Efficient generation of targeted large insertions in mouse embryos using 2C-HR-CRISPR Bin Gu|Eszter Posfai|Janet Rossant Program in Developmental and Stem Cell Biology, Hospital for Sick Children
http://dx.doi.org/10.1101/204164 2017-10-16 CC BY-NC-ND How structural elements added in evolution from bacterial transporters serve human SLC6 homologs Asghar Razavi|George Khelashvili|Harel Weinstein Weill Cornell Medical College of Cornell University
http://dx.doi.org/10.1101/199133 2017-10-16 CC BY-NC-ND Phosphate starvation induces replacement of phospholipids with the betaine lipid diacylglycerol-N,N,N-trimethylhomoserine in the human fungal pathogen Candida albicans Surabhi Naik|Rebecca Cahoon|Bridget Tripp|Christian Elowsky|Sophie Alvarez|Kan Liu|Chi Zhang|Wayne Riekhof University of Nebraska - Lincoln
http://dx.doi.org/10.1101/204172 2017-10-16 CC BY-NC TRPV5, TRPV6, TRPM6, and TRPM7 do not contribute to hair-cell mechanotransduction Clive P Morgan|Hongyu Zhao|Meredith LeMasurier|Wei Xiong|Bifeng Pan|Matthew R Avenarius|Michael Bateschell|Ruby Larisch|Anthony J Ricci|Ulrich Mueller|Peter G Barr-Gillespie Oregon Health & Science University;|The Scripps Research Institute;|Stanford University
http://dx.doi.org/10.1101/204297 2017-10-16 CC BY-NC Measuring Selection Across HIV Gag: Combining Physico-Chemistry and Population Genetics Michael Gilchrist|Elizabeth B Johnson Department of Ecology & Evolutionary Biology, University of Tennessee;|University of Tennessee, Knoxville
http://dx.doi.org/10.1101/204198 2017-10-16 CC BY-NC-ND Enhanced wort fermentation with de novo lager hybrids adapted to high ethanol environments Kristoffer Krogerus|Sami Holmstrom|Brian Gibson VTT Technical Research Centre of Finland
http://dx.doi.org/10.1101/203885 2017-10-16 CC BY Coral reef carbonate budgets and ecological drivers in the naturally high temperature and high alkalinity environment of the Red Sea Anna Roik|Till Rothig|Claudia Pogoreutz|Christian R. Voolstra Red Sea Res. Ctr., King Abdullah Univ. of Science & Technol., Thuwal, Saudi Arabia
http://dx.doi.org/10.1101/204255 2017-10-16 Predominant Patterns of Splicing Evolution on Human, Chimpanzee, and Macaque Evolutionary Lineages Jieyi Xiong|Xi Jiang|Angeliki Ditsiou|Yang Gao|Jing Sun|Elijah D Lowenstein|Shuyun Huang|Philipp Khaitovich Chinese Academy of Sciences-Max Planck Partner Institute for Computational Biology, Shanghai, China;|JBC/WTB Biocentre, University of Dundee, DD1 5EH, Scotland, UK;|Freie Universitaet Berlin, 14195, Berlin, Germany;|School of Life Science and Technology, ShanghaiTech University, 201210, Shanghai, China;|Skolkovo Institute of Science and Technology, 143025, Skolkovo, Russia
http://dx.doi.org/10.1101/204065 2017-10-16 Epidermal expression of a sterol biosynthesis gene regulates root growth by a non-cell autonomous mechanism in Arabidopsis Eleri Short|Margaret Pullen|Gul Imriz|Dongbin Liu|Naomi Cope-Selby|Andrei Smertenko|Patrick J. Hussey|Jennifer F. Topping|Keith Lindsey Durham University;|East Cheshire NHS Trust;|Washington State University
http://dx.doi.org/10.1101/204321 2017-10-16 CC BY DirtyGenes: significance testing for gene or bacterial population composition changes using the Dirichlet distribution Laurence M. Shaw|Adam Blanchard|Qinglin Chen|Xinli An|Sabine Totemeyer|Yong-Guan Zhu|Dov J. Stekel Nottingham Trent University;|University of Nottingham;|Institute of Urban Environment, Chinese Academy of Sciences
http://dx.doi.org/10.1101/204263 2017-10-16 CC BY-NC-ND Reducing Pollen Dispersal using Forest Windbreaks. Thomas Meyer|Vernie Sagun|Carol Auer Universiversity of Connecticut;|University of Connecticut
http://dx.doi.org/10.1101/204131 2017-10-16 highroad is induced by retinoids and clears mutant Rhodopsin-1 in Drosophila Retinitis Pigmentosa models. Huai-Wei Huang|Brian Brown|Jaehoon Chung|Pedro M. Domingos|Hyung Don Ryoo New York University School of Medicine;|Instituto de Tecnologia Quimica e Biologica da Universidade Nova de Lisboa
http://dx.doi.org/10.1101/203075 2017-10-16 Distinct epigenetic programs regulate cardiac myocyte development and disease in the human heart in vivo Ralf Gilsbach|Martin Schwaderer|Sebastian Preissl|Bjoern A Gruening|David Kranzhoefer|Pedro Schneider|Thomas G Nuehrenberg|Sonia Mulero-Navarro|Dieter Weichenhan|Christian Braun|Martina Dressen|Adam R Jacobs|Harald Lahm|Torsten Doenst|Rolf Backofen|Markus Krane|Bruce D Gelb|Lutz Hein University of Freiburg, Germany;|Icahn School of Medicine at Mount Sinai, New York, USA;|German Cancer Research Center (DKFZ), Heidelberg, Germany;|Forensic Institute, Ludwig-Maximilians-University, Munich, Germany;|Division of Experimental Surgery,;|German Heart Center, Munich, Germany;|Friedrich-Schiller-University, Jena, Germany;|University of Freiburg, Freiburg, Germany
http://dx.doi.org/10.1101/204180 2017-10-16 Cellular reprogramming of human monocytes is regulated by time-dependent IL4 signalling and NCOR2 Jil Sander|Susanne V. Schmidt|Branko Cirovic|Naomi McGovern|Olympia Papantonopoulou|Anna-Lena Hardt|Anna Aschenbrenner|Christoph Kreer|Thomas Quast|Alexander M. Xu|Lisa M. Schmidtleithner|Heidi Theis|Thi Huong Lan Do|Hermi Rizal Bin Sumatoh|Mario A.R. Lauterbach|Jonas Schulte-Schrepping|Patrick Guenther|Jia Xue|Kevin Bassler|Thomas Ulas|Kathrin Klee|Stefanie Herresthal|Wolfgang Krebs|Bianca Martin|Eicke Latz|Kristian Haendler|Michael Kraut|Waldemar Kolanus|Marc Beyer|Christine S. Falk|Bettina Wiegmann|Sven Burgdorf|Nicholas A. Melosh|Evan W. Newell|Florent Ginhoux|Andreas Schlitzer|Joachim L. Schultze Genomics and Immunoregulation, LIMES-Institute, University of Bonn, 53115 Bonn, Germany;|Institute of Innate Immunity, University Hospital Bonn, University of Bonn, Sigmund-Freud-Strass;|Myeloid Cell Biology, LIMES-Institute, University of Bonn, 53115 Bonn, Germany;|Agency for Science, Technology and Research (ASTAR), Singapore Immunology Network (SIgN), Singapore;|Cellular Immunology, LIMES-Institute, University of Bonn, 53115 Bonn, Germany;|Molecular Immunology & Cell Biology, LIMES-Institute, University of Bonn, 53115 Bonn, Germany;|Department of Materials Science and Engineering, Stanford University, Stanford, California, USA;|Thi Huong Lan;|Institute of Innate Immunity, University Hospital Bonn, University of Bonn, Sigmund-Freud-Strasse;|Molecular Immunology, German Center for Neurodegenerative Diseases (DZNE), Sigmund-Freud-Str. 27;|Institute of Transplant Immunology, Integrated Research and Treatment Center Transplantation;|Department of Cardiothoracic, Transplantation and Vascular Surgery, Hannover Medical School;|Department of Materials Science and Engineering, Stanford University, Stanford, California 94305
http://dx.doi.org/10.1101/201814 2017-10-16 A de novo missense mutation in TUBA1A results in reduced neural progenitor survival and differentiation Ashley Driver|Amy Pitstick|Chris Mayhew|Beth Kline-Fath|Howard Saal|Rolf Stottmann Cincinnati Children's Hospital Medical Center
http://dx.doi.org/10.1101/203950 2017-10-16 CC BY T Cell Calcium Dynamics Visualized in a Ratiometric tdTomato-GCaMP6f Transgenic Reporter Mouse Tobias X. Dong|Michael D. Cahalan|Ian Parker|Joseph L. Dynes|Shivashankar Othy|Amit Jairaman|Jonathan Skupsky|Angel Zavala University of California, Irvine
http://dx.doi.org/10.1101/203935 2017-10-16 Super-Resolution Ultrasound Bubble Tracking for Preclinical and Clinical Multiparametric Tumor Characterization Tatjana Opacic|Stefanie Dencks|Benjamin Theek|Marion Piepenbrock|Dimitri Ackermann|Anne Rix|Twan Lammers|Elmar Stickeler|Stefan Delorme|Georg Schmitz|Fabian Kiessling Experimental Molecular Imaging, University Clinic Aachen, RWTH Aachen University;|Department of Electrical Engineering and Information Technology, Ruhr University Bochum;|Department of Obstetrics and Gynecology, University Clinic Aachen, RWTH Aachen University;|German Cancer Research Center, Department of Radiology, Heidelberg
http://dx.doi.org/10.1101/203984 2017-10-16 CC BY Combining CRISPR/Cas9 mutagenesis and a small-molecule inhibitor to probe the function of MELK in cancer Christopher J. Giuliano|Ann Lin|Joan C. Smith|Ann C. Palladino|Jason M. Sheltzer Cold Spring Harbor Laboratory;|Google, Inc.
http://dx.doi.org/10.1101/204289 2017-10-16 A class of GATA3 mutation reprograms the breast cancer transcriptional network through gain and loss of function Motoki Takaku|Sara A Grimm|John D Roberts|Kaliopi Chrysovergis|Brian D Bennett|Page Myers|Lalith Perera|Charles J Tucker|Charles M Perou|Paul A Wade National Institute of Environmental Health Sciences;|Lineberger Comprehensive Cancer Center, University of North Carolina
http://dx.doi.org/10.1101/203760 2017-10-16 Evolutionary Biology CC BY-NC-ND Slower environmental change hinders adaptation from standing genetic variation Thiago S. Guzella|Snigdhadip Dey|Ivo M Chelo|Ania Pino-Querido|Veronica F. Pereira|Stephen R. Proulx|Henrique Teotonio Institut de Biologie de l Ecole Normale Superieure;|Instituto Gulbenkian de Ciencia;|Department of Ecology, Evolution, and Marine Biology, University of California Santa Barbara
http://dx.doi.org/10.1101/203828 2017-10-16 Animal Behavior and Cognition CC BY-NC-ND A miniaturized threshold-triggered acceleration data-logger for recording burst movements of aquatic animals Nozomi Nishiumi|Ayane Matsuo|Ryo Kawabe|Nicholas Payne|Charlie Huveneers|Yuuki Watanabe|Yuuki Kawabata Graduate School of Fisheries & Environmental Sciences, Nagasaki University;|Inst for East China Sea Research, Grad School of Fisheries & Environmental Sciences, Nagasaki Univ;|University of Roehampton;|College of Science and Engineering, Flinders University;|National Institute of Polar Research
http://dx.doi.org/10.1101/203844 2017-10-16 Genetics CC BY-NC-ND The Common Genetic Architecture of Anxiety Disorders Kirstin Lee Purves|Jonathan R. I. Coleman|Christopher Rayner|John M Hettema|Jurgen Deckert|Andrew M McIntosh|Kristin K Nicodemus|Gerome Breen|Thalia C Eley King's College London;|Virginia Commonwealth University;|University of Wurzburg;|The University of Edinburgh
http://dx.doi.org/10.1101/203851 2017-10-16 Bioinformatics CC BY-NC-ND Genome-Wide Mining, Characterization and Development of miRNA-SSRs in Arabidopsis thaliana Anuj Kumar|Aditi Aditi Chauhan|Sai Kumar Kompelli|Vijay Gahlaut|Johny Ijaq|Krishna Pal Singh|MNV Prasad Gajula|Prashanth Suravajhala|Amrendra Mishra|Harindra Singh Balyan|Pushpendra Kumar Gupta Advance Centre for Computational and Applied Biotechnology, Uttarakhand Council for Biotechnology;|Bioclues.org, Kukatpally, Hyderabad 500072, Telangana, India;|Molecular Biology Laboratory, Department of Genetics & Plant Breeding, Ch. Charan Singh University;|Institute of Biotechnology, PJTSAU, Rajendra Nagar, Hyderabad-500030, India;|Department of Biotechnology and Bioinformatics, Birla Institute of Scientific Research;|Indian Agriculture Research Institute, Pusa, New Delhi, India
http://dx.doi.org/10.1101/203653 2017-10-16 Pathology Galectin-3 and N-acetylglucosamine promote myogenesis and improve skeletal muscle function in the mdx model of Duchenne muscular dystrophy Ann Rancourt|Sebastien Dufresne|Guillaume St-Pierre|Julie-Christine Levesque|Haruka Nakamura|Yodai Kikuchi|Masahiko S. Satoh|Jerome Frenette|Sachiko Sato Glycobiology and Bioimaging Laboratory, Research Centre for Infectious Diseases, U. Laval;|Research Centre of CHU de Quebec, and Department of Rehabilitation, Faculty of Medicine, U. Laval;|Bioimaging Platform, Research Centre of CHU de Quebec, Quebec City, Canada;|Laboratory of DNA Damage Responses and Bioimaging, CHU de Quebec, Faculty of Medicine, U. Laval
http://dx.doi.org/10.1101/203786 2017-10-16 Neuroscience CC BY-NC-ND Modification of scale-free electrophysiological activity induced by changes in excitatory-inhibitory balance is governed by the dynamics of multiple oscillatory relaxation processes Suresh Daniel Muthukumaraswamy|David TJ Liley University of Auckland;|Swinburne University
http://dx.doi.org/10.1101/203455 2017-10-16 Plant Biology CC BY-NC-ND The wheat blast pathogen Pyricularia graminis-tritici has complex origins and a disease cycle spanning multiple grass hosts Vanina Castroagudin|Anderson Danelli|Silvino Intra Moreira|Juliana Teodora de Assis Reges|Giselle Carvalho|Joao Leodato Nunes Maciel|Ana Lidia Variani Bonato|Carlos Alberto Forcelini|Eduardo Alves|Bruce McDonald|Daniel Croll|Paulo Ceresini UNESP University of Sao Paulo State, Ilha Solteira Campus, Sao Paulo, Brazil;|Faculdades Integradas do Vale do Iguacu, Uniguacu, Uniao da Vitoria, Parana, Brazil;|Dept. of Plant Pathology, Federal University of Lavras, Lavras, Minas Gerais, Brazil;|Embrapa Wheat (EMBRAPA Trigo), Passo Fundo, Rio Grande do Sul, Brazil;|Faculdade de Agronomia e Medicina Veterinaria, UPF, Passo Fundo, Brazil;|Plant Pathology Group, ETH Zurich;|Evolutionary Genetics, Institute of Biology, University of Neuchatel, Switzerland
http://dx.doi.org/10.1101/203687 2017-10-16 Evolutionary Biology CC BY-NC-ND Virulence evolution of a parasite infecting male and female hosts Alison M. Wardlaw|Aneil F. Agrawal University of Minnesota;|University of Toronto
http://dx.doi.org/10.1101/202325 2017-10-16 Genetics CC BY-NC An atlas of genetic variation for linking pathogen-induced cellular traits to human disease Liuyang Wang|Kelly J. Pittman|Jeffrey R. Barker|Raul E. Salinas|Ian B. Stanaway|Robert J. Carroll|Tom Balmat|Andy Ingham|Anusha M. Gopalakrishnan|Kyle D. Gibbs|Alejandro L. Antonia|Joseph Heitman|Soo Chan Lee|Gail P. Jarvick|Joshua C. Denny|Mark R. Delong|Raphael H. Valdivia|David R. Crosslin|Dennis C. Ko Duke University;|University of Washington;|Vanderbilt University;|-;|The University of Texas at San Antonio
http://dx.doi.org/10.1101/203729 2017-10-16 Bioinformatics sigQC: A procedural approach for standardising the evaluation of gene signatures Andrew Dhawan|Alessandro Barberis|Wei-Chen Cheng|Enric Domingo|Catharine West|Tim Maughan|Jacob Scott|Adrian L Harris|Francesca M Buffa University of Oxford;|University of Manchester;|Cleveland Clinic
http://dx.doi.org/10.1101/204487 2017-10-17 An evidence-based approach to globally assess the covariate-dependent effect of MTHFR SNP rs1801133 on plasma homocysteine: a systematic review and meta-analysis Huifeng Jin|Haojie Cheng|Wei Chen|Xiaoming Sheng|Mark Brown|Junqiang Tian USANA Health Science;|University of Utah
http://dx.doi.org/10.1101/199620 2017-10-17 Utility of Shrimp and Der p 10 specific IgE for Shrimp Allergy Diagnosis in Non-House Dust Mite Sensitized Patients Karen Thursday S. Tuano|Sara Anvari|Imelda Celine Hanson|Joud Hajjar|Filiz Seeborg|Lenora M. Noroski|Danielle Guffey|Grace Kang|Jordan Scott Orange|Carla M. Davis Baylor College of Medicine
http://dx.doi.org/10.1101/204636 2017-10-17 The effect of abiotic and biotic stress on the salicylic acid biosynthetic pathway from mandelonitrile in peach Agustina Bernal-Vicente|Cesar Petri|Jose A. Hernandez|Pedro Diaz-Vivancos CEBAS-CSIC;|UPCT
http://dx.doi.org/10.1101/204412 2017-10-17 CC BY-NC-ND Sexual dimorphism of complement-dependent microglial synaptic pruning in the developing brain Daria Prilutsky|Alvin T. Kho|Ariel Feiglin|Timothy Hammond|Beth Stevens|Isaac S. Kohane Computational Health Informatics Program, Boston Childrens Hospital, Boston, MA, USA;|Department of Biomedical Informatics, Harvard Medical School, Boston, MA, USA;|F.M. Kirby Neurobiology Center, Boston Childrens Hospital, Boston, MA, USA
http://dx.doi.org/10.1101/204818 2017-10-17 CC BY Estimation of neuronal firing rate using Bayesian Adaptive Kernel Smoother (BAKS) Nur Ahmadi|Timothy G. Constandinou|Christos-Savvas Bouganis Imperial College London
http://dx.doi.org/10.1101/204776 2017-10-17 CC BY-NC Fluorescence polarization control for on-off switching of single molecules at cryogenic temperatures Christiaan Hulleman|Maximiliaan Huisman|Robert Moerland|David Grunwald|Sjoerd Stallinga|Bernd Rieger Delft Technical University;|UMass Medical School
http://dx.doi.org/10.1101/204362 2017-10-17 MAGI: A Bayesian-like method for metabolite, annotation, and gene integration Onur Erbilgin|Oliver Ruebel|Katherine B Louie|Matthew Trinh|Markus de Raad|Tony Wildish|Daniel W Udwary|Cindi A Hoover|Samuel Deutsch|Trent R Northen|Benjamin P Bowen Lawrence Berkeley National Laboratory;|Lawrence Berkeley National laboratory
http://dx.doi.org/10.1101/204867 2017-10-17 CC BY-ND Errors in action timing and inhibition facilitate learning by tuning distinct mechanisms in the underlying decision process Kyle Dunovan|Timothy Verstynen Carnegie Mellon University
http://dx.doi.org/10.1101/204800 2017-10-17 CC BY-NC-ND p53 is required for female germline stem cell maintenance in P-element hybrid dysgenesis. Sadia Tasnim|Erin S. Kelleher University of Texas Medical Branch;|University of Houston
http://dx.doi.org/10.1101/204669 2017-10-17 CC BY Machine learning identifies signatures of host adaptation in the bacterial pathogen Salmonella enterica Nicole E. Wheeler|Paul P. Gardner|Lars Barquist Wellcome Trust Sanger Institute;|University of Canterbury;|University of Wuerzburg
http://dx.doi.org/10.1101/204446 2017-10-17 CC BY-NC-ND A simple, consistent estimator of heritability for genome-wide association studies Armin Schwartzman|Andrew J Schork|Rong Zablocki|Wesley K Thompson University of California at San Diego;|Institute of Biological Psychiatry, Mental Health Center St. Hans, Mental Health Services Copenhagen
http://dx.doi.org/10.1101/202168 2017-10-17 Comparative analysis examining patterns of genomic differentiation across multiple episodes of population divergence in birds Kira Delmore|Juan Lugo|Benjamin Mark Van Doren|Max Lundberg|Staffan Bensch|Darren E. Irwin|Miriam Liedvogel Max Planck Institute for Evolutionary Biology;|University of Oxford;|Lund University;|University of British Columbia
http://dx.doi.org/10.1101/204099 2017-10-17 Automated Reactive Accelerated Aging for Rapid In Vitro Evaluation of Neural Implants Performance Matthew G. Street|Cristin G. Welle|Pavel A. Takmakov US FDA, CDRH, OSEL, DBCMS, Silver Spring, MD;|Depts. of Neurosurgery and Bioengineering, Anschutz Med. Ctr., Univ. of Colorado
http://dx.doi.org/10.1101/204784 2017-10-17 CC BY TASEP modelling provides a parsimonious explanation for the ability of a single uORF to upregulate downstream ORF translation during the Integrated Stress Response Dmitry E. Andreev|Maxim Arnold|Gary Loughran|Dmitrii Rachinskii|Pavel V. Baranov Lomonosov Moscow State University;|University of Texas in Dallas;|University College Cork;|University of Texas Dallas
http://dx.doi.org/10.1101/204453 2017-10-17 CC BY-NC-ND An internal sensor detects dietary amino acids and promotes food consumption in Drosophila Zhe Yang|Rui Huang|Xin Fu|Gaohang Wang|Wei Qi|Wei Shen|Liming Wang Life Sciences Institute and Innovation Center for Cell Signaling Network, Zhejiang University;|Institute of Neuroscience, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences;|Zhejiang University
http://dx.doi.org/10.1101/204719 2017-10-17 CC BY-NC-ND KaryoScan: abnormal karyotype detection from whole-exome sequence Evan K Maxwell|Claudia Gonzaga-Jauregui|Shane E McCarthy|Colm O'Dushlaine|Jeffrey Staples|Alexander E Lopez|Xiaodong Bai|John Penn|Rick Ulloa|Omri Gottesman|Aris Baras|Frederick E Dewey|John D Overton|Erik Puffenberger|Lukas Habegger|Jeffrey G Reid Regeneron Genetics Center;|The Clinic for Special Children
http://dx.doi.org/10.1101/204701 2017-10-17 CC BY Conservation of differentiation but transformation of initiation in hippocampal neurogenesis Hannah Hochgerner|Amit Zeisel|Peter Lonnerberg|Sten Linnarsson Karolinska Institutet
http://dx.doi.org/10.1101/204370 2017-10-17 CC BY Germline Contamination and Leakage in Whole Genome Somatic Single Nucleotide Variant Detection Dorota H. Sendorek|Cristian Caloian|Kyle Ellrott|J. Christopher Bare|Takafumi N. Yamaguchi|Adam D. Ewing|Kathleen E. Houlahan|Thea C. Norman|Adam A. Margolin|Joshua M. Stuart|Paul C. Boutros Ontario Institute for Cancer Research;|University of California, Santa Cruz; Oregon Health & Science University;|Sage Bionetworks;|Ontario Insitute for Cancer Research;|Univ. of California, Santa Cruz; Univ. of Queensland, Mater Research Institute;|Sage Bionetworks; Oregon Health & Science University;|University of California, Santa Cruz;|Ontario Institute for Cancer Research; University of Toronto
http://dx.doi.org/10.1101/204081 2017-10-17 CC BY-NC-ND A machine learning approach to predicting short-term mortality risk in patients starting chemotherapy Aymen Elfiky|Maximilian Pany|Ravi Parikh|Ziad Obermeyer Dana Farber Cancer Institute/Brigham and Women's Hospital;|Brigham and Women's Hospital
http://dx.doi.org/10.1101/204479 2017-10-17 CC BY-NC A population phylogenetic view of mitochondrial heteroplasmy Peter Wilton|Arslan Zaidi|Kateryna Makova|Rasmus Nielsen University of California, Berkeley;|Penn State University
http://dx.doi.org/10.1101/204735 2017-10-17 CC BY-NC-ND C. elegans Multidrug Resistance Protein 5 (MRP-5) Transports Vitamin B12 from the Intestine to the Gonad to Support Embryonic Development Huimin Na|Olga Ponomarova|Gabrielle E. Giese|Marian J. M. Walhout University of Massachusetts Medical School
http://dx.doi.org/10.1101/204685 2017-10-17 CC BY-ND Detecting genome-wide directional effects of transcription factor binding on polygenic disease risk Yakir A Reshef|Hilary Kiyo Finucane|David R Kelley|Alexander Gusev|Dylan Kotliar|Jacob C Ulirsch|Farhad Hormozdiari|Luke O'Connor|Bryce van de Geijn|Po-Ru Loh|Shari Grossman|Gaurav Bhatia|Steven Gazal|Pier Francesco Palamara|Luca Pinello|Nick Patterson|Ryan Adams|Alkes Price Department of Computer Science, Harvard University;|MIT;|California Life Sciences Company;|Dana Farber Cancer Institute;|Broad Institute of MIT and Harvard;|Department of Epidemiology, Harvard T.H. Chan School of Public Health;|Brigham and Women's Hospital;|Department of Statistics, University of Oxford;|The Massachusetts General Hospital;|Google Brain
http://dx.doi.org/10.1101/204677 2017-10-17 CC BY-NC-ND Micro-encapsulation extends mycelial viability of Streptomyces lividans 66 and increases enzyme production Boris Zacchetti|Agathoklis Andrianos|Dino van Dissel|Eveline de Ruiter|Gilles van Wezel|Dennis Claessen Leiden University
http://dx.doi.org/10.1101/204404 2017-10-17 CC BY-NC-ND Inter-slice motion correction using spatiotemporal interpolation for functional magnetic resonance imaging of the moving fetus Wonsang You|Catherine Limperopoulos Children's National Health System
http://dx.doi.org/10.1101/204628 2017-10-17 Competitive inter-species interactions underlie the increased antimicrobial tolerance in multispecies brewery biofilms Ilse Parijs|Hans P. Steenackers KU Leuven
http://dx.doi.org/10.1101/204578 2017-10-17 Diffusional conductance to CO2 is the key limitation to photosynthesis in salt-stressed leaves of rice (Oryza sativa) Xiaoxiao Wang|Wencheng Wang|Jianliang Huang|Shaobing Peng|Dongliang Xiong Huazhong Agricultural University;|University of Sydney
http://dx.doi.org/10.1101/204727 2017-10-17 CC BY-NC Finite-sample genome-wide regression p-values (GWRPV) with a non-normally distributed phenotype Gregory Connor|Michael O'Neill Maynooth University;|University College, Dublin
http://dx.doi.org/10.1101/204594 2017-10-17 Use of a Neural Circuit Probe to Validate in silico Predictions of Inhibitory Connections Honglei Liu|Daniel Bridges|Connor Randall|Sara A. Solla|Bian Wu|Paul Hansma|Xifeng Yan|Kenneth S. Kosik|Kristofer Bouchard Department of Computer Science, University of California, Santa Barbara, USA;|Department of Physics, University of California, Santa Barbara, USA;|Department of Physiology, Northwestern University, Chicago, USA;|Neuroscience Research Institute, University of California, Santa Barbara, USA;|Biological Systems & Engineering Div., Lawrence-Berkeley Natl. Laboratory
http://dx.doi.org/10.1101/204552 2017-10-17 CC BY-ND Deep Learning for Multi-task Plant Phenotyping Michael P Pound|Jonathan A Atkinson|Darren M Wells|Tony P Pridmore|Andrew P French University of Nottingham
http://dx.doi.org/10.1101/204792 2017-10-17 CC BY-NC-ND Placeholder nucleosomes underlie germline-to-embryo DNA methylation reprogramming Patrick J. Murphy|ShanFu Wu|Cody R. James|Candice L. Wike|Bradley R. Cairns HHMI, Dept. of Oncol. Sci.; Huntsman Cancer Inst., Univ. of Utah School of Med.
http://dx.doi.org/10.1101/204743 2017-10-17 A small core set of transcription factors bind strongly to DNA in different cell types Bei Wei|Arttu Jolma|Biswajyoti Sahu|Lukas M. Orre|Fan Zhong|Fangjie Zhu|Teemu Kivioja|Inderpreet Kaur Sur|Janne Lehtio|Minna Taipale|Jussi Taipale Karolinska Institutet;|University of Helsinki;|University of Cambridge, Karolinska Institutet
http://dx.doi.org/10.1101/201368 2017-10-17 CC BY-ND Behavioral and biochemical effects of ethanol withdrawal in zebrafish Suianny N. S. Chaves|Gabriel R. Felicio|Bruna P. D. Costa|Witallo E. A. Oliveira|Monica G. Lima|Diogenes H. S. Silva|Caio Maximino Universidade Federal do Sul e Sudeste do Para;|Escola Estadual de Ensino Medio Prof. Anisio Teixeira;|Universidade do Estado do Para
http://dx.doi.org/10.1101/204909 2017-10-17 CC BY-NC Two coupled feedback loops explain random mono-allelic Xist upregulation at the onset of X-chromosome inactivation Verena Mutzel|Ikuhiro Okamoto|Ilona Dunkel|Mitinori Saitou|Luca Giorgetti|Edith Heard|Edda G. Schulz Max Planck Institute for Molecular Genetics, Berlin, Germany;|Kyoto University, Japan;|Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland;|Institut Curie, Paris, France;|Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/204925 2017-10-17 Programmed hierarchical patterning of bacterial populations Christian R. Boehm|Paul K. Grant|Jim Haseloff Department of Plant Sciences, University of Cambridge;|Computational Science Laboratory, Microsoft Research
http://dx.doi.org/10.1101/204875 2017-10-17 A map of gene expression in neutrophil-like cell lines Esther Rincon|Briana Rocha-Gregg|Sean Collins University of California, Davis
http://dx.doi.org/10.1101/204842 2017-10-17 Neuroscience The BXD Mouse Strains are a Model System for Studying Optic Nerve Regeneration Jiaxing Wang|Ying Li|Rebecca King|Felix L. Struebing|Eldon E. Geisert Department of Ophthalmology, Emory University
http://dx.doi.org/10.1101/204438 2017-10-17 Bioinformatics CC BY QuASAR: Quality Assessment of Spatial Arrangement Reproducibility in Hi-C Data Michael EG Sauria|James Taylor Johns Hopkins University
http://dx.doi.org/10.1101/204602 2017-10-17 Plant Biology Ethylene signaling induces gelatinous layers with typical features of tension wood in hybrid aspen Judith Felten|Jorma Vahala|Jonathan Love|Andras Gorzsas|Markus Rueggeberg|Nicolas Delhomme|Joanna Lesniewska|Jaakko Kangasjarvi|Torgeir Rhoden Hvidsten|Ewa J. Mellerowicz|Bjorn Sundberg Umea Plant Science Centre, Swedish University of Agricultural Sciences;|Helsinki University;|Department of Chemistry, Umea University;|Swiss Federal Institute of Technology Zurich (ETH Zurich);|Institute of Biology, University in Bialystok, Poland;|Faculty of Chemistry, Biotechnology & Food Science, Norwegian Univ. of Life Sci.
http://dx.doi.org/10.1101/204495 2017-10-17 Bioinformatics CC BY-NC-ND Hot-starting software containers for bioinformatics analyses Pai Zhang|Ling-Hong Hung|Wes J Lloyd|Ka Yee Yeung Institute of Technology, University of Washington Tacoma
http://dx.doi.org/10.1101/204826 2017-10-17 Evolutionary Biology CC BY Onset of natural selection in auto-catalytic heteropolymers Alexei V. Tkachenko|Sergei Maslov Center for Functional Nanomaterials, Brookhaven National Laboratory;|Carl R. Woese Institute for Genomic Biology
http://dx.doi.org/10.1101/204750 2017-10-17 Ecology CC BY Free Aerial Imagery as a Resource to Monitor Compliance with the Endangered Species Act Jacob Malcom|Tiffany Kim|Ya-Wei Li Defenders of Wildlife;|University of Maryland
http://dx.doi.org/10.1101/199737 2017-10-17 Biophysics CC BY-NC-ND Sub-Confluent Culture of Mouse Embryonic Stem Cell-derived Ventricular Cardiomyocytes On & In Gels - Enhancement of Maturation Phenotype Relative to Tissue Culture Polystyrene via Enabling of Auxotonic Contraction Nikhil Mittal|Ayhan Atmanli|Dongjian Hu|Daniel Groeneweg|Eduardo Kausel|Ibrahim Domian ACEA Biosciences;|Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA 02114, USA;|Department of Civil Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
http://dx.doi.org/10.1101/204859 2017-10-17 Biophysics CC BY-NC-ND Structural basis for recognition of diverse antidepressants by the human serotonin transporter Jonathan Coleman|Eric Gouaux Oregon Health & Science University
http://dx.doi.org/10.1101/204586 2017-10-17 Biophysics Magneto-active substrates for local mechanical stimulation of living cells Cecile M Bidan|Mario Fratzl|Alexis Coullomb|Philippe Moreau|Alain H Lombard|Irene Wang|Martial Balland|Thomas Boudou|Nora M Dempsey|Thibaut Devillers|Aurelie Dupont Univ. Grenoble Alpes, CNRS, LIPhy, F-38000 Grenoble;|Univ. Grenoble Alpes, CNRS, Grenoble INP, I. Neel, F-38000 Grenoble;|Univ. Grenoble Alpes, CNRS, LMGP, F-38000 Grenoble;|Univ. Grenoble Alpes, CNRS, I. Neel, F-38000 Grenoble
http://dx.doi.org/10.1101/204396 2017-10-17 Cell Biology ILF and vReD pathways cooperate to control lysosomal transporter protein lifetimes Erin Kate McNally|Christopher Brett Concordia University
http://dx.doi.org/10.1101/204693 2017-10-17 Bioengineering Light-Activated Cell Identification and Sorting (LACIS): A New Method to Identify and Select Edited Clones on a Microfluidic Device Annamaria Mocciaro|Theodore Roth|Hayley Bennett|Magali Soumillon|Abhik Shah|Joseph Hiatt|Kevin Chapman|Alexander Marson|Gregory Lavieu BerkeleyLight;|UCSF;|BerkeleyLights
http://dx.doi.org/10.1101/204560 2017-10-18 Genomics CC BY-NC Evaluation and application of summary statistic imputation to discover new height-associated loci Sina Rueger|Aaron McDaid|Zoltan Kutalik Lausanne University Hospital
http://dx.doi.org/10.1101/205252 2017-10-18 Evolutionary Biology CC BY-NC-ND Inferring adaptive gene-flow in recent African history George Busby|Ryan Christ|Gavin Band|Ellen Leffler|Quang Si Le|Kirk Rockett|Dominic Kwiatkowski|Chris Spencer University of Oxford;|Department of Statistics, University of Oxford;|Wellcome Centre for Human Genetics, University of Oxford
http://dx.doi.org/10.1101/205195 2017-10-18 Evolutionary Biology CC BY-NC-ND Is thermal tolerance in non-biting midges driven by phenotypic plasticity or adaptation? Quentin Foucault|Andreas Wieser|Ann-Marie Oppold|Barbara Feldmeyer|Markus Pfenninger Senckenberg Biodiversity and Climate Research Centre
http://dx.doi.org/10.1101/204966 2017-10-18 Neuroscience CC BY-NC-ND Speed tuning in the macaque posterior parietal cortex Eric Avila|Kaushik J Lakshminarasimhan|Gregory C DeAngelis|Dora E Angelaki Baylor College of Medicine;|University of Rochester
http://dx.doi.org/10.1101/205047 2017-10-18 Bioinformatics A max-margin training of RNA secondary structure prediction integrated with the thermodynamic model Manato Akiyama|Kengo Sato|Yasubumi Sakakibara Keio University
http://dx.doi.org/10.1101/205013 2017-10-18 Neuroscience CC BY Pitfalls in the Assessment of Brain-Machine Interfaces Using Information Transfer Rate Mikhail A Lebedev|Po-He Tseng|Peter J Ifft|Dennis Ochei|Miguel AL Nicolelis Duke University;|Edwards Lifesciences;|Baylor College of Medicine
http://dx.doi.org/10.1101/205005 2017-10-18 Physiology CC BY-NC-ND Resting heart rate and psychopathy: Findings from the Add Health Survey Nicholas A Kavish|Qiang Fu|Michael Vaughn|Zhengmin Qian|Brian Boutwell Sam Houston State University;|Saint Louis University
http://dx.doi.org/10.1101/205039 2017-10-18 Neuroscience CC BY Organizing principles of pulvino-cortical connectivity in humans Michael Arcaro|Mark Pinsk|Janice Chen|Sabine Kastner Harvard Medical School;|Princeton University;|Johns Hopkins University
http://dx.doi.org/10.1101/204529 2017-10-18 Neuroscience CC BY-NC-ND Auditory motion does not modulate spiking activity in visual motion processing areas MT and MST Tristan A Chaplin|Benjamin J Allitt|Maureen A Hagan|Marcello GP Rosa|Ramesh Rajan|Leo L Lui Neuroscience Program, Biomedicine Discovery Institute & Department of Physiology, Monash University
http://dx.doi.org/10.1101/204990 2017-10-18 Ecology CC BY-NC-ND Riparian reserves in oil palm plantations may provide movement corridors for invertebrates Ross E J Gray|Eleanor Slade|Owen Lewis Imperial College;|University of Oxford
http://dx.doi.org/10.1101/204917 2017-10-18 Neuroscience CC BY-NC-ND Neurobehavioural Correlates of Obesity are Largely Heritable Uku Vainik|Travis B. Baker|Jose C. G. Alanis|Mahsa Dadar|Andreanne Michaud|Bratislav Misic|Yashar Zeighami|Yu Zhang|D Louis Collins|Alain Dagher Montreal Neurological Institute, McGill University;|Rutgers University;|Philipps University of Marburg
http://dx.doi.org/10.1101/204933 2017-10-18 Neuroscience CC BY Patterns and predictors of tic suppressibility in youth with tic disorders Christine A Conelea|Brianna Wellen|Douglas W Woods|Deanna J Greene|Kevin J Black|Matthew W Specht|Michael B Himle|Hanjoo Lee|Matthew Capriotti University of Minnesota;|University of Utah;|Marquette University;|Washington University School of Medicine;|Weill Cornell Medical College; New York-Presbyterian Hospital-Westchester;|University of Wisconsin-Milwaukee;|San Jose State University
http://dx.doi.org/10.1101/186650 2017-10-17 Developmental Biology Effects of Ivermectin exposure on regeneration of D. dorotocephala planaria Nina N. Ferenc|Michael Levin Westfield High School;|Tufts University
http://dx.doi.org/10.1101/204891 2017-10-18 CC BY-NC-ND Rapid Agrobacterium-mediated transformation of tobacco cotyledons using toothpicks Yuan-Yeu Yau|Mona Easterling|Lindsey Brennan Northeastern State University
http://dx.doi.org/10.1101/204768 2017-10-18 Trait impulsivity and response-inhibition in Parkinson Disease. An fMRI study. Sara Palermo|Rosalba Morese|Mario Stanziano|Maurizio Zibetti|Alberto Romagnolo|Stefano Sirgiovanni|Luana De Faveri|Maria C. Valentini|Leonardo Lopiano Department of Neuroscience, University of Turin, Italy;|Faculty of Communication Sciences, Università della Svizzera Italiana;|AOU Città della Salute e della Scienza di Torino, Neuroradiology Unit
http://dx.doi.org/10.1101/205138 2017-10-18 Regulation of thickness of actomyosin cortex in well-spread cells by contractility and spread area Rinku Kumar|Bidisha Sinha Indian Institute of Science Education and Research (IISER) Kolkata
http://dx.doi.org/10.1101/204347 2017-10-18 Designing oil palm landscapes to retain biodiversity using insights from a key ecological indicator group Claudia Gray|Eleanor Slade|Darren Mann|Owen Lewis Zoological Society of London;|Univeristy of Oxford;|Oxford University Museum of Natural History;|Oxford University
http://dx.doi.org/10.1101/205120 2017-10-18 Multi-band component analysis for EEG artifact removal and source reconstruction with application to gamma-band activity Yaqub Jonmohamadi|Suresh Daniel Muthukumaraswamy The University of Auckland
http://dx.doi.org/10.1101/205054 2017-10-18 CC BY Accurate, Sensitive, and Precise Multiplexed Proteomics using the Complement Reporter Ion Cluster Matthew Sonnett|Eyan Yeung|Martin Wuhr Department of Molecular Biology and the Lewis-Sigler Institute, Princeton University
http://dx.doi.org/10.1101/205112 2017-10-18 CC BY-NC-ND Mid-Infrared Spectroscopy Study of Effects of Neonicotinoids on Forager Honey Bee (Apis mellifera) Fat Bodies and Their Connection to Colony Collapse Disorder Yuzheng Feng|Aryan Luthra|Kaiwen Ding|Yang Yang|Jordan Savage|Xinrui Wei|Roland Moeschter|Sachin Ahuja|Victor Villegas|Bogdana Torbina|Anjuli Ahooja|Tom Ellis|Anna-Maria Boechler|Andrew Roberts Appleby College;|University of Saskatchewan;|University of Western Ontario
http://dx.doi.org/10.1101/205237 2017-10-18 ZmCOL3, a CCT-domain containing gene affects maize adaptation as a repressor and upstream of ZmCCT Minliang Jin|Xiangguo Liu|Wei Jia|Haijun Liu|Wenqiang Li|Yong Peng|Yanfang Du|Yuebin Wang|Yuejia Yin|Xuehai Zhang|Qing Liu|Min Deng|Nan Li|Xiyan Cui|Dongyun Hao|Jianbing Yan Huazhong Agricultural University;|Jilin Academy of Agricultural Sciences;|Jilin Agricultural University
http://dx.doi.org/10.1101/205708 2017-10-18 Maternal SSRI treatment during offspring development results in long-term behavioral, cellular, and neuroimaging disruptions Susan E. Maloney|Rachel Rahn|Shyam Akula|Michael A. Rieger|Katherine B. McCullough|Christine Jakes|Selma Avdagic|Krystal Chandler|Amy L. Bauernfeind|Joseph P. Culver|Joseph D. Dougherty Washington University in St. Louis School of Medicine
http://dx.doi.org/10.1101/195818 2017-10-18 CC BY-NC Periodic variation of mutation rates in bacterial genomes associated with replication timing Marcus M. Dillon|Way Sung|Michael Lynch|Vaughn S. Cooper University of New Hampshire;|University of North Carolina, Charlotte;|Arizona State University;|University of Pittsburgh
http://dx.doi.org/10.1101/203216 2017-10-18 CC BY Camelot -- Intuitive Software for Camera Trap Data Management Heidi Hendry|Christopher Mann foxblueNET;|Bit Pattern
http://dx.doi.org/10.1101/205385 2017-10-18 CC BY-ND Changes in corticospinal excitability associated with motor learning by observing Heather R. McGregor|Michael Vesia|Cricia Rinchon|Robert Chen|Paul Gribble Western University;|University of Michigan;|Toronto Western Hospital;|The University of Western Ontario
http://dx.doi.org/10.1101/205245 2017-10-18 Oscillatory multiplexing indexes precision Laetitia Grabot|Tadeusz W. Kononowicz|Tom Dupre la Tour|Alexandre Gramfort|Valerie Doyere|Virginie van Wassenhove Cognitive Neuroimaging Unit, CEA NeuroSpin;|Telecom ParisTech;|Neuro-PSI;|CEA, DRF/I2BM, NeuroSpin
http://dx.doi.org/10.1101/205203 2017-10-18 CC BY-NC-ND The small molecule KHS101 induces bioenergetic dysfunction in glioblastoma cells through inhibition of mitochondrial HSPD1 Euan S. Polson|Verena B. Kuchler|Christopher Abbosh|Edith M. Ross|Ryan K. Mathew|Hester A. Beard|Eulashini Chuntharpursat-Bon|Jennifer Williams|Barbara Da Silva|Hao Shao|Anjana Patel|Adam J. Davies|Alastair Droop|Hollie B. S. Griffiths|Paul Chumas|Susan C. Short|Mihaela Lorger|Jason Gestwicki|Lee D. Roberts|Robin S. Bon|Simon J. Allison|Shoutian Zhu|Florian Markowetz|Heiko Wurdak University of Leeds;|University of Cambridge;|University of California at San Francisco;|University of Huddersfield;|Leeds General Infirmary;|California Institute for Biomedical Research
http://dx.doi.org/10.1101/205591 2017-10-18 DNA-stabilized silver nanoclusters as specific, ratiometric fluorescent dopamine sensors Jackson Travis Del Bonis-O'Donnell|Ami Thakrar|Jeremy Wain Hirschberg|Daniel Vong|Bridget N. Queenan|Deborah Fygenson|Sumita Pennathur University of California Santa Barbara
http://dx.doi.org/10.1101/205294 2017-10-18 Early urinary candidate biomarkers in a rat model of experimental autoimmune encephalomyelitis Mindi Zhao|Jianqiang Wu|Xundou Li|Youhe Gao Inst. of Basic Med. Sci., Chinese Acad. of Med. Sci.; Peking Union Medical College;|Beijing Normal University
http://dx.doi.org/10.1101/205609 2017-10-18 CC BY Physiological and pathological brain activation in the anesthetized rat produces hemodynamic-dependent cortical temperature increases that can confound the BOLD fMRI signal. Samuel S. Harris|Luke W. Boorman|Devashish Das|Aneurin J. Kennerley|Paul S. Sharp|Chris Martin|Peter Redgrave|Theodore H. Schwartz|Jason Berwick University of Sheffield;|Weill Cornell Medical College
http://dx.doi.org/10.1101/205427 2017-10-18 Analytic combinatorics for bioinformatics I: seeding methods Guillaume J. Filion Center for Genomic Regulation, Barcelona Institute of Science and Technology
http://dx.doi.org/10.1101/205716 2017-10-18 Widespread southern forests during the Last Glacial Maximum, not refugia, explain genetic structure of two eastern North American hickory species Jordan B. Bemmels|Christopher W. Dick University of Michigan
http://dx.doi.org/10.1101/205518 2017-10-18 Polygenic risk score for schizophrenia is not strongly associated with the expression of specific genes or gene sets David Curtis University College London
http://dx.doi.org/10.1101/205724 2017-10-18 CC BY-ND Cooperative recruitment of Yan to paired high affinity ETS sites organizes repression to confer specificity and robustness to cardiac cell fate specification Jean-Francois Boisclair Lachance|Jemma L. Webber|Ilaria Rebay University of Chicago
http://dx.doi.org/10.1101/205526 2017-10-18 CC BY-NC-ND Minimization of muscle activation costs demanded from mechanical work and power accounts for selection of duty factor in human gaits. Grzegorz Sobota|James Richard Usherwood The Jerzy Kukuczka Academy of Physical Education in Katowice;|The Royal Veterinary College, Structure and Motion Laboratory
http://dx.doi.org/10.1101/205575 2017-10-18 Real-time observation of DNA target interrogation and product release by the RNA-guided endonuclease CRISPR Cpf1 Digvijay Singh|John Mallon|Anustup Poddar|Yanbo Wang|Ramreddy Tipanna|Olivia Yang|Scott Bailey|Taekjip Ha Johns Hopkins University School of Medicine;|Johns Hopkins University
http://dx.doi.org/10.1101/205583 2017-10-18 CC BY An Oxidative Pathway of Deoxyribose Catabolism Jayashree Ray|Morgan N. Price|Anthony T. Iavarone|Hans K. Carlson|Elizabeth M. Ryan|Rex R. Malmstrom|Adam P. Arkin|Adam M. Deutschbauer Lawrence Berkeley National Laboratory;|University of California Berkeley;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/205476 2017-10-18 CC BY-ND Default Mode Network patterns and its interactions with memory performance in patients with Temporal Lobe Epilepsy and controls Tamires Araujo Zanao|Tatila Lopes|Brunno Campos|Mateus Henrique Nogueira|Clarissa Lin Yasuda|Fernando Cendes University of Campinas
http://dx.doi.org/10.1101/205690 2017-10-18 Quinary structure kinetically controls protein function and dysfunction Tarique Khan|Tejbir Kandola|Jianzheng Wu|Ellen Ketter|Shriram Venkatesan|Jeffrey J. Lange|Alejandro Rodriguez Gama|Andrew Box|Jay R. Unruh|Malcolm Cook|Randal Halfmann Stowers Institute for Medical Research
http://dx.doi.org/10.1101/205310 2017-10-18 CC BY-ND Bipolar oscillations between positive and negative mood states in a computational model of Basal Ganglia Pragathi Priyadharsini Balasubramani|Srinivasa Chakravarthy University of Rochester;|Indian Institute of Technology Madras
http://dx.doi.org/10.1101/205336 2017-10-18 CC BY-NC Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity Anna R. Last|Harry Pickering|Chrissy Roberts|Francesc Coll|Jody Phelan|Sarah E. Burr|Eunice Cassama|Meno Nabicassa|Helena M. B. Seth-Smith|James Hadfield|Leslie T. Cutliffe|Ian N. Clarke|David C. W. Mabey|Robin L. Bailey|Taane G. Clark|Nick R. Thomson|Martin J. Holland London School of Hygiene and Tropical Medicine;|Programa Nacional de Saude de Visao, Min. de Saude Publ., Bissau, Guinea Bissau;|Pathogen Genomics, Wellcome Trust Sanger Institute;|Molecular Microbiology Group, University of Southampton Medical School
http://dx.doi.org/10.1101/205666 2017-10-18 CC BY-NC-ND Mef2 induction of the immediate early gene Hr38/Nr4a is terminated by Sirt1 to promote ethanol tolerance Pratik Adhikari|Donnoban Orozco|Fred W. Wolf University of California, Merced
http://dx.doi.org/10.1101/205674 2017-10-18 CC BY-NC Stoichiometric balance of protein copy numbers is measurable and functionally significant in a protein-protein interaction network for yeast endocytosis David O. Holland|Margaret E. Johnson Johns Hopkins University
http://dx.doi.org/10.1101/205377 2017-10-18 Immunology CC BY Histone Deacetylase 7 Mediates Tissue-Specific Autoimmunity via Control of Innate Effector Function in Invariant Natural Killer T-Cells Herbert G. Kasler|Intelly S. Lee|Hyung W. Lim|Eric Verdin Buck Institute for Research on Aging;|University of California, San Francisco;|Novartis Institutes for Biomedical Research (NIBR), Inc.;|Buck Institute For Research On Aging
http://dx.doi.org/10.1101/205369 2017-10-18 Immunology CC BY-NC-ND A fast immune priming that confers a complete infection resistance on silkworm (Bombyx mori) Atsushi Miyashita Dalhousie University
http://dx.doi.org/10.1101/204149 2017-10-18 Immunology CC BY-NC-ND The uncertainty of old aliquots of cell lines: e-CAS or m-CAS? Elizabeth Evans|Romain Paillot|Maria Rocio Lopez-Alvarez Animal Health Trust
http://dx.doi.org/10.1101/205401 2017-10-18 Plant Biology Variable impact of Verticillium longisporum on oilseed rape yield in field trials in the United Kingdom Jasper Depotter|Bart Thomma|Tom Wood Wageningen University;|NIAB
http://dx.doi.org/10.1101/205344 2017-10-18 Ecology CC BY-NC-ND Spearfishing promotes a timidity syndrome and increases the safe operating distances in fish Valerio Sbragaglia|Lorenzo Morroni|Lorenzo Bramanti|Boris Weitzmann|Robert Arlinghaus|Ernesto Azzurro Dept. of Biol. & Ecol. of Fishes, Leibniz Inst. of Freshwater Ecology & Inland Fish;|Institute for Environmental Protection and Research;|Sorbonne Universites, Laboratoire d Ecogeochimie des Environnements Benthiques;|Parc Natural del Montgrii, les Illes Medes i el Baix Ter, L Estartit, Catalunya, Spain;|Div. of Integrative Fisheries Management, Humboldt-Universitat zu Berlin, Germany
http://dx.doi.org/10.1101/205211 2017-10-18 Genetics CC BY-NC Gender- and gamete-specific patterns of X chromosome segregation in a three-gendered nematode Sophie Tandonnet|Maureen C. Farrell|Georgios Koutsovoulos|Mark Blaxter|Manish Parihar|Penny L. Sadler|Diane Shakes|Andre Pires da Silva University of Warwick;|College of William and Mary;|University of Edinburgh
http://dx.doi.org/10.1101/205062 2017-10-18 Biophysics Reconstruction of atomistic structures from coarse-grained models for protein-DNA complexes Masahiro Shimizu|Shoji Takada Department of Biophysics, Graduate School of Science, Kyoto University
http://dx.doi.org/10.1101/205260 2017-10-18 Biophysics CC BY A dynamic mechanism for allosteric activation of Aurora kinase A by activation loop phosphorylation Emily F. Ruff|Joseph M. Muretta|Andrew Thompson|Eric W. Lake|Soreen Cyphers|Steven K. Albanese|Sonya M. Hanson|Julie M. Behr|David D. Thomas|John D. Chodera|Nicholas M. Levinson Winona State University;|University of Minnesota;|ProtaTek International;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/198804 2017-10-18 Neuroscience CC BY-NC-ND How we learn things we don't know already: A theory of learning structured representations from experience Leonidas A. A. Doumas|Guillermo Puebla|Andrea E. Martin University of Edinburgh;|Max Planck Institute for Psycholinguistics
http://dx.doi.org/10.1101/205161 2017-10-18 Biophysics CC BY Single-molecule diffusion-based estimation of GPCR activity Masataka Yanagawa|Michio Hiroshima|Yuichi Togashi|Takahiro Yamashita|Yoshinori Shichida|Masayuki Murata|Masahiro Ueda|Yasushi Sako RIKEN;|RIKEN Quantitative Biology Center;|Hiroshima University;|Kyoto University;|Ritsumeikan University;|The University of Tokyo;|RIKEN Quantitative Biology Center, Osaka University
http://dx.doi.org/10.1101/205302 2017-10-18 Evolutionary Biology Plasmodium vivax-like genome sequences shed new insights into Plasmodium vivax biology and evolution Aude Gilabert|Thomas Otto|Gavin Rutledge|Blaise Franzon|Benjamin Ollomo|Celine Arnathau|Patrick Durand|Nancy Moukodoum|Alain-Prince Okouga|Barthelemy Ngoubangoye|Boris Makanga|Larson Boudenga|Francisco Ayala|Christophe Paupy|Francois Renaud|Franck Prugnolle|Virginie Rougeron MIVEGEC, Montpellier, France;|University of Glasgow, College of Medical, Veterinary & Life Sciences;|Wellcome Trust Genome Campus, Cambridge, UK;|CIRMF, Gabon;|Department of Ecology and Evolutionary Biology, University of California, Irvine
http://dx.doi.org/10.1101/205435 2017-10-18 Genetics CC BY-NC Distinguishing genetic correlation from causation across 52 diseases and complex traits Luke O'Connor|Alkes L. Price Harvard University;|Harvard School of Public Health
http://dx.doi.org/10.1101/205443 2017-10-18 Genomics First draft genome assembly of an iconic clownfish species (Amphiprion frenatus) Anna Marcionetti|Victor Rossier|Joris A. M. Bertrand|Glenn Litsios|Nicolas Salamin University of Lausanne
http://dx.doi.org/10.1101/188367 2017-10-18 Genomics CC BY-NC mcSCRB-seq: sensitive and powerful single-cell RNA sequencing Johannes W. Bagnoli|Christoph Ziegenhain|Aleksandar Janjic|Lucas E. Wange|Beate Vieth|Swati Parekh|Johanna Geuder|Ines Hellmann|Wolfgang Enard Ludwig-Maximilians University Munich
http://dx.doi.org/10.1101/205880 2017-10-19 Pharmacology and Toxicology Enhanced intestinal reabsorption due to reduced metabolism of ceftriaxone Tapas Kumar Sar|Indranil Samanta|Rabindra Nath Hansda|Rinku Buragohain|Tapan Kumar Mandal West Bengal University of Animal and Fishery Sciences
http://dx.doi.org/10.1101/205187 2017-10-19 Developmental Biology CC BY-NC-ND Jak-Stat pathway induces Drosophila follicle elongation by a gradient of apical contractility Herve Alegot|Pierre Pouchin|Olivier Bardot|Vincent Mirouse GReD Laboratory
http://dx.doi.org/10.1101/205542 2017-10-19 Bioinformatics The response to selection in Glycoside Hydrolase Family 13 structures: A comparative quantitative genetics approach Jose Sergio Hleap|Christian Blouin McGill University;|Dalhousie University
http://dx.doi.org/10.1101/206003 2017-10-19 Neuroscience CC BY-NC-ND Signposts in the fog: Objects facilitate scene representations in left scene-selective cortex Talia Brandman|Marius V. Peelen University of Trento;|Radboud University
http://dx.doi.org/10.1101/206045 2017-10-19 Neuroscience CC BY-NC-ND Mathematical modelling of cortical neurogenesis reveals that the founder population does not necessarily scale with neuronal output Noemi Picco|Fernando Garcia-Moreno|Thomas Woolley|Philip Maini|Zoltan Molnar University of Oxford, UK;|Achucarro Basque Center for Neuroscience, Spain;|Cardiff University, UK
http://dx.doi.org/10.1101/195297 2017-10-19 Biochemistry Fibril branching dominates self-assembly of mutant huntingtin exon-1 aggregates in vitro Anne S. Wagner|Antonio Z. Politi|Anne Steinhof|Kenny Bravo-Rodriguez|Alexander Buntru|Nadine U. Strempel|Lydia Brusendorf|Christian Haenig|Annett Boeddrich|Stephanie Plassmann|Juan M. Ramirez-Anguita|Katharina Baum|Elsa Sanchez-Garcia|Jana Wolf|Erich E. Wanker Max Delbrueck Center for Molecular Medicine, Germany;|Max-Planck-Institut fuer Kohlenforschung, Germany
http://dx.doi.org/10.1101/197673 2017-10-19 Biophysics CC BY-NC-ND Lipid-protein interplay in dimerization of the juxtamembrane domains of epidermal growth factor receptor Ryo Maeda|Takeshi Sato|Kenji Okamoto|Masataka Yanagawa|Yasushi Sako RIKEN;|Kyoto Pharmaceutical University
http://dx.doi.org/10.1101/205815 2017-10-19 Cell Biology Two spatially distinct Kinesin-14 Pkl1 and Klp2 generate collaborative inward forces against Kinesin-5 Cut7 in S. pombe Masashi Yukawa|Yusuke Yamada|Tomoaki Yamauchi|Takashi Toda Hiroshima University
http://dx.doi.org/10.1101/205740 2017-10-19 Bioinformatics CC BY-NC Juicebox.js provides a cloud-based visualization system for Hi-C data James Robinson|Douglass Turner|Neva C. Durand|Helga Thorvaldsdottir|Jill P. Mesirov|Erez Lieberman Aiden School of Medicine, University of California San Diego, La Jolla, CA;|The Center for Genome Architecture, Baylor College of Medicine, Houston, TX;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/205104 2017-10-19 Neuroscience The representation of colored objects in macaque color patches Le Chang|Pinglei Bao|Doris Tsao California Institute of Technology
http://dx.doi.org/10.1101/145052 2017-10-19 Immunology CC BY-NC Signatures of Selection in the Human Antibody Repertoire: Selective Sweeps, Competing Subclones, and Neutral Drift Felix Horns|Christopher Vollmers|Cornelia L. Dekker|Stephen R. Quake Stanford University;|UC Santa Cruz
http://dx.doi.org/10.1101/205971 2017-10-19 Systems Biology CC BY-NC-ND Massively parallel single cell lineage tracing using CRISPR/Cas9 induced genetic scars Bastiaan Spanjaard|Bo Hu|Nina Mitic|Jan Philipp Junker MDC Berlin, Berlin Institute for Medical Systems Biology
http://dx.doi.org/10.1101/205484 2017-10-19 Genetics Estimating barriers to gene flow from distorted isolation by distance patterns Harald Ringbauer|Alexander Kolesnikov|David Field|Nicholas H. Barton IST Austria;|University of Vienna
http://dx.doi.org/10.1101/205823 2017-10-19 Biochemistry DNA unwinding is the primary determinant of CRISPR-Cas9 activity Shanzhong Gong|Helen Hong Yu|Kenneth A. Johnson|David W. Taylor University of Texas at Austin
http://dx.doi.org/10.1101/205849 2017-10-19 Genetics CC BY-ND Distinct Epigenomic Patterns Are Associated with Haploinsufficiency and Predict Risk Genes of Developmental Disorders Xinwei Han|Siying Chen|Elise D. Flynn|Dana Wintner|Yufeng Shen Columbia University;|Cornell University
http://dx.doi.org/10.1101/202556 2017-10-19 Cell Biology Myosin IIA interacts with the spectrin-actin membrane skeleton to control red blood cell membrane curvature and deformability Alyson S Smith|Roberta B Nowak|Sitong Zhou|Michael Gianetto|David S Gokhin|Julien Papoin|Ionita C Ghiran|Lionel Blanc|Jiandi Wan|Velia M Fowler The Scripps Research Institute;|Rochester Institute of Technology;|The Feinstein Institute for Medical Research;|Beth Israel Deaconess Medical Center;|The Feinstein Institute for Medical Research, Hofstra-Northwell School of Medicine
http://dx.doi.org/10.1101/206185 2017-10-19 optSelect: using agent-based modeling and binary PSO techniques for ensemble feature selection and stability assessment Karan Uppal|Eva K. Lee Emory University;|Georgia Institute of Technology
http://dx.doi.org/10.1101/205930 2017-10-19 Normative Brain Size Variation and the Remodeling of Brain Shape in Humans Paul K. Reardon|Simon N. Vandekar|Siyuan Liu|Raihaan Patel|Min Tae M. Park|Aaron Alexander-Bloch|Jakob Seidlitz|Liv S. Clasen|Jonathan D. Blumenthal|Jay N. Giedd|Ruben C. Gur|Raquel E. Gur|Jason P. Lerch|M. Mallar Chakravarty|Theodore D. Satterthwaite|Russel T. Shinohara|Armin Raznahan NIMH;|University of Pennsylvania, Philadelphia;|McGill University, Montreal, Quebec, Canada;|Schulich School of Medicine and Dentistry, Western University;|Yale University;|UCSD;|University of Pennsylvania;|Hospital for Sick Children, Toronto, ON, Canada;|Douglas Mental Health University Institute, Montreal, Quebec, Canada
http://dx.doi.org/10.1101/205773 2017-10-19 CC BY-NC-ND Monovalent ions modulate the flux through multiple folding pathways of an RNA pseudoknot Jorjethe Roca|Naoto Hori|Yogambigai Velmurugu|Ranjani Narayanan|Prasanth Narayanan|Dave Thirumalai|Anjum Ansari University of Illinois at Chicago;|University of Texas at Austin
http://dx.doi.org/10.1101/206532 2017-10-19 CC BY-NC A Unified Statistical Framework for Single Cell and Bulk RNA Sequencing Data Lingxue Zhu|Jing Lei|Bernie Devlin|Kathryn Roeder Carnegie Mellon University;|University of Pittsburgh School of Medicine
http://dx.doi.org/10.1101/205559 2017-10-19 CC BY-NC-ND Mast Cells in the Developing Brain Determine Adult Sexual Behavior Kathryn M. Lenz|Lindsay A. Pickett|Christopher L. Wright|Katherine T. Davis|Anabel Galan|Margaret M. McCarthy The Ohio State University;|University of Maryland School of Medicine
http://dx.doi.org/10.1101/205997 2017-10-19 CC BY Lipid mediator class-switching downstream of PGE2 determines the outcome of inflammation resolution in vivo. Catherine A. Loynes|Jou A. Lee|Anne L. Robertson|Michael J. G. Steel|Felix Ellett|Yi Feng|Bruce D. Levy|Moira K. Whyte|Stephen A. Renshaw IICD, Medical School, University of Sheffield, Beech Hill Road, Sheffield, UK;|Div. of Hematology & Oncology, Boston Childrens Hospital & Harvard Med. School;|BioMEMS Resource Ctr., Mass. General Hosp., Shriners Burns Hosp.;|Medical Res. Council Ctr. for Inflammation Research, Queens Medical Research Inst.;|Department of Medicine, Brigham and Womens Hospital, Boston, MA 02115, USA;|Medical Res. Council Ctr. for Inflammation Research, Queens Medical Res. Inst.
http://dx.doi.org/10.1101/206441 2017-10-19 CC BY-NC-ND spe-43 is required for sperm activation in C. elegans Amber R Krauchunas|Ernesto Mendez|Julie Zhouli Ni|Marina Druzhinina|Amanda Mulia|Jean Parry|Sam Guoping Gu|Gillian M Stanfield|Andrew Singson Rutgers University;|University of Utah
http://dx.doi.org/10.1101/206078 2017-10-19 CC BY-ND Demographic fluctuation of community-acquired antibiotic-resistant Staphylococcus aureus lineages: potential role of flimsy antibiotic exposure Claude-Alexandre Gustave|Anne Tristan|Patricia Martins-Simoes|Marc Stegger|Yvonne Benito|Paal Skytt Andersen|Michele Bes|Philippe Glaser|Frederic Laurent|Thierry Wirth|Francois Vandenesch CIRI;|Statens Serum Institut;|Pasteur Institute;|Museum d'Histoire Naturelle EPHE
http://dx.doi.org/10.1101/206417 2017-10-19 CC BY Neural decoding of bistable sounds reveals an effect of intention on perceptual organization Alexander J. Billig|Matthew H. Davis|Robert P. Carlyon MRC Cognition and Brain Sciences Unit, University of Cambridge, Cambridge, UK
http://dx.doi.org/10.1101/206300 2017-10-19 CC BY-NC-ND Roosting in exposed microsites by a nocturnal bird, the rufous-cheeked nightjar: implications for water balance under current and future climate conditions Ryan Sean O'Connor|Mark Brigham|Andrew McKechnie University of Pretoria;|University of Regina
http://dx.doi.org/10.1101/206292 2017-10-19 CC BY-NC-ND Mapping the human brain's cortical-subcortical functional network organization Marjolein Spronk|Jie Lisa Ji|Kaustubh Kulkarni|Grega Repovs|Alan Anticevic|Michael W. Cole Rutgers University-Newark;|Yale University;|University of Ljubljana
http://dx.doi.org/10.1101/206193 2017-10-19 SEACOIN2.0: an interactive mining and visualization tool for information retrieval, summarization, and knowledge discovery Karan Uppal|Eva K. Lee Emory University;|Georgia Institute of Technology
http://dx.doi.org/10.1101/206250 2017-10-19 CC BY Confronting the elephant in the room - verbal paired associates and the hippocampus Ian A. Clark|Misun Kim|Eleanor A. Maguire University College London
http://dx.doi.org/10.1101/206110 2017-10-19 Enhanced Astrocyte Responses are Driven by a Genetic Risk Allele Associated with Multiple Sclerosis Gerald Ponath|Matthew R. Lincoln|Somiah Dahlawi|Mayyan Mubarak|Tomokazu Sumida|Laura Arias|Shun Zhang|Cigdem Isitan|Thanh D. Nguyen|Cedric S. Raine|David A. Hafler|David Pitt Department of Neurology, Yale School of Medicine, New Haven, CT 06511, USA;|Division of Clinical Neurosciences, University of Turku, Turku, Finland;|Department of Radiology, Weill Cornell Medical College, New York, NY 10021, USA;|Dept. of Pathology, Albert Einstein College of Medicine, Bronx, NY 10461, USA
http://dx.doi.org/10.1101/206284 2017-10-19 CC BY-ND The relationship between reinforcement and explicit strategies during visuomotor adaptation Olivier Codol|Peter J Holland|Joseph M Galea University of Birmingham
http://dx.doi.org/10.1101/206151 2017-10-19 CC BY-NC-ND Memory consolidation is linked to spindle-mediated information processing during sleep Scott A. Cairney|Anna Guttesen|Nicole El Marj|Bernhard P. Staresina University of York;|University of Birmingham
http://dx.doi.org/10.1101/206128 2017-10-19 CC BY-NC-ND Do adolescents take more risks? Not when facing a novel uncertain situation Noemi Elteto|Karolina Janacsek|Andrea Kobor|Adam Takacs|Eszter Toth-Faber|Dezso Nemeth Eotvos Lorand University, Budapest, Hungary;|Hungarian Academy of Sciences, Budapest, Hungary;|University of Glasgow, Glasgow, United Kingdom
http://dx.doi.org/10.1101/205781 2017-10-19 CC BY-NC-ND The effect of stimulation interval on plasticity following repeated blocks of intermittent theta burst stimulation Nga Yan Tse|Mitchell R. Goldsworthy|Michael C. Ridding|James P. Coxon|Paul B. Fitzgerald|Alex Fornito|Nigel Rogasch Monash University;|University of Adelaide
http://dx.doi.org/10.1101/205807 2017-10-19 A molecular network of the aging brain implicates INPPL1 and PLXNB1 in Alzheimer's disease Sara Mostafavi|Chris Gaiteri|Sarah Sullivan|Charles White|Shinya Takasi|Jishu Xu|Mariko Taga|Hans Klein|Ellis Patrick|Vitalina Komashko|Cristin McCable|Robert Smith|Elizabeth Bradshaw|David Root|Lei Yu|Aviv Regev|Lori Chibnik|Julie Schneider|Tracy Young-Pearse|Davi Bennett|Philip De Jager University of British Columbia;|Rush University;|Harvard Medical School;|Broad Institute;|Columbia University;|University of Sydney;|Brigham and Womens Hospital;|Broad Insitute;|Harvard University
http://dx.doi.org/10.1101/206219 2017-10-19 CC BY-NC-ND Taxon disappearance from microbiome analysis indicates need for mock communities as a standard in every sequencing run Yi-Chun Yeh|David Needham|Ella Sieradzki|Jed Fuhrman University of Southern California
http://dx.doi.org/10.1101/206086 2017-10-19 CC BY-NC-ND Temporal metacognition as the decoding of self-generated brain dynamics Tadeusz Wladyslaw Kononowicz|Clemence Roger|Virginie van Wassenhove Cognitive Neuroimaging Unit, CEA DRF/Joliot, INSERM, Universite Paris-Sud;|University of Lille, CNRS
http://dx.doi.org/10.1101/206029 2017-10-19 CC BY-NC-ND Topographical and spectral signatures of infant and adult movement artifacts in naturalistic EEG Stanimira Georgieva|Suzannah Lester|Meryem Yilmaz|Sam Wass|Victoria Leong University of Cambridge;|University of East London
http://dx.doi.org/10.1101/205153 2017-10-19 CC BY-NC Predicting the genetic loci of past evolution Virginie Courtier-Orgogozo|Arnaud Martin Institut Jacques Monod;|The George Washington University
http://dx.doi.org/10.1101/205799 2017-10-19 CC BY-NC-ND Adapterama III: Quadruple-indexed, triple-enzyme RADseq libraries for about $1USD per Sample (3RAD) Travis C. Glenn|Natalia J. Bayona-Vasquez|Troy J. Kieran|Todd W. Pierson|Sandra L. Hoffberg|Peter A. Scott|Kerin E. Bentley|John W. Finger|Patrick R. Watson|Swarnali Louha|Nick Troendle|Pindaro Diaz-Jaimes|Rodney Mauricio|Brant C. Faircloth Dept. of Environmental Health Science, University of Georgia;|Dept. of Environmental Health Sciences, University of Georgia;|Dept. of Ecology and Evolutionary Biology, University of Tennessee;|Dept. of Ecology, Evolution and Environmental Biology, Columbia University;|Dept. of Ecology and Evolutionary Biology, University of California;|Department of Genetics, University of Georgia;|Department of Biological Sciences, Auburn University;|Department of Science and Mathematics, MidAmerica Nazarene University;|Inst. de Ciencias del Mar y Limnologia, Universidad Nacional Autonoma de Mexico;|Dept. of Genetics, University of Georgia;|Dept. of Biological Sciences and Museum of Natural Science, Louisiana State Univ.
http://dx.doi.org/10.1101/205450 2017-10-19 Ongoing brain rhythms shape I-wave properties in a computational model Natalie Schaworonkow|Jochen Triesch Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/205906 2017-10-19 Two distinct DNA sequences recognized by transcription factors represent enthalpy and entropy optima Ekaterina Morgunova|Yimeng Yin|Arttu Jolma|Alexander Popov|You Xu|Lennart Nilsson|Jussi Taipale Karolinska Institutet, Sweden;|Toronto University, Canada;|European Synchrotron Radiation Facility, Grenoble, France;|University of Cambridge, United Kingdom
http://dx.doi.org/10.1101/206052 2017-10-19 RNA velocity in single cells Gioele La Manno|Ruslan Soldatov|Hannah Hochgerner|Amit Zeisel|Viktor Petukhov|Maria Kastriti|Peter Lonnerberg|Alessandro Furlan|Jean Fan|Zehua Liu|David van Bruggen|Jimin Guo|Erik Sundstrom|Goncalo Castelo-Branco|Igor Adameyko|Sten Linnarsson|Peter Kharchenko Karolinska Institutet;|Harvard Medical School;|Peter The Great St. Petersburg Polytechnic University
http://dx.doi.org/10.1101/205021 2017-10-19 CC BY-NC-ND Association of Polygenic Risk Scores for Multiple Cancers in a Phenome-wide Study: Results from The Michigan Genomics Initiative Lars G. Fritsche|Stephen B. Gruber|Zhenke Wu|Ellen M. Schmidt|Matthew Zawistowski|Stephanie E. Moser|Victoria M. Blanc|Chad M. Brummett|Sachin Kheterpal|Goncalo R. Abecasis|Bhramar Mukherjee University of Michigan School of Public Health;|USC Norris Comprehensive Cancer Center;|University of Michigan Medical School
http://dx.doi.org/10.1101/199836 2017-10-19 CC BY Multimodal cell tracking from systemic administration to tumour growth by combining gold nanorods and reporter genes Joan Comenge|Jack Sharkey|Oihane Fragueiro|Bettina Wilm|Mathias Brust|Patricia Murray|Raphael Levy|Antonius Plagge University of Liverpool
http://dx.doi.org/10.1101/205765 2017-10-19 CC BY-NC-ND The plant calcium-dependent protein kinase CPK3 phosphorylates REM1.3 to restrict viral infection Artemis Perraki|Julien Gronnier|Paul Gouguet|Marie Boudsocq|Anne-Flore Deroubaix|Vincent Simon|Sylvie German-Retana|Cyril Zipfel|Emmanuelle Bayer|Sebastien Mongrand|Veronique Germain CNRS, Laboratoire de Biogenese Membranaire (LBM);|Institute of Plant Sciences Paris Saclay (IPS2), CNRS, INRA;|Equipe de Virologie UMR BFP 1332 INRA;|The Sainsbury Laboratory
http://dx.doi.org/10.1101/205948 2017-10-19 COPD lungs show an attached stratified mucus layer resembling the protective colonic mucus Joan Fernandez-Blanco|Liisa Arike|Anna Ermund|Dalia Fakih|Ana Rodriguez|Beatriz Abad|Elin Skansebo|Sonya Jackson|James Root|Dave Singh|Christopher McCrae|Christopher Evans|Annika Astrand|Gunnar C. Hansson University of Gothenburg;|AstraZeneca;|University of Denver
http://dx.doi.org/10.1101/205831 2017-10-19 CC BY Emergent Simplicity in Microbial Community Assembly Joshua E. Goldford|Nanxi Lu|Djordje Bajic|Sylvie Estrela|Mikhail Tikhonov|Alicia Sanchez-Gorostiaga|Daniel Segre|Pankaj Mehta|Alvaro Sanchez Boston University;|Yale University;|Stanford University
http://dx.doi.org/10.1101/204503 2017-10-19 CC BY-NC-ND Complete assembly of a dengue virus type 3 genome from a recent genotype III clade by metagenomic sequencing of serum Chitra Pattabiraman|Mary Dias|Shilpa Siddappa|Malali Gowda|Anita Shet|Derek Smith|Barbara Muehlemann|Krishnapriya Tamma|Tom Solomon|Terry Jones|Sudhir Krishna National Institute of Mental Health and Neurosciences, Bangalore 560029, India;|St. John's Medical College and Hospital, Bangalore 560034, India;|Centre for Cellular And Molecular Platforms, Bangalore 560065, India;|Transdiscplinary Univ., Foundation for Revitalization of Local Health Traditions;|Johns Hopkins Bloomberg School of Public Health, Baltimore, MD 21205, USA;|Center for Pathogen Evolution, Department of Zoology, University of Cambridge;|Indian Institute of Sciences, Bangalore, India;|Institute of Infection and Global Health, University of Liverpool;|National Centre for Biological Sciences, TIFR, Bangalore, India
http://dx.doi.org/10.1101/206268 2017-10-19 Cryo-EM Reveals the Structural Basis of Microtubule Depolymerization by Kinesin-13s Matthieu P. M. H. Benoit|Ana Belen Asenjo|Hernando Sosa Albert Einstein College of Medicine;|Albert Einstein Collge of Medicine
http://dx.doi.org/10.1101/205864 2017-10-19 Evidence of non-tandemly repeated rDNAs and their intragenomic heterogeneity in Rhizophagus irregularis Taro Maeda|Yuuki Kobayashi|Hiromu Kameoka|Nao Okuma|Naoya Takeda|Katsushi Yamaguchi|Takahiro Bino|Shuji Shigenobu|Masayoshi Kawaguchi National Institute for Basic Biology;|Kwansei Gakuin University
http://dx.doi.org/10.1101/206243 2017-10-19 CC BY-NC-ND Electrostatic Tuning of a Potassium Channel in Electric Fish Immani Swapna|Alfredo Ghezzi|Michael R. Markham|D. Brent Halling|Ying Lu|Jason Gallant|Harold Zakon Department of Neuroscience, The University of Texas Austin;|Department of Biology, The University of Oklahoma;|Department of Integrative Biology, Michigan State University
http://dx.doi.org/10.1101/206094 2017-10-19 CC BY-NC-ND Locus-Specific Enhancer Hubs And Architectural Loop Collisions Uncovered From Single Allele DNA Topologies Amin Allahyar|Carlo Vermeulen|Britta Bouwman|Peter Krijger|Marjon Verstegen|Geert Geeven|Melissa van Kranenburg|Mark Pieterse|Roy Straver|Judith Haarhuis|Hans Teunissen|Ivo Renkens|Wigard Kloosterman|Benjamin Rowland|Elzo de Wit|Jeroen de Ridder|Wouter de Laat University Medical Center Utrecht;|Hubrecht Institute;|Netherlands Cancer Institute
http://dx.doi.org/10.1101/204420 2017-10-19 CC BY-ND Barriers to Integration of Bioinformatics into Undergraduate Life Sciences Education Jason Williams|Jennifer Drew|Sebastian Galindo-Gonzalez|Srebrenka Robic|Elizabeth Dinsdale|William Morgan|Eric Triplett|James Burnette|Sam Donovan|Sarah Elgin|Edison Fowlks|Anya Goodman|Neal Grandgenett|Carlos Goller|Charles Hauser|John R. Jungck|Jeffrey Newman|William Pearson|Elizabeth Ryder|Melissa Wilson Sayres|Michael Sierk|Todd Smith|Rafael Tosado-Acevedo|William Tapprich|Tammy Tobin|Arlin Toro-Martinez|Lonnie Welch|Robin Wright|David Ebenbach|Mindy McWilliams|Anne Rosenwald|Mark Pauley Cold Spring Harbor Laboratory;|University of Florida, Gainesville;|Agnes Scott College;|San Diego State University;|College of Wooster;|University of California, Riverside;|University of Pittsburgh;|Washington University in St. Louis;|Hampton University;|California Polytechnic State University;|University of Nebraska at Omaha;|North Carolina State University;|St. Edward's University;|University of Delaware;|Lycoming College;|University of Virginia School of Medicine;|Worcester Polytechnic Institute;|Arizona State University;|Saint Vincent College;|Digital World Biology;|Centers for Disease Control and Prevention;|Susquehanna University;|Inter American University of Puerto Rico;|Ohio University;|University of Minnesota;|Georgetown University
http://dx.doi.org/10.1101/206037 2017-10-19 Genetic analysis of de novo variants reveals sex differences in complex and isolated congenital diaphragmatic hernia and indicates MYRF as a candidate gene Hongjian Qi|Lan Yu|Xueya Zhou|Alexander Kitaygorodsky|Julia Wynn|Na Zhu|Gudrun Aspelund|Foong Yen Lim|Timothy Crombleholme|Robert Cusick|Kenneth Azarow|Melissa Ellen Danko|Dai Chung|Brad W. Warner|George B. Mychaliska|Douglas Potoka|Amy J. Wagner|Mahmoud ElFiky|Jay M. Wilson|Frances A. High|Mauro Longoni|Patricia Donahoe|Wendy K. Chung|Yufeng Shen Department of Systems Biology, Columbia University, New York, NY, USA;|Department of Pediatrics, Columbia University, New York, NY, USA;|Department of Biomedical Informatics, Columbia University, New York, NY 10032;|Department of Surgery, Columbia University Medical Center, New York, NY, USA;|Cincinnati Children's Hospital, Cincinnati, OH, USA;|Childrens Hospital & Medical Center of Omaha, Univ. of Nebraska Coll. of Medicine;|Department of Surgery, Oregon Health & Science University, Portland, OR, USA;|Monroe Carell Jr. Childrens Hospital, Vanderbilt University Medical Center, Nashville;|Washington University, St. Louis Children's Hospital, St. Louis, MO, USA;|University of Michigan, CS Mott Children's Hospital, Ann Arbor, MI, USA;|Children's Hospital of Pittsburgh, Pittsburgh, PA, USA;|Medical College of Wisconsin, Milwaukee, WI, USA;|Department of Pediatric Surgery, Faculty of Medicine, Cairo University, Cairo, Egypt;|Department of Surgery, Boston Children's Hospital, Boston, MA, USA;|Department of Surgery, Harvard Medical School, MA, USA;|Pediatric Surgical Research Lab., Dept. of Surgery, Massachusetts General Hospital;|JP Sulzberger Columbia Genome Center, Columbia University, New York, NY, USA
http://dx.doi.org/10.1101/205500 2017-10-19 A CRISPR-Cas9 Genome Engineering Platform in Primary CD4+ T Cells for the Interrogation of HIV Host Factors Judd F. Hultquist|Joseph Hiatt|Kathrin Schumann|Michael J. McGregor|Theodore L. Roth|Paige Haas|Jennifer Doudna|Alexander Marson|Nevan J. Krogan J. David Gladstone Institutes;|University of California-San Francisco;|University of California-Berkeley
http://dx.doi.org/10.1101/206144 2017-10-19 Human pluripotent reprogramming with CRISPR activators Jere Weltner|Diego Balboa|Shintaro Katayama|Maxim M. Bespalov|Kaarel Krjutskov|Eeva-Mari Jouhilahti|Ras Trokovic|Juha Kere|Timo Otonkoski University of Helsinki;|Karolinska Institutet
http://dx.doi.org/10.1101/205914 2017-10-19 Multiple interactions between Scc1 and Scc2 activate cohesin's DNA dependent ATPase and replace Pds5 during loading Naomi Petela|Thomas G. Gligoris|Jean S. Metson|Byung-Gil Lee|Menelaos Voulgaris|Bin Hu|Sotaro Kikuchi|Christophe Chapard|Wentao Chen|Eeson Rajendra|Madhusudhan Srinivisan|Hongtao Yu|Jan Lowe|Kim Nasmyth University of Oxford;|Department of Biochemistry, University of Oxford;|MRC Laboratory of Molecular Biology, Cambridge;|Department of Molecular Biology and Biotechnology, University of Sheffield;|HHMI, Dept. of Pharmacology, Univ. of Texas Southwestern Medical Center;|Nuffield Department of Medicine, University of Oxford
http://dx.doi.org/10.1101/205989 2017-10-19 Inflammatory Cellular Response To Mechanical Ventilation In Elastase-Induced Experimental Emphysema: Role Of Pre-Existing Alveolar Macrophages Infiltration Anahita Rouze|Guillaume Voiriot|Elise Guivarch|Francoise Roux|Jeanne Tran Van Nhieu|Daniel Isabey|Laurent Brochard|Bernard Maitre|Armand Dessap|Jorge Boczkowski INSERM U955
http://dx.doi.org/10.1101/205534 2017-10-19 CC BY-NC Simultaneous single-cell profiling of lineages and cell types in the vertebrate brain by scGESTALT Bushra Raj|Daniel E. Wagner|Aaron McKenna|Shristi Pandey|Allon M. Klein|Jay Shendure|James A. Gagnon|Alexander F. Schier Harvard University;|Harvard Medical School;|University of Washington
http://dx.doi.org/10.1101/205658 2017-10-19 HuD is a neural enhancer of global translation acting on mTORC1-responsive genes and sponged by the Y3 small non-coding RNA Paola Zuccotti|Toma Tebaldi|Daniele Peroni|Marcel Kohn|Lisa Gasperini|Valentina Potrich|Tatiana Dudnakova|Guido Sanguinetti|Luciano Conti|Paolo Macchi|David Tollervey|Stefan Huttelmaier|Alessandro Quattrone Centre for Integrative Biology, University of Trento, Italy;|Institute of Molecular Medicine, Martin-Luther-University Halle-Wittenberg, Germany;|Wellcome Trust Centre for Cell Biology, University of Edinburgh, United Kingdom;|School of Informatics, University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/205856 2017-10-19 Epidemiology CC BY-NC Long-Term Leisure-Time Physical Activity and Other Health Habits as Predictors of Objectively Monitored Late-Life Physical Activity: A 40-Year Twin Study Katja Waller|Henri Vaha-Ypya|Timo Tormakangas|Pekka Hautasaari|Noora Lindgren|Paula Iso-Markku|Kauko Heikkila|Juha Rinne|Jaakko Kaprio|Harri Sievanen|Urho M. Kujala University of Jyvaskyla;|UKK Institute;|University of Turku;|University of Helsinki;|Institute for Molecular Medicine Finland
http://dx.doi.org/10.1101/204461 2017-10-19 Epidemiology Diabetes mellitus is associated with increased prevalence of latent tuberculosis infection: Results from the National Health and Nutrition Examination Survey Marissa M Barron|Kate M Shaw|Kai McKeever Bullard|Mohammed K Ali|Matthew J Magee Division of Epidemiology and Biostatistics, School of Public Health, Georgia State University;|US Centers for Disease Control and Prevention;|Hubert Department of Global Health, Rollins School of Public Health, Emory University
http://dx.doi.org/10.1101/203265 2017-10-19 Epidemiology CC BY-NC Influenza Interaction with Cocirculating Pathogens, and Its Impact on Surveillance, Pathogenesis and Epidemic Profile: A Key Role for Mathematical Modeling Lulla Opatowski|Marc Baguelin|Rosalind Eggo Institut Pasteur, Paris, France;|Public Health England, UK;|London School of Hygiene & Tropical Medicine
http://dx.doi.org/10.1101/207043 2017-10-20 Context-invariant encoding of reward location in a distinct hippocampal population Jeffrey L. Gauthier|David W. Tank Princeton University
http://dx.doi.org/10.1101/203166 2017-10-20 Deep profiling of mouse splenic architecture with CODEX multiplexed imaging. Yury Goltsev|Nikolay Samusik|Julia Kennedy-Darling|Salil Bhate|Matthew Hale|Gustavo Vasquez|Garry Nolan Stanford University School of Medicine;|Smart Tube, Inc.
http://dx.doi.org/10.1101/207019 2017-10-20 CC BY Balancing Strengths and Weaknesses in Dimensional Psychiatry Lindsay M. Alexander|Giovanni Salum|James M. Swanson|Michael P. Milham Child Mind Institute;|Universidade Federal do Rio Grande do Sul;|University of California Irvine
http://dx.doi.org/10.1101/207001 2017-10-20 HSP90 inhibitors disrupt a transient HSP90-HSF1 interaction and identify a noncanonical model of HSP90-mediated HSF1 regulation Toshiki Kijima|Thomas L. Prince|Megan Tigue|Kendrick Yim|Harvey Schwartz|Kristin Beebe|Sunmin Lee|Marek Budzynski|Heinric Williams|Jane Trepel|Lea Sistonen|Stuart K. Calderwood|Len Neckers Urologic Oncology Branch, Center for Cancer Research, National Cancer Institute;|Urology Department, Geisinger Clinic, WCR 221, Danville, PA;|Developmental Therapeutics Branch, Center for Cancer Research, NCI, Bethesda;|Faculty of Science & Engineering, Cell Biology, Abo Akademi University, BioCity;|Faculty of Science and Engineering, Cell Biology, Abo Akademi University, BioCity;|Radiation Oncology, Harvard Medical School, Beth Israel Deaconess Medical Center
http://dx.doi.org/10.1101/206375 2017-10-20 The scent of the fly Paul G. Becher|Sebastien Lebreton|Erika A. Wallin|Erik Hedenstrom|Felipe Borrero-Echeverry|Marie Bengtsson|Volker Jorger|Peter Witzgall Dept. Plant Protection, SLU;|Dept. Chemical Engineering, Mid Sweden University;|Biological Control Laboratory, Colombian Corporation of Agricultural Research;|Dept. Plant Protection
http://dx.doi.org/10.1101/206961 2017-10-20 Vulnerabilities of transcriptome-wide association studies Michael Wainberg|Nasa Sinnott-Armstrong|David Knowles|David Golan|Raili Ermel|Arno Ruusalepp|Thomas Quertermous|Ke Hao|Johan L. M. Bjorkegren|Manuel A. Rivas|Anshul Kundaje Stanford University;|Tartu University Hospital;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/206953 2017-10-20 CC BY-NC-ND Dynamic Architecture of DNA Repair Complexes and the Synaptonemal Complex at Sites of Meiotic Recombination Alexander Woglar|Anne M. Villeneuve Stanford University
http://dx.doi.org/10.1101/202234 2017-10-20 CC BY Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests different ecological niches Isaac Darko Otchere|Mireia Coscolla|Leonor Sanchez-Buso|Adwoa Asante-Poku|Conor Meehan|Stephen Osei-Wusu|Audrey Forson|Clement Laryea|Abdallah Iddrisu Yahayah|Akosua Baddoo|Samuel Yaw Aboagye|Prince Asare|Chloe Loiseau|Daniela Brites|Sonia Borrell|Florian Gehre|Patrick Beckert|Thomas Kohl|Sanoussi N'dira|Christian Beisel|Martin Antonio|Gloria Akosua Ansa|Stefan Niemann|Bouke C. de Jong|Julian Parkhill|Simon R. Harris|Sebastien Gagneux|Dorothy Yeboah-Manu Noguchi Memorial Inst. for Medical Research, University of Ghana, Legon, Ghana;|Swiss Tropical and Public Health Institute, Basel, Switzerland;|Wellcome Trust Sanger Institute, University of Cambridge, Hinxton, United Kingdom;|Institute of Tropical Medicine, Antwerp, Belgium;|Chest Clinic, Korle-Bu Teaching Hospital, Accra, Ghana;|37 Military Hospital, Accra, Ghana;|Chest Department, Tamale Teaching Hospital, Tamale, Ghana;|Swiss Tropical & Public Health Institute; University of Basel, Switzerland;|Medical Research Council, The Gambia Unit, Gambia;|Molecular and Experimental Mycobacteriology, Research Center Borstel, Germany;|National Reference Laboratory for Mycobacteria, Cotonou, Benin;|Dept. of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland;|Public Health Department, University of Ghana Hospital, Legon, Accra, Ghana;|Institute of Tropical Medicine, Antwerp, Belgium; MRC, The Gambia
http://dx.doi.org/10.1101/206946 2017-10-20 CC BY Complex versus simple models: ion-channel cardiac toxicity prediction Hitesh Mistry The University of Manchester
http://dx.doi.org/10.1101/206920 2017-10-20 CC BY Drosophila species learn dialects through communal living Balint Z. Kacsoh|Julianna Bozler|Giovanni Bosco Geisel School of Medicine at Dartmouth
http://dx.doi.org/10.1101/205286 2017-10-20 CC BY Pathways-wide genetic risks in Chlamydial infections overlap between tissue tropisms: A genome-wide association scan Chrissy h. Roberts|Sander Ouberg|Mark D. Preston|Henry J. C. de Vries|Martin J. Holland|Servaas A. Morre London School of Hygiene and Tropical Medicine;|Institute for Public Health Genomics, Maastricht University, The Netherlands;|National Institute for Biological Standards and Controls, Potters Bar, UK;|Dept. of Infectious Diseases, Public Health Service Amsterdam, The Netherlands
http://dx.doi.org/10.1101/206342 2017-10-20 An olfactogenetic approach identifies olfactory neurons and brain centers directing negative oviposition decisions in Drosophila. Sonia G. Chin|Sarah E. Maguire|Paavo Huoviala|Gregory S. X. E. Jefferis|Christopher J. Potter Johns Hopkins University School of Medicine;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/206060 2017-10-20 CC BY-NC-ND Two distinct mechanisms silence chinmo in Drosophila neuroblasts and neuroepithelial cells to limit their self-renewal Caroline Dillard|Karine Narbonne-Reveau|Sophie Foppolo|Elodie Lanet|Cedric Maurange CNRS, Aix-Marseille Univ.
http://dx.doi.org/10.1101/206912 2017-10-20 CC BY Free energy landscape for the entire transport cycle of triose-phosphate/phosphate translocator Mizuki Takemoto|Yongchan Lee|Ryuichiro Ishitani|Osamu Nureki The University of Tokyo
http://dx.doi.org/10.1101/178608 2017-10-20 CC BY-NC-ND NSD1 inactivation defines an immune cold, DNA hypomethylated subtype in squamous cell carcinoma Kevin Brennan|June Ho Shin|Joshua K. Tay|Marcos Prunello|Andrew Gentles|John B. Sunwoo|Olivier Gevaert Stanford University School of Medicine;|Stanford Univ. School of Medicine, Dept. of Otolaryngology - Head & Neck Surgery;|Natl. Univ. Health System, Singapore, Dept. of Otolaryngol. - Head & Neck Surgery;|National University of Rosario, Rosario, Argentina, Department of Statistics
http://dx.doi.org/10.1101/206888 2017-10-20 In vivo cross-linking and transmembrane helix dynamics support a non-piston model of signaling within E. coli EnvZ Rahmi Yusuf|Tuyet Linh Nguyen|Annika Heininger|Robert J. Lawrence|Benjamin A. Hall|Roger R. Draheim University of Portsmouth;|Goethe University Frankfurt;|University of Cambridge
http://dx.doi.org/10.1101/206839 2017-10-20 CC BY-ND The Wisconsin Registry for Alzheimer's Prevention: A Review of findings and current directions Sterling C. Johnson|Rebecca L. Koscik|Erin M. Jonaitis|Lindsay R. Clark|Kimberly D. Mueller|Sara E. Berman|Barbara B. Bendlin|Corinne D. Engelman|Ozioma C. Okonkwo|Kirk J. Hogan|Sanjay Asthana|Cynthia M. Carlsson|Bruce P. Hermann|Mark A. Sager University of Wisconsin-Madison
http://dx.doi.org/10.1101/206698 2017-10-20 CC BY The molecular genetics of participation in the Avon Longitudinal Study of Parents and Children Amy Taylor|Hannah Jones|Hannah Sallis|Jack Euesden|Evie Stergiakouli|Neil Davies|Stanley Zammit|Deborah A. Lawlor|Marcus R. Munafo|George Davey Smith|Kate Tilling University of Bristol
http://dx.doi.org/10.1101/206672 2017-10-20 CC BY-NC-ND Correlation of gene expressions between nucleus and cytoplasm reflects single-cell physiology Mahmoud Nady Abdelmoez|Kei Iida|Yusuke Oguchi|Hidekazu Nishikii|Ryuji Yokokawa|Hidetoshi Kotera|Sotaro Uemura|Juan Gabriel Santiago|Hirofumi Shintaku Department of Micro Engineering, Graduate School of Engineering, Kyoto University;|Medical Research Support Center, Graduate School of Medicine, Kyoto University;|Department of Biological Sciences, Graduate School of Science, University of Tokyo;|Department of Hematology, Faculty of Medicine, University of Tsukuba;|Department of Mechanical Engineering, Stanford University
http://dx.doi.org/10.1101/206706 2017-10-20 CC BY-NC-ND Explorations of the polygenic genetic architecture of flowering time in the worldwide Arabidopsis thaliana population Yanjun Zan|Orjan Carlborg Uppsala University
http://dx.doi.org/10.1101/206722 2017-10-20 Strong positive biodiversity-productivity relationships in a subtropical forest experiment Yuanyuan Huang|Yuxin Chen|Nadia Castro-Izaguirre|Martin Baruffol|Matteo Brezzi|Anne Lang|Ying Li|Werner Haerdtle|Goddert von Oheimb|Xuefei Yang|Kequan Pei|Sabine Both|Xiaojuan Liu|Bo Yang|David Eichenberg|Thorsten Assmann|Juergen Bauhus|Thorsten Behrens|Francois Buscot|Xiao-Yong Chen|Douglas Chesters|Bing-Yang Ding|Walter Durka|Alexandra Erfmeier|Jingyun Fang|Markus Fischer|Liang-Dong Guo|Dali Guo|Jessica L. M. Gutknecht|Jin-Sheng He|Chun-Ling He|Andy Hector|Lydia Hoenig|Ren-Yong Hu|Alexandra-Maria Klein|Peter Kuehn|Yu Liang|Stefan Michalski|Michael Scherer-Lorenzen|Karsten Schmidt|Thomas Scholten|Andreas Schuldt|Xuezheng Shi|Man-Zhi Tan|Zhiyao Tang|Stefan Trogisch|Zhengwen Wang|Erik Welk|Christian Wirth|Tesfaye Wubet|Wenhua Xiang|Jiye Yan|Mingjian Yu|Xiao-Dong Yu|Jiayong Zhang|Shouren Zhang|Naili Zhang|Hong-Zhang Zhou|Chao-Dong Zhu|Li Zhu|Helge Bruelheide|Keping Ma|Pascal A. Niklaus|Bernhard Schmid University of Zurich;|University of Luneburg;|Technische Universitat Dresden;|Chinese Academy of Sciences, Kunming;|Chinese Academy of Sciences, Beijing;|Universitz Halle-Wittenberg;|Jingdezhen University;|University of Freiburg;|University of Tubingen;|UFZ, Halle;|East China Normal University;|Wenzhou University;|University Halle-Wittenberg;|Peking University;|University of Bern;|University of Minnesota;|University of Oxford;|Chinese Academy of Sciences, Nanjing;|University Halle-Witteberg;|Chinese Academy of Sciences, Shenyang;|University of Leipzig;|Central South University of Forestry and Technology;|Beijing Academy of Agriculture and Forestry Sciences;|Zhejiang University;|Zhejiang Normal University
http://dx.doi.org/10.1101/206714 2017-10-20 CC BY Structural lipids enable the formation of functional oligomers of the eukaryotic purine symporter UapA Euan Pyle|Antreas C. Kalli|Sotiris Amillis|Zoe Hall|Aylin C. Hanyaloglu|George Diallinas|Bernadette Byrne|Argyris Politis Imperial College London;|University of Leeds;|National and Kapodistrian University of Athens;|University of Cambridge;|King's College London
http://dx.doi.org/10.1101/206854 2017-10-20 SALP, a new single-stranded DNA library preparation method especially useful for the high-throughput characterization of chromatin openness states Jian Wu|Wei Dai|Ling Wu|Jinke Wang State Key Laboratory of Bioelectronics, Southeast University, Nanjing 210096, China
http://dx.doi.org/10.1101/206763 2017-10-20 CC BY-ND Mapping critical habitat of waterbirds in the Arctic for risk management in respect of IFC PS6 Lammert Hilarides|Tom Langendoen|Stephan Flink|Merijn van Leeuwen|Bart Steen|Alexander Kondratyev|Andrea Kolzsch|Tomas Aarvak|Helmut Kruckenberg|Didier Vangeluwe|Emil Todorov|Anne Harrison|Eileen Rees|Adriaan Dokter|Bart Nolet|Taej Mundkur Wetlands International;|None;|Institute of Biological Problems of the North;|Max Planck Institute for Ornithology;|Norwegian Ornithological Society;|Institute for Wetlands and Waterbird Research;|Royal Belgian Institute of Natural Sciences;|Bulgarian Society for the Protection of Birds;|Wildfowl & Wetlands Trust;|Cornell Lab of Ornithology;|Dutch Institute for Ecological Research
http://dx.doi.org/10.1101/206789 2017-10-20 CC BY-NC-ND Viral fitness predicts the magnitude and direction of perturbations in the infected host transcriptome Hector Cervera|Silvia Ambros|Guillermo P. Bernet|Guillermo Rodrigo|Santiago Elena IBMCP-CSIC;|CSIC
http://dx.doi.org/10.1101/206771 2017-10-20 Overnight memory consolidation facilitates rather than interferes with new learning of similar materials - a study probing NMDA-receptors Marjan Alizadeh Asfestani|Elena Braganza|Jan Schwidetzky|Joao C. P. Santiago|Surjo R. Soekadar|Jan Born|Gordon B. Feld Univ. of Tübingen, Inst. of Medical Psychology and Behavioural Neurobiology;|University of Tübingen, Center for Integrative Neuroscience;|University of Tübingen, Department of Psychiatry and Psychotherapy;|University College London, Division of Psychology and Language Sciences
http://dx.doi.org/10.1101/206813 2017-10-20 CC BY-NC-ND Transcriptional control and exploitation of an immune-responsive family of retrotransposons in Arabidopsis Angelique Deleris|Jerome Zervudacki|Agnes Yu|Jingyu Wang|Jan Drouaud|Lionel Navarro Institut de biologie de l'Ecole normale supérieure, CNRS, Paris, France
http://dx.doi.org/10.1101/206797 2017-10-20 CC BY-NC-ND Tracking Individual Differences in Perception by TMS-EEG Intrinsic Effective Connectivity Yuji Mizuno|Masahiro Kawasaki|Masanori Shimono|Carlo Miniussi|Yuka O. Okazaki|Kenichi Ueno|Chisato Suzuki|Takeshi Asamizuya|Kang Cheng|Keiichi Kitajo RIKEN;|University of Tsukuba;|Osaka University;|University of Trento
http://dx.doi.org/10.1101/206334 2017-10-20 CC BY-NC-ND An Observational Study of Ballooning in Large Spiders: Nanoscale Multi-Fibres Enable Large Spiders' Soaring Flight Moonsung Cho|Peter Neubauer|Christoph Fahrenson|Ingo Rechenberg Institute of Bionics and Evolution Technique; Chair of Bioprocess Engineering;|Chair of Bioprocess Engineering;|Zentraleinrichtung Elektronenmikroskopie;|Institute of Bionics and Evolution Technique
http://dx.doi.org/10.1101/206862 2017-10-20 CC BY Life history effects on neutral polymorphism levels of autosomes and sex chromosomes Guy Amster|Guy Sella Columbia University
http://dx.doi.org/10.1101/206821 2017-10-20 CC BY Measurements of three-dimensional refractive index tomography and membrane deformability of live erythrocytes from Pelophylax nigromaculatus Geon Kim|Moosung Lee|SeongYeon Youn|EuiTae Lee|Daeheon Kwon|Jonghun Shin|SangYun Lee|Youn Sil Lee|YongKeun Park KAIST;|Daejeon Science High School for the Gifted
http://dx.doi.org/10.1101/206359 2017-10-20 Clearing the Fungal FoG: Perseverance, a property distinct from resistance, is associated with clinical persistence Alexander Rosenberg|Iuliana V. Ene|Alon Dahan|Ella Shtifman Segal|Arnaldo Lopes Colombo|Richard J. Bennett|Judith G. Berman Tel Aviv University;|Brown University;|Federal University of Sao Paulo
http://dx.doi.org/10.1101/206466 2017-10-20 CC BY-NC Leveraging heterogeneity across multiple data sets increases accuracy of cell-mixture deconvolution and reduces biological and technical biases Francesco Vallania|Andrew Tam|Shane Lofgren|Steven Schaffert|Tej D. Azad|Erika Bongen|Meia Alsup|Michael Alonso|Mark Davis|Edgar Engleman|Purvesh Khatri Stanford University
http://dx.doi.org/10.1101/202952 2017-10-20 CC BY-NC-ND Blind estimation and correction of microarray batch effect Sudhir Varma HiThru Analytics
http://dx.doi.org/10.1101/206615 2017-10-20 Controlled ocular radiance in a diurnal fish looking at prey Nico K. Michiels|Victoria C. Seeburger|Nadine Kalb|Melissa G. Meadows|Nils Anthes|Amalia A. Mailli|Colin B. Jack University of Tuebingen;|University Hohenheim, Germany;|University of Tuebingen, Germany;|St. Francis University, PA USA;|Nord University, Norway;|Newcombe Road, Oxford
http://dx.doi.org/10.1101/206409 2017-10-20 Simulation of visual perception and learning with a retinal prosthesis James R. Golden|Cordelia Erickson-Davis|Nicolas P. Cottaris|Nikhil Parthasarathy|Fred Rieke|David H. Brainard|Brian A. Wandell|E. J. Chichilnisky Stanford University;|University of Pennsylvania;|University of Washington
http://dx.doi.org/10.1101/205641 2017-10-20 CC BY-NC-ND The Polycomb-dependent epigenome controls β-cell dysfunction, dedifferentiation and diabetes Tess Tsai-Hsiu Lu|Steffen Heyne|Erez Dror|Eduard Casas|Laura Leonhardt|Thorina Boenke|Chih-Hsiang Yang| Sagar|Laura Arrigoni|Kevin Dalgaard|Raffaele Teperino|Lennart Enders|Madhan Selvaraj|Marius Ruf|Sunil Jayaramaiah Raja|Huafeng Xie|Ulrike Boenisch|Stuart H. Orkin|Francis Lynn|Brad G. Hoffman|Dominic Grun|Tanya Vavouri|Adelheid Lempradl|Andrew Pospisilik Max Planck Institute of Immunobiology and Epigenetics;|Institute for Predictive and Personalized Medicine of Cancer (IMPPC);|Dana-Farber Cancer Institute and Division of Hematology/Oncology;|Child and Family Research Institute, Vancouver, Canada
http://dx.doi.org/10.1101/206649 2017-10-20 Simultaneous cell traction and growth measurements using light Shamira Sridharan|Yanfen Li|Louis Foucard|Hassaan Majeed|Basanta Bhaduri|Alex Levine|Kristopher Kilian|Gabriel Popescu University of California Davis;|University of Illinois at Urbana-Champaign;|University of California Los Angeles;|Quantitative Light Imaging Lab., Beckman Inst. for Advanced Science & Technol.
http://dx.doi.org/10.1101/206565 2017-10-20 CC BY-NC-ND An intermittent control model predicts the triphasic muscles activity during hand reaching Raz Leib|Andrea d'Avella|Ilana Nisky Ben-Gurion University of the Negev;|University of Messina
http://dx.doi.org/10.1101/206573 2017-10-20 CC BY Exploring the single-cell RNA-seq analysis landscape with the scRNA-tools database Luke Zappia|Belinda Phipson|Alicia Oshlack Murdoch Children's Research Institute;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/206227 2017-10-20 CC BY-NC-ND Game theoretic consideration of transgenic bacteria in the human gut microbiota as a pro-biotic prophylactic for metabolic syndrome Ahmed Ibrahim|James Smith Independent Researcher;|School of Food Sci. & Nutr., Faculty of Mathematics & Physical Sci., Univ. of Leeds
http://dx.doi.org/10.1101/206581 2017-10-20 CC BY-NC-ND GABA regulates resonance and spike rate encoding via a universal mechanism that underlies the modulation of action potential generation Christoph Kirst|Julian Ammer|Felix Felmy|Andreas Herz|Martin Stemmler The Rockefeller University, New York, USA;|School of Biomedical Sciences, The University of Edinburgh, Scotland;|University of Veterinary Medicine, Hannover, Germany;|Ludwig-Maximilians-Universitaet Munchen, Dept. Biology II, Munich, Germany;|Ludwig-Maximilians-Universitaet Muenchen, Dept. Biology II, Munich, Germany
http://dx.doi.org/10.1101/205070 2017-10-20 CC BY-NC-ND Raising the stakes: Loss of efflux-pump regulation decreases meropenem susceptibility in Burkholderia pseudomallei Derek S. Sarovich|Jessica R. Webb|Matthew C. Pitman|Linda T. Viberg|Mark Mayo|Robert W. Baird|Jennifer M. Robson|Bart J. Currie|Erin P. Price Menzies School of Health Research and University of the Sunshine Coast;|Menzies School of Health Research;|Royal Darwin Hospital;|Sullivan Nicolaides Pathology
http://dx.doi.org/10.1101/206383 2017-10-20 Allosteric activation dictates PRC2 activity independent of its recruitment to chromatin Chul-Hwan Lee|Jia-Ray Yu|Sunil Kumar|Ying Jin|Syuzo Kaneko|Andrew D. Hamilton|Danny Reinberg HHMI, NYU School of Medicine;|Dept. of Chemistry, New York University;|Cold Spring Harbor Laboratory;|National Cancer Center, Division of Molecular Modification and Cancer Biology
http://dx.doi.org/10.1101/206482 2017-10-20 CC BY Machine Learning for Population Genetics: A New Paradigm Daniel R Schrider|Andrew D Kern Rutgers University
http://dx.doi.org/10.1101/205625 2017-10-20 Analysis of LRRC45 indicates cooperative functions of distal appendages at early steps of ciliogenesis Bahtiyar Kurtulmus|Cheng Yuan|Jakob Schuy|Annett Neuner|Shoji Hata|Georgios Kalamakis|Ana Martin-Villalba|Gislene Pereira Centre for Organismal Studies (COS), University of Heidelberg, Germany;|Centre for Cell and Molecular Biology (ZMBH), University of Heidelberg, Germany;|German Cancer Research Centre (DKFZ), Heidelberg, Germany
http://dx.doi.org/10.1101/206425 2017-10-19 CC BY-NC-ND Understanding sequencing data as compositions: an outlook and review Thomas P. Quinn|Ionas Erb|Mark F. Richardson|Tamsyn M. Crowley Deakin University;|Centre for Genomic Regulation (CRG);|Poultry Hub Australia
http://dx.doi.org/10.1101/206136 2017-10-21 CC BY Reduced transmission of Mycobacterium africanum compared to Mycobacterium tuberculosis in urban West Africa Prince Asare|Adwoa Asante-Poku|Diana Ahu Prah|Sonia Borrell|Stephen Osei-Wusu|Isaac Darko Otchere|Audrey Forson|Gloria Adjapong|Kwadwo Ansah Koram|Sebastien Gagneux|Dorothy Yeboah-Manu Noguchi Memorial Institute for Medical Research - University of Ghana;|Swiss Tropical and Public Health Institute, Basel, Switzerland;|Noguchi Memorial Institute for Medical Research, University of Ghana;|Department of Chest Diseases, Korle-Bu Teaching Hospital, Korle-Bu, Accra, Ghana;|Centre for Plant Medicine Research, Mampong, Ghana
http://dx.doi.org/10.1101/207126 2017-10-21 CC BY-NC-ND Agent-based network model predicts strong benefits to youth-centered HIV treatment-as-prevention efforts John E Mittler|James T Murphy|Sarah Stansfield|Kathryn Peebles|Geoffrey S Gottlieb|Steven Goodreau|Joshua T Herbeck University of Washington
http://dx.doi.org/10.1101/206656 2017-10-21 CC BY-NC-ND Enumerating the Economic Cost of Antimicrobial Resistance Per Antibiotic Consumed to Inform the Evaluation of Interventions Affecting their Use Poojan Shrestha|Ben S. Cooper|Joanna Coast|Raymond Oppong|Nga T. T. Do|Tuangrat Podha|Philippe J. Guerin|Heiman F. Wertheim|Yoel Lubell Infectious Diseases Data Observatory, University of Oxford, United Kingdom;|Centre for Tropical Medicine and Global Health, NDM, University of Oxford;|School of Social and Community Medicine, University of Bristol, Bristol, UK;|Health Economics Unit, School of Health & Population Sci., Univ. of Birmingham;|Oxford University Clinical Research Unit-Ha Noi, Ha Noi, Vietnam;|Faculty of Pharmacy, Mahidol University, Bangkok, Thailand;|Dept. of Medical Microbiology, Radboud Ctr. of Infectious Diseases, Radboudumc
http://dx.doi.org/10.1101/206169 2017-10-21 Impact of global change on future Ebola emergence and epidemic potential in Africa David Redding|Peter Atkinson|Andrew Cunningham|Gianni Lo Iacono|Lina Moses|James Wood|Kate Jones Department of Genetics, Evolution and Environment, University College London;|Geography and Environment, University of Southampton;|Institute of Zoology, Zoological Society of London, Regents Park, London;|Environmental Change Department, Public Health England, Didcot, UK;|Department of Global Community Health and Behavioral Sciences, Tulane University;|Department of Veterinary Medicine, Disease Dynamics Unit, University of Cambridge
http://dx.doi.org/10.1101/207068 2017-10-21 Clinically-guided mutation screening of two families with hereditary retinal disease Jian Li|Aierken Yiming|Ping Wang Kashgar Peoples Hospital
http://dx.doi.org/10.1101/206938 2017-10-21 Subtle Changes in Clonal Dynamics Underlie the Age-Related Decline in Neurogenesis Lisa Bast|Filippo Calzolari|Michael Strasser|Jan Hasenauer|Fabian Theis|Jovica Ninkovic|Carsten Marr Technische Universitaet Muenchen; Institute of Computational Biology, Helmholtz Zentrum Muenchen;|Institute of Stem Cell Research, Helmholtz Zentrum Muenchen;|Institute of Computational Biology, Helmholtz Zentrum Muenchen;|Institute of Stem Cell Research, Helmholtz Zentrum Muenchen; Ludwig-Maximilian University
http://dx.doi.org/10.1101/207159 2017-10-21 Estradiol and luteinizing hormone reverse memory loss in phencyclidine model of schizophrenia: Evidence for hippocampal GABA action Alexander J. Riordan|Ari W. Schaler|Jackson B. Fried|Tracie A. Paine|Janice E. Thornton Princeton University;|Oberlin College
http://dx.doi.org/10.1101/207209 2017-10-21 CC BY-NC-ND Coordinated morphogenesis through tension-induced planar polarity Ghislain Gillard|Ophelie Nicolle|Thibault Brugiere|Sylvain Prigent|Mathieu Pinot|Gregoire Michaux IGDR
http://dx.doi.org/10.1101/207183 2017-10-21 CC BY Field evidence for manipulation of mosquito host selection by the human malaria parasite, Plasmodium falciparum Amelie Vantaux|Franck Yao|Domonbabele FdS Hien|Edwige Guissou|Bienvenue K Yameogo|Louis-Clement Gouagna|Didier Fontenille|Francois Renaud|Frederic Simard|Carlo Constantini|Frederic Thomas|Karine Mouline|Benjamin Roche|Anna Cohuet|Kounbobr R Dabire|Thierry Lefevre Institut de Recherche en Sciences de la Sante(IRSS), Bobo-Dioulasso, Burkina Faso;|Institut de Recherche en Sciences de la Sante (IRSS), Bobo-Dioulasso, Burkina Faso;|Maladies Infectieuses et Vecteurs: Ecologie, Genetique, Evolution et Controle;|Institut Pasteur in Cambodia, Phnom Penh, Cambodia
http://dx.doi.org/10.1101/207035 2017-10-21 Distinct glycosaminoglycan chain length and sulfation patterns required for cellular uptake of Tau, Aβ, and α-Synuclein Barbara E. Stopschinski|Brandon B. Holmes|Gregory M. Miller|Jaime Vaquer-Alicea|Linda C. Hsieh-Wilson|Marc I. Diamond University of Texas Southwestern Medical Center;|California Institute of Technology
http://dx.doi.org/10.1101/207274 2017-10-21 CC BY-NC-ND Integrin alpha 4/beta 1 (CD49d/CD29) is a component of the murine IgG3 receptor Carolyn Saylor Hawk|Carolina Coelho|Diane Sthefany Lima de Oliveira|Verenice Paredes|Patricia Albuquerque|Anamelia Lorenzetti Bocca|Ananesia Correa dos Santos|Victoria Rusakova|Heather Holemon|Maria Sueli Soares Felipe|Hideo Yagita|Andre Moraes Nicola|Arturo Casadevall Albert Einstein College of Medicine, Bronx, NY, USA;|Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA;|Institute of Biological Sciences, University of Brasília, DF, Brazil;|Faculty of Medicine, University of Brasília, DF, Brazil;|Faculty of Ceilândia, University of Brasília, DF, Brazil;|Karan Technologies Research and Development. Brasília, DF, Brazil;|Sigma-Aldrich Co., St. Louis, MO, USA;|Catholic University of Brasília, DF, Brazil;|Department of Immunology, Juntendo University School of Medicine, Tokyo, Japan
http://dx.doi.org/10.1101/206540 2017-10-21 Explainable machine learning predictions to help anesthesiologists prevent hypoxemia during surgery Scott M Lundberg|Bala Nair|Monica S Vavilala|Mayumi Horibe|Michael J Eisses|Trevor Adams|David E Liston|Daniel King-Wai Low|Shu-Fang Newman|Jerry Kim|Su-In Lee University of Washington;|Veterans Affairs Puget Sound Health Care System;|Seattle Children's Hospital
http://dx.doi.org/10.1101/207100 2017-10-21 CC BY-NC-ND Effects of demographic stochasticity and life-history strategies on times and probabilities to fixation: an individual-based model Diala Abu Awad|Camille Coron INRA;|Univ. Paris-Sud
http://dx.doi.org/10.1101/207241 2017-10-21 Impact of non-LTR retrotransposons in the differentiation and evolution of Anatomically Modern Humans Etienne Guichard|Valentina Peona|Guidantonio Malagoli-Tagliazucchi|Lucia Abitante|Evelyn Jagoda|Margherita Musella|Marco Ricci|Alejandro Rubio-Roldan|Stefania Sarno|Donata Luiselli|Davide Pettener|Cristian Taccioli|Luca Pagani|Jose Luis Garcia-Perez|Alessio Boattini University of Bologna;|Uppsala University;|Azienda Ospedaliero Universitaria di Parma;|Harvard University;|GENYO - Centre for Genomics and Oncological Research;|University of Padova;|University of Edinburgh
http://dx.doi.org/10.1101/207258 2017-10-21 Complex effects of day and night temperature fluctuations on thermally plastic traits in an experimental model of adaptive seasonal plasticity. Yara Katia Rodrigues|Erik van Bergen|Filipa Alves|David Duneau|Patricia Beldade Instituto Gulbenkian de Ciencia;|University of Toulouse;|Instituto Gulbenkian de Ciencia and University of Toulouse
http://dx.doi.org/10.1101/207191 2017-10-21 Darwin Assembly: fast, efficient, multi-site bespoke mutagenesis. Christopher Cozens|Vitor B. Bernardes Pinheiro University College London, Gower Street, London WC1E 6BT, UK;|University College London
http://dx.doi.org/10.1101/207167 2017-10-21 Nucleosome rotational positioning is influenced by cis- and trans-acting factors Gregory M. Wright|Feng Cui Rochester Institute of Technology
http://dx.doi.org/10.1101/207134 2017-10-21 CC BY-ND Hub connectivity, neuronal diversity, and gene expression in the C. elegans connectome Aurina Arnatkeviciute|Ben D. Fulcher|Roger Pocock|Alex Fornito Monash University
http://dx.doi.org/10.1101/207308 2017-10-21 CC BY-NC-ND Tissue-specific activities of the Fat1 cadherin cooperate to control neuromuscular morphogenesis Francoise Helmbacher Aix Marseille Univ, CNRS
http://dx.doi.org/10.1101/207027 2017-10-21 CC BY CRISPR-DS: An efficient, low DNA input method for ultra-accurate sequencing Daniela Nachmanson|Shenyi Lian|Elizabeth K. Schmidt|Michael J. Hipp|Kathryn T. Baker|Yuezheng Zhang|Maria Tretiakova|Kaitlyn Loubet-Senear|Brendan F. Kohrn|Jesse J. Salk|Scott R. Kennedy|Rosa Ana Risques University of Washington;|University of Washington; Peking University Cancer Hospital and Institute
http://dx.doi.org/10.1101/207118 2017-10-21 CC BY Optical crosstalk in SPAD arrays for high-throughput single-molecule fluorescence spectroscopy Antonino Ingargiola|Maya Segal|Angelo Gulinatti|Ivan Rech|Ivan Labanca|Piera Maccagnani|Massimo Ghioni|Shimon Weiss|Xavier Michalet UCLA;|Politecnico di Milano;|Istituto per la Microelettronica e Microsistemi, IMM-CNR, Bologna, Italy
http://dx.doi.org/10.1101/207266 2017-10-21 DDK has a primary role in processing stalled replication forks to initiate downstream checkpoint signaling Nanda Kumar Sasi|Flavie Coquel|Yea-Lih Lin|Jeffrey P. MacKeigan|Philippe Pasero|Michael Weinreich Van Andel Research Institute and Michigan State University, Michigan, USA;|Institute of Human Genetics and University of Montpellier, Montpellier, France;|Van Andel Research Institute, Michigan, USA
http://dx.doi.org/10.1101/207225 2017-10-21 CC BY-NC-ND So you think you can PLS-DA? Daniel Ruiz Perez|Giri Narasimhan Florida International University
http://dx.doi.org/10.1101/207142 2017-10-21 CC BY-NC-ND Specific hippocampal representations are linked to generalized cortical representations in memory. Jai Y. Yu|Daniel F. Liu|Adrianna Loback|Irene Grossrubatscher|Loren M. Frank University of California San Francisco;|University of California Berkeley;|Princeton University;|Howard Hughes Medical Institute, University of California San Francisco
http://dx.doi.org/10.1101/207282 2017-10-21 CC BY-NC-ND Role of the pre-initiation complex in Mediator recruitment and dynamics Elisabeth R. Knoll|Z. Iris Zhu|David Landsman|Randall H. Morse University at Albany School of Public Health;|NCBI/NIH;|Wadsworth Ctr., NY State Dept. of Health; Univ. at Albany School of Public Health
http://dx.doi.org/10.1101/207092 2017-10-21 CC BY-NC-ND Bioconda: A sustainable and comprehensive software distribution for the life sciences Ryan Dale|Bjorn Gruning|Andreas Sjodin|Jillian Rowe|Brad A. Chapman|Christopher H. Tomkins-Tinch|Renan Valieris|Johannes Koster National Institutes of Health, Bethesda, United States;|University of Freiburg, Freiburg, Germany;|Swedish Defence Research Agency, Umeå, Sweden;|NYU Abu Dhabi, Abu Dhabi, United Arab Emirates;|Harvard T. H. Chan School of Public Health, Boston, United States;|Harvard University, Cambridge, United States;|Camargo Cancer Center, São Paulo, Brazil;|-;|University of Duisburg-Essen, Essen, Germany
http://dx.doi.org/10.1101/206631 2017-10-21 CC BY-NC-ND Delirium symptoms are associated with decline in cognitive function between ages 53 to 69: findings from a British birth cohort study. Alex Tsui|Diana Kuh|Marcus Richards|Daniel Davis MRC Unit for Lifelong Health and Ageing at UCL
http://dx.doi.org/10.1101/207233 2017-10-21 CC BY-NC-ND Apolipoprotein-E (ApoE) ϵ4 and cognitive decline over the adult life course Mark Rawle|Daniel Davis|Rebecca Bendayan|Andrew Wong|Diana Kuh|Marcus Richards MRC Unit for Lifelong Health and Ageing at UCL
http://dx.doi.org/10.1101/191023 2017-10-21 Association of a biomarker-based frailty index with telomere length in older US adults: Findings from NHANES 1999-2002 Ghalib A. Bello|Yueh-Hsiu M. Chiu|Gerard G. Dumancas Icahn School of Medicine at Mount Sinai;|Louisiana State University - Alexandria
http://dx.doi.org/10.1101/183848 2017-10-22 The ABCE1 capsid assembly pathway is conserved between primate lentiviruses and the non-primate lentivirus feline immunodeficiency virus Jonathan C. Reed|Nick Westergreen|Brook C. Barajas|Dylan Ressler|Daryl J. Phuong|John V. Swain|Vishwanath R. Lingappa|Jaisri R. Lingappa Prosetta Biosciences;|University of Washington
http://dx.doi.org/10.1101/207456 2017-10-22 CC BY-ND Elucidating relations between fMRI, ECoG and EEG through a common natural stimulus Stefan Haufe|Paul DeGuzman|Simon Henin|Michael Arcaro|Christopher J. Honey|Uri Hasson|Lucas C. Parra Technische Universität Berlin;|Neuromatters LLC;|NYU Langone Medical Center;|Harvard Medical School;|Johns Hopkins University;|Princeton University;|City College New York
http://dx.doi.org/10.1101/207472 2017-10-22 CC BY High contrast staining for serial block face scanning electron microscopy without uranyl acetate Adolfo Odriozola|Jaime Llodra|Julika Radecke|Celine Ruegsegger|Stefan Tschanz|Smita Saxena|Stephan Rohr|Benoit Zuber University of Bern
http://dx.doi.org/10.1101/207431 2017-10-22 Signaling Networks and Dynamics of Allosteric Transitions in Bacterial Chaperonin GroEL: Implications for Iterative Annealing of Misfolded Proteins Dave Thirumalai|Changbong Hyeon University of Texas at Austin;|Korea Institute for Advanced Studies
http://dx.doi.org/10.1101/207357 2017-10-22 Majority of choice-related variability in perceptual decisions is present in early sensory cortex Charles Michelson|Jonathan Pillow|Eyal Seidemann University of Texas at Austin;|Princeton University
http://dx.doi.org/10.1101/207480 2017-10-22 Interleukins 4 and 13 Induce Exon Skipping of Mutant Dystrophin Pre-mRNA to Restore Dystrophin Production SiewHui Low|Chen-Ming Fan Carnegie Institution for Science
http://dx.doi.org/10.1101/206995 2017-10-22 CC BY-NC-ND IMPPAT: A curated database of Indian Medicinal Plants, Phytochemistry And Therapeutics Karthikeyan Mohanraj|Bagavathy Shanmugam Karthikeyan|R. P. Vivek-Ananth|R. P. Bharath Chand|S. R. Aparna|P. Mangalapandi|Areejit Samal Institute of Mathematical Sciences, Homi Bhabha National Institute, Chennai, India;|Stella Maris College, Chennai 600086, India
http://dx.doi.org/10.1101/207316 2017-10-22 CC BY-NC-ND Profiling G protein-coupled receptors of Fasciola hepatica identifies orphan rhodopsins unique to phylum Platyhelminthes Paul McVeigh|Erin McCammick|Paul McCusker|Duncan Wells|Jane Hodgkinson|Steve Paterson|Angela Mousley|Nikki J. Marks|Aaron G. Maule Queen's University Belfast;|University of Liverpool
http://dx.doi.org/10.1101/207332 2017-10-22 CC BY Systematic Dissection of Sequence Elements Controlling σ70 Promoters Using a Genomically-Encoded Multiplexed Reporter Assay in E. coli Guillaume Urtecho|Arielle D. Tripp|Kimberly Insigne|Hwangbeom Kim|Sriram Kosuri University of California, Los Angeles
http://dx.doi.org/10.1101/207381 2017-10-23 Frailty index as a predictor of all-cause and cause-specific mortality in a Swedish population-based cohort Miao Jiang|Andrea D. Foebel|Ralf Kuja-Halkola|Ida Karlsson|Nancy L. Pedersen|Sara Hagg|Juulia Jylhava Dept. of Medical Epidemiology & Biostatistics, Karolinska Institutet, Stockholm
http://dx.doi.org/10.1101/207621 2017-10-23 CC BY-NC-ND Delirium, frailty and mortality: interactions in a prospective study of hospitalized older people Melanie Dani|Lucy Owen|Thomas Jackson|Kenneth Rockwood|Elizabeth Sampson|Daniel Davis Hammersmith Hospital;|University College London Hospitals NHS Foundation Trust;|University of Birmingham;|Dalhousie University;|UCL;|MRC Unit for Lifelong Health and Ageing at UCL
http://dx.doi.org/10.1101/207639 2017-10-23 CC BY Bcl-xL as a poor prognostic biomarker and predictor of response to adjuvant chemotherapy specifically in BRAF-mutant stage II and III colon cancer Philip D. Dunne|Helen G Coleman|Peter Bankhead|Matthew Alderdice|Ronan T Gray|Stephena McQuaid|Victoria Bingham|Maurice B Loughrey|Jacqueline A James|Amy MB McCorry|Alan Gilmore|Caitriona Holohan|Dirk Klingbiel|Sabine Tejpar|Patrick G Johnston|Darragh G McArt|Federica Di Nicolantonio|Daniel B Longley|Mark Lawler Queens University Belfast;|University of Lausanne;|University Hospital Gasthuisberg;|University of Torino
http://dx.doi.org/10.1101/207647 2017-10-23 Universal transcriptomic signature of age reveals temporal scaling of Caenorhabditis elegans aging trajectories Andrei E. Tarkhov|Ramani Alla|Srinivas Ayyadevara|Mikhail Pyatnitskiy|Leonid Menshikov|Robert Shmookler Reis|Peter O. Fedichev Gero LLC;|Central Arkansas Veterans Healthcare System, Research Service, Little Rock, Arkansas
http://dx.doi.org/10.1101/207662 2017-10-23 CC BY-NC-ND Modelling isoscapes using mixed models Alexandre Courtiol|Francois Rousset Leibniz Institute for Zoo and Wildlife Research;|Institut des Sciences de l'Evolution, Montpellier
http://dx.doi.org/10.1101/207688 2017-10-23 Accelerated DNA methylation aging and increased resilience in veterans: the biological cost for soldiering on Divya Mehta|Dagmar Bruenig|Bruce Lawford|Wendy Harvey|Tania Carrillo-Roa|Charles P. Morris|Tanja Jovanovic|Ross McD. Young|Elisabeth B. Binder|Joanne Voisey School of Psychol. & Counselling, Fac. of Health, IHBI, Queensland Univ. of Technol.;|Queensland University of Technology; Gallipoli Medical Research Institute;|School of Biomed. Sciences, Faculty of Health, IHBI, Queensland Univ. of Technol.;|Gallipoli Medical Research Institute, Greenslopes Private Hospital;|Dept. of Translational Research in Psychiatry, Max Planck Institute of Psychiatry;|Emory University School of Medicine;|Faculty of Health, IHBI, Queensland University of Technology
http://dx.doi.org/10.1101/207373 2017-10-23 CC BY-NC-ND Contribution of transition and stabilization processes to speciation is a function of the ancestral trait state and selective environment in Hakea Byron B. Lamont|Sh-hoob M. El-Ahmir|Sim Lin Lim|Philip K. Groom|Tianhua He Curtin University
http://dx.doi.org/10.1101/207076 2017-10-23 CC BY-NC-ND Meaning Guides Attention in Real-World Scenes: Evidence from Eye Movements and Meaning Maps John M. Henderson|Taylor R. Hayes University of California, Davis
http://dx.doi.org/10.1101/207985 2017-10-23 CC BY A most wanted list of conserved protein families with no known domains Stacia K. Wyman|Aram Avila-Herrera|Stephen Nayfach|Katherine S. Pollard Gladstone Institutes and University of California-Berkeley;|Gladstone Institutes and Lawrence Livermore National Laboratory;|Gladstone Institutes, Univ. of California-San Francisco, and Joint Genome Institutes;|Gladstone Institutes and University of California-San Francisco
http://dx.doi.org/10.1101/208041 2017-10-23 Programmable RNA recognition using a CRISPR-associated Argonaute Audrone Lapinaite|Jennifer A. Doudna|Jamie Cate University of California, Berkeley;|UC Berkeley; HHMI;|UC Berkeley
http://dx.doi.org/10.1101/208116 2017-10-23 CC BY-NC-ND geck: trio-based comparative benchmarking of variant calls Peter Komar|Deniz Kural Seven Bridges Inc.
http://dx.doi.org/10.1101/208058 2017-10-23 Assembly and translocation of a CRISPR-Cas primed acquisition complex Maxwell W. Brown|Kaylee E. Dillard|Yibei Xiao|Adam E. Dolan|Erik T. Hernandez|Samuel Dahlhauser|Yoori Kim|Logan R. Myler|Eric Anslyn|Ailong Ke|Ilya Finkelstein UT-Austin;|Cornel University;|Cornell University
http://dx.doi.org/10.1101/207506 2017-10-23 CC BY-NC-ND BoostMe accurately predicts DNA methylation values in whole-genome bisulfite sequencing of multiple human tissues Luli S. Zou|Michael R. Erdos|D. Leland Taylor|Peter S. Chines|Arushi Varshney|Stephen C. J. Parker|Francis S. Collins|John P. Didion National Human Genome Research Institute;|University of Michigan
http://dx.doi.org/10.1101/207712 2017-10-23 CC BY-NC-ND Calling song maturity in two-spotted cricket, Gryllus bimaculatus: its patterns and a possible physical explanation Atsushi Miyashita Dalhousie University
http://dx.doi.org/10.1101/207936 2017-10-23 CC BY-NC-ND How Cognitive and Reactive Fear Circuits Optimize Escape Decisions in Humans Song Qi|Jiayin Sun|Fangjian Guo|Nathaniel Daw|Demis Hassabis|Dean Mobbs California Institute of Technology;|Columbia University in the City of New York;|Massachusetts Institute of Technology;|Princeton University;|Google Deepmind
http://dx.doi.org/10.1101/207837 2017-10-23 CC BY-ND Lineage and stage-specific expressed CYCD7;1 coordinates the single symmetric division that creates stomatal guard cells Annika K. Weimer|Juliana L. Matos|Walter Dewitte|Jim Murray|Dominique C. Bergmann Stanford University;|UC Berkeley;|Cardiff University;|University of Cambridge
http://dx.doi.org/10.1101/207928 2017-10-23 Visualization of ligand-induced transmembrane signalling in the full-length human insulin receptor Theresia Gutmann|Kelly Hyojin Kim|Michal Grzybek|Thomas Walz|Uenal Coskun Paul Langerhans Inst. Dresden, Helmholtz Zentrum Munich, TU Dresden;|Laboratory of Molecular Electron Microscopy, Rockefeller University
http://dx.doi.org/10.1101/207951 2017-10-23 CC BY-NC-ND Elucidation of dose-dependent transcriptional events immediately following ionizing radiation exposure Eric C. Rouchka|Robert M. Flight|Brigitte H. Fasciotto|Rosendo Estrada|John W. Eaton|Phani K. Patibandla|Sabine J. Waigel|Dazhuo Li|John K. Kirtley|Palaniappan Sethu|Robert S. Keynton University of Louisville;|University of Kentucky;|University of Alabama At Birmingham
http://dx.doi.org/10.1101/207704 2017-10-23 CC BY ascend: R package for analysis of single cell RNA-seq data Anne Senabouth|Samuel Lukowski|Jose Alquicira|Stacey Andersen|Xin Mei|Quan Nguyen|Joseph Powell University of Queensland
http://dx.doi.org/10.1101/207845 2017-10-23 CC BY-NC-ND Stimulation of the final cell cycle in the stomatal lineage by the cyclin CYCD7;1 under regulation of the MYB transcription factor FOUR-LIPS Farah Patell-Socha|David Newman|Eunkyoung Lee|Zidian Xie|Carl Collins|Erich Grotewold|James Murray|Walter Dewitte Cardiff School of Biosciences;|University of British Columbia;|University of Hawai;|University of Cambridge;|Michigan State University
http://dx.doi.org/10.1101/207829 2017-10-23 CC BY-ND Learning to perform auditory discriminations from observation is efficient but less robust than learning from experience Gagan Narula|Joshua Herbst|Richard Hahnloser Institute of Neuroinformatics, University of Zurich and ETH Zurich
http://dx.doi.org/10.1101/207498 2017-10-23 Genome-wide association study of body fat distribution identifies novel loci and sex-specific effects Mathias Rask-Andersen|Torgny Karlsson|Weronica E. Ek|Asa Johansson Uppsala University
http://dx.doi.org/10.1101/207670 2017-10-23 HebbPlot: An intelligent tool for learning and visualizing chromatin mark signatures Hani Z Girgis|Alfredo Velasco The University of Tulsa
http://dx.doi.org/10.1101/206664 2017-10-23 CC BY-NC-ND From Cohorts to Molecules: Adverse Impacts of Endocrine Disrupting Mixtures Lina Birgersson|Gabor Borbely|Nicolo Caporale|Pierre-Luc Germain|Michelle Leemans|Filip Rendel|Giuseppe D'Agostino|Raul Bardini Bressan|Francesca Cavallo|Nadav Even Chorev|Vesna Munic Kos|Maddalena Lazzarin|Steven Pollard|Birgitta Sundstrom|Alejandro Lopez Tobon|Sebastiano Trattaro|Matteo Zanella|Ake Bergman|Pauliina Damdimopoulou|Maria Jonsson|Wieland Kiess|Efthymia Kitraki|Hannu Kiviranta|Mattias Oberg|Panu Rantakkoko|Christina Ruden|Olle Soder|Carl-Gustaf Bornehag|Barbara Demeneix|Jean-Baptiste Fini|Chris Gennings|Eewa Nanberg|Joelle Ruegg|Joachim Sturve|Giuseppe Testa University of Gotenborg;|Swetox, Karolinska Institutet;|University of Milan and European Institute of Oncology;|European Institute of Oncology and University of Zurich;|National Museum of Natural History;|Karlstad University;|European Institute of Oncology and Duke-National University of Singapore;|Ctr. for Regenerative Medicine; Edinburgh Cancer Research Ctr., Univ. of Edinburgh;|Uppsala University;|University of Leipzig;|University of Athens;|National Institute for Health and Welfare;|Stockholm University;|Karolinska Institutet;|Karlstad Universitet and Icahn School of Medicine at Mount Sinai;|Icahn School of Medicine at Mount Sinai;|Swetox, Karolinska Institutet; Karolinska Institutet, Dept. of Clinical Neurosciences;|University of Gothenburg
http://dx.doi.org/10.1101/207571 2017-10-23 CC BY-NC-ND Pseudo Dollo models for the evolution of binary characters along a tree Remco Bouckaert|Martine Robbeets University of Auckland;|Max Planck Institute for the Science of Human History
http://dx.doi.org/10.1101/207548 2017-10-23 CC BY-NC-ND Selective attention gates the interactive crossmodal coupling between cortical sensory systems Silvia Convento|Md. Shoaibur Rahman|Jeffrey M. Yau Baylor College of Medicine
http://dx.doi.org/10.1101/207605 2017-10-23 A multi-state model of chemoresistance to characterize phenotypic dynamics in breast cancer Grant R. Howard|Kaitlyn E. Johnson|Areli Rodriguez Ayala|Thomas E. Yankeelov|Amy Brock The University of Texas at Austin
http://dx.doi.org/10.1101/207530 2017-10-23 CC BY-NC-ND Distinct contributions of functional and deep neural network features to scene representation in brain and behavior Iris Groen|Michelle R. Greene|Christopher Baldassano|Li Fei-Fei|Diane M. Beck|Chris I. Baker National Institutes of Health;|Bates College;|Princeton University;|Stanford University;|University of Illinois
http://dx.doi.org/10.1101/207795 2017-10-23 Zebrafish yolk syncytial nuclei migrate along a dynamic microtubule network Zhonghui Fei|Koeun Bae|Serge Parent|Katharine Goodwin|Guy Tanentzapf|Ashley Bruce University of Toronto;|University of British Columbia
http://dx.doi.org/10.1101/207555 2017-10-23 CC BY-NC-ND Down Feather Structure Varies Between High And Low Elevation Male Andean Torrent Ducks (Merganetta armata) Rebecca G. Cheek|Luis Alza Colorado State University;|University of Miami
http://dx.doi.org/10.1101/207787 2017-10-23 CC BY-NC-ND Transcription factor activity rhythms and tissue-specific chromatin interactions explain circadian gene expression across organs. Jake Yeung|Jerome Mermet|Celine Jouffe|Julien Marquis|Aline Charpagne|Frederic Gachon|Felix Naef Ecole Polytechnique Federale de Lausanne (EPFL);|Department of Diabetes and Circadian Rhythms, Nestle Institute of Health Sciences;|Functional Genomics, Nestle Institute of Health Sciences
http://dx.doi.org/10.1101/207720 2017-10-23 MeShClust: an intelligent tool for clustering DNA sequences Benjamin T. James|Brian B. Luczak|Hani Z. Girgis University of Tulsa
http://dx.doi.org/10.1101/207761 2017-10-23 CC BY-NC-ND A reliable and unbiased human protein network with the disparity filter Gregorio Alanis-Lobato|Miguel A. Andrade-Navarro Johannes Gutenberg University
http://dx.doi.org/10.1101/207910 2017-10-23 CC BY-NC-ND Mapping of the Fondaparinux Binding Site of JR-FL gp120 by High Resolution Hydroxyl Radical Protein Footprinting and Computational Docking Sandeep K. Misra|Amika Sood|Paulo A. Soares|Vitor H. Pomin|Robert J. Woods|Joshua S. Sharp Dept. of BioMolecular Sciences, School of Pharmacy, University of Mississippi;|Complex Carbohydrate Research Center, University of Georgia;|Institute of Medical Biochemistry Leopoldo de Meis, Federal Univ. of Rio de Janeiro
http://dx.doi.org/10.1101/207803 2017-10-23 High degree of virulence gene diversity in Streptococcus pyogenes isolated in Central Italy Daniela Bencardino|Maria Chiara Di Luca|Dezemona Petrelli|Manuela Prenna|Luca Agostino Vitali School of Biosciences and Veterinary Medicine, University of Camerino, Italy;|School of Pharmacy, University of Camerino, Italy
http://dx.doi.org/10.1101/207894 2017-10-23 Learning-induced sequence reactivation during sharp-wave ripples: a computational study Paola Malerba|Katya Tsimring|Maxim Bazhenov University of California San Diego
http://dx.doi.org/10.1101/207753 2017-10-23 Effects of gamification and active listening on short-term sound localization training in virtual reality Mark A. Steadman|Chungeun Kim|Jean-Hugues Lestang|Dan F. M. Goodman|Lorenzo Picinali Imperial College London
http://dx.doi.org/10.1101/207696 2017-10-23 CC BY Geometry of antiparallel microtubule bundles regulates relative sliding and stalling by PRC1 and Kif4A Sithara Wijeratne|Radhika Subramanian Massachusetts General Hospital
http://dx.doi.org/10.1101/207514 2017-10-23 CC BY Bipolar filaments of human nonmuscle myosin 2-A and 2-B have distinct motile and mechanical properties Luca Melli|Neil Billington|Sara A. Sun|Jonathan Bird|Attila Nagy|Thomas B. Friedman|Yasuharu Takagi|James R. Sellers National Institutes of Health;|National Heart, Lung and Blood Institute;|National Institute on Deafness and Other Communication Disorders;|National Institutes on Allergy and Infectious Diseases;|National Heart, Lung and Blood Institute, National Institutes of Health
http://dx.doi.org/10.1101/208322 2017-10-24 CC BY-NC-ND Objective but not subjective fatigue increases cognitive task avoidance Charles-Etienne Benoit|Oleg Solopchuk|Guillermo Borragan|Alice Carbonnelle|Sophie Van Durme|Alexandre Zenon Université catholique de Louvain, Brussels;|CNRS
http://dx.doi.org/10.1101/207811 2017-10-24 CC BY Novel prosthecate bacteria from the candidate phylum Acetothermia revealed by culture-independent genomics and advanced microscopy Li-Ping Hao|Simon Jon McIlroy|Rasmus Hansen Hansen Kirkegaard|Sren Micheal Karst|Warnakulasuriya Eustace Yrosh Fernando|Husnu Aslan|Rikke Louise Meyer|Mads Albertsen|Per Halkjr Nielsen|Morten Simonsen Dueholm Aalborg University;|Center for Microbial Communities, Aalborg University, Aalborg, Denmark;|Aarhus University;|Aalborg Univeristy;|Aalborg Univerity
http://dx.doi.org/10.1101/208298 2017-10-24 Retinal specializations to a micro-predatory and crypto-benthic life-style in the Mediterranean triplefin blenny Tripterygion delaisi Roland Fritsch|Shaun P Collin|Nico K Michiels University of Tuebingen;|The University of Western Australia
http://dx.doi.org/10.1101/206011 2017-10-24 CC BY-NC Relative evolutionary rate inference in HyPhy with LEISR Stephanie J. Spielman|Sergei L. Kosakovsky Pond Temple University
http://dx.doi.org/10.1101/208140 2017-10-24 CC BY QTLseqr: An R package for bulk segregant analysis with next-generation sequencing Ben Mansfeld|Rebecca Grumet Michigan State University
http://dx.doi.org/10.1101/207407 2017-10-24 CC BY-NC-ND Cerebral blood flow predicts differential neurotransmitter activity Juergen Dukart|Stefan Holiga|Christopher Chatham|Peter Hawkins|Anna Forsyth|Rebecca McMillan|Jim Myers|Anne Lingford-Hughes|David Nutt|Emilio Merlo-Pich|Celine Risterucci|Daniel Umbricht|Lauren Boak|Scott Schobel|Thomas Liu|Mitul Mehta|Fernando Zelaya|Steve Williams|Gregory Brown|Martin Paulus|Garry Honey|Suresh Muthukumaraswamy|Joerg Hipp|Alessandro Bertolino|Fabio Sambataro F.Hoffmann-La Roche;|King's College London;|University of Auckland;|Imperial College London;|UCSD
http://dx.doi.org/10.1101/208181 2017-10-24 CC BY-NC Leveraging Transcriptomics Data for Genomic Prediction Models in Cassava Roberto Lozano|Dunia Pino Del Carpio|Siraj Ismail Kayondo|Teddy Amuge|Ozimati Alfred Adebo|Morag Ferguson|Jean-Luc Jannink Cornell University;|AgriBio Centre for AgriBioscience;|National Crop Resources Research Institute (NaCRRI);|International Institute for Tropical Agriculture (IITA);|United States Department of Agriculture, Agricultural Research Service (USDA-ARS) R.W. Holley Cntr
http://dx.doi.org/10.1101/208108 2017-10-24 Dynamics of pollen tube growth and embryo sac development in Pozna Plava plum cultivar related to fruit set Milena orevic|Radosav Cerovic|Sanja Radicevic|Dragan Nikolic|Nebojsa Milosevic|Ivana Glisic|Slaana Maric|Milan Lukic Fruit Research Institute, Kralja Petra I/9, Republic of Serbia;|University of Belgrade, Innovation Centreat Faculty of Technology and Metallurgy, Karnegijeva 4, 111;|Faculty of Agriculture, University of Belgrade, Nemanjina 6, 11080 Belgrade-Zemun, Re
http://dx.doi.org/10.1101/207886 2017-10-24 CC BY-NC-ND Repetitive DNA reeling by the Cascade-Cas3 complex in nucleotide unwinding steps Luuk Loeff|Stan J. J. Brouns|Chirlmin Joo Delft University of Technology
http://dx.doi.org/10.1101/207977 2017-10-24 Novel Techniques To Study Ancient Micro Amber From Tropical Beach Sand Reveal A Treasurehouse Of Exceptionally Well Preserved Fossilized Microfungi Sujata Dabolkar|Nandkumar Kamat Mycological Laboratory, Department Of Botany, Goa University, Goa, India;|Mycological Laboratory, Department of Botany, Goa University, Goa, India
http://dx.doi.org/10.1101/208272 2017-10-24 Molecular mechanism of cell-cell adhesion mediated by cadherin-23 Gayathri S. Singaraju|Anuj Kumar|Jesse S. Samuel|Amin Sagar|Jagadish P. Hazra|Malay K. Sannigrahi|Raghothaman M. Yennamalli|F. N. U. Ashish|Sabyasachi Rakshit Indian Institute of Science Education and Research, Mohali;|Jaypee University of Information Technology;|Institute of Microbial Technology
http://dx.doi.org/10.1101/208033 2017-10-24 CC BY Image segmentation based on relative motion and relative disparity cues in topographically organized areas of human visual cortex Peter J Kohler|Benoit Cottereau|Anthony M. Norcia Stanford University;|CNRS, Toulouse, France
http://dx.doi.org/10.1101/205328 2017-10-24 CC BY Scaling read aligners to hundreds of threads on general-purpose processors Ben Langmead|Christopher Wilks|Valentin Antonescu|Rone Charles Johns Hopkins University
http://dx.doi.org/10.1101/208314 2017-10-24 CC BY-NC-ND Molecular Identification of some Indian Muscid flies (Diptera: Muscidae) based on mitochondrial gene COII Devinder Singh|Ramandeep Achint Punjabi University Patiala
http://dx.doi.org/10.1101/202101 2017-10-24 Cell Biology CC BY Non-invasive imaging platform reveals a potential tumourigenicity hazard of systemically administered cells Lauren Scarfe|Arthur Taylor|Jack Sharkey|Michael Barrow|Joan Comenge|Lydia Beeken|Cai Astley|Ilaria Santeramo|Claire Hutchinson|Lorenzo Ressel|Jon Smythe|Eric Austin|Raphael Levy|Matthew J. Rosseinsky|Dave J. Adams|Harish Poptani|Brian K. Park|Patricia Murray|Bettina Wilm University of Liverpool;|NHS Blood and Transplant;|University of Glasgow
http://dx.doi.org/10.1101/208447 2017-10-24 Genetics CC BY-NC-ND Genetics of trans-regulatory variation in gene expression Frank W. Albert|Joshua S. Bloom|Jake Siegel|Laura Day|Leonid Kruglyak University of Minnesota;|UCLA
http://dx.doi.org/10.1101/208157 2017-10-24 Pharmacology and Toxicology CC BY Cadmium exposure inhibits branching morphogenesis and causes alterations consistent with HIF-1α inhibition in human primary breast organoids Sabrina A. Rocco|Lada Koneva|Lauren Y. M. Middleton|Tasha Thong|Sumeet Solanki|Sarah Karram|Kowit Nambunmee|Craig Harris|Laura S. Rozek|Maureen A. Sartor|Yatrik M. Shah|Justin Colacino University of Michigan;|Mae Fah Luang University;|University of Michigan School of Public Health
http://dx.doi.org/10.1101/208223 2017-10-24 Neuroscience CC BY-NC-ND Synaptic and transcriptionally downregulated genes are associated with cortical thickness differences in autism Rafael Romero-Garcia|Varun Warrier|Edward Bullmore|Simon Baron-Cohen|Richard A. I. Bethlehem University of Cambridge
http://dx.doi.org/10.1101/208454 2017-10-24 Evolutionary Biology CC BY-NC-ND Reconstructing deep-time paleoclimate legacies unveil the demise and turnover of the ancient (boreo)tropical flora Andrea Sanchez Meseguer|Jorge Lobo|Josselin Cornuault|David Beerling|Brad Ruhfel|Charles Davis|Emmanuelle Jousselin|Isabel Sanmartin CNRS, UMR 5554 Institut des Sciences de l'Evolution, Universite de Montpellier;|Dept. of Biogeography & Global Change, MNCN-CSIC;|Department of Biodiversity and Conservation, Real Jardin Botanico, RJB-CSIC;|University of Sheffield;|Department of Biological Sciences, Eastern Kentucky University;|Department of Organismic and Evolutionary Biology, Harvard University Herbaria;|INRA, UMR 1062, The Center for Biology and Management of Populations (CBGP)
http://dx.doi.org/10.1101/208355 2017-10-24 Neuroscience CC BY-NC-ND The Transcriptional Logic of Mammalian Neuronal Diversity Ken Sugino|Erin Clark|Anton Schulmann|Yasuyuki Shima|Lihua Wang|David L. Hunt|Bryan M. Hooks|Dimitri Trankner|Jayaram Chandrashekar|Serge Picard|Andrew Lemire|Nelson Spruston|Adam Hantman|Sacha B. Nelson Janelia Research Campus;|Brandeis University
http://dx.doi.org/10.1101/208405 2017-10-24 Bioinformatics Distribution of Purines and Pyrimidines over miRNAs of Human, Gorilla and Chimpanzee Jayanta Kumar Das|Pabitra Pal Choudhury|Adwitiya Chaudhuri|Sk. Sarif Hassan|Pallab Basu Applied Statistics Unit, Indian Statistical Institute, Kolkata, India;|Pingla Thana Mahavidyalaya;|International Centre for Theoretical Sciences, TIFR
http://dx.doi.org/10.1101/208439 2017-10-24 Cancer Biology CC BY Small Molecule Inhibitors of the Human Histone Lysine Methyltransferase NSD2 / WHSC1 / MMSET Identified from a Quantitative High-Throughput Screen with Nucleosome Substrate Nathan P. Coussens|Stephen C. Kales|Mark J. Henderson|Olivia W. Lee|Kurumi Y. Horiuchi|Yuren Wang|Qing Chen|Ekaterina Kuznetsova|Jianghong Wu|Dorian M. Cheff|Ken Chih-Chien Cheng|Paul Shinn|Kyle R. Brimacombe|Min Shen|Anton Simeonov|Haiching Ma|Ajit Jadhav|Matthew D. Hall National Center for Advancing Translational Sciences, NIH, Rockville, Maryland;|Reaction Biology Corporation, 1 Great Valley Parkway, Suite 2, Malvern, PA
http://dx.doi.org/10.1101/207217 2017-10-24 Animal Behavior and Cognition Polarization Vision: Overcoming Challenges of Working with a Property of Light We Barely See James J. Foster|Shelby E. Temple|Martin J. How|Ilse M. Daly|Camilla R. Sharkey|David Wilby|Nicholas W. Roberts Lunds Universitet;|University of Bristol;|Cambridge University
http://dx.doi.org/10.1101/208462 2017-10-24 Evolutionary Biology CC BY-NC-ND Hsp90 dictates viral sequence space by balancing the evolutionary tradeoffs between protein stability, aggregation and translation rate Ron Geller|Sebastian Pechmann|Ashley Acevedo|Raul Andino|Judith Frydman Universitat de Valencia;|Universite de Montreal;|Rockefeller University;|UCSF;|Stanford University
http://dx.doi.org/10.1101/203133 2017-10-24 Immunology CC BY RSV Downregulates IL-21/IL-21R On TFH Cells Via PD-L1 Induction In APCs Impairing Protective Humoral Responses Rodrigo Benedetti Gassen|Tiago Fazolo|Deise Nascimento de Freitas|Thiago Jesus Borges|Fabio Maito|Daniel Mendes|Andre Bafica|Luiz Carlos Rodrigues|Ana Paula Duarte de Souza|Cristina Bonorino PUCRS;|UFSC;|UFCSPA
http://dx.doi.org/10.1101/208413 2017-10-24 Genetics CC BY-NC Evaluating genetic ancestry and self-reported ethnicity in the context of carrier screening Roman Shraga|Sarah Yarnall|Sonya Elango|Arun Manoharan|Sally Ann Rodriguez|Sara Bristow|Neha Kumar|Mohammad Niknazar|David Hoffman|Shahin Ghadir|Rita Vassena|Serena Chen|Avner Hershlag|Jamie Grifo|Oscar Puig Phosphorus, Inc.;|Cooper Genomics;|Sarah Lawrence College;|Div. of Reproductive Endocrinol., Dept. of Obstetrics & Gynecol., Hofstra Northwell;|IVF Florida Reproductive Associates;|Dept. of Obstetrics and Gynecology, The David Geffen School of Medicine at UCLA;|Clinica Eugin;|Institute for Reproductive Medicine and Science, Saint Barnabas Medical Center;|Div. of Reproductive Endocrinol. & Infertility, Dept. of Obstetrics & Gynecology, NYU
http://dx.doi.org/10.1101/208090 2017-10-24 Genomics CC BY-NC-ND Infant Weight Gain Trajectories Linked To Oral Microbiome Composition Sarah Craig|Daniel Blankenberg|Alice Parodi|Ian Paul|Leann Birch|Jennifer Savage|Michele Marini|Jennifer Stokes|Anton Nekrutenko|Matthew Reimherr|Francesca Chiaromonte|Kateryna Makova Penn State University;|Politecnico di Milano;|Penn State College of Medicine;|University of Georgia
http://dx.doi.org/10.1101/208371 2017-10-24 Evolutionary Biology CC BY-NC-ND Origins of the current outbreak of multidrug resistant malaria in Southeast Asia: a retrospective genetic study Roberto Amato|Richard D. Pearson|Jacob Almagro-Garcia|Chanaki Amaratunga|Pharath Lim|Seila Suon|Sokunthea Sreng|Eleanor Drury|Jim Stalker|Olivo Miotto|Rick M. Fairhurst|Dominic P. Kwiatkowski Wellcome Trust Sanger Institute, Cambridge, UK; University of Oxford, Oxford, UK;|NIAID/NIH, Rockville, MD, USA;|NIAID/NIH, Rockville, MD, USA; CNM, Phnom Penh, Cambodia;|CNM, Phnom Penh, Cambodia;|Wellcome Trust Sanger Institute, Cambridge, UK;|Wellcome Trust Sanger Institute, Cambridge, UK;;|MORU, Bangkok, Thailand; WTSI, Cambridge, UK; University of Oxford, Oxford, UK
http://dx.doi.org/10.1101/208397 2017-10-24 Evolutionary Biology CC BY-NC Fish Diversity as a Function of Depth and Body Size Klaus M. Stiefel|Timothy Joseph R. Quimpo Neurolinx Research Institute;|The Marine Science Institute, University of the Philippines
http://dx.doi.org/10.1101/190298 2017-10-24 Neuroscience CC BY-NC-ND Precise excitation-inhibition balance controls gain and timing in hippocampus Aanchal Bhatia|Sahil Moza|Upinder S. Bhalla National Centre for Biological Sciences
http://dx.doi.org/10.1101/208363 2017-10-24 Biophysics CC BY-ND The SAM domain of mouse SAMHD1 is critical for its activation and regulation Olga Buzovetsky|Chenxiang Tang|Kirsten Knecht|Jenna M. Antonucci|Li Wu|Xiaoyun Ji|Yong Xiong Yale University;|The Ohio State University;|Nanjing University
http://dx.doi.org/10.1101/208165 2017-10-24 Genetics CC BY-NC-ND Quantification of autism recurrence risk by direct assessment of paternal sperm mosaicism Martin Breuss|Morgan Kleiber|Renee D George|Danny Antaki|Kiely N James|Laurel L Ball|Oanh Hong|Camila A B Garcia|Damir Musaev|An Nguyen|Jennifer McEvoy-Venneri|Renatta Knox|Evan Sticca|Orrin Devinsky|Melissa Gymrek|Jonathan Sebat|Joseph G Gleeson Department of Neurosciences, Howard Hughes Medical Institute, University of California, San Diego;|Beyster Center for Genomics of Psychiatric Diseases, University of California, San Diego;|Department of Neurology, Epilepsy Division, New York University School of Medicine;|Department of Medicine/Computer Science and Engineering, University of California, San Diego
http://dx.doi.org/10.1101/208009 2017-10-24 Evolutionary Biology CC BY-NC Adaptive evolution within the gut microbiome of individual people Shijie Zhao|Tami D Lieberman|Mathilde Poyet|Mathieu Groussin|Sean M Gibbons|Ramnik J Xavier|Eric J Alm Massachusetts Institute of Technology;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/208678 2017-10-25 Neuroscience CC BY-NC-ND Decomposing parietal memory reactivation to predict consequences of remembering Hongmi Lee|Rosalie Samide|Franziska Rebekka Richter|Brice Alan Kuhl New York University;|Boston College;|University of Cambridge;|University of Oregon
http://dx.doi.org/10.1101/202911 2017-10-25 Neuroscience CC BY-NC-ND Entrained audiovisual speech integration implemented by two independent computational mechanisms: Redundancy in left posterior superior temporal gyrus and Synergy in left motor cortex Hyojin Park|Robin A. A. Ince|Philippe G. Schyns|Gregor Thut|Joachim Gross Institute of Neuroscience and Psychology, University of Glasgow
http://dx.doi.org/10.1101/208660 2017-10-25 Bioinformatics CC BY-NC-ND Continuous Biomarker Assessment by Exhaustive Survival Analysis Dominic A. Pearce|Ajit J. Nirmal|Tom C. Freeman|Andrew H. Sims The University of Edinburgh
http://dx.doi.org/10.1101/208280 2017-10-25 Neuroscience CC BY-NC-ND An information-theoretic perspective on the costs of cognition Alexandre Zenon|Oleg Solopchuk|Giovanni Pezzulo CNRS;|Université catholique de Louvain, Brussels;|Institute of Cognitive Sciences and Technologies, Rome
http://dx.doi.org/10.1101/208561 2017-10-25 Genomics CC BY-ND Intrinsic specificity differences between transcription factor paralogs partly explain their differential in vivo binding Ning Shen|Jingkang Zhao|Joshua Schipper|Yuning Zhang|Tristan Bepler|Dan Leehr|John Bradley|John Horton|Hilmar Lapp|Raluca Gordan Duke University
http://dx.doi.org/10.1101/208538 2017-10-25 Neuroscience CC BY-NC-ND Invariances in a combinatorial olfactory receptor code Guangwei Si|Jessleen K. Kanwal|Yu Hu|Christopher J. Tabone|Jacob Baron|Matthew E. Berck|Gaetan Vignoud|Aravinthan D. T. Samuel Harvard University
http://dx.doi.org/10.1101/208256 2017-10-25 Neuroscience CC BY-NC-ND How emotional memory affects face remembering: an ERP investigation Alice Mado Proverbio|Maria Elide Vanutelli|Simone Vigano University of Milano-Bicocca;|University of Milano, Dept. of Philosophy;|CIMeC Center for Mind/Brain Sciences, University of Trento
http://dx.doi.org/10.1101/208850 2017-10-25 Plant Biology Bundle sheath extensions in tomato affect leaf phenotypic plasticity in response to irradiance Maria Antonia Machado Barbosa|Daniel H. Chitwood|Aristea A. Azevedo|Wagner L. Araujo|Samuel C. V. Martins|Dimas M. Ribeiro|Lazaro E. P. Peres|Agustin Zsogon Universidade Federal de Viçosa;|Independent Researcher
http://dx.doi.org/10.1101/207993 2017-10-25 Microbiology CC BY A fine-tuned vector-parasite dialogue in tsetse's cardia determines peritrophic matrix integrity and trypanosome transmission success Aurelien Vigneron|Emre Aksoy|Brian L. Weiss|Xiaoli Bing|Xin Zhao|Erick O. Awuoche|Michelle O'Neill|Yineng Wu|Geoffrey M. Attardo|Serap Aksoy Yale School of Public Health;|University of California Riverside;|Cornell University;|Chinese Academy of Sciences;|Meru University of Science and Technology;|University of California Davis
http://dx.doi.org/10.1101/208652 2017-10-25 Evolutionary Biology CC BY-NC-ND Climatic niche dynamics and its role in the insular endemism of Anolis lizards Julian A. Velasco|Enrique Martinez-Meyer|Oscar Flores-Villela Museo de Zoologia, Facultad de Ciencias, Univ. Nacional Autonoma de Mexico;|Instituto de Biologia, Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/208637 2017-10-25 Neuroscience CC BY-NC-ND How the human brain introspects about one's own episodes of cognitive control David Soto|Mona Theodoraki|Pedro M. Paz-Alonso Basque Center on Cognition, Brain and Language;|Imperial College
http://dx.doi.org/10.1101/208520 2017-10-25 Animal Behavior and Cognition CC BY-NC Early Detection of Apathetic Phenotypes in Huntington's Disease Knock-in Mice Using Open Source Tools Shawn Minnig|Robert M. Bragg|Hardeep S. Tiwana|Wes T. Solem|William S. Hovander|Eva-Mari S. Vik|Madeline Hamilton|Samuel R. W. Legg|Dominic D. Shuttleworth|Sydney R. Coffey|Jeffrey P. Cantle|Jeffrey Bryan Carroll Western Washington University;|Western Washington University
http://dx.doi.org/10.1101/208124 2017-10-25 Bioinformatics Data Science Issues in Understanding Protein-RNA Interactions Anob M. Chakrabarti|Nejc Haberman|Arne Praznik|Nicholas M. Luscombe|Jernej Ule The Francis Crick Institute
http://dx.doi.org/10.1101/208801 2017-10-25 Synthetic Biology CC BY-NC-ND Massive Factorial Design Untangles Coding Sequences Determinants Of Translation Efficacy Guillaume Cambray|Joao C. Guimaraes|Adam P. Arkin INRA;|University of California, Berkeley
http://dx.doi.org/10.1101/208603 2017-10-25 Microbiology Defining the Transcriptional Landscape during Cytomegalovirus Latency with Single-Cell RNA Sequencing Miri Shnayder|Aharon Nachshon|Benjamin Krishna|Emma Poole|Alina Boshkov|Amit Binyamin|Itay Maza|John Sinclair|Michal Schwartz|Noam Stern-Ginossar Weizmann Institute of Science;|University of Cambridge;|Technion - Institute of Technology
http://dx.doi.org/10.1101/208587 2017-10-25 Neuroscience CC BY-NC-ND Neuronal CCL2 expression drives inflammatory monocyte infiltration into the brain during acute virus infection Charles L. Howe|Reghann G. LaFrance-Corey|Emma N. Goddery|Kanish Mirchia Mayo Clinic
http://dx.doi.org/10.1101/208686 2017-10-25 Microbiology CC BY-NC-ND Metabolic Interactions Between Dynamic Bacterial Subpopulations Adam Z Rosenthal|Yutao Qi|Sahand Hormoz|Jin Park|Sophia Hsin-Jung Li|Michael Elowitz California Institute of Technology;|Princeton University
http://dx.doi.org/10.1101/208744 2017-10-25 Neuroscience CC BY-NC-ND Single-cell transcriptomic catalog of mouse cortical development Lipin Loo|Jeremy M Simon|Eric S McCoy|Jesse K Niehaus|Mark J Zylka The University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/208504 2017-10-25 Biophysics Modulation of the Neisseria gonorrhoeae drug efflux conduit MtrE Giulia Tamburrino|Salome Llabres|Owen N. Vickery|Samantha J. Pitt|Ulrich Zachariae Dundee University;|St. Andrews University
http://dx.doi.org/10.1101/208512 2017-10-25 Bioinformatics Image-based methods for phenotyping growth dynamics and fitness in large plant populations Francois Vasseur|George Wang|Justine Bresson|Rebecca Schwab|Detlef Weigel Max Planck Institute for Developmental Biology, D-72076 Tübingen, Germany;|Center for Plant Molecular Biology, General Genetics, University of Tübingen
http://dx.doi.org/10.1101/208751 2017-10-25 Neuroscience White matter haemodynamics: basic physiology and disruption in neuroinflammatory disease Scott Kolbe|Sanuji Gajamange|Jon Cleary|Trevor Kilpatrick University of Melbourne
http://dx.doi.org/10.1101/208827 2017-10-25 Neuroscience CC BY Differentiable processing of objects, associations and scenes within the hippocampus Marshall A. Dalton|Peter Zeidman|Cornelia McCormick|Eleanor A. Maguire University College London
http://dx.doi.org/10.1101/208819 2017-10-25 Bioinformatics CC BY-NC-ND Graph abstraction reconciles clustering with trajectory inference through a topology preserving map of single cells F. Alexander Wolf|Fiona Hamey|Mireya Plass|Jordi Solana|Joakim S. Dahlin|Berthold Gottgens|Nikolaus Rajewsky|Lukas Simon|Fabian J. Theis Helmholtz Zentrum Munchen;|University of Cambridge;|MDC Berlin
http://dx.doi.org/10.1101/208728 2017-10-25 Immunology Id proteins suppress E2A-driven innate-like T cell development prior to TCR selection Sumedha Roy|Amanda J. Moore|Cassandra Love|Anupama Reddy|Deepthi Rajagopalan|Sandeep S. Dave|Leping Li|Cornelis Murre|Yuan Zhuang Department of Immunology, Duke University Medical Center;|Department of Molecular Biology, University of California, San Diego;|Duke Institute for Genome Sciences and Policy, Duke University;|Biostatistics and Computational Biology Lab, NIEHS
http://dx.doi.org/10.1101/208496 2017-10-25 Genetics CC BY-ND Heritability of regional brain volumes in large-scale neuroimaging and genetic studies Bingxin Zhao|Joseph G. Ibrahim|Yun Li|Tengfei Li|Yue Wang|Yue Shan|Ziliang Zhu|Fan Zhou|Jingwen Zhang|Chao Huang|Huiling Liao|Liuqing Yang|Paul M. Thompson|Hongtu Zhu Department of Biostatistics, University of North Carolina at Chapel Hill;|Dept. of Biostatistics, University of Texas MD Anderson Cancer Center, Houston;|Department of Statistics, Texas A&M University, College Station, TX, USA;|Dept. of Statistics & Operation Research, University of North Carolina at Chapel Hill;|Imaging Genetics Ctr., Mark & Mary Stevens Inst. for Neuroimaging & Informatics
http://dx.doi.org/10.1101/208629 2017-10-25 Genetics Birthweight, Type 2 Diabetes and Cardiovascular Disease: Addressing the Barker Hypothesis with Mendelian randomization Daniela Zanetti|Emmi Tikkanen|Stefan Gustafsson|James Rush Priest|Stephen Burgess|Erik Ingelsson Stanford University;|Uppsala University;|University of Cambridge
http://dx.doi.org/10.1101/208207 2017-10-25 Bioinformatics CC BY 3D cell nuclear morphology: microscopy imaging dataset and voxel-based morphometry classification results Alexandr A. Kalinin|Ari Allyn-Feuer|Alex Ade|Gordon-Victor Fon|Walter Meixner|David Dilworth|Jeffrey R. de Wet|Gerald A. Higgins|Gen Zheng|Amy Creekmore|John W. Wiley|James E. Verdone|Robert W. Veltri|Kenneth J. Pienta|Donald S. Coffey|Brian D. Athey|Ivo D. Dinov University of Michigan;|Johns Hopkins University
http://dx.doi.org/10.1101/208470 2017-10-25 Systems Biology CC BY-NC-ND Pattern analysis of pluripotency reveals the molecular basis of naïve, primed and formative states Patrick S. Stumpf|Ben D. MacArthur University of Southampton
http://dx.doi.org/10.1101/208066 2017-10-25 Conserved patterns of somatic mutations in human peripheral blood cells L Alexander Liggett|Anchal Sharma|Subhajyoti De|James DeGregori University of Colorado School of Medicine;|Rutgers University
http://dx.doi.org/10.1101/208777 2017-10-25 CC BY-NC-ND Imitation Predicts Social Favor in Adolescent Rhesus Macaques (Macaca mulatta) Jordan Anderson|Erin Kinnally Duke University;|University of California Davis
http://dx.doi.org/10.1101/209171 2017-10-25 CC BY Power, false discovery rate and Winner's Curse in eQTL studies Qin Qin Huang|Scott Callum Ritchie|Marta Brozynska|Michael Inouye Baker Heart and Diabetes Institute
http://dx.doi.org/10.1101/207324 2017-10-25 CC BY-NC-ND Conservation of specificity in two low-specificity proteins Lucas C Wheeler|Jeremy A Anderson|Annelise J Morrison|Caitlyn E Wong|Michael J Harms University of Oregon
http://dx.doi.org/10.1101/208710 2017-10-25 CC BY-NC-ND Dynamic and Selective Low-Complexity Domain Interactions Revealed by Live-Cell Single-Molecule Imaging Shasha Chong|Claire Dugast-Darzacq|Zhe Liu|Peng Dong|Gina Dailey|Sambashiva Banala|Luke Lavis|Xavier Darzacq|Robert Tjian UC Berkeley; HHMI;|UC Berkeley;|Janelia Research Campus, HHMI
http://dx.doi.org/10.1101/209163 2017-10-25 CC BY-NC-ND Synergism between a simple sugar and a small intrinsically disordered protein mitigate the lethal stresses of severe water loss Skylar X. Kim|Gamze Camdere|Xuchen Hu|Douglas Koshland|Hugo Tapia University of California, Berkeley
http://dx.doi.org/10.1101/209114 2017-10-25 CC BY-NC-ND Terminal uridylyltransferases target RNA viruses as part of the innate immune system in animals Jeremie Le Pen|Hongbing Jiang|Tomas Di Domenico|Emma Kneuss|Joanna Kosalka|Marcos Morgan|Christian Much|Konrad L. M. Rudolph|Anton J. Enright|Donal O'Carroll|David Wang|Eric A. Miska The Rockefeller University;|Washington University in St. Louis;|University of Cambridge;|University of Edinburgh;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/209106 2017-10-25 CC BY-NC-ND Phylogenetic profiling identifies glucosyl-phosphoryl dolichol scramblase candidates Lucy Skrabanek|Anant K. Menon Weill Cornell Medical College
http://dx.doi.org/10.1101/209098 2017-10-25 CC BY-NC-ND Massive Phenotypic Measurements Reveal Complex Physiological Consequences Of Differential Translation Efficacies Adam P. Arkin|Guillaume Cambray University of California, Berkeley;|INRA
http://dx.doi.org/10.1101/209023 2017-10-25 CC BY Non-B-form DNA structures mark centromeres Sivakanthan Kasinathan|Steven Henikoff Univ. of Washington School of Medicine; Fred Hutchinson Cancer Reseearch Center;|Fred Hutchinson Cancer Reseearch Center; HHMI
http://dx.doi.org/10.1101/207852 2017-10-25 Use of a scoring strategy to determine clinical risk of progression and risk group-specific treatment adherence in subjects with latent tuberculosis infection Michael Scolarici|Ken Dekitani|Ling Chen|Marcia Sokol-Anderson|Daniel F. Hoft|Soumya Chatterjee St. Louis University School of Medicine, St. Louis, MO;|Washington University in St. Louis School of Medicine;|Division of Infectious Diseases, Allergy and Immunology, St. Louis University;|St. Louis University
http://dx.doi.org/10.1101/209007 2017-10-25 CC BY-NC-ND The Cultural Brain Hypothesis: How culture drives brain expansion, underlies sociality, and alters life history Michael Muthukrishna|Michael Doebeli|Maciej Chudek|Joseph Henrich London School of Economics and Political Science;|University of British Columbia;|Arizona State University;|Harvard University
http://dx.doi.org/10.1101/209080 2017-10-25 CC BY-NC-ND Multi-objective optimized breeding strategies Deniz Akdemir|Julio Isidro Sanchez StatGen Consulting;|University College Dublin
http://dx.doi.org/10.1101/208645 2017-10-25 CC BY-NC-ND A computational model of MGUS progression to Multiple Myeloma identifies optimum screening strategies and their effects on mortality Philipp Martin Altrock|Jeremy Ferlic|Tobias Galla|Michael H. Tomasson|Franziska Michor Moffitt Cancer Center and Research Institute;|Dana-Farber Cancer Institute;|The University of Manchester;|The University of Iowa
http://dx.doi.org/10.1101/207589 2017-10-25 CC BY-NC-ND Socioeconomic Disparities and Sexual Dimorphism in Neurotoxic Effects of Ambient Fine Particles on Youth IQ: A Longitudinal Analysis Pan Wang|Catherine Tuvblad|Diana Younan|Meredith Franklin|Fred Lurmann|Jun Wu|Laura A. Baker|Jiu-Chiuan Chen UCLA Center for Health Policy Research;|Department of Psychology, University of Southern California, USA;|Department of Preventive Medicine, University of Southern California, USA;|Sonoma Technology, Inc., Petaluma, California, USA;|Program in Public Health, University of California, Irvine, USA
http://dx.doi.org/10.1101/208975 2017-10-25 Rem2 regulates distinct homeostatic mechanisms in visual circuit plasticity Anna R. Moore|Sarah E. Richards|Katelyn Kenny|Leandro Royer|Urann Chan|Kelly Flavahan|Stephen D. Van Hooser|Suzanne Paradis Brandeis University
http://dx.doi.org/10.1101/208926 2017-10-25 HPViewer: Sensitive and specific genotyping of human papillomavirus in metagenomic DNA Yuhan Hao|Liying Yang|Antonio Galvao Neto|Milan R. Amin|Dervla Kelly|Stuart M. Brown|Ryan C. Branski|Zhiheng Pei NYU Langone Medical Center
http://dx.doi.org/10.1101/208918 2017-10-25 CC BY-NC-ND Opponent assessment and conflict resolution through mutual motor coordination Andres Laan|Marta Iglesias|Gonzalo de Polavieja Champalimaud Research;|Champalimaud Institute for the Unknown
http://dx.doi.org/10.1101/208983 2017-10-25 Division-independent differentiation mandates proliferative competition among stem cells Amy Reilein|David Melamed|Simon Tavare|Daniel Kalderon Columbia University;|University of Cambridge
http://dx.doi.org/10.1101/209015 2017-10-25 CC BY-NC-ND Discovering Competing Endogenous RNA Interactions in Breast Cancer Molecular Subtypes Gulden Olgun|Ozgur Sahin|Oznur Tastan Bilkent University
http://dx.doi.org/10.1101/207969 2017-10-25 CC BY-NC-ND Computational discovery of tissue morphology biomarkers in very long-term survivors with pancreatic ductal adenocarcinoma Jacob S. Sarnecki|Laura D. Wood|Christopher L. Wolfgang|Ralph H. Hruban|Anirban Maitra|Denis Wirtz|Pei-Hsun Wu Johns Hopkins University;|Johns Hopkins University School of Medicine;|The University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/201509 2017-10-25 CC BY-NC-ND Mechanochemical feedback and control of endocytosis and membrane tension Joseph Jose Thottacherry|Anita Joanna Kosmalska|Alberto Elosegui-Artola|Susav Pradhan|Sumit Sharma|Parvinder P. Singh|Marta C. Guadamillas|Natasha Chaudhary|Ram Vishwakarma|Xavier Trepat|Miguel A. del Pozo|Robert G. Parton|Pramod Pullarkat|Pere Roca-Cusachs|Satyajit Mayor National Centre for Biological Sciences (NCBS);|Institute for Bioengineering of Catalonia (IBEC);|Raman Research Institute (RRI);|CSIR - Indian Institute of Integrative Medicine (IIIM);|Centro Nacional de Investigaciones Cardiovasculares Carlos III (CNIC);|Institute for Molecular Bioscience and Centre for Microscopy and Microanalysis
http://dx.doi.org/10.1101/208900 2017-10-25 CC BY-ND Coordination of robust single cell rhythms in the Arabidopsis circadian clock via spatial waves of gene expression Peter D. Gould|Mirela Domijan|Mark Greenwood|Isao T. Tokuda|Hannah Rees|Laszlo Kozma-Bognar|Anthony J. Hall|James C. W. Locke University of Liverpool;|Sainsbury Laboratory, University of Cambridge;|Ritsumeikan University;|Earlham Institute;|Biological Research Centre, Hungarian Academy of Sciences;|Cambridge University
http://dx.doi.org/10.1101/208991 2017-10-25 Postnatal Tendon Growth and Remodeling Requires Platelet-Derived Growth Factor Receptor Signaling Kristoffer B. Sugg|James F. Markworth|Nathaniel P. Disser|Andrew M. Rizzi|Jeffrey R. Talarek|Dylan C. Sarver|Susan V. Brooks|Christopher L. Mendias University of Michigan;|Hospital for Special Surgery
http://dx.doi.org/10.1101/208967 2017-10-25 CC BY-ND Membrane Diffusion Occurs by a Continuous-Time Random Walk Sustained by Vesicular Trafficking. Maria Goiko|John R. de Bruyn|Bryan Heit University of Western Ontario
http://dx.doi.org/10.1101/209411 2017-10-26 Transcriptional regulation by NR5A2 couples cell differentiation and inflammation in the pancreas Isidoro Cobo|Paola Martinelli|Marta Flandez|Latifa Bakiri|Mingfeng Zhang|Enrique Carrillo-de-Santa-Pau|Jinping Jia|Liv Thommesen|Torunn Bruland|Natalia del Pozo|Sara Olson|Jill Smith|William R. Bamlet|Gloria M. Petersen|Nuria Malats|Laufey Amundadottir|Erwin Wagner|Francisco X. Real Spanish National Cancer Research Center - CNIO;|National Institutes of Health;|NTNU;|Memorial Sloan-Kettering Cancer Center;|Georgetown University;|Mayo Clinic
http://dx.doi.org/10.1101/163279 2017-10-26 CC BY-NC-ND Shavenbaby and Yorkie mediate Hippo signaling to protect adult stem cells from apoptosis Jerome Bohere|Alexandra Mancheno-Ferris|Kohsuke Akino|Yuya Yamabe|Sachi Inagaki|Helene Chanut-Delalande|Serge Plaza|Yuji Kageyama|Dani Osman|Cedric Polesello|Francois Payre Centre de Biologie du Developpement, CNRS, Universite Toulouse III Paul Sabatier;|Department of Biology, Graduate School of Science, Kobe University;|Lab. de Recherche en Sciences Vegetales, Universite Toulouse III Paul Sabatier;|Biosignal Research Center, Kobe University;|Lebanese University, Faculty of Science
http://dx.doi.org/10.1101/209288 2017-10-26 CC BY-NC-ND A Comprehensive Immunologic Portrait of Triple-Negative Breast Cancer Zhixian Liu|Mengyuan Li|Zehang Jiang|Xiaosheng Wang China Pharmaceutical University
http://dx.doi.org/10.1101/208868 2017-10-26 CC BY-NC-ND The Drosophila SK potassium channel negatively regulates nociception. Kia Walcott|Stephanie Mauthner|Asako Tsubouchi|Jessica Robertson|Dan Tracey Duke University Medical Center;|Indiana University;|University of Tokyo;|Indiana University Bloomington
http://dx.doi.org/10.1101/209262 2017-10-26 CC BY-NC-ND ProLIF: a quantitative assay for investigating integrin cytoplasmic protein interactions and synergistic membrane effects on proteoliposomes Nicola De Franceschi|Mitro Miihkinen|Hellyeh Hamidi|Jonna Alanko|Anja Mai|Laura Picas|Daniel Levy|Peter Mattjus|Benjamin T Goult|Bruno Goud|Johanna Ivaska University of Turku;|Institut Curie;|Åbo Akademi University;|University of Kent
http://dx.doi.org/10.1101/209221 2017-10-26 MAK and CCRK kinases regulate kinesin-2 motility in C. elegans neuronal cilia Peishan Yi|Chao Xie|Guangshuo Ou Tsinghua University
http://dx.doi.org/10.1101/209718 2017-10-26 Nanopore Sequencing Reveals High-Resolution Structural Variation in the Cancer Genome Liang Gong|Chee-Hong Wong|Wei-Chung Cheng|Harianto Tjong|Francesca Menghi|Chew Yee Ngan|Edison T. Liu|Chia-Lin Wei The Jackson Laboratory for Genomic Medicine, Farmington, Connecticut, 06032, USA;|China Medical University, Taichung, 40402, Taiwan
http://dx.doi.org/10.1101/209528 2017-10-26 CC BY-NC-ND Structural robustness of mammalian transcription factor networks reveals plasticity across development Jose Luis Caldu-Primo|Elena Rocio Alvarez-Buylla|Jose Davila-Velderrain Centro de Ciencias de la Complejidad, Universidad Nacional Autonoma de Mexico;|MIT Computer Science and Artificial Intelligence Laboratory
http://dx.doi.org/10.1101/209676 2017-10-26 CC BY Synthesizing Signaling Pathways from Temporal Phosphoproteomic Data Ali Sinan Koksal|Kirsten Beck|Dylan R. Cronin|Aaron McKenna|Nathan D. Camp|Saurabh Srivastava|Matthew E. MacGilvray|Rastislav Bodik|Alejandro Wolf-Yadlin|Ernest Fraenkel|Jasmin Fisher|Anthony Gitter University of California Berkeley;|University of Washington;|University of Wisconsin-Madison; Bowling Green State University;|University of Wisconsin-Madison;|Massachusetts Institute of Technology;|Microsoft Research, Cambridge; University of Cambridge;|University of Wisconsin-Madison; Morgridge Institute for Research
http://dx.doi.org/10.1101/209783 2017-10-26 Cantu syndrome-associated SUR2 (ABCC9) mutations in distinct structural domains result in KATP channel gain-of-function by differential mechanisms Conor McClenaghan|Alex Hanson|Monica Sala-Rabanal|Helen I Roessler|Dragana Josifova|Dorothy K Grange|Gijs van Haaften|Colin G Nichols Washington University in St Louis;|University Medical Center Utrecht;|Guy's and St. Thomas NHS Trust, London, UK;|Washington University School of Medicine
http://dx.doi.org/10.1101/209122 2017-10-26 CC BY-ND FAST-SG: An alignment-free algorithm for hybrid assembly Alex Di Genova|Gonzalo A. Ruz|Marie-France Sagot|Alejandro Maass Universidad Adolfo Ibáñez;|INRIA;|Universidad de Chile
http://dx.doi.org/10.1101/209544 2017-10-26 CC BY-NC-ND Pathway-based polygenic risk implicates GO: 17144 drug metabolism in recurrent depressive disorder Anna Docherty|Arden Moscati|T. Bernard Bigdeli|Alexis K. Edwards|Roseann Peterson|Fuzhong Yang|Daniel E. Adkins|John S. Anderson|Jonathan Flint|Kenneth S. Kendler|Silviu-Alin Bacanu University of Utah School of Medicine;|Virginia Commonwealth Univ. School of Medicine; Mount Sinai School of Medicine;|SUNY Downstate;|Virginia Commonwealth University School of Medicine;|Shanghai Jiao Tong University School of Medicine;|Virginia Commonwealth University School of Medicine; University of Utah;|Semel Inst. for Neurosci. & Human Behavior; UCLA David Geffen School of Med.
http://dx.doi.org/10.1101/209569 2017-10-26 Discovery and Evaluation of Biosynthetic Pathways for the Production of Five Methyl Ethyl Ketone Precursors Milenko Tokic|Noushin Hadadi|Meric Ataman|Dario S. Neves|Birgitta E. Ebert|Lars M. Blank|Ljubisa Miskovic|Vassily Hatzimanikatis Swiss Federal Institute of Technology (EPFL);|RWTH Aachen University
http://dx.doi.org/10.1101/209684 2017-10-26 Unbiased association and expression studies identify novel genes for tooth development Meredith Williams|Claudia Biguetti|Miguel Romero-Bustillos|Kanwal Maheshwari|Nuriye Dinckan|Franco Cavalla|Xiaoming Liu|Renato Silva|Sercan Akyalcin|Z O Uyguner|Alexandre Vieira|Brad A Amendt|Walid D Fakhrouri|Ariadne Letra University of Texas Health Science Center at Houston School of Dentistry;|University of Sao Paulo Bauru Dental School;|University of Iowa;|University of Texas Health Science Center at Houston School of Public Health;|Tufts University School of Dental Medicine;|Istanbul University;|University of Pittsburgh School of Dental Medicine
http://dx.doi.org/10.1101/209585 2017-10-26 A modified sequence capture approach allowing standard and methylation analyses of the same enriched genomic DNA sample Lisa Olohan|Laura-Jayne Gardiner|Anita Lucaci|John Kenny|Anthony Hall University of Liverpool;|Earlham Institute
http://dx.doi.org/10.1101/209775 2017-10-26 CC BY-NC Morphological phylogenetic analysis with inapplicable data Martin D Brazeau|Thomas Guillerme|Martin R Smith Imperial College London;|Trinity College Dublin;|Durham University
http://dx.doi.org/10.1101/209767 2017-10-26 Nuclear Abl Drives Extracellular-Vesicle Transfer of miR-34c to Induce Bystander Effects of Radiation Shubhra Rastogi|Amini Hwang|Josolyn Chan|Jean YJ Wang University of California San Diego
http://dx.doi.org/10.1101/209551 2017-10-26 CC BY A physical model of cell metabolism Jorge Fernandez-de-Cossio-Diaz|Alexei Vazquez Center of Molecular Immunology;|Beatson Institute for Cancer Research
http://dx.doi.org/10.1101/209742 2017-10-26 A toolbox of anti-mouse and rabbit IgG secondary nanobodies Tino Pleiner|Mark Bates|Dirk Goerlich Max Planck Institute for Biophysical Chemistry, Department of Cellular Logistics;|Max Planck Institute for Biophysical Chemistry, Department of NanoBiophotonics
http://dx.doi.org/10.1101/209593 2017-10-26 CC BY-NC-ND Impact of division rate and cell size on gene expression noise Francois Bertaux|Samuel Marguerat|Vahid Shahrezaei Imperial College London;|MRC London Institute of Medical Sciences
http://dx.doi.org/10.1101/209650 2017-10-26 CC BY-NC-ND The DEAD box RNA helicase Ddx39a is essential for myocyte and lens development in zebrafish Linlin Zhang|Beibei Li|Yuxi Yang|Ian C. Scott|Xin Lou Nanjing University;|Hospital for Sick Children
http://dx.doi.org/10.1101/209643 2017-10-26 CC BY-NC-ND Control of septin filament flexibility and bundling Anum Khan|Jay Newby|Amy Gladfelter UNC; Dartmouth;|UNC
http://dx.doi.org/10.1101/208934 2017-10-26 CC BY-NC-ND The Population Dynamics of Obligately Cooperative Species Are Inherently Unstable Abdel Halloway|Margaret Malone|Joel Brown University of Illinois at Chicago;|Moffitt Cancer Center
http://dx.doi.org/10.1101/209320 2017-10-26 CC BY-NC-ND Marine cyanolichens from different littoral zones are associated with distinct bacterial communities Nyree J. West|Delphine Parrot|Claire Fayet|Martin Grube|Sophie Tomasi|Marcelino T. Suzuki UPMC Univ Paris 06, CNRS, Observatoire Océanologique de Banyuls (OOB);|UMR CNRS 6226, Institut des Sciences chimiques de Rennes;|Institute of Plant Sciences, University of Graz;|CNRS, Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM)
http://dx.doi.org/10.1101/209502 2017-10-26 CC BY-NC mobsim: An R package for the simulation and measurement of biodiversity across spatial scales Felix May|Katharina Gerstner|Daniel J. McGlinn|Xiao Xiao|Jonathan M. Chase German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig;|Biology Department, College of Charleston;|School of Biology and Ecology, University of Maine
http://dx.doi.org/10.1101/209445 2017-10-26 CC BY Large conformational changes in FtsH create an opening for substrate entry Vanessa Carvalho|Roland Kieffer|Nick de Lange|Andreas Engel|Marie-Eve Aubin-Tam Delft University of Technology
http://dx.doi.org/10.1101/209387 2017-10-26 CC BY-NC-ND Identification of Cell States Using Super-Enhancer RNA Yueh-Hua Tu|Hsueh-Fen Juan|Hsuan-Cheng Huang Institute of Biomedical Informatics, National Yang-Ming University;|Department of Life Science, National Taiwan University
http://dx.doi.org/10.1101/208942 2017-10-26 Osteo-Oto-Hepato-Enteric Syndrome (O2HE) is caused by loss of function mutations in UNC45A Clothilde Esteve|Ludmila Francescatto|Perciliz Tan|Aurelie Bourchany|Cecile De Leusse|Evelyne Marinier|Arnaud Blanchard|Patrice Bourgeois|Celine Brochier-Armanet|Ange-Line Bruel|Arnauld Delarue|Yannis Duffourd|Emmanuelle Ecochard-Dugelay|Philippe Gauchez|Geraldine Hery|Frederic Huet|Philippe Gauchez|Emmanuel Gonzales|Catherine Guettier-Bouttier|Mina Komuta|Caroline Lacoste|Raphaelle Maudinas|Karin Mazodier|Yves Rimet|Jean-Baptiste Riviere|Bertrand Roquelaure|Sabine Sigaudy|Xavier Stephenne|Christel Thauvin-Robinet|Julien Thevenon|Jacques Sarles|Nicolas Levy|Catherine Badens|Olivier Goulet|Jean-Pierre Hugot|Nicholas Katsanis|Laurence Faivre|Alexandre Fabre Aix Marseille Univ, INSERM, GMGF, Marseille, France;|Center for Human Disease Modeling, Duke University, Durham, North Carolina, USA;|Equipe GAD, UMR1231 Inserm, Universite de Bourgogne Franche Comte, Dijon, France;|Service de Pediatrie Multidisciplinaire, Hopital de la Timone Enfants, APHM, Marseille, France;|Service des Maladies Digestives et Respiratoires Enfant, Hopital Robert Debre, APHP, Paris, France;|Univ Lyon, Universite Claude Bernard Lyon 1, CNRS, France;|Service de Pediatrie, Hopital Enfants, CHU, Dijon, France;|Inserm, UMR-S1174, Hepatinov, University of Paris-Sud 11, Orsay;|Pathology Unit, Bicetre Universitary Hospital, University of Paris-Sud, APHP, Paris, France;|Anatomopathology Department, Cliniques Universitaires Saint-Luc, Brussels, Belgium;|Service de Biologie Moleculaire, Hopital de la Timone Enfants, APHM, Marseille, France;|Internal Medicine and Clinical, Hopital Conception, APHM, Marseille, France;|Service de Pediatrie-Neonatologie, Centre Hospitalier Intercommunal Aix-Pertuis, France;|Departement de Genetique Medicale, Hopital de la Timone Enfants , APHM, Marseille, France;|Universite catholique de Louvain, Cliniques universitaires St Luc, Departement de pediatrie;|Department of Pediatric Gastroenterology, Hepatology and Nutrition, Necker, France
http://dx.doi.org/10.1101/209312 2017-10-26 Genomics CC BY-NC-ND Draft genomes of the fungal pathogen Phellinus noxius in Hong Kong Karen S. W. Tsang|Regent Y. C. Lam|Hoi Shan Kwan The Chinese University of Hong Kong;|The Chinese University of Hong Kong, Muni Arborist Limited
http://dx.doi.org/10.1101/206458 2017-10-26 CC BY OGT (O-GlcNAc Transferase) selectively modifies multiple residues unique to lamin A Dan N Simon|Amanda Wriston|Qiong Fan|Jeffrey Shabanowitz|Alyssa Florwick|Tejas Dharmaraj|Sherket B Peterson|Yosef Gruenbaum|Cathrine R Carlson|Line M Grnning-Wang|Donald F Hunt|Katherine L Wilson Department of Cell Biology, Johns Hopkins University School of Medicine;|Department of Chemistry, University of Virginia;|Department of Nutrition, Institute of Basic Medical Sciences, University of Oslo;|Department of Biological Chemistry, Johns Hopkins University School of Medicine;|Department of Genetics, Institute of Life Sciences, Hebrew University of Jerusalem;|Institute for Experimental Medical Research, Oslo University Hospital and University of Oslo;|Departments of Chemistry and Pathology, University of Virginia
http://dx.doi.org/10.1101/208769 2017-10-26 CC BY-NC-ND Controlling septin filament flexibility and bundling Anum Khan|Jay Newby|Amy S Gladfelter UNC, Dartmouth;|UNC
http://dx.doi.org/10.1101/209254 2017-10-26 CC BY-NC-ND The dynamics of preferential host switching: host phylogeny as a key predictor of parasite prevalence and distribution Jan Engelstaedter|Nicole Z. Fortuna The University of Queensland
http://dx.doi.org/10.1101/209510 2017-10-26 Energy demand and the context-dependent effects of genetic interactions Luke A. Hoekstra|Cole R. Julick|Katelyn M. Mika|Kristi L. Montooth Iowa State University;|University of Nebraska-Lincoln;|University of Chicago
http://dx.doi.org/10.1101/209247 2017-10-26 CC BY-NC-ND Characterization of a Novel Model of Overuse-Induced Calcific Achilles Tendinopathy in Mice: Contralateral Tendinopathy Following Unilateral Tenotomy Wang Liang|Zhang Jie|Yin Gang-hui|Zhang Zhong-min|Chen Tian-yu|Jin Jian|Lai Ping-lin|Huang Bin|Yan Bo|Chen Yu-hui|Jin Da-di|Huang Min-jun The Third Affiliated Hospital of Southern Medical University;|Academy of Orthopedics, Guangdong Province
http://dx.doi.org/10.1101/209346 2017-10-26 Interrelationship of photoperiod and feed utilization on growth and reproductive performance in the Red eyed orange molly (Poecilia sphenops) Bela Zutshi|Aradhana Singh Bangalore University
http://dx.doi.org/10.1101/209379 2017-10-26 CC BY Adaptive feature detection from differential processing in parallel retinal pathways Yusuf Ozuysal|David B. Kastner|Stephen A. Baccus Stanford University
http://dx.doi.org/10.1101/208215 2017-10-26 CC BY-NC Mutualistic acacia-ants show that specialized bacteria are not required for the evolution of herbivory Benjamin E. R. Rubin|Stefanie Kautz|Brian D. Wray|Corrie S. Moreau Princeton University;|Portland State University;|Northwestern University;|Field Museum of Natural History
http://dx.doi.org/10.1101/208348 2017-10-26 The radiation of alopiine clausiliids in the Sicilian Channel (Central Mediterranean): phylogeny, patterns of morphological diversification and implications for taxonomy and conservation of Muticaria and Lampedusa Viviana Fiorentino|N. Salomone|Patrick J. Schembri|Giuseppe Manganelli|Folco Giusti University of Siena, Department of Evolutive Biology;|University of Malta
http://dx.doi.org/10.1101/209130 2017-10-26 CC BY-NC-ND High-affinity low-capacity and low-affinity high-capacity N-acetyl-2-aminofluorene (AAF) macromolecular binding sites are revealed during the growth cycle of adult rat hepatocytes in primary culture K. S. Koch|T. Moran|W.T. T. Shier|H. L. Leffert School of Medicine, Dept. of Pharmacology, University of California San Diego;|College of Pharmacy, Dept. of Medicinal Chemistry, Univ. of Minnesota-Twin Cities
http://dx.doi.org/10.1101/209072 2017-10-26 CC BY-NC-ND N-acetyl-2-aminofluorene (AAF) processing in adult rat hepatocytes in primary culture occurs by high-affinity low-velocity and low-affinity high-velocity AAF metabolite-forming systems K. S. Koch|T. Moran|W. T. Shier|H. L. Leffert School of Medicine, Dept. of Pharmacology, University of California San Diego;|College of Pharmacy, Dept. of Medicinal Chemistry, Univ. of Minnesota-Twin Cities
http://dx.doi.org/10.1101/209478 2017-10-26 CC BY-NC-ND Robust identification of deletions in exome and genome sequence data based on clustering of Mendelian errors Kathryn B. Manheimer|Nihir Patel|Felix Richter|Joshua Gorham|Angela C. Tai|Jason Homsy|Marko T. Boskovski|Michael Parfenov|Elizabeth Goldmuntz|Wendy K. Chung|Martina Brueckner|Martin Tristani-Firouzi|Deepak Srivastava|Jonathan G. Seidman|Christine E. Seidman|Bruce D. Gelb|Andrew J. Sharp Icahn School of Medicine at Mount Sinai;|Harvard Medical School;|The Perelman School of Medicine, University of Pennsylvania;|Columbia University Medical Center;|Yale University School of Medicine;|University of Utah;|UCSF, Gladstone Institutes
http://dx.doi.org/10.1101/209197 2017-10-26 CC BY-NC-ND Gene expression in patient-derived neural progenitors provide insights into neurodevelopmental aspects of schizophrenia Oleg V Evgrafov|Chris Armoskus|Bozena B Wrobel|Valeria N Spitsyna|Tade Souaiaia|Jenifer S Herstein|Christopher P Walker|Joseph D Nguyen|Adrian Camarena|Jonathan R Weitz|Jae Mun 'Hugo' Kim|Edder Lopez Duarte|Kai Wang|George M Simpson|Janet L Sobell|Helena Medeiros|Michele T Pato|Carlos N Pato|James A Knowles SUNY Downstate Medical Center;|University of Southern California;|University of Miami;|Columbia University
http://dx.doi.org/10.1101/209437 2017-10-26 CC BY-NC-ND Preovulatory oocyte aging in mice affects fertilization rate and embryonic genome activation Hannah Demond|Debora Dankert|Ruth Gruemmer|Bernhard Horsthemke Institute of Human Genetics, University Hospital Essen, University Duisburg-Essen;|Institute of Anatomy, University Hospital Essen, University Duisburg-Essen, Essen
http://dx.doi.org/10.1101/210088 2017-10-27 The population genetics of spatial sorting Ben Phillips|Alex Perkins University of Melbourne;|University of Notre Dame
http://dx.doi.org/10.1101/210138 2017-10-27 CC BY-NC-ND The self-organization of plant microtubules in three dimensions enables stable cortical localization and sensitivity to external cues Vincent Mirabet|Pawel Krupinski|Olivier Hamant|Elliot Meyerowitz|Henrik Jonsson|Arezki Boudaoud ENS de Lyon;|Lund University;|ENS Lyon;|Howard Hughes Medical Institute, California Institute of Technology;|University of Cambridge
http://dx.doi.org/10.1101/210120 2017-10-27 Prediction and interpretation of deleterious coding variants in terms of protein structural stability Francois Ancien|Fabrizio Pucci|Maxime Godfroid|Marianne Rooman Université Libre de Bruxelles, Belgium
http://dx.doi.org/10.1101/209809 2017-10-27 CC BY-NC Molecular basis for the recognition of the human AAUAAA polyadenylation signal Yadong Sun|Yixiao Zhang|Keith Hamilton|James L. Manley|Yongsheng Shi|Thomas Walz|Liang Tong Columbia University;|Rockefeller University;|University of California, Irvine;|Rockefeller
http://dx.doi.org/10.1101/210005 2017-10-27 CC BY-NC-ND Partial selfing eliminates inbreeding depression while maintaining genetic diversity Ivo M. Chelo|Bruno Afonso|Sara Carvalho|Ioannis Theologidis|Christine Goy|Ania Pino-Querido|Stephen R. Proulx|Henrique Teotonio Instituto Gulbenkian de Ciencia;|University of California Santa Barbara;|Institut de Biologie de l'Ecole Normale Superieure
http://dx.doi.org/10.1101/210054 2017-10-27 CC BY Modeling the growth and decline of pathogen effective population size provides insight into epidemic dynamics and drivers of antimicrobial resistance Erik M. Volz|Xavier Didelot Department of Infectious Disease Epidemiology, Imperial College London, UK
http://dx.doi.org/10.1101/210013 2017-10-27 Subsurface Zircons With Presumptive "Biogenic" Inclusions As Potentially Useful Proxies For Studying Precambrian Bygone Biospheres In Goa Sujata Dabolkar|Nandkumar Kamat Mycological Laboratory, Department of Botany, Goa University, Goa, India
http://dx.doi.org/10.1101/209734 2017-10-27 miCloud: a plug and play, on-premises bioinformatics cloud, providing seamless integration with Illumina genome sequencers Baekdoo Kim|Thamina Ali|Konstantinos Krampis|Changsu Dong|Bobby Laungani|Claudia Wultsch|Carlos Lijeron Belfer Research of Hunter College - CUNY and Weill Cornell Medical College;|Biological Sci. and Belfer Research of Hunter College and Weill Cornell Medical Coll.;|New York University College of Dentistry, New York, NY;|American Museum of Natural History, New York, NY
http://dx.doi.org/10.1101/209973 2017-10-27 Fossilized Microbial Forms in Baltic and Goan Amber - A Comparative Pioneer Study Sujata Dabolkar|Nandkumar Kamat Mycological Laboratory, Department of Botany, Goa University, Goa, India
http://dx.doi.org/10.1101/209841 2017-10-27 A novel feature selection for RNA-seq analysis Henry Han Fordham University
http://dx.doi.org/10.1101/210021 2017-10-27 CC BY-ND Evolution of cold acclimation in temperate grasses (Pooideae) Marian Schubert|Lars Groenvold|Simen R. Sandve|Torgeir R. Hvidsten|Siri Fjellheim Faculty of Biosciences, Norwegian University of Life Sciences, Aas, Norway;|Faculty of Chemistry, Biotechnology & Food Science, Norwegian Univ. of Life Sci.;|Centre for Integrative Genetics (CIGENE), Norwegian University of Life Sciences
http://dx.doi.org/10.1101/210112 2017-10-27 Probabilistic Graphical Models Relate Immune Status With Response To Neoadjuvant Chemo-Therapy In Breast Cancer Andrea Zapater-Moros|Angelo Gamez-Pozo|Guillermo Prado-Vazquez|Lucia Trilla-Fuertes|Jorge M. Arevalillo|Mariana Diaz-Almiron|Hilario Navarro|Paloma Main|Jaime Feliu|Pilar Zamora|Enrique Espinosa|Juan Angel Fresno Vara Hospital Universitario La Paz;|Biomedica Molecular Medicine SL.;|University Nacional Educacion a Distancia (UNED);|Complutense University of Madrid
http://dx.doi.org/10.1101/209924 2017-10-27 CC BY Single Molecule Sequencing of Cell-free DNA from Maternal Plasma for Noninvasive Trisomy Detection Minyue Dong|Liwei Deng|Huan Jin|Jinsen Cai|Huan Shang|Shuo Zhang|Yueping Zhang|Jinzhou Qin|Dikai Zhang|Feng Long|Renli Zhang|Runsheng Chen|Michael W. Deem|Jun Yu|Jiankui He Women's Hospital, School of Medicine, Zhejiang University. Hangzhou, China;|Direct Genomics Co., Ltd., Shenzhen, Guangdong, 518055, China;|Shanghai Ji Ai Genetics & IVF Inst.,Obsterics & Gynecology Hosipital, Fudan Univ.;|Dept. of Reproductive Medicine, Third Affiliated Hospital of Shenzhen University;|Dept. of Obstetrics & Gynecology, Third Affiliated Hospital of Shenzhen University;|Shenzhen Maternity & Child Healthcare Hospital;|Reprod. Med. Ctr. of Guangdong General Hosp., Guangdong Acad. of Med. Sci.;|CAS Key Lab. of RNA Biology, Institute of Biophysics, Chinese Acad. of Sciences;|Depts. of Bioengineering and Physics & Astronomy, Rice University, Houston, TX;|CAS Key Laboratory of Genome Sciences & Information, Beijing Inst. of Genomics;|Dept. of Biology, South Univ. of Science & Technology of China, Shenzhen
http://dx.doi.org/10.1101/209148 2017-10-27 CC BY-NC-ND Sensory Detection of Aversive and Appetitive Stimuli by CRF neurons Jineun Kim|Yi-Ya Fang|Shreelatha Bhat|Anna Shin|Koichi Hashikawa|Daesoo Kim|Jong-woo Sohn|Dayu Lin|Greg S. B. Suh Korea Advanced Institute of Science and Technology;|NYU School of Medicine;|NYU School of Medicine, Korea Advanced Institute of Science and Technology
http://dx.doi.org/10.1101/209940 2017-10-27 CC BY-NC-ND A first global phylogeny of Maize chlorotic mottle virus Luke A Braidwood|Diego F Quito-Avila|Darlene Cabanas|Alberto Bressan|Anne Wangai|David C Baulcombe University of Cambridge;|Centro de Investigaciones Biotecnologicas del Ecuador, ESPOL;|University of Hawaii;|Bayer CropScience LP;|Kenya Agricultural and Livestock Research Organization
http://dx.doi.org/10.1101/209874 2017-10-27 CC BY-NC Simultaneous CRISPR/Cas9-mediated editing of cassava eIF4E isoforms nCBP-1 and nCBP-2 confers elevated resistance to cassava brown streak disease Michael A. Gomez|Zuh-Jyh Daniel Lin|Theodore Moll|Collin Luebbert|Raj Deepika Chauhan|Anupama Vijayaraghavan|Kelley Renninger|Getu Beyene|Nigel J. Taylor|James C. Carrington|Brian J. Staskawicz|Rebecca Bart University of California, Berkeley;|Donald Danforth Plant Science Center
http://dx.doi.org/10.1101/210310 2017-10-27 CC BY-ND Summarizing Performance for Genome Scale Measurement of miRNA: Reference Samples and Metrics P. Scott Pine|Steven P. Lund|Jerod R. Parsons|Lindsay K. Vang|Ashish A. Mahabal|Luca Cinquini|Sean C. Kelly|Heather Kincaid|Daniel J. Crichton|Avrum Spira|Gang Liu|Adam C. Gower|Harvey I. Pass|Chandra Goparaju|Steven M. Dubinett|Kostyantyn Krysan|Sanford A. Stass|Debra Kukuruga|Kendall Van Keuren-Jensen|Amanda Courtright-Lim|Karol L. Thompson|Barry A. Rosenzweig|Lynn Sorbara|Sudhir Srivastava|Marc L. Salit National Institute of Standards and Technology, Stanford, CA;|National Institute of Standards and Technology, Gaithersburg, MD;|Center for Data Driven Discovery, California Institute of Technology, Pasadena, CA;|Jet Propulsion Laboratory, California Institute of Technology, Pasadena, CA;|Department of Medicine, Boston University School of Medicine, Boston, MA;|Department of Cardiothoracic Surgery, NYU Langone Medical Center, New York, NY;|Department of Medicine, David Geffen School of Medicine at UCLA;|Department of Pathology, University of Maryland School of Medicine, Baltimore, MD;|Translational Genomics Research Institute, Phoenix, AZ;|Center for Drug Evaluation & Research, Food & Drug Administration;|Division of Cancer Prevention, National Cancer Institute, Rockville, MD
http://dx.doi.org/10.1101/209866 2017-10-27 Network supporting contextual fear learning after hippocampal damage has increased dependence on retrosplenial cortex Cesar A O Coelho|Tatiana L Ferreira|Juliana C K Soares|Joao R Sato|Maria G M Oliveira Universidade Federal de Sao Paulo;|Universidade Federal do ABC
http://dx.doi.org/10.1101/210286 2017-10-27 Effects of Force Fields on the Conformational and Dynamic Properties of Amyloid β(1-40) Dimer Explored by Replica Exchange Molecular Dynamics Simulations Charles R. Watts|Andrew Gregory|Cole Frisbie|Sandor Lovas Department of Neurosurgery, Mayo Clinic, College of Medicine, Rochester, MN;|Department of Neurosurgery, Mayo Clinic Health System, La Crosse, WI;|Department of Biomedical Sciences, Creighton University, Omaha, NE
http://dx.doi.org/10.1101/210401 2017-10-27 CC BY Combinatorial effect of promoter activity, mRNA degradation and site-specific transcriptional pausing in modulating protein expression noise Sangjin Kim|Christine Jacobs-Wagner Yale University, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/210369 2017-10-27 Prophylactic vaccination protects against the development of oxycodone addiction Jacques D. Nguyen|Candy S. Hwang|Yanabel Grant|Kim D. Janda|Michael A. Taffe The Scripps Research Institute
http://dx.doi.org/10.1101/210161 2017-10-27 CC BY-NC-ND Lineage specific histories of Mycobacterium tuberculosis dispersal in Africa and Eurasia Mary B. O'Neill|Andrew Kitchen|Alex Zarley|William Aylward|Vegard Eldholm|Caitlin S. Pepperell University of Wisconsin - Madison;|University of Iowa;|Norwegian Institute of Public Health
http://dx.doi.org/10.1101/210419 2017-10-27 RACIPE: A computational tool for Modeling Gene Regulatory Circuits using Randomization Bin Huang|Dongya Jia|Jingchen Feng|Herbert Levine|Jose N. Onuchic|Mingyang Lu Rice University;|The Jackson Laboratory
http://dx.doi.org/10.1101/210302 2017-10-27 Large-scale phenome-wide association study of PCSK9 loss-of-function variants demonstrates protection against ischemic stroke Abhiram S. Rao|Daniel Lindholm|Manuel A. Rivas|Joshua W. Knowles|Stephen B. Montgomery|Erik Ingelsson Stanford University;|Uppsala University
http://dx.doi.org/10.1101/209213 2017-10-27 CC BY-NC-ND A novel domain assembly routine for creating full-length models of membrane proteins from known domain structures Julia Koehler Leman|Richard Bonneau Simons Foundation; New York University
http://dx.doi.org/10.1101/210294 2017-10-27 Variation in gut microbiota composition impacts host gene expression Allison Richards|Amanda L. Muehlbauer|Adnan Alazizi|Michael B. Burns|Trevor J. Gould|Camilla Cascardo|Roger Pique-Regi|Ran Blekhman|Francesca Luca Wayne State University;|University of Minnesota
http://dx.doi.org/10.1101/210435 2017-10-27 Comparative Analysis of Gene Expression Identifies Distinct Molecular Signatures of Bone Marrow- and Periosteal-Skeletal Stem/Progenitor Cells Lorenzo Deveza|Kevin Lei|Laura Ortinau|Dongsu Park Baylor College of Medicine
http://dx.doi.org/10.1101/210377 2017-10-27 Variation in context dependent foraging behavior across pollinators Heather M. Briggs|Stuart Graham|Callin Switzer|Robin Hopkins Arnold Arboretum, Harvard;|University of Washington, Seattle;|Harvard University
http://dx.doi.org/10.1101/210443 2017-10-27 Redundancy principle for optimal random search in biology Zeev Schuss|Kanishka Basnayake|David Holcman Tel Aviv University;|ENS, Paris
http://dx.doi.org/10.1101/210153 2017-10-27 Deep-RBPPred: Predicting RNA binding proteins in the proteome scale based on deep learning Jinfang Zheng|Xiaoli Zhang|Xunyi Zhao|Xiaoxue Tong|Xu Hong|Juan Xie|Shiyong Liu School of Physics & Key Lab. of Molec. Biophysics of the Ministry of Ed., Huazhong
http://dx.doi.org/10.1101/210336 2017-10-27 CC BY-NC-ND Computational Tools for the Identification and Interpretation of Sequence Motifs in Immunopeptidomes Bruno Alvarez|Carolina Barra|Morten Nielsen|Massimo Andreatta Universidad Nacional de San Martin;|Technical University of Denmark
http://dx.doi.org/10.1101/210351 2017-10-27 CC BY-NC-ND Accounting for Apparent Deviations between Calorimetric and van't Hoff Enthalpies Samuel A. Kantonen|Niel M. Henriksen|Michael K. Gilson Skaggs School of Pharmacy and Pharmaceutical Sciences
http://dx.doi.org/10.1101/210104 2017-10-27 CC BY Growth hormone transgenesis disrupts immune function in muscle of coho salmon (Oncorhynchus kisutch) impacting cross-talk with growth systems Abdullah Alzaid|Jin-Hyoung Kim|Robert Devlin|Samuel Martin|Daniel Macqueen University of Aberdeen;|Korea Polar Research Institute;|Fisheries and Oceans Canada
http://dx.doi.org/10.1101/210237 2017-10-27 DNA lesions proximity modulates damage tolerance pathways Elodie Chrabaszcz|Luisa Laureti|Vincent Pages Cancer Research Center of Marseille;|CNRS
http://dx.doi.org/10.1101/210146 2017-10-27 CC BY Restriction of dietary protein leads to conditioned protein preference and elevated palatability of protein-containing food in rats. Michelle Murphy|Kate Z. Peters|Bethany S. Denton|Kathryn A. Lee|Heramb Chadchankar|James E. McCutcheon University of Leicester
http://dx.doi.org/10.1101/210039 2017-10-27 Knowledge of the Neighborhood of the Reactive Site up to Three Atoms Can Predict Biochemistry and Protein Sequences Noushin Hadadi|Homa MohamadiPeyhani|Ljubisa Miskovic|Marianne Seijo|Vassily Hatzimanikatis Swiss Federal Institute of Technology (EPFL);|University of Geneva
http://dx.doi.org/10.1101/208546 2017-10-27 CC BY Rapid high-resolution measurement of DNA replication timing by droplet digital PCR Dzmitry G. Batrakou|Emma D. Heron|Conrad A. Nieduszynski University of Oxford
http://dx.doi.org/10.1101/209932 2017-10-27 CC BY-NC-ND Molecular insights into the pathways underlying naked mole-rat eusociality Eskeatnaf Mulugeta|Lucile Marion-Poll|David Gentien|Stefanie B. Ganswindt|Andre Ganswindt|Nigel C. Bennett|Elizabeth H. Blackburn|Chris G. Faulkes|Edith Heard Institut Curie;|University of Pretoria;|Salk Institute for Biological Studies;|Queen Mary University of London
http://dx.doi.org/10.1101/209759 2017-10-27 Optical excitation and detection of neuronal activity Chenfei Hu|Richard Sam|Mingguang Shan|Viorel Nastasa|Minqi Wang|Taewoo Kim|Martha Gillette|Parijat Sengupta|Gabriel Popescu University of Illinois at Urbana-Champaign;|Harbin Engineering University;|National Institute for Laser Plasma and Radiation Physics
http://dx.doi.org/10.1101/207340 2017-10-27 CC BY-NC-ND Gene-expression profiling of single cells from archival tissue with laser-capture microdissection and Smart-3SEQ Joseph W Foley|Chunfang Zhu|Philippe Jolivet|Shirley X Zhu|Peipei Lu|Michael J Meaney|Robert B West Stanford University School of Medicine;|Université de Montréal;|McGill University
http://dx.doi.org/10.1101/210328 2017-10-27 CC BY-NC-ND An evolutionary switch in the specificity of an endosomal CORVET tether underlies formation of regulated secretory vesicles in the ciliate Tetrahymena thermophila Daniela Sparvoli|Elisabeth Richardson|Hiroko Osakada|Xun Lan|Masaaki Iwamoto|Grant R. Bowman|Cassandra Kontur|William A. Bourland|Denis H. Lynn|Jonathan K. Pritchard|Tokuko Haraguchi|Joel B. Dacks|Aaron P. Turkewitz The University of Chicago;|University of Alberta;|National Institute of Information and Communications Technology (NICT);|Stanford University;|University of Wyoming;|Yale University School of Medicine;|Boise State University;|University of British Columbia;|National Institute of Information and Communications Technology; Osaka University
http://dx.doi.org/10.1101/210278 2017-10-27 CC BY-NC-ND In vivo RNA targeting of point mutations via suppressor tRNAs and adenosine deaminases Dhruva Katrekar|Prashant Mali University of California San Diego
http://dx.doi.org/10.1101/208793 2017-10-27 Longitudinal Analysis of Particulate Air Pollutants and Adolescent Delinquent Behavior in Southern California Diana Younan|Catherine Tuvblad|Meredith Franklin|Fred Lurmann|Lianfa Li|Jun Wu|Kiros Berhane|Laura A. Baker|Jiu-Chiuan Chen Keck School of Medicine of the University of Southern California;|University of Southern California Dornsife College of Letters, Arts, and Sciences;|Sonoma Technology, Inc;|University of California, Irvine College of Health Sciences
http://dx.doi.org/10.1101/209619 2017-10-27 CC BY-NC-ND Beyond Bilingualism: multilingual experience correlates with caudate volume Alexis Hervais-Adelman|Natalia Egorova|Narly Golestani Max Planck Insitute for Psycholinguistics;|The Florey Institute of Neuroscience and Mental Health;|University of Geneva
http://dx.doi.org/10.1101/209452 2017-10-27 The Spectral Fingerprint of Sleep Problems in Post-Traumatic Stress Disorder Marieke de Boer|Mirjam J Nijdam|Ruud A Jongedijk|Miranda Olff|Winni F Hofman|Lucia M Talamini University of Amsterdam;|Academic Medical Center at the University of Amsterdam;|Foundation Centrum 45
http://dx.doi.org/10.1101/209726 2017-10-27 CC BY-NC-ND Multi-modal brain fingerprinting: a manifold approximation based framework Kuldeep Kumar|Laurent Chauvin|Matthew Toews|Olivier Colliot|Christian Desrosiers Ecole de technologie superieure;|Aramis project team, Inria Paris, UPMC-Inserm-CNRS, ICM Paris
http://dx.doi.org/10.1101/210252 2017-10-27 Evolutionary Biology CC BY-NC-ND The evolution of the temporal program of genome replication Nicolas Agier|Stephane Delmas|Qing Zhang|Aubin Fleiss|Yan Jaszczyszyn|Erwin van Dijk|Claude Thermes|Martin Weigt|Marco Cosentino-Lagomarsino|Gilles Fischer Sorbonne Universités, UPMC Univ. Paris 06, CNRS, F-75005, Paris, France;|Institute for Integrative Biology of the Cell, CNRS, CEA, Uni Paris-Sud, France
http://dx.doi.org/10.1101/208876 2017-10-27 CC BY-NC-ND Dengue modeling in rural Cambodia: statistical performance versus epidemiological relevance Clara Champagne|Richard Paul|Sowath Ly|Veasna Duong|Rithea Leang|Bernard Cazelles IBENS;|Institut Pasteur, CNRS;|Institut Pasteur in Cambodia, Epidemiology and Public Health Unit;|Institut Pasteur in Cambodia, Virology Unit;|National Dengue Control Program, Cambodia;|IBENS, UPMC/IRD, Institut Pasteur
http://dx.doi.org/10.1101/208835 2017-10-27 A modeling of a Diphtheria epidemic in the refugees camps Maria Torrea|Daniel Ortega|Jose L. Torrea Hospital General Universitario Gregorio Maranon, Madrid, Spain;|Departamento de Matematicas UAM, Spain
http://dx.doi.org/10.1101/210195 2017-10-27 CC BY The relationship between spatial configuration and functional connectivity of brain regions Janine Diane Bijsterbosch|Mark W. Woolrich|Matthew F. Glasser|Emma C. Robinson|Christian F. Beckmann|David C. Van Essen|Samuel J. Harrison|Stephen M. Smith University of Oxford;|Washington University in St. Louis;|King's College London
http://dx.doi.org/10.1101/209635 2017-10-27 CC BY-NC Heritability of hierarchical structural brain network Moo Chung|Zhan Luo|Zhan Luo|Nagesh Adluru|Davidson Richard|H. Hill Goldsmith University of Wisconsin-Madison
http://dx.doi.org/10.1101/208025 2017-10-27 Genotype fingerprints enable fast and private comparison of genetic testing results for research and direct-to-consumer applications Max Robinson|Gustavo Glusman The Institute for Systems Biology
http://dx.doi.org/10.1101/209965 2017-10-27 CC BY-NC-ND DiscoSnp++: de novo detection of small variants from raw unassembled read set(s) Pierre Peterlongo|Chloe Riou|Erwan Drezen|Claire Lemaitre Inria;|CHU Pontchaillou
http://dx.doi.org/10.1101/209916 2017-10-27 CC BY Robustness encoded across essential and accessory replicons in an ecologically versatile bacterium George C. diCenzo|Alex B. Benedict|Marco Fondi|Graham C. Walker|Turlough M. Finan|Alessio Mengoni|Joel S. Griffitts University of Florence;|Brigham Young University;|Massachusetts Institute of Technology;|McMaster University
http://dx.doi.org/10.1101/209890 2017-10-27 Hypoxia in the grape berry linked to mesocarp cell death: the role of seed respiration and lenticels on the berry pedicel Zeyu Xiao|Suzy Rogiers|Victor Sadras|Stephen Tyerman The University of Adelaide;|NSW Department of Primary Industries;|South Australian Research & Development Institute;|The University Of Adelaide
http://dx.doi.org/10.1101/208199 2017-10-28 The Multivariate Normal Distribution Framework for Analyzing Association Studies Jose A. Lozano|Farhad Hormozdiari|Jong Wha (Joanne) Joo|Buhm Han|Eleazar Eskin Intelligent Systems Group, Univ. of the Basque Country UPV/EHU, Donostia, Spain;|Department of Epidemiology, Harvard T.H. Chan School of Public Health;|Department of Computer Science, Dongguk University - Seoul Campus;|Dept. of Convergence Med., Asan Medical Center, Univ. of Ulsan College of Med.;|UCLA
http://dx.doi.org/10.1101/209460 2017-10-28 CC BY-NC-ND Hydraulic constraints of reproduction do not explain sexual dimorphism in the genus Leucadendron (Proteaceae) Adam Roddy|Justin J. van Blerk|Jeremy J. Midgley|Adam G. West Yale University;|University of Cape Town
http://dx.doi.org/10.1101/209429 2017-10-28 Applications of community detection techniques to brain graphs: Algorithmic considerations and implications for neural function Javier O. Garcia|Arian Ashourvan|Sarah Muldoon|Jean M. Vettel|Danielle S. Bassett U.S. Army Research Laboratory;|University of Pennsylvania;|University of Buffalo;|U. S. Army Research Laboratory
http://dx.doi.org/10.1101/210682 2017-10-28 CC BY runibic: a Bioconductor package for parallel row-based biclustering of gene expression data Patryk Orzechowski|Artur Panszczyk|Xiuzhen Huang|Jason H. Moore University of Pennsylvania, AGH University of Science and Technology;|Arkansas State University;|University of Pennsylvania
http://dx.doi.org/10.1101/210476 2017-10-28 CC BY Bayesian Confidence Intervals for Multiplexed Proteomics Integrate Ion-Statistics with Peptide Quantification Concordance Leonid Peshkin|Lillia Ryazanova|Martin Wuhr Harvard Medical School;|Princeton University
http://dx.doi.org/10.1101/210484 2017-10-28 CC BY-NC-ND Stochastic character mapping of state-dependent diversification reveals the tempo of evolutionary decline in self-compatible lineages William Freyman|Sebastian Hoehna University of California Berkeley;|Ludwig-Maximilians-Universitat
http://dx.doi.org/10.1101/210641 2017-10-28 CC BY-NC-ND Rolling a mycobiome down a hill: endophytes in the Taiwanese Cloud Forest Daniel Thomas|Roo Vandegrift|Yu-Ming Ju|H. M. Hsieh|B. A. Roy Institute of Ecology and Evolution, University of Oregon;|Biology and the Built Environment Center, University of Oregon;|Institute of Plant and Microbial Biology, Academia Sinica
http://dx.doi.org/10.1101/210211 2017-10-28 CC BY-NC Bursts of amino acid replacements in protein evolution Anastasia V. Stolyarova|Tatyana V. Neretina|Georgii A. Bazykin|Alexey S. Kondrashov Skolkovo Institute of Science and Technology;|Dept. of Bioengineering & Bioinformatics, M. V. Lomonosov Moscow State Univ.;|University of Michigan
http://dx.doi.org/10.1101/210674 2017-10-28 CC BY-NC-ND A Real-Time Double Error Correction Model of Associative Learning Niklas H. B. Kokkola|Esther Mondragon|Eduardo Alonso City, University of London;|Centre for Computational and Animal Learning Research
http://dx.doi.org/10.1101/209908 2017-10-28 CC BY-ND Neurodevelopmental disease genes implicated by de novo mutation and CNV morbidity Bradley P. Coe|Holly A. F. Stessman|Arvis Sulovari|Madeleine Geisheker|Fereydoun Hormozdiari|Evan E. Eichler University of Washington;|Creighton University Medical School;|University of California, Davis
http://dx.doi.org/10.1101/210070 2017-10-28 CC BY-NC-ND Forest Dormouse (Dryomys nitedula) populations in southern Italy belong to a deeply divergent evolutionary lineage Roberta Bisconti|Gaetano Aloise|Antonino Siclari|Vincenzina Fava|Milena Provenzano|Andrea Chiocchio|Giuseppe Nascetti|Daniele Canestrelli Department of Ecological and Biological Science, Tuscia University;|Museo di Storia Naturale ed Orto Botanico, Universita della Calabria;|Parco Nazionale dell Aspromonte;|Associazione Ge.Co.
http://dx.doi.org/10.1101/210716 2017-10-28 CC BY-NC-ND Sharing genetic admixture and diversity of public biomedical datasets Olivier Harismendy|Jihoon Kim|Xiaojun Xu|Lucila Ohno-Machado UC San Diego
http://dx.doi.org/10.1101/210666 2017-10-28 CC BY-ND Accelerated Epigenetic Ageing in Major Depressive Disorder Heather C. Whalley|Jude Gibson|Riccardo Marioni|Rosie M. Walker|Toni-Kim Clarke|David M. Howard|Mark J. Adams|Lynsey Hall|Stewart Morris|Ian J. Deary|David Porteous|Kathryn L. Evans|Andrew M. McIntosh University of Edinburgh;|-
http://dx.doi.org/10.1101/210229 2017-10-28 Genomic characterisation and conservation genetics of the indigenous Irish Kerry cattle breed Sam Browett|Gillian McHugo|Ian W. Richardson|David A. Magee|Stephen D. E. Park|Alan G. Fahey|John F. Kearney|Carolina N. Correia|Imtiaz Randhawa|David E. MacHugh School of Environment and Life Sciences, University of Salford;|UCD School of Agriculture and Food Science, University College Dublin;|IdentiGEN Ltd.;|Irish Cattle Breeding Federation;|Sydney School of Veterinary Science, The University of Sydney
http://dx.doi.org/10.1101/210468 2017-10-28 CC BY Quantifying the ease of viral escape from broad and narrow antibodies to influenza hemagglutinin Michael B. Doud|Juhye M. Lee|Jesse D. Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/210450 2017-10-28 CC BY-NC-ND Effects of Spatial Heterogeneity on Transmission Potential in Vectorial-Contact Networks: A Comparison of Three Aedes aegypti Control Strategies Hector M. Sanchez C.|John M. Marshall|Sean L. Wu|Edgar E. Vallejo University of California, Berkeley;|Tecnologico de Monterrey
http://dx.doi.org/10.1101/210583 2017-10-28 Machine-assisted cultivation and analysis of biofilms Silla H. Hansen|Tobias Kabbeck|Carsten P. Radtke|Susanne Krause|Eva Krolitzki|Theo Peschke|Jannis Gasmi|Kersten S. Rabe|Michael Wagner|Harald Horn|Juergen Hubbuch|Johannes Gescher|Christof M. Niemeyer Karlsruhe Institute of Technology (KIT), Institute for Biological Interfaces - 1;|KIT, Institute for Applied Biosciences;|KIT, Inst. of Engineering in Life Sci., Section IV: Biomolec. Separation Engineering;|KIT, Institute for Biological Interfaces - 1;|KIT, Engler-Bunte-Institute for Water Chemistry and Water Technology
http://dx.doi.org/10.1101/210492 2017-10-28 CC BY-NC-ND Combinatorial Drug Discovery in Nanoliter Droplets Anthony Kulesa|Jared Kehe|Juan Hurtado|Prianca Tawde|Paul C. Blainey Massachusetts Institute of Technology;|University of California, Berkeley;|Bain & Company
http://dx.doi.org/10.1101/210500 2017-10-28 CC BY-NC-ND The Association of Externalizing and Internalizing Problems with Indicators of Intelligence in a Sample of At-Risk Children Brian B. Boutwell|Jesse Helton|Michael Vaughn|Nicholas Kavish Saint Louis University;|Sam Houston State University
http://dx.doi.org/10.1101/210187 2017-10-28 CC BY-NC-ND A conserved maternal-specific repressive domain in Zelda revealed by Cas9-mediated mutagenesis in Drosophila melanogaster Danielle C. Hamm|Elizabeth D. Larson|Markus Nevil|Kelsey E. Marshall|Eliana R. Bondra|Melissa M. Harrison University of Madison School of Medicine and Public Health
http://dx.doi.org/10.1101/210690 2017-10-28 CC BY-NC An empirical test of the temperature dependence of carrying capacity Joey Bernhardt|Jennifer M. Sunday|Mary I. O'Connor University of British Columbia
http://dx.doi.org/10.1101/209957 2017-10-28 Automated microfluidic cell culture of stem cell derived dopaminergic neurons in Parkinson's disease Khalid I. W. Kane|Edinson Lucumi Moreno|Siham Hachi|Moriz Walter|Javier Jarazo|Thomas Hankemeier|Paul Vulto|Jens Schwamborn|Martin Thoma|Ronan M. T. Fleming Luxembourg Centre for Systems Biomedicine;|Fraunhofer IPA;|Leiden University;|Mimetas B.V.
http://dx.doi.org/10.1101/210559 2017-10-28 CC BY-NC A small subset of NLR genes drives local adaptation to pathogens in wild tomato Remco Stam|Gustavo Adolfo Silva-Arias|Tetyana Nosenko|Daniela Scheikl|Anja C Horger|Wolfgang Stephan|Georg Haberer|Aurelien Tellier Phytopathology, Technical University of Munich;|Population genetics, Technical University of Municn;|Plant Genome and Systems Biology, Helmholtz Zentrum Munich, Germany;|Population Genetics, Technical University Munich, Germany;|Ecology and Evolution, University of Salzburg, Austria;|Evolutionary Biology, LMU Munich, Germany
http://dx.doi.org/10.1101/210542 2017-10-28 Distinct stimulatory mechanisms regulate the catalytic activity of Polycomb Repressive Complex 2 (PRC2) Chul-Hwan Lee|Marlene Holder|Daniel Grau|Ricardo Saldana-Meyer|Rais Ahmad Ganai|Jenny Zhang|Miao Wang|Marc-Werner Dobenecker|Danny Reinberg|Karim-Jean Armache HHMI/New York School of Medicine;|New York School of Medicine;|Rockefeller University
http://dx.doi.org/10.1101/210591 2017-10-29 CC BY-NC-ND A state representation for reinforcement learning and decision-making in the orbitofrontal cortex Nicolas W. Schuck|Robert C. Wilson|Yael Niv Max Planck Institute for Human Development;|University of Arizona;|Princeton University
http://dx.doi.org/10.1101/211060 2017-10-29 CC BY-NC Active deep learning reduces annotation burden in automatic cell segmentation Aritra Chowdhury|Simone Bianco|Sujoy Biswas Rensselaer Polytechnic Institute;|IBM Research
http://dx.doi.org/10.1101/210617 2017-10-29 Ift172 conditional knockout mice exhibit rapid retinal degeneration and protein trafficking defects Priya R. Gupta|Nachiket Pendse|Scott H. Greenwald|Mihoko Leon|Qin Liu|Eric A. Pierce|Kinga Maria Bujakowska Ocular Genomics Inst., Mass. Eye & Ear Infirmary, Dept. of Ophthalmology, Harvard
http://dx.doi.org/10.1101/210781 2017-10-29 CC BY-ND FiberNet 2.0: An Automatic Neural Network Based Tool for Clustering White Matter Fibers in the Brain Vikash Gupta|Sophia I. Thomopoulos|Conor Corbin|Faisal M. Rashid|Paul M. Thompson Imaging Genetics Center, USC
http://dx.doi.org/10.1101/209882 2017-10-29 CC BY Identification and prioritisation of causal variants in human genetic disorders from exome or whole genome sequencing data Nagarajan Paramasivam|Martin Granzow|Christina Evers|Katrin Hinderhofer|Stefan Wiemann|Claus R. Bartram|Roland Eils|Matthias Schlesner Heidelberg Medical Faculty; German Cancer Research Center (DKFZ);|Institute of Human Genetics, University of Heidelberg, Germany;|Genomics & Proteomics Core Facility, German Cancer Research Center (DKFZ);|Dept. for Bioinformatics & Functional Genomics, IPMB & BioQuant, Heidelberg Univ.;|Division of Theoretical Bioinformatics, Bioinformatics & Omics Data Analytics, DKFZ
http://dx.doi.org/10.1101/211029 2017-10-29 CC BY-ND Microglial elimination of dopamine D1 receptors defines sex-specific changes in nucleus accumbens development and social play behavior during adolescence Ashley Kopec|Caroline J. Smith|Nathan R. Ayre|Sean C. Sweat|Staci D. Bilbo Harvard Medical School; Massachusetts General Hospital;|National Institutes of Mental Health
http://dx.doi.org/10.1101/210906 2017-10-29 CC BY-NC-ND Listeria monocytogenes virulence factors are secreted in biologically active Extracellular Vesicles Carolina Coelho|Lisa Brown|Maria Maryam|Meagan C. Burnet|Jennifer E. Kyle|Heino M. Heyman|Rafael Prados-Rosales|Gregoire Lauvau|Ernesto S. Nakayasu|Nathan R. Brady|Anne Brady|Isabelle Coppens|Arturo Casadevall Johns Hopkins University Bloomberg School of Public Health, Baltimore MD, USA;|Albert Einstein College of Medicine of Yeshiva University, Bronx NY, USA;|Biological Sciences Division, Pacific Northwest National Laboratory, Richland WA;|CIC bioGUNE, Derio, Bizkaia 48160, Spain
http://dx.doi.org/10.1101/210815 2017-10-29 CC BY Distinct ‘safe zones’ at the nuclear envelope ensure robust replication of heterochromatic chromosome regions Hani Ebrahimi|Hirohisa Masuda|Devanshi Jain|Julia Promisel Cooper NCI, NIH;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/210856 2017-10-29 CC BY-NC-ND Bioassay of derived components from venom of Iranian medically important scorpions to identify the bradykinin potentiating factors Hamid Reza Goudarzi|Ali Nazari Shirvan|Mojtaba Noofeli|Maedeh Samianifard Central Laboratory, Razi Vaccine and Serum Research Institute, AREEO, Iran;|Proteomics & Biochemistry Dept., Razi Vaccine & Serum Research Institute, AREEO;|Human Bacterial Vaccine Dept., Razi Vaccine & Serum Research Institute, AREEO
http://dx.doi.org/10.1101/210765 2017-10-29 CC BY-NC-ND Heritable plant phenotypes track light and herbivory levels at fine spatial scales Parris Humphrey|Andrew D. Gloss|Joseph Frazier|Anna C. Nelson-Dittrich|Samuel Faries|Noah K. Whiteman Harvard University;|University of Chicago;|Rocky Mountain Biological Laboratory;|University of Arizona;|University of California Berkeley
http://dx.doi.org/10.1101/210732 2017-10-29 Sequence Transfer Learning for Neural Decoding Venkatesh Elango|Aashish N. Patel|Kai J. Miller|Vikash Gilja University of California, San Diego;|Stanford University
http://dx.doi.org/10.1101/210724 2017-10-29 CC BY A study of allelic series using transcriptomic phenotypes in a metazoan David Angeles-Albores|Paul Sternberg Caltech
http://dx.doi.org/10.1101/210807 2017-10-29 CC BY-NC ACEseq - allele specific copy number estimation from whole genome sequencing Kortine Kleinheinz|Isabell Bludau|Daniel Huebschmann|Michael Heinold|Philip Kensche|Zuguang Gu|Cristina Lopez|Michael Hummel|Wolfram Klapper|Peter Moeller|Inga Vater|Rabea Wagener|Benedikt Brors|Reiner Siebert|Roland Eils|Matthias Schlesner German Cancer Research Center (DKFZ);|Heidelberg University;|Heidelberg Center for Personalized Oncology (DKFZ-HIPO);|University of Ulm and University Hospital of Ulm;|Charite - University Medicine Berlin;|Christian-Albrechts-University Kiel and University Hospital Schleswig-Holstein;|Christian-Albrechts-University Kiel;|-
http://dx.doi.org/10.1101/210989 2017-10-29 CC BY-ND A microbial perspective on the life-history evolution of marine invertebrate larvae: if, where, and when to feed Tyler J. Carrier|Jason Macrander|Adam Reitzel University of North Carolina at Charlotte
http://dx.doi.org/10.1101/209858 2017-10-29 CC BY-ND White Matter Alterations In Parkinson's Disease Mapped Using Tractometry Conor Corbin|Vikash Gupta|Julio E. Villalon-Reina|Talia M. Nir|Faisal M. Rashid|Sophia I. Thomopoulos|Neda Jahanshad|Paul M. Thompson Imaging Genetics Center, USC
http://dx.doi.org/10.1101/210963 2017-10-29 CC BY Molecular identification of stone loaches of Choman River system, Tigris Basin, based on the Cytochrome b gene with an overview of the Cobitoidea Superfamily Edris Ghaderi|Hamid Farahmand|Barzan Bahrami Kamangar|Mohammad Ali Nematollahi Dept. of Fisheries & Environ. Sciences, Faculty of Natural Resources, Univ. of Tehran;|Dept. of Fisheries Science, Faculty of Natural Resources, Univ. of Kurdistan
http://dx.doi.org/10.1101/210997 2017-10-29 Contextual Regression: An Accurate and Conveniently Interpretable Nonlinear Model for Mining Discovery from Scientific Data Chengyu Liu|Wei Wang University of California, San Diego
http://dx.doi.org/10.1101/210757 2017-10-29 Targeted deletion of Nmnat1 in mouse retina leads to early severe retinal dystrophy Xiaolin Wang|Yu Fang|Rongsheng Liao|Tao Wang Sichuan Medical College
http://dx.doi.org/10.1101/210823 2017-10-29 CC BY-NC Auxiliary ATP binding sites power rapid unwinding by RecBCD Rani Zananiri|Vera Gaydar|Dan Yahalom|Omri Malik|Sergei Rudnizky|Ariel Kaplan|Arnon Henn Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/211045 2017-10-29 Forced-rupture of Cell-Adhesion Complexes Reveals abrupt switch between two Brittle States Ngo Minh Toan|Dave Thirumalai University of Maryland;|University of Texas at Austin
http://dx.doi.org/10.1101/206367 2017-10-29 CC BY-NC Chromatin histone modifications and rigidity affect nuclear morphology independent of lamins Andrew Daniel Stephens|Patrick Z. Liu|Edward J. Banigan|Luay M Almassalha|Vadim Backman|Stephen A. Adam|Robert Goldman|John Marko Northwestern University;|Massachusetts Institute of Technology;|Northwestern University Feinberg School of Medicine
http://dx.doi.org/10.1101/210930 2017-10-29 Single-cell transcriptional regulations and accessible chromatin landscape of cell fate decisions in early heart development Guangshuai Jia|Jens Preussner|Stefan Guenther|Xuejun Yuan|Michail Yekelchyk|Carsten Kuenne|Mario Looso|Yonggang Zhou|Thomas Braun Max Planck Institute for Heart and Lung Research
http://dx.doi.org/10.1101/210708 2017-10-29 Hijacking of Multiple Phospholipid Biosynthetic Pathways and Induction of Membrane Biogenesis by a Picornaviral 3CD Protein Sravani Banerjee|David Aponte-Diaz|Calvin Yeager|Suresh D. Sharma|Hyung Suk Oh|Qingxia Han|Yuji Hara|Masato Umeda|Robert Y. L. Wang|Craig E. Cameron The Pennsylvania State University;|Kyoto University;|Chang Gung University
http://dx.doi.org/10.1101/210799 2017-10-29 Development of migrating entheses involves replacement of progenitor populations Neta Felsenthal|Sarah Rubin|Tomer Stern|Sharon Krief|Deepanwita Pal|Brian A. Pryce|Ronen Schweitzer|Elazar Zelzer Dept. of Molecular Genetics, Weizmann Institute of Science, Rehovot 76100, Israel;|Research Division, Shriners Hospital for Children, Portland, OR 97201, USA
http://dx.doi.org/10.1101/210898 2017-10-29 A 20S proteasome receptor for degradation of intrinsically disordered proteins Assaf Biran|Nadav Myers|Julia Adler|Karin Broennimann|Nina Reuven|Yosef Shaul Weizmann Institute of Science
http://dx.doi.org/10.1101/210880 2017-10-30 CC BY-NC-ND Reproducibility and repeatability of six high-throughput 16S rDNA sequencing protocols for microbiota profiling Sajan Raju|Sonja Lagstrom|Pekka Ellonen|Willem M. De Vos|Johan Eriksson|Elisabete Weiderpass|Trine B. Rounge Folkhalsan Research Center, Helsinki;|Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland;|RPU Immunobiology, Dept. of Bacteriology & Immunology, Univ. of Helsinki, Finland;|Department of Bacteriology & Immunology, University of Helsinki, Helsinki, Finland;|University of Helsinki, Helsinki, Finland;|Folkhalsan Research center;|Cancer Registry of Norway
http://dx.doi.org/10.1101/211201 2017-10-30 CC BY-NC-ND A High-Resolution Probabilistic In Vivo Atlas of Human Subcortical Brain Nuclei Wolfgang Martin Pauli|Amanda N. Nili|Julian Michael Tyszka California Institute of Technology;|Northwestern University
http://dx.doi.org/10.1101/202192 2017-10-30 CC BY Functional reorganisation and recovery following cortical lesions: A study in macaque monkeys Matthew Ainsworth|Helen Browncross|Daniel J. Mitchell|Anna S. Mitchell|Richard E. Passingham|Mark J. Buckley|John Duncan|Andrew H. Bell MRC Cognition and Brain Sciences Unit, University of Cambridge;|Dept. of Experimental Psychology, University of Oxford
http://dx.doi.org/10.1101/210609 2017-10-30 Cross talk between photo-pigments and graphene electron cloud - Designing a biodiode Sanhita Ray|Sayantani Sen|Alakananda Das|Anirban Bose|Anirban Bhattacharya|Avishek Das|Sanatan Chattopadhyay|Hirak Patra|Shibsankar Singha|Achintya Singha|Anjan Kr. Dasgupta University of Calcutta;|University of Calcutta;|University of Cambridge;|Bose Institute
http://dx.doi.org/10.1101/211243 2017-10-30 CC BY-NC-ND Analysis Of The Genomic Basis Of Functional Diversity In Dinoflagellates Using A Transcriptome-Based Sequence Similarity Network Arnaud Meng|Erwan Corre|Ian Probert|Andres Gutierrez-Rodriguez|Raffaele Siano|Anita Annamale|Adriana Alberti|Corinne Da Silva|Patrick Wincker|Stephane Le Crom|Fabrice Not|Lucie Bittner University of Pierre and Marie Curie;|Station Biologique de Roscoff;|National Institute for Water and Atmospheric Research (NIWA);|Ifremer, Centre de Brest;|CEA - Genomic institute, Genoscope;|Genoscope
http://dx.doi.org/10.1101/210955 2017-10-30 Evolutionary dynamics of bacteria in the gut microbiome within and across hosts Nandita R. Garud|Benjamin H. Good|Oskar Hallatschek|Katherine S. Pollard University of California, San Francisco;|University of California, Berkeley
http://dx.doi.org/10.1101/211169 2017-10-30 Linked-read analysis identifies mutations in single-cell DNA sequencing data Craig L Bohrson|Alison R Barton|Michael A Lodato|Rachel E Rodin|Vinay Viswanadham|Doga Gulhan|Isidro Cortes|Maxwell A Sherman|Lovelace J Luquette|Minseok Kwon|Michael E Coulter|Christopher A Walsh|Peter J Park Harvard Medical School;|Boston Children's Hospital
http://dx.doi.org/10.1101/211144 2017-10-30 Evidences for convergent evolution of host parasitic manipulation in response to environmental conditions Raquel G. Loreto|Joao P.M. Araujo|Ryan M. Kepler|Kimberly R. Fleming|Corrie S. Moreau|David P. Hughes The Pennsylvania State University;|United States Department of Agriculture;|Field Museum of Natural History
http://dx.doi.org/10.1101/211102 2017-10-30 Antiferromagnetic switch in serum Sufi O Raja|Sanjay Chatterjee|Anjan Kr Dasgupta 1Institute for Stem Cell Biology & Regenerative Medicine, Begaluru;|Department of General Medicine, North Bengal Medical College, Darjeeling;|Department of Biochemistry, University of Calcutta
http://dx.doi.org/10.1101/211128 2017-10-30 CC BY Unsupervised discovery of demixed, low-dimensional neural dynamics across multiple timescales through tensor components analysis Alex H Williams|Tony Hyun Kim|Forea Wang|Saurabh Vyas|Stephen I Ryu|Krishna V Shenoy|Mark Schnitzer|Tamara G Kolda|Surya Ganguli Stanford University;|Stanford University, Palo Alto Medical Foundation;|Sandia National Laboratories
http://dx.doi.org/10.1101/211086 2017-10-30 CC BY Functional segregation of the human basal forebrain using resting state neuroimaging Ross Markello|R. Nathan Spreng|Wen-Ming Luh|Adam K Anderson|Eve De Rosa Cornell University;|McGill University
http://dx.doi.org/10.1101/211151 2017-10-30 Cancer Biology CC BY-NC-ND Dark selection for JAK/STAT-inhibitor resistance in chronic myelomonocytic leukemia Artem Kaznatcheev|David Robert Grimes|Robert Vander Velde|Vincent L Cannataro|Etienne Baratchart|Andrew Dhawan|Lin Liu|Daria Myroshnychenko|Jake P. Taylor-King|Nara Yoon|Eric Padron|Andriy Marusyk|David Basanta University of Oxford;|Queen's University Belfast;|University of South Florida;|Yale University;|H. Lee Moffitt Cancer Center & Research Institute;|Harvard T.H. Chan School of Public Health;|Cleveland Clinic
http://dx.doi.org/10.1101/211490 2017-10-30 Protective role of the vulture facial and gut microbiomes aid adaptation to scavenging Marie Lisandra Zepeda Mendoza|Gary R Graves|Michael Roggenbuck|Karla Manzano Vargas|Lars Hestbjerg Hansen|Soren Brunak|M Thomas P Gilbert|Thomas Sicheritz-Ponten Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen;|Department of Vertebrate Zoology, National Museum of Natural History, Smithsonian Institution;|Department for Bioinformatics and Microbe Technology, Novozymes A/S;|Center for Genomic Sciences, National Autonomous University of Mexico;|Section for Microbiology and Biotechnology, Department of Environmental Science, Aarhus University;|Department of Bio and Health Informatics, Technical University of Denmark
http://dx.doi.org/10.1101/211698 2017-10-30 CC BY-NC CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing Yuchao Jiang|Katherine L Nathanson|Nancy R Zhang University of North Carolina, Chapel Hill;|University of Pennsylvania
http://dx.doi.org/10.1101/211458 2017-10-30 CC BY-NC-ND Spatial theta cells in competitive burst synchronization networks: Reference frames from phase codes Joseph D. Monaco|Hugh T. Blair|Kechen Zhang Johns Hopkins University School of Medicine;|UCLA
http://dx.doi.org/10.1101/211482 2017-10-30 CC BY Whole-genome sequencing of Nicotiana glauca Galina Khafizova|Pavel Dobrynin|Dmitrii Polev|Tatyana Matveeva Saint Petersburg State University
http://dx.doi.org/10.1101/211425 2017-10-30 CC BY Reward and automatic processes in exercise behavior: A new approach and a systematic review Boris Cheval|Remi Radel|Jason L Neva|Lara A Boyd|Stephan P Swinnen|David Sander|Matthieu Boisgontier University of Geneva, Geneva, Switzerland;|University of Nice, Nice, France;|University of British Columbia, Vancouver, British Columbia, Canada;|KU Leuven, Leuven, Belgium
http://dx.doi.org/10.1101/211581 2017-10-30 CC BY-NC-ND A longitudinal model of human neuronal differentiation for functional investigation of schizophrenia disease susceptibility Anil P.S. Ori|Merel H.M. Bot|Remco T. Molenhuis|Loes M. Olde Loohuis|Roel A. Ophoff University of California, Los Angeles;|Utrecht University
http://dx.doi.org/10.1101/211573 2017-10-30 Pharaoh ant colonies dynamically regulate colony demography by culling young queen and male-destined larvae Michael Warner|Jessica Lipponen|Timothy A. Linksvayer University of Pennsylvania
http://dx.doi.org/10.1101/211516 2017-10-30 CC BY Clostridium difficile differentially alters the structure and metabolism of distinct cecal microbiomes to promote persistent colonization during infection Matthew L. Jenior|Jhansi L. Leslie|Vincent B. Young|Patrick D. Schloss University of Michigan
http://dx.doi.org/10.1101/211433 2017-10-30 Extracting active modules from multilayer PPI network: a continuous optimization approach Dong Li|Zexuan Zhu|Zhisong Pan|Guyu Hu|Shan He University of Birmingham;|Shenzhen University;|PLA University of Science and Technology
http://dx.doi.org/10.1101/211664 2017-10-30 CC BY-NC-ND Learning the structure of the world: The adaptive nature of state-space and action representations in multi-stage decision-making Amir Dezfouli|Benrard W Balleine School of Psychology, UNSW
http://dx.doi.org/10.1101/211599 2017-10-30 CC BY-ND INFERNO - INFERring the molecular mechanisms of NOncoding genetic variants Alexandre Amlie-Wolf|Mitchell Tang|Elisabeth E. Mlynarski|Pavel P. Kuksa|Otto Valladares|Zivadin Katanic|Debby Tsuang|Christopher D. Brown|Gerard D. Schellenberg|Li-San Wang University of Pennsylvania;|University of Washington
http://dx.doi.org/10.1101/211607 2017-10-30 Phosphorylation-induced K63-polyubiquitination of Connexin 43 regulates gap junction internalization Rachael M Kells-Andrews|Matthias M Falk Lehigh University
http://dx.doi.org/10.1101/211334 2017-10-30 CC BY The Bio::Phylo libraries for phylogenetic data analysis, version 2.0 Rutger A. Vos|Hannes Hettling Naturalis Biodiversity Center, Leiden, P.O. Box 9517, 2300RA, The Netherlands
http://dx.doi.org/10.1101/211383 2017-10-30 CC BY Targeting the Untargetable: Predicting Pramlintide Resistance Using a Neural Network Based Cellular Automata Eunjung Kim|Ryan Schenck|Jeffery West|William Cross|Valerie Harris|Joseph McKenna|Heyrim Cho|Elizabeth Coker|Steven Lee-Kramer|Kenneth Tsai|Elsa Flores|Chandler Dean Gatenbee Moffitt Cancer Center and Research Institute;|Moffitt Cancer Center and Research Institute, University of Oxford;|Moffitt Cancer Center and Research Institute, University of Southern California;|Barts Cancer Institute;|Arizona State University;|National Institutes of Health;|University of Maryland;|Institute of Cancer Research: London;|University of Virginia;|Moffitt Cancer Center
http://dx.doi.org/10.1101/211557 2017-10-30 CC BY The effect of strong purifying selection on genetic diversity Ivana Cvijovic|Benjamin H Good|Michael M. Desai Harvard University;|University of California, Berkeley
http://dx.doi.org/10.1101/209692 2017-10-30 CC BY-NC-ND Whole Genomes Define Concordance of Matched Primary, Xenograft, and Organoid Models of Pancreas Cancer Deena M.A. Gendoo|Robert E. Denroche|Amy Zhang|Gun Ho Jang|Mathieu Lemire|Sandra Fischer|Nikolina Radulovich|Dianne Chadwick|Ilinca M. Lungu|Lincoln D. Stein|Julie M. Wilson|John M.S. Bartlett|Ming-Sound Tsao|Neesha Dhani|David Hedley|Steven Gallinger|Benjamin Haibe-Kains Princess Margaret Cancer Centre, University Health Network, Toronto, Ontario, Canada;|PanCuRx Translational Research Initiative, Ontario Institute of Cancer Research (OICR), Toronto;|Department of Pathology, University Health Network, University of Toronto, Toronto, ON, Canada;|Princess Margaret Living Biobank Core, University Health Network, Toronto, Ontario, Canada;|UHN Program in BioSpecimen Sciences, Department of Pathology, University Health Network, Toronto;|Transformative Pathology, Ontario Institute for Cancer Research, Toronto, Ontario, Canada;|Informatics and Bio-computing Program, Ontario Institute for Cancer Research, Toronto;|Division of Medical Oncology, Princess Margaret Cancer Centre, Toronto, Ontario, Canada
http://dx.doi.org/10.1101/211474 2017-10-30 CC BY-NC-ND Blue light is a universal tactic signal for Escherichia coli Tatyana Perlova|Martin Gruebele|Yann R. Chemla University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/211524 2017-10-30 Interplay between folding and binding modulates protein sequences, structures, functions and regulation Balint Meszaros|Laszlo Dobson|Erzsebet Ficho|Gabor E. Tusnady|Zsuzsanna Dosztanyi|Istvan Simon MTA-ELTE Momentum Bioinformatics Research Group, Eötvös Loránd University;|Membrane Protein Bioinformatics Research Group, Institute of Enzymology, RCNS, HAS;|Protein Structure Research Group, Institute of Enzymology, RCNS, HAS
http://dx.doi.org/10.1101/211300 2017-10-30 Oncogenic addiction to high 26S proteasome levels Peter Tsvetkov|Julia Adler|Nadav Myers|Assaf Biran|Nina Reuven|Yosef Shaul Whitehead Institute for Biomedical Research;|Weizmann Institute of Science
http://dx.doi.org/10.1101/211532 2017-10-30 Quantitative proteomic analysis of auxin signaling during seedling development Dior Kelley|Zhouxin Shen|Justin W Walley|Elisabeth J Chapman|Steven P Briggs|Mark Estelle Iowa State University;|University of California, San Diego
http://dx.doi.org/10.1101/211292 2017-10-30 Contribution of structural and intronic mutations to RPGRIP1-mediated inherited retinal dystrophies. Farzad Jamshidi|Emily M Place|Daniel Navarro-Gomez|Mathew Maher|Elise Valkanas|Monkol Lek|Daniel MacArthur|Kinga M Bujakowska|Eric A Pierce Ocular Genomics Institute, Massachusetts Eye and Ear Infirmary, Harvard Medical School;|Program in Medical and Population Genetics, Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/211367 2017-10-30 CC BY-NC-ND Assessing and characterising the repertoire of constitutive promoter elements in soil metagenomic libraries in Escherichia coli Caua Antunes Westmann|Luana de Fatima Alves|Rafael Silva-Rocha|Maria-Eugenia Guazzaroni FMRP, University of Sao Paulo, Ribeirao Preto, SP Brazil;|FFCLRP, University of Sao Paulo, Ribeirao Preto, SP Brazil
http://dx.doi.org/10.1101/211318 2017-10-30 Single-molecule tracking in live Yersinia enterocolitica reveals distinct cytosolic complexes of injectisome subunits Julian Rocha|Charles Richardson|Mingxing Zhang|Caroline Darch|Eugene Cai|Andreas Diepold|Andreas Gahlmann University of Virginia;|Max Planck Institute for Terrestrial Microbiology
http://dx.doi.org/10.1101/211441 2017-10-30 CC BY Mmp10 is required for post-translational methylation of arginine at the active site of methyl-coenzyme M reductase Zhe Lyu|Chau-wen Chou|Shi Hao|Ricky Patel|Evert C. Duin|William B. Whitman University of Georgia;|Auburn University
http://dx.doi.org/10.1101/210096 2017-10-30 ALKALs are in vivo ligands for ALK family Receptor Tyrosine Kinases in the neural crest and derived cells. Andrey Fadeev|Patricia Mendoza Garcia|Uwe Irion|Jikui Guan|Kathrin Pfeifer|Stephanie Wiessner|Fabrizio Serluca|Ajeet P Singh|Christiane Nusslein-Volhard|Ruth H. Palmer Max Planck Institute for Developmental Biology, Tubingen;|Gothenburg University, Sweden;|Novartis Institutes for Biomedical research (NIBR), Cambridge;|Novartis Institutes for Biomedical Research (NIBR), Cambridge
http://dx.doi.org/10.1101/212084 2017-10-31 Firing pattern classification and phenotyping in a knowledge base of hippocampal neuron types Alexander O. Komendantov|Siva Venkadesh|Christopher L. Rees|Diek W. Wheeler|David J. Hamilton|Giorgio A. Ascoli George Mason University
http://dx.doi.org/10.1101/211953 2017-10-31 C11orf70 mutations causing primary ciliary dyskinesia disrupt a conserved step in the intraflagellar transport-dependent assembly of multiple axonemal dyneins Mahmoud R. Fassad|Amelia Shoemark|Pierrick le Borgne|France Koll|Mitali Patel|Mellisa Dixon|Jane Hayward|Charlotte Richardson|Emily Frost|Lucy Jenkins|Thomas Cullup|Eddie M. K. Chung|Michel Lemullois|Anne Aubusson-Fleury|Claire Hogg|David R. Mitchell|Anne-Marie Tassin|Hannah M. Mitchison University College London;|Royal Brompton and Harefield NHS Trust;|Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS;|Great Ormond Street Hospital for Children NHS Foundation Trust;|SUNY Upstate Medical University
http://dx.doi.org/10.1101/212159 2017-10-31 CC BY-NC-ND Representation of speech in noise in the aging midbrain and cortex: aging may dominate over hearing-loss Alessandro Presacco|Jonathan Z. Simon|Samira Anderson University of California, Irvine;|University of Maryland, College Park
http://dx.doi.org/10.1101/212183 2017-10-31 CC BY-NC-ND Ligand-Mediated Biofilm Formation via Enhanced Physical Interaction Between a Diguanylate Cyclase and Its Receptor David Giacalone|T. Jarrod Smith|Alan Collins|Holger Sondermann|Lori J. Koziol|George O'Toole Geisel School of Medicine at Dartmouth;|Cornell University;|New England College
http://dx.doi.org/10.1101/212035 2017-10-31 MYC activity is required for maintenance of the Neuromesodermal Progenitor signalling network and for correct timing of segmentation clock gene oscillations Ioanna Mastromina|Laure Verrier|Kate G. Storey|J. Kim Dale University of Dundee
http://dx.doi.org/10.1101/212142 2017-10-31 C24 sphingolipids play a surprising and central role in governing cholesterol and lateral organization of the live cell plasma membrane Kevin C. Courtney|Weria Pezeshkian|Riya Raghupathy|Gary Zhang|Angie Darbyson|John H. Ipsen|David A. Ford|Himanshu Khandelia|John F. Presley|Xiaohui Zha University of Ottawa and Ottawa Hospital Research Institute;|University of Southern Denmark;|Ottawa Hospital Research Institute;|Saint Louis University School of Medicine;|McGill University;|University of Ottawa, Ottawa Hospital Research Institute
http://dx.doi.org/10.1101/212118 2017-10-31 Universal Scaling in Biochemical Networks Hyunju Kim|Harrison Smith|Cole Mathis|Jason Raymond|Sara Walker Arizona State University
http://dx.doi.org/10.1101/211763 2017-10-31 CC BY Comparison of the 3D-IR-BTFE method and the conventional method in the head MRI contrast Daisuke Hirahara Kagoshima Medical Technology College
http://dx.doi.org/10.1101/212068 2017-10-31 phylopath: Easy phylogenetic path analysis in R. Wouter van der Bijl Stockholm University
http://dx.doi.org/10.1101/210534 2017-10-31 CC BY-NC-ND Pathogen Population Structure Can Explain Hospital Outbreaks Fabrizio Spagnolo|Pierre Cristofari|Nicholas P Tattonetti|Lev R Ginzburg|Daniel E Dykhuizen Columbia University;|Applied Biomathematics;|Stony Brook University
http://dx.doi.org/10.1101/212167 2017-10-31 CC BY-NC-ND Planar Cell Polarity: What Does The prickle Gene Do? Jose Casal|Beatriz Ibanez-Jimenez|Peter A. Lawrence University of Cambridge
http://dx.doi.org/10.1101/211987 2017-10-31 Ecology CC BY-NC Exploiting delayed transitions to sustain semiarid ecosystems after catastrophic shifts Blai Vidiella|Josep Sardanyes|Ricard Sole University Pompeu Fabra
http://dx.doi.org/10.1101/212043 2017-10-31 CC BY-NC-ND HDAC11 is a fatty-acid deacylase Zsofia Kutil|Zora Novakova|Marat Meleshin|Jana Mikesova|Mike Schutkowski|Cyril Barinka Inst. of Biotechnology of the Czech Academy of Sciences, BIOCEV, Czech Republic;|Inst. of Biochemistry & Biotechnol., Martin-Luther-Univ. Halle-Wittenberg, Germany
http://dx.doi.org/10.1101/211706 2017-10-31 HDAC11 regulates type I interferon signaling through defatty-acylation of SHMT2 Ji Cao|Lei Sun|Pornpun Aramsangtienchai|Nicole A. Spiegelman|Xiaoyu Zhang|Edward Seto|Hening Lin Cornell University;|George Washington University Cancer Center;|Howard Hughes Medical Institute, Cornell University
http://dx.doi.org/10.1101/211235 2017-10-31 CC BY Trends and variation in Prescribing of Low-Priority Medicines Identified by NHS England: A Cross-Sectional Study and Interactive Data Tool in English Primary Care Alex J. Walker|Helen J. Curtis|Seb Bacon|Richard Croker|Ben Goldacre University of Oxford
http://dx.doi.org/10.1101/212191 2017-10-31 Hypermethylation of human DNA: Fine-tuning transcription associated with development Carl Baribault|Kenneth C. Ehrlich|V. K. Chaithanya Ponnaluri|Sriharsa Pradhan|Michelle Lacey|Melanie Ehrlich Tulane University Health Sciences Center;|New England Biolabs;|Tulane University
http://dx.doi.org/10.1101/212100 2017-10-31 Fluid mediated self-organization of ventilation in honeybee nests Jacob M. Peters|Orit Peleg|L. Mahadevan Harvard University
http://dx.doi.org/10.1101/211797 2017-10-31 CC BY-NC-ND Lessons from simple marine models on the bacterial regulation of eukaryotic development Arielle Woznica|Nicole King University of California, Berkeley
http://dx.doi.org/10.1101/212001 2017-10-31 The frailty index is associated with the need for care in an aging Swedish population Juulia Jylhava|Miao Jiang|Andrea D. Foebel|Nancy L. Pedersen|Sara Hagg Karolinska Institutet, Department of Medical Epidemiology and Biostatistics
http://dx.doi.org/10.1101/209791 2017-10-31 Morphological changes of plasma membrane and protein assembly during clathrin-mediated endocytosis Aiko Yoshida|Nobuaki Sakai|Yoshitsugu Uekusa|Yuka Imaoka|Yoshitsuna Itagaki|Yuki Suzuki|Shige H. Yoshimura Graduate School of Biostudies, Kyoto University;|R&D Group, Olympus Co.;|Frontier Research Institute for Interdisciplinary Sciences, Tohoku University
http://dx.doi.org/10.1101/204073 2017-10-31 Genetic Locus Modulating IOP Rebecca King|Ying Li|Jiaxing Wang|Felix L Struebing|Eldon E Geisert Department of Ophthalmology, Emory University 1365B Clifton Road NE Atlanta GA;|1\Department of Ophthalmology, Emory University 1365B Clifton Road NE Atlanta GA
http://dx.doi.org/10.1101/210179 2017-10-31 Ecology Incipient signs of genetic differentiation among African elephant populations in fragmenting miombo ecosystems in south-western Tanzania Alex L. Lobora|Cuthbert L. Nahonyo|Linus K. Munishi|Tim Caro|Charles Foley|Colin Michael Beale|Lori S. Eggert TAWIRI;|University of Dar es Salaam;|Nelson Mandela African Institution of Science and Technology (NM-AIST), Tanzania;|University of California, Davis, USA;|Wildlife Conservation Society;|University of York, United Kingdom;|University of Missouri
http://dx.doi.org/10.1101/209361 2017-10-31 Bioinformatics CC BY-NC-ND ITHANET: Information and database community portal for haemoglobinopathies Petros Kountouris|Coralea Stephanou|Celeste Bento|Pavlos Fanis|Jacques Elion|Raj S. Ramesar|Bin Alwi Zilfalil|Helen M. Robinson|Joanne Traeger-Synodinos|Carsten Werner Lederer|Marina Kleanthous Molecular Genetics Thalassaemia, Cyprus Inst. of Neurology & Genetics, Nicosia;|Haematology Department, Centro Hospitalar e Universitario de Coimbra, Portugal;|Paris Diderot University Medical School, Paris, France;|Div. of Human Genetics, Dept. of Pathology, University of Cape Town, South Africa;|Universiti Sains Malaysia, Kelantan, Malaysia;|Human Variome Project International Coordinating Office, Melbourne, Australia;|Medical Genetics, National and Kapodistrian University of Athens, Athens, Greece;|-
http://dx.doi.org/10.1101/211961 2017-10-31 Systems Biology Beyond the Michaelis-Menten equation: Accurate and efficient estimation of enzyme kinetic parameters Boseung Choi|Grzegorz A. Rempala|Jae Kyoung Kim Korea Univ. Sejong, Div. of Economics & Statistics, Dept. of National Statististics;|Ohio State Univ., Division of Biostatistics and Mathematical Biosciences Institute;|Dept. of Mathematical Sciences, KAIST
http://dx.doi.org/10.1101/211227 2017-10-31 CC BY-NC Acute physical exercise improves memory consolidation in humans via BDNF and endocannabinoid signaling Blanca Marin Bosch|Aurelien Bringard|Maria Grazia Logrieco|Nathalie M. Imobersteg|Guido Ferretti|Aurelien Thomas|Sophie Schwartz|Kinga Igloi University of Geneva;|University Hospital Geneva;|Centre universitaire romand de medecine legale
http://dx.doi.org/10.1101/211896 2017-10-31 Genetics Genetic and environmental determinants of stressful life events and their overlap with depression and neuroticism Toni-Kim Clarke|Lauren Navrady|Yanni Zeng|Charley Xia|Chris Haley|Archie Campbell|Pau Navarro|Carmen Amador|Mark Adams|David M. Howard|Aleix Arnau Soler|Caroline Hayward|Pippa Thomson|Blair Smith|Sandosh Padmanabhan|Lynne Hocking|Lynsey Hall|David Porteous|Ian Deary|Andrew McIntosh University of Edinburgh;|University of Dundee;|University of Glasgow;|University of Aberdeen;|Newcastle University
http://dx.doi.org/10.1101/211359 2017-10-31 Bioinformatics CC BY-NC WorMachine: Machine Learning-Based Phenotypic Analysis Tool for Worms Adam Hakim|Yael Mor|Itai Antoine Toker|Amir Levine|Yishai Markovitz|Oded Rechavi Sagol School of Neuroscience, Tel Aviv University, Israel;|Department of Neurobiology, Wise Faculty of Life Sciences, Tel Aviv University, Israel;|School of Medicine-IMRIC-Biochemistry and Molecular Biology, Hebrew University of Jerusalem, Israel
http://dx.doi.org/10.1101/210575 2017-10-31 CC BY-NC-ND The Trauma Severity Model: An Ensemble Learning Approach to Risk Prediction Michael T. Gorczyca|Nicole C. Toscano|Julius D. Cheng Cornell University;|University of Rochester Medical Center
http://dx.doi.org/10.1101/211904 2017-10-31 CC BY-NC-ND Successful aggregation of Tau protein labelled on its native cysteines Martina Radli|Romy E. Verdonschot|Luca Ferrari|Stefan G. D. Rudiger Utrecht University
http://dx.doi.org/10.1101/211862 2017-10-31 CC BY-NC-ND A neuronal mechanism underlying decision-making deficits during hyperdopaminergic states Jeroen P. H. Verharen|Johannes W. de Jong|Theresia J. M. Roelofs|Christiaan F. M. Huffels|Ruud van Zessen|Mieneke C. M. Luijendijk|Ralph Hamelink|Ingo Willuhn|Hanneke E. M. den Ouden|Geoffrey van der Plasse|Roger A. H. Adan|Louk J. M. J. Vanderschuren University Medical Center Utrecht;|Academic Medical Center Amsterdam;|Radboud University Nijmegen;|Utrecht University
http://dx.doi.org/10.1101/211417 2017-10-31 CC BY-NC-ND GPseudoRank: MCMC for sampling from posterior distributions of pseudo-orderings using Gaussian processes Magdalena E. Strauss|John E. Reid|Lorenz Wernisch MRC Biostatistics Unit, University of Cambridge
http://dx.doi.org/10.1101/211268 2017-10-31 CC BY-NC-ND Uneven Data Quality and the Earliest Occupation of Europe: The Case of Untermassfeld (Germany) Wil Roebroeks|Sabine Gaudzinski-Windheuser|Michael Baales|Ralf-Dietrich Kahlke Leiden University;|Monrepos Archaeol. Res. Ctr. & Museum for Human Behavioural Evolution, Neuwied;|LWL-Archaeologie fuer Westfalen;|Senckenberg Research Station of Quaternary Palaeontology Weimar
http://dx.doi.org/10.1101/207746 2017-10-31 Microbiology CC BY-NC Genomic features and evolution of the conditionally dispensable chromosome in the tangerine pathotype of Alternaria alternata Mingshuang Wang|Huilan Fu|Xing-Xing Shen|Ruoxin Ruan|Nicholas Pun|Jianping Xu|Hongye Li|Antonis Rokas Vanderbilt University;|Zhejiang University;|Hangzhou Academy of Agricultural Sciences;|McMaster University
http://dx.doi.org/10.1101/211979 2017-10-31 CC BY Bacterium-triggered remodeling of chromatin identifies BasR, a novel regulator of fungal natural product biosynthesis Juliane Fischer|Sebastian Muller|Agnieszka Gacek-Matthews|Tina Netzker|Nils Jager|Kirstin Scherlach|Maria C. Stroe|Maria Garcia-Altares|Francesco Pezzini|Hanno Schoeler|Michael Reichelt|Jonathan Gershenzon|Mario K. C. Krespach|Ekaterina Shelest|Volker Schroeckh|Vito Valiante|Thorsten Heinzel|Christian Hertweck|Joseph Strauss|Axel A. Brakhage Friedrich Schiller University Jena and Hans-Knöll-Institut;|Cambridge University;|BOKU-Univ. of Natural Resources & Life Sciences; Univ. of Veterinary Med. Vienna;|Hans-Knöll-Institut;|Friedrich Schiller University Jena;|Max Planck Institute for Chemical Ecology;|Leibniz Institute for Natural Product Research and Infection Biology (HKI);|BOKU-University of Natural Resources and Life Sciences
http://dx.doi.org/10.1101/211714 2017-10-31 CC BY-NC-ND A size-invariant bud-length timer enables robustness in yeast cell size control Corey A. H. Allard|Franziska Decker|Orion D. Weiner|Jared E. Toettcher|Brian R. Graziano The Geisel School of Medicine at Dartmouth;|Max Planck Institute for the Physics of Complex Systems;|UCSF;|Princeton University
http://dx.doi.org/10.1101/211037 2017-10-31 CC BY-NC-ND Carry-over effects of larval microclimate on the transmission potential of a mosquito-borne pathogen Michelle V Evans|Justine C. Shiau|Nicole Solano|Melinda A. Brindley|John M. Drake|Courtney C. Murdock University of Georgia
http://dx.doi.org/10.1101/191650 2017-10-31 CC BY-NC-ND GeTFEP: a general transfer free energy profile for transmembrane proteins Wei Tian|Hammad Naveed|Meishan Lin|Jie Liang University of Illinois at Chicago;|Toyota Technological Institute at Chicago;|Department of Bioengineering, University of Illinois at Chicago
http://dx.doi.org/10.1101/211326 2017-10-31 Pollinator traits and competitive context shape dynamic foraging behavior in bee communities. Heather Briggs|Berry Brosi Harvard University;|Emory University
http://dx.doi.org/10.1101/211284 2017-10-31 CC BY-ND The amyloidogenicity of the influenza virus PB1-derived peptide sheds light on its antiviral activity Yana A. Zabrodskaya|Dmitry V. Lebedev|Marja A. Egorova|Aram A. Shaldzhyan|Alexey V. Shvetsov|Alexander I. Kuklin|Daria S. Vinogradova|Nikolay V. Klopov|Oleg V. Matusevich|Taisiia A. Cheremnykh|Rajeev Dattani|Vladimir V. Egorov Research Institute of Influenza; NRC Kurchatov Institute - PNPI;|NRC Kurchatov Institute - PNPI;|Research Institute of Influenza;|NRC Kurchatov Inst. - PNPI; Peter the Great St. Petersburg State Polytechnic Univ.;|Joint Inst. for Nuclear Research; Moscow Inst. of Physics & Technol. (State Univ.);|NRC Kurchatov Institute - PNPI; NanoTemper Technologies Rus;|European Synchrotron Radiation Facility;|Research Inst. of Influenza; NRC Kurchatov Inst. - PNPI; Inst. of Experimental Med.
http://dx.doi.org/10.1101/211821 2017-10-31 CC BY-NC-ND Equivalence of LD-Score Regression and Individual-Level-Data Methods Ronald de Vlaming|Magnus Johannesson|Patrik K. E. Magnusson|M. Arfan Ikram|Peter M. Visscher VU University Amsterdam;|Stockholm School of Economics;|Karolinska Institutet;|Erasmus University Medical Center;|University of Queensland
http://dx.doi.org/10.1101/211375 2017-10-31 CC BY-NC-ND Neural systems of cognitive demand avoidance Ceyda Sayali|David Badre Brown University
http://dx.doi.org/10.1101/211649 2017-10-31 CC BY-NC Stable isotope informed genome-resolved metagenomics reveals that Saccharibacteria utilize microbially processed plant derived carbon Evan P. Starr|Shengjing Shi|Steven J. Blazewicz|Alexander J. Probst|Donald J. Herman|Mary A. Firestone|Jillian F. Banfield Department of Plant and Microbial Biology, University of California, Berkeley;|Lincoln Science Centre, AgResearch Ltd;|Nuclear and Chemical Sciences Division, Lawrence Livermore National Laboratory;|Biofilm Center, University of Duisburg-Essen;|Dept. of Environmental Science, Policy, & Management, Univ. of California, Berkeley;|Department of Earth and Planetary Science, University of California, Berkeley
http://dx.doi.org/10.1101/194902 2017-10-31 Cell Biology Structure of the fission yeast actomyosin ring during constriction Matthew T Swulius|Lam T Nguyen|Mark S Ladinsky|Davi R Ortega|Samya Aich|Mithilesh Mishra|Grant J Jensen California Institute of Technology, Pasadena, CA 91125;|Tata Institute of Fundamental Research, India
http://dx.doi.org/10.1101/211870 2017-10-31 CC BY Epigenetic Regulators Modulate Muscle Damage In Duchenne Muscular Dystrophy Model Fernanda Bajanca|Laurence Vandel Universite de Toulouse;|Universite Clermont Auvergne
http://dx.doi.org/10.1101/211755 2017-10-31 Genetics CC BY-ND Protein Moonlighting Revealed by Non-Catalytic Phenotypes of Yeast Enzymes Adriana Espinosa-Cantu|Diana Ascencio|Selene Herrera-Basurto|Jiewei Xu|Assen Roguev|Nevan J. Krogan|Alexander DeLuna Centro de Investigacion y de Estudios Avanzados del IPN;|University of California, San Francisco
http://dx.doi.org/10.1101/211854 2017-10-31 Ecology CC BY-NC High-resolution modeling of thermal thresholds and multiple environmental influences on coral bleaching for regional and local reef managements Naoki H. Kumagai|Hiroya Yamano National Institute for Environmental Studies;|-
http://dx.doi.org/10.1101/211672 2017-10-31 CC BY Phosphorylation of the synaptonemal complex protein SYP-1 promotes meiotic chromosome segregation Aya Sato-Carlton|Chihiro Nakamura-Tabuchi|Stephane Kazuki Chartrand|Tomoki Uchino|Peter Mark Carlton Kyoto University, Graduate School of Biostudies;|Kyoto University
http://dx.doi.org/10.1101/211656 2017-10-31 CC BY Lamins organize the global three-dimensional genome from the nuclear periphery Xiaobin Zheng|Jiabiao Hu|Sibiao Yue|Lidya Kristiani|Miri Kim|Michael Sauria|James Taylor|Youngjo Kim|Yixian Zheng Department of Embryology, Carnegie Institution for Science;|Soonchunhyang Institute of Medi-Bio Science (SIMS), Soonchunhyang University;|Department of Biology & Department of Computer Science, The Johns Hopkins University
http://dx.doi.org/10.1101/211623 2017-10-31 Mechanical stretching can modify the axial morphology of early chick embryos Ben K. A. Nelemans|Manuel Schmitz|Hannan Tahir|Roeland M. H. Merks|Theodoor H. Smit Dept. of Orthopaedic Surgery, VU Univ. Med. Ctr., Amsterdam Movement Sciences;|Centrum Wiskunde & Informatica, Amsterdam, The Netherlands;|Centrum Wiskunde & Informatica, Amsterdam, The Netherlands.;|Dept. of Medical Biology, Academic Medical Center, Amsterdam, The Netherlands
http://dx.doi.org/10.1101/203489 2017-10-31 CC BY High-frequency off-target mutagenesis induced by CRISPR/Cas9 in Arabidopsis and its prevention by improving specificity of the tools Qiang Zhang|Hui-Li Xing|Zhi-Ping Wang|Hai-Yan Zhang|Fang Yang|Yun Zhou|Xue-Chen Wang|Qi-Jun Chen SKLPPB, College of Biological Sciences, China Agricultural University;|Institute of Plant Stress Biology, Henan University
http://dx.doi.org/10.1101/211912 2017-10-31 CC BY Local and global Cdc42 GEFs for fission yeast cell polarity are coordinated by microtubules and the Tea1/Tea4/Pom1 axis Ye Dee Tay|Marcin Leda|Andrew B. Goryachev|Kenneth E. Sawin University of Edinburgh
http://dx.doi.org/10.1101/211771 2017-10-31 CC BY-NC-ND The role of chromosomal inversions in speciation Zachary Fuller|Christopher Leonard|Randee Young|Stephen Schaeffer|Nitin Phadnis Columbia University;|University of Utah;|University of Wisconsin;|The Pennsylvania State University
http://dx.doi.org/10.1101/211938 2017-10-31 Probabilistic Count Matrix Factorization for Single Cell Expression Data Analysis Ghislain Durif|Laurent Modolo|Jeff E. Mold|Sophie Lambert-Lacroix|Franck Picard Inria;|CNRS;|Karolinska Institutet;|Grenoble Alpes University
http://dx.doi.org/10.1101/211946 2017-10-31 Two-photon photoactivated voltage imaging in tissue with an Archaerhodopsin-derived reporter Miao-Ping Chien|Daan Brinks|Yoav Adam|William Bloxham|Simon Kheifets|Adam E. Cohen Erasmus University Medical Center;|Delft University of Technology;|Harvard University;|Massachussetts Institute of Technology
http://dx.doi.org/10.1101/212555 2017-11-01 CC BY-NC-ND Equality between the sexes in plants for costs of reproduction; evidence from the dioecious Cape genus Leucadendron (Proteaceae) Jeremy J. Midgley|Adam West|Michael Cramer University of Cape Town
http://dx.doi.org/10.1101/212621 2017-11-01 CC BY-NC-ND Neural mechanisms of speed-accuracy tradeoff of visual search: Saccade vigor, targeting errors, superior colliculus and frontal eye field Thomas Reppert|Mathieu Servant|Richard Heitz|Jeffrey D. Schall Vanderbilt University
http://dx.doi.org/10.1101/212423 2017-11-01 Functional Connectomics from Data: Probabilistic Graphical Models for Neuronal Network of C. elegans Hexuan Liu|Jimin Kim|Eli Shlizerman University of Washington
http://dx.doi.org/10.1101/212589 2017-11-01 CC BY-NC-ND Functional categories in macaque frontal eye field Kaleb Lowe|Jeffrey D. Schall Vanderbilt University
http://dx.doi.org/10.1101/212514 2017-11-01 CC BY-NC-ND Evaluation of protein-ligand docking methods on peptide-ligand complexes for docking small ligands to peptides Sandeep Singh|Hemant Kumar Srivastava|Gaurav Kishor|Harinder Singh|Piyush Agrawal|Gajendra P. S. Raghava CSIR-IMTECH;|CSIR-IMTECH, Chandigarh, India; IIIT Delhi, New Delhi, India
http://dx.doi.org/10.1101/212506 2017-11-01 CC BY MetaCompass: Reference-guided Assembly of Metagenomes Victoria Cepeda|Bo Liu|Mathieu Almeida|Christopher M. Hill|Sergey Koren|Todd J. Treangen|Mihai Pop University of Maryland, College Park, Maryland;|National Human Genome Research Institute, Bethesda, Maryland
http://dx.doi.org/10.1101/212530 2017-11-01 CC BY-NC OMGene: Mutual improvement of gene models through optimisation of evolutionary conservation Michael Dunne|Steven Kelly University of Oxford
http://dx.doi.org/10.1101/212563 2017-11-01 CC BY-NC-ND Prediction of Epileptic Seizures based on Mean Phase Coherence Gorish Aggarwal|Tapan K. Gandhi Samsung Research Institute Bangalore;|Indian Institute of Technology, Delhi
http://dx.doi.org/10.1101/212381 2017-11-01 Genomics CC BY Determining the genetic basis of anthracycline-cardiotoxicity by molecular response QTL mapping in induced cardiomyocytes David A Knowles|Courtney K Burrows|John D Blischak|Kristen M Patterson|Carole Ober|Jonathan K Pritchard|Yoav Gilad Stanford University;|University of Chicago;|Stanford University and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/212613 2017-11-01 Evolutionary Biology CC BY-NC-ND The effect of offspring number on the adaptation speed of a polygenic trait Markus Pfenninger Senckenberg Biodiversity & Climate Research Centre, Frankfurt am Main, Hessen
http://dx.doi.org/10.1101/212241 2017-11-01 CC BY-NC A simulation and comparison of dynamic functional connectivity methods William Hedley Thompson|Craig G. Richter|Pontus Plaven-Sigray|Peter Fransson Department of Clinical Neuroscience, Karolinska Institutet;|Ernst Strüngmann Inst. for Neurosci. in Cooperation with Max Planck Society
http://dx.doi.org/10.1101/212407 2017-11-01 Evolutionary Biology Natural selection interacts with the local recombination rate to shape the evolution of hybrid genomes Molly Schumer|Chenling Xu|Daniel Powell|Arun Durvasula|Laurits Skov|Chris Holland|Sriram Sankararaman|Peter Andolfatto|Gil Rosenthal|Molly Przeworski Harvard University;|UC Berkeley;|Texas A&M University;|UCLA;|Aarhus University;|Princeton University;|Columbia University
http://dx.doi.org/10.1101/211730 2017-11-01 Avian thermoregulation in the heat: phylogenetic variation among avian orders in evaporative cooling capacity and heat tolerance Ben Smit|Maxine C Whitfield|William A Talbot|Alexander R Gerson|Andrew E McKechnie|Blair O Wolf Rhodes University;|University of Pretoria;|University of New Mexico;|University of Massachusetts
http://dx.doi.org/10.1101/212548 2017-11-01 Perturbed Mitochondrial Metabolism in Islets from Donors with Type-2 Diabetes Jiangming Sun|Ruchi Jain|Lotta E. Andersson|Anya Medina|Petter Storm|Peter Spegel|Hindrik Mulder Unit of Molecular Metabolism, Lund University Diabetes Centre;|Lund University Diabetes Centre;|Centre for Analysis and Synthesis, Lund University
http://dx.doi.org/10.1101/212597 2017-11-01 CC BY-NC-ND Subsoil arbuscular mycorrhizal fungal communities in arable soil differ from those in topsoil Moises A. Sosa-Hernandez|Julien Roy|Stefan Hempel|Timo Kautz|Ulrich Koepke|Marie Uksa|Michael Schloter|Tancredi Caruso|Matthias C. Rillig Freie Universitaet Berlin;|University of Bonn;|University of Hohenheim;|Technische Universitaet Berlin;|Queens University of Belfast
http://dx.doi.org/10.1101/212571 2017-11-01 Early Subset Of Cerebellar Nuclei Neurons Derived From Mesencephalon In Mice Maryam Rahimi-Balaei|Xiaodan Jiao|Fiona Parkinson|Behzad Yeganeh|Hassan Marzban University of Manitoba;|University of Calgary;|Hospital for Sick Children and University of Toronto
http://dx.doi.org/10.1101/212464 2017-11-01 CC BY-NC-ND REMAP: An online remote sensing application for land cover classification and monitoring Nicholas J. Murray|David A. Keith|Daniel Simpson|John H. Wilshire|Richard M. Lucas University of New South Wales
http://dx.doi.org/10.1101/180588 2017-11-01 CC BY-NC-ND Germline loss of MBD4 predisposes to leukaemia due to a mutagenic cascade driven by 5mC Mathijs A. Sanders|Edward Chew|Christoffer Flensburg|Annelieke Zeilemaker|Sarah E. Miller|Adil al Hinai|Ashish Bajel|Bram Luiken|Melissa Rijken|Tamara Mclennan|Remco M. Hoogenboezem|Francois G. Kavelaars|Marnie E. Blewitt|Eric M. Bindels|Warren S. Alexander|Bob Lowenberg|Andrew W. Roberts|Peter J. M. Valk|Ian Majewski Erasmus University Medical Center;|The Walter and Eliza Hall Institute of Medical Research;|Royal Melbourne Hospital
http://dx.doi.org/10.1101/211805 2017-11-01 Finding domain-general metacognitive mechanisms requires using appropriate tasks Eugene Ruby|Nathan Giles|Hakwan Lau University of California, Los Angeles
http://dx.doi.org/10.1101/212258 2017-11-01 CC BY-NC-ND A note on measuring natural selection on principal component scores Veronica K. Chong|Hannah F. Fung|John R. Stinchcombe Ecology and Evolutionary Biology, University of Toronto
http://dx.doi.org/10.1101/212209 2017-11-01 CC BY-NC Within-infection diversity of Plasmodium falciparum antigens reflects host-mediated selection Angela M. Early|Marc Lievens|Bronwyn MacInnis|Christian F. Ockenhouse|Sarah K. Volkman|Dyann F. Wirth|Daniel E. Neafsey Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard;|GSK Vaccines;|PATH Malaria Vaccine Initiative;|Harvard T. H. Chan School of Public Health;|-;|Broad Institute
http://dx.doi.org/10.1101/212217 2017-11-01 CC BY-NC-ND Scalable Bayesian inference for high-dimensional neural receptive fields Mikio Aoi|Jonathan W. Pillow Princeton Neuroscience Institute, Princeton University
http://dx.doi.org/10.1101/212225 2017-11-01 Clingen Cancer Somatic Working Group: standardizing and democratizing access to cancer molecular diagnostic data to drive translational research Subha Madhavan|Deborah Ritter|Christine Micheel|Shruti Rao|Angshumoy Roy|Dmitriy Sonkin|Matthew McCoy|Malachi Griffith|Obi L. Griffith|Peter McGarvey|Shashikant Kulkarni Innovation Center for Biomedical Informatics, Georgetown University;|Baylor College of Medicine and Texas Children's Hospital;|Vanderbilt University School of Medicine;|National Cancer Institute;|The McDonnell Genome Institute, Washington University;|-
http://dx.doi.org/10.1101/212134 2017-11-01 Impact of sequence variant detection and bacterial DNA extraction methods on the measurement of microbial community composition in human stool Riley Hughes|Zeynep Alkan|Nancy Keim|Mary Kable University of California, Davis;|USDA Agricultural Research Service;|University of California, Davis and USDA Agricultural Research Service
http://dx.doi.org/10.1101/212316 2017-11-01 CC BY-NC-ND Inferring the evolutionary reduction of corm lobation in Isoëtes using Bayesian model-averaged ancestral state reconstruction Forrest Freund|William Freyman|Carl Rothfels University of California, Berkeley
http://dx.doi.org/10.1101/211839 2017-11-01 Histone Deacetylase 11 is an ε-N-Myristoyllysine Hydrolase Carlos Moreno-Yruela|Iacopo Galleano|Andreas Stahl Madsen|Christian Adam Olsen University of Copenhagen
http://dx.doi.org/10.1101/212175 2017-11-01 Detection of cytosolic Shigella flexneri via a C-terminal triple-arginine motif of GBP1 inhibits actin-based motility Anthony Piro|Dulcemaria Hernandez|Sarah Luoma|Eric Feeley|Ryan Finethy|Azeb Yirga|Eva Frickel|Cammie Lesser|Jorn Coers Duke University;|The Francis Crick Institute;|Harvard Medical School;|Duke University Medical Center
http://dx.doi.org/10.1101/212373 2017-11-01 CC BY-NC-ND Effects of mutating α-tubulin lysine 40 on sensory dendrite development Brian Jenkins|Harriet A. J. Saunders|Helena L. Record|Dena M. Johnson-Schlitz|Jill Wildonger University of Wisconsin-Madison
http://dx.doi.org/10.1101/212274 2017-11-01 Intermittent Ca2+ signals mediated by Orai1 regulate basal T cell motility Tobias X. Dong|Shivashankar Othy|Milton L. Greenberg|Amit Jairaman|Chijioke Akunwafo|Sabrina Leverrier|Ying Yu|Ian Parker|Joseph L. Dynes|Michael D. Cahalan Department of Physiology and Biophysics, University of California, Irvine;|Dept. of Physiol. & Biophysics, and Inst. for Immunology, Univ. of California, Irvine
http://dx.doi.org/10.1101/211615 2017-11-01 Size-reduced embryos reveal a gradient scaling based mechanism for zebrafish somite formation Kana Ishimatsu|Tom W Hiscock|Zach M Collins|Dini Wahyu Kartika Sari|Kenny Lischer|David L. Richmond|Yasumasa Bessho|Takaaki Matsui|Sean G Megason Department of Systems Biology, Harvard Medical School;|Department of Fisheries, Universitas Gadjah Mada;|Gene Regulation Research, Nara Institute of Science and Technology;|Image and Data Analysis Core, Harvard Medical School
http://dx.doi.org/10.1101/212076 2017-11-01 Axons from the trigeminal ganglia are the earliest afferent projections to the mouse cerebellum Hassan Marzban|Maryam Rahimi Balaei|Richard Hawkes University of Manitoba;|University of Calgary
http://dx.doi.org/10.1101/212340 2017-11-01 CC BY-NC-ND An essential post-developmental role for Lis1 in mice Timothy J Hines|Xu Gao|Subhshri Sahu|Meghann M Lange|Jill R Turner|Jeffery L Twiss|Deanna S Smith University of South Carolina;|Quantshine Asset Mgmt. Co. Ltd
http://dx.doi.org/10.1101/212449 2017-11-01 CC BY-NC-ND Processive movement of actin by biased polymerization: a new paradigm of axonal transport Nilaj Chakrabarty|Pankaj Dubey|Yong Tang|Archan Ganguly|Kelsey Ladt|Christophe Leterrier|Peter Jung|Subhojit Roy Ohio University;|University of Wisconsin-Madison;|Stanford;|University of California, San Diego;|Aix Marseille Universite
http://dx.doi.org/10.1101/212647 2017-11-01 CC BY-NC Duplication and divergence of Sox genes in spiders Christian L. B. Paese|Daniel J. Leite|Anna Schoenauer|Alistair P. McGregor|Steven Russell Oxford Brookes University;|University of Cambridge
http://dx.doi.org/10.1101/212308 2017-11-01 CC BY-NC-ND Identification of Tumor-Reactive B Cells and Systemic IgG in Breast Cancer Based on Clonal Frequency in the Sentinel Lymph Node Jonathan R. McDaniel|Stephanie C. Pero|William N. Voss|Girja S. Shukla|Yujing Sun|Sebastian Schaetzle|Chang-Han Lee|Andrew P. Horton|Seth Harlow|Jimmy Gollihar|Jared W. Ellefson|Christopher C. Krag|Yuri Tanno|Nikoletta Sidiropoulos|George Georgiou|Gregory C. Ippolito|David N. Krag University of Texas at Austin;|University of Vermont Larner College of Medicine
http://dx.doi.org/10.1101/212662 2017-11-01 CC BY-NC-ND Potential clinical benefits of CBD-rich Cannabis extracts over purified CBD in treatment-resistant epilepsy: observational data meta-analysis Fabricio A. Pamplona|Ana Carolina Coan Entourage Phytolab;|UNICAMP
http://dx.doi.org/10.1101/212357 2017-11-01 CC BY-NC-ND Efficiently controlling for case-control imbalance and sample relatedness in large-scale genetic association studies Wei Zhou|Jonas B. Nielsen|Lars G. Fritsche|Rounak Dey|Maiken B. Elvestad|Brooke B. Wolford|Jonathon LeFaive|Maoxuan Lin|Kristian Hveem|Hyun Min Kang|Goncalo R. Abecasis|Cristen J. Willer|Seunggeun Lee University of Michigan;|Univesity of Michigan;|K. G. Jebsen Center for Genetic Epidemiology, Dept. of Public Health, NTNU;|Norwegian University of Science and Technology
http://dx.doi.org/10.1101/212720 2017-11-01 CC BY-NC-ND Prefrontal control of visual distraction Joshua Cosman|Geoffrey Woodman|Jeffrey D. Schall Vanderbilt University
http://dx.doi.org/10.1101/212688 2017-11-01 Evaluation of TRPM8 and TRPA1 participation in dental pulp sensitivity to cold stimulation Benoit Michot|Caroline Lee|Jennifer L. Gibbs New York University - College of Dentistry
http://dx.doi.org/10.1101/212670 2017-11-01 Membrane curvature and the Tol-Pal complex determine polar localization of the chemoreceptor Tar in E. coli Terrens Saaki|Henrik Strahl|Leendert W. Hamoen University of Amsterdam;|Newcastle University
http://dx.doi.org/10.1101/212431 2017-11-01 CC BY Genetic variation across the human olfactory receptor repertoire alters odor perception Casey Trimmer|Andreas Keller|Nicolle R. Murphy|Lindsey L. Snyder|Jason R. Willer|Maira Nagai|Nicholas Katsanis|Leslie B. Vosshall|Hiroaki Matsunami|Joel D. Mainland Monell Chemical Senses Center;|The Rockefeller University;|Duke University Medical Center;|Duke University Medical Center, University of Sao Paulo;|The Rockefeller University, HHMI, Kavli Neural Systems Institute;|Monell Chemical Senses Center, University of Pennsylvania School of Medicine
http://dx.doi.org/10.1101/212886 2017-11-01 CC BY Ancestral Reconstruction of Gene Blocks using an Event-Based Method Huy Ngoc Nguyen|Ashish Jain|Oliver Eulenstein|Iddo Friedberg Iowa State University
http://dx.doi.org/10.1101/212480 2017-11-01 Context of psychotropic drug delivery modulates its neurobehavioral effects: the case of methylphenidate Roy Sar-el|Gal Raz|Nitzan Lubianiker|Haggai Sharon|Talma Hendler Functional Brain Ctr., Wohl Inst. for Advanced Imaging, Tel-Aviv Sourasky Med. Ctr.
http://dx.doi.org/10.1101/212852 2017-11-01 CC BY Head-Direction drift in rat pups is consistent with an angular path-integration process Dori Derdikman|Gilad Tocker|Eli Borodach|Tale L. Bjerknes|May-Britt Moser|Edvard I. Moser Technion - Israel Institute of Technology, Israel;|Norwegian University of Science and Technology, Israel;|NTNU, Norway, Israel
http://dx.doi.org/10.1101/211920 2017-11-01 CC BY-NC-ND Development of real-time polymerase chain reaction assays allowing molecular detection of Echinococcus felidis, Echinococcus granulosus sensu stricto, and Echinococcus canadensis in carnivore feces samples, animal and human hydatid cyst material from Uganda and Kenya Katharina E. M. Kopp Faculty of Medicine, Gulu University, P.O. Box 166, Gulu, Uganda
http://dx.doi.org/10.1101/212605 2017-11-01 Genomic Locus Modulating Corneal Thickness in the Mouse Identifies POU6F2 as a Potential Risk of Developing Glaucoma Rebecca King|Felix L. Struebing|Ying Li|Jiaxing Wang|Allison Ashley Koch|Jessica Cooke Bailey|Puya Gharahkhan|Stuart MacGregor|R. Rand Allingham|Michael A. Hauser|Janey L. Wiggs|Eldon E. Geisert Emory University;|Duke University;|Case Western Reserve University;|QIMR Berghofer Medical Research Institute;|Harvard Medical School
http://dx.doi.org/10.1101/212324 2017-11-01 Morphological constraints on cerebellar granule cell combinatorial diversity Jesse I. Gilmer|Abigail L. Person University of Colorado Denver
http://dx.doi.org/10.1101/212902 2017-11-01 CC BY Gene network analysis identifies a central post-transcriptional regulator of cellular stress survival Matthew Z. Tien|Aretha Fiebig|Sean Crosson University of Chicago
http://dx.doi.org/10.1101/212860 2017-11-01 CC BY-NC-ND An automated statistical technique for counting distinct multiple sclerosis lesions can recover aspects of lesion history and provide relevant disease information Jordan D Dworkin|Kristin A Linn|Ipek Oguz|Greg M Fleishman|Rohit Bakshi|Govind Nair|Peter A Calabresi|Roland G Henry|Jiwon Oh|Nico Papinutto|Daniel Pelletier|William Rooney|William Stern|Nancy L Sicotte|Daniel S Reich|Russell T Shinohara Perelman School of Medicine, University of Pennsylvania;|Harvard Medical School;|National Institute of Neurological Disorders and Stroke;|The Johns Hopkins University School of Medicine;|University of California - San Francisco;|St. Michael's Hospital, University of Toronto;|Keck School of Medicine, University of Southern California;|Oregon Health & Science University;|Cedars-Sinai Medical Center
http://dx.doi.org/10.1101/212456 2017-11-01 The fluid membrane determines mechanics of red blood cell extracellular vesicles and is softened in hereditary spherocytosis Daan Vorselen|Susan van Dommelen|Raya Sorkin|Juergen Schiller|Richard van Wijk|Raymond Schiffelers|Gijs Wuite|Wouter Roos Vrije Universiteit Amsterdam, Amsterdam, the Netherlands;|University Medical Center Utrecht, Utrecht, the Netherlands;|University of Leipzig, Leipzig, Germany;|Vrije Universiteit Amsterdam, Amsterdam, The Netherlands;|Rijksuniversiteit Groningen, Groningen, the Netherlands
http://dx.doi.org/10.1101/212837 2017-11-01 CC BY-NC-ND The molecular basis for Pompe disease revealed by the structure of human acid α-glucosidase Derrick Deming|Karen Lee|Tracey McSherry|Ronnie R. Wei|Tim Edmunds|Scott C. Garman Department of Biochemistry & Molecular Biology, University of Massachusetts, Amherst;|Protein Engineering Department, Biologics Research, Sanofi, Framingham, Massachusetts;|University of Massachusetts Amherst
http://dx.doi.org/10.1101/212696 2017-11-01 Species and Cell-Type Properties of Classically Defined Human and Rodent Neurons and Glia Xiao Xu|Elitsa Stoyanova|Agata Lemiesz|Jie Xing|Deborah C. Mash|Nathaniel Heintz Laboratory of Molecular Biology, HHMI, The Rockefeller University;|University of Miami Miller School of Medicine
http://dx.doi.org/10.1101/212639 2017-11-01 CC BY-NC-ND Cross-Site Comparison of Ribosomal Depletion Kits for Illumina RNAseq Library Construction Zachary T Herbert|Jamie P Kershner|Vincent L Butty|Jyothi Thimmapuram|Sulba Choudhari|Yuriy O Alekseyev|Jun Fan|Jessica W Podnar|Edward Wilcox|Jenny Gipson|Allison Gillaspy|Kristen Jepsen|Sandra Splinter BonDurant|Krystalynne Morris|Maura Berkeley|Ashley LeClerc|Stephen D. Simpson|Gary Sommerville|Leslie Grimmett|Marie Adams|Stuart S. Levine Molecular Biology Core Facility at Dana-Farber Cancer Institute, Boston, Massachusetts, USA;|BioFrontiers Institute, Next-Gen Facility, University of Colorado Boulder, Boulder, CO, USA;|MIT BioMicro Center, Massachusetts Instittute of Technology, Cambridge, MA USA;|Bioinformatics Core, Purdue University, West Lafayette, IN, USA;|Microarray and Sequencing Resource Core Facility, Boston University, Boston, MA, USA;|Genomic Core Facility, Department of Biomedical Sciences, Marshall University, Huntington WV USA;|Genomic Sequencing and Analysis Facility, University of Texas, Austin, TX, USA;|DNA Sequencing Center, Brigham Young University, Provo, UT;|Laboratory for Molecular Biology and Cytometry, University of Ok. Health Sciences Center, OK, USA;|IGM Genomics Center, University of California, San Diego, La Jolla, CA;|UW Biotechnology Center, Gene Expression Center, University of Wisconsin-Madison, Madison, WI, USA;|Hubbard Center for Genome Studies, University of New Hampshire, Durham, NH;|Molecular Biology Core Facilities at Dana-Farber Cancer Institute, Boston, MA, USA;|Molecular Biology Core Facilities at Dana-Farber Cancer Institute, Boston, Massachusetts, USA.;|Genomics Core Facility, Van Andel Institute, Grand Rapids, MI, USA;|MIT BioMicro Center, Massachusetts Institute of Technology, Cambridge, MA, USA
http://dx.doi.org/10.1101/211540 2017-11-01 CC BY-ND Voltage-dependent inward currents in smooth muscle cells of skeletal muscle arterioles Alexandra V. Ulyanova|Roman E. Shirokov University of Pennsylvania;|Rutgers University
http://dx.doi.org/10.1101/212753 2017-11-01 Genomic Loci Modulating Retinal Ganglion Cell Death Following Elevated IOP in the Mouse Felix L. Struebing|Rebecca King|Ying Li|Jessica Cooke Bailey|Janey Wiggs|Eldon E. Geisert Emory University;|Case Western Reserve University;|-;|Harvard Medical School
http://dx.doi.org/10.1101/212811 2017-11-01 Post-catalytic spliceosome structure reveals mechanism of 3'-splice site selection Max E Wilkinson|Sebastian M Fica|Wojciech P Galej|Chritine M Norman|Andrew J Newman|Kiyoshi NAGAI MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/212779 2017-11-01 CC BY-NC-ND Nearly Neutral Evolution Across the Drosophila melanogaster Genome David Castellano|Jennifer James|Adam Eyre-Walker Aarhus University;|University of Sussex
http://dx.doi.org/10.1101/212233 2017-11-01 Near-Atomic Cryo-EM Imaging of a Small Protein Displayed on a Designed Scaffolding System Yuxi Liu|Shane Gonen|Tamir Gonen|Todd Yeates UCLA;|HHMI
http://dx.doi.org/10.1101/212910 2017-11-01 CC BY-NC-ND A Noninvasive Molecular Clock for Fetal Development Predicts Gestational Age and Preterm Delivery Thuy TM Ngo|Mira N Moufarrej|Marie-Louise H Rasmussen|Joan Camunas-Soler|Wenying Pan|Jennifer Okamoto|Norma Neff|Keli Liu|Ronald J Wong|Katheryne Downes|Robert Tibshirani|Gary M Shaw|Line Skotte|David K Stevenson|Joseph R Biggio|Michal A Elovitz|Mads Melbye|Stephen R Quake Stanford University and Chan Zuckerberg Biohub;|Statens Serum Institute;|Stanford University;|Stanford University School of Medicine;|University of Pennsylvania School of Medicine;|University of Alabama at Birmingham;|Statens Serum Institute, Stanford School of Medicine
http://dx.doi.org/10.1101/211250 2017-11-01 Proteome-wide analysis of phospho-regulated PDZ domain interactions through phosphomimetic proteomic peptide phage display Gustav N. Sundell|Roland Arnold|Muhammad Ali|Julien Orts|Peter Guentert|Celestine N. Chi|Ylva Ivarsson Uppsala University;|University of Birmingham;|ETH Zurich
http://dx.doi.org/10.1101/212522 2017-11-01 Junction-based lamellipodia drive endothelial cell rearrangements in vivo via a VE-cadherin/F-actin based oscillatory ratchet mechanism Ilkka Paatero|Loic Sauteur|MInkyoung Lee|Anne Karine Lagendijk|Daniel Heutschi|Dimitri Bieli|Benjamin M. Hogan|Markus Affolter|Heinz-Georg Belting Biozentrum, Universitaet Basel;|Institute for Molecular Bioscience, The University of Queensland
http://dx.doi.org/10.1101/212472 2017-11-01 CC BY-NC-ND Variation in traction forces during cell cycle progression Benoit Vianay|Fabrice Senger|Simon Alamos|Maya Anjur-Dietrich|Elizabeth Bearce|Bevan Cheeseman|Lisa Lee|Manuel Thery Univ. Paris Diderot, INSERM, CEA;|Univ. Grenoble-Alpes, CEA;|Marine Biology Lab
http://dx.doi.org/10.1101/212704 2017-11-01 Cell Biology Coordination between discrete Mitotic Arrest Deficient 1 (MAD1) domains is required for efficient mitotic checkpoint signaling Wenbin Ji|Yibo Luo|Ejaz Ahmad|Song-Tao Liu University of Toledo
http://dx.doi.org/10.1101/212654 2017-11-01 Genomics CC BY Enhanced JBrowse plugins for epigenomics data visualization Brigitte T. Hofmeister|Robert J. Schmitz University of Georgia
http://dx.doi.org/10.1101/208330 2017-11-01 CC BY-NC-ND Germline determinants of the somatic mutation landscape in 2,642 cancer genomes Sebastian M. Waszak|Grace Tiao|Bin Zhu|Tobias Rausch|Francesc Muyas|Bernardo Rodriguez-Martin|Raquel Rabionet|Sergei Yakneen|Georgia Escaramis|Yilong Li|Natalie Saini|Steven A. Roberts|German M. Demidov|Esa Pitkanen|Olivier Delaneau|Jose M. Heredia-Genestar|Joachim Weischenfeldt|Suyash S. Shringarpure|Jieming Chen|Hidewaki Nakagawa|Ludmil B. Alexandrov|Oliver Drechsel|L. Jonathan Dursi|Ayellet V. Segre|Erik Garrison|Serap Erkek|Nina Habermann|Lara Urban|Ekta Khurana|Andy Cafferkey|Shuto Hayashi|Seiya Imoto|Lauri A. Aaltonen|Eva G. Alvarez|Adrian Baez-Ortega|Matthew Bailey|Mattia Bosio|Alicia L. Bruzos|Ivo Buchhalter|Carlos D. Bustamante|Claudia Calabrese|Anthony DiBiase|Mark Gerstein|Aliaksei Z. Holik|Xing Hua|Kuan-lin Huang|Ivica Letunic|Leszek J. Klimczak|Roelof Koster|Sushant Kumar|Mike McLellan|Jay Mashl|Lisa Mirabello|Steven Newhouse|Aparna Prasad|Gunnar Raetsch|Matthias Schlesner|Roland Schwarz|Pramod Sharma|Tal Shmaya|Nikos Sidiropoulos|Lei Song|Hana Susak|Tomas Tanskanen|Marta Tojo|David C. Wedge|Mark Wright|Ying Wu|Kai Ye|Venkata D. Yellapantula|Jorge Zamora|Atul J. Butte|Gad Getz|Jared Simpson|Li Ding|Tomas Marques-Bonet|Arcadi Navarro|Alvis Brazma|Peter Campbell|Stephen J. Chanock|Nilanjan Chatterjee|Oliver Stegle|Reiner Siebert|Stephan Ossowski|Olivier Harismendy|Dmitry A. Gordenin|Jose M. C. Tubio|Francisco M. De La Vega|Douglas F. Easton|Xavier Estivill|Jan Korbel European Molecular Biology Laboratory, Genome Biology Unit, 69117 Heidelberg;|The Broad Institute of MIT and Harvard, Cambridge, Massachusetts 02124, USA;|Division of Cancer Epidemiology and Genetics, NCI, NIH, Maryland 20892, USA;|Centre for Genomic Regulation, Barcelona Spain; Univ. Pompeu Fabra, Barcelona;|Mobile Genomes & Disease, CINBIO, University of Vigo, Spain;|Centre for Genomic Regulation (CRG), Barcelona, Spain;|Ctr. for Genomic Regulation, Barcelona & CIBER Epidemiologia y Salud Publica;|Cancer Genome Project, Wellcome Trust Genome Campus;|Genome Integrity and Structural Biology Laboratory, NIEHs, NIH, USA;|School of Molecular Biosciences, Washington State University, Pullman, WA;|Centre for Genomic Regulation, Barcelona; Universitat Pompeu Fabra, Barcelona;|University of Geneva, Switzerland;|UPF-CSIC, Pompeu Fabra University, Barcelona Biomedical Research Park;|BRIC, Copenhagen University and Finsen Laboratory, Rigshospitalet, Denmark;|Annai Systems, 1700 Aviara Parkway 130063, Carlsbad, CA 92013, USA;|University of California, San Francisco, California, USA;|RIKEN Center for Integrative Medical Sciences, Tokyo, Japan;|Los Alamos National Laboratory, Los Alamos, New Mexico 87545, USA;|Ontario Institute for Cancer Research, Toronto, Canada;|Cancer Genome Project, Wellcome Trust Genome Campus, UK;|European Molec. Biol. Lab., European Bioinform. Inst., Wellcome Genome Campus;|Sandra & Edward Meyer Cancer Center, Weill Medical College of Cornell University;|Human Genome Center, Inst. of Medical Science, University of Tokyo;|Health Intelligence Center, The Institute of Medical Science, The University of Tokyo;|University of Helsinki, Finland;|Mobile Genomes & Disease, CINBIO, and Faculty of Biology, University of Vigo;|Department of Veterinary Medicine, University of Cambridge, UK;|Program in Computational Biology and Bioinformatics, Yale University, USA;|University of Vigo, Spain;|Div. of Theoretical Bioinformatics, German Cancer Research Center, Heidelberg;|Depts. of Genetics & Biomedical Data Science, Stanford Univ. School of Medicine;|Cray Inc., 901 Fifth Avenue, Seattle, WA 98164, USA;|Yale University, New Haven, USA;|The McDonnell Genome Institute, Washington University in St. Louis, USA;|Biobyte solutions GmbH, Bothestrasse 142, 69126 Heidelberg, Germany;|Integrative Bioinformatics Support Group, NIEHS, NIH, USA;|Division of Cancer Epidemiology and Genetics, NCI, NIH, USA;|Department of Molecular Biophysics and Biochemistry, Yale University, USA;|The Genome Institute, Department of Genetics, Washington University in St. Louis;|Dept. of Computer Science, Swiss Federal Institute of Technology in Zurich;|Division of Theoretical Bioinformatics, German Cancer Research Center, Heidelberg;|Berlin Inst. for Medical Systems Biology, Max Delbrueck Ctr. for Molecular Medicine;|Cray Inc. 901 Fifth Avenue, Seattle, WA 98164, USA;|Oxford Big Data Institute and Oxford Centre for Cancer Gene Research, UK;|Departments of Genetics and Biomedical Data Science, Stanford, USA;|McDonnell Genome Institute, Washington University, St. Louis, Missouri;|University of California, San Francisco, USA;|The Broad Institute of MIT and Harvard; Harvard Medical School, Boston;|Institut de Biologia Evolutiva (UPF/CSIC), Pompeu Fabra University, Spain;|Cancer Genome Project, Wellcome Trust Sanger Institute, UK;|Department of Biostatistics, Johns Hopkins University, Baltimore, USA;|Institute of Human Genetics, University of Ulm, Ulm, Germany;|CRG and Universitat Pompeu Fabra, Barcelona; University of Tubingen, Germany;|Moores Cancer Center, School of Medicine, University of California San Diego, USA;|Genome Integrity and Structural Biology Laboratory, NIEHS, NIH, USA;|Annai Systems, USA and Stanford University School of Medicine, USA;|Centre for Cancer Genetic Epidemiology, University of Cambridge, Cambridge, UK;|Centre for Genomic Regulation (CRG), Barcelona, Spain;|-
http://dx.doi.org/10.1101/212712 2017-11-01 CC BY Widespread dynamic and pleiotropic expression of the melanocortin-1-receptor (MC1R) system is conserved across chick, mouse and human embryonic development Anna Thomas|Pauline Heux|Chloe Santos|Wisenave Arulvasan|Nita Solanky|Magalie E. Carey|Dianne Gerrelli|Veronica A. Kinsler|Heather C. Etchevers University College London;|Aix Marseille Univ;|INSERM, Aix Marseille Univ
http://dx.doi.org/10.1101/213165 2017-11-02 CC BY-NC-ND The latent geometry of the human protein interaction network Gregorio Alanis-Lobato|Pablo Mier|Miguel A. Andrade-Navarro Johannes Gutenberg University
http://dx.doi.org/10.1101/213132 2017-11-02 CC BY-NC-ND Comparison of feature representations in MRI-based MCI-to-AD conversion prediction Marta Gomez-Sancho|Jussi Tohka|Vanessa Gomez-Verdejo Universidad Carlos III de Madrid, Spain;|University of Eastern Finland
http://dx.doi.org/10.1101/213157 2017-11-02 Complementary metrics of human auditory nerve function derived from compound action potentials Kelly C. Harris|Kenneth I. Vaden|Carolyn M. McClaskey|James W. Dias|Judy R. Dubno Medical University of South Carolina
http://dx.doi.org/10.1101/212951 2017-11-02 CC BY-NC-ND Testing the Efforts Model of Simultaneous Interpreting: An ERP Study Roman Koshkin|Yury Shtyrov|Alex Ossadtchi Ctr. for Cognition & Decision Making, Natl. Research Univ. Higher School of Econ.;|Ctr. of Functionally Integrative Neurosci., Dept. of Clinical Medicine, Aarhus Univ.
http://dx.doi.org/10.1101/213108 2017-11-02 CC BY-NC-ND Population receptive field tuning properties of visual cortex during childhood Tessa M. Dekker|Dietrich Samuel Schwarzkopf|Ben de Haas|Marko Nardini|Martin I. Sereno Experimental Psychology, University College London, UK;|Department of Psychology, Justus-Liebig-Universitat, Giessen, Germany;|Department of Psychology, Durham University, UK;|Dept. of Psychology, San Diego State University, USA
http://dx.doi.org/10.1101/213082 2017-11-02 CC BY A genetically encoded Ca2+ indicator based on circularly permutated sea anemone red fluorescent protein Yi Shen|Hod Dana|Ahmed S. Abdelfattah|Ronak Patel|Jamien Shea|Rosana S. Molina|Bijal Rawal|Vladimir Rancic|Yu-Fen Chang|Lanshi Wu|Yingche Chen|Yong Qian|Matthew D. Wiens|Nathan Hambleton|Klaus Ballanyi|Thomas E. Hughes|Mikhail Drobizhev|Douglas S. Kim|Minoru Koyama|Eric R. Schreiter|Robert E. Campbell University of Alberta;|Howard Hughes Medical Institute;|Montana State University;|LumiSTAR Biotechnology Incorporation;|Cornell University
http://dx.doi.org/10.1101/213074 2017-11-02 Neurogenic decisions require a cell cycle independent function of the CD25B phosphatase Frederic Bonnet|Melanie Roussat|Angie Molina|Manon Azais|Sophie Bel-Vialar|Jacques Gautrais|Fabienne Pituello|Eric Agius Centre de Biologie du Developpement Universite de Toulouse, CNRS, UPS, France;|Centre de Recherches sur la Cognition Animale, Universite de Toulouse, CNRS, UPS
http://dx.doi.org/10.1101/212993 2017-11-02 Modeling the temporal dynamics of the gut microbial community in adults and infants Liat Shenhav|Ori Furman|Itzhak Mizrahi|Eran Halperin University of California Los Angeles, Los Angeles;|Ben Gurion University
http://dx.doi.org/10.1101/211276 2017-11-02 CC BY-NC-ND Two C++ Libraries for Counting Trees on a Phylogenetic Terrace Rudolf Biczok|Peter Bozsoky|Peter Eisenmann|Johannes Ernst|Tobias Ribizel|Fedor Scholz|Axel Trefzer|Florian Weber|Michael Hamann|Alexandros Stamatakis Karlsruhe Institute of Technology;|Heidelberg Institute for Theoretical Studies
http://dx.doi.org/10.1101/213140 2017-11-02 CC BY-ND Low affinity membrane transporters can increase net substrate uptake rate by reducing efflux Evert Bosdriesz|Meike T. Wortel|Jurgen R. Haanstra|Marijke J. Wagner|Pilar de la Torre Cortes|Bas Teusink The Netherlands Cancer Institute, Amsterdam, The Netherlands;|University of Oslo;|VU University Amsterdam;|Delft University of Technology
http://dx.doi.org/10.1101/212829 2017-11-02 CC BY-ND NOTCH-mediated non-cell autonomous regulation of chromatin structure during senescence Aled J Parry|Matthew Hoare|Dora Bihary|Robert Hansel-Hertsch|Stephen Smith|Kosuke Tomimatsu|Shankar Balasubramanian|Hiroshi Kimura|Shamith Samarajiwa|Masashi Narita University of Cambridge, Cancer Research UK Cambridge Centre, Robinson Way, Cambridge, CB2 0RE, UK;|University of Cambridge, MRC Cancer Cell Unit, Hutchison / MRC Research Centre, Cambridge Biomedical;|University of Cambridge, Department of Pathology, Addenbrookes Hospital, Cambridge, CB2 0QQ, UK.;|Tokyo Institute of Technology, Yokohama, 226-8501, Japan
http://dx.doi.org/10.1101/212944 2017-11-02 The MYC antagonist MNT autoregulates its expression and supports proliferation in MAX deficient cells M. Carmen Lafita-Navarro|Judit Liano-Pons|Andrea Quintanilla|Ignacio Varela|Fabiana Ourique|Gabriel Bretones|Rosa Blanco|Julia Aresti|Patrick Carroll|Peter Hurlin|Robert N. Eisenman|M. Dolores Delgado|Javier Leon IBBTEC, Universidad de Cantabria-CSIC; Dept. of Molec. Biol., Univ. de Cantabria;|Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, USA;|Shriners Hosp. for Children Res. Ctr.; Dept. of Cell, Develop. & Cancer Biol., OHSU
http://dx.doi.org/10.1101/212894 2017-11-02 CC BY-NC-ND The hummingbird and the hawk-moth: Species distribution, geographical partitioning, and macrocompetition across the United States Abdel Halloway|Christopher J. Whelan|Joel S. Brown University of Illinois at Chicago
http://dx.doi.org/10.1101/213041 2017-11-02 CC BY Controlling for Intra-Subject and Inter-Subject Variability in Individual-Specific Cortical Network Parcellations Ru Kong|Jingwei Li|Nanbo Sun|Mert Rory Sabuncu|Alexander Schaefer|Xi-Nian Zuo|Avram Holmes|Simon B. Eickhoff|B.T. Thomas Yeo National University of Singapore;|School of Electrical and Computer Engineering, Cornell University;|University of Chinese Academy of Sciences, Beijing, China;|Yale University, New Haven, CT, USA;|Institute for Systems Neuroscience, Medical Faculty, Heinrich-Heine University, Dusseldorf
http://dx.doi.org/10.1101/213017 2017-11-02 Selective Recruitment of Cortical Neurons by Electrical Stimulation Maxim Komarov|Paola Malerba|Paul Nunez|Eric Halgren|Maxim Bazhenov University of California, San Diego;|Cognitive Dissonance LLC
http://dx.doi.org/10.1101/212985 2017-11-02 No kissing in the nucleus: Unbiased analysis reveals no evidence of trans chromosomal regulation of mammalian immune development Timothy M Johanson|Hannah D Coughlan|Aaron TL Lun|Naiara G Bediaga|Gaetano Naselli|Alexandra L Garnham|Leonard C Harrison|Gordon K Smyth|Rhys S Allan The Walter and Eliza Hall Institute of Medical Research, Parkville, 3052, Australia.
http://dx.doi.org/10.1101/213025 2017-11-02 CC BY An efficient gene regulatory network inference algorithm for early Drosophila melanogaster embryogenesis Hirotaka Matsumoto|Hisanori Kiryu|Yasuhiro Kojima|Suguru Yaginuma|Itoshi Nikaido RIKEN;|The University of Tokyo
http://dx.doi.org/10.1101/213066 2017-11-02 CC BY-NC-ND DNA methylation regulates transcriptional homeostasis of algal endosymbiosis in the coral model Aiptasia Yong Li|Yi Jin Liew|Guoxin Cui|Maha J Cziesielski|Noura Zahran|Craig T Michell|Christian R Voolstra|Manuel Aranda Lastra King Abdullah University of Science and Technology (KAUST)
http://dx.doi.org/10.1101/213090 2017-11-02 Evolutionary dynamics of mycorrhizal symbiosis in land plant diversification Frida A.A. Feijen|Rutger A. Vos|Jorinde Nuytinck|Vincent S.F.T. Merckx Swiss Federal Institute of Aquatic Science and Technology;|Naturalis Biodiversity Center
http://dx.doi.org/10.1101/213462 2017-11-02 CC BY-NC-ND Single-cell sequencing reveals αβ chain pairing shapes the T cell repertoire Kristina Grigaityte|Jason A Carter|Stephen J Goldfless|Eric W Jeffery|Ronald J Hause|Yue Jiang|David Koppstein|Adrian W Briggs|George M Church|Francois Vigneault|Gurinder S Atwal Cold Spring Harbor Laboratory;|Stony Brook University;|Juno Therapeutics;|Kirby Institute;|Harvard Medical School
http://dx.doi.org/10.1101/213447 2017-11-02 A Cell-Type-Specific Defect in Assembly of Influenza A Virus Particles in Primary Human Macrophages Sukhmani Bedi|Akira Ono University of Michigan Medical School
http://dx.doi.org/10.1101/213272 2017-11-02 CC BY-NC-ND Global State Changes Induce Non-reciprocal Reduction of Mutual Information in the Thalamocortical Network Ryan Verner|Matthew I. Banks|Edward L. Bartlett Purdue University;|University of Wisconsin School of Medicine & Public Health
http://dx.doi.org/10.1101/213223 2017-11-02 The Improvement Of TSP Fertilizer Production & Quality N. Chaouqi|M. El Gharous|M. Bouzziri Lab. of Appl. Chemistry & Environment, FST-Univ. Hassan 1st, Settat-MOROCCO;|University Mohammed VI polytechnique, Benguerir-MOROCCO
http://dx.doi.org/10.1101/213249 2017-11-02 CC BY-NC-ND Evidence that PV+ cells enhance temporal population codes but not stimulus-related timing in auditory cortex Bryan M. Krause|Caitlin A. Murphy|Daniel J. Uhlrich|Matthew I. Banks University of Wisconsin School of Medicine & Public Health
http://dx.doi.org/10.1101/213264 2017-11-02 The C-terminal extension landscape of naturally presented HLA-I ligands Philippe Guillaume|Sarah Picaud|Petra Baumgaertner|Nicole Montandon|Julien Schmidt|Daniel E. Speiser|George Coukos|Michal Bassani-Sternberg|Panagis Fillipakopoulos|David Gfeller University of Lausanne;|University of Oxford
http://dx.doi.org/10.1101/213256 2017-11-02 CC BY-NC Bottom-up and top-down control of dispersal across major organismal groups: a coordinated distributed experiment Emanuel A. Fronhofer|Delphine Legrand|Florian Altermatt|Armelle Ansart|Simon Blanchet|Dries Bonte|Alexis Chaine|Maxime Dahirel|Frederik De Laender|Jonathan De Raedt|Lucie di Gesu|Staffan Jacob|Oliver Kaltz|Estelle Laurent|Chelsea J. Little|Luc Madec|Florent Manzi|Stefano Masier|Felix Pellerin|Frank Pennekamp|Nicolas Schtickzelle|Lieven Therry|Alexandre Vong|Laurane Winandy|Julien Cote Eawag: Swiss Federal Institute of Aquatic Science and Technology, Switzerland;|Centre National de la Recherche Scientifique, Universite Paul Sabatier, France;|Eawag & University of Zurich, Switzerland;|Universite Rennes 1, Centre National de la Recherche Scientifique (CNRS), France;|Ghent University, Belgium;|University of Namur, Belgium;|Univ. Catholique de Louvain, Belgium;|Institut des Sciences de l'Evolution de Montpellier, Universite de Montpellier, France;|University of Zurich, Switzerland
http://dx.doi.org/10.1101/213124 2017-11-02 Insights to the genetic etiology of a lifestyle-related disease with differential levels of severity using a hierarchy of common genetic variants Sarosh N. Fatakia Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/213199 2017-11-02 CC BY-ND Diversity, stability, and reproducibility in stochastically assembled microbial ecosystems Akshit Goyal|Sergei Maslov The Simons Centre for the Study of Living Machines (NCBS-TIFR);|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/213348 2017-11-02 CC BY Continuum Approximation of Invasion Probabilities Rebecca Borchering|Scott McKinley University of Florida;|Tulane University
http://dx.doi.org/10.1101/213314 2017-11-02 CC BY-NC-ND Revisiting criteria for plant miRNA annotation in the era of big data Michael J. Axtell|Blake C. Meyers Pennsylvania State University;|Danforth Center
http://dx.doi.org/10.1101/213207 2017-11-02 CC BY Application of the immunoregulatory receptor LILRB1 as a novel crystallisation chaperone for class I peptide-MHC complexes Fiyaz Mohammed|Daniel Stones|Benjamin E. Willcox Cancer Immunology & Immunotherapy Centre, University of Birmingham, Edgbaston;|University of Birmingham
http://dx.doi.org/10.1101/213298 2017-11-02 CC BY Model reduction permits Turing instability analysis of arbitrary reaction-diffusion models Stephen Smith|Neil Dalchau University of Edinburgh;|Microsoft Research
http://dx.doi.org/10.1101/213231 2017-11-02 CC BY-NC-ND Modelling G×E with historical weather information improves genomic prediction in new environments Jussi Gillberg|Pekka Marttinen|Hiroshi Mamitsuka|Samuel Kaski Helsinki Institute for Information Technology, Dept. of Computer Science, Aalto Univ.;|Bioinformatics Center, Institute for Chemical Research, Kyoto University
http://dx.doi.org/10.1101/213355 2017-11-02 CC BY-NC-ND Evidence that loss of consciousness under anesthesia is not associated with impaired stimulus representation in auditory cortex Matthew I. Banks|Bryan M. Krause|Nicholas S. Moran|Sean M. Grady|Jeremiah Kakes|Daniel J. Uhlrich|Karen Manning University of Wisconsin School of Medicine & Public Health
http://dx.doi.org/10.1101/213306 2017-11-02 CC BY-NC-ND Ultra-sensitive mutation detection and genome-wide DNA copy number reconstruction by error corrected circulating tumour DNA sequencing Sonia Mansukhani|Louise J. Barber|Sing Yu Moorcraft|Michael Davidson|Andrew Woolston|Beatrice Griffiths|Kerry Fenwick|Bram Herman|Nik Matthews|Ben O'Leary|Sanna Hulkki|David Gonzalez De Castro|Michael Hubank|Anisha Patel|Andrew Wotherspoon|Aleruchi Okachi|Isma Rana|Ruwaida Begum|Matthew Davies|Thomas Powles|Katharina von Loga|Nick Turner|David Watkins|Ian Chau|David Cunningham|Naureen Starling|Marco Gerlinger Centre for Evolution and Cancer, Institute of Cancer Research, London, UK;|Gastrointestinal Cancer Unit, Royal Marsden NHS Foundation Trust, London, UK;|Tumour Profiling Unit, The Institute of Cancer Research, London, United Kingdom;|Diagnostics and Genomics Group, Agilent Technologies Inc., Santa Clara, USA;|Breast Cancer Now Research Centre, Institute of Cancer Research, London, UK;|Centre for Molecular Pathology, Royal Marsden NHS Foundation Trust, Sutton, UK;|Centre for Cancer Research and Cell Biology, Belfast, United Kingdom;|Department for Radiology, Royal Marsden NHS Foundation Trust, London, UK;|Department of Histopathology, Royal Marsden NHS Foundation Trust, London, UK;|Barts Cancer Institute, Queen Mary University of London, London, United Kingdom
http://dx.doi.org/10.1101/213330 2017-11-02 CC BY-NC The Fission Yeast S-Phase Cyclin Cig2 Can Drive Mitosis Mira Magner|Daniel Keifenheim|Nicholas Rhind University of Massachusetts Medical School
http://dx.doi.org/10.1101/213397 2017-11-02 CC BY-NC-ND De Novo Mutations Resolve Disease Transmission Pathways in Clonal Malaria Seth N. Redmond|Bronwyn M. MacInnis|Selina Bopp|Amy K. Bei|Daouda Ndiaye|Daniel L. Hartl|Dyann F. Wirth|Sarah K. Volkman|Daniel E. Neafsey Broad Institute;|Harvard T. H. Chan School of Public Health;|Cheikh Anta Diop University, Dakar, Senegal;|Harvard University
http://dx.doi.org/10.1101/211631 2017-11-02 Associations between sexual habits, menstrual hygiene practices, demographics and the vaginal microbiome as revealed by Bayesian network analysis Noelle Noyes|Kyu-Chul Cho|Jacques Ravel|Larry Forney|Zaid Abdo Colorado State University;|University of Idaho;|University of Maryland
http://dx.doi.org/10.1101/213173 2017-11-02 CC BY-NC-ND Effects of the veterinary anthelmintic moxidectin on dung beetle survival and ecosystem functioning Paul Manning|Owen T. Lewis|Sarah A. Beynon Dalhousie University;|University of Oxford
http://dx.doi.org/10.1101/213363 2017-11-02 The phylogeography of westslope cutthroat trout Michael K. Young|Kevin S. McKelvey|Tara Jennings|Katie Carter|Richard Cronn|Ernest Keeley|Janet Loxterman|Kristy Pilgrim|Michael K. Schwartz Rocky Mountain Research Station;|Pacific Northwest Research Station;|Idaho State University
http://dx.doi.org/10.1101/213686 2017-11-03 CC BY Evidence for loss and adaptive reacquisition of alcoholic fermentation in an early-derived fructophilic yeast lineage Carla Goncalves|Jennifer H. Wisecaver|Madalena Salema-Oom|Maria Jose Leandro|Xing-Xing Shen|David Peris|Chris Todd Hittinger|Antonis Rokas|Paula Goncalves FCT NOVA;|Vanderbilt University;|Instituto de Tecnologia Química e Biológica António Xavier;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/213835 2017-11-03 CC BY-NC-ND Learning the pattern of epistasis linking genotype and phenotype in a protein Frank J. Poelwijk|Michael Socolich|Rama Ranganathan Dana-Farber Cancer Institute;|University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/213827 2017-11-03 CC BY-NC-ND Coherent olfactory bulb gamma oscillations arise from coupling independent columnar oscillators Shane T. Peace|Benjamin C. Johnson|Guoshi Li|Martin E. Kaiser|Izumi Fukunaga|Andreas T. Schaefer|Alyosha C. Molnar|Thomas A. Cleland Cornell University;|Max Planck Institute; University College London;|Max Planck Institute; Francis Crick Institute; Okinawa Institute of Science & Technol.;|Max Planck Inst.; Univ. of Heidelberg; Francis Crick Inst.; Univ. College London
http://dx.doi.org/10.1101/213900 2017-11-03 CC BY-NC-ND Chromatin accessibility changes between Arabidopsis stem cells and mesophyll cells illuminate cell type-specific transcription factor networks Paja Sijacic|Marko Bajic|Elizabeth C. McKinney|Richard B. Meagher|Roger B. Deal Emory University;|University of Georgia
http://dx.doi.org/10.1101/213744 2017-11-03 CC BY-NC-ND Sensitivity to sequencing depth in single-cell cancer genomics Joao M. Alves|David Posada University of Vigo, Vigo, Spain
http://dx.doi.org/10.1101/213793 2017-11-03 A phase separated organelle at the root of motile ciliopathy Ryan Huizar|Chanjae Lee|Alexander Boulgakov|Amjad Horani|Fan Tu|Kevin Drew|Edward Marcotte|Steven Brody|John Wallingford University of Texas at Austin;|Washington University School of Medicine
http://dx.doi.org/10.1101/213868 2017-11-03 CC BY-NC-ND An eutherian intronic sequence gave rise to a major satellite DNA in Platyrrhini Mirela Pelizaro Valeri|Guilherme Borges Dias|Valeria Socorro Pereira|Gustavo Campos Silva Kuhn|Marta Svartman Universidade Federal de Minas Gerais;|Fundacao Zoo-Botanica de Belo Horizonte
http://dx.doi.org/10.1101/213843 2017-11-03 CC BY-NC-ND Conductive particles enable syntrophic acetate oxidation between Geobacter and Methanosarcina from coastal sediments Amelia-Elena Rotaru|Hryhoriy Stryhanyuk|Federica Calabrese|Florin Musat|Pravin Malla Shrestha|Hannah S. Weber|Oona L. O. Snoeyenbos-West|Per O. J. Hall|Hans H. Richnow|Niculina Musat|Bo Thamdrup University of Southern Denmark;|Helmholtz Center for Environmental Research;|University of California Berkeley;|University of Gothenburg
http://dx.doi.org/10.1101/213728 2017-11-03 CC BY-NC Loter: A software package to infer local ancestry for a wide range of species Thomas Dias-Alves|Julien Mairal|Michael G. B. Blum Univ. Grenoble Alpes;|INRIA, Univ. Grenoble Alpes;|CNRS, Univ. Grenoble Alpes
http://dx.doi.org/10.1101/213751 2017-11-03 CC BY-NC The Hallucination Machine: A Deep-Dream VR platform for Studying the Phenomenology of Visual Hallucinations Keisuke Suzuki|Warrick Roseboom|David J. Schwartzman|Anil K. Seth Sackler Centre for Consciousness Science; Dept. of Informatics, Univ. of Sussex;|University of Sussex
http://dx.doi.org/10.1101/213769 2017-11-03 CC BY-NC-ND Technology-independent estimation of cell type composition using differentially methylated regions Stephanie C. Hicks|Rafael A. Irizarry Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/213876 2017-11-03 CC BY-NC-ND Genetic conflict with a parasitic nematode disrupts the legume-rhizobia mutualism Corlett Wolfe Wood|Bonnie Pilkington|Priya Vaidya|Caroline Biel|John Stinchcombe University of Toronto
http://dx.doi.org/10.1101/213736 2017-11-03 Distinct types of short open reading frames are translated in plant cells Igor Fesenko|Ilya Kirov|Andrey Kniazev|Regina Khazigaleeva|Vassili Lazarev|Daria Kharlampieva|Ekaterina Grafskaia|Viktor Zgoda|Ivan Butenko|Georgy Arapidi|Anna Mamaeva|Vadim Ivanov|Vadim Govorun Shemyakin & Ovchinnikov Inst. of Bioorganic Chemistry, Moscow, Russian Fed.;|Research Institute for Physico-Chemical Medicine;|Federal Research & Clinical Centre of Physical-Chemical Medicine, Moscow;|Federal Research and Clinical Centre of Physical-Chemical Medicine, Moscow;|Institute of Biomedical Chemistry, Moscow, Russian Federation
http://dx.doi.org/10.1101/213785 2017-11-03 CC BY-NC-ND A proposed chaperone of the bacterial type VI secretion system functions to constrain a self-identity protein Martha A. Zepeda-Rivera|Christina C. Saak|Karine A. Gibbs Harvard University
http://dx.doi.org/10.1101/213777 2017-11-03 Multivariate analysis of the cotton seed ionome reveals integrated genetic signatures of abiotic stress response Duke Pauli|Greg Ziegler|Min Ren|Matthew A. Jenks|Douglas J. Hunsaker|Min Zhang|Ivan Baxter|Michael A. Gore Cornell University;|United States Department of Agriculture - Agricultural Research Service;|Purdue University;|West Virginia University
http://dx.doi.org/10.1101/208132 2017-11-03 Arabidopsis HIPP27 is a host susceptibility gene for the beet cyst nematode Heterodera schachtii Zoran S. Radakovic|Muhammad Shahzad Anjam|Elizabeth Escobar|Divykriti Chopra|Javier Cabrera|Ana Claudia Silva|Carolina Escobar|Miroslaw Sobczak|Florian M. W. Grundler|Shahid Siddique University of Bonn;|University of Toledo, Spain;|University Toledo, Spain;|Department of Botany, Warsaw University of Life Sciences, Poland
http://dx.doi.org/10.1101/210260 2017-11-03 Exploring variation in human papillomavirus vaccination uptake: multi-level spatial analysis Maurane Riesen|Garyfallos Konstantinoudis|Phung Lang|Nicola Low|Christoph Hatz|Mirjam Maeusezahl|Anne Spaar|Marc Buehlmann|Ben D. Spycher|Christian L. Althaus Institute of Social and Preventive Medicine (ISPM), University of Bern, Switzerland;|Epidemiology, Biostatistics & Prevention Institute, University of Zurich, Switzerland;|Swiss Federal Office of Public Health, Bern, Switzerland;|Institute of Political Science, University of Bern, Switzerland;|Institute of Social and Preventive Medicine, University of Bern, Switzerland
http://dx.doi.org/10.1101/213009 2017-11-03 CC BY-NC-ND EpiModel: An R Package for Mathematical Modeling of Infectious Disease over Networks Samuel Jenness|Steven M. Goodreau|Martina Morris Emory University;|University of Washington
http://dx.doi.org/10.1101/213629 2017-11-03 Clinical Trials CC BY-NC-ND Influence of APOA5 locus on the treatment efficacy of three statins: evidence from a randomized pilot study in Chinese subjects Sha Hua|Chuanxiang Ma|Jun Zhang|Jing Li|Weiwei Wu|Ning Xu|Guanghua Luo|Jianrong Zhao Dept. of Cardiology, Ruijin Hospital Luwan Branch, Shanghai Jiao Tong University;|Department of Pathology, The Affiliated Hospital of Weifang Medical University;|Comprehensive Laboratory, Third Affiliated Hospital of Soochow University;|Section of Clin. Chemistry & Pharmacology, Inst. of Laboratory Medicine, Lund Univ.
http://dx.doi.org/10.1101/212845 2017-11-03 Epidemiology CC BY-NC-ND Identification of an epitope of limited variability under strong immune selection in the haemagglutinin head domain of H1N1 influenza Craig P Thompson|Jose Lourenco|Adam A Walters|Uri Obolski|Matthew Edmans|Duncan S Palmer|Kreepa Kooblall|George W Carnell|Daniel O Connor|Thomas A Bowden|Oliver G Pybus|Andrew J Pollard|Nigel J Temperton|Teresa Lambe|Sarah G Gilbert|Sunetra Gupta Department of Zoology, University of Oxford, UK; The Jenner Institute Laboratories, Univ of Oxford;|Department of Zoology, University of Oxford, UK;|The Jenner Institute Laboratories, University of Oxford, UK;|Oxford Centre for Endocrinology, Metabolism and Diabetes, University of Oxford, UK;|Medway School of Pharmacy, University of Kent, UK;|Oxford Vaccine Group, Dept of Paediatrics, Univ of Oxford, and the NIHR Oxford Biomedical Res Ctr;|Division of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, UK
http://dx.doi.org/10.1101/213579 2017-11-03 Epidemiology CC BY-NC-ND Stochastic dynamics of an epidemics with recurrent spillovers from an endemic reservoir Marina Voinson|Alexandra Alvergne|Sylvain Billiard|Charline Smadi University of Lille;|University of Oxford;|IRSTEA
http://dx.doi.org/10.1101/213504 2017-11-03 Neuroscience Propofol-Induced Unresponsiveness is Associated with Impaired Feedforward Connectivity in the Cortical Hierarchy Robert D. Sanders|Matthew I. Banks|Matthieu Darracq|Rosalyn Moran|Jamie Sleigh|Olivia Gosseries|Vincent Bonhomme|Jean-Francois Brichant|Mario Rosanova|Aeyal Raz|Giulio Tononi|Marcello Massimini|Steven Laureys|Melanie Boly University of Wisconsin School of Medicine & Public Health;|University of Bristol;|Waikato Hospital;|University of Liege;|University of Milan;|Rambam Healthcare Campus;|University of Wisconsin School of Medicine and Public Health
http://dx.doi.org/10.1101/213603 2017-11-03 Bioinformatics Interoperable and scalable metabolomics data analysis with microservices Payam Emami Khoonsari|Pablo Moreno|Sven Bergmann|Joachim Burman|Marco Capuccini|Matteo Carone|Marta Cascante|Pedro de Atauri|Carles Foguet|Alejandra Gonzalez-Beltran|Thomas Hankemeier|Kenneth Haug|Sijin He|Stephanie Herman|David Johnson|Namrata Kale|Anders Larsson|Steffen Neumann|Kristian Peters|Luca Pireddu|Philippe Rocca-Serra|Pierrick Roger|Rico Rueedi|Christoph Ruttkies|Noureddin Sadawi|Reza M. Salek|Susanna-Assunta Sansone|Daniel Schober|Vitaly Selivanov|Etienne A. Thevenot|Michael van Vliet|Gianluigi Zanetti|Christoph Steinbeck|Kim Kultima|Ola Spjuth Department of Medical Sciences, Clinical Chemistry, Uppsala University, Sweden;|European Molecular Biology Laboratory, European Bioinformatics Inst., Cambridge;|Department of Computational Biology, University of Lausanne, Switzerland;|Department of Neuroscience, Uppsala University, Uppsala, Sweden;|Department of Information Technology, Uppsala, Sweden;|Department of Pharmaceutical Biosciences, Uppsala University, Uppsala, Sweden;|Dept. of Biochem. & Molec. Biomedicine, Faculty of Biology, Univ. de Barcelona;|Oxford e-Research Centre, Dept. of Engineering Science, University of Oxford, UK;|Div. of Analytical Biosci., Leiden Academic Centre for Drug Research, Leiden Univ.;|Dept. of Medical Sciences, Clinical Chemistry, Uppsala University, Sweden;|National Bioinformatics Infrastructure Sweden, Uppsala University, Sweden;|Dept. of Stress & Developmental Biology, Leibniz Inst. of Plant Biochemistry, Halle;|CRS4: Ctr. for Advanced Studies, Research & Development in Sardinia, Pula, Italy;|CEA, LIST, Laboratory for Data Analysis & Systems' Intelligence, MetaboHUB;|Faculty of Medicine, Dept. of Surgery & Cancer, Imperial College London, UK;|CEA, LIST, Laboratory for Data Analysis and Systems' Intelligence, MetaboHUB
http://dx.doi.org/10.1101/213587 2017-11-03 Systems Biology CC BY-NC-ND Adapting machine-learning algorithms to design gene circuits Tom W Hiscock Cancer Research UK, Cambridge Institute
http://dx.doi.org/10.1101/210872 2017-11-03 Plant Biology CC BY-NC-ND Endodermal differentiation is reconstructed by coordination of two parallel signaling systems derived from the stele in roots Pengxue Li|Qiaozhi Yu|Chunmiao Xu|Xu Gu|Shilian Qi|Hong Wang|Fenglin Zhong|Shuang Wu Fujian Agriculture and Forestry University
http://dx.doi.org/10.1101/213553 2017-11-03 Cancer Biology A multi-center study on factors influencing the reproducibility of in vitro drug-response studies Mario Niepel|Marc Hafner|Elizabeth Hope Williams|Mirra Chung|Anne Marie Barrette|Alan D. Stern|Bin Hu|Joe W. Gray|Marc R. Birtwistle|Laura M. Heiser|Peter K. Sorger Harvard Medical School;|Icahn School of Medicine at Mount Sinai;|-;|Oregon Health and Science University and UCSF;|Oregon Health Sciences University
http://dx.doi.org/10.1101/209494 2017-11-03 Bioinformatics CC BY-NC-ND FireCloud, a scalable cloud-based platform for collaborative genome analysis: Strategies for reducing and controlling costs Chet Birger|Megan Hanna|Edward Salinas|Jason Neff|Gordon Saksena|Dimitri Livitz|Daniel Rosebrock|Chip Stewart|Ignaty Leshchiner|Alexander Baumann|Douglas Voet|Kristian Cibulskis|Eric Banks|Anthony Philippakis|Gad Getz Broad Institute of MIT and Harvard;|Broad Institute of MIT and Harvard, Brigham and Women's Hospital;|Broad Institute of MIT and Harvard, Massachusetts General Hospital
http://dx.doi.org/10.1101/213637 2017-11-03 Microbiology The spent culture supernatant of Pseudomonas syringae contains azelaic acid Sree Gowrinadh Javvadi|Paola Cescutti|Roberto Rizzo|Valentina Lonzarich|Luciano Navarini|Danilo Licastro|Corrado Guarnaccia|Vittorio Venturi International Centre for Genetic Engineering and Biotechnology;|Department of Life Sciences, University of Trieste, Trieste, Italy;|Illycaffe S.p.A., Trieste, Italy;|CBM S.c.r.l., Area Science Park-Basovizza, Trieste, Italy
http://dx.doi.org/10.1101/213710 2017-11-03 Neuroscience CC BY Prediction Error and Repetition Suppression Have Distinct Effects on Neural Representations of Visual Information Matthew F. Tang|Cooper A. Smout|Ehsan Arabzadeh|Jason B. Mattingley The University of Queensland;|Australian National University;|School of Psychology, The University of Queensland
http://dx.doi.org/10.1101/213520 2017-11-03 Genetics CC BY Molecular genetic diversity of donkey (Equus asinus) in South Korea Sungwook Yun|Giljae Cho Kyungpook National University Veterinary College
http://dx.doi.org/10.1101/213678 2017-11-03 Genomics Machine Learning of the Cardiac Phenome and Skin Transcriptome to Categorize Heart Disease in Systemic Sclerosis Monique E. Hinchcliff|Tracy M. Frech|Tammara A. Wood|Chiang-Ching Huang|Jungwha Lee|Kathleen Aren|John J. Ryan|Brent Wilson|Lauren Beussink-Nelson|Michael L. Whitfield|Rahul C. Deo|Sanjiv J. Shah Northwestern University;|University of Utah;|Dartmouth University;|University of Wisconsin-Milwaukee
http://dx.doi.org/10.1101/213546 2017-11-03 Developmental Biology Smad9 is a key player of follicular selection in goose via keeping the balance of LHR transcription Daolun Yu|Fanghui Chen|Li Zhang|Hejian Wang|Jie Chen|Zongmeng Zhang|Jie Li|Chaofeng Xing|Honglin Li|Jun Li|Yafei Cai Anhui Normal University;|Nanjing Agricultural University;|Augusta University
http://dx.doi.org/10.1101/212290 2017-11-03 Biophysics CC BY-ND Molecular mechanism of the dual regulation of bacterial iron sulfur cluster biogenesis by CyaY and IscX Annalisa Pastore|Salvatore Adinolfi|Rita Puglisi|Jason Crack|Clara Iannuzzi|Fabrizio Dal Piaz|Petr Konarev|Dmitri Svergun|Stephen Martin|Nick Le Brun King's College London;|University of Torino;|University of East Anglia;|University of Campania;|University of Salerno;|EMBL;|Frances Crick Institute
http://dx.doi.org/10.1101/213652 2017-11-03 Cell Biology CC BY Degradation of cyclin B is critical for nuclear division in Trypanosoma brucei Hanako Hayashi|Bungo Akiyoshi Biochemistry, Oxford
http://dx.doi.org/10.1101/213405 2017-11-03 Genetics Rev7 and 53BP1/Crb2 prevent RecQ helicase-dependent hyper-resection of DNA double-strand breaks Bryan A. Leland|Angela B. Chen|Amy Y. Zhao|Robert C. Wharton|Megan C. King Yale School of Medicine;|Yale University
http://dx.doi.org/10.1101/213595 2017-11-03 Genetics Genome-wide analysis yields new loci associating with aortic valve stenosis Anna Helgadottir|Gudmar Thorleifsson|Solveig Gretarsdottir|Olafur A. Stefansson|Vinicius Tragante|Rosa B. Thorolfsdottir|Ingileif Jonsdottir|Thorsteinn Bjornsson|Valgerdur Steinthorsdottir|Niek Verweij|Jonas B. Nielsen|Wei Zhou|Lasse Folkersen|Andreas Martinsson|Mahyar Heydarpour|Siddharth Prakash|Gylfi Oskarsson|Tomas Gudbjartsson|Arnar Geirsson|Isleifur Olafsson|Emil L. Sigurdsson|Peter Almgren|Olle Melander|Anders Franco-Cereceda|Anders Hamsten|Lars Fritsche|Maoxuan Lin|Bo Yang|Whitney Hornsby|Dongchuan Guo|Chad M. Brummett|Goncalo Abecasis|Michael Mathis|Dianna Milewicz|Simon C. Body|Per Eriksson|Cristen J. Willer|Kristian Hveem|Christopher Newton-Cheh|J. Gustav Smith|Ragnar Danielsen|Gudmundur Thorgeirsson|Unnur Thorsteinsdottir|Daniel F. Gudbjartsson|Hilma Holm|Kari Stefansson deCODE genetics;|University of Groningen;|University of Michigan;|Karolinska Institutet;|Lund University and Skane University Hospital;|Brigham and Womens Hospital;|University of Texas;|Landspitali University Hospital Iceland;|Yale University School of Medicine;|Heilsugaeslan Solvangi, Hafnarfjordur, Iceland;|Lund University, Malmo;|Norwegian University of Science and Technology;|Broad Institute of Harvard and MIT;|Landspitali, National University Hospital of Iceland
http://dx.doi.org/10.1101/213645 2017-11-03 Molecular Biology RNA virus interference via CRISPR/Cas13a system in plants Rashid Aman|Zahir Ali|Haroon Butt|Ahmed Mahas|Fatimah Aljedaani|Muhammad Zhuhaib Khan|Shouwei Ding|Magdy Mahfouz KAUST;|University of California Riverside
http://dx.doi.org/10.1101/213538 2017-11-03 Synthetic Biology CC BY-NC-ND Multi-state design of kinetically-controlled RNA aptamer ribosensors Cassandra R. Burke|David Sparkman-Yager|James M. Carothers University of Washington
http://dx.doi.org/10.1101/213470 2017-11-03 Bioinformatics Non-biological synthetic spike-in controls and the AMPtk software pipeline improve fungal high throughput amplicon sequencing data Jonathan M Palmer|Michelle A Jusino|Mark T Banik|Daniel L Lindner US Forest Service
http://dx.doi.org/10.1101/211748 2017-11-03 Neuroscience CC BY-NC-ND E/I balance enables adaptation to coordinate a neural population for a stable sensory representation Gabrielle J Gutierrez|Sophie Deneve University of Washington, Seattle;|Ecole Normale Superieure
http://dx.doi.org/10.1101/213421 2017-11-03 Microbiology The ventral disc is a flexible microtubule organelle that depends on domed ultrastructure for functional attachment of Giardia lamblia Scott Charles Dawson|Christopher Nosala UC Davis
http://dx.doi.org/10.1101/214148 2017-11-04 Ecology CC BY-NC-ND The Use of Biogeographical Patterns to Assess Key Adaptations in Two Families of Birds Abddel Halloway|Christopher J. Whelan|Cagan H. Sekercioglu|Joel S. Brown University of Illinois at Chicago;|University of Utah;|Moffitt Cancer Center
http://dx.doi.org/10.1101/214072 2017-11-04 Microbiology CC BY-NC-ND YlmD and YlmE are required for correct sporulation-specific cell division in Streptomyces coelicolor A3(2) Le Zhang|Joost Willemse|Paul A Hosksson|Gilles van Wezel Leiden University;|University of Strathclyde
http://dx.doi.org/10.1101/214114 2017-11-04 Bioengineering Squid Ring Teeth Coated Mesh Improves Abdominal Wall Repair Ashley Leberfinger|Monika Hospodiuk|Abdon Pena-Francesch|Bugra Ayan|Veli Ozbolat|Srinivas Koduru|Ibrahim Ozbolat|Melik C Demirel|Dino Ravnic Pennsylvania State University
http://dx.doi.org/10.1101/214031 2017-11-04 Neuroscience CC BY-NC-ND Enhanced deviant responses in patterned relative to random sound sequences Rosy Southwell|Maria Chait University College London
http://dx.doi.org/10.1101/214056 2017-11-04 Neuroscience CC BY-NC-ND Prediction error induced motor contagions in human behaviors Tsuyoshi Ikegami|Gowrishankar Ganesh|Tatsuya Takeuchi|Hiroki Nakamoto Ctr. for Information & Neural Networks, Natl. Inst. of Information & Comm. Technol.;|CNRS-AIST JRL, UMI3218/CRT, Intelligent Systems Research Institute, NAIST;|Faculty of Physical Education, National Institute of Fitness and Sports in Kanoya
http://dx.doi.org/10.1101/214197 2017-11-04 Biophysics CC BY-NC-ND Fractional Dynamics in Bioscience and Biomedicine and the Physics of Cancer Hosein Nasrolahpour Department of Physics, School of Sciences, Tarbiat Modares University, Tehran, Iran
http://dx.doi.org/10.1101/214007 2017-11-04 Neuroscience Running reduces firing but improves coding in rodent higher-order visual cortex Amelia J. Christensen|Jonathan W Pillow Stanford University;|Princeton University
http://dx.doi.org/10.1101/214130 2017-11-04 Neuroscience Two-stage adaptation of inhibition mediates predictive sensitization in the retina David B Kastner|Georgia Panagiotakos|Yusuf Ozuysal|Stephen A Baccus Stanford University Neuroscience Program;|Stanford University Department of Electrical Engineering;|Stanford University Department of Neurobiology
http://dx.doi.org/10.1101/213439 2017-11-04 Scientific Communication and Education CC BY Using experimental data as a voucher for study pre-registration Matan Mazor|Noam Mazor|Roy Mukamel Tel Aviv University
http://dx.doi.org/10.1101/213892 2017-11-04 Bioinformatics CC BY-NC-ND Creating ethnicity-specific reference intervals for lab tests from EHR data Nadav Rappoport|Hyojung Paik|Boris Oskotsky|Ruth Tor|Elad Ziv|Noah Zaitlen|Atul J. Butte Institute for Computational Health Sciences, University of California, San Francisco;|Rabin Medical Center, Beilinson Hospital, Petach Tikva, Israel;|University of California, San Francisco
http://dx.doi.org/10.1101/213934 2017-11-04 Neuroscience CC BY-NC-ND A mid-level organization of the ventral stream Bria Long|Chen-Ping Yu|Talia Konkle Dept. of Psychology, Stanford University; Dept. of Psychology, Harvard University;|Department of Psychology, Harvard University; Phiar Technologies, Inc.;|Department of Psychology, Harvard University
http://dx.doi.org/10.1101/213512 2017-11-04 Cell Biology CC BY-NC-ND Reconciling the clk-1 and aging paradox and categorizing lifespan curves by taking individual specificity into account Yaguang Ren|Congjie Zhang|Wenxuan Guo|Chao Zhang Tongji University;|Wenzhou Medical University
http://dx.doi.org/10.1101/210062 2017-11-04 Ecology CC BY-ND Predicting Global Forest Reforestation Potential Thomas W. Crowther|Henry B. Glick|Daniel S. Maynard|Will Ashley-Cantello|Tom Evans|Devin Routh ETH Zurich;|Yale University;|University of Chicago;|WWF-UK, Woking, UK;|Wildlife Conservation Society
http://dx.doi.org/10.1101/214098 2017-11-04 Neuroscience Percent amplitude of fluctuation: a simple measure for resting-state fMRI signal at single voxel level Xi-Ze Jia|Gong-Jun Ji|Wei Liao|Ya-Ting Lv|Jue Wang|Ze Wang|Han Zhang|Dong-Qiang Liu|Yu-Feng Zang Center for Cognition and Brain Disorders, Affiliated Hospital, Hangzhou Normal University
http://dx.doi.org/10.1101/213991 2017-11-04 Bioengineering Chemical genomic guided engineering of gamma-valerolactone tolerant yeast Scott Bottoms|Quinn Dickinson|Mick McGee|Li Hinchman|Alan Higbee|Alex Hebert|Jose Serate|Dan Xie|Yaoping Zhang|Joshua J. Coon|Chad L. Myers|Robert Landick|Jeff S. Piotrowski Lehrstuhl für Chemie Biogener Rohstoffe, Technische Univ. München;|School of Biology, Georgia Institute of Technology;|Great Lakes Bioenergy Research Center, University of Wisconsin-Madison;|University of Wisconsin Biotechnology Center;|Department of Biomolecular Chemistry, University of Wisconsin-Madison;|Department of Chemistry, University of Wisconsin-Madison;|University of Minnesota
http://dx.doi.org/10.1101/213967 2017-11-04 Bioinformatics CC BY-NC-ND CalR: A Web-based Analysis Tool for Indirect Calorimetry Experiments Amir I Mina|Raymond A LeClair|Katherine B LeClair|David E Cohen|Louise Lantier|Alexander S Banks Brigham and Women's Hospital;|Springbok LLC;|Weill Cornell Medical College;|Vanderbilt University
http://dx.doi.org/10.1101/214015 2017-11-04 Genetics Interdependent and separable functions of C. elegans MRN-C complex members couple formation and repair of meiotic DSBs Chloe Girard|Baptiste Roelens|Karl A. Zawadzki|Anne M. Villeneuve Stanford University
http://dx.doi.org/10.1101/192310 2017-11-04 Genomics CC BY-NC-ND Whole-genome sequencing analysis of genomic copy number variation (CNV) using low-coverage and paired-end strategies is highly efficient and outperforms array based CNV analysis Bo Zhou|Steve S Ho|Xianglong Zhang|Reenal Pattni|Rajini R Haraksingh|Alexander E Urban Stanford University School of Medicine;|The University of the West Indies
http://dx.doi.org/10.1101/214023 2017-11-04 Developmental Biology CC BY-NC-ND Cohesin facilitates zygotic genome activation in zebrafish Michael Meier|Jenny Grant|Amy Dowdle|Amarni Thomas|Jennifer E. Gerton|Philippe Collas|Justin M. O'Sullivan|Julia A. Horsfield University of Otago;|Stowers Institute for Medical Research;|University of Oslo;|University of Auckland
http://dx.doi.org/10.1101/214239 2017-11-05 Behavior state-dependent lateralization of dorsal dentate gyrus c-Fos expression in mice Jake T. Jordan|Carolyn L. Pytte Graduate Center, CUNY;|Queens College, CUNY
http://dx.doi.org/10.1101/213413 2017-11-05 Pydigree: a python library for manipulation and forward-time simulation and of genetic datasets James E. Hicks Washington University in Saint Louis
http://dx.doi.org/10.1101/214247 2017-11-05 Neuroscience Variational Autoencoder: An Unsupervised Model for Modeling and Decoding fMRI Activity in Visual Cortex Kuan Han|Haiguang Wen|Junxing Shi|Kun-Han Lu|Yizhen Zhang|Zhongming Liu Purdue University;|Purdue University, West Lafayette
http://dx.doi.org/10.1101/214262 2017-11-05 Neuroscience CC BY-NC-ND A theory of multineuronal dimensionality, dynamics and measurement Peiran Gao|Eric Trautmann|Byron M. Yu|Gopal Santhanam|Stephen Ryu|Krishna Shenoy|Surya Ganguli Stanford University;|Carnegie Mellon University;|Palo Alto Medical Foundation
http://dx.doi.org/10.1101/214478 2017-11-05 CC BY Kombucha as a model system for multispecies microbial cooperation: theoretical promise, methodological challenges and new solutions 'in solution' Alexander Niall May|James Medina|Joe Alcock|Carlo Maley|Athena Aktipis Arizona State University;|University of New Mexico
http://dx.doi.org/10.1101/214486 2017-11-05 Causal Mapping of Emotion Networks in the Human Brain: Framework and Preliminary Findings Julien Dubois|Hiroyuki Oya|J. Michael Tyszka|Matthew Howard|Frederick Eberhardt|Ralph Adolphs Cedars-Sinai Medical Center;|University of Iowa;|California Institute of Technology
http://dx.doi.org/10.1101/213496 2017-11-05 CC BY-NC-ND EditR: A novel base editing quantification software using Sanger sequencing Mitchell Kluesner|Derek Nedveck|Walker Lahr|John Garbe|Juan Abrahante|Beau Webber|Branden Moriarity University of Minnesota, Department of Pediatrics, Center for Genome Engineering;|University of Minnesota, Department of Plant Biology;|University of Minnesota, Informatics Institute;|University of Minnesota, Genomics Center
http://dx.doi.org/10.1101/214502 2017-11-05 Label-free quantitative screening of breast tissue using Spatial Light Interference Microscopy (SLIM) Hassaan Majeed|Tan Huu Nguyen|Mikhail Eugene Kandel|Andre Kadjdacsy-Balla|Gabriel Popescu University of Illinois at Urbana Champaign;|Massachusetts Institute of Technology;|University of Illinois at Chicago;|UIUC
http://dx.doi.org/10.1101/214049 2017-11-05 CC BY-NC-ND APR-246 reactivates mutant p53 by targeting cysteines 124 and 277 Qiang Zhang|Vladimir J. N. Bykov|Klas G. Wiman|Joanna Zawacka-Pankau Karolinska Institutet
http://dx.doi.org/10.1101/214494 2017-11-05 CC BY-ND Accurate Discrimination of 23 Major Cancer Types via Whole Genome Somatic Mutation Patterns Wei Jiao|Paz Polak|Rosa Karlic|Gad Getz|Lincoln D. Stein Ontario Institute for Cancer Research;|The Broad Institute of MIT and Harvard;|University of Zagreb;|-
http://dx.doi.org/10.1101/214460 2017-11-05 Microbiology Divalent metal cations potentiate the predatory capacity of amoeba for Cryptococcus neoformans Man Shun Fu|Arturo Casadevall Johns Hopkins School of Public Health
http://dx.doi.org/10.1101/214312 2017-11-05 Cancer Biology Imaging-Genomics Study Of Head-Neck Squamous Cell Carcinoma: Associations Between Radiomic Phenotypes And Genomic Mechanisms Via Integration Of TCGA And TCIA Yitan Zhu|Abdallah SR Mohamed|Stephen Y Lai|Shengjie Yang|Aasheesh Kanwar|Lin Wei|Mona Kamal|Subhajit Sengupta|Hesham Elhalawani|Heath Skinner|Dennis S Mackin|Jay Shiao|Jay Messer|Andrew Wong|Yao Ding|Joy Zhang|Laurence Court|Yuan Ji|Clifton D Fuller NorthShore University HealthSystem;|The University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/212969 2017-11-05 Genetics CC BY-NC-ND Atf3 links loss of epithelial polarity to defects in cell differentiation and cytoarchitecture Colin D. Donohoe|Andreia Correia|Gabor Csordas|Marek Jindra|Corinna Klein|Bianca Habermann|Mirka Uhlirova Institute for Genetics, CECAD Cologne, University of Cologne;|Biology Center Czech Academy of Sciences;|CECAD Lipidomics & Proteomics Facilities Cologne;|Institut de Biologie du Developpement de Marseille
http://dx.doi.org/10.1101/213850 2017-11-05 Microbiology CC BY-NC-ND A novel multi SNP based method for identifying subspecies and associated lineages and sub-lineages of the Mycobacterium tuberculosis complex by whole genome sequencing Samuel IW Lipworth|Rana Jajou|Han de Neeling|Phelim Bradley|Wim van der Hoek|Zamim Iqbal|Grace Smith|Tim Peto|Derrick Crook|Timothy M Walker|Dick van Soolingen University of Oxford;|Naitonal Institute for Public Health and the Environment (RIVM)
http://dx.doi.org/10.1101/214387 2017-11-05 Biophysics CC BY Theory of site-specific DNA-protein interactions in the presence of nucleosome roadblocks R. Murugan Indian Institute of Technology Madras
http://dx.doi.org/10.1101/214437 2017-11-05 Neuroscience Abnormal reward prediction error signalling in antipsychotic naive individuals with first episode psychosis or clinical risk for psychosis Anna O. Ermakova|Franziska Knolle|Azucena Justicia|Edward T. Bullmore|Peter B. Jones|Trevor W. Robbins|Paul C. Fletcher|Graham K. Murray University of Cambridge
http://dx.doi.org/10.1101/214403 2017-11-05 Bioinformatics CC BY Binless normalization of Hi-C data provides significant interaction and difference detection independently of resolution Yannick G. Spill|David Castillo|Marc A. Marti-Renom CNAG-CRG
http://dx.doi.org/10.1101/214429 2017-11-05 Systems Biology Subtle alteration in microRNA dynamics accounts for differential nature of cellular proliferation Dola Sengupta|Vinodhini Govindaraj|Sandip Kar Indian Institute of Technology Bombay
http://dx.doi.org/10.1101/214288 2017-11-05 Bioinformatics CC BY-NC-ND TaxAss: Leveraging Custom Databases Achieves Fine-Scale Taxonomic Resolution Robin Rebecca Rohwer|Joshua J Hamilton|Ryan J Newton|Katherine D McMahon University of Wisconsin-Madison;|University of Wisconsin-Milwaukee
http://dx.doi.org/10.1101/213454 2017-11-05 Genomics HiMAP: robust Phylogenomics from Highly Multiplexed Amplicon sequencing Julian R Dupuis|Forest T Bremer|Angela Kauwe|Michael San Jose|Luc Leblanc|Daniel Rubinoff|Scott Geib University of Hawaii;|USDA-ARS;|University of Idaho
http://dx.doi.org/10.1101/214163 2017-11-05 Microbiology Receptor guanylyl cyclase C confers protection during oral Salmonella Typhimurium infection by attenuating ileal damage and enhancing cytokine and antimicrobial peptide production Shamik Majumdar|Vishwas Mishra|Somesh Nandi|Mudabir Abdullah|Anaxee Barman|Abinaya Raghavan|Dipankar Nandi|Sandhya S Visweswariah Indian Institute of Science
http://dx.doi.org/10.1101/214320 2017-11-05 Bioinformatics TCGA-Assembler 2: Software Pipeline for Retrieval and Processing of TCGA/CPTAC Data Lin Wei|Zhilin Jin|Shengjie Yang|Yanxun Xu|Yitan Zhu|Yuan Ji NorthShore University HealthSystem;|Johns Hopkins University
http://dx.doi.org/10.1101/214122 2017-11-05 Bioinformatics CC BY-NC-ND Boosting Gene Expression Clustering with System-Wide Biological Information: A Robust Autoencoder Approach Hongzhu Cui|Chong Zhou|Xinyu Dai|Yuting Liang|Randy Paffenroth|Dmitry Korkin Worcester Polytechnic Institute
http://dx.doi.org/10.1101/214379 2017-11-05 Bioinformatics CC BY-NC-ND TNER: A Novel Bayesian Background Error Suppression Method for Mutation Detection in Circulating Tumor DNA Shibing Deng|Maruja Lira|Donghui Huang|Kai Wang|Crystal Valdez|Jennifer Kinong|Paul A. Rejto|Jadwiga R. Bienkowska|James Hardwick|Tao Xie Pfizer
http://dx.doi.org/10.1101/214783 2017-11-06 CC BY-NC-ND The Distribution of Bacterial Doubling Times in the Wild Beth Gibson|Daniel Wilson|Edward Feil|Adam Eyre-Walker University of Sussex;|University of Oxford;|University of Bath
http://dx.doi.org/10.1101/214601 2017-11-06 CC BY-NC Quantitative methods to investigate the 4D dynamics of heterochromatic repair sites in Drosophila cells Christopher P Caridi|Laetitia Delabaere|Harianto Tjong|Hannah Hopp|Devika Das|Frank Alber|Irene Chiolo University of Southern California,;|University of Southern California
http://dx.doi.org/10.1101/214718 2017-11-06 Spatio-temporal elasticity patterns in extracellular matrix during Hydra morphogenesis Mariam Veschgini|Hendrik O Petersen|Wasim Abuillan|Fernanda F Rossetti|Suat Ozbek|Manfred Burghammer|Thomas W Holstein|Motomu Tanaka Heidelberg University;|European Synchrotron Radiation Facility
http://dx.doi.org/10.1101/214593 2017-11-06 Synthetic Biology CC BY-NC-ND Uncovering cell-free protein expression dynamics by a promoter library with diverse strengths Sabrina Galinanes Reyes|Yutetsu Kuruma|Soichiro Tsuda University of Glasgow;|Earth-Life Science Institute
http://dx.doi.org/10.1101/215541 2017-11-07 CC BY DHX36 binding at G-rich sites in mRNA untranslated regions promotes translation Markus Sauer|Stefan A. Juranek|Hinke G. Kazemier|Daniel Benhalevy|Xiantao Wang|Markus Hafner|Katrin Paeschke Universität Würzburg;|University Medical Center Groningen;|NIAMS, NIH
http://dx.doi.org/10.1101/215137 2017-11-07 Frontal eye field inactivation reduces saccade preparation in the superior colliculus, but does not alter how preparatory activity relates to saccade latency Suryadeep Dash|Tyler R. Peel|Stephen G. Lomber|Brian D. Corneil Western University;|University of Western Ontario
http://dx.doi.org/10.1101/215533 2017-11-07 Resolving outbreak dynamics using Approximate Bayesian Computation for stochastic birth-death models Jarno Lintusaari|Paul Blomstedt|Tuomas Sivula|Michael U. Gutmann|Samuel Kaski|Jukka Corander Aalto University;|University of Edinburgh;|University of Oslo
http://dx.doi.org/10.1101/215566 2017-11-07 Spin coated chitin films for biosensors and its analysis are depended on chitin-surface interactions Marco G. Casteleijn|Dominique Richardson|Petteri K. Parkkila|Niko Granqvist|Arto Urtti|Tapani Viitala University of Helsinki;|BioNavis Ltd;|University of Helsinki; University of Eastern Finland
http://dx.doi.org/10.1101/215020 2017-11-07 CC BY "A mosquito bites and a butterfly flies": a specific response type of frontal patients in a similarity task Beatrice Garcin|Emmanuelle Volle|Aurelie Funkiewiez|Bruce Miller|Bruno Dubois|Richard Levy Inst. du Cerveau et de la Moelle epiniere, UPMC UMRS 1127, Inserm U 1127, CNRS;|Memory and Aging Center, University of California, San Francisco
http://dx.doi.org/10.1101/214577 2017-11-07 Improving microbial electrosynthesis of polyhydroxybutyrate (PHB) from CO2 by Rhodopseudomonas palustris TIE-1 using an immobilized iron complex modified cathode Karthikeyan Rengasamy|Tahina Onina Ranaivoarisoa|Rajesh Singh|Arpita Bose Washington University in St. Louis
http://dx.doi.org/10.1101/213884 2017-11-07 CC BY Bioinformatics Workflow Management With The Wobidisco Ecosystem Sebastien Mondet|Bulent Arman Aksoy|Leonid Rozenberg|Isaac Hodes|Jeffrey Hammerbacher Icahn School of Medicine at Mount Sinai;|Medical University of South Carolina;|Icahn School of Medicine at Mount Sinai; Medical University of South Carolina
http://dx.doi.org/10.1101/215228 2017-11-07 Calcimycocavitological Studies on Seashells from Beaches of North Goa, India Sujata Dabolkar|Nandkumar Kamat Goa University, Taleigao, Goa, India
http://dx.doi.org/10.1101/215129 2017-11-07 Predicting personality traits from resting-state fMRI Julien Dubois|Paola Galdi|Yanting Han|Lynn K. Paul|Ralph Adolphs Cedars-Sinai Medical Center;|University of Salerno;|California Institute of Technology
http://dx.doi.org/10.1101/215327 2017-11-07 Bioinformatics CC BY-NC Predicting Cancer Drug Response Using a Recommender System Chayaporn Suphavilai|Denis Bertrand|Niranjan Nagarajan Department of Computer Science, National University of Singapore;|Computational and Systems Biology, Genome Institute of Singapore
http://dx.doi.org/10.1101/215152 2017-11-07 Neuroscience CC BY-NC-ND Multifactorial Dynamics of White Matter Connectivity During Adolescence Birkan Tunc|Drew Parker|Russell T. Shinohara|Mark A. Elliott|Kosha Ruparel|Raquel E. Gur|Ruben C. Gur|Ragini Verma University of Pennsylvania
http://dx.doi.org/10.1101/214916 2017-11-07 Bioinformatics ReprDB and panDB: minimalist databases with maximal microbial representation Wei Zhou|Nicole Gay|Julia Oh The Jackson Laboratory for Genomic Medicine;|Stanford University;|The Jackson Laboratory
http://dx.doi.org/10.1101/214965 2017-11-07 Neuroscience CC BY Anterior temporal lobe morphometry predicts categorization ability Beatrice Garcin|Marika Urbanski|Michel Thiebaut de Schotten|Richard Levy|Emmanuelle Volle Inst. du Cerveau et de la Moelle epiniere, UPMC UMRS 1127, Inserm U 1127, CNRS
http://dx.doi.org/10.1101/215558 2017-11-07 Neuroscience Chronic silencing of corticothalamic layer 6 pyramidal cells affects cortical excitability and tactile behavior Desire Humanes-Valera|Jordi Aguila|Veronika Gondzik|Karen Moxon|Martin K. Schwarz|Patrik Krieger Ruhr-University Bochum;|German Primate Center;|Drexel University;|University of Bonn Medical Center
http://dx.doi.org/10.1101/215160 2017-11-07 Evolutionary Biology The Function of the COPII Gene Paralogs SEC23A and SEC23B Are Interchangeable In Vivo Rami Khoriaty|Geoffrey Hesketh|Amelie Bernard|Angela C. Weyand|Dattatreya Mellacheruvu|Guojing Zhu|Mark J. Hoenerhoff|Beth McGee|Lesley Everett|Elizabeth J. Adams|Bin Zhang|Thomas Saunders|Alexey Nesvizhskii|Daniel J. Klionsky|Jordan A. Shavit|Anne-Claude Gingras|David Ginsburg Department of Internal Medicine, University of Michigan, Ann Arbor;|Lunenfeld-Tanenbaum Research Institute, Sinai Health System, Toronto, Canada;|Life Sciences Institute, University of Michigan, Ann Arbor, Michigan, USA;|Dept. of Pediatrics & Communicable Diseases, University of Michigan, Ann Arbor;|Dept. of Computational Medicine & Bioinformatics, Univ. of Michigan, Ann Arbor;|In Vivo Animal Core, Unit for Laboratory Animal Medicine, Univ. of Michigan;|Genomic Medicine Inst., Cleveland Clinic Lerner Research Inst., Cleveland, Ohio;|Transgenic Animal Model Core, University of Michigan, Ann Arbor, Michigan, USA;|Dept. of Pediatrics & Communicable Diseases, Univ. of Michigan, Ann Arbor;|Howard Hughes Medical Institute, University of Michigan, Ann Arbor
http://dx.doi.org/10.1101/214924 2017-11-07 Ecology CC BY-NC Cobwebbing in the city: urbanization-driven shifts in body-size dependent behaviours are decoupled from body size in an orb-web spider Maxime Dahirel|Maarten De Cock|Dries Bonte University of Rennes 1;|Ghent University
http://dx.doi.org/10.1101/214882 2017-11-07 Evolutionary Biology CC BY-NC-ND Meiosis leads to pervasive segregation distortion and copy-number variation in accessory chromosomes of the wheat pathogen Zymoseptoria tritici Simone Fouche|Clemence Plissonneau|Bruce A. McDonald|Daniel Croll ETH Zurich;|University of Neuchatel
http://dx.doi.org/10.1101/214775 2017-11-07 Genetics CC BY-NC-ND Non-invasive measurement of mRNA decay reveals translation initiation as the major determinant of mRNA stability Leon Y. Chan|Christopher F. Mugler|Stephanie Heinrich|Pascal Vallotton|Karsten Weis University of California, Berkeley;|ETH Zurich
http://dx.doi.org/10.1101/215061 2017-11-07 Biophysics New Cell Fate Potentials and Switching Kinetics Uncovered in a Classic Bistable Genetic Switch Xiaona Fang|Qiong Liu|Christopher Bohrer|Zach Hensel|Wei Han|Jin Wang|Jie Xiao Changchun Institute of Applied Chemistry, Changchun, China.;|Johns Hopkins School of Medicine, Baltimore, Maryland, USA.;|Universidade Nova de Lisboa, Av. da Republica, 2780-157 Oeiras, Portugal.;|College of Physics, Jilin University, Changchun, China.;|Department of Chemistry and Physics, Stony Brook University, Stony Brook, New York, USA.
http://dx.doi.org/10.1101/215590 2017-11-07 Plant Biology A bacterial GW-effector targets Arabidopsis AGO1 to promote pathogenicity and induces Effector-triggered immunity by disrupting AGO1 homeostasis Odon Thiebeauld|Magali Charvin|Meenu Singla Rastogi|Fan Yang|Dominique Pontier|Cecile Pouzet|Laure Bapaume|Guangyong Li|Laurent Deslandes|Thierry Lagrange|James R. Alfano|Lionel Navarro Institut de Biologie de l'Ecole Normale Superieure (IBENS), CNRS, INSERM;|Department of Plant Pathology, University of Nebraska;|Laboratoire Genome et Developpement des Plantes, CNRS; Universite de Perpignan;|Plateforme Imagerie-Microscopie, Federation de Recherche FR3450, CNRS;|LIPM, Universite de Toulouse, INRA, CNRS
http://dx.doi.org/10.1101/215418 2017-11-07 Plant Biology CC BY The evolutionary history of the current global Ramularia collo-cygni epidemic Remco Stam|Hind Sghyer|Martin Munsterkotter|Saurabh Pophaly|Aurelien Tellier|Ulrich Guldener|Ralph Huckelhoven|Michael He Chair of Phytopathology, Technical University of Munich, Germany;|Functional Genomics and Bioinformatics, University of Sopron, Hungary;|Section of Population Genetics, Technical University of Munich, Germany;|Chair of Genome-oriented Bioinformatics, Technical University Munich, Germany;|Chair of Phytopathology, Technical University of Munich
http://dx.doi.org/10.1101/215400 2017-11-07 Neuroscience CC BY-NC-ND The Long and the Short of Serotonergic Stimulation: Optogenetic activation of dorsal raphe serotonergic neurons changes the learning rate for rewards Kiyohito Iigaya|Madalena S Fonseca|Masayoshi Murakami|Zachary F Mainen|Peter Dayan University College London;|Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/215293 2017-11-07 Neuroscience CC BY-NC-ND Regulation of Eag by calcium/calmodulin controls presynaptic excitability in Drosophila Peter Bronk|Elena A. Kuklin|Chang Liu|Timothy D. Wiggin|Srinivas Gorur-Shandilya|Eve Marder|Leslie C. Griffith Brandeis University
http://dx.doi.org/10.1101/215467 2017-11-07 Genomics Paternal grandparental exposure to crop failure or surfeit during a childhood slow growth period and epigenetic marks on third generational growth-, glucoregulatory and stress genes Lars Olov Bygren|Patrick Muller|David Brodin|Gunnar Kaati|John G. Kral Department of Biosciences and Nutrition, Karolinska Institutet, SE_14183 Huddinge;|SUNY Downstate Medical Center, 450 Clarkson Avenue, Box 40, Brooklyn, NY
http://dx.doi.org/10.1101/215335 2017-11-07 Plant Biology Split personality of Aluminum Activated Malate Transporter family proteins: facilitation of both GABA and malate transport Sunita A Ramesh|Muhammad Kamran|Wendy Sullivan|Larissa Chirkova|Mamoru Okamoto|Fien Degryse|Michael McLaughlin|Matthew Gilliham|Stephen D Tyerman The University of Adelaide;|The Univerity of Adelaide
http://dx.doi.org/10.1101/215368 2017-11-07 Biochemistry CC BY-NC-ND Inferring amino acid interactions underlying protein function Victor H. Salinas|Rama Ranganathan UT Southwestern Medical Center
http://dx.doi.org/10.1101/215376 2017-11-07 Cell Biology CC BY-NC-ND Stoichiometry and compositional plasticity of the yeast nuclear pore complex revealed by quantitative fluorescence microscopy Sasikumar Rajoo|Pascal Vallotton|Evgeny Onischenko|Karsten Weis ETH Zurich
http://dx.doi.org/10.1101/215442 2017-11-07 Molecular Biology JQ1 affects BRD2-dependent and independent transcription regulation without disrupting H4-hyperacetylated chromatin states Lusy Handoko|Bogumil Kaczkowski|Chung-Chau Hon|Marina Lizio|Masatoshi Wakamori|Takayoshi Matsuda|Takuhiro Ito|Prashanti Jeyamohan|Yuko Sato|Kensaku Sakamoto|Shigeyuki Yokoyama|Hiroshi Kimura|Aki Minoda|Takashi Umehara RIKEN Center for Life Science Technologies, Division of Genomic Technologies;|RIKEN Center for Life Science Technologies, Division of Structural and Synthetic Biology;|Cell Biology Center, Institute of Innovative Research, Tokyo Institute of Technology;|RIKEN Structural Biology Laboratory
http://dx.doi.org/10.1101/215301 2017-11-07 Genetics Loss of function, missense, and intronic variants in NOTCH1 confer different risks for left ventricular outflow tract obstructive heart defects in two European cohorts Emmi Helle|Aldo Cordova-Palomera|Tiina Ojala|Priyanka Saha|Praneetha Potiny|Stefan Gustafsson|Erik Ingelsson|Michael Bamshad|Deborah Nickerson|Jessica X. Chong|Euan Ashley|James R. Priest University of Helsinki; Stanford University;|Stanford University;|University of Helsinki;|Uppsala University;|Uppsala University; Stanford University;|University of Washington; Seattle Children's Hospital;|University of Washington;|-
http://dx.doi.org/10.1101/215202 2017-11-06 Evolutionary Biology CC BY-NC-ND Protection from epidemics is a driving force for evolution of lifespan setpoints Peter V. Lidsky|Raul Andino UCSF
http://dx.doi.org/10.1101/214981 2017-11-06 Immunology CC BY-NC-ND PIK3IP1/TrIP restricts activation of T cells through inhibition of PI3K/Akt Uzodinma Uche|Andrea L. Szymczak-Workman|Stephanie Grebinoski|Ann Piccirillo|Louise M. D'Cruz|Lawrence P. Kane University of Pittsburgh
http://dx.doi.org/10.1101/214858 2017-11-06 Bioinformatics CC BY-ND Arteria: An automation system for a sequencing core facility Johan Dahlberg|Johan Hermansson|Steinar Sturlaugsson|Pontus Larsson Dept. of Medical Sciences, Molecular Medicine and SciLifeLab Uppsala University, Uppsala, Sweden
http://dx.doi.org/10.1101/215244 2017-11-06 Bioinformatics CC BY-ND DriverPower: Combined burden and functional impact tests for cancer driver discovery Shimin Shuai|Steven Gallinger|Lincoln D. Stein University of Toronto;|Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital, Toronto, Canada;|Ontario Institute for Cancer Research;|-
http://dx.doi.org/10.1101/215277 2017-11-06 Evolutionary Biology CC BY-NC-ND Correlated selection on amino acid deletion and replacement in mammalian protein sequences Yichen Zheng|Dan Graur|Ricardo B. R. Azevedo University of Cologne;|University of Houston
http://dx.doi.org/10.1101/215111 2017-11-06 Microbiology CC BY-NC Isolation of a natural DNA virus of Drosophila melanogaster, and characterisation of host resistance and immune responses William H. Palmer|Nathan Medd|Philippa M. Beard|Darren J. Obbard University of Edinburgh;|The Pirbright Institute
http://dx.doi.org/10.1101/214932 2017-11-06 Cancer Biology Transcriptional Changes of DNA Replication and Repair Factors Over Uveal Melanoma Subtypes Melanie H. Kucherlapati Harvard Medical School
http://dx.doi.org/10.1101/214668 2017-11-06 Genetics CC BY Population Differentiation at the HLA Genes Debora Y. C. Brandt|Jonatas Cesar|Jerome Goudet|Diogo Meyer University of California, Berkeley;|Universidade de Sao Paulo;|University of Lausanne
http://dx.doi.org/10.1101/214205 2017-11-06 Genetics CC BY Diallel analysis reveals Mx1-dependent and Mx1-independent effects on response to influenza A virus in mice Paul L Maurizio|Martin T Ferris|Gregory R Keele|Darla R Miller|Ginger D Shaw|Alan C Whitmore|Ande West|Clayton R Morrison|Kelsey E Noll|Kenneth S Plante|Adam S Cockrell|David W Threadgill|Fernando Pardo-Manuel de Villena|Ralph S Baric|Mark T Heise|William Valdar University of North Carolina at Chapel Hill;|Texas A&M University
http://dx.doi.org/10.1101/215210 2017-11-06 Bioinformatics CC BY-NC-ND Whole genome analysis reveals pathogenic potential of multi-drug resistant wastewater Escherichia coli Norhan Mahfouz|Serena Caucci|Eric Achatz|Torsten Semmler|Sebastian Guenther|Thomas Berendonk|Michael Schroeder BIOTEC - TU Dresden;|Inst. for Integrated Management of Material Fluxes & of Resources (UNU-FLORES);|Robert Koch Institute - Frei Universitat Berlin;|Institute for Hydrobiology - Tu Dresden
http://dx.doi.org/10.1101/215186 2017-11-06 Systems Biology CC BY-NC-ND Promoter activity buffering reduces the fitness cost of misregulation. Miquel Angel Schikora-Tamarit|Guillem Lopez-Grado i Salinas|Carolina Gonzalez Navasa|Irene Calderon|Miquel Sas|Lucas Carey Dept. of Experimental & Health Sciences, Universitat Pompeu Fabra, Barcelona
http://dx.doi.org/10.1101/214940 2017-11-06 Systems Biology CC BY-NC-ND Network modelling unravels mechanisms of crosstalk between ethylene and salicylate signalling in potato Ziva Ramsak|Anna Coll|Tjasa Stare|Oren Tzfadia|Spela Baebler|Yves Van de Peer|Kristina Gruden National Inst. of Biology, Dept. of Biotechnology & Systems Biology, Slovenia;|VIB Ctr. for Plant Systems Biology; Dept. of Plant Biotechnol. & Bioinform., Belgium
http://dx.doi.org/10.1101/214528 2017-11-06 Neuroscience CC BY On the difficulty to interpret results when animals are singly housed: experimental epilepsy as a prototypical example Houria Manouze|Antoine Ghestem|Victoria Poillerat|Mohamed Bennis|Saadia Ba-M'hamed|Jean-Jacques Benoliel|Christel Becker|Christophe Bernard Cadi Ayyad University;|Aix-Marseille Université, Marseille;|UPMC
http://dx.doi.org/10.1101/215012 2017-11-06 Synthetic Biology Toward a Genome Scale Sequence Specific Dynamic Model of Cell-Free Protein Synthesis in Escherichia coli Nicholas Horvath|Michael Vilkhovoy|Joseph A. Wayman|Kara Calhoun|James Swartz|Jeffrey Varner Cornell University;|Stanford University
http://dx.doi.org/10.1101/214957 2017-11-06 Developmental Biology Minimum requirements for reprogramming and maintaining cell fate in the Arabidopsis root Colleen Drapek|Erin E. Sparks|Peter Marhavy|Tonni G. Andersen|Jessica H. Hennacy|Niko Geldner|Philip N. Benfey Duke University;|University of Delaware;|University of Lausanne;|Princeton University
http://dx.doi.org/10.1101/215079 2017-11-06 Developmental Biology PI(4,5)P2 forms dynamic cortical structures and directs actin distribution and cell polarity in C. elegans embryos Melina J. Scholze|Kevin S. Barbieux|Alessandro De Simone|Mathilde Boumasmoud|Camille C. N. Suess|Ruijia Wang|Pierre Gonczy Swiss Inst. for Experimental Cancer Research, Swiss Federal Inst. of Technology;|Swiss Federal Institute of Technology, Environmental Engineering Institute;|Department of Cell Biology, Duke University Medical Center, Durham 27710 USA;|Div. of Infectious Diseases & Hospital Epidemiology, University Hospital Zurich
http://dx.doi.org/10.1101/212126 2017-11-06 Bioinformatics CC BY-NC Exploring biological networks in 3D, stereoscopic 3D and immersive 3D with iCAVE Selim Kalayci|Zeynep H. Gumus Icahn School of Medicine at Mount Sinai;|Icahn Inst. for Genomics & Multiscale Biology, Icahn School of Medicine at Mt. Sinai
http://dx.doi.org/10.1101/214841 2017-11-06 Genomics CC BY-NC Genome-Wide Identification of Early-Firing Human Replication Origins by Optical Replication Mapping Kyle Klein|Weitao Wang|Tyler Borrman|Saki Chan|Denghong Zhang|Zhiping Weng|Alex Hastie|Chunlong Chen|David M. Gilbert|Nicholas Rhind Florida State University, Department of Biological Science, Tallahassee, FL USA;|Institut Curie, PSL Research University, CNRS, UMR3244, Paris, France;|Univ. of Massachusetts Medical School, Dept. of Biochem. & Molecular Pharmacol.;|Bionano Genomics, San Diego, CA USA;|Univ. of Massachusetts Medical School
http://dx.doi.org/10.1101/214791 2017-11-06 Cancer Biology Evolutionary dynamics and molecular features of intra-tumor heterogeneity Franck Raynaud|Marco Mina|Giovanni Ciriello Lausanne University
http://dx.doi.org/10.1101/214544 2017-11-06 Ecology CC BY-NC-ND Butterflyfishes as a System for Investigating Pair Bonding Jessica Nowicki|Lauren O'Connell|Peter Cowman|Stefan Walker|Darren Coker|Morgan Pratchett Stanford;|ARC Centre of Excellence for Coral Reef Studies, James Cook University;|King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/214700 2017-11-06 Genetics A common allele in FGF21 associated with preference for sugar consumption lowers body fat in the lower body and increases blood pressure Timothy M Frayling|Robin Beaumont|Samuel E Jones|Hanieh Yaghootkar|Marcus A Tuke|Katherine S Ruth|Francesco Casanova|Ben West|Jonathan Locke|Seth Sharp|Yinjie Jie|William D Thompson|Jamie W Harrison|Cecilia M Lindgren|Niels Grarup|Anna Murray|Rachel M Freathy|Michael N Weedon|Jessica Tyrrell|Andrew R Wood University of Exeter;|University of Oxford;|University of Copenhagen
http://dx.doi.org/10.1101/214361 2017-11-06 Genomics CC BY Removing unwanted variation between samples in Hi-C experiments Kipper Fletez-Brant|Yunjiang Qiu|David U Gorkin|Ming Hu|Kasper D Hansen Johns Hopkins University;|UCSD;|Cleveland Clinic
http://dx.doi.org/10.1101/214510 2017-11-06 Ecology CC BY-NC Mitochondrial genomes of the regionally extinct Nittany Lion (Puma concolor from Pennsylvania) Maya N. Evanitsky|Richard J. George|Stephen Johnson|Stephanie Dowell|George H. Perry Penn State University;|U.S. Fish and Wildlife Service
http://dx.doi.org/10.1101/214650 2017-11-06 Neuroscience Temporal coupling of field potentials and action potentials in the neocortex Brendon O Watson|Mingxin Ding|Gyorgy Buzsaki University of Michigan;|New York University
http://dx.doi.org/10.1101/214809 2017-11-06 Neuroscience Multivariate pattern analysis of fMRI data for imaginary and real colours in grapheme-colour synaesthesia Mathieu J. Ruiz|Michel Dojat|Jean-Michel Hupe University Grenoble Alpes, INSERM & CHU Grenoble Alpes;|University of Toulouse Paul Sabatier & CNRS
http://dx.doi.org/10.1101/214551 2017-11-06 Microbiology Towards sustainable bioplastic production in resource limited environments using the photoferroautotrophic and photoelectroautotrophic bacterium Rhodopseudomonas palustris TIE-1 Tahina Onina Ranaivoarisoa|Karthikeyan Rengasamy|Michael Singh Guzman|Rajesh Singh|Arpita Bose Washington University in St. Louis
http://dx.doi.org/10.1101/214155 2017-11-06 Cancer Biology CC BY-NC-ND Combined Androgen Administration and HDAC Inhibition in Experimental Cancer Cachexia Yu-Chou Tseng|Sophia G. Liva|Anees M. Dauki|Sally E. Henderson|Yi-Chiu Kuo|Jason A. Benedict|Samuel K. Kulp|Tanois Bekaii-Saab|Ching-Shih Chen|Christopher C. Coss College of Pharmacy, The Ohio State University;|Center for Biostatistics, The Ohio State University;|Mayo Clinic Cancer Center, Phoenix, AZ
http://dx.doi.org/10.1101/214536 2017-11-06 Genomics CC BY The kinetoplastid-infecting Bodo saltans virus (BsV), a window into the most abundant giant viruses in the sea Christoph M. Deeg|Cheryl-Emiliane T. Chow|Curtis A. Suttle University of British Columbia;|University of British Coulmbia
http://dx.doi.org/10.1101/214825 2017-11-06 Immunology CC BY-NC-ND A Polymorphic Residue That Attenuates Interferon Lambda 4 Activity in Hominid Lineages Connor G. G. Bamford|Elihu Aranday-Cortes|Ines Cordeiro Filipe|Swathi Sukumar|Daniel Mair|Ana da Silva Filipe|Juan L. Mendoza|K. Christopher Garcia|Shaohua Fan|Sarah A. Tishkoff|John McLauchlan MRC-University of Glasgow Centre for Virus Research, Glasgow G61 1QH, UK;|HHMI, Dept. of Molec. & Cell. Physiol. and Dept. of Structural Biol., Stanford Univ.;|Depts. of Genetics & Biology, University of Pennsylvania, Philadelphia;|Depts. of Genetics and Biology, University of Pennsylvania, Philadelphia
http://dx.doi.org/10.1101/214213 2017-11-06 Bioinformatics Comprehensive analysis of mobile genetic elements in the gut microbiome reveals a phylum-level niche-adaptive gene pool Xiaofang Jiang|Andrew Brantley Hall|Ramnik J Xavier|Eric J Alm MIT;|Broad Institute of MIT and Harvard;|massachusetts general hospital;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/214759 2017-11-06 Neuroscience CC BY-NC-ND Neurobiology of pair bonding in fishes; convergence of neural mechanisms across distant vertebrate lineages Jessica Nowicki|Morgan Pratchett|Stefan Walker|Darren Coker|Lauren A. O'Connell Stanford;|ARC Centre of Excellence for Coral Reef Studies, James Cook University;|King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/214833 2017-11-06 Bioinformatics CC BY-NC Integrated molecular and clinical analysis for understanding human disease relationships Winston Haynes|Rohit Vashisht|Francesco Vallania|Charles Liu|Gregory L. Gaskin|Erika Bongen|Shane Lofgren|Timothy E. Sweeney|Paul J. Utz|Nigam H. Shah|Purvesh Khatri Stanford University
http://dx.doi.org/10.1101/214635 2017-11-06 Evolutionary Biology Early-exposure to new sex pheromone blend alters mate preference in female butterflies and in their offspring Emilie Dion|Li Xian Pui|Antonia Monteiro National University of Singapore
http://dx.doi.org/10.1101/214627 2017-11-06 Ecology CC BY-NC-ND Pair bond endurance promotes cooperative food defense and inhibits conflict in coral reef butterflyfishes Jessica P Nowicki|Stefan Walker|Darren Coker|Andrew Hoey|Katia Nicolet|Morgan Pratchett Stanford;|ARC Centre of Excellence for Coral Reef Studies, James Cook University;|King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/214866 2017-11-06 Evolutionary Biology CC BY-NC-ND Competitive ability of a tetraploid selfing species (Capsella bursa-pastoris) across its expansion range and comparison with its sister species Xuyue Yang|Martin Lascoux|Sylvain Glemin Dept. of Ecology, Environment & Plant Sciences, Stockholm University, Sweden;|Dept. of Ecology & Genetics, Evol. Biol. Ctr. & Science for Life Lab., Uppsala Univ.;|ISEM, Universite de Montpellier, CNRS, IRD, EPHE, Montpellier, France
http://dx.doi.org/10.1101/214767 2017-11-06 Bioinformatics CC BY-NC-ND Quetzal - an open source C++ template library for coalescence-based environmental demogenetic models inference Arnaud Becheler|Camille Coron|Stephane Dupas Lab. Evolution, Genomes, Comportement et Ecologie, CNRS; Univ. Paris Sud;|Lab. de Mathematiques d'Orsay, Univ. Paris-Sud, CNRS, Univ. Paris-Saclay
http://dx.doi.org/10.1101/214254 2017-11-06 Bioinformatics CC BY-NC-ND Deep learning accurately predicts estrogen receptor status in breast cancer metabolomics data Fadhl Alkawaa|Kumardeep Chaudhary|Lana Garmire University of Hawaii-Cancer Center
http://dx.doi.org/10.1101/214569 2017-11-06 Neuroscience Synchronous inhibitory pathways create both efficiency and diversity in the retina Mihai Manu|Lane T McIntosh|David B Kastner|Benjamin N Naecker|Stephen A Baccus Stanford University Department of Neurobiology;|Stanford University
http://dx.doi.org/10.1101/214619 2017-11-06 Developmental Biology Multidimensional quantitative analysis of mRNA expression within intact vertebrate embryos Vikas Trivedi|Harry M. T. Choi|Scott E. Fraser|Niles A. Pierce California Institute of Technology; Univ. of Southern California; Univ. of Cambridge;|California Institute of Technology;|University of Southern California;|California Institute of Technology; University of Oxford
http://dx.doi.org/10.1101/214643 2017-11-06 Bioinformatics Identification of residue pairing in interacting β-strands from a predicted residue contact map Wenzhi Mao|Tong Wang|Wenxuan Zhang|Haipeng Gong MOE key laboratory of bioinformatics, School of Life Sciences, Tsinghua University, Beijing, China
http://dx.doi.org/10.1101/215897 2017-11-07 CC BY-NC-ND Needle in a haystack? A comparison of eDNA metabarcoding and targeted qPCR for detection of great crested newt (Triturus cristatus) Lynsey R. Harper|Lori Lawson Handley|Christoph Hahn|Neil Boonham|Helen C. Rees|Kevin C. Gough|Erin Lewis|Ian P. Adams|Peter Brotherton|Susanna Phillips|Bernd Haenfling School of Environmental Sciences, University of Hull, Hull, HU6 7RX, UK;|Institute of Zoology, University of Graz, Graz, Styria, Austria;|Fera, Sand Hutton, York, YO14 1LZ, UK;|ADAS, The University of Nottingham, Leicestershire, LE12 5RD, UK;|School of Veterinary Medicine & Science, Univ. of Nottingham, Leicestershire, UK;|Natural England, Peterborough, PE1 1NG, UK
http://dx.doi.org/10.1101/213561 2017-11-07 CC BY-NC-ND Metagenomics for chronic meningitis: clarifying interpretation and diagnosis Michael R. Wilson|Brian D. O'Donovan|Jeffrey M. Gelfand|Hannah A. Sample|Felicia C. Chow|John P. Betjemann|Maulik P. Shah|Megan B. Richie|Mark P. Gorman|Rula A. Hajj-Ali|Leonard H. Calabrese|Kelsey C. Zorn|John E. Greenlee|Jonathan H. Blum|Gary Green|Lillian M. Khan|Debarko Banerji|Charles Langelier|Chloe Bryson-Cahn|Whitney Harrington|Jairam R. Lingappa|Niraj M. Shanbhag|Ari J. Green|Bruce J. Brew|Ariane Soldatos|Luke Strnad|Sarah B. Doernberg|Cheryl A. Jay|Vanja Douglas|S. Andrew Josephson|Joseph L. DeRisi UCSF;|Boston Children's Hospital;|Cleveland Clinic;|University of Utah;|Kaiser Permanente;|University of Washington;|Seattle Children's Hospital;|University of New South Wales;|NIH;|Oregon Health Sciences University
http://dx.doi.org/10.1101/215806 2017-11-07 The medial temporal lobe organizes memory across time and space: Causal evidence from brain stimulation Abhinav Goyal|Jonathan Miller|Andrew J Watrous|Sang Ah Lee|Tom Coffey|Michael Sperling|Ashwini Sharan|Gregory Worrell|Berry Brent|Bradley Lega|Barbara C Jobst|Kathryn Davis|Robert Gross|Sameer Sheth|Youssef Ezzyat|Sandhitsu Das|Joel Stein|Richard Gorniak|Mike Kahana|Dan Rizzuto|Joshua Jacobs Columbia University;|Korea Advanced Institute of Science and Technology;|Drexel University;|Thomas Jefferson University;|Mayo Clinic;|University of Texas Southwestern;|Geisel School of Medicine at Dartmouth;|University of Pennsylvania;|Emory University
http://dx.doi.org/10.1101/215632 2017-11-07 CC BY-NC-ND Mannan molecular sub-structures control nanoscale glucan exposure in Candida Matthew S Graus|Michael J Wester|Douglas W Lowman|David L Williams|Michael D Kruppa|Jesse M Young|Harry C Pappas|Keith A Lidke|Aaron Neumann Department of Pathology, University of New Mexico, Albuquerque, NM 87131;|Department of Mathematics and Statistics, University of New Mexico, Albuquerque, NM 87131;|AppRidge International, LLC, Telford, TN 37690;|Quillen College of Medicine, East Tennessee State University, Johnson City, TN 37684;|Department of Physics and Astronomy, University of New Mexico, Albuquerque, NM 87131
http://dx.doi.org/10.1101/215731 2017-11-07 CC BY-NC Acute memory deficits in chemotherapy-treated adults Oana C. Lindner|Andrew Mayes|Martin G. McCabe|Deborah Talmi University of Manchester
http://dx.doi.org/10.1101/215715 2017-11-07 Building a schizophrenia genetic network: Evidence that Transcription Factor 4 regulates schizophrenia risk genes. Hanzhang Xia|Fay M Jahr|Nak-Kyeong Kim|Linying Xie|Andrey A Shabalin|Julien Bryois|Douglas H Sweet|Mohamad M Kronfol|Preetha Palasuberniam|MaryPeace McRae|Brien P Riley|Patrick F Sullivan|Edwin J van den Oord|Joseph McClay Virginia Commonwealth University;|University of Utah;|Karolinska Intitutet;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/215053 2017-11-07 CC BY-ND Addressing the reliability fallacy: Similar group effects may arise from unreliable individual effects Juliane H. Frohner|Vanessa Teckentrup|Michael N. Smolka|Nils B. Kroemer Dept. of Psychiatry & Psychotherapy, Technische Universität Dresden;|Dept. of General Psychiatry & Psychotherapy, University of Tübingen
http://dx.doi.org/10.1101/215699 2017-11-07 Prefrontal cortex regulates amygdala response to threat in trait anxiety Maria Ironside|Michael Browning|Tahereh Ansari|Christopher Harvey|Mama Sekyi-Djan|Sonia Bishop|Catherine Harmer|Jacinta O'Shea McLean hospital/ Harvard Medical School;|University of Oxford;|University of Oxford/ University of California, Berkeley
http://dx.doi.org/10.1101/215681 2017-11-07 Identification of stable reference genes for quantitative PCR in koalas Nishat Sarker|Jessica Fabijan|Richard D Emes|Farhid Hemmatzadeh|Joanne Meers|Joanna Moreton|Helen Owen|Jenny M Seddon|Greg Simmons|Natasha Speight|Darren Trott|Lucy Woolford|Rachael Tarlinton University of Queensland;|University of Adelaide;|University of Nottingham
http://dx.doi.org/10.1101/215772 2017-11-07 CC BY-NC A common framework for the problem of deriving estimates of dynamic functional brain connectivity. William Hedley Thompson|Peter Fransson Karolinska Institutet
http://dx.doi.org/10.1101/215905 2017-11-07 Postural sway during single-legged standing is dependent on the body position assumption strategy and supports the stability and mobility trade-off hypothesis Bogdan Bacik|Grzegorz Sobota|Artur Fredyk|Kajetan J. Somka|Grzegorz Juras The Jerzy Kukuczka Academy of Physical Education in Katowice
http://dx.doi.org/10.1101/215863 2017-11-07 Identifying the phenotypic effect of rare variants by including between-pedigree coancestry in variance components linkage analysis James E Hicks|Michael A Province Washington University in Saint Louis
http://dx.doi.org/10.1101/215723 2017-11-07 CC BY-NC-ND SAFE-clustering: Single-cell Aggregated (From Ensemble) Clustering for Single-cell RNA-seq Data Yuchen Yang|Ruth Huh|Houston W. Culpepper|Michael I. Love|Yun Li University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/215756 2017-11-07 CC BY-NC-ND Biomarker identification for statin sensitivity of cancer cell lines Vineet Raghu|Colin Beckwitt|Katsuhiko Warita|Alan Wells|Panayiotis Benos|Zoltan Oltvai University of Pittsburgh;|Tottori University
http://dx.doi.org/10.1101/215913 2017-11-07 CC BY-NC-ND Control of Genetic Parasites Mediated Through Nucleoporin Evolution Paul A. Rowley|Kurt Patterson|Suzanne B. Sandmeyer|Sara L. Sawyer The University of Idaho;|University of California, Irvine;|Colorado University, Boulder
http://dx.doi.org/10.1101/214874 2017-11-07 CC BY-NC-ND Modeling Spatial Genomic Interactions with the Hawkes model Anna Bonnet|Vincent Rivoirard|Franck Picard Universite Lyon 1;|Universite Paris Dauphine
http://dx.doi.org/10.1101/215855 2017-11-07 CC BY A practical tool for Maximal Information Coefficient analysis Davide Albanese|Samantha Riccadonna|Claudio Donati|Pietro Franceschi Fondazione Edmund Mach
http://dx.doi.org/10.1101/215764 2017-11-07 Dose-dependent spatiotemporal responses of mammalian cells to an alkylating agent Ann Rancourt|Sachiko Sato|Masahiko S. Satoh Laval University;|Laval University, Faculty of Medicine
http://dx.doi.org/10.1101/211680 2017-11-07 CC BY-NC-ND Therapeutically advantageous secondary targets of abemaciclib identified by multi-omics profiling of CDK4/6 inhibitors Marc Hafner|Caitlin E. Mills|Kartik Subramanian|Chen Chen|Mirra Chung|Sarah A. Boswell|Robert A. Everley|Charlotte S. Walmsley|Dejan Juric|Peter Sorger Harvard Medical School;|Massachusetts General Hospital Cancer Center;|Harvard University
http://dx.doi.org/10.1101/215814 2017-11-07 CC BY PKD2 is an essential ion channel subunit in the primary cilium of the renal collecting duct epithelium Xiaowen Liu|Thuy Vien|Jingjing Duan|Shu-Hsien Sheu|Paul G. DeCaen|David E. Clapham Howard Hughes Medical Institute, Boston Children's Hospital;|Northwestern University
http://dx.doi.org/10.1101/215707 2017-11-07 Bioinformatics CC BY-NC Accurate Reconstruction of Microbial Strains Using Representative Reference Genomes Zhemin Zhou|Nina Luhmann|Nabil-Fareed Alikhan|Christopher Quince|Mark Achtman University of Warwick
http://dx.doi.org/10.1101/215475 2017-11-07 Ecology CC BY-ND Limited evidence for proactive and reactive spatial responses of prey to an active predator Jeremy Cusack|Michel T. Kohl|Matthew C. Metz|Tim Coulson|Daniel R. Stahler|Douglas W. Smith|Daniel R. MacNulty University of Stirling;|Utah State University;|University of Montana;|University of Oxford;|National Park Service
http://dx.doi.org/10.1101/215624 2017-11-07 Cell Biology Centromeric DNA destabilizes H3 nucleosomes to promote CENP-A deposition during the cell cycle Manu Shukla|Pin Tong|Sharon A. White|Puneet P. Singh|Angus M. Reid|Sandra Catania|Alison L. Pidoux|Robin C. Allshire Wellcome Centre for Cell Biology & Institute of Cell Biology, The Univ. of Edinburgh;|MRC Human Genetics Unit, The University of Edinburgh;|Dept. of Biochemistry and Biophysics, University of California
http://dx.doi.org/10.1101/215608 2017-11-07 Evolutionary Biology CC BY-NC-ND Widespread ancient whole genome duplications in Malpighiales coincide with Eocene global climatic upheaval Liming Cai|Zhenxiang Xi|Andre M. Amorim|M. Sugumaran|Joshua S. Rest|Liang Liu|Charles C. Davis Harvard University;|Sichuan University;|Universidade Estadual de Santa Cruz;|University of Malaya;|Stony Brook University;|University of Georgia;|Harvard University Herbaria
http://dx.doi.org/10.1101/212092 2017-11-07 Evolutionary Biology An analytical framework to understand regulatory novelty accompanying allopolyploidization Guanjing Hu|Jonathan Wendel Iowa State University
http://dx.doi.org/10.1101/215095 2017-11-07 Plant Biology CC BY-NC-ND White LED Lighting for Plants Anton Sharakshane Kotel'nikov Inst. of Radio-engineering & Electronics of Russian Acad. of Sciences
http://dx.doi.org/10.1101/208884 2017-11-07 Pathology CC BY Endothelial Cell-Specific MCPIP Deletion Causes Endothelial Dysfunction and Impairs Post-ischemic Angiogenesis in Vivo Jianli Niu|Nidhi Kapoor|Jian Liang|Zhuqing Jin|Edilu Becerra|Pappachan E. Kolattukudy Memorial Healthcare System;|College of Medicine, University of Central Florida;|School of Basic Medicine, Zhejiang Chinese Medical University
http://dx.doi.org/10.1101/216440 2017-11-08 CC BY Russian Doll Genes and Complex Chromosome Rearrangements in Oxytricha trifallax Jasper Braun|Lukas Nabergall|Rafik Neme|Laura F Landweber|Masahico Saito|Natasha Jonoska University of South Florida;|Columbia University
http://dx.doi.org/10.1101/216390 2017-11-08 Influence of Oenococcus oeni and Brettanomyces bruxellensis on Aged Wine Microbial Taxonomic and Functional Profiles Marie Lisandra Zepeda Mendoza|Nathalia Kruse Edwards|Mikkel Gulmann Madsen|Martin Abel-Kistrup|Lara Puetz|Thomas Sicheritz-Ponten|Jan H Swiegers Chr. Hansen A/S, Boge Alle 10, 2970 Horsholm, Denmark.;|Centre for GeoGenetics, Natural History Museum of Denmark, University of Copenhagen. Denmark;|Center for Biological Sequence Analysis, Technical University of Denmark
http://dx.doi.org/10.1101/216416 2017-11-08 CC BY-NC-ND Could cyanobacteria have made the salinity transition during the late Archean? Michelle M. Gehringer|Herrmann Achim Technical University Kaiserslautern
http://dx.doi.org/10.1101/216432 2017-11-08 CC BY-ND Identifying Crohns disease signal from variome analysis Yanran Wang|Yuri Astrakhan|Britt-Sabina Petersen|Stefan Schreiber|Andre Franke|Yana Bromberg Rutgers University;|Independent Researcher;|Christian-Albrechts-University of Kiel
http://dx.doi.org/10.1101/215350 2017-11-08 CC BY Coupling MALDI-TOF mass spectrometry protein and specialized metabolite analyses to rapidly discriminate bacterial function Chase M. Clark|Maria S. Costa|Laura M. Sanchez|Brian T. Murphy University of Illinois at Chicago;|University of Iceland
http://dx.doi.org/10.1101/216309 2017-11-08 CC BY-NC-ND Gene expression in cord blood links genetic risk for neurodevelopmental disorders with maternal psychological distress and adverse childhood outcomes Michael S. Breen|Aliza P. Wingo|Nastassja Koen|Kirsten A. Donald|Heather J. Zar|Kerry J. Ressler|Joseph D. Buxbaum|Dan J. Stein Icahn School of Medicine at Mount Sinai;|Atlanta Veterans Affairs Medical Center; Emory Univrsity;|University of Cape Town;|Emory University; Harvard Medical School
http://dx.doi.org/10.1101/216333 2017-11-08 Biophysics of object segmentation in a collision-detecting neuron Richard B. Dewell|Fabrizio Gabbiani Baylor College of Medicine
http://dx.doi.org/10.1101/216374 2017-11-08 CC BY-NC-ND Deconstructing Procedural Memory: Different Learning Trajectories and Consolidation of Sequence and Statistical Learning Peter Simor|Zsofia Zavecz|Kata Horvath|Noemi Elteto|Csenge Torok|Orsolya Pesthy|Karolina Janacsek|Dezso Nemeth Eotvos Lorand University;|Eovtos Lorand University
http://dx.doi.org/10.1101/209577 2017-11-08 CC BY-NC-ND PAIRUP-MS: Pathway Analysis and Imputation to Relate Unknowns in Profiles from Mass Spectrometry-based metabolite data Yu-Han H. Hsu|Claire Churchhouse|Tune H. Pers|Josep M. Mercader|Andres Metspalu|Krista Fischer|Kristen Fortney|Eric K. Morgen|Clicerio Gonzalez|Maria E. Gonzalez|Tonu Esko|Joel N. Hirschhorn Harvard Medical School, Boston, MA;|Broad Institute of Harvard and MIT, Cambridge, MA;|University of Copenhagen, Copenhagen, Denmark;|University of Tartu, Tartu, Estonia;|BioAge Labs, Richmond, CA;|Instituto Nacional de Salud Publica, Cuernavaca, Morelos, Mexico;|Boston Children's Hospital, Boston, MA
http://dx.doi.org/10.1101/216341 2017-11-08 CC BY Visual working memory is independent of the cortical spacing between memoranda William J Harrison|Paul M Bays University of Cambridge
http://dx.doi.org/10.1101/216127 2017-11-08 Aligning sequences to general graphs in O(V + mE) time Mikko Rautiainen|Tobias Marschall Max Planck Institute for Informatics;|Saarland University and Max Planck Institute for Informatics
http://dx.doi.org/10.1101/216531 2017-11-08 Knockdown of Liver-Derived C1 Inhibitor Results in Brain Pathology in mice Dorit Farfara|Emily Feierman|Allison Richards|Alexey S. Revenko|Robert A. MacLeod|Erin H. Norris|Sidney Strickland Patricia & John Rosenwald Laboratory of Neurobiology & Genetics, Rockefeller Univ.;|Department of Antisense Drug Discovery, IONIS Pharmaceuticals Inc, Carlsbad, CA
http://dx.doi.org/10.1101/216465 2017-11-08 CC BY-ND AptaBlocks: Accelerating the Design of RNA-based Drug Delivery Systems Yijie Wang|Jan Hoinka|Piotr Swiderski|Teresa Przytycka National Center for Biotechnology Information, National Library of Medicine, NIH;|Dept. of Molecular & Cellular Biology, Beckman Research Institute of City of Hope;|National Center of Biotechnology Information, National Library of Medicine, NIH
http://dx.doi.org/10.1101/213819 2017-11-08 CC BY-NC-ND Bayesian Reconstruction of Transmission within Outbreaks using Genomic Variants Nicola De Maio|Colin J. Worby|Daniel John Wilson|Nicole Stoesser University of Oxford;|Princeton University
http://dx.doi.org/10.1101/215517 2017-11-08 CC BY-NC-ND The genome sequence of the wild tomato Solanum pimpinellifolium provides insights into salinity tolerance Rozaimi Razali|Salim Bougouffa|Mitchell J. L. Morton|Damien J. Lightfoot|Intikhab Alam|Magbubah Essack|Stefan T. Arold|Allan Kamau|Sandra M. Schmockel|Yveline Pailles|Mohammed Shahid|Craig T. Michell|Salim Al-Babili|Yung Shwen Ho|Mark Tester|Vladimir B. Bajic|Sonia Negrao King Abdullah University of Science and Technology;|International Center for Biosaline Agriculture;|University of Eastern Finland
http://dx.doi.org/10.1101/216317 2017-11-08 CC BY-NC-ND Transcriptional profiling reveals extraordinary diversity among skeletal muscle tissues Erin E. Terry|Xiping Zhang|Christy Hoffmann|Laura D. Hughes|Scott A. Lewis|Jiajia Li|Lance Riley|Nicholas F. Lahens|Ming Gong|Francisco Andrade|Karyn A. Esser|Michael E. Hughes Washington University School of Medicine;|University of Florida;|University of Pennsylvania;|University of Kentucky
http://dx.doi.org/10.1101/216382 2017-11-08 CC BY-NC Mouse lemurs and degraded habitat Simon Knoop|Lounes Chikhi|Jordi Salmona Geographisches Institut, Universitaet Heidelberg, Germany;|Instituto Gulbenkian de Ciencia, Oeiras, Portugal;|Laboratoire Evolution & Diversite Biologique, CNRS, Universite Paul Sabatier, Toulouse, France
http://dx.doi.org/10.1101/215889 2017-11-08 CC BY-NC-ND Lack of insurance is associated with lower probability of diagnostic imaging use among US trauma patients: An instrumental variable analysis and simulation Audrey Renson|Finn D. Schubert|Marc A. Bjurlin Department of Clinical Research, New York University Langone - Brooklyn, NY;|Department of Urology, New York University Langone - Brooklyn, NY
http://dx.doi.org/10.1101/215319 2017-11-08 CC BY-NC-ND A Pilot Randomized Trial of Oral Magnesium Supplementation on Supraventricular Arrhythmias Pamela L. Lutsey|Lin Y. Chen|Anne Eaton|Melanie Jaeb|Kyle D. Rudser|James D. Neaton|Alvaro Alonso University of Minnesota;|Emory University
http://dx.doi.org/10.1101/214890 2017-11-08 Microbiology Streptococcus pyogenes infection and the human proteome with a special focus on the IgG-cleaving enzyme IdeS Christofer A. Q. Karlsson|Sofia Jarnum|Lena Winstedt|Christian Kjellman|Lars Bjorck|Adam Linder|Johan A. Malmstrom Lund University, Division of Infection Medicine, Department of Clinical Sciences;|Hansa Medical AB, Lund, Sweden
http://dx.doi.org/10.1101/216069 2017-11-08 Genetics CC BY-NC-ND Genetic structure of a patchily-distributed philopatric migrant: implications for management and conservation Anastasios Bounas|Dimitris Tsaparis|Ron Efrat|Gradimir Gradev|Marco Gustin|Kresimir Mikulic|Airam Rodriguez|Maurizio Sara|Georgios Kotoulas|Konstantinos Sotiropoulos University of Ioannina;|Hellenic Centre for Marine Research;|The Hebrew University of Jerusalem;|Green Balkans NGO;|LIPU-BirdLife Italia;|Association BIOM-BirdLife Croatia;|Estacion Biologica de Donana (CSIC);|University of Palermo
http://dx.doi.org/10.1101/216044 2017-11-08 Cell Biology CC BY-NC-ND Formation and disassembly of a contractile actomyosin network mediates content release from large secretory vesicles Dagan Segal|Assaf Zaritsky|Eyal D. Schejter|Ben Zion Shilo Weizmann Institute of Science;|UT Southwestern Medical School
http://dx.doi.org/10.1101/214585 2017-11-08 Cancer Biology CC BY-NC-ND Recurrent loss of heterozygosity correlates with clinical outcome in pancreatic neuroendocrine cancer Benjamin Lawrence|Cherie Blenkiron|Kate Parker|Peter Tsai|Sandra Fitzgerald|Paula Shields|Mee Ling Yeong|Nicole Kramer|Tamsin Robb|Sarah M James|Mik Black|Vicky Fan|Nooriyah Poonawala|Patrick Yap|Esther Coats|Braden Woodhouse|Reena Ramsaroop|Masato Yozu|Bridget Robinson|Kimiora Henare|Jonathan Koea|Peter Johnston|Richard Carroll|Saxon Connor|Helen Morrin|Marianne Elston|Christopher Jackson|Papaarangi Reid|John Windsor|Andrew MacCormick|Richard Babor|Adam Bartlett|Dragan Damianovich|Nicholas Knowlton|Sean Grimmond|Michael Findlay|Cristin G Print The University of Auckland;|University of Auckland;|Auckland District Health Board;|The University of Otago;|Waitemata District Health Board;|Counties Manukau District Health Board;|Canterbury District Health Board;|Wellington Hospital;|The University of Auckland, Waikato Clinical Campus;|The University of Melbourne, Clinical Cancer Centre
http://dx.doi.org/10.1101/215962 2017-11-08 Cell Biology Swr1 mediated H2A.Z/Pht1 incorporation designates centromere DNA for de novo CENP-A/Cnp1 assembly Raghavendran Kulasegaran-Shylini|Lakxmi Subramanian|Alastair RW Kerr|Christos Spanos|Juri Rappsilber|Robin C Allshire Wellcome Centre for Cell Biology and Institute of Cell Biology, The University of Edinburgh
http://dx.doi.org/10.1101/216135 2017-11-08 Neuroscience Multiplexed temporally focused light shaping for high-resolution multi-cell targeting Nicolo Accanto|Dimitrii Tanese|Emiliano Ronzitti|Clement Molinier|Zachary L Newman|Claire Wyart|Ehud Isacoff|Eirini Papagiakoumou|Valentina Emiliani Neurophotonics Laboratory, CNRS UMR8250, Paris Descartes Univeristy;|Department of Molecular and Cell Biology, University of California, Berkeley, California, USA;|Institut du Cerveau et de la Moelle epiniere (ICM), UPMC Univ. Paris 06, Inserm, CNRS, AP-HP;|Neurophotonics Laboratory, CNRS UMR8250, Paris Descartes Univeristy, Inserm
http://dx.doi.org/10.1101/216192 2017-11-08 Neuroscience Divergent effects of healthy ageing on semantic knowledge and control: Evidence from novel comparisons with semantically-impaired patients Paul Hoffman University of Edinburgh
http://dx.doi.org/10.1101/215970 2017-11-08 Cell Biology Bulk degradation of dendritic cargos requires Rab7-dependent transport in Rab7-positive/LAMP1-negative endosomes to somatic lysosomes. Chan Choo Yap|Laura Digilio|Lloyd McMahon|Denise A Garcia|Bettina Winckler University of Virginia;|Drexel University
http://dx.doi.org/10.1101/216275 2017-11-08 Plant Biology CC BY-NC-ND A biophysical dynamic module for the polarisation of auxin efflux carriers PIN-FORMED (PIN) Valeria Hernandez-Hernandez|Rafael A. Barrio|Mariana Benitez|Naomi Nakayama|Jose Roberto Romero-Arias|Carlos Villarreal Ecole Normale Superieur de Lyon;|Instituto de Fisica, Universidad Nacional Autonoma de Mexico;|Lab. Nacional de Ciencias de la Sostenibilidad, Univ. Nacional Autonoma de Mexico;|Institute of Molecular Plant Sciences, University of Edinburgh;|Instituto de Fisica y Matematicas, Universidad Michoacana
http://dx.doi.org/10.1101/215947 2017-11-08 Bioinformatics CC BY-NC-ND Guanosine monophosphate reductase 1 is a potential therapeutic target for Alzheimer′s disease Hongde Liu|Kun Luo School of Biological Science & Medical Engineering, Southeast University;|Department of Neurosurgery,First Affiliated Hospital of Xinjiang Medical University
http://dx.doi.org/10.1101/216093 2017-11-08 Neuroscience Mitochondrial Ultrastructure Is Coupled to Synaptic Performance at Axonal Release Sites Csaba Cserep|Balazs Posfai|Anett Dora Schwarcz|Adam Denes Institute of Experimental Medicine, Hungarian Academy of Sciences
http://dx.doi.org/10.1101/216010 2017-11-08 Neuroscience Revealing structure components of the retina by deep learning networks Qi Yan|Zhaofei Yu|Feng Chen|Jian K. Liu Tsinghua University;|Graz University of Technology
http://dx.doi.org/10.1101/216259 2017-11-08 Neuroscience CC BY-NC-ND Basal forebrain control of olfactory bulb interneurons Alvaro Sanz Diez|Marion Najac|Didier De Saint Jan Centre National de la Recherche Scientific (CNRS);|Northwestern University
http://dx.doi.org/10.1101/215921 2017-11-08 Cancer Biology Continuous high-resolution in vivo imaging reveals tumor-specific dissemination in an embryonic zebrafish xenograft model Nandini Asokan|Stephan Daetwyler|Stefanie Nadine Bernas|Christopher Schmied|Steffen Volger|Katrin Lambert|Manja Wobus|Martin Wermke|Gerd Kempermann|Jan Huisken|Michael Brand|Martin Bornhaeuser Center for Regenerative Therapies Dresden (CRTD), Technische Universitaet Dresden, Germany;|Max Planck Institute of Molecular Cell Biology and Genetics (MPI-CBG), Dresden, Germany;|German Center for Neurodegenerative Diseases (DZNE) Dresden, Germany;|Division of Hematology, Oncology and Stem Cell Transplantation, UKD, MK1, Dresden;|Morgridge Institute for Research, Madison, USA
http://dx.doi.org/10.1101/216036 2017-11-08 Neuroscience CC BY-NC-ND Preparation for mental effort recruits Dorsolateral Prefrontal Cortex: an fNIRS investigation Eliana Vassena|Robin Gerrits|Jelle Demanet|Tom Verguts|Roma Siugzdaite Donders Institute for Brain, Cognition and Behaviour;|Ghent University
http://dx.doi.org/10.1101/209833 2017-11-08 Bioinformatics CC BY-NC-ND PRS-on-Spark: a novel, efficient and flexible approach for generating polygenic risk scores Lawrence Ming Chen|Nelson Yao|Elika Garg|Yuecai Zhu|Thao T. T. Nguyen|Irina Pokhvisneva|Shantala A. Hari Dass|Marie Forest|Celia Greenwood|Patricia P. Silveira|Michael J. Meaney|Kieran J. O'Donell Douglas Hospital Research Centre, McGill University, Montreal, Quebec, Canada;|Ludmer Centre for Neuroinformatics and Mental Health, McGill University, Montreal, Quebec, Canada
http://dx.doi.org/10.1101/216176 2017-11-08 Neuroscience CC BY-NC-ND Local network-level integration mediates effects of transcranial Alternating Current Stimulation Marco Fusca|Philipp Ruhnau|Toralf Neuling|Nathan Weisz University of Trento;|Otto-von-Guericke University, Magdeburg;|University of Salzburg
http://dx.doi.org/10.1101/216283 2017-11-08 Neuroscience Reactivating vocabularies in the elderly Maren Cordi|Thomas Schreiner|Bjoern Rasch University of Fribourg;|Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/216077 2017-11-08 Bioinformatics CC BY-NC-ND TraRECo: A Greedy Approach based de novo Transcriptome Assembler with Read Error Correction using Consensus Matrix Seokhyun Yoon|Daeseung Kim|Keunsoo Kang|Woong June Park Dankook University
http://dx.doi.org/10.1101/216119 2017-11-08 Animal Behavior and Cognition CC BY-ND Male parental investment reflects the level of partner contributions and brood value in tree swallows Adam Z Lendvai|Caglar Akcay|Mark Stanback|Mark F Haussmann|Ignacio T Moore|Frances Bonier University of Debrecen;|Koc University, Department of Psychology;|Davidson College, Department of Biology;|Bucknell University;|Virginia Tech, Biological Sciences;|Queen's University, Biology
http://dx.doi.org/10.1101/215657 2017-11-08 Neuroscience CC BY-NC-ND Transcriptional Profiling of Somatostatin Interneurons in the Spinal Dorsal Horn Alexander Chamessian|Michael Young|Yawar Qadri|Temugin Berta|Ru-Rong Ji|Thomas Van de Ven Duke University School of Medicine;|University of Cincinnati Medical Center
http://dx.doi.org/10.1101/216143 2017-11-08 Cancer Biology Deimination of arginine at the C-terminal domain favors RNA polymerase II pause release Priyanka Sharma|Antonios Lioutas|Javier Quilez|Roni H. G. Wright|Chiara Di Vona|Francois Le Dily|Roland Schuller|Dirk Eick|Miguel Beato Gene Regulation, Stem Cells and Cancer Program, Centre for Genomic Regulation;|Department of Molecular Epigenetics, Helmholtz Center Munich, Germany
http://dx.doi.org/10.1101/215988 2017-11-08 Bioinformatics CC BY-NC-ND Panaconda: Application of pan-synteny graph models to genome content analysis Andrew S Warren|James J Davis|Alice R Wattam|Dustin Machi|Joao C Setubal|Lenwood Heath The Biocomplexity Institute at Virginia Tech;|Argonne National Laboratory and the University of Chicago Computation Institute;|Departamento de Bioquimica, Instituto de Quimica, Universidade de Sao Paulo;|Department of Computer Science, Virginia Tech
http://dx.doi.org/10.1101/216002 2017-11-08 Genetics CC BY-NC-ND Genome scan identifies flowering-independent effects of barley HsDry2.2 locus on yield traits under water deficit Lianne Merchuk-Ovnat|Roi Silberman|Efrat Laiba|Andreas Maurer|Klaus Pillen|Adi Faigenboim|Eyal Fridman Institute of Plant Sciences, Agricultural Research Organization, The Volcani Center;|Inst. of Plant Sciences, Faculty of Agriculture, Hebrew Univ. of Jerusalem, Rehovot;|Inst. of Agricultural & Nutritional Sciences, Martin-Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/215954 2017-11-08 Cancer Biology Targeting stromal remodeling and cancer stem cell plasticity to overcome chemoresistance in triple negative breast cancer Aurelie S. Cazet|Mun N. Hui|Benjamin L. Elsworth|Sunny Z. Wu|Daniel Roden|Chia-Ling Chan|Joanna N. Skhinas|Raphael Collot|Jessica Yang|Kate Harvey|M. Zahied Johan|Caroline Cooper|Radhika Nair|David Herrmann|Andrea McFarland|Nian-Tao Deng|Manuel Ruiz-Borrego|Federico Rojo|Jose M. Trigo|Susana Bezares|Rosalia Caballero|Elgene Lim|Paul Timpson|Sandra O'Toole|D. Neil Watkins|Thomas R. Cox|Michael Samuel|Miguel Martin|Alexander Swarbrick Garvan Institute of Medical Research, Darlinghurst, New South Wales, Australia;|University of Bristol;|University of South Australia, Adelaide, South Australia, Australia;|University of Queensland, Australia;|Rajiv Gandhi Centre for Biotechnology, Kerala, India;|Hospital Universitario Virgen del Rocio, Sevilla, Spain;|Hospital Universitario Fundacion Jimenez Diaz, Madrid, Spain;|Hospital Universitario Virgen de la Victoria, IBIMA, Malaga, Spain;|GEICAM (Spanish Breast Cancer Group), Madrid, Spain;|Centre for Cancer Biology, SA Pathology and the University of South Australia, South Australia, Aust
http://dx.doi.org/10.1101/216051 2017-11-08 Genomics Immune signatures correlate with L1 retrotransposition in gastrointestinal cancers Hyunchul Jung|Jung Kyoon Choi|Eunjung Alice Lee Korea Advanced Institute of Science and Technology;|Boston Children's Hospital and Harvard Medical School
http://dx.doi.org/10.1101/216267 2017-11-08 Ecology CC BY-NC Do priority effects outweigh environmental filtering in a guild of dominant freshwater macroinvertebrates? Chelsea J. Little|Florian Altermatt Eawag
http://dx.doi.org/10.1101/216085 2017-11-08 Neuroscience Transcriptomic and morphophysiological evidence for a specialized human cortical GABAergic cell type Eszter Boldog|Trygve Bakken|Rebecca D Hodge|Mark Novotny|Brian D Aevermann|Judith Baka|Sandor Borde|Jennie L Close|Francisco Diez-Fuertes|Song-Lin Ding|Nora Farago|Agnes K Kocsis|Balazs Kovacs|Jamison M McCorrison|Jeremy A Miller|Gabor Molnar|Gaspar Olah|Attila Ozsvar|Marton Rozsa|Soraya Shehata|Kimberly A Smith|Susan M Sunkin|Danny N Tran|Pratap Venepally|Abby Wall|Laszlo G Puskas|Pal Barzo|Frank J Steemers|Nicholas J Schork|Richard H Scheuermann|Roger S Lasken|Ed S Lein|Gabor Tamas MTA-SZTE Research Group for Cortical Microcircuits, University of Szeged;|Allen Institute for Brain Science;|J. Craig Venter Institute;|Laboratory of Functional Genomics, Biological Research Center, Hungarian Academy of Sciences;|Department of Neurosurgery, University of Szeged;|Illumina, Inc
http://dx.doi.org/10.1101/215483 2017-11-08 Genetics Environmental DNA: a new low-cost monitoring tool for pathogens in salmonid aquaculture. Lucy Peters|Sofie Spatharis|Maria Augusta Dario|Inaki J. T. Roca|Anna Kintner|Oyvind Kanstad-Hanssen|Martin S. Llewellyn|Kim Praebel University of Edinburgh, Institute of Evolutionary Biology, Edinburgh, Scotland, UK;|University of Glasgow, School of Life Sciences, Glasgow, G12 8QQ, Scotland, UK;|Instituto Oswlado Cruzi, Rio de Janeiro, Brazil;|University of Tromso, Norwegian College of Fishery Science, Tromso;|Univ. of Glasgow, Institute of Biodiversity, Animal Health & Comparative Medicine;|Ferskvannsbiologen Ltd.
http://dx.doi.org/10.1101/216226 2017-11-08 Bioinformatics Ennet: exert enhaner-only somatic mutations to discover potential cancer-driving biological networks Ya Cui|Yiwei Niu|Xueyi Teng|Dan Wang|Huaxia Luo|Peng Zhang|Wei Wu|Shunmin He|Jianjun Luo|Runsheng Chen Key Laboratory of RNA Biology, Inst. of Biophysics, Chinese Academy of Sciences;|College of Biology, Hunan University;|Center of Big Data Research in Health, Institute of Biophysics;|Children National Medical Center
http://dx.doi.org/10.1101/216796 2017-11-09 Neuroscience Cognitive Entities Underpinning Task Episodes Ausaf A. Farooqui|Tom Manly MRC-Cognition & Brain Sciences Unit
http://dx.doi.org/10.1101/216242 2017-11-09 Microbiology CC BY-NC The microbiome and resistome of hospital sewage during passage through the community sewer system Elena Buelow|Jumamurat R Bayjanov|Rob J.L. Willems|Marc J.M. Bonten|Heike Schmitt|Willem Van Schaik University of Limoges, INSERM, CHU Limoges, UMR 1092, Limoges, France;|Department of Medical Microbiology, University Medical Center Utrecht, Utrecht, The Netherlands;|National institute for public health and the environment (RIVM), Bilthoven, The Netherlands;|Institute of Microbiology and Infection, University of Birmingham, United Kingdom
http://dx.doi.org/10.1101/216689 2017-11-09 Bioinformatics Improving the calling of non-invasive prenatal testing on 13-/18-/21-trisomy by support vector machine discrimination Jianfeng Yang|Xiaofan Ding|Weidong Zhu Yunkang Medical and Health Management Research Institute;|The Chinese University of Hong Kong
http://dx.doi.org/10.1101/216804 2017-11-09 Cell Biology Structural centrosome aberrations promote non-cell-autonomous invasiveness Olivier Ganier|Dominik Schnerch|Philipp Oertle|Roderick Y. H. Lim|Marija Plodinec|Erich A. Nigg University of Basel
http://dx.doi.org/10.1101/216788 2017-11-09 Bioinformatics CC BY-NC GrapeTree: Visualization of core genomic relationships among 100,000 bacterial pathogens Zhemin Zhou|Nabil-Fareed Alikhan|Martin J. Sergeant|Nina Luhmann|Catia Vaz|Alexandre P. Francisco|Joao Andre Carrico|Mark Achtman University of Warwick;|Inst. de Engenharia de Sistemas e Computadores: Investigacao e Desenvolvimento;|Universidade de Lisboa, Faculdade de Medicina
http://dx.doi.org/10.1101/216754 2017-11-09 Bioinformatics CC BY-NC-ND Module analysis captures pancancer (epi)genetically deregulated cancer driver genes for smoking and antiviral response Magali Champion|Kevin Brennan|Tom Croonenborghs|Andrew J Gentles|Nathalie Pochet|Olivier Gevaert Stanford University;|Broad Institute
http://dx.doi.org/10.1101/216838 2017-11-09 Cell Biology CC BY Exportin Crm1 is repurposed as a docking protein to generate microtubule organizing centers at the nuclear pore Xun Bao|Christos Spanos|Tomoko Kojidani|Eric Lynch|Juri Rappsilber|Yasushi Hiraoka|Tokuko Haraguchi|Kenneth Sawin University of Edinburgh;|National Inst. of Information & Communications Technology; Japan Women's Univ.;|University of Edinburgh; University of Washington;|National Institute of Information and Communications Technology; Osaka University
http://dx.doi.org/10.1101/216770 2017-11-09 Genetics CC BY-NC-ND Pyk2 suppresses contextual fear memory in a kinase-independent manner Lun Suo|Jin Zheng|Yuxiao Zhou|Liling Jia|Yanping Kuang|Qiang Wu Shanghai Jiao Tong University
http://dx.doi.org/10.1101/216846 2017-11-09 Neuroscience Auditory Figure-Ground Segregation is Impaired by High Visual Load Katharine Molloy|Nilli Lavie|Maria Chait University College London
http://dx.doi.org/10.1101/216747 2017-11-09 Bioinformatics CC BY-NC-ND DiscoSnp-RAD: de novo detection of small variants for population genomics Jeremy Gauthier|Charlotte Mouden|Tomasz Suchan|Nadir Alvarez|Nils Arrigo|Chloe Riou|Claire Lemaitre|Pierre Peterlongo IRISA Inria Rennes Bretagne Atlantique, GenScale team, Campus de Beaulieu, Rennes, France;|INRA, BIOGECO, UMR1202, Cestas, France;|W. Szafer Institute of Botany, Polish Academy of Sciences, Krakow, Poland;|Department of Ecology and Evolution, University of Lausanne, Switzerland
http://dx.doi.org/10.1101/216564 2017-11-09 Ecology Breaking the spell of nestedness Claudia Payrato Borras|Laura Hernandez|Yamir Moreno Universite de Cergy-Pontoise;|University of Zaragoza
http://dx.doi.org/10.1101/215392 2017-11-09 Neuroscience CC BY-NC-ND Chunking sequence information by mutually predicting recurrent neural networks Toshitake Asabuki|Naoki Hiratani|Tomoki Fukai Department of Complexity Science and Engineering, Univ. of Tokyo, Kashiwa, Chiba, Japan;|Gatsby Computational Neuroscience Unit, Univ. College London, London, UK;|RIKEN Brain Science Institute, Wako, Saitama, Japan
http://dx.doi.org/10.1101/216580 2017-11-09 Ecology The application of zeta diversity as a continuous measure of compositional change in ecology Melodie A. McGeoch|Guillaume Latombe|Nigel R. Andrew|Shinichi Nakagawa|David A. Nipperess|Mariona Roige|Ezequiel M Marzinelli|Alexandra H. Campbell|Adriana Verges|Torsten Thomas|Peter D. Steinberg|Katherine E. Selwood|Cang Hui Monash University;|Monash university;|University of New England;|University of New South Wales;|Macquarie University;|Lincoln University;|University of New south Wales;|Melbourne University;|Stellenbosch University
http://dx.doi.org/10.1101/216630 2017-11-09 Molecular Biology Condensin's ATPase Machinery Drives and Dampens Mitotic Chromosome Condensation Ahmed M.O. Elbatsh|Jonne A. Raaijmakers|Robin H. van der Weide|Jelmi uit de Bos|Hans Teunissen|Sol Bravo|Rene H. Medema|Elzo de Wit|Christian H. Haering|Benjamin D. Rowland The Netherlands Cancer Institute;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/216572 2017-11-09 Neuroscience Visual attention is not always spatially coupled to subsequent oculomotor program Luca Wollenberg|Heiner Deubel|Martin Szinte Ludwig-Maximilians-University Munich;|Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/216150 2017-11-08 Neuroscience CC BY-NC Biophysical models reveal the relative importance of transporter proteins and impermeant anions in chloride homeostasis Kira M Dusterwald|Christopher Brian Currin|Richard J Burman|Colin J Akerman|Alan R Kay|Joseph V Raimondo University of Cape Town;|University of Oxford;|University of Iowa
http://dx.doi.org/10.1101/216606 2017-11-09 CC BY-NC-ND Three dimensional cross-modal image inference: label-free methods for subcellular structure prediction Chek Ounkomol|Daniel A. Fernandes|Sharmishtaa Seshamani|Mary M. Maleckar|Forrest Collman|Gregory R. Johnson Allen Institute for Cell Science;|Allen Institute for Brain Science
http://dx.doi.org/10.1101/212928 2017-11-09 CC BY-NC-ND A Cell Type-Specific Class of Chromatin Loops Anchored at Large DNA Methylation Nadirs Mira Jeong|Xingfan Huang|Xiaotian Zhang|Jianzhong Su|Muhammad Shamim|Ivan Bochkov|Jaime Reyes|Haiyoung Jung|Emily Heikamp|Aviva Presser Aiden|Wei Li|Erez Aiden|Margaret A. Goodell Center for Cell and Gene Therapy, Baylor College of Medicine, Houston, TX;|The Center for Genome Architecture, Baylor College of Medicine, Houston, TX;|Van Andel Institute;|Div. of Biostatistics, Dan L. Duncan Cancer Ctr.; Dept. of Molec. & Cell. Biol., Baylor;|Dept. of Molecular & Human Genetics, Baylor College of Medicine, Houston, TX
http://dx.doi.org/10.1101/216960 2017-11-09 Which line to follow? The utility of different line-fitting methods to capture the mechanism of morphological scaling Alexander W. Shingleton Lake Forest College
http://dx.doi.org/10.1101/216598 2017-11-09 CC BY-ND The cost of enforcing marine protected areas to achieve ecological targets Christopher Brown|Brett Parker|Gabby N. Ahmadia|Rizya Ardiwijaya|P. Purwanto|Edward T. Game Griffith University;|Australian Rivers Institute, Griffith University;|Oceans Conservation, World Wildlife Fund;|The Nature Conservancy - Indonesia Program;|Center of Excellence - Inst. for Research & Community Services, Univ. of Papua;|The Nature Conservancy, Asia Pacific Resource Centre
http://dx.doi.org/10.1101/216739 2017-11-09 CC BY-ND Study mortality with hazard rates, not probabilities Torbjrn Ergon|rnulf Borgan|Chloe Rebecca Nater|Yngvild Vindenes Centre for Ecological & Evolutionary Synthesis, Dept. of Biosciences, Univ. of Oslo;|Department of Mathematics, University of Oslo
http://dx.doi.org/10.1101/216697 2017-11-09 CC BY-NC-ND Is whole-brain functional connectivity a neuromarker of sustained attention? Comment on Rosenberg & al. (2016) Simon Bang Kristensen|Kristian Sandberg Aarhus University
http://dx.doi.org/10.1101/216622 2017-11-09 CC BY-NC STIMULUS: Noninvasive Dynamic Patterns of Neurostimulation using Spatio-Temporal Interference Jiaming Cao|Pulkit Grover Carnegie Mellon University
http://dx.doi.org/10.1101/215798 2017-11-09 CC BY-NC Association between the brain-derived neurotrophic factor Val66Met polymorphism and overweight/obesity in Mexican pediatric population Jose Dario Martinez-Ezquerro|Mario Enrique Rendon-Macias|Gerardo Zamora-Mendoza|Jacobo Serrano-Meneses|Yessica Arellano-Pineda|Beatriz Rosales-Rodriguez|Deyanira Escalante-Bautista|Maricela Rodriguez-Cruz|Raul Sanchez Gonzalez|Mardia Lopez-Alarcon|Maria Cecilia Zampedri|Haydee Rosas-Vargas Instituto Mexicano del Seguro Social (IMSS);|Instituto Nacional de Medicina Genómica (INMEGEN)
http://dx.doi.org/10.1101/217240 2017-11-09 CC BY Microbiome-by-ethanol interactions impact Drosophila melanogaster fitness and physiology James Angus Chandler|Lina Victoria Innocent|Jane L Yang|Michael B Eisen|William B Ludington University of California, Berkeley;|University of California, Berkeley and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/217026 2017-11-09 Promyelocytic Leukemia (PML) Nuclear Bodies (NBs) Induce Latent/Quiescent HSV-1 Genomes Chromatinization Through a PML-NB/Histone H3.3/H3.3 Chaperone Axis Camille Cohen|Armelle Corpet|Mohamed Ali Maroui|Olivier Binda|Nolwenn Poccardi|Antoine Rousseau|Pascale Texier|Nancy Sawtell|Marc Labetoulle|Patrick Lomonte Univ. Claude Bernard Lyon 1, CNRS UMR 5310, INSERM, Inst. NeuroMyoGene;|Institut de Biologie Integrative de la Cellule (I2BC), Departement of Virology;|University Paris Sud, UMR 1184, CEA, IDMIT, IMVA;|Division of Infectious Diseases, Cincinnati Children's Hospital Medical Center
http://dx.doi.org/10.1101/216184 2017-11-09 Differential polarization of cortical pyramidal neuron dendrites through weak extracellular fields Florian Aspart|Michiel W. H. Remme|Klaus Obermayer Dept. of Software Engineering & Theoretical Computer Sci., Technische Univ. Berlin;|Institute for Theoretical Biology, Humboldt University Berlin
http://dx.doi.org/10.1101/216887 2017-11-09 Cyclic-di-adenosine monophosphate (c-di-AMP) is required for osmotic regulation in Staphylococcus aureus but dispensable for viability in anaerobic conditions Merve S. Zeden|Christopher F. Schuster|Lisa Bowman|Qiyun Zhong|Angelika Grundling Imperial College London;|Imperial Collge London;|University of Dundee
http://dx.doi.org/10.1101/216671 2017-11-09 CC BY MRIQC Web-API: Crowdsourcing image quality metrics and expert quality ratings of structural and functional MRI Oscar Esteban|Ross W. Blair|Dylan Nielson|Jan Varada|Sean Marrett|Adam Thomas|Russell Poldrack|Krzysztof Jacek Gorgolewski Stanford University;|Data Science and Sharing Team, National Institute of Mental Health;|Functional MRI Facility, National Institute of Mental Health
http://dx.doi.org/10.1101/217042 2017-11-09 CC BY Venous Thromboembolism Risk in Head and Neck Cancer: Significance of the Preoperative Platelet-to-Lymphocyte Ratio Tristan Tham|Lauren Rahman|Christina Persaud|Peter Costantino New York Head & Neck Insititute
http://dx.doi.org/10.1101/217166 2017-11-09 CC BY-ND SgTiler: a fast method to design tiling sgRNAs for CRISPR/Cas9 mediated screening Musaddeque Ahmed|Housheng Hansen He University Health Network
http://dx.doi.org/10.1101/216556 2017-11-09 CC BY-ND A Model Mechanism Based Explanation of an In Vitro-In Vivo Disconnect for Improving Extrapolation and Translation Andrew K. Smith|Yanli Xu|Glen E. P. Ropella|C. Anthony Hunt Bioengineering and Therapeutic Sciences, University of California, San Francisco;|Tempus Dictum, Inc.
http://dx.doi.org/10.1101/216903 2017-11-09 CC BY-NC Tumorcode - A framework to simulate vascularized tumors Thierry Fredrich|Michael Welter|Heiko Rieger Saarland University
http://dx.doi.org/10.1101/216945 2017-11-09 Muscarinic Lateral Excitation Contributes to Visual Object Segmentation during Collision Avoidance Ying Zhu|Richard B. Dewell|Hongxia Wang|Fabrizio Gabbiani Quantitative & Computational Biosci. Graduate Program, Baylor College of Med.;|Baylor College of Medicine, Houston, TX
http://dx.doi.org/10.1101/216523 2017-11-09 CC BY-ND Simulation Enabled Search for Explanatory Mechanisms of the Fracture Healing Process Ryan C. Kennedy|Meir Marmor|Ralph Marcucio|C. Anthony Hunt Dept. of Bioengineering & Therapeutic Sciences, Univ. of California, San Francisco;|Department of Orthopaedic Surgery, University of California, San Francisco
http://dx.doi.org/10.1101/211466 2017-11-09 Differential and defective expression of Koala Retrovirus reveal complexity of host and virus evolution Rachael E. Tarlinton|Nishat Sarker|Jessica Fabijan|Tania Dottorini|Lucy Woolford|Joanne Meers|Greg Simmons|Helen Owen|Jennifer Seddon|Farhid Hemmatzedah|Darren Trott|Natasha Speight|Richard Emes University of Nottingham;|University of Queensland;|University of Adelaide
http://dx.doi.org/10.1101/217034 2017-11-09 CC BY The Neutrophil-to-Lymphocyte Ratio as a Prognostic Indicator in Head and Neck Cancer: A Systematic Review and Meta-Analysis Tristan Tham|Yonatan Bardash|Wendy Herman|Peter Costantino New York Head & Neck Insititute;|Hofstra Northwell School of Medicine
http://dx.doi.org/10.1101/216994 2017-11-09 CC BY-NC-ND Leveraging multiple transcriptome assembly methods for improved gene structure annotation Luca Venturini|Shabhonam Caim|Gemy Kaithakottil|Daniel Lee Mapleson|David Swarbreck Earlham Institute;|Quadram Institute
http://dx.doi.org/10.1101/216879 2017-11-09 A modular transcriptional signature identifies phenotypic heterogeneity of human tuberculosis infection Akul Singhania|Raman Verma|Christine M. Graham|Jo Lee|Tran Trang|Matthew Richarsdon|Patrick Lecine|Philippe Leissner|Matthew P. R. Berry|Robert J. Wilkinson|Karine Kaiser|Marc Rodrigue|Gerrit Woltmann|Pranabashis Haldar|Anne O'Garra The Francis Crick Institute;|University of Leicester;|Bioaster Microbiology Technology Institute;|Imperial College Healthcare NHS Trust;|University of Cape Town;|bioMerieux SA
http://dx.doi.org/10.1101/216499 2017-11-09 Aquaporin-4 dependent glymphatic solute transport in rodent brain Humberto Mestre|Benjamin T. Kress|Wenyan Zou|Tinglin Pu|Giridhar Murlidharan|Ruth M. Castellanos Rivera|Matthew J. Simon|Martin M. Pike|Benjamin A. Plog|Anna L. R. Xavier|Alexander S. Thrane|Iben Lundgaard|John H. Thomas|Ming Xiao|Aravind Asokan|Jeffrey J. Iliff|Maiken Nedergaard Center for Translational Neuromedicine, University of Rochester Medical Center;|Jiangsu Province Key Laboratory of Neurodegeneration, Nanjing Medical University;|Gene Therapy Center, University of North Carolina at Chapel Hill;|Oregon Health & Science University;|Advanced Imaging Research Center, Oregon Health & Science University;|Ctr. for Translational Neuromed., Faculty of Med. & Health Sci., Univ. of Copenhagen;|Dept. of Experimental Med. Sc., Wallenberg Ctr. for Molecular Med., Lund University;|Dept. of Mechanical Eng. and Dept. of Physics & Astronomy, Univ. of Rochester;|Dept. of Anesthesiology & Perioperative Medicine, Oregon Health & Science Univ.
http://dx.doi.org/10.1101/174391 2017-11-09 FLIM-based pH measurements reveal incretin-induced rejuvenation of aged insulin secretory granules. Martin Neukam|Anke Soenmez|Michele Solimena Paul Langerhans Institute Dresden
http://dx.doi.org/10.1101/217083 2017-11-09 The affinity of the S9.6 antibody for double-stranded RNAs impacts the mapping of R-loops in fission yeast. Stella R. Hartono|Amelie Malapert|Penelope Legros|Pascal Bernard|Frederic Chedin|Vincent Vanoosthuyse Dept. of Molecular & Cellular Biology and Genome Center, Univ. of California, Davis;|UMR5239 CNRS/Université de Lyon/ENS-Lyon, France
http://dx.doi.org/10.1101/216986 2017-11-09 CC BY-NC-ND Testing for co-adaptation of plants and arbuscular mycorrhizal fungi in a biodiversity experiment Terhi Hahl|Sofia Julia van Moorsel|Marc W. Schmid|Debra Zuppinger-Dingley|Bernhard Schmid|Cameron Wagg University of Zurich
http://dx.doi.org/10.1101/216853 2017-11-09 CC BY-ND Stringency of synthetic promoter sequences in Clostridium revealed and circumvented by tuning promoter library mutation rates Pawel M. Mordaka|John T. Heap Imperial College London
http://dx.doi.org/10.1101/216911 2017-11-09 CC BY-NC-ND A hyperthermophilic phage decoration protein suggests common evolutionary origin with Herpesvirus Triplex proteins and an anti-CRISPR protein Nicholas P. Stone|Brendan J. Hilbert|Daniel Hidalgo|Kevin T. Halloran|Brian A. Kelch University of Massachusetts Medical School
http://dx.doi.org/10.1101/217208 2017-11-09 CC BY-NC-ND DNA methylation estimation using methylation-sensitive restriction enzyme bisulfite sequencing (MREBS) Giancarlo Bonora|Liudmilla Rubbi|Marco Morselli|Constantinos Chronis|Kathrin Plath|Matteo Pellegrini University of California, Los Angeles
http://dx.doi.org/10.1101/217125 2017-11-09 Biochemistry CC BY-ND Glutathione levels influence chronological life span of Saccharomyces cerevisiae in a glucose-dependent manner Mayra Fabiola Tello-Padilla|Alejandra Yudid Perez-Gonzalez|Melina Canizal-Garcia|Juan Carlos Gonzalez-Hernandez|Christian Cortes-Rojo|Ivanna Karina Olivares-Marin|Luis Alberto Madrigal-Perez Instituto Tecnologico Superior de Ciudad Hidalgo;|Instituto Tecnologico de Morelia;|Universidad Michoacana de San Nicolas de Hidalgo;|Universidad Autonoma de Queretaro
http://dx.doi.org/10.1101/214296 2017-11-09 Epidemiology CC BY The elephant in the room- Universal coverage for Costly treatments in an upper middle income country RP Kaur|GF Ho|MY Mastura|PP Goh|Mohamad Aziz Salowi|Muhd. Radzi|Anwar Hau|Jameela Sathar|Robaayah Zambahari|Benedict Selladurai|Abu Bakar Suleiman|Zaki Morad|Ghazali Ahmad|T.O. Lim Together Against Cancer Association;|Faculty of Medicine University Malaya;|Ministry of Health Malaysia;|National Heart Institute;|Ara Damansara Medical Centre;|National Kidney Foundation Malaysia
http://dx.doi.org/10.1101/216101 2017-11-09 Paleontology A primitive starfish ancestor from the Early Ordovician of Morocco reveals the origin of crown group Echinodermata Aaron W. Hunter|Javier Ortega-Hernandez Department of Earth Sciences, University of Cambridge;|University of Cambridge
http://dx.doi.org/10.1101/216929 2017-11-09 Ecology The distance decay of similarity in tropical rainforests. A spatial point processes analytical formulation Anna Tovo|Marco Favretti University of Padova
http://dx.doi.org/10.1101/216713 2017-11-09 Molecular Biology CC BY-NC-ND Structure of the eukaryotic cytoplasmic pre-40S ribosomal subunit Alain Scaiola|Cohue Pena|Melanie Weisser|Daniel Boehringer|Marc Leibundgut|Purnima Klingauf-Nerurkar|Stefan Gerhardy|Vikram Panse|Nenad Ban ETH Zurich;|University of Zurich
http://dx.doi.org/10.1101/215582 2017-11-09 Molecular Biology CC BY Efficient CRISPR/Cas-mediated homologous recombination in the model diatom Thalassiosira pseudonana Nigel Belshaw|Irina Grouneva|Lior Aram|Assaf Gal|Amanda Hopes|Thomas Mock University of East Anglia;|Weizmann Institute of Science
http://dx.doi.org/10.1101/216812 2017-11-09 Cell Biology CC BY The unconventional kinetoplastid kinetochore protein KKT4 tracks with dynamic microtubule tips Aida Llauro|Hanako Hayashi|Megan E. Bailey|Alex Wilson|Patryk Ludzia|Charles L. Asbury|Bungo Akiyoshi University of Washington;|University of Oxford
http://dx.doi.org/10.1101/216895 2017-11-09 Developmental Biology CC BY-NC Generation of Mouse-Zebrafish Hematopoietic Tissue Chimeric Embryos for Hematopoiesis and Host-Pathogen Interaction Studies Margarita M. Parada-Kusz|Anne Clatworthy|Elliott J. Hagedorn|Cristina Penaranda|Anil V. Nair|Jonathan E. Henninger|Christoph Ernst|Brian Li|Raquel Riquelme|Humberto Jijon|Eduardo J. Villablanca|Leonard I. Zon|Deborah Hung|Miguel Allende Center for Genome Regulation, Facultad de Ciencias, Universidad de Chile;|Massachusetts General Hospital;|Harvard Medical School;|University of Calgary;|Karolinska Institute;|Universidad de Chile
http://dx.doi.org/10.1101/216473 2017-11-10 CC BY-NC-ND Prefrontal D1 dopamine-receptor neurons and delta resonance in interval timing Young-Cho Kim|Nandakumar Narayanan University of Iowa
http://dx.doi.org/10.1101/217562 2017-11-10 CC BY Programming of macrophages by apoptotic cancer cells inhibits cancer progression through exosomal PTEN and PPARγ ligands Yong-Bae Kim|Young-Ho Ahn|Jin-Hwa Lee|Jihee Lee Kang Ewha Womans University
http://dx.doi.org/10.1101/217323 2017-11-10 A tangled tale of convergence and divergence: archaeal chromosomal proteins and Chromo-like domains in bacteria and eukaryotes Gurmeet Kaur|Lakshminarayan M. Iyer|Srikrishna Subramanian|L. Aravind NCBI;|NCBI, NLM;|IMTECH
http://dx.doi.org/10.1101/217299 2017-11-09 Cancer Biology CC BY-NC-ND Transposable Element Expression Predicts Prognosis in Acute Myeloid Leukemia Anthony R. Colombo|Timothy Triche|Giridharan Ramsingh Jane Anne Nohl Division of Hematology, Keck School of Medicine, USC;|The Van Handel Research Institute
http://dx.doi.org/10.1101/215145 2017-11-09 Neuroscience Automatic sorting system for large calcium imaging data Takashi Takekawa|Hirotaka Asai|Noriaki Ohkawa|Masanori Nomoto|Reiko Okubo-Suzuki|Khaled Ghandour|Masaaki Sato|Yasunori Hayashi|Kaoru Inokuchi|Tomoki Fukai Faculty of Informatics, Kogakuin University;|Graduate School of Medicine and Pharmaceutical Science, University of Toyama;|Graduate School of Medicine and Pharmaceutical Sciences, University of Toyama;|Brain and Body System Science Institute, Saitama University;|Graduate School of Medicine, Kyoto University;|RIKEN Brain Science Institute
http://dx.doi.org/10.1101/211565 2017-11-09 Genetics CC BY-NC-ND A heterochromatin domain forms gradually at a new telomere and is highly dynamic at stable telomeres Jinyu Wang|Jessica R. Eisenstatt|Julien Audry|Kristen Cornelius|Matthew Shaughnessy|Kathleen L. Berkner|Kurt W. Runge Case Western Reserve University;|Cleveland Clinic Lerner Research Institute;|The Ohio State University
http://dx.doi.org/10.1101/217893 2017-11-10 A repetitive mutation and selection system for bacterial evolution to increase the specific affinity to pancreatic cancer cells. Masaki Osawa Duke University Medical Center
http://dx.doi.org/10.1101/217950 2017-11-10 CC BY-NC Hospitalized premature infants are colonized by related bacterial strains with distinct proteomic profiles Christopher T. Brown|Weili Xiong|Matthew R. Olm|Brian C. Thomas|Robyn Baker|Brian Firek|Michael J. Morowitz|Robert L. Hettich|Jillian F. Banfield University of California Berkeley;|Oak Ridge National Laboratory;|Children's Hospital of Pittsburgh and Magee-Womens Hospital of UPMC;|University of Pittsburgh School of Medicine;|Univ. of Pittsburgh School of Medicine; Children's Hospital of Pittsburgh of UPMC
http://dx.doi.org/10.1101/217919 2017-11-10 CC BY-NC-ND Microbial community structure corresponds to nutrient gradients and human impact within coastal wetlands of the Great Lakes. Dean J. Horton|Kevin R. Theis|Donald G. Uzarski|Deric R. Learman Institute for Great Lakes Research & Dept. of Biology, Central Michigan University;|Department of Microbiology, Immunology, & Biochemistry, Wayne State University
http://dx.doi.org/10.1101/217588 2017-11-10 Integrative construction of regulatory region networks in 127 human reference epigenomes by matrix factorization Dianbo Liu|Jose Davila-Velderrain|ZHizhuo Zhang|Manolis Kellis MIT Computer Science and Artificial Intelligence Laboratory;|Universidad Nacional Autonoma de Mexico (UNAM);|MIT
http://dx.doi.org/10.1101/213926 2017-11-10 CC BY-NC-ND Bayesian estimation of MSM population in Côte d'Ivoire Abhirup Datta|Wenyi Lin|Amrita Rao|Daouda Diouf|Abo Kouame|Jessie K. Edwards|Le Bao|Thomas A. Louis|Stefan Baral Johns Hopkins Bloomberg School of Public Health;|University of California San Diego;|Enda-Sante;|Ministry of Health, Cote d'Ivoire;|University of North Carolina Chapel Hill;|Penn State University
http://dx.doi.org/10.1101/217232 2017-11-10 CC BY-NC-ND Within-host dynamics explain the coexistence of antibiotic-sensitive and resistant bacteria Nicholas G Davies|Stefan Flasche|Mark Jit|Katherine E Atkins London School of Hygiene and Tropical Medicine
http://dx.doi.org/10.1101/216937 2017-11-10 CC BY Hepatitis C Virus (HCV) diagnosis, epidemiology and access to treatment in a UK cohort Emily Adland|Gerald Jesuthasan|Louise Downs|Victoria Wharton|Gemma Wilde|Anna McNaughton|Jane Collier|Eleanor Barnes|Paul Klenerman|Monique Andersson|Katie Jeffery|Philippa Matthews University of Oxford;|John Radcliffe Hospital
http://dx.doi.org/10.1101/217885 2017-11-10 CC BY-NC-ND Dynamics of human telomerase recruitment depend on template-telomere base-pairing Jens Christopher Schmidt|Arthur J. Zaug|Regina Kufer|Thomas R. Cech University of Colorado Boulder;|Roche Diagnostics GmbH
http://dx.doi.org/10.1101/217786 2017-11-10 A genome-wide association study finds novel genetic associations with broadly-defined headache in UK Biobank (N = 223,773) Weihua Meng|Mark Adams|Harry Hebert|Ian Deary|Andrew McIntosh|Blair Smith University of Dundee;|University of Edinburgh
http://dx.doi.org/10.1101/217729 2017-11-10 CC BY Natural genetic variation in C. elegans reveals genomic loci controlling metabolite levels Arwen Gao|Mark Sterken|Jelmi uit de Bos|Jelle Van Creij|Rashmi Kamble|Basten Snoek|Jan Kammenga|Riekelt H. Houtkooper Academic Medical Center;|Wageningen University and Research
http://dx.doi.org/10.1101/217661 2017-11-10 CC BY Use-dependent plasticity in human primary motor hand area: Synergistic interplay between training and immobilisation Estelle Raffin|Hartwig Roman Siebner Copenhagen University Hospital Hvidovre
http://dx.doi.org/10.1101/217851 2017-11-10 CC BY-ND Adaptive dynamics of unstable cancer populations: the canonical equation Guim Aguade|Ricard Sole Universitat Pompeu Fabra
http://dx.doi.org/10.1101/217463 2017-11-10 CC BY-NC-ND Overlooked polyploidies in lycophytes generalize their roles during the evolution of vascular plants Jinpeng Wang|Jigao Yu|Pengchuan Sun|Chao Li|Xiaoming Song|Tianyu Lei|Yuxian Li|Jiaqing Yuan|Sangrong Sun|Hongling Ding|Xueqian Duan|Shaoqi Shen|Yanshuang Shen|Jing Li|Fanbo Meng|Yangqin Xie|Jianyu Wang|Yue Hou|Jin Zhang|Xianchun Zhang|Xiyin Wang School of Life Sciences, North China University of Science and Technology;|Ctr. for Genomics & Computational Biol., North China Univ. of Science & Technol.;|Chinese Academy of Science
http://dx.doi.org/10.1101/196584 2017-11-10 CC BY-NC-ND The role of sensorimotor variability and computation in falls in the elderly Chin-Hsuan Lin|Aldo Faisal Imperial College London
http://dx.doi.org/10.1101/216721 2017-11-10 Failure of in vitro differentiation of Plasmodium falciparum gametocytes into ookinetes arises because of poor gamete fertilisation Michael J. Delves|Sara R. Marques|Andrea Ruecker|Ursula Straschil|Celia Miguel-Blance|Maria J. Lopez-Barragan|Joel Lelievre|Irene Molina|Melanie Wree|Shinji L. Okitsu|Elizabeth Winzeler|Fengwu Li|Joseph Vinetz|Sam Sheppard|Joana Guedes|Nadia Guerra|Esperanza Herreros|Robert E. Sinden|Jake Baum Imperial College London;|GlaxoSmithKline;|University of California San Diego
http://dx.doi.org/10.1101/217877 2017-11-10 Neuroscience CC BY-ND Mesoscale turbulence in the hippocampus Alexandru Sheremet|Yu Qin|Jack P. Kennedy|Andrew Maurer University of Florida
http://dx.doi.org/10.1101/217117 2017-11-10 Genomics CC BY-NC-ND Tn5Prime, a Tn5 based 5′ Capture Method for Single Cell RNA-seq Charles Cole|Ashley Byrne|Anna E. Beaudin|E. Camilla Forsberg|Christopher Vollmers UC Santa Cruz
http://dx.doi.org/10.1101/217828 2017-11-10 Genomics Epigenomic variation across a polyploid wheat diversity collection Laura-Jayne Gardiner|Ryan Joynson|Jimmy Omony|Rachel Rusholme-Pilcher|Lisa Olohan|Daniel Lang|Caihong Bai|Malcolm Hawkesford|David Salt|Manuel Spannagl|Klaus Mayer|John Kenny|Michael Bevan|Neil Hall|Anthony Hall Earlham Institute;|Helmholtz Zentrum Munchen;|University of Liverpool;|Rothamsted Research;|University of Nottingham;|John Innes Centre
http://dx.doi.org/10.1101/217430 2017-11-10 Neuroscience CC BY-NC-ND Neural code subserving feed-forward inhibition in a collision detection circuit Hongxia Wang|Richard B Dewell|Ying Zhu|Fabrizio Gabbiani Baylor College of Medicine
http://dx.doi.org/10.1101/217547 2017-11-10 Physiology CC BY-ND Presence of Atopy Increases the Risk of Asthma Relapse Laurel Teoh|Ian M. Mackay|Peter P. Van Asperen|Jason Acworth|Mark Hurwitz|John W. Upham|Weng Hou Siew|Claire Y. T. Wang|Theo P. Sloots|Teresa Neeman|Anne B. Chang Dept. of Paediatrics & Child Health, Centenary Hosp. for Women & Children, ACT;|Child Health Research Centre, University of Queensland, Brisbane, Australia;|Dept. of Respiratory Medicine, Children's Hospital at Westmead, NSW, Australia;|Emergency Medicine Dept., Lady Cilento Children's Hospital, Brisbane, Australia;|Dept. of Respiratory & Sleep Medicine, Canberra Hospital, Woden, ACT, Australia;|School of Medicine, The University of Queensland, Brisbane, Australia;|Health Research Centre, The University of Queensland, Brisbane, Australia;|Child Health Research Centre, University of Queensland, Brisbane, Qld, Australia;|Statistical Consulting Unit, Australian National University, Canberra, Australia;|Child Health Division, Menzies School of Health Research, Charles Darwin Univ., NT
http://dx.doi.org/10.1101/217349 2017-11-10 Bioinformatics CC BY A substrate for modular, extensible data-visualization Jordan K Matelsky|Joseph Downs|Brock Wester|William Gray Roncal Johns Hopkins University Applied Physics Laboratory
http://dx.doi.org/10.1101/216515 2017-11-10 Microbiology CC BY-NC-ND Chemotaxis allows bacteria to overcome host-generated reactive oxygen species that constrain gland colonization Kieran D. Collins|Shuai Hu|Helmut Grasberger|John Y. Kao|Karen M. Ottemann UC Santa Cruz;|Univ. of Michigan
http://dx.doi.org/10.1101/217422 2017-11-10 Neuroscience CC BY-NC Recurrent network model for learning goal-directed sequences through reverse replay Tatsuya Haga|Tomoki Fukai RIKEN Brain Science Institute
http://dx.doi.org/10.1101/217372 2017-11-10 Bioinformatics CC BY-NC-ND Mantis: A Fast, Small, and Exact Large-Scale Sequence Search Index Prashant Pandey|Fatemeh Almodaresi|Michael A. Bender|Michael Ferdman|Rob Johnson|Rob Patro Stony Brook University;|VMWare Research
http://dx.doi.org/10.1101/217745 2017-11-10 Bioinformatics CC BY-NC-ND The Block Object Storage Service (bossDB): A Cloud-Native Approach for Petascale Neuroscience Discovery Dean Kleissas|Robert Hider|Derek Pryor|Timothy Gion|Priya Manavalan|Jordan Matelsky|Alex Baden|Kunal Lillaney|Randal Burns|Denise D'Angelo|William Gray Roncal|Brock Wester Johns Hopkins University Applied Physics Laboratory;|Johns Hopkins University
http://dx.doi.org/10.1101/217620 2017-11-10 Bioinformatics CC BY-NC-ND Efficient and accurate detection of splice junctions from RNAseq with Portcullis Daniel Mapleson|Luca Venturini|Gemy Kaithakottil|David Swarbreck Earlham Institute
http://dx.doi.org/10.1101/217695 2017-11-10 Bioinformatics CC BY-NC-ND Mining the forest: uncovering biological mechanisms by interpreting Random Forests Julian de Ruiter|Theo Knijnenburg|Jeroen de Ridder The Netherlands Cancer Institute;|Institute for Systems Biology;|Delft University of Technology
http://dx.doi.org/10.1101/217869 2017-11-10 Bioinformatics CC BY Minerva: An Alignment and Reference Free Approach to Deconvolve Linked-Reads for Metagenomics David C. Danko|Dmitry Meleshko|Daniela Bezdan|Christopher Mason|Iman Hajirasouliha Weill Cornell Medical College;|Institute for Computational Biomedicine
http://dx.doi.org/10.1101/217554 2017-11-10 Bioinformatics CC BY Multi-Omics factor analysis disentangles heterogeneity in blood cancer Ricard Argelaguet|Britta Velten|Damien Arnol|Sascha Dietrich|Thorsten Zenz|John C. Marioni|Florian Buettner|Wolfgang Huber|Oliver Stegle EMBL-EBI, Hinxton, Cambridge, UK;|EMBL, Heidelberg, Germany;|Heidelberg University Hospital, Heidelberg, Germany;|Cancer Research UK Cambridge Institute, University of Cambridge, Cambridge, UK;|EMBL-EBI
http://dx.doi.org/10.1101/217570 2017-11-10 Evolutionary Biology CC BY-ND Eco-evolutionary dynamics under limited dispersal: ecological inheritance, altruism within and spite between species Laurent Lehmann|Charles Mullon University of Lausanne
http://dx.doi.org/10.1101/217257 2017-11-10 Bioinformatics CC BY-NC-ND Predicting Transcription Factor Binding Sites with Convolutional Kernel Networks Dexiong Chen|Laurent Jacob|Julien Mairal Inria;|CNRS; Universite Lyon 1
http://dx.doi.org/10.1101/217687 2017-11-10 Cell Biology CC BY An engineered cellular Timer for analysing the time domain of cellular differentiation in vivo David Bending|Paz Prieto Martin|Alina Paduraru|Erik Marzaganov|Marie Laviron|Satsuki Kitano|Hitoshi Miyachi|Tessa Crompton|Masahiro Ono Imperial College London;|Kyoto University;|University College London
http://dx.doi.org/10.1101/217331 2017-11-10 Biophysics CC BY-NC-ND Realistic vOlumetric-Approach to Simulate Transcranial Electric Stimulation -- ROAST -- a fully automated open-source pipeline Yu Huang|Abhishek Datta|Marom Bikson|Lucas C. Parra The City College of New York, Soterix Medical Inc.;|Soterix Medical Inc.;|The City College of New York
http://dx.doi.org/10.1101/217497 2017-11-10 Ecology CC BY-NC Unequal contributions of species′ persistence and migration on plant communities′ response to climate warming throughout forests Romain Bertrand CNRS
http://dx.doi.org/10.1101/217505 2017-11-10 Bioinformatics CC BY-NC MODE-TASK: Large-scale protein motion tools Caroline Ross|Bilal Nizami|Michael Glenister|Olivier Sheik Amamuddy|Ali Rana Atilgan|Canan Atilgan|Ozlem Tastan Bishop Rhodes University;|Sabanci University
http://dx.doi.org/10.1101/217158 2017-11-10 Bioinformatics CC BY-NC-ND Deep2Full: Predictive model for complementing phenotypic outcomes in a deep mutational scan using protein sequence and structure information C. K. Sruthi|Meher K. Prakash Jawaharlal Nehru Centre for Advanced Scientific Research, Bangalore
http://dx.doi.org/10.1101/217711 2017-11-10 Microbiology CC BY-NC-ND Modified antibiotic adjuvant ratios can slow and steer the evolution of resistance: co-amoxiclav as a case study Richard C. Allen|Sam P. Brown ETH Zurich;|Georgia Institute of Technology
http://dx.doi.org/10.1101/215491 2017-11-10 Bioinformatics CC BY-NC-ND Accurate detection of HIV transmission clusters from phylogenetic trees using a multi-state birth-death model Joelle Barido-Sottani|Tanja Stadler ETH Zurich
http://dx.doi.org/10.1101/217778 2017-11-10 Bioinformatics Correctly counting absolute numbers of molecules using unique molecular identifiers Florian G. Pflug|Arndt von Haeseler University of Vienna;|Center for Integrative Bioinformatics Vienna
http://dx.doi.org/10.1101/217604 2017-11-10 Neuroscience Stomach-brain synchrony binds neural representations of the body in a novel, delayed-connectivity resting-state network Ignacio Rebollo|Anne-Dominique Devauchelle|Benoit Beranger|Catherine Tallon-Baudry Lab. de neurosci. cognitives, Dept. etudes cognitives, Ecole normale superieure;|Fondation Campus Biotech Geneva, FCBG, Geneva, Switzerland;|Ctr. de NeuroImagerie de Recherche, Inst. du Cerveau et de la Moelle epiniere
http://dx.doi.org/10.1101/217273 2017-11-10 Synthetic Biology Accelerating Evolutionary Hill Climbs in Parallel Turbidostats Christopher N. Takahashi|Luis Zaman|Eric Klavins University of Washington;|University of Michigan
http://dx.doi.org/10.1101/217109 2017-11-10 Evolutionary Biology CC BY-NC-ND Analysis of ancient human mitochondrial DNA from Verteba Cave, Ukraine: insights into the origins and expansions of the Late Neolithic-Chalcolithic Cututeni-Tripolye Culture Ken Wakabayashi|Ryan Schmidt|Takashi Gakuhari|Kae Koganebuchi|Motoyuki Ogawa|Jordan Karsten|Mykhailo Sokhatsky|Hiroki Oota Department of Anatomy, Kitasato University;|University College, Dublin;|Kanazawa University, Center for Cultural Resource Studies;|Department of Anthropology and Religious Studies, University of Wisconsin-Oshkosh, Oshkosh;|Borschiv Regional Museum, Ministry of Culture and Arts
http://dx.doi.org/10.1101/217281 2017-11-10 Neuroscience CC BY-NC-ND Decoding the auditory brain with canonical component analysis Alain de Cheveigne|Daniel Wong|Giovanni Di Liberto|Jens Hjortkjaer|Malcolm Slaney|Edmund Lalor Ecole Normale Supérieure; CNRS; UCL Ear Institute;|Ecole Normale Supérieure; CNRS;|Technical University of Denmark;|Google Research;|University of Rochester; Trinity College Dublin
http://dx.doi.org/10.1101/217679 2017-11-10 Developmental Biology CC BY Diversification of heart progenitor cells by EGF signaling and differential modulation of ETS protein activity Benjamin Schwarz|Dominik Hollfelder|Katharina Scharf|Leonie Hartmann|Ingolf Reim Friedrich-Alexander University of Erlangen-Nürnberg
http://dx.doi.org/10.1101/209270 2017-11-11 High genetic loading for schizophrenia predicts poor response to lithium in patients with bipolar disorder: A polygenic score and cross-trait genetic analysis Azmeraw T. Amare|Klaus Oliver Schubert|Thomas G. Schulze|Bernhard Baune University of Adelaide;|-;|Ludwig-Maximilian-University Munich, Munich, Germany
http://dx.doi.org/10.1101/218164 2017-11-11 CC BY-NC-ND Anti-phage islands force their target phage to directly mediate island excision and spread Amelia C McKitterick|Kimberley Seed University of California, Berkeley
http://dx.doi.org/10.1101/218099 2017-11-11 Role of SCN5A coding and non-coding sequences in Brugada syndrome onset. What's behind the scenes? Houria Daimi|Amel Haj Khelil|Ali Neji|Khaldoun Ben Hamda|Sabri Maaoui|Amelia Aranega|Jemni Be Chibani|Diego Franco Jaime Department of Experimental Biology University of Jaen, Spain;|Biochemistry and Molecular Biology Laboratory, Faculty of Pharmacy, University of Monastir, Monastir;|Fattouma Bourguiba Hospital, Monastir, Tunisia
http://dx.doi.org/10.1101/218024 2017-11-11 CC BY-NC-ND White Matter Connectivity Reflects Success in Musical Improvisation Tima Zeng|Emily Przysinda|Charles Pfeifer|Cameron Arkin|Psyche Loui Wesleyan University;|University of Rochester
http://dx.doi.org/10.1101/217984 2017-11-11 CC BY-NC Don't throw out the sympatric species with the crater lake water: fine-scale investigation of introgression provides weak support for functional role of secondary gene flow in one of the clearest examples of sympatric speciation Emilie Richards|Christopher Martin|Jelmer Poelstra University of North Carolina at Chapel Hill;|Duke University
http://dx.doi.org/10.1101/218123 2017-11-11 CC BY-ND Sleep-Dependent Memory Consolidation and Incremental Sentence Comprehension: Computational Dependencies during Language Learning as Revealed by Neuronal Oscillations Zachariah R Cross|Mark J Kohler|Matthias Schlesewsky|M. Gareth Gaskell|Ina Bornkessel-Schlesewsky Centre for Cognitive and Systems Neuroscience, University of South Australia;|Department of Psychology, University of York
http://dx.doi.org/10.1101/218081 2017-11-11 A synergistic transcriptional regulation of olfactory genes derives complex behavioral responses in the mosquito Anopheles culicifacies Tanwee Das De|Tina Thomas|Sonia Verma|Deepak Singla|Charu Rawal|Vartika Srivastava|Punita Sharma|Seena Kumari|Sanjay Tevatiya|Jyoti Rani|Yasha Hasija|Kailash C Pandey|Rajnikant Dixit Laboratory of Host-Parasite Interaction Studies, National Institute of Malaria Research, Delhi;|Department of Biotechnology, Delhi Technological University. Delhi;|National Institute for Research in Environmental Health, Bhopal, India
http://dx.doi.org/10.1101/218198 2017-11-11 Theta and alpha oscillations are traveling waves in the human neocortex Honghui Zhang|Andrew J. Watrous|Ansh Patel|Joshua Jacobs Columbia University
http://dx.doi.org/10.1101/218032 2017-11-11 An agent-based model of cattle grazing toxic Geyer's larkspur Kevin Jablonski|Randall B. Boone|Paul J. Meiman Colorado State University
http://dx.doi.org/10.1101/218131 2017-11-11 CC BY-NC-ND Laccaria bicolor MiSSP8 is a small-secreted protein decisive for the establishment of the ectomycorrhizal symbiosis Clement Pellegrin|Yohann Daguerre|Joske Ruytinx|Frederic Guinet|Minna Kemppainen|Melodie B. Plourde|Arnaud Hecker|Emmanuelle Morin|Alejandro G. Pardo|Hugo Germain|Francis M. Martin|Claire Veneault-Fourrey Max Planck Institute for Terrestrial Microbiology;|Umea Plant Science Centre;|Hasselt University;|Universite de Lorraine / INRA Nancy;|Universidad Nacional de Quilmes / CONICET;|Universite du Quebec a Trois-Rivieres;|Universite de Lorraine;|INRA Nancy
http://dx.doi.org/10.1101/217976 2017-11-11 CC BY-NC-ND Circuit-based models of shared variability in cortical networks Chengcheng Huang|Douglas Ruff|Ryan Pyle|Robert Rosenbaum|Marlene Cohen|Brent David Doiron University of Pittsburgh;|University of Notre Dame
http://dx.doi.org/10.1101/218180 2017-11-11 Extra-field spike-timed activity shifts the place field center of mass to encode aversion experience Omar Mamad|Beshoy Agayby|Lars Stumpp|Richard B Reilly|Marian Tsanov Trinity College Institute of Neuroscience, Trinity College Dublin, Ireland;|School of Engineering, Trinity College Dublin, Ireland
http://dx.doi.org/10.1101/217992 2017-11-11 Genome-wide transcriptional responses of iron-starved Chlamydia trachomatis reveal prioritization of metabolic precursor synthesis over protein translation Amanda J. Brinkworth|Mark R. Wildung|Rey A. Carabeo Washington State University, College of Veterinary Medicine
http://dx.doi.org/10.1101/218073 2017-11-11 Systems Biology CC BY-NC-ND The impact of tumor receptor heterogeneity on the response to anti-angiogenic cancer treatment Ding Li|Stacey Finley University of Southern California
http://dx.doi.org/10.1101/217968 2017-11-11 Molecular Biology Polymerase pausing induced by sequence-specific RNA binding protein drives heterochromatin assembly Jahan-Yar Parsa|Selim Boudoukha|Jordan Burke|Christina Homer|Hiten Madhani UCSF
http://dx.doi.org/10.1101/217646 2017-11-11 Molecular Biology CC BY-ND Phytophthora methylomes modulated by expanded 6mA methyltransferases are associated with adaptive genome regions Han Chen|Haidong Shu|Liyuan Wang|Fan Zhang|Xi Li|Sylvans Ochola|Fei Mao|Hongyu Ma|Wenwu Ye|Tingting Gu|Lubing Jiang|Yufeng Wu|Yuanchao Wang|Sophien Kamoun|Suomeng Dong Nanjing Agricultural University;|Institute Pasteur of Shanghai;|The Sainsbury Laboratory
http://dx.doi.org/10.1101/218115 2017-11-11 Bioinformatics CC BY-NC-ND FateID infers cell fate bias in multipotent progenitors from single-cell RNA-seq data Josip Stefan Herman|Sagar Sagar|Dominic Grun Max Planck Institute of Immunobiology and Epigenetics
http://dx.doi.org/10.1101/218149 2017-11-11 Molecular Biology Covalent linkage of the DNA repair template to the CRISPR/Cas9 complex enhances homology-directed repair Natasa Savic|Femke Ringnalda|Katja Bargsten|Yizhou Li|Christian Berk|Jonathan Hall|Dario Neri|Martin Jinek|Gerald Schwank ETH Zurich;|University Zurich
http://dx.doi.org/10.1101/218016 2017-11-11 Neuroscience L-tyrosine supplementation is not therapeutic for skeletal muscle dysfunction in zebrafish and mouse models of dominant skeletal muscle α-actin nemaline myopathy. Adriana M. Messineo|Charlotte Gineste|Tamar E. Sztal|Elyshia L McNamara|Christophe Vilmen|Augustin C. Ogier|Dorothee Hahne|David Bendahan|Nigel G. Laing|Robert J. Bryson-Richardson|Julien Gondin|Kristen J. Nowak Centre for Medical Research, The University of Western Australia, Australia;|Aix-Marseille University, CNRS, CRMBM, Marseille, France;|School of Biological Sciences, Monash University, Melbourne, Australia;|Centre for Microscopy, Characterisation & Analysis, Univ. of Western Australia;|Institute NeuroMyoGene, Universite Claude Bernard Lyon 1, Villeurbanne, France;|Off. of Pop. Health Genomics, Publ. Health Div., Western Australian Dept. of Health
http://dx.doi.org/10.1101/218040 2017-11-12 CC BY-NC-ND Electrophysiological signatures of spatial boundaries in the human subiculum Sang Ah Lee|Jonathan F. Miller|Andrew J. Watrous|Michael Sperling|Ashwini Sharan|Gregory A. Worrell|Brent M. Berry|Barbara C. Jobst|Kathryn A. Davis|Robert E. Gross|Bradley Lega|Sameer Sheth|Sandhitsu R. Das|Joel M. Stein|Richard Gorniak|Daniel S. Rizzuto|Joshua Jacobs Korea Advanced Institute of Science and Technology;|Columbia University;|Thomas Jefferson University;|Mayo Clinic;|Geisel School of Medicine at Dartmouth;|Hospital of the University of Pennsylvania;|Emory University;|University of Texas Southwestern;|Columbia University Medical Center;|University of Pennsylvania
http://dx.doi.org/10.1101/218404 2017-11-12 Heritability Informed Power Optimization (HIPO) Leads to Enhanced Detection of Genetic Associations Across Multiple Traits Guanghao Qi|Nilanjan Chatterjee Johns Hopkins University
http://dx.doi.org/10.1101/218305 2017-11-12 Genomics CC BY-NC-ND Transposon insertional mutagenesis in Saccharomyces uvarum reveals trans-acting effects influencing species dependent essential genes Monica R. Sanchez|Celia Payen|Frances Cheong|Blake Hovde|Sarah Bissonnette|Adam Arkin|Jeffrey M. Skerker|Rachel Brem|Amy A. Caudy|Maitreya J. Dunham University of Washington;|California State University, Turlock;|University of California Berkeley;|University of Toronto
http://dx.doi.org/10.1101/218370 2017-11-12 Bioinformatics Saturating Single-Cell Datasets Aparna Bhaduri|Tomasz J. Nowakowski|Alex A. Pollen|Arnold R. Kriegstein University of California San Francisco
http://dx.doi.org/10.1101/218354 2017-11-12 Developmental Biology CC BY High fidelity lineage tracing in mouse pre-implantation embryos using primed conversion of photoconvertible proteins Maaike Welling|Manuel A. Mohr|Aaron Ponti|Lluc R. Sabater|Andrea Boni|Prisca Liberali|Pawel Pelczar|Periklis Pantazis ETH Zurich;|Friedrich Miescher Institute for Biomedical Research;|University of Basel
http://dx.doi.org/10.1101/218396 2017-11-12 Evolutionary Biology Energetic Evolution of Cellular Transportomes Behrooz Darbani|Douglas B. Kell|Irina Borodina Novo Nordisk Foundation Center for Biosustainability, Technical Univ. of Denmark;|School of Chemistry & Manchester Institute of Biotechnology, Univ. of Manchester
http://dx.doi.org/10.1101/218248 2017-11-12 Bioinformatics CC BY Using Optimal F-Measure and Random Resampling in Gene Ontology Enrichment Calculations Weihao Ge|Zeeshan Fazal|Eric Jakobsson University of Illinois at Urbana-Champaign;|Stanford University;|University of Illinois
http://dx.doi.org/10.1101/218321 2017-11-12 Biochemistry The effect of macromolecular crowding on single-round transcription by E. coli RNA polymerase SangYoon Chung|Eitan Lerner|Yan Jin|Soohong Kim|Yazan Alhadid|Logan Wilson Grimaud|Irina X. Zhang|Charles M. Knobler|William M. Gelbart|Shimon Weiss UCLA;|MIT
http://dx.doi.org/10.1101/218289 2017-11-12 Bioinformatics CC BY-NC-ND MCO: towards an ontology and unified vocabulary for a framework-based annotation of microbial growth conditions Victor H. Tierrafria|Citlalli Mejia-Almonte|Jose Manuel Camacho-Zaragoza|Heladia Salgado|Kevin Alquicira|Socorro Gama-Castro|Julio Collado-Vides Centro de Ciencias Genómicas, UNAM
http://dx.doi.org/10.1101/218107 2017-11-12 Neuroscience Genetic ablation of RhoA in adult microglia causes synapse and neuronal loss Renato Socodato|Camila C Portugal|Teresa Canedo|Joana Henriques|Sandra H Vaz|Joao D Magalhaes|Catia M Silva|Filipa I Baptista|Renata L Alves|Jose Nogueira|Vanessa Coelho-Santos|Ana P Silva|Roberto Paes-de-Carvalho|Ana Magalhaes|Teresa Summavielle|Cord Brakebusch|Ana M Sebastiao|Antonio F Ambrosio|Joao B Relvas IBMC and I3S;|IMM and Universidade de Lisboa;|IBILI and University of Coimbra;|Institute of Pharmacology and Experimental Therapeutics and University of Coimbra;|Fluminense Federal University;|BRIC - Kobenhavns Biocenter
http://dx.doi.org/10.1101/218297 2017-11-12 Ecology CC BY-NC-ND Robustness of early warning signals for catastrophic and non-catastrophic transitions Partha Sharathi Dutta|Yogita Sharma|Karen Abbott Indian Institute of Technology Ropar;|Case Western Reserve University
http://dx.doi.org/10.1101/218214 2017-11-12 Cancer Biology CC BY PPARD regulation in gastric progenitor cells drives gastric tumorigenesis in mice Xiangsheng Zuo|Yasunori Deguchi|Weiguo Xu|Daoyan Wei|Rui Tian|Weidong Chen|Micheline J. Moussalli|Yi Liu|Fei Mao|Min Xu|Yaying Yang|Shen Gao|Jonathan C. Jaoude|Fuyao Liu|Mihai Gagea|Russell Broaddus|Keping Xie|Imad Shureiqi The University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/216978 2017-11-12 Microbiology Dynamics of finely resolved, abundant symbiotic marine plankton and other interacting microbes via automated high-frequency sampling David M. Needham|Erin B. Fichot|Ellice Wang|Lyria Berdjeb|Jacob A. Cram|Cedric G. Fichot|Jed A. Fuhrman University of Southern California;|Boston University
http://dx.doi.org/10.1101/218719 2017-11-13 Plant Biology CC BY-ND Role of guard-cell ABA in determining maximal stomatal aperture and prompt vapor-pressure-deficit response Adi Yaaran|Boaz Negin|Menachem Moshelion The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/218537 2017-11-13 Cancer Biology The role of telomere shortening in carcinogenesis: A hybrid stochastic-deterministic approach Ignacio A Rodriguez-Brenes|Natalia Komarova|Dominik Wodarz University of California Irvine;|University of California, Irvine
http://dx.doi.org/10.1101/218008 2017-11-13 Bioinformatics Quadratic Programming Data Descriptors for Abnormal Beat Detection in ECG Recordings Fayyaz ul Amir Afsar Minhas Pakistan Institute of Engineering and Applied Sciences
http://dx.doi.org/10.1101/219113 2017-11-13 CC BY Bringing Diffuse X-ray Scattering Into Focus Michael Wall|Alexander M Wolff|James S Fraser Los Alamos National Laboratory;|UCSF
http://dx.doi.org/10.1101/218966 2017-11-13 CC BY New routes for PTP1B allosteric inhibition by multitemperature crystallography, fragment screening and covalent tethering Daniel A Keedy|Zachary B Hill|Justin T Biel|Emily Kang|T. Justin Rettenmaier|Jose Brandao-Neto|Nicholas M Pearce|Frank von Delft|James A. Wells|James S Fraser UCSF;|UCSf;|Diamond Light Source;|Utrecht University;|University of Oxford;|University of California, San Francisco
http://dx.doi.org/10.1101/218347 2017-11-13 CC BY-NC-ND AQMM: Enabling Absolute Quantification of Metagenome and Metatranscriptome Xiao-Tao Jiang|Ke Yu|Li-Guan Li|Xiao Le Yin|An Dong Li|Tong Zhang The University of Hong Kong;|Environmental Biotechnology Lab., Dept. of Civil Engineering, Univ. of Hong Kong
http://dx.doi.org/10.1101/219030 2017-11-13 CC BY-NC-ND Protein structures as shapes: Analysing protein structure variation using geometric morphometrics Jose Sergio Hleap|Christian Blouin McGill University;|Dalhousie University
http://dx.doi.org/10.1101/217216 2017-11-13 CC BY-NC-ND A new sequencing-based women's health assay combining self-sampling, HPV detection and genotyping, STI detection, and vaginal microbiome analysis Elisabeth M. Bik|Sara W. Bird|Juan P. Bustamante|Luis E. Leon|Pamela A. Nieto|Kwasi Addae|Victor Alegria-Mera|Cristian Bravo|Denisse Bravo|Juan P. Cardenas|Adam Caughey|Paulo C. Covarrubias|Jose Perez-Donoso|Graham Gass|Sarah L. Gupta|Kira Harman|Donna Marie B. Hongo|Juan C. Jimenez|Laurens Kraal|Felipe Melis-Arcos|Eduardo H. Morales|Amanda Morton|Camila F. Navas|Harold Nunez|Eduardo Olivares|Nicolas Ordenes-Aenishanslins|Francisco J. Ossandon|Richard Phan|Raul Pino|Katia Soto-Liebe|Ignacio Varas|Nathaniel A. Walton|Patricia Vera-Wolf|Daniel E. Almonacid|Audrey D. Goddard|Juan A. Ugalde|Jessica Richman|Zachary S. Apte uBiome Inc.;|uBiome Inc.; University of California - San Francisco
http://dx.doi.org/10.1101/219063 2017-11-13 The CD11a and EPCR marker combination simplifies and improves the purification of mouse hematopoietic stem cells Alborz Karimzadeh|Vanessa Scarfone|Connie Chao|Karin Grathwohl|John W. Fathman|David Fruman|Thomas Serwold|Matthew Inlay University of California Irvine;|Genomics Institute of the Novartis Research Foundation;|Joslin Diabetes Center
http://dx.doi.org/10.1101/218842 2017-11-13 LINE-2 transposable elements shape post-transcriptional gene regulation in the human brain Rebecca Petri|Per Ludvik Brattas|Marie E. Jonsson|Karolina Pircs|Johan Bengzon|Johan Jakobsson Lund University
http://dx.doi.org/10.1101/218255 2017-11-13 CC BY The NSIGHT1 Randomized Controlled Trial: Rapid Whole Genome Sequencing for Accelerated Etiologic Diagnosis in Critically Ill Infants Josh E Petrikin|Julie A Cakici|Michelle Clark|Laurel Willig|Nathaly Sweeney|Emily Farrow|Carol Saunders|Isabelle Thiffault|Neil Miller|Lee Zellmer|Suzanne Herd|Anne Holmes|Serge Batalov|Narayanana Veeraraghavan|Laurie Smith|David Dimmock|Steven Leeder|Stephen F Kingsmore Center for Pediatric Genomic Medicine, Dept. Pediatrics, Childrens Mercy, Kansas City, MO64108;|Rady Childrens Institute for Genomic Medicine, San Diego, CA 92123;|Center for Pediatric Genomic Medicine, Dept. Pediatrics, Childrens Mercy - Kansas City, MO64108;|Department of Pediatrics, University of North Carolina, Chapel Hill, NC 27599
http://dx.doi.org/10.1101/218859 2017-11-13 The Impact of 2017 ACC/AHA Guidelines on the Prevalence of Hypertension and Eligibility for Anti-Hypertensive Therapy in the United States and China Rohan Khera|Yuan Lu|Anshul Saxena|Khurram Nasir|Harlan M. Krumholz UT Southwestern Medical Center;|Yale University;|Baptist Health South Florida
http://dx.doi.org/10.1101/159541 2017-11-13 CC BY-NC-ND Viral Complexity: Amino acid co-evolution in viral genomes as a possible metric C. K. Sruthi|Meher K. Prakash JNCASR, Bangalore
http://dx.doi.org/10.1101/218867 2017-11-13 How Changes in Common Practice Can Improve the Quality of Biomedical Science Matthias Steinfath|Silvia Vogl|Norman Violet|Franziska Schwarz|Hans Mielke|Thomas Selhorst|Matthias Greiner|Gilbert Schoenfelder German Federal Institute for Risk Assessment (BfR)
http://dx.doi.org/10.1101/218800 2017-11-13 CC BY-NC-ND The study of antibody responses to influenza neuraminidase using a lentiviral pseudotype based ELLA Fabrizio Biuso|George Carnell|Emanuele Montomoli|Nigel James Temperton University of Siena;|University of Kent
http://dx.doi.org/10.1101/218313 2017-11-13 CC BY Fusicatenibacter Is Associated with Kefir Drinking Richard Sprague Airdoc, Inc.
http://dx.doi.org/10.1101/218503 2017-11-13 A semi-quantitative analysis of lupus arthritis using contrasted high-field MRI Eric Zollars|Russell Chapin Medical University of South Carolina
http://dx.doi.org/10.1101/219006 2017-11-13 CC BY-NC-ND Towards a unified resource for transcriptional regulation in Escherichia coli K-12: Incorporating high throughput-generated binding data within the classic framework of regulation of initiation of transcription in RegulonDB. Alberto Santos-Zavaleta|Mishael Sanchez-Perez|Heladia Salgado|David Alberto Velazquez-Ramirez|Socorro Gama-Castro|Victor H. Tierrafria|Steve Busby|Xin Fang|Bernhard Palsson|James Galagan|Julio Collado-Vides Centro de Ciencias Genómicas, UNAM;|School of Biosciences, University of Birmingham, United Kingdom;|Department of Bioengineering, University of California at San Diego;|Department of Biomedical Engineering, Boston University, Massachusetts
http://dx.doi.org/10.1101/218420 2017-11-13 CC BY-NC-ND Is dopamine D1 receptor availability related to social behavior? A positron emission tomography replication study Pontus Plaven-Sigray|Granville James Matheson|Petter Gustavsson|Per Stenkrona|Christer Halldin|Lars Farde|Simon Cervenka Karolinska Institutet
http://dx.doi.org/10.1101/219014 2017-11-13 CC BY-NC-ND Similarity corpus on microbial transcriptional regulation Oscar William Lithgow-Serrano|Socorro Gama-Castro|Cecilia Ishida-Gutierrez|Citlali Mejia-Almonte|Victor Tierrafria|Sara Martinez-Luna|Alberto Santos-Zavaleta|David Velazquez-Ramirez|Julio Collado-Vides Ctr. de Ciencias Genómicas, Univ. Nacl. Autó. de México
http://dx.doi.org/10.1101/218511 2017-11-13 CC BY-NC-ND BayCount: A Bayesian Decomposition Method for Inferring Tumor Heterogeneity using RNA-Seq Counts Fangzheng Xie|Mingyuan Zhou|Yanxun Xu Johns Hopkins University;|The University of Texas at Austin
http://dx.doi.org/10.1101/214908 2017-11-13 CC BY-NC-ND B-1a cells acquire their unique characteristics by bypassing the pre-BCR selection stage Jason B. Wong|Susannah L. Hewitt|Lynn M. Heltemes-Harris|Malay Mandal|Kristen Johnson|Klaus Rajewsky|Sergei B. Koralov|Marcus R. Clark|Michael A. Farrar|Jane A. Skok New York University Medical Center, New York University;|Masonic Cancer Center, University of Minnesota;|Gwen Knapp Center for Lupus and Immunology Research, University of Chicago;|Max Delbruck Center for Molecular Medicine
http://dx.doi.org/10.1101/218818 2017-11-13 Detecting pathogen exposure during the non-symptomatic incubation period using physiological data Lauren Milechin|Shakti Davis|Tejash Patel|Mark Hernandez|Greg Ciccarelli|Steven Schwartz|Siddharth Samsi|Lisa Hensley|Arthur Goff|John Trefry|Sara Johnston|Bret Purcell|Catherine Cabrera|Jack Fleischman|Albert Reuther|Franco Rossi|Anna Honko|William Pratt|Albert Swiston Massachusetts Institute of Technology;|MIT Lincoln Laboratory;|NIH Integrated Research Facility;|US Army Medical Research Institute of Infectious Diseases
http://dx.doi.org/10.1101/218925 2017-11-13 Maternal proteins that are phospho-regulated upon egg activation include crucial factors for oogenesis, egg activation and embryogenesis in Drosophila melanogaster Zijing Zhang|Amber R. Krauchunas|Stephanie Huang|Mariana F. Wolfner Cornell University
http://dx.doi.org/10.1101/218446 2017-11-13 CC BY-NC-ND Fine scale diversification of endolithic microbial communities in the hyper-arid Atacama Desert Victoria Meslier|Maria Cristina Casero|Micah Dailey|Jacek Wierzchos|Carmen Ascaso|Octavio Artieda|Jocelyne DiRuggiero Johns Hopkins University;|Museo Nacional de Ciencias Naturales, CSIC, Spain;|Universidad de Extremadura, Departamento Biologica Vegetal, Spain
http://dx.doi.org/10.1101/218222 2017-11-13 CC BY-NC-ND Limitations of proposed signatures of Bayesian confidence William T. Adler|Wei Ji Ma New York University
http://dx.doi.org/10.1101/218933 2017-11-13 CC BY Bin-Free Fitting of Probability Distributions Emphasizing DNA Histograms Nash Delta Rochman The Johns Hopkins Univeristy
http://dx.doi.org/10.1101/217521 2017-11-13 CC BY-NC-ND EpiGraph: an open-source platform to quantify epithelial organization Pablo Vicente-Munuera|Pedro Gomez-Galvez|Antonio Tagua|Marta Letran|Yanlan Mao|Luis M. Escudero Seville University;|MRC Laboratory for Molecular Cell Biology, University College London
http://dx.doi.org/10.1101/218826 2017-11-13 DNA Damage Induced Chromosomal Instability. Computational modeling view. Yuri Eidelman|Svetlana Slanina|Valentina Pyatenko|Sergey Andreev Institute of Biochemical Physics, Russian Academy of Sciences;|Inst. of Biochem. Physics, Russian Acad. of Sciences, Med. Radiological Res. Ctr.;|Inst. of Biochemical Physics, Russian Acad. of Sciences; Natl. Res. Nuclear Univ.
http://dx.doi.org/10.1101/218636 2017-11-13 PGC-1β prevents statin-associated myotoxicity in oxidative skeletal muscle Francois Singh|Joffrey Zoll|Urs Duthaler|Anne-Laure Charles|Gilles Laverny|Daniel Metzger|Bernard Geny|Stephan Kraehenbuehl|Jamal Bouitbir University of Dundee;|Universite de Strasbourg;|University Hospital Basel
http://dx.doi.org/10.1101/218891 2017-11-13 CC BY-NC-ND ADAM17 is the Principal Ectodomain Sheddase of the EGF-Receptor Ligand Amphiregulin Vishnu Hosur|Michelle L. Farley|Lisa M. Burzenski|Leonard D. Shultz|Michael V. Wiles The Jackson Laboratory
http://dx.doi.org/10.1101/218875 2017-11-13 Phenome-wide association studies (PheWAS) across large "real-world data" population cohorts support drug target validation Dorothee Diogo|Chao Tian|Christopher Franklin|Mervi Alanne-Kinnunen|Michael March|Chris Spencer|Ciara Vangjeli|Michael Weale|Hannele Mattsson|Elina Kilpelainen|Patrick Sleiman|Dermot Reilly|Joshua McElwee|Joseph Maranville|Arnaub Chatterjee|Aman Bhandari|Mary-Pat Reeve|Janna Hutz|Nan Bing|Sally John|Daniel MacArthur|Veikko Salomaa|Samuli Ripatti|Hakon Hakonarson|Mark Daly|Aarno Palotie|David Hinds|Peter Donnelly|Caroline Fox|Aaron Day-Williams|Robert Plenge|Heiko Runz Merck Sharp and Dohme, Boston, MA, USA;|23andMe, Inc., Mountain View, CA, USA;|Genomics Plc, Oxford, UK;|Institute for Molecular Medicine Finland, University of Helsinki, Helsinki, Finland;|The Children Hospital of Philadelphia and University of Pennsylvania;|-;|Eisai, Andover, MA, USA;|Pfizer, Cambridge, MA, USA;|Biogen, Research and Early Development, Cambridge, MA, USA;|Massachusetts General Hospital, Boston, MA, USA;|National Institute for Health and Welfare, Helsinki, Finland;|Broad Institute of MIT and Harvard, Cambridge, MA, USA;|Merck Sharp & Dohme, Boston, MA, USA
http://dx.doi.org/10.1101/218552 2017-11-13 Transcriptional landscape and regulatory roles of small non-coding RNAs in the oxidative stress response of the haloarchaeon Haloferax volcanii Diego R. Gelsinger|Jocelyne DiRuggiero Johns Hopkins University
http://dx.doi.org/10.1101/218479 2017-11-13 CC BY Regulation of vocal precision by local noradrenergic modulation of a motor nucleus Marc F Schmidt|Christopher M Glaze|Christina B Castelino|Steve P Bibu|Elvina Yau University of Pennsylvania, United States
http://dx.doi.org/10.1101/218768 2017-11-13 CHRAC/ACF Contribute to the Repressive Ground State of Chromatin Alessandro Scacchetti|Laura Brueckner|Dhawal Jain|Tamas Schauer|Xu Zhang|Frank Schnorrer|Bas van Steensel|Tobias Straub|Peter B. Becker Molecular Biology Div., Biomedical Ctr., Faculty of Medicine, LMU Munich, Germany;|Div. of Gene Regulation, Netherlands Cancer Institute, Amsterdam, The Netherlands;|School of Life Science and Engineering, Foshan University, China;|Developmental Biology Institute of Marseille, Aix Marseille Univ, CNRS, France;|Bioinformatic Unit, Biomedical Center, Faculty of Medicine, LMU Munich, Germany
http://dx.doi.org/10.1101/217190 2017-11-13 CC BY-NC Deciphering the histone code to build the genome structure Kirti Prakash|David Fournier Physico-Chimie Curie, Institut Curie, CNRS UMR 168, 75005 Paris, France;|Faculty of Biology & Center for Computational Sciences, Johannes Gutenberg Univ.
http://dx.doi.org/10.1101/218545 2017-11-13 CC BY-NC-ND MicroRNA-21 Regulates Metabolic Adaptation of Pathogenic TH17 cells and Controls Autoimmune Inflammation Xiang Yu|Li Wang|Chao Yao|Rong Qiu|Yang Ge Cui|Dai Dai|Jun Deng|Guo Jun Hou|Yan Wang|Jie Qian|Yang Ye Ou|Yu Ting Qin|Hai Bo Zhou|You Cun Qian|Yuan Jia Tang|Nan Shen Shanghai Institute of Rheumatology, Renji Hospital, Shanghai Jiao Tong University School of Medicine;|Institute of Health Sciences, Shanghai Institutes for Biological Sciences, CAS;|China-Australia Centre for Personalized Immunology, Renji Hospital
http://dx.doi.org/10.1101/218685 2017-11-13 Intestinal crypts recover rapidly from focal damage with coordinated motion of stem cells that is impaired by aging Jiahn Choi|Nikolai Rakhilin|Poornima Gadamsetty|Daniel J. Joe|Tahmineh Tabrizian|Steven M. Lipkin|Derek Huffman|Xiling Shen|Nozomi Nishimura Meinig School of Biomedical Engineering, Cornell University, Ithaca, New York;|Biomedical Engineering, Duke University, Durham, North Carolina;|Molecular Pharmacology & Medicine, Albert Einstein College of Medicine, Bronx;|Gastroenterology, Weill Cornell College of Medicine, New York, New York
http://dx.doi.org/10.1101/217414 2017-11-13 Impaired perceptual learning in Fragile X syndrome is mediated by parvalbumin neuron dysfunction in V1 and is reversible. Anubhuti Goel|Daniel Cantu|Janna Guilfoyle|Gunvant R. Chaudhari|Aditi Newadkar|Barbara Todisco|Diego de Alba|Nazim Kourdougli|Lauren M. Schmitt|Ernest Pedapati|Craig A. Erickson|Carlos Portera-Cailliau University of California Los Angeles;|University of Cincinnati College of Medicine
http://dx.doi.org/10.1101/216291 2017-11-13 CC BY-NC-ND Characterization of Glycosylphosphatidylinositol Biosynthesis Defects by Clinical Features, Flow Cytometry, and Automated Image Analysis Alexej Knaus|Jean Tori Pantel|Manuela Pendziwiat|Nurulhuda Hajjir|Max Zhao|Tzung-Chien Hsieh|Max Schubach|Yaron Gurovich|Nicole Fleischer|Marten Jaeger|Sebastian Koehler|Hiltrud Muhle|Christian Korff|Rikke Steensbjerre Moller|Allan Bayat|Patrick Calvas|Nicolas Chassaing|Hannah Warren|Steven A. Skinner|Raymond Louie|Christina Evers|Marc Bohn|Hans-Juergen Christen|Myrthe van den Born|Ewa Obersztyn|Agnieszka Charzewska|Milda Endziniene|Fanny Kortuem|Natasha Brown|Peter Nick Robinson|Helenius Jurgen Schelhaas|Yvonne Weber|Ingo Helbig|Stefan Mundlos|Denise Horn|Peter Michael Krawitz Berlin-Brandenburg School for Regenerative Therapies, Charite Berlin Univ. of Med.;|Inst. for Medical Genetics & Human Genetics, Charite Universitaetsmedizin Berlin;|Dept. of Neuropediatrics, Univ. Medical Center Schleswig Holstein, Kiel, Germany;|FDNA, MA 02111 Boston, USA;|Dept. of Neuropediatrics, University Medical Ctr. Schleswig Holstein, Kiel, Germany;|Unite de Neuropediatrie, Universite de Geneve, Geneve, Switzerland;|Department of Pediatrics, University Hospital of Hvidovre, Denmark;|Service de Genetique Medicale, Hopital Purpan, CHU, Toulouse, France;|Greenwood Genetic Center, Greenwood, USA;|Genetische Poliklinik, Universitaetsklinik Heidelberg, Heidelberg, Germany;|St. Bernward Krankenhaus, Hildesheim, Germany;|Kinderkrankenhaus auf der Bult, Hannoversche Kinderheilanstalt, Hannover;|Department for Clinical Genetics, Erasmus MC, Rotterdam, Netherlands;|Institute of Mother and Child Department of Molecular Genetics, Warsaw, Poland;|Neurology Department, Lithuanian University of Health Sciences, Kaunas, Lithuania;|Inst. of Human Genetics, Univ. Medical Ctr. Hamburg-Eppendorf, Hamburg;|Victorian Clin. Genet. Services, Royal Childrens Hospital, MCRI, Parkville, Australia;|The Jackson Laboratory for Genomic Medicine, Farmington, USA;|Departement of Neurology, Academic Center for Epileptology, Heeze, Netherlands;|Dept. of Neurology, Epileptology and Hertie Institute, University Tuebingen, Germany;|Pediatric Neurology, Childrens Hospital of Philadelphia, Philadelphia, USA;|Inst. for Medical Genetics & Human Genetics, Charite Berlin University of Medicine;|Institute for Genomic Statistics & Bioinformatics, University Hospital Bonn, Germany
http://dx.doi.org/10.1101/218438 2017-11-13 One-step generation of monoclonal B cell receptor mice capable of class switch recombination and somatic hypermutation Johanne T. Jacobsen|Luka Mesin|Styliani Markoulaki|Cecilia B. Cavazzoni|Djenet Bousbaine|Rudolf Jaenisch|Gabriel D. Victora Laboratory of Lymphocyte Dynamics, Rockefeller University, New York, NY, USA;|Whitehead Institute for Biomedical Research, Cambridge, MA, USA;|Harvard Children's Hospital, Boston, MA, USA
http://dx.doi.org/10.1101/218586 2017-11-13 CC BY Clinker: visualising fusion genes detected in RNA-seq data Breon M Schmidt|Nadia M Davidson|Anthony DK Hawkins|Ray Bartolo|Ian J Majewski|Paul G Ekert|Alicia Oshlack Murdoch Children's Research Institute;|Murdoch Childrens Research Insitute;|The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/218784 2017-11-13 CC BY Explanation implies causation? Leslie Myint|Jeffrey T. Leek|Leah R. Jager Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/218792 2017-11-13 CC BY Structure of transmembrane helix 8 and possible membrane defects in CFTR Valentina Corradi|Ruo-Xu Gu|Paola Vergani|D. Peter Tieleman University of Calgary;|University College London
http://dx.doi.org/10.1101/218750 2017-11-13 CC BY CDC20B is required for deuterosome-mediated centriole production in multiciliated cells Diego R. Revinski|Laure-Emmanuelle Zaragosi|Camille Boutin|Sandra Ruiz-Garcia|Marie Deprez|Olivier Rosnet|Virginie Thome|Olivier Mercey|Agnes Paquet|Nicolas Pons|Brice Marcet|Laurent Kodjabachian|Pascal Barbry Aix Marseille Univ, CNRS, IBDM;|Université Côte d'Azur, CNRS, IPMC
http://dx.doi.org/10.1101/218834 2017-11-13 CC BY-NC-ND Ant nurse workers exhibit behavioral and transcriptomic specialization on larval stage but not caste Justin T. Walsh|Michael R. Warner|Adrian Kase|Benjamin J. Cushing|Timothy A. Linksvayer University of Pennsylvania
http://dx.doi.org/10.1101/218156 2017-11-13 CC BY-NC-ND Easy quantification of template-directed CRISPR/Cas9 editing Eva Karina Brinkman|Arne Nedergaard Kousholt|Tim Harmsen|Christ Leemans|Tao Chen|Jos Jonkers|Bas van Steensel Netherlands Cancer Institute
http://dx.doi.org/10.1101/217810 2017-11-13 Neuroscience CC BY-NC Acute fluoxetine differently affects aggressive display in zebrafish phenotypes Hellen P. Barbosa|Monica G. Lima|Caio Maximino Universidade do Estado do Para, Campus VIII;|Universidade Federal do Sul e Sudeste do Para
http://dx.doi.org/10.1101/218461 2017-11-13 Microbiology CC BY Antimicrobial resistant Klebsiella pneumoniae carriage and infection in specialized geriatric care wards linked to acquisition in the referring hospital Claire L Gorrie|Mirjana Mirceta|Ryan R Wick|Louise M Judd|Kelly L Wyres|Nicholas R Thomson|Richard A Strugnell|Nigel F Pratt|Jill F Garlick|Kerrie M Watson|Peter C Hunter|Steve A McGloughlin|Denis W Spelman|Adam W J Jenney|Kathryn E Holt University of Melbourne;|Alfred Health;|Sanger Institute
http://dx.doi.org/10.1101/218727 2017-11-13 Neuroscience CC BY-NC-ND Online detection of auditory attention with mobile EEG: closing the loop with neurofeedback Rob Zink|Stijn Proesmans|Alexander Bertrand|Sabine Van Huffel|Maarten De Vos KU Leuven;|Oxford University
http://dx.doi.org/10.1101/218610 2017-11-13 Neuroscience Age-dependent neurodegeneration and organelle transport deficiencies in mutant TDP43 patient-derived neurons are independent of TDP43 aggregation Nicole Kreiter|Arun Pal|Xenia Lojewski|Philippe Corcia|Maximilian Naujock|Peter Reinhardt|Jared Sterneckert|Susanne Petri|Florian Wegner|Alexander Storch|Andreas Hermann Department of Neurology, Technische Universitaet Dresden;|Centre expert pour la SLA et les maladies du motoneurone CHU Tours;|Department of Neurology, Hannover Medical School, Hannover, Germany;|Center for Regenerative Therapies Dresden, Technische Universitaet Dresden;|Dept. of Neurology, Tech. Univ. Dresden, DZNE & CRTD Dresden, Univ. Rostock
http://dx.doi.org/10.1101/218701 2017-11-13 Genomics CC BY-NC-ND Comparing miRNA structure of mirtrons and non-mirtrons Igor I. Titov|Pavel S. Vorozheykin The Federal Research Center Institute of Cytology and Genetics;|Novosibirsk State University
http://dx.doi.org/10.1101/218677 2017-11-13 Microbiology CC BY-NC-ND MapZ forms a stable ring structure that acts as a track for FtsZ treadmilling in Streptococcus mutans Yongliang Li|Shipeng Shao|Xiao Xu|Xiaodong Su|Yujie Sun|Shicheng Wei Central Lab./Dept. of Oral & Maxillofacial Surgery, School & Hospital of Stomatology;|State Key Lab. of Membrane Biol., Biodynamic Optical Imaging Ctr., School of Life;|State Key Lab. of Protein & Plant Gene Res., School of Life Sciences, Peking Univ.
http://dx.doi.org/10.1101/219436 2017-11-14 CC BY-NC-ND A proof-of-principle study of the effect of combined haloperidol and levodopa administration on working memory-related brain activation in humans Peter van Ruitenbeek|Dennis Hernaus|Mitul Ashok Mehta Neuropsychol. & Psychopharmacol., Fac. of Psychol. & Neurosci., Maastricht Univ.;|University of Maryland School of Medicine, Department of Psychiatry; MPRC;|Ctr. for Neuroimaging Sciences, Inst. of Psychiatry, Psychology & Neurosci., KCL
http://dx.doi.org/10.1101/218883 2017-11-14 CC BY-NC-ND Estimating heritability without environmental bias Alexander I. Young|Michael L. Frigge|Daniel F. Gudbjartsson|Gudmar Thorleifsson|Gyda Bjornsdottir|Patrick Sulem|Gisli Masson|Unnur Thorsteinsdottir|Kari Stefansson|Augustine Kong University of Oxford;|deCODE genetics;|deCOGE genetics;|deCODE Genetics
http://dx.doi.org/10.1101/219261 2017-11-14 The nature of nurture: effects of parental genotypes Augustine Kong|Gudmar Thorleifsson|Michael L. Frigge|Bjarni Vilhjalmsson|Alexander I. Young|Thorgeir E. Thorgeirsson|Stefania Benonisdottir|Asmundur Oddsson|Bjarni V. Halldorsson|Gisli Masson|Daniel F. Gudbjartsson|Agnar Helgason|Gyda Bjornsdottir|Unnur Thorsteinsdottir|Kari Stefansson Big Data Inst., Li Ka Shing Ctr for Health Information & Discovery, Univ. of Oxford;|deCODE genetics, Inc.;|Bioinformatics Research Centre, Aarhus University;|University of Oxford;|deCODE genetics, Inc
http://dx.doi.org/10.1101/219220 2017-11-14 The function of the prereplicative complex and SCF complex components during Drosophila wing development Hidetsugu Kohzaki Shumei University
http://dx.doi.org/10.1101/219204 2017-11-14 CC BY-NC-ND Discrete and continuum approximations for collective cell migration in a scratch assay with cell size dynamics Oleksii M Matsiaka|Catherine Penington|Ruth E Baker|Matthew Simpson Queensland University of Technology;|Macquarie University;|University of Oxford
http://dx.doi.org/10.1101/219444 2017-11-14 Cross-species systems analyses reveal a conserved brain transcriptional response to social challenge Michael C. Saul|Charles Blatti|Wei Yang|Syed Abbas Bukhari|Hagai Y. Shpigler|Joseph M. Troy|Christopher H. Seward|Laura G. Sloofman|Sriram Chandrasekaran|Alison M. Bell|Lisa J. Stubbs|Gene E. Robinson|Sihai Dave Zhao|Saurabh Sinha University of Illinois at Urbana-Champaign;|Mount Sinai Health System;|University of Michigan
http://dx.doi.org/10.1101/218735 2017-11-14 CC BY-NC-ND Combined flow cytometry and high throughput image analysis for the study of essential genes in Caenorhabditis elegans Blanca Hernando-Rodriguez|Annmary Paul Erinjeri|Maria Jesus Rodriguez-Palero|Val Millar|Sara Gonzalez-Hernandez|Maria Olmedo|Bettina Schulze|Ralf Baumeister|Manuel J. Munoz|Peter Askjaer|Marta Artal-Sanz Andalusian Ctr. for Developmental Biology, CSIC/JA, Univ. Pablo de Olavide, Seville;|Target Discovery Institute, Nuffield Department of Medicine, University of Oxford;|Cell and Developmental Biology Area, CNIC Carlos III, Madrid, Spain;|Department of Genetics, University of Seville, Seville, Spain;|Ctr. for Biological Signalling Studies & ZBMZ Ctr., Albert-Ludwigs-Univ. of Freiburg
http://dx.doi.org/10.1101/218990 2017-11-14 CC BY-NC-ND The necessary emergence of structural complexity in self-replicating RNA populations. Carlos G. Oliver|Vladimir Reinharz|Jerome Waldispuhl McGill University;|Department of Computer Science, Ben-Gurion University, Beer-Sheva, Israel;|School of Computer Science, McGill University, Montreal, Canada
http://dx.doi.org/10.1101/219410 2017-11-14 An epithelial-mesenchymal-amoeboid transition gene signature reveals molecular subtypes of breast cancer progression and metastasis Amin Emad|Tania Ray|Tor W. Jensen|Meera Parat|Rachael Natrajan|Saurabh Sinha|Partha S. Ray University of Illinois at Urbana-Champaign, Urbana, IL, USA;|Onconostic Technologies, Inc., Champaign, Illinois, USA;|University of Illinois at Urbana-Champaign, USA;|Breast Cancer Now Toby Robins Research Ctr., Inst. of Cancer Research, London;|HCG Oncology Cancer Centre, Surgical Oncology, Kolkata, India
http://dx.doi.org/10.1101/219196 2017-11-14 CC BY Peak gamma frequency and cortical laminar processing are modified across the healthy menstrual cycle Rachael L Sumner|Rebecca L McMillan|Alexander D Shaw|Krish D Singh|Fred Sundram|Suresh Muthukumaraswamy The University of Auckland;|Cardiff University
http://dx.doi.org/10.1101/219287 2017-11-14 Bioinformatics CC BY-NC-ND Combining RNA-seq data and homology-based gene prediction for plants, animals and fungi Jens Keilwagen|Frank Hartung|Michael Paulini|Sven O. Twardziok|Jan Grau Institute for Biosafety in Plant Biotechnology, Julius Kuehn-Institut;|European Molecular Biology Laboratory, European Bioinformatics Institute;|Plant Genome and Systems Biology, Helmholtz Center Munich;|Institute of Computer Science, Martin Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/219378 2017-11-14 Plant Biology CC BY 3D label-free imaging and analysis of Pinus pollen grains using optical diffraction tomography Geon Kim|SangYun Lee|Seungwoo Shin|YongKeun Park KAIST
http://dx.doi.org/10.1101/219311 2017-11-14 Neuroscience CC BY-ND Hyperedge bundling: A practical solution to spurious interactions in MEG/EEG source connectivity analyses Sheng H. Wang|Muriel Lobier|Felix Siebenhuhner|Satu Palva|J. Matias Palva University of Helsinki
http://dx.doi.org/10.1101/219402 2017-11-14 Immunology CC BY-ND Potent and Selective Antitumor Activity of a T-Cell Engaging Bispecific Antibody Targeting a Membrane-Proximal Epitope of ROR1 Junpeng Qi|Xiuling Li|Haiyong Peng|HaJeung Park|Christoph Rader The Scripps Research Institute
http://dx.doi.org/10.1101/219428 2017-11-14 Causal gene inference by multivariate mediation analysis in Alzheimer's disease Yongjin Park|Abhishek Sarkar|Liang He|Jose Davilla-Velderrain|Philip L. De Jager|Manolis Kellis Massachusetts Institute of Technology;|University of Chicago;|Columbia University
http://dx.doi.org/10.1101/219238 2017-11-14 CC BY Singleton Variants Dominate the Genetic Architecture of Human Gene Expression Ryan D. Hernandez|Lawrence H. Uricchio|Kevin Hartman|Jimmie Ye|Andrew Dahl|Noah Zaitlen UCSF;|Stanford University
http://dx.doi.org/10.1101/219618 2017-11-14 CC BY Rapid, modular, and cost-effective generation of donor DNA constructs for CRISPR-based gene knock-in Yi-Jiun Chen|Weikang Wang|Xiao-Jiun Tian|Daniel E. Lefever|David A. Taft|Jianhua Xing University of Pittsburgh
http://dx.doi.org/10.1101/219485 2017-11-14 Genetic Single Neuron Anatomy reveals fine granularity of cortical interneuron subtypes Xiaojun Wang|Jason Tucciarone|Siqi Jiang|Fangfang Yin|Bor-shuen Wang|Dingkang Wang|Yao Jia|Xueyan Jia|Yuxin Li|Tao Yang|Zhengchao Xu|Masood A. Akram|Yusu Wang|Shaoqun Zeng|Giorgio A. Ascoli|Partha Mitra|Hui Gong|Qingming Luo|Z. Josh Huang Huazhong University of Science and Technology;|Cold Spring Harbor Laboratory;|Ohio State University;|George Mason University
http://dx.doi.org/10.1101/219568 2017-11-14 CC BY-NC-ND High-throughput sequencing of murine immunoglobulin heavy chain transcripts using single side unique molecular identifiers on an Ion Torrent PGM Jean-Philippe Buerckert|William J. Faison|Axel R. S. X. Dubois|Regina Sinner|Oliver Hunewald|Anke Wienecke-Baldacchino|Anne Brieger|Claude P. Muller Luxembourg Institute of Health
http://dx.doi.org/10.1101/219394 2017-11-14 CC BY-NC-ND Advances in computer-assisted syndrome recognition and differentiation in a set of metabolic disorders Jean Tori Pantel|Max Zhao|Martin Atta Mensah|Nurulhuda Hajjir|Tzung-Chien Hsieh|Yair Hanani|Nicole Fleischer|Tom Kamphans|Stefan Mundlos|Yaron Gurovich|Peter M. Krawitz Inst. for Medical Genetics & Human Genetics, Charite University Medicine, Berlin;|FDNA, Boston, USA;|GeneTalk, Bonn, Germany;|Inst. for Genomic Statistics & Bioinformatics, Rheinische Friedrich-Wilhelms-Univ.
http://dx.doi.org/10.1101/219535 2017-11-14 Histone deacetylation promotes transcriptional silencing at facultative heterochromatin Beth Rosina Watts|Sina Wittmann|Maxime Wery|Camille Gautier|Krzysztof Kus|Dong-Hyuk Heo|Cornelia Kilchert|Antonin Morillon|Lidia Vasiljeva Department of Biochemistry, University of Oxford;|Institut Curie, Paris;|Institut fur Biochemie, Giessen,
http://dx.doi.org/10.1101/219675 2017-11-14 CC BY-NC-ND Automated high throughput animal DNA metabarcode classification Teresita M. Porter|Mehrdad Hajibabaei University of Guelph
http://dx.doi.org/10.1101/213371 2017-11-14 Whole-transcriptome causal network inference with genomic and transcriptomic data Lingfei Wang|Tom Michoel University of Edinburgh
http://dx.doi.org/10.1101/219725 2017-11-14 CC BY Smg5 is required for multiple nonsense-mediated mRNA decay pathways in Drosophila Jonathan O. Nelson|Dominique Foerster|Kimberly Frizzell|Stefan Luschnig|Mark M. Metzstein University of Utah;|University of Munster
http://dx.doi.org/10.1101/219105 2017-11-14 Structure and function of accessory Sec proteins involved in the adhesin export pathway of Streptococcus gordonii Yu Chen|Barbara A. Bensing|Ravin Seepersaud|Wei Mi|Maofu Liao|Philip D. Jeffrey|Asif Shajahan|Roberto N. Sonon|Parastoo Azadi|Paul M. Sullam|Tom A. Rapoport Harvard Medical School;|San Francisco Veteran Affairs Medical Center; University of California San Francisco;|Princeton University, Department of Molecular Biology;|University of Georgia, Complex Carbohydrate Research Center;|Howard Hughes Medical Institute, Harvard Medical School
http://dx.doi.org/10.1101/219469 2017-11-14 CC BY-NC-ND Species abundance plays a dominant role in local and regional extinctions in freshwater communities and allows the identification of selective extinctions Ryan J. Almeida|Elizabeth G. Biro|Lauren M. Woods|Kevin G. Smith Davidson College;|Washington University in St. Louis;|Northwestern University
http://dx.doi.org/10.1101/219592 2017-11-14 CC BY-NC-ND COLT-Viz: Interactive Visualization of Antibody Lineage Trees Chenfeng He|Ben Shogo Wendel|Jun Xiao|Keke Chen|Ning Jiang University of Texas at Austin;|McKetta Department of Chemical Engineering, The University of Texas at Austin;|ImmuDX LLC, Austin, TX 78750, USA;|Department of Computer Science and Engineering, Wright State University;|Department of Biomedical Engineering, The University of Texas at Austin
http://dx.doi.org/10.1101/219642 2017-11-14 The Habc Domain of Syntaxin 3 is a Ubiquitin Binding Domain with Specificity for K63-Linked Poly-Ubiquitin Chains Adrian J. Giovannone|Elena Reales|Pallavi Bhattaram|Sirpi Nackeeran|Adam B. Monahan|Rashid Syed|Thomas Weimbs University of California, Santa Barbara
http://dx.doi.org/10.1101/219329 2017-11-14 The Brain Dynamics Toolbox for Matlab Stewart Heitmann|Matthew J. Aburn|Michael Breakspear QIMR Berghofer Medical Research Institute
http://dx.doi.org/10.1101/219576 2017-11-14 Quantifying Immune-Based Counterselection of Somatic Mutations Fan Yang|Dae-Kyum Kim|Hidewaki Nakagawa|Shuto Hayashi|Seiya Imoto|Lincoln Stein|Frederick Roth University of Toronto and Stanford University;|Lunenfeld-Tanenbaum Research Institute, Mt. Sinai Hospital, Toronto;|RIKEN Center for Integrative Medical Sciences, Tokyo;|The Institute of Medical Science, The University of Tokyo;|Ontario Institute of Cancer Research, Toronto;|University of Toronto and Mt. Sinai Health System
http://dx.doi.org/10.1101/218776 2017-11-14 CC BY-NC-ND The unrealized potential of herbaria in global change biology Emily K. Meineke|Charles C. Davis|T. Jonathan Davies Harvard University Herbaria;|McGill University
http://dx.doi.org/10.1101/219667 2017-11-14 CC BY-NC-ND Modeling Enhancer-Promoter Interactions with Attention-Based Neural Networks Weiguang Mao|Dennis Kostka|Maria Chikina University of Pittsburgh
http://dx.doi.org/10.1101/219519 2017-11-14 CC BY-NC-ND The dynamics of starvation and recovery Justin D. Yeakel|Christopher P. Kempes|Sidney Redner University of California Merced;|Santa Fe Institute
http://dx.doi.org/10.1101/219527 2017-11-14 CC BY-NC-ND Tracking wakefulness as it fades: micro-measures of Alertness Sridhar R. Jagannathan|Alejandro E. Nassar|Barbara Jachs|Olga V. Pustovaya|Corinne A. Bareham|Tristan A. Bekinschtein University of Cambridge;|Southern Federal University
http://dx.doi.org/10.1101/219477 2017-11-14 CC BY-NC-ND Male age is associated with extra-pair paternity, but not with extra-pair mating behaviour Antje Girndt|Charlotte Wen Ting Chng|Terry Burke|Julia Schroeder Max Planck Institute for Ornithology;|Imperial College London;|University of Sheffield
http://dx.doi.org/10.1101/219501 2017-11-14 CC BY Complementary, High-throughput Methods for Creating Multi-dimensional, PEG-based Biomaterials Elizabeth A. Brooks|Lauren E. Jansen|Maria F. Gencoglu|Annali M. Yurkevicz|Shelly Peyton University of Massachusetts Amherst
http://dx.doi.org/10.1101/201178 2017-11-14 Genomics CC BY Scaling accurate genetic variant discovery to tens of thousands of samples Ryan Poplin|Valentin Ruano-Rubio|Mark A. DePristo|Tim J. Fennell|Mauricio O. Carneiro|Geraldine A. Van der Auwera|David E. Kling|Laura D. Gauthier|Ami Levy-Moonshine|David Roazen|Khalid Shakir|Joel Thibault|Sheila Chandran|Chris Whelan|Monkol Lek|Stacey Gabriel|Mark J. Daly|Benjamin Neale|Daniel G. MacArthur|Eric Banks Broad Institute;|Broad Institute, Massachusetts General Hospital
http://dx.doi.org/10.1101/218206 2017-11-14 Molecular Biology CC BY-NC-ND Mutations in C11ORF70 cause primary ciliary dyskinesia with randomization of left/right body asymmetry due to outer and inner dynein arm defects Inga M Hoben|Rim Hjeij|Heike Olbrich|Gerard W Dougherty|Tabea Menchen|Isabella Aprea|Diana Frank|Petra Pennekamp|Bernd Dworniczak|Julia Wallmeier|Johanna Raidt|Kim G Nielsen|Maria C Philipsen|Francesca Santamaria|Laura Venditto|Israel Amirav|Freerk Prenzel|Kaman Wu|Miriam Schmidts|Niki T Loges|Heymut Omran Department of General Pediatrics, University Childrens Hospital Muenster, 48149 Muenster, Germany;|Department of Pediatrics and Adolescent Medicine, Copenhagen University Hospital, Denmark;|Department of Translational Medical Sciences, Federico II University, 80131 Naples, Italy;|Department of Pediatrics, University of Alberta, T6G 1C9 Edmonton, Alberta, Canada;|Clinic for Pediatrics and Adolescent Medicine, University Hospital Leipzig, 04103 Leipzig;|Human Genetics Department, Radboud University Medical Center, The Netherlands
http://dx.doi.org/10.1101/217133 2017-11-14 Immunology T helper cells modulate intestinal stem cell renewal and differentiation Moshe Biton|Adam Haber|Semir Beyaz|Noga Rogel|Christopher Smillie|Karthik Shekhar|Alexandra Schnell|Zuojia Chen|Chuan Wu|Jose Ordovas-Montanes|David Alvarez|Rebecca H. Herbst|Itay Tirosh|Grace Burgin|Danielle Dionne|Michael E. Xifaras|Mei Zhang|Alex K. Shalek|Ulrich H. von Andrian|Daniel B. Graham|Orit Rozenblatt-Rosen|Hai Ning Shi|Vijay Kuchroo|Omer Yilmaz|Aviv Regev|Ramnik J. Xavier Broad Institute and MGH, Harvard;|Broad Institute;|MIT and Harvard;|BWH, Harvard;|Broad Institute, MIT and Harvard;|HMS, Harvard;|Broad Institute and HMS, Harvard;|MIT;|MGH, Harvard;|BWH, Harvard and Broad Institute;|MIT, MHG and Broad Institute
http://dx.doi.org/10.1101/219337 2017-11-14 Evolutionary Biology CC BY-NC-ND Gene regulatory network architecture in different developmental contexts influences the genetic basis of morphological evolution Sebastian Kittelmann|Alexandra D. Buffry|Isabel Almudi|Marianne Yoth|Gonzalo Sabaris|Franziska A. Franke|Juan Pablo Couso|Maria D. S. Nunes|Nicolas Frankel|Jose Luis Gomez-Skarmeta|Jose Pueyo-Marques|Saad Arif|Alistair P. McGregor Oxford Brookes University;|Universidad Pablo de Olavide;|Universidad de Buenos Aires;|University of Sussex
http://dx.doi.org/10.1101/219188 2017-11-14 Bioinformatics Beyond pseudotime: Following T-cell maturation in single-cell RNAseq time series David S. Fischer|Anna K. Fiedler|Eric Kernfeld|Ryan M. J. Genga|Jan Hasenauer|Rene Maehr|Fabian J. Theis HelmholzZentrum Munich, Institute of Computational Biology, Neuherberg, Germany;|Program in Molec. Med., Diabetes Ctr. of Excellence, Univ. of Mass. Med. School
http://dx.doi.org/10.1101/218958 2017-11-14 Immunology CC BY-NC-ND Reduced cellular diversity and an altered basal progenitor cell state inform epithelial barrier dysfunction in human type 2 immunity Jose Ordovas-Montanes|Daniel F Dwyer|Sarah K Nyquist|Kathleen M Buchheit|Chaarushena Deb|Marc H Wadsworth|Travis K Hughes|Samuel W Kazer|Eri Yoshimoto|Neil Bhattacharyya|Howard R Katz|Tanya M Laidlaw|Joshua A Boyce|Nora A Barrett|Alex K Shalek MIT, Broad Institute, Ragon Institute;|Brigham and Women′s Hospital
http://dx.doi.org/10.1101/219741 2017-11-15 CC BY-NC-ND EEG Decoding Reveals the Temporal Dynamics and Functional Relevance of Goal-Relevant Representations Jason Hubbard|Atsushi Kikumoto|Ulrich Mayr University of Oregon
http://dx.doi.org/10.1101/218388 2017-11-15 Genome-wide polygenic score to identify a monogenic risk-equivalent for coronary disease Amit V Khera|Marc Chaffin|Krishna Aragam|Connor A Emdin|Derek Klarin|Mary Haas|Carolina Roselli|Pradeep Natarajan|Sekar Kathiresan Massachusetts General Hospital;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/219840 2017-11-15 Effects of polyploidy on response of Dunaliella salina to salinity Hakimeh Mansouri|Fatemeh Soltani Nezhad Shahid Bahonar University of Kerman
http://dx.doi.org/10.1101/219279 2017-11-15 CC BY Voluntary control of illusory contour formation William Harrison|Reuben Rideaux University of Cambridge
http://dx.doi.org/10.1101/217836 2017-11-15 CC BY-ND Systematic analysis of the molecular architecture of endocytosis reveals a nanoscale actin nucleation template that drives efficient vesicle formation Markus Mund|Johannes Albertus van der Beek|Joran Deschamps|Serge Dmitrieff|Jooske Louise Monster|Andrea Picco|Francois Nedelec|Marko Kaksonen|Jonas Ries European Molecular Biology Laboratory (EMBL);|Department of Biochemistry and NCCR Chemical Biology, University of Geneva
http://dx.doi.org/10.1101/217315 2017-11-15 Bioinformatics CC BY-NC-ND BURRITO: An interactive multi-omic tool for visualizing taxa-function relationships in microbiome data Colin P. McNally|Alexander Eng|Cecilia Noecker|William C. Gagne-Maynard|Elhanan Borenstein University of Washington;|Institute for Health Metrics and Evaluation
http://dx.doi.org/10.1101/219782 2017-11-15 Bioinformatics Metaproteomics of colonic microbiota unveils discrete protein functions among colitic mice and control groups Clara Moon|Gregory S. Stupp|Andrew I. Su|Dennis W. Wolan The Scripps Research Institute
http://dx.doi.org/10.1101/219766 2017-11-15 Neuroscience No changes in parieto-occipital alpha during neural phase locking to visual quasi-periodic theta-, alpha-, and beta-band stimulation Christian Keitel|Christopher SY Benwell|Gregor Thut|Joachim Gross University of Glasgow
http://dx.doi.org/10.1101/219758 2017-11-14 Developmental Biology Hox genes pattern the primary body axis of an anthozoan cnidarian prior to gastrulation Timothy Q. DuBuc|Thomas B. Stephenson|Amber N. Rock|Mark Q. Martindale National University of Ireland Galway, Ireland;|University of Florida;|Bowdoin College
http://dx.doi.org/10.1101/219790 2017-11-14 Systems Biology Whole-cell scale dynamic organization of lysosomes revealed by spatial statistical analysis Qinle Ba|Guruprasad Raghavan|Kirill Kiselyov|Ge Yang Carnegie Mellon University;|University of Pittsburgh
http://dx.doi.org/10.1101/220160 2017-11-15 Embryonic circular RNAs at tandem duplicated genes in zebrafish present new paradigm in gene expression Vanessa Chong-Morrison|Tatjana Sauka-Spengler University of Oxford
http://dx.doi.org/10.1101/220178 2017-11-15 CC BY-NC-ND Actomyosin contractility modulates Wnt signaling through adherens junction stability Eric T. Hall|Elizabeth A. Hoesing|Endre D. Sinkovics|Esther M. Verheyen Simon Fraser University
http://dx.doi.org/10.1101/220111 2017-11-15 CC BY-NC-ND Transgenerational Epigenetic Inheritance Factors Localize to Spatially and Temporally Ordered Liquid Droplet Assemblages Gang Wan|Brandon Fields|George Spracklin|Carolyn Phillips|Scott Kennedy Department of Genetics, Harvard Medical School, Boston, MA 02115, USA;|Dept. of Biological Sciences, University of Southern California, Los Angeles, CA
http://dx.doi.org/10.1101/220228 2017-11-15 Optimizing gene expression by adapting splicing Idan Frumkin|Ido Yofe|Raz Bar-Ziv|Yoav Voichek|Yitzhak Pilpel Weizmann Institute of Science
http://dx.doi.org/10.1101/219253 2017-11-15 CC BY-ND Quantitative imaging of chromatin decompaction in living cells Elisa Dultz|Roberta Mancini|Guido Polles|Pascal Vallotton|Frank Alber|Karsten Weis ETH Zurich;|University of Southern California
http://dx.doi.org/10.1101/219931 2017-11-15 Physiology Multiple spin echos in cerebral dynamics: Evidence for spontaneous symmetry breaking during pulsation Christian Kerskens|David Lopez Perez Trinity College Institute Neuroscience, Trinity College Dublin;|Faculty of Psychology, University of Warsaw, Warsaw, Poland
http://dx.doi.org/10.1101/219972 2017-11-15 Bioinformatics CC BY-NC-ND Simultaneous Determination of Protein Structure and Dynamics Using Cryo-Electron Microscopy Massimiliano Bonomi|Riccardo Pellarin|Michele Vendruscolo University of Cambridge;|Institut Pasteur
http://dx.doi.org/10.1101/219923 2017-11-15 Neuroscience CC BY Widespread shorter cortical adaptation in dyslexia Sagi Jaffe-Dax|Eva Kimel|Merav Ahissar Princeton University, United States;|The Hebrew University of Jerusalem, Israel
http://dx.doi.org/10.1101/219865 2017-11-15 Biophysics Combining optical imaging of cleared tissue with mathematical modelling to predict drug delivery and therapeutic response Angela d'Esposito|Paul Sweeney|Morium Ali|Magdy Saleh|Rajiv Ramasawmy|Thomas A Roberts|Adrien Desjardins|Mark F Lythgoe|R Barbara Pedley|Rebecca Shipley|Simon Walker-Samuel University College London
http://dx.doi.org/10.1101/219873 2017-11-15 Immunology Peptide Terminus Tilting: an Unusual conformational transition of MHC Class I Revealed by Molecular Dynamics Simulations Yeping Sun|Po Tian Institute of Microbiology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/219956 2017-11-15 Neuroscience Changes in global brain connectivity in LSD-induced altered states of consciousness are attributable to the 5-HT2A receptor Katrin H. Preller|Joshua B. Burt|Jie Lisa Ji|Charles Schleifer|Brendan Adkinson|Philipp Staempfli|Grega Repovs|John H. Krystal|John D. Murray|Franz X. Vollenweider|Alan Anticevic Yale University;|University Hospital for Psychiatry Zurich;|University of Ljubljana
http://dx.doi.org/10.1101/219386 2017-11-15 Bioinformatics CC BY-NC Balances: a new perspective for microbiome analysis Javier Rivera Pinto|Juan Jose Egozcue|Vera Pawlowsky-Glahn|Roger Paredes|Marc Noguera-Julian|M. Luz Calle irsiCaixa AIDS Research Institute, Badalona (Spain);|Universitat Politecnica de Catalunya, Barcelona (Spain);|Universitat de Girona, Girona (Spain);|Universitat de Vic - Universitat Central de Catalunya
http://dx.doi.org/10.1101/219915 2017-11-15 Microbiology The antiviral mechanism of MxA revealed by a molecular docking-based structural model of the complex of MxA and influenza A virus NP/RNPs Yeping Sun Institute of Microbiology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/219154 2017-11-16 CC BY-NC-ND Reactive and pre-emptive vaccination strategies to control hepatitis E infection in emergency and refugee settings: a modelling study. Ben S Cooper|Lisa J White|Mahveen R Siddiqui University of Oxford;|Medecins Sans Frontieres/Doctors Without Borders
http://dx.doi.org/10.1101/220665 2017-11-16 CC BY-NC-ND TGF-β1 enhances mouse mast cell release of IL-6 and IL-13 David O Lyons|Michele R Plewes|Nicholas A Pullen University of Northern Colorado
http://dx.doi.org/10.1101/219832 2017-11-16 Is the HIV epidemic over? Investigating population dynamics using Bayesian methodology to estimate epidemiological parameters for a system of stochastic differential equations Renee Dale|BeiBei Guo Louisiana State University
http://dx.doi.org/10.1101/220202 2017-11-16 Household Members Do Not Contact Each Other at Random: Implications for Infectious Disease Modelling Nele Goeyvaerts|Eva Santermans|Gail Potter|Andrea Torneri|Kim Van Kerckhove|Lander Willem|Marc Aerts|Philippe Beutels|Niel Hens Interuniversity Inst. for Biostatistics & Statistical Bioinformatics, UHasselt, Belgium;|The Emmes Corporation, Rockville MD, USA;|Centre for Health Economics Research & Modelling Infectious Diseases;|Centre for Health Economics Research and Modelling Infectious Diseases
http://dx.doi.org/10.1101/219584 2017-11-16 The Association between Tuberculosis and Diphtheria Stephen Coleman Metropolitan State University (retired)
http://dx.doi.org/10.1101/220640 2017-11-16 CC BY-ND Zika: An ongoing threat to women and infants Beatriz Macedo Coimbra|Flavio C. Coelho|Margaret Armstrong|Valeria Saraceni|Cristina Lemos Getulio Vargas Foundation;|Secretaria Municipal de Saude
http://dx.doi.org/10.1101/220004 2017-11-16 CC BY-ND The Basic Reproductive Number for Disease Systems with Multiple Coupled Heterogeneities Alun Lloyd|Uriel Kitron|Alex Perkins|Gonzalo Vazquez Prokopec|Lance Waller North Carolina State University;|Emory University;|University of Notre Dame
http://dx.doi.org/10.1101/220848 2017-11-16 CC BY-ND Systematic interrogation of diverse Omic data reveals interpretable, robust, and generalizable transcriptomic features of clinically successful therapeutic targets Andrew Rouillard|Mark R Hurle|Pankaj Agarwal GSK
http://dx.doi.org/10.1101/220426 2017-11-16 Temporal neural mechanisms underlying conscious access to different levels of facial stimulus contents Shen-Mou Hsu|Yu-fang Yang National Taiwan University;|National Chengchi University
http://dx.doi.org/10.1101/220756 2017-11-16 CC BY-NC-ND Age-accelerated cognitive decline in asymptomatic adults with CSF β-amyloid Lindsay Clark|Sara Berman|Derek Norton|Rebecca Koscik|Erin Jonaitis|Kaj Blennow|Barbara Bendlin|Sanjay Asthana|Sterling Johnson|Henrik Zetterberg|Cynthia Carlsson University of Wisconsin-Madison;|University of Gothenburg
http://dx.doi.org/10.1101/220830 2017-11-16 CC BY-NC-ND HAPDeNovo: a haplotype-based approach for filtering and phasing de novo mutations in linked read sequencing data Zhou Xin|Serafim Batzoglou|Arend Sidow|Lu Zhang Stanford University
http://dx.doi.org/10.1101/220731 2017-11-16 CC BY Origin and evolution of the nuclear auxin response system Sumanth Mutte|Hirotaka Kato|Carl Rothfels|Michael Melkonian|Gane Ka-Shu Wong|Dolf Weijers Wageningen University;|University of California, Berkeley;|Universität zu Köln;|University of Alberta
http://dx.doi.org/10.1101/216234 2017-11-16 Ribosome profiling uncovers selective mRNA translation associated with eIF2 phosphorylation in erythroid progenitors Nahuel A. Paolini|Kat S. Moore|Franca M. Di Summa|Ivo F.A.C. Fokkema|Peter A.C. 't Hoen|Marieke M. von LIndern Sanquin Research and Landsteiner Laboratory AMC/UvA;|Leids Universitair Medisch Centrum;|Sanquin Research and Landsteiner laboratory AMC/UvA
http://dx.doi.org/10.1101/220814 2017-11-16 CC BY-NC-ND A map of constrained coding regions in the human genome. James M Havrilla|Brent S Pedersen|Ryan M Layer|Aaron R Quinlan University of Utah
http://dx.doi.org/10.1101/220780 2017-11-16 CC BY-ND Fungal communities associated with the eastern larch beetle: diversity and variation within developmental stages Audrey-Anne Durand|Jean-Philippe Buffet|Philippe Constant|Eric Deziel|Claude Guertin INRS- Institut Armand-Frappier
http://dx.doi.org/10.1101/220749 2017-11-16 CC BY-NC-ND Conversion between parallel and antiparallel β-sheets in wild-type and Iowa mutant fibrils Wenhui Xi|Ulrich Hansmann University of Oklahoma
http://dx.doi.org/10.1101/220764 2017-11-16 CC BY-NC-ND Germ line aging and regional epigenetic instability: age prediction using human sperm DNA methylation signatures Timothy G Jenkins|Kenneth I Aston|Douglas T Carrell University of Utah
http://dx.doi.org/10.1101/220715 2017-11-16 CC BY-NC-ND Cerebellar granule cell precursors can extend processes, undergo short migratory movements and express postmitotic markers before mitosis in the chick EGL Michalina Hanzel|Richard JT Wingate Rockefeller University;|King's College London
http://dx.doi.org/10.1101/220558 2017-11-16 Organization of Neural Population Code in Mouse Visual System Kathleen Esfahany|Isabel Siergiej|Yuan Zhao|Il Memming Park Ward Melville High School;|Cornell University;|Stony Brook University
http://dx.doi.org/10.1101/220723 2017-11-16 Differential representation of articulatory gestures and phonemes in motor, premotor, and inferior frontal cortices Emily M Mugler|Matthew C Tate|Karen Livescu|Jessica W Templer|Matthew A Goldrick|Marc W Slutzky Northwestern University;|Toyota Technological Institute at Chicago
http://dx.doi.org/10.1101/220608 2017-11-16 CC BY Widespread Genotype-Phenotype Correlations in Intellectual Disability Emily L Casanova|Zachary Gerstner|Julia L. Sharp|Manuel F. Casanova|F. Alex Feltus University of South Carolina Greenville Medical School;|Clemson University;|Colorado State University
http://dx.doi.org/10.1101/220707 2017-11-16 Molecular Biology Antisense lncRNAs expression correlates with attenuation of highly transcribed genes in fission yeast Maxime WERY|Camille GAUTIER|Marc DESCRIMES|Mayuko YODA|Valerie MIGEOT|Damien HERMAND|Antonin MORILLON Institut Curie;|Insitut Curie;|University of Namur
http://dx.doi.org/10.1101/220624 2017-11-16 Systems Biology CC BY Comparative ’omics analyses differentiate Mycobacterium tuberculosis and Mycobacterium bovis and reveal distinct macrophage responses to infection with the human and bovine tubercle bacilli Kerri M Malone|Kevin Rue-Albrecht|David A Magee|Kevin Conlon|Olga Schubert|Nicolas C Nalpas|John A Browne|Alicia Smyth|Eamonn Gormley|Ruedi Aebersold|David MacHugh|Stephen V Gordon UCD School of Veterinary Medicine, University College Dublin, Ireland;|Animal Genomics Lab., UCD School of Agriculture & Food Sci., Univ. Coll. Dublin;|Dept. of Biology, Institute of Molecular Systems Biology, ETH Zurich, Switzerland;|Tuberculosis Diagnostics & Immunol. Res. Ctr., UCD School of Veterinary Medicine
http://dx.doi.org/10.1101/220681 2017-11-16 Bioinformatics CC BY-NC-ND The fractured landscape of RNA-seq alignment: The default in our STARs Sara Ballouz|Alexander Dobin|Thomas R Gingeras|Jesse Gillis Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/218263 2017-11-16 Systems Biology A robust and tunable mitotic oscillator in artificial cells Ye Guan|Zhengda Li|Shiyuan Wang|Patrick M. Barnes|Xuwen Liu|Haotian Xu|Minjun Jin|Allen P. Liu|Qiong Yang University of Michigan;|University of Science and Technology of China;|Wayne State University
http://dx.doi.org/10.1101/220632 2017-11-16 Cell Biology CC BY-NC A FRET based biosensor for measuring Gα13 activation in single cells Marieke Mastop|Nathalie R. Reinhard|Cristiane R. Zuconelli|Fenna Terwey|Theodorus W. J. Gadella|Jakobus van Unen|Merel J. W. Adjobo-Hermans|Joachim Goedhart University of Amsterdam;|Radboud University Medical Center
http://dx.doi.org/10.1101/219022 2017-11-16 Synthetic Biology CC BY-ND Current CRISPR gene drive systems are likely to be highly invasive in wild populations Charleston Noble|Ben Adlam|George M. Church|Kevin M. Esvelt|Martin A. Nowak Harvard University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/220053 2017-11-16 Bioinformatics CC BY-NC-ND LSX: Automated reduction of gene-specific lineage evolutionary rate heterogeneity for multi-gene phylogeny inference Carlos Javier Rivera-Rivera|Juan I. Montoya-Burgos University of Geneva
http://dx.doi.org/10.1101/219691 2017-11-16 Ecology CC BY-NC-ND Rethinking the importance of ecological networks through the glass of environmental variations Simone Cenci|Chuliang Song|Serguei Saavedra Massachusetts Institute of Technology
http://dx.doi.org/10.1101/220434 2017-11-16 Microbiology CC BY Genomic, proteomic, and phylogenetic analysis of spounaviruses indicates paraphyly of the order Caudovirales Jakub Barylski|Francois Enault|Bas E Dutilh|Margo BP Schuller|Robert A Edwards|Annika Gillis|Jochen Klumpp|Petar Knezevic|Mart Krupovic|Jens H Kuhn|Rob Lavigne|Hanna M Oksanen|Matthew B Sullivan|Johannes Wittmann|Igor Tolstoy|J Rodney Brister|Andrew M Kropinski|Evelien M Adriaenssens Adam Mickiewicz University, Poland;|Universite Clermont Auvergne, France;|Utrecht University, The Netherlands;|San Diego State University, USA;|Universite Catholique de Louvain, Belgium;|ETH Zurich, Switzerland;|University of Novi Sad, Serbia;|Institut Pasteur, France;|National Institute of Allergy and Infectious Diseases, National Institutes of Health, USA;|KU Leuven, Belgium;|University of Helsinki, Finland;|The Ohio State University, USA;|Leibniz-Institut DSMZ, Germany;|National Center for Biotechnology Information, National Institutes of Health, USA;|University of Guelph, Canada;|University of Liverpool
http://dx.doi.org/10.1101/220137 2017-11-16 Neuroscience CC BY Behavioral and neural representations of spatial directions across words, schemas, and images Steven M. Weisberg|Steven A. Marchette|Anjan Chatterjee University of Pennsylvania
http://dx.doi.org/10.1101/220517 2017-11-16 Animal Behavior and Cognition CC BY-NC-ND Variational Treatment of Trial-by-Trial Drift-Diffusion Models of Behaviour Vincent Moens|Alexandre Zenon Universite Catholique de Louvain;|U-Bordeaux, INCI
http://dx.doi.org/10.1101/220194 2017-11-16 Evolutionary Biology CC BY RelTime relaxes the strict molecular clock throughout the phylogeny Fabia U Battistuzzi|Qiqing Tao|Lance Jones|Koichiro Tamura|Sudhir Kumar Oakland University;|Temple University;|Tokyo Metropolitan University
http://dx.doi.org/10.1101/220459 2017-11-16 Neuroscience Ghost interactions in MEG/EEG source space: A note of caution on inter-areal coupling measures J. Matias Palva|Sheng H. Wang|Satu Palva|Alexander Zhigalov|Simo Monto|Matthew J. Brookes|Jan-Mathijs Schoffelen|Karim Jerbi University of Helsinki;|University of Nottingham;|Radboud University;|University of Montreal
http://dx.doi.org/10.1101/219626 2017-11-16 Neuroscience Theta Oscillations Organize Spiking Activity in Higher-Order Visual Thalamus during Sustained Attention Chunxiu Yu|Iain Stitt|Yuhui Li|Zhe Charles Zhou|Kristin Sellers|Flavio Frohlich University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/220020 2017-11-16 Genetics CC BY SMN1 and SMN2 Copy Number Determination by droplet digital PCR (ddPCR) based on Extreme Value Theory for Threshold Estimation Mohammad Niknazar|Michael Jansen|Oscar Puig Phosphorus, Inc
http://dx.doi.org/10.1101/215525 2017-11-16 Microbiology CC BY-NC-ND MetQy: an R package to query metabolic functions of genes and genomes Andrea Martinez-Vernon|Fred Farrell|orkun soyer University of Warwick;|university of warwick
http://dx.doi.org/10.1101/219881 2017-11-16 Ecology CC BY-NC On the Calculation of Betweenness Centrality in Marine Connectivity Studies Using Transfer Probabilities Andrea Costa|Anne A. Petrenko|Katell Guizien|Andrea M. Doglioli IBS Center for Climate Physics, Pusan National University, Busan, Republic of Korea;|Aix Marseille Univ., CNRS, Univ. de Toulon, IRD, OSU Pythéas, MIO;|Lab. d'Ecogeochimie des Environnements Benthique, CNRS, Univ. Paris VI
http://dx.doi.org/10.1101/220277 2017-11-16 Animal Behavior and Cognition Decision by sampling implements efficient coding of psychoeconomic functions Rahul Bhui|Samuel J Gershman Harvard University
http://dx.doi.org/10.1101/220491 2017-11-16 Biophysics Dissecting single cell molecular spatiotemporal mobility and clustering at Focal Adhesions in polarised cells by fluorescence fluctuation spectroscopy methods Jorge Bernardino de la Serna|Esther Garcia Science and Technology Facilities Council
http://dx.doi.org/10.1101/215236 2017-11-16 Neuroscience Mapping neurons and brain regions underlying sensorimotor decisions and sequences Tihana Jovanic|Jean-Baptiste Masson|James W. Truman|Marta Zlatic Janelia Research Campus, Howard Highes Medical Institute;|Insitut Pasteur;|Janelia Research Campus, Washington University;|Janelia Research Campus
http://dx.doi.org/10.1101/220038 2017-11-16 Ecology Predator-prey feedback in a gyrfalcon-ptarmigan system? Frederic Barraquand|Olafur K Nielsen CNRS - University of Bordeaux;|Icelandic Institute of Natural History
http://dx.doi.org/10.1101/220483 2017-11-16 Bioinformatics CC BY-NC-ND miRAW: A deep learning approach to predict miRNA targets by analyzing whole miRNA transcripts Albert Pla Planas|Xiangfu Zhong|Simon Rayner University of Oslo;|University of Oslo / Oslo University Hospital
http://dx.doi.org/10.1101/220301 2017-11-16 Neuroscience Pairwise correlations of spiking activity changes along the ventral visual cortical pathway of macaque monkeys Hiroshi Tamura Osaka University
http://dx.doi.org/10.1101/220129 2017-11-16 Genomics Differential gene expression analysis tools exhibit substandard performance for long non-coding RNA–sequencing data Alemu Takele Assefa|Katrijn De Paepe|Celine Everaert|Pieter Mestdagh|Olivier Thas|Jo Vandesompele Ghent University;|Global Advanced Analytics Group, Bain & Company Belgium, Inc.
http://dx.doi.org/10.1101/220350 2017-11-16 Neuroscience CC BY-NC-ND Hyperacuity Bayesian methods to enhance temporal resolution of two-photon recording of the complex spikes in the cerebellar Purkinje cells Huu Hoang|Masa-aki Sato|Mitsuo Kawato|Keisuke Toyama Brain Information Communication Research Lab. Group, ATR Institute International
http://dx.doi.org/10.1101/220186 2017-11-16 Ecology CC BY-NC-ND Stoichiometric relationships amongst ecosystem compartments of a subtropical treatment wetland Paul Julian|Stefan Gerber|Rupesh Bhomia|Jill King|Todd Z Osborne|Alan L Wright University of Florida;|South Florida Water Management District
http://dx.doi.org/10.1101/219808 2017-11-16 Genomics CC BY-NC-ND The Evolutionary Genomic Dynamics of Peruvians Before, During, and After the Inca Empire Daniel N Harris|Wei Song|Amol C Shetty|Kelly Levano|Omar Caceres|Carlos Padilla|Victor Borda|David Tarazona|Omar Trujillo|Cesar Sanchez|Michael D Kessler|Marco Galarza|Silvia Capristano|Harrison Montejo|Pedro O Flores-Villanueva|Eduardo Tarazona-Santos|Timothy D O'Connor|Heinner Guio Institute for Genome Sciences, University of Maryland School of Medicine;|Lab. de Biotecnologia y Biologia Molecular, Inst. Nacional de Salud, Lima, Peru;|Dept. de Biologia Geral, Inst. de Ciencias Biologicas, Univ. Federal de Minas Gerais;|Centro Nacional de Salud Intercultural, Instituto Nacional de Salud, Lima, Peru
http://dx.doi.org/10.1101/220152 2017-11-16 Systems Biology Raw sequence to target gene prediction: An integrated inference pipeline for ChIP-seq and RNA-seq datasets Nisar Wani|Khalid Raza Jamia Millia Islamia, New Delhi
http://dx.doi.org/10.1101/220392 2017-11-16 Bioinformatics CC BY-ND Salt-bridge Dynamics in Intrinsically Disordered Proteins: A trade-off between electrostatic interactions and structural flexibility Sankar Basu|Parbati Biswas University of Delhi
http://dx.doi.org/10.1101/220269 2017-11-16 Bioinformatics What are the most influencing factors in reconstructing a reliable transcriptome assembly? Noushin Ghaffari|Jordi Abante|Raminder Singh|Philip D Blood|Lenore Pipes|Christopher Mason|Charles D Johnson Center for Bioinformatics and Genomic Signal Engineering, Texas A&M AgriLife;|Whitaker Biomedical Engineering Institute, The Johns Hopkins University;|Indiana University Research Technologies;|Pittsburgh Supercomputing Center, Carnegie Mellon University;|Department of Physiology and Biophysics, Weill Cornell Medicine;|Dept. of Physiology & Biophysics, Weill Cornell Medicine
http://dx.doi.org/10.1101/220541 2017-11-16 Molecular Biology CC BY-NC-ND PWWP INTERACTOR OF POLYCOMBS (PWO1) links PcG-mediated gene repression to the nuclear lamina in Arabidopsis. Pawel Mikulski|Mareike L Hohenstatt|Sara Farrona|Cezary Smaczniak|Kerstin Kaufmann|Gerco Angenent|Daniel Schubert Dept. of Cell and Developmental Biology, John Innes Centre, Norwich, UK;|Institute for Biology, Heinrich Heine University Duesseldorf, Germany;|School of Natural Sciences, NUI Galway, Ireland;|Institute for Biology, Humboldt-University Berlin, Germany;|Laboratory of Molecular Biology, Wageningen University, The Netherlands;|Institute for Biology, Free University Berlin, Germany
http://dx.doi.org/10.1101/220236 2017-11-16 Bioinformatics CC BY Latent variable model for aligning barcoded short-reads improves downstream analyses Ariya Shajii|Ibrahim Numanagic|Bonnie Berger Massachusetts Institute of Technology
http://dx.doi.org/10.1101/220525 2017-11-16 Cell Biology CC BY-NC-ND Noise-driven Cell Differentiation and the Emergence of Organization Hadiseh Safdari|Ata Kalirad|Cristian Picioreanu|Rouzbeh Tusserkani|Mehdi Sadeghi School of Biological Science, Institute for Research in Fundamental Sciences (IPM);|Dept. of Biotechnology, Faculty of Applied Sciences, Delft University of Technology;|School of Computer Science, Institute for Research in Fundamental Sciences (IPM);|National Institute of Genetic Engineering and Biotechnology (NIGEB)
http://dx.doi.org/10.1101/220467 2017-11-16 Microbiology CC BY Evolutionary outcomes of plasmid-CRISPR conflicts in an opportunistic pathogen Wenwen Huo|Valerie J Price|Ardalan Sharifi|Michael Q Zhang|Kelli L Palmer The University of Texas at Dallas
http://dx.doi.org/10.1101/219659 2017-11-16 Microbiology Novel bacterial lineages associated with boreal moss species Hannah Holland-Moritz|Julia Stuart|Lily R Lewis|Samantha Miller|Michelle C Mack|Stuart F McDaniel|NOAH Fierer University of Colorado, Boulder;|Northern Arizona University;|University of Florida;|University of Colorado
http://dx.doi.org/10.1101/220079 2017-11-16 Bioinformatics CC BY-NC-ND ChIPdig: a comprehensive user-friendly tool for mining multi-sample ChIP-seq data Ruben Esse|Alla Grishok Boston University School of Medicine
http://dx.doi.org/10.1101/220251 2017-11-16 Genomics CC BY-NC-ND Genome variants altering gene splicing in bovine are extensively shared between tissues Ruidong Xiang|Ben J. Hayes|Christy J. Vander Jagt|Iona M. MacLeod|Majid Khansefid|Phil J. Bowman|Claire P. Prowse-Wilkins|Coralie M. Reich|Brett A. Mason|Josie B. Garner|Leah C. Marett|Yizhou Chen|Sunduimijid Bolormaa|Hans D. Daetwyler|Amanda J. Chamberlain|Michael E. Goddard Faculty of Veterinary & Agricultural Science, University of Melbourne;|Queensland Alliance for Agriculture & Food Innovation, Centre for Animal Science;|Agriculture Victoria, AgriBio, Centre for AgriBioscience, Bundoora;|Agriculture Victoria, Dairy Production Science, Ellinbank, VIC, 3821, Australia;|Agriculture Victoria, Dairy Production Science, Ellinbank, VIC, 3821, Australia.;|Elizabeth Macarthur Agr. Inst., New South Wales Department of Primary Industries;|School of Applied Systems Biology, La Trobe University, Bundoora
http://dx.doi.org/10.1101/220368 2017-11-16 Plant Biology CC BY-NC-ND Secondary metabolites and the antimicrobial potential of five different Coleus species in response to salinity stress Divya Kotagiri|Shaik Khasim Beebi|Kolluru Viswanatha Chaitanya GITAM University
http://dx.doi.org/10.1101/219733 2017-11-16 Genetics CC BY-NC-ND Method to estimate the approximate samples size that yield a certain number of significant GWAS signals in polygenic traits Silviu-Alin Bacanu|Kenneth S Kendler Virginia Commonwealth University
http://dx.doi.org/10.1101/220046 2017-11-16 Molecular Biology ABCF ATPases involved in protein synthesis, ribosome assembly and antibiotic resistance: structural and functional diversification across the tree of life Victoriia Murina|Marje Kasari|Michael Reith|Vasili Hauryliuk|Gemma Atkinson Umeå University
http://dx.doi.org/10.1101/189886 2017-11-16 Microbiology Spatial variation of the native colon microbiota in healthy adults Kaitlin J Flynn|Mack T Ruffin|Danielle Kim Turgeon|Patrick D Schloss University of Michigan;|Pennsylvania State University
http://dx.doi.org/10.1101/220319 2017-11-16 Neuroscience CC BY-NC-ND Suboptimal eye movements for seeing fine details Mehmet N Agaoglu|Christy K Sheehy|Pavan Tiruveedhula|Austin Roorda|Susana T L Chung University of California, Berkeley;|University of California, San Francisco
http://dx.doi.org/10.1101/220285 2017-11-16 Bioinformatics CC BY-ND Per-sample immunoglobulin germline inference from B cell receptor deep sequencing data Duncan K Ralph|Frederick A Matsen Fred Hutch
http://dx.doi.org/10.1101/219162 2017-11-16 Bioinformatics Extracting biological age from biomedical data via deep learning: too much of a good thing? Timothy V. Pyrkov|Konstantin Slipensky|Mikhail Barg|Alexey Kondrashin|Boris Zhurov|Alexander Zenin|Mikhail Pyatnitskiy|Leonid Menshikov|Sergei Markov|Peter O. Fedichev Gero LLC;|ActiveBusinessCollection LLC (Sberbank group), Moscow, 117312, Russia
http://dx.doi.org/10.1101/219824 2017-11-16 Ecology CC BY-NC-ND Gender-biased perceptions of important ecology articles Corey J. A. Bradshaw|Franck Courchamp Flinders University;|University Paris-Sud
http://dx.doi.org/10.1101/220145 2017-11-15 Bioinformatics CC BY-NC Exploring Applications of Crowdsourcing to Cryo-EM Jacob Bruggemann|Gabriel C Lander|Andrew I Su The Scripps Research Insitute;|The Scripps Research Institute;|Scripps Research Institute
http://dx.doi.org/10.1101/220061 2017-11-15 Cell Biology Assessment of the aging of the brown adipose tissue by 18F-FDG PET/CT imaging in the progeria mouse model LmnaG609G/G609G Zhengjie Wang|Xiaolong Xu|Yi Liu|Yongheng Gao|Wenhui Ma|Weidong Yang|Fei Kang|Baohua Liu|Jing Wang Fourth Military Medical University;|Xijing Hospital, Xi'an, China;|Shenzhen University Health Science Center;|Xijing Hospital
http://dx.doi.org/10.1101/219998 2017-11-15 Cell Biology Comparison of multiple transcriptomes exposes unified and divergent features of quiescent and activated skeletal muscle stem cells Natalia Pietrosemoli|Sebastien Mella|Siham Yennek|Meryem Baghdadi|Hiroshi Sakai|Ramkumar Sambasivan|Francesca Pala|DANIELA DI GIROLAMO|Shahragim Tajbakhsh Institut Pasteur;|Institut Pasteur / DanStem;|Institute for Stem Cell Biology and Regenerative Medicine;|Institut Pasteur/Universita degli Studi di Napoli
http://dx.doi.org/10.1101/202523 2017-11-15 Synthetic Biology CC BY-NC A semi-synthetic strategy for derivatization of the violacein natural product scaffold Hung-En Lai|Soo Mei Chee|Marc Morgan|Simon J Moore|Karen M Polizzi|Paul S Freemont Imperial College London
http://dx.doi.org/10.1101/220210 2017-11-15 Neuroscience CC BY-NC-ND Impaired Cu-Zn superoxide dismutase (SOD1) and calcineurin (Cn) interaction in ALS: A presumed consequence for TDP-43 and zinc aggregation in Tg SOD1G93A rodent spinal cord tissue. Jolene M Kim|Elizabeth Billington|Ada Reyes|Tara Notarianni|Jessica M Sage|Emre Agbas|Michael Taylor|Ian Monast|John A Stanford|Abdulbaki Agbas Des Peres Family Medicine Residency, St Louis, MO;|140 Colemans Crossing Suite #210 Marysville, OH 43040;|Kansas City University of Medicine and Biosciences;|Stowers Institue for Medical Research;|McLaren Macomb Hospital, MI;|Diagnostic Radiology, Beaumont Hospital, Dearborn, MI;|University of Kansas Medical Center, Kansas City, KS 66160;|Kansas City University of Medicine and Biosciences, Kansas City, MO 64106
http://dx.doi.org/10.1101/221127 2017-11-17 CC BY-NC-ND glactools: a command-line toolset for the management of genotype likelihoods and allele counts Gabriel Renaud Max Planck Institute For Evolutionary Anthropology, Leipzig, Germany
http://dx.doi.org/10.1101/221077 2017-11-17 CC BY-NC-ND Mechanical changes in proteins with large-scale motions highlight the formation of structural locks Sophie Sacquin-Mora Laboratoire de Biochimie Theorique, CNRS UPR9080
http://dx.doi.org/10.1101/221267 2017-11-17 CC BY GDF15 Concentrations in Maternal Serum Associated with Vomiting in Pregnancy: the Cambridge Baby Growth Study Clive J Petry|Ken K Ong|Keith A Burling|Peter Barker|John RB Perry|Carlo L Acerini|Ieuan A Hughes|David B Dunger|Stephen O'Rahilly University of Cambridge;|Addenbrooke's Hospital
http://dx.doi.org/10.1101/221168 2017-11-17 CC BY-NC-ND Deficiency of global genome nucleotide excision repair explains mutational signature observed in cancer Myrthe Jager|Francis Blokzijl|Ewart Kuijk|Maria Vougioukalaki|Roel Janssen|Nicolle Besselink|Sander Boymans|Joep de Ligt|Jan Hoeijmakers|Joris Pothof|Ruben van Boxtel|Edwin Cuppen UMC Utrecht;|Erasmus MC;|Princess Maxima Center for Pediatric Oncology
http://dx.doi.org/10.1101/220616 2017-11-17 CC BY Real-time analysis of nanopore-based metagenomic sequencing from orthopaedic device infection Nicholas D Sanderson|Teresa L Street|Dona Foster|Jeremy Swann|Bridget L Atkins|Andrew J Brent|Martin A McNally|Sarah Oakley|Adrian Taylor|Tim E A Peto|Derrick Crook|David W Eyre University of Oxford;|Oxford University Hospitals NHS Foundation Trust
http://dx.doi.org/10.1101/221002 2017-11-17 CC BY-NC-ND Closed-loop feedback control for microfluidic systems through automated capacitive fluid height sensing Luis Ruben Soenksen Martinez|Timothy Kassis|Minkyun Noh|Linda G Griffith|David L Trumper Massachusetts Institute of Technology
http://dx.doi.org/10.1101/220988 2017-11-17 Reorientation of the primary body axis by ectopic embryonic cWnt signaling. Mark Q Martindale|Naveen Wijesena Univ. Florida;|Faculty of Technology, Rajarata University of Sri Lanka, Mihintale 50300, Sri Lanka
http://dx.doi.org/10.1101/221176 2017-11-17 Stopping Transformed Growth with Cytoskeletal Proteins: Turning a Devil into an Angel Bo Yang|Haguy Wolfenson|Naotaka Nakazawa|Shuaimin Liu|Junqiang Hu|Michael Sheetz Mechanobiology Institute, National University of Singapore;|Department of Biological Sciences, Columbia University;|Department of Mechanical Engineering, Columbia University;|Mechanobiology Inst., Natl. Univ. of Singapore; Dept. of Biol. Sci., Columbia Univ.
http://dx.doi.org/10.1101/220855 2017-11-17 CC BY The study of animal behaviour as a physical science Andre EX Brown|Benjamin de Bivort Imperial College London;|Harvard University
http://dx.doi.org/10.1101/220806 2017-11-17 CC BY-NC-ND Newly identified relatives of botulinum neurotoxins shed light on their molecular evolution Michael J Mansfield|Travis G Wentz|Sicai Zhang|Elliot J Lee|Min Dong|Shashi K Sharma|Andrew C Doxey Department of Biology, University of Waterloo;|Center for Food Safety and Applied Nutrition, US Food and Drug Administration;|Boston Children's Hospital, Harvard
http://dx.doi.org/10.1101/220939 2017-11-17 CC BY Ecological Insights from the Evolutionary History of Microbial Innovations Mario E Muscarella|James P O'Dwyer University of Illinios;|University of Illinois
http://dx.doi.org/10.1101/220863 2017-11-17 CC BY-NC-ND Efficient online-group-screening designs for agent identification Tianxiang Gao|Omri Finkel|Jeff Dangl|Vladimir Jojic University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/220871 2017-11-17 CC BY-NC Fast ordered sampling of DNA sequence variants Anthony J. Greenberg Bayesic Research
http://dx.doi.org/10.1101/221085 2017-11-17 CC BY Significant abundance of cis configurations of mutations in diploid human genomes Margret R Hoehe|Ralf Herwig|Qing Mao|Brock A Peters|Radoje Drmanac|George M Church|Thomas Huebsch Max Planck Institute for Molecular Genetics;|Complete Genomics, Inc.;|Harvard Medical School
http://dx.doi.org/10.1101/221143 2017-11-17 CC BY-NC-ND Multi-Funnel Landscape of the Fold-Switching Protein RfaH-CTD Nathan A Bernhardt|Ulrich Hansmann University of Oklahoma
http://dx.doi.org/10.1101/220921 2017-11-17 CC BY-NC The global distribution and spread of the mobilized colistin resistance gene mcr-1 Ruobing Wang|Lucy van Dorp|Liam Shaw|Phelim Bradley|Qi Wang|Xiaojuan Wang|Longyang Jin|Qing Zhang|Yuqing Liu|Adrien Rieux|Thamarai Dorai-Schneiders|Lucy Anne Weinert|Zamin Iqbal|Xavier Didelot|Hui Wang|Francois Balloux Department of Clinical Laboratory, Peking University People's Hospital, Beijing, 100044, China;|UCL Genetics Institute, University College London, Gower Street, London WC1E 6BT, UK;|Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford OX3 7BN, UK;|Shandong Academy of Agricultural Sciences, Shandong Province, Jinan, 250100, China;|UMR PVBMT, CIRAD, 97410 St Pierre, Reunion, France;|Division of Infection and Pathway Medicine, 49 Little France Crescent, Edinburgh EH16 4SB, UK;|Department of Veterinary Medicine, Cambridge CB3 0ES, UK;|EMBL-EBI, Wellcome Genome Campus, Cambridge CB10 1SD, UK;|Department of Infectious Disease Epidemiology, Imperial College London, Norfolk Place, 21 London W2
http://dx.doi.org/10.1101/221093 2017-11-17 Cancer Biology Identification of USP7 as an essential component to maintain integrity and function of non-canonical PRC1.1 in leukemia Henny Maat|Jennifer Jaques|Aida Rodriguez Lopez|Marcel P de Vries|Chantal Gravesteijn|Annet Brouwers-Vos|Gerwin Huls|Edo Vellenga|Vincent van den Boom|Jan Jacob Schuringa UMCG;|University Medical Center Groningen
http://dx.doi.org/10.1101/220954 2017-11-17 Wide-field dynamic monitoring of immune cell trafficking in murine models of glioblastoma Elliott D SoRelle|Derek W Yecies|Orly Liba|Chris F Bennett|Claus-Moritz Graef|Rebecca Dutta|Siddhartha S Mitra|Lydia-Marie Joubert|Samuel H Cheshier|Gerald A Grant|Adam de la Zerda Stanford University
http://dx.doi.org/10.1101/220400 2017-11-17 CC BY Cholesterol Synthesis Pathway Genes in Prostate Cancer are consistently downregulated when tissue confounding is minimized. Morten B Rye|Helena Bertilsson|Maria K Andersen|Kjersti Rise|Tone F Bathen|Finn Drablos|May-Britt Tessem Norwegian University of Science and Technology (NTNU);|St. Olavs Hospital, Trondheim University Hospital
http://dx.doi.org/10.1101/221226 2017-11-17 CC BY-NC Human-specific NOTCH-like genes in a region linked to neurodevelopmental disorders affect cortical neurogenesis Ian T Fiddes|Gerrald A Lodewijk|Meghan M Mooring|Colleen M Bosworth|Adam D Ewing|Gary L Mantalas|Adam M Novak|Anouk van den Bout|Alex Bishara|Jimi L Rosenkrantz|Ryan Lorig-Roach|Andrew R Field|Maximillian Haeussler|Lotte Russo|Aparna Bhaduri|Tomasz J Nowakowski|Alex A Pollen|Max L Dougherth|Xander Nuttle|Marie-Claude Addor|Simon Zwolinski|Sol Katzman|Arnold Kreigstein|Evan E Eichler|Sofie R Salama|Frank MJ Jacobs|David Haussler University of California, Santa Cruz;|University of Amsterdam;|Stanford University;|University of California, San Francisco;|University of Washington;|Massachusetts General Hospital;|Service de genetique medicale, Lausanne, Switzerland;|Institute of Genetic Medicine, Newcastle upon Tyne, United Kingdom
http://dx.doi.org/10.1101/221572 2017-11-17 Estimating the effects of variation in viremia on mosquito susceptibility, infectiousness, and R0 of Zika in Aedes aegypti Blanka Tesla|Leah R. Demakovsky|Hannah S. Packiam|Erin A. Mordecai|Americo D. Rodriguez|Matthew H. Bonds|Melinda A. Brindley|Courtney C. Murdock University of Georgia;|Stanford University;|El Instituto Nacional de Salud Publica;|Harvard Medical School
http://dx.doi.org/10.1101/215178 2017-11-17 CC BY-NC-ND Spontaneous eye blink rate and dopamine synthesis capacity: Preliminary evidence for an absence of positive correlation Guillaume Sescousse|Romain Ligneul|Ruth J van Holst|Lieneke K Janssen|Femke de Boer|Marcel Janssen|Anne S Berry|William J Jagust|Roshan Cools Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen, Netherlands;|Radboud University Medical Centre, Department of Nuclear Medicine, Nijmegen, Netherlands;|Helen Wills Neuroscience Institute, University of California, Berkeley, US
http://dx.doi.org/10.1101/221705 2017-11-17 CC BY-NC-ND Deleterious variation mimics signatures of genomic incompatibility and adaptive introgression Bernard Y. Kim|Christian D. Huber|Kirk Lohmueller UCLA
http://dx.doi.org/10.1101/220905 2017-11-17 CC BY-NC-ND A Multilevel Computational Characterization of Endophenotypes in Addiction Vincenzo G Fiore|Dimitri Ognibene|Bryon Adinoff|Xiaosi Gu School of Behavioral and Brain Sciences, University of Texas at Dallas, 800 W. Campbell Road, Richar;|Department of Computer Science and Electronic Engineering, University of Essex, Colchester, CO4 3SQ,;|University of Texas Southwestern Medical Center, 5323 Harry Hines Blvd., Dallas, TX 75390, USA
http://dx.doi.org/10.1101/221051 2017-11-17 CC BY-NC-ND Reconstruction of resting-state networks from macaque electrocorticographic data Rikkert Hindriks|Cristiano Micheli|Conrado Bosman|Robert Oostenveld|Christopher M Lewis|Dante Mantini|Pascal Fries|Gustavo Deco Universitat Pompeu Fabra (UPF);|Institut des Sciences Cognitives Marc Jeannerod, UMR 5304 CNRS, Bron, France;|Cognitive and System Neuroscience Group, Swammerdam Institute for Life Sciences, Center for Neurosci;|Donders Institute for Brain, Cognition and Behaviour, Radboud University Nijmegen, The Netherlands;|Ernst Strϋngmann Institute (ESI) for Neuroscience;|Laboratory of Movement Control and Neuroplasticity, KU, Leuven, Belgium;|Ernst Strϋngmann Institute (ESI) for Neuroscience in Cooperation with Max Planck Society;|Center for Brain and Cognition, Computational Neuroscience Group, Department of Information and Comm
http://dx.doi.org/10.1101/221242 2017-11-17 Oxidative stress and loss of Fe-S proteins in Friedreich ataxia induced pluripotent stem cell-derived PSNs can be reversed by restoring FXN expression with a benzamide HDAC inhibitor. Amelie Hu|Myriam Rai|Simona Donatello|Massimo Pandolfo ULB, Brussels, Belgium
http://dx.doi.org/10.1101/221440 2017-11-17 CC BY-ND Diel predator activity drives a dynamic landscape of fear Michel T. Kohl|Daniel R. Stahler|Matthew C. Metz|James D. Forester|Matthew J. Kauffman|Nathan Varley|P. J. White|Douglas W. Smith|Daniel R. MacNulty Dept. of Wildland Resources, Utah State University;|Yellowstone Center for Resources, National Park Service;|Wildlife Biol. Program, Univ. of Montana; Yellowstone Ctr. for Resources, NPS;|Dept. of Fisheries, Wildlife, and Conservation, University of Minnesota;|Wyoming Cooperative Fish and Wildlife Research Unit, University of Wyoming;|Dept. of Biological Sciences, University of Alberta
http://dx.doi.org/10.1101/221556 2017-11-17 CC BY-NC-ND TKSA-MC: A Web Server for rational mutation through the optimization of protein charge interactions Vinicius G Contessoto|Vinicius M de Oliveira|Bruno R Fernandes|Gabriel G Slade|Vitor B. P. Leite Brazilian Bioethanol Science and Technology Laboratory - CTBE;|São Paulo State University - UNESP
http://dx.doi.org/10.1101/221150 2017-11-17 CC BY Selective attention modulates surface filling-in William J Harrison|Alvin J Ayeni|Peter J Bex University of Cambridge;|Northeastern University
http://dx.doi.org/10.1101/221390 2017-11-17 CC BY-NC-ND A simple rule for the evolution of fast dispersal at the edge of expanding populations Maxime Deforet|Carlos Carmona-Fontaine|Kirill S Korolev|Joao B Xavier Memorial Sloan Kettering Cancer Center;|New York University;|Boston University
http://dx.doi.org/10.1101/221275 2017-11-17 Replay of large-scale spatio-temporal patterns from waking during subsequent slow-wave sleep in human cortex Xi Jiang|Isaac Shamie|Werner Doyle|Daniel Friedman|Patricia Dugan|Orrin Devinsky|Emad Eskandar|Sydney S Cash|Thomas Thesen|Eric Halgren University of California at San Diego;|New York University School of Medicine;|Massachusetts General Hospital, Harvard Medical School;|UCSD
http://dx.doi.org/10.1101/220913 2017-11-17 The polygenic basis of an ancient divergence in yeast thermotolerance Carly Weiss|Jeremy I Roop|Rylee Hackley|Julie Chuong|Igor V Grigoriev|Adam P Arkin|Jeff M Skerker|Rachel B Brem University of California, Berkeley;|University of California Berkeley;|The Buck Institute for Research on Aging;|Joint Genome Institute
http://dx.doi.org/10.1101/221325 2017-11-17 CC BY-NC Tn-Core: context-specific reconstruction of core metabolic models using Tn-seq data George diCenzo|Alessio Mengondi|Marco Fondi Dep. of Biology, University of Florence
http://dx.doi.org/10.1101/220897 2017-11-17 CC BY-NC-ND Gene buddies: Linked balanced polymorphisms reinforce each other even in the absence of epistasis Jacob A Tennessen Oregon State University
http://dx.doi.org/10.1101/221481 2017-11-17 CC BY-NC Insights into platypus population structure and history from whole-genome sequencing Hilary C Martin|Elizabeth M Batty|Julie Hussin|Portia Westall|Tasman Daish|Stephen Kolomyjec|Paolo Piazza|Rory Bowden|Margaret Hawkins|Tom Grant|Craig Moritz|Frank Grutzner|Jaime Gongora|Peter Donnelly Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK;|Wellcome Centre for Human Genetics, University of Oxford, Oxford, OX1 7BN, UK;|Univ. of Sydney, Sydney School of Veterinary Science, New South Wales, Australia;|University of Adelaide, Adelaide, Australia.;|School of Biological Sciences, Lake Superior State University;|Faculty of Medicine, Department of Medicine, Imperial College, London, UK;|Taronga Zoo, Mosman, NSW 2088, Australia;|University of New South Wales, Sydney, NSW 2052, Australia;|Australian National University, Acton, Australian Capital Territory 2601, Australia;|University of Adelaide, Adelaide, Australia
http://dx.doi.org/10.1101/221218 2017-11-17 CC BY Motor selection dynamics in FEF explain the reaction time variance of saccades to single targets Christopher K Hauser|Dantong Zhu|Terrence R Stanford|Emilio Salinas Wake Forest School of Medicine, United States
http://dx.doi.org/10.1101/221200 2017-11-17 CC BY LRRTM1 underlies synaptic convergence in visual thalamus Aboozar Monavarfeshani|Gail Stanton|Jonathan Van Name|Kaiwen Su|William Mills|Kenya Swilling|Alicia Kerr|Jianmin Su|Michael A. Fox Virginia Tech, United States;|VTCRI, United States;|Virginia Tech Carilion Research Institute, United States
http://dx.doi.org/10.1101/221689 2017-11-17 CC BY Flex ddG: Rosetta ensemble-based estimation of changes in protein-protein binding affinity upon mutation Kyle A Barlow|Shane O Conchuir|Samuel Thompson|Pooja Suresh|James E Lucas|Markus Heinonen|Tanja Kortemme University of California, San Francisco;|University of California, San Francisco; University of California, Berkeley;|Aalto University; Helsinki Institute for Information Technology HIIT
http://dx.doi.org/10.1101/221465 2017-11-17 CC BY-NC-ND Nutrient homeostasis and mechanisms related to nutrient retention by wetland macrophytes in a subtropical wetland. Paul Julian|Stefan Gerber|Jill King|Alan L Wright University of Florida;|South Florida Water Management District
http://dx.doi.org/10.1101/221564 2017-11-17 CC BY-NC-ND Molecularly barcoded Zika virus libraries to probe in vivo evolutionary dynamics Matthew T Aliota|Dawn M Dudley|Christina M Newman|James Weger-Lucarelli|Laruel M Stewart|Michelle R Koenig|Meghan E Breitbach|Andrea M Weiler|Matthew R Semler|Gabrielle L Barry|Katie R Zarbock|Mariel S Mohns|Emma L Mohr|Vanessa Venturi|Nancy Schultz-Darken|Eric Peterson|Wendy Newton|Michele L Schotzko|Heather A Simmons|Andres Mejia|Jennifer M Hayes|Saverio Capuano|Miles P Davenport|Thomas C Friedrich|Gregory D Ebel|Shelby L O'Connor|David H O'Connor University of Wisconsin-Madison;|Colorado State University;|University of New South Wales
http://dx.doi.org/10.1101/221028 2017-11-17 Self-organised attractor dynamics in the developing head direction circuit. Joshua P Bassett|Francesca Cacucci|Thomas J Wills UCL
http://dx.doi.org/10.1101/221135 2017-11-17 CC BY-NC-ND A neuronal theory of sequential economic choice Benjamin Hayden|Ruben Moreno-Bote University of Minnesota Twin Cities;|University Pompeu Fabra
http://dx.doi.org/10.1101/221309 2017-11-17 CC BY Clust: automatic extraction of optimal co-expressed gene clusters from gene expression data Basel Abu-Jamous|Steven Kelly University of Oxford
http://dx.doi.org/10.1101/221044 2017-11-17 CC BY-NC-ND Discovery of a new song mode in Drosophila reveals hidden structure in the sensory and neural drivers of behavior Jan Clemens|Pip Coen|Frederic Roemschied|Talmo Pereira|David Mazumder|Diego Pacheco|Mala Murthy Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA;|Princeton Neuroscience Institute & Dept. of Molecular Biology, Princeton University
http://dx.doi.org/10.1101/221192 2017-11-17 The evolution of social life in family groups Jos Kramer|Joel Meunier Department of Plant and Microbial Biology, University of Zuerich, Switzerland;|Institut de Recherche sur la Biologie de l'Insecte, UMR 7261, CNRS, Univ. of Tours
http://dx.doi.org/10.1101/220699 2017-11-17 Comparing neurotransmitter metabolism in the brain of patients with symptomatic and aysmptomatic Alzheimer's disease and healthy individuals. Stuart G. Snowden|Amera Ebshiana|Abdul Hye|An Yang|Pletnikova Olga|O'Brien Richard|Troncoso John|Legido-Quigley Cristina|Thambisetty Madhav Kings College London;|National Institute of Aging;|Johns Hopkins School of Medicine;|Duke University Medical School
http://dx.doi.org/10.1101/219071 2017-11-17 Viral hijacking of the nucleolar DNA-damage response machinery: a novel mechanism to regulate host cell biology Stephen M Rawlinson|Tianyue Zhao|Ashley M Rozario|Christina L Rootes|Paul J McMillan|Anthony W Purcell|Amanda Woon|Glen A Marsh|Kim G Lieu|Lin-Fa Wang|Hans J Netter|Toby D Bell|Cameron R Stewart|Gregory W Moseley Monash University;|CSIRO Health and Biosecurity, Australian Animal Health Laboratory;|University of Melbourne;|CSL Limited;|Duke-NUS Medical School, Singapore;|Victorian Infectious Diseases Reference Laboratory
http://dx.doi.org/10.1101/221432 2017-11-17 CC BY-NC-ND GMSE: an R package for generalised management strategy evaluation Alexander B Duthie|Jeremy J Cusack|Isabel L Jones|Erlend B Nilsen|Rocio A Pozo|O. Sarobidy Rakotonarivo|Bram Van Moorter|Nils Bunnefeld University of Stirling;|Norwegian Institute for Nature Research
http://dx.doi.org/10.1101/221663 2017-11-17 CC BY-NC-ND CapsidMesh: atomic-detail structured mesh representation of icosahedral viral capsids for the study of their physical properties Jose Luis Alonzo-Velazquez|Salvador Botello-Rionda|Rafael Herrera-Guzman|Mauricio Carrillo-Tripp Ciencias de la Computación, CIMAT Gto, México;|Biomolecular Diversity Lab, CINVESTAV Unidad Monterrey, México
http://dx.doi.org/10.1101/220798 2017-11-17 CC BY-NC-ND Atypical domain communication and domain functions of a Hsp110 chaperone Vignesh Kumar|Joshua Jebakumar Peter|Amin Sagar|Arjun Ray| Ashish|koyeli mapa Proteomics & structural biology unit, CSIR-Inst. of Genomics & Integrative Biology;|CSIR-Institute of Microbial Technology, Sector 39 A, Chandigarh, 160036;|Department of Life Sciences, School of Natural Sciences, Shiv Nadar University
http://dx.doi.org/10.1101/220590 2017-11-17 CC BY-NC Bayesian adaptive stimulus selection for dissociating models of psychophysical data James R.H Cooke|Luc P.J Selen|Robert J van Beers|W. Pieter Medendorp Radboud University;|Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/221234 2017-11-17 Heterogeneous origins of human sleep spindles in different cortical layers Donald J Hagler|Istvan Ulbert|Lucia Wittner|Lorand Eross|Joseph R Madsen|Orrin Devinsky|Werner Doyle|Daniel Fabo|Sydney S Cash|Eric Halgren University of California at San Diego;|Hungarian Academy of Sciences;|Peter Pazmany Catholic University;|Children's Hospital, Harvard Medical School;|New York University School of Medicine;|Hungarian National Institute of Clinical Neurosciences;|Massachusetts General Hospital, Harvard Medical School;|UCSD
http://dx.doi.org/10.1101/221424 2017-11-17 CC BY-NC-ND A de novo approach to disentangle partner identity and function in holobiont systems Arnaud Meng|Camille Marchet|Erwan Corre|Pierre Peterlongo|Adriana Alberti|Corinne Da Silva|Patrick Wincker|Eric Pelletier|Ian Probert|Johan Decelle|Stephane Le Crom|Fabrice Not|Lucie Bittner UPMC;|INRIA Rennes;|Station Biologique de Roscoff;|GENOSCOPE CEA;|Helmholtz Centre for Environmental Research UFZ
http://dx.doi.org/10.1101/221655 2017-11-17 CC BY Integrating co-expression networks with GWAS detects genes driving elemental accumulation in maize seeds Robert J Schaefer|Jean-Michel Michno|Joseph Jeffers|Owen Hoekenga|Brian Dilkes|Ivan Baxter|Chad Myers University of Minnesota;|Cayuga Genetics Consulting Group LLC;|Purdue University;|Danforth Plant Science Center
http://dx.doi.org/10.1101/221499 2017-11-17 CC BY Simple statistical identification and removal of contaminant sequences in marker-gene and metagenomics data Nicole M Davis|Diana Proctor|Susan P Holmes|David A Relman|Benjamin J Callahan Stanford University School of Medicine, Dept. of Microbiology and Immunology;|Univ. of California, San Francisco School of Dentistry, Dept. of Orofacial Sciences;|Stanford University, Department of Statistics;|Stanford University School of Medicine;|North Carolina State University, College of Veterinary Medicine
http://dx.doi.org/10.1101/221507 2017-11-17 The relationship between varicella (chickenpox) and scarlet fever in contemporary Hong Kong Stephen Coleman Metropolitan State University (retired)
http://dx.doi.org/10.1101/220442 2017-11-17 CC BY Effect of dihydrolipoamide dehydrogenase (dld-1) on human tau phosphorylation in a C. elegans model of Alzheimer's Disease Waqar Ahmad University of Queensland
http://dx.doi.org/10.1101/221523 2017-11-17 CC BY Validating Antibodies for Quantitative Western Blot Measurements with Microwestern Array Rick J Koch|Anne Marie Barrette|Alan D Stern|Bin Hu|Evren U Azeloglu|Ravi Iyengar|Marc R Birtwistle Icahn School of Medicine at Mount Sinai;|Clemson University
http://dx.doi.org/10.1101/221358 2017-11-17 Hominin-specific NOTCH2 paralogs expand human cortical neurogenesis through regulation of Delta/Notch interactions. Ikuo K Suzuki|David Gacquer|Roxane Van Heurck|Devesh Kumar|Marta Wojno|Angeline Bilheu|Adele Herpoel|Julian Cheron|Franck Polleux|Vincent Detours|Pierre Vanderhaeghen University of Brussels ULB;|Columbia University
http://dx.doi.org/10.1101/221457 2017-11-17 Dynamics of a Form-Fitting Protein in a Nanopore: Avidin in ClyA Bo Lu|Chris Stokes|Monifa Fahie|Min Chen|Jene A. Golovchenko|Lene Vestergaard Hau Harvard University;|The Rowland Institute at Harvard;|University of Massachusetts, Amherst
http://dx.doi.org/10.1101/221341 2017-11-17 CC BY-NC-ND CRISPys: Optimal sgRNA design for editing multiple members of a gene family using the CRISPR system Gal Hyams|Shiran Abadi|Adi Avni|Eran Halperin|Eilon Shani|Itay Mayrose Tel Aviv University;|University of California, Los Angeles
http://dx.doi.org/10.1101/221382 2017-11-17 CC BY-NC-ND Partitioning of semisynthetic lipidated N-Ras in lipid raft nanodomains determined by FRET to lipid domain markers Anna Shishina|Elizaveta Kovrigina|Azamat Galiakhmetov|Rajendra Rathore|Evgenii L Kovrigin Chemistry Department, Marquette University
http://dx.doi.org/10.1101/220343 2017-11-17 CC BY Species comparison of liver proteomes reveals enhanced lipid metabolism, reduced mitochondrial respiration and enhanced expression of detoxifying enzymes in the long-lived naked mole-rat. Ivonne Heinze|Martin Bens|Enrico Calzia|Susanne Holtze|Oleksandr Dakhovnik|Arne Sahm|Joanna Kirkpatrick|Karol Szafranski|Natalie Romanov|Stephan Singer|Maria Ermolaeva|Matthias Platzer|Thomas Hildebrandt|Alessandro Ori Leibniz Institute on Aging, Fritz Lipmann Institute (FLI);|Inst. of Anesthesiological Pathophysiology & Process Engineering, Univ. of Ulm;|Leibniz Institute for Zoo & Wildlife Research (IZW), Berlin, Germany;|European Molecular Biology Laboratory, Heidelberg, Germany;|Institute of Pathology, University Hospital Heidelberg, Heidelberg, Germany
http://dx.doi.org/10.1101/221366 2017-11-17 Giant flagellins form thick flagellar filaments in two species of marine Gammaproteobacteria Nicholas Maitland Thomson|Josie L Ferreira|Teige R Matthews-Palmer|Morgan Beeby|Mark J Pallen Quadram Institute;|Imperial College
http://dx.doi.org/10.1101/221416 2017-11-17 CC BY-NC-ND The association between the HLA-DRB1 shared epitope alleles and the risk of rheumatoid arthritis is influenced by massive gene-gene interactions. Lina Marcela Diaz-Gallo|Daniel Ramskold|Klementy Shchetynsky|Lasse Folkersen|Karine Chemin|Boel Brynedal|Steffen Uebe|Yukinori Okada|Lars Alfredsson|Lars Klareskog|Leonid Padyukov Rheumatology Unit, Karolinska Institutet, Karolinska University Hospital;|Department of Bioinformatics, Technical University of Denmark;|Institute of Environmental Medicine, Karolinska Institutet;|Human Genetics Institute, Universitätsklinikum Erlangen;|Department of Statistical Genetics, Osaka University Graduate School of Medicine
http://dx.doi.org/10.1101/221010 2017-11-17 CC BY-NC-ND HIV-1 unmasks the plasticity of innate lymphoid cells Yetao Wang|Kyle Gellatly|Alan Derr|Smita Jaiswal|Alper Kucukural|Patrick McDonel|Thomas Greenough|JeanMarie Houghton|Manuel Garber|Jeremy Luban University of Massachusetts Medical School
http://dx.doi.org/10.1101/221291 2017-11-17 LEM-3 is a midbody-tethered DNA nuclease that resolves chromatin bridges during cytokinesis YE HONG|Remi Sonneville|Bin Wang|Viktor Scheidt|Bettina Meier|Alexander Woglar|Sarah Demetriou|Karim Labib|Verena Jantsch|Anton Gartner School of Life Sciences, University of Dundee;|MRC Protein Phosphorylation and Ubiquitylation Unit, University of Dundee;|Centre for Gene Regulation & Expression, School of Life Sciences, Univ. of Dundee;|Dept. of Chromosome Biology, Max F. Perutz Laboratories, University of Vienna
http://dx.doi.org/10.1101/221374 2017-11-17 Synaptic m6A Epitranscriptome Reveals Functional Partitioning of Localized Transcripts for Dynamic Tripartite Synapse Modulation Daria Merkurjev|Wan-Ting Hong|Kei Iida|Belinda Goldie|Hitoshi Yamaguti|Ikumi Oomoto|Takayuki Ohara|Shin-ya Kawaguchi|Tomoo Hirano|Kelsey C Martin|Matteo Pellegrini|Dan O Wang Statistics Department, University of California at Los Angeles;|Institute for Integrated Cell-Material Sciences (iCeMS), Kyoto University;|Medical Research Support Center, Kyoto University Graduate School of Medicine;|Undergraduate School of Informatics and Mathematical Science, Kyoto University;|Society-Academia Collaboration for Innovation, Kyoto University;|Graduate School of Science, Kyoto University;|Department of Biological Chemistry, University of California at Los Angeles;|Dept. of Molecular, Cell & Developmental Biology, UCLA
http://dx.doi.org/10.1101/221879 2017-11-18 CC BY-NC-ND Genome-wide identification of directed gene networks using large-scale population genomics data Rene Luijk|Koen F Dekkers|Maarten van Iterson|Wibowo Arindrarto|Annique Claringbould|Paul Hop|Dorret I Boomsma|Cornelia M van Duin|Jan H Veldink|Marleen MJ van Greevenbroek|Cisca Wijmenga|Lude Franke|Peter AC 't Hoen|Rick Jansen|Joyce van Meurs|Hailiang Mei|Eline P Slagboom|Bastiaan T Heijmans|Erik W van Zwet Leiden University Medical Center;|University Medical Center Groningen;|-;|VU University Amsterdam;|Erasmus MC;|University Medical Center Utrecht;|Maastricht University Medical Center;|University Medical Centre Groningen;|VU University Medical Center
http://dx.doi.org/10.1101/221820 2017-11-18 CC BY Transgenic mouse lines expressing the 3xFLAG-dCas9 protein for enChIP analysis Toshitsugu Fujita|Fusako Kitaura|Asami Oji|Naoki Tanigawa|Miyuki Yuno|Masahito Ikawa|Ichiro Taniuchi|Hodaka Fujii Hirosaki University Graduate School of Medicine;|Research Institute for Microbial Diseases, Osaka University;|RIKEN Center for Integrative Medical Sciences
http://dx.doi.org/10.1101/221952 2017-11-18 CC BY Transcription start site analysis reveals widespread divergent transcription in D. melanogaster and core promoter encoded enhancer activities Sarah Rennie|Maria Dalby|Marta Lloret-Llinares|Stylianos Bakoulis|Christian Dalager Vaagenso|Torben Heick Jensen|Robin Andersson University of Copenhagen;|Aarhus University
http://dx.doi.org/10.1101/221754 2017-11-18 Targeted Genotyping of Variable Number Tandem Repeats with adVNTR Mehrdad Bakhtiari|Sharona Shleizer-Burko|Melissa Gymrek|Vikas Bansal|Vineet Bafna University of California San Diego
http://dx.doi.org/10.1101/220244 2017-11-18 CC BY-ND Length and time scales of cell-cell signaling circuits in agar Joy Doong|James Parkin|Richard M. Murray University of California, Davis;|California Institute of Technology
http://dx.doi.org/10.1101/221747 2017-11-18 Transcription activator-coactivator specificity is mediated by a large and dynamic fuzzy protein-protein complex Lisa M Tuttle|Derek Pacheco|Linda Warfield|Jie Luo|Jeff Ranish|Steven Hahn|Rachel E Klevit University of Washington;|Fred Hutchinson Cancer Research Center;|The Institute for Systems Biology
http://dx.doi.org/10.1101/221945 2017-11-18 Denaturants alter the flux through multiple pathways in the folding of PDZ domain Zhenxing Liu|Dave Thirumalai Beijing Normal University;|University of Texas at Austin
http://dx.doi.org/10.1101/221770 2017-11-18 Biologically plausible mechanisms underlying motor response correction during reward-based decision-making Jung H. Lee Allen Institute for Brain Science
http://dx.doi.org/10.1101/202564 2017-11-18 CC BY-NC The Generation and Propagation of the Human Alpha Rhythm Milan Halgren|Orrin Devinsky|Werner K Doyle|Helene Bastuji|Marc Rey|Rachel Mak-McCully|Patrick Chauvel|Istvan Ulbert|Daniel Fabo|Lucia Wittner|Gary Heit|Emad Eskandar|Arnold Mandell|Sydney S Cash Massachusetts General Hospital;|New York University;|Universite Claude Bernard;|Aix-Marseille Universite;|University of California, San Francisco;|Hungarian Academy of Sciences and Peter Pazmany University;|Peter Pazmany University;|Hungarian Academy of Sciences;|Stanford University;|University of California, San Diego
http://dx.doi.org/10.1101/194910 2017-11-18 Coarse-grained simulations of actomyosin rings point to a nodeless model involving both unipolar and bipolar myosins Lam Nguyen|Matthew T Swulius|Samya Aich|Mithilesh Mishra|Grant J Jensen California Institute of Technology;|Tata Institute of Fundamental Research, India
http://dx.doi.org/10.1101/221721 2017-11-18 Identification and characterisation of the cryptic Golgi Apparatus in Naegleria gruberi Emily Herman|Lyto Yiangou|Diego M Cantoni|Christopher Miller|Francine Marciano-Cabral|Erin Anthonyrajah|Joel Dacks|Anastasios Tsaousis University of Alberta;|University of Kent;|Virginia Commonwealth University
http://dx.doi.org/10.1101/221911 2017-11-18 CC BY-NC-ND Wx: a neural network-based feature selection algorithm for next-generation sequencing data Sungsoo Park|Bonggun Shin|Yoonjung Choi|Kilsoo Kang|Keunsoo Kang DEARGEN Inc.;|Department of Microbiology, College of Natural Sciences, Dankook University
http://dx.doi.org/10.1101/221812 2017-11-18 CC BY Time intervals in sequence sampling, not data modifications, have a major impact on estimates of HIV escape rates Vitaly V Ganusov University of Tennessee
http://dx.doi.org/10.1101/221937 2017-11-18 Plant Biology CC BY-NC Expansion and diversification of the gibberellin receptor GIBBERELLIN INSENSITIVE DWARF1 (GID1) in land plants Rajesh K. Gazara|Kanhu C. Moharana|Daniel Bellieny-Rabelo|Thiago M. Venancio Universidade Estadual do Norte Fluminense Darcy Ribeiro
http://dx.doi.org/10.1101/221861 2017-11-18 Genetics CC BY-NC-ND Standardizing microsatellite panels for individual identification of seabirds Snow Petrel Pagodroma nivea and Wilson's Storm Petrel Oceanites oceanicus in Antarctica Anant Pande|Nidhi Rawat|Kuppusamy Sivakumar|Sambandan Sathyakumar|Vinod B Mathur|Samrat Mondol Wildlife Institute of India, Chandrabani, Dehradun, Uttarakhand, India 248001
http://dx.doi.org/10.1101/219683 2017-11-18 Genomics Higher-order inter-chromosomal hubs shape 3-dimensional genome organization in the nucleus Sofia A Quinodoz|Noah Ollikainen|Barbara Tabak|Ali Palla|Jan Marten Schmidt|Elizabeth Detmar|Mason Lai|Alexander Shishkin|Prashant Bhat|Vickie Trinh|Erik Aznauryan|Pamela Russell|Christine Cheng|Marko Jovanovic|Amy Chow|Patrick McDonel|Manuel Garber|Mitchell Guttman Division of Biology and Biological Engineering, California Institute of Technology, Pasadena, CA;|Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School;|Department of Biostatistics and Informatics, Colorado School of Public Health, Aurora, CO;|Department of Biology, Boston University, Boston, MA 02215;|Department of Biological Sciences, Columbia University, New York, NY;|Program in Bioinformatics and in Molecular Medicine, University of Massachusetts Medical School
http://dx.doi.org/10.1101/222166 2017-11-19 CC BY Glutamatergic drive along the septo-temporal axis of hippocampus boosts prelimbic oscillations in the neonatal mouse Joachim Ahlbeck|Lingzhen Song|Mattia Chini|Antonio Candela|Sebastian H. Bitzenhofer|Ileana L. Hanganu-Opatz University Medical Center Hamburg-Eppendorf, Germany
http://dx.doi.org/10.1101/222109 2017-11-19 CC BY Chasing a moving target: Detection of mitochondrial heteroplasmy for clinical diagnostics Eric J White|Tristen Ross|Edgardo Lopez|Anastasia Nikiforov|Christopher Gault|Rebecca Batorsky|Christopher Darcy|Dean Campagna|Mark Fleming|John Thompson Claritas Genomics;|Boston Children's Hospital;|Helicos BioSciences
http://dx.doi.org/10.1101/222117 2017-11-19 CC BY-NC-ND Selection for pollen competitive ability in mixed mating systems Madeline Amanda Erzen Peters|Arthur E Weis University of Toronto
http://dx.doi.org/10.1101/221986 2017-11-19 CC BY-NC-ND Prevention and reversion of pancreatic tumorigenesis through a differentiation-based mechanism Nathan M. Krah|Deanne Yugawa|Julie Straley|Christopher V E Wright|Raymond J MacDonald|Lewis Charles Murtaugh University of Utah;|Vanderbilt University;|University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/222059 2017-11-19 Paleontology Root grooves on two adjacent anterior teeth of Australopithecus africanus Ian Towle|Joel Irish|Marina Elliott|Isabelle De Groote Liverpool John Moores University;|University of the Witwatersrand
http://dx.doi.org/10.1101/222034 2017-11-19 Evolutionary Biology CC BY-NC-ND Adaptive significance of frontal eyes: Binocular disparity improves the capacity of vision Henry Railo|Joni Saastamoinen|Sipi Kylmala|Aapo Peltola University of Turku;|Turku University of Applied Sciences
http://dx.doi.org/10.1101/221978 2017-11-19 Microbiology CC BY-NC-ND Determinants of target prioritization and regulatory hierarchy for the bacterial small RNA SgrS Maksym Bobrovskyy|Jane Frandsen|Jichuan Zhang|Anustup Poddar|Muhammad S. Azam|Tina M. Henkin|Taekjip Ha|Carin K Vanderpool University of Illinois at Urbana-Champaign;|The Ohio State University;|Johns Hopkins University
http://dx.doi.org/10.1101/222018 2017-11-19 Developmental Biology CC BY-NC-ND Selective Filopodia Adhesion Ensures Robust Cell Matching in the Drosophila Heart ShaoBo Zhang|Christopher Amourda|Timothy Saunders Mechanobiology Institute, National University of Singapore
http://dx.doi.org/10.1101/222000 2017-11-19 Cell Biology Topography and refractometry of sperm cells using SLIM Lina Liu|Mikhail E Kandel|Marcello Rubessa|Sierra Schreiber|Mathew Wheeler|Gabriel Popescu Key Laboratory of OptoElectronic Science and Technology for Medicine of MOE Fujian Normal University;|Beckman Institute of Advanced Science and Technology, University of Illinois at Urbana-Champaign;|Carl R. Woses Institute for Genomic Biology, University of Illinois at Urbana-Champaign;|Department of Animal Science, University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/222091 2017-11-19 Pathology Dietary and behavioral inferences from dental pathology and non-masticatory wear on dentitions from a British medieval town Ian Towle|Carole Davenport|Joel Irish|Isabelle De Groote Liverpool John Moores University
http://dx.doi.org/10.1101/213942 2017-11-19 Neuroscience Recording neural activity in unrestrained animals with 3D tracking two photon microscopy Doycho Karagyozov|Mirna Mihovilovic Skanata|Amanda Lesar|Marc Gershow Department of Physics, New York University;|New York University
http://dx.doi.org/10.1101/219816 2017-11-19 Neuroscience CC BY-NC-ND A comparison of tests for quantifying sensory eye dominance Manuela Bossi|Lisa Hamm|Annegret Dahlmann-Noor|Steven Dakin UCL Institute of Ophthalmology, University College London, Bath St, London EC1V 9EL, UK;|School of Optometry and Vision Science, University of Auckland;|Moorfields Eye Hospital, City Road, London EC1V 2PD, UK;|University of Auckland
http://dx.doi.org/10.1101/202549 2017-11-19 Neuroscience CC BY Superficial Slow Rhythms Integrate Cortical Processing in Humans Milan Halgren|Daniel Fabo|Istvan Ulbert|Joseph R Madsen|Lorand Eross|Werner K Doyle|Orrin Devinsky|Donald Schomer|Sydney S Cash|Eric Halgren Department of Neurology, Massachusetts General Hospital;|Epilepsy Centrum, National Institute of Clinical Neurosciences, Budapest, Hungary.;|Research Center for Natural Sciences, Hungarian Academy of Science;|Departments of Neurosurgery, Boston Children's Hospital and Harvard Medical School, Boston, MA;|Functional Neurosurgery, National Institute of Clinical Neurosciences, Budapest, Hungary;|Comprehensive Epilepsy Center, New York University School of Medicine, New York, NY;|Department of Neurology, Beth Israel Deaconess Medical Center, Boston, MA;|Departments of Neurosciences and Radiology, Center for Human Brain Activity Mapping, UCSD
http://dx.doi.org/10.1101/222265 2017-11-20 Genetics CC BY-NC-ND Leveraging polygenic functional enrichment to improve GWAS power Gleb Kichaev|Gaurav Bhatia|Po-Ru Loh|Steven Gazal|Kathryn Burch|Malika Freund|Armin Scoech|Bogdan Pasaniuc|Alkes Price University of California, Los Angeles;|Harvard T.H Chan School of Public Health
http://dx.doi.org/10.1101/222182 2017-11-20 Genomics CC BY Molecular basis of hemoglobin adaptation in the high-flying bar-headed goose Jay F Storz|Chandrasekhar Natarajan|Agnieszka Jendroszek|Amit Kumar|Roy E Weber|Jeremy RH Tame|Angela Fago University of Nebraska;|University of Nebraska-Lincoln;|Aarhus University;|Yokohama City University
http://dx.doi.org/10.1101/222208 2017-11-20 Animal Behavior and Cognition CC BY Recurrent Neural Networks with Interpretable Cells Predict and Classify Worm Behaviour Kezhi Li|Avelino Javer|Eric E. Keaveny|Andre E.X. Brown Imperial College London
http://dx.doi.org/10.1101/222240 2017-11-20 Microbiology CC BY Within host selection for faster replicating bacterial symbionts Ewa Chrostek|Luis Teixeira Instituto Gulbenkian de Ciencia
http://dx.doi.org/10.1101/222190 2017-11-20 Genetics CC BY Dynamics of the upper airway microbiome in the pathogenesis of asthma-associated persistent wheeze in preschool children Shu Mei Teo|Howard HF Tang|Danny Mok|Louise M Judd|Stephen C Watts|Kym Pham|Barbara J Holt|Merci Kusel|Michael Serralha|Niamh Troy|Yury A Bochkov|Kristine Grindle|Robert F Lemanske|Sebastian L Johnston|James E Gern|Peter D Sly|Patrick G Holt|Kathryn E Holt|Michael Inouye Systems Genomics Lab, Baker Heart and Diabetes Institute;|Telethon Kids Institute, The University of Western Australia;|Dept of Biochemistry and Molecular Biology, Bio21 Institute, University of Melbourne;|Department of Pathology, The University of Melbourne;|University of Wisconsin School of Medicine and Public Health;|National Heart and Lung Institute, Imperial College London;|Child Health Research Centre, The University of Queensland
http://dx.doi.org/10.1101/221630 2017-11-20 Neuroscience CC BY-NC-ND Performance-optimized hierarchical models only partially predict neural responses during perceptual decision making Laura Gwilliams|Jean-Remi King New York University;|Frankfurt Institute for Advanced Studies; New York University
http://dx.doi.org/10.1101/222299 2017-11-20 Genomics CC BY iterative Random Forests to discover predictive and stable high order interactions Sumanta Basu|Karl Kumbier|James B. Brown|Bin Yu Cornell University;|UC Berkeley;|University of Birmingham; Lawrence Berkeley National Laboratory; Preminon, LLC; UC Berkeley
http://dx.doi.org/10.1101/222216 2017-11-20 Neuroscience CC BY-ND Fronto-limbic dysconnectivity leads to impaired brain network controllability in young people with bipolar disorder and those at high genetic risk Jayson Jeganathan|Alistair Perry|Danielle S Bassett|Gloria Roberts|Philip B Mitchell|Michael Breakspear QIMR Berghofer Medical Research Institute;|QIMR Berghofer Medical Research Institute; School of Psychiatry, University of New South Wales;|Departments of Bioengineering and Electrical & Systems Engineering, University of Pennsylvania;|School of Psychiatry, University of New South Wales; Metro North Mental Health Service, Brisbane;|QIMR Berghofer Medical Research Institute; Metro North Mental Health Service, Brisbane
http://dx.doi.org/10.1101/221333 2017-11-20 Systems Biology CC BY-NC-ND Naked mole-rat transcriptome signatures of socially-suppressed sexual maturation and links of reproduction to aging Martin Bens|Karol Szafranski|Susanne Holtze|Arne Sahm|Marco Groth|Hans A. Kestler|Thomas B Hildebrandt|Matthias Platzer Leibniz Institute on Aging - Fritz Lipmann Institute;|Leibniz Institute for Zoo and Wildlife Research;|Institute of Medical Systems Biology
http://dx.doi.org/10.1101/222372 2017-11-20 Bioinformatics cycleX: multi-dimensional pseudotime reveals cell cycle and differentiation relationship of dendritic cell progenitors Yong Kee Tan|Xiaomeng Zhang|Jinmiao Chen Singapore Immunology Network, A * STAR
http://dx.doi.org/10.1101/195610 2017-11-20 CC BY-NC-ND EGLN Inhibition Reduces Gastrointestinal Radiation Toxicity and Improves Survival in a Murine Model of Locally Advanced Pancreatic Cancer Tara N Fujimoto|Lauren E Colbert|Jessica M Molkentine|Laura Baseler|Amit Deorukukhar|Charles V Kingsley|Gabriel O Sawakuchi|Ramesh C Tailor|Cullen M Taniguchi University of Texas at MD Anderson
http://dx.doi.org/10.1101/222620 2017-11-20 Peptidomimetic blockade of MYB in acute myeloid leukemia Kavitha Ramaswamy|Lauren Forbes|Gerard Minuesa|Tatyana Gindin|Fiona Brown|Michael Kharas|Andrei Krivtsov|Scott Armstrong|Eric Still|Elisa de Stanchina|Birgit Knoechel|Richard Koche|Alex Kentsis MSKCC;|Columbia University;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/222570 2017-11-20 Genetics CC BY An atlas of Caenorhabditis elegans chemoreceptor expression Berta Vidal|Ulkar Aghayeva|Haosheng Sun|Chen Wang|Lori Glenwinkel|Emily Bayer|Oliver Hobert Columbia University
http://dx.doi.org/10.1101/216762 2017-11-20 Neuroscience CC BY-NC-ND Diurnal changes in glutamate/glutamine levels of healthy young adults assessed by proton magnetic resonance spectroscopy Carina Volk|Valeria Jaramillo|Renato R. Merki|Ruth L. O'Gorman|Reto Huber University Children's Hospital Zurich, Switzerland
http://dx.doi.org/10.1101/215509 2017-11-20 Neuroscience CC BY-NC Eye movement-related confounds in neural decoding of visual working memory representations Pim Mostert|Anke Marit Albers|Loek Brinkman|Larisa Todorova|Peter Kok|Floris P. de Lange Donders Institute for Brain, Cognition and Behaviour;|Justus-Liebig-Universitaet;|Utrecht University;|Yale University
http://dx.doi.org/10.1101/222497 2017-11-20 Bioengineering A method to keep the excitation light sheet in focus in selective plane illumination microscopy Liang Gao Intelligent Imaging Innovations Inc.
http://dx.doi.org/10.1101/217802 2017-11-20 Bioinformatics CC BY WeSeqMiner: A Weka package for building machine-learning models for sequence data Daniel Hogan|Bharathikumar Vellalore Maruthachalam|Ronald C. Geyer|Anthony Kusalik University of Saskatchewan;|University of Saskachewan
http://dx.doi.org/10.1101/221283 2017-11-20 Neuroscience CC BY-NC-ND Emergence of binocular disparity selectivity through Hebbian learning Tushar Chauhan|Timothee Masquelier|Alexandre Montlibert|Benoit R. Cottereau Université de Toulouse, CerCo; CNRS, Toulouse, France
http://dx.doi.org/10.1101/221036 2017-11-20 Bioengineering Multi-scale periodicities in the functional brain networks of patients with epilepsy and their effect on seizure detection Manolis Christodoulakis|Maria N Anastasiadou|Eleftherios S Papathanasiou|Savvas S Papacostas|Avgis Hadjipapas|Georgios D Mitsis University of Cyprus;|The Cyprus Institute of Neurology & Genetics;|University of Nicosia;|McGill University
http://dx.doi.org/10.1101/222398 2017-11-20 Microbiology CC BY A perturbation model of the gut microbiome's response to antibiotics Liam P. Shaw|Chris P Barnes|A. Sarah Walker|Nigel Klein|Francois Balloux UCL;|Cell and Developmental Biology, UCL;|MRC Clinical Trials Unit at UCL;|UCL Institute of Child Health, UCL;|UCL Genetics Institute, UCL
http://dx.doi.org/10.1101/222349 2017-11-20 Genomics Recurrently Mutated Genes Differ between Leptomeningeal and Solid Lung Cancer Brain Metastases Yingmei Li|Boxiang Liu|Ian David Connolly|Bina Wasunga Kakusa|Wenying Pan|Seema Nagpal|Stephen B. Montgomery|Melanie Hayden Gephart Stanford University
http://dx.doi.org/10.1101/222042 2017-11-20 Systems Biology CC BY-ND Hard Limits And Performance Tradeoffs In A Class Of Sequestration Feedback Systems Noah Olsman|Ania-Ariadna Baetica|Fangzhou Xiao|Yoke Peng Leong|John Doyle|Richard Murray California Institute of Technology
http://dx.doi.org/10.1101/222315 2017-11-20 Biochemistry CC BY-NC-ND Attomol-level quantification of chemically modified ribonucleosides enabled by capillary porous graphitic carbon columns in nano LC-MS Peter Sarin|Sandra D Kienast|Johannes Leufken|Robert R Ross|Patrick A Limbach|Christian Fufezan|Hannes C. A. Drexler|Sebastian Leidel Max Planck Institute for Molecular Biomedicine;|University of Cincinnati;|University of Muenster
http://dx.doi.org/10.1101/222364 2017-11-20 Evolutionary Biology Bacterial adaptation to host diet is a key evolutionary force shaping host-microbe symbiosis Maria Elena Martino|Pauline Joncour|Ryan Leenay|Hugo Gervais|Malay Shaw|Sandrine Hughes|Benjamin Gillet|Chase Beisel|Francois Leulier Institut de Genomique Fonctionnelle de Lyon;|North Carolina State University
http://dx.doi.org/10.1101/222414 2017-11-20 Plant Biology CC BY-NC-ND Investigating on relationship between effective quantum efficiency and irradiance Zi-Piao Ye|Shuang-Xi Zhou|Xiao-Long Yang|Hua-Jing Kang|Piotr Robakowski Math & Physics College, Jinggangshan University, Ji'an 343009, P. R. of China;|Department of Biological Sciences, Macquarie University, NSW 2109, Australia;|Dept. of Environmental Science & Engineering, Fudan University, Shanghai, China;|Wenzhou Vocational College of Science & Technology, Wenzhou, P. R. of China;|Dept. of Forestry, Poznan University of Life Sciences, Poznan, Poland
http://dx.doi.org/10.1101/221317 2017-11-20 Neuroscience CC BY-NC-ND Sensory attenuation is related to dopamine dose in Parkinson's disease Noham Wolpe|Jiaxiang Zhang|Cristina Nombela|James N Ingram|Daniel M Wolpert|James B Rowe University of Cambridge;|Cardiff University;|Hospital Clinico San Carlos;|-
http://dx.doi.org/10.1101/222471 2017-11-20 Evolutionary Biology CC BY-NC-ND Chaos and the (un)predictability of evolution in a changing environment Artur Rego-Costa|Florence Debarre|Luis-Miguel Chevin Harvard University;|CNRS;|CEFE CNRS
http://dx.doi.org/10.1101/222331 2017-11-20 Neuroscience Decoding of neural data using cohomological learning Erik Rybakken|Nils Baas|Benjamin Dunn NTNU
http://dx.doi.org/10.1101/222430 2017-11-20 Evolutionary Biology CC BY-NC-ND Patterns of Z chromosome divergence among Heliconius species highlight the importance of historical demography Steven M. Van Belleghem|Margarita Baquero|Riccardo Papa|Camilo Salazar|W. Owen McMillan|Brian A. Counterman|Chris D. Jiggins|Simon H. Martin University of Cambridge;|Mississippi State University;|University of Puerto Rico, Rio Piedras;|Universidad del Rosario, Carrera;|Smithsonian Tropical Research Institute
http://dx.doi.org/10.1101/222422 2017-11-20 Cell Biology CC BY Higher eukaryote-specific APC/C composition is a determinant of spindle assembly checkpoint importance Thomas Wild|Magdalena Budzowska|Gopal Karemore|Chunaram Choudhary University of Copenhagen
http://dx.doi.org/10.1101/222638 2017-11-21 CC BY-NC-ND Loss of the intellectual disability and autism gene Cc2d1a and its homolog Cc2d1b differentially affect spatial memory, anxiety, and hyperactivity Marta Zamarbide|Adam W Oaks|Heather L Pond|Julia S Adelman|M. Chiara Manzini The George Washington University
http://dx.doi.org/10.1101/222687 2017-11-21 Detecting cancer vulnerabilities through gene networks under purifying selection in 4,700 cancer genomes Anika Gupta|Heiko Horn|Parisa Razaz|April Kim|Michael Lawrence|Gad Getz|Kasper Lage Massachusetts Institute of Technology, Broad Institute of MIT and Harvard;|Broad Institute of MIT and Harvard, Massachusetts General Hospital;|Broad Inst. of MIT & Harvard, Massachusetts General Hosp., Harvard Med. School;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/223172 2017-11-21 Cell Biology The conserved LEM-3/Ankle1 nuclease is involved in the combinatorial regulation of meiotic recombination repair and chromosome segregation in Caenorhabditis elegans YE HONG|Maria Velkova|Nicola Silva|Marlene Jagut|Viktor Scheidt|Karim Labib|Verena Jantsch|Anton Gartner School of Life Sciences, University of Dundee;|Dept. of Chromosome Biology, Max F. Perutz Laboratories, University of Vienna;|Centre for Gene Regulation and Expression, University of Dundee;|MRC Protein Phosphorylation & Ubiquitylation Unit, University of Dundee
http://dx.doi.org/10.1101/223016 2017-11-21 Bioinformatics CC BY-NC-ND YAMP: a framework enabling reproducibility in metagenomics research Alessia Visconti|Tiphaine C Martin|Mario Falchi King's College London
http://dx.doi.org/10.1101/222562 2017-11-21 Bioinformatics CC BY-NC CREAM: Clustering of genomic REgions Analysis Method Seyed Ali Madani Tonekaboni|Parisa Mazrooei|Victor Kofia|Benjamin Haibe-Kains|Mathieu Lupien University of Toronto;|Princess Margaret Cancer Centre
http://dx.doi.org/10.1101/220947 2017-11-21 Genomics CC BY Improved genome assembly and annotation for the rock pigeon (Columba livia) Carson Holt|Michael Campbell|David Keays|Nathaniel Edelman|Aurelie Kapusta|Emily Maclary|Eric Domyan|Alexander Suh|Wesley Warrenb|Mark Yandell|Thomas Gilbert|Michael D. Shapiro University of Utah;|Research Institute of Molecular Pathology;|Uppsala University;|Washington University;|University of Copenhagen
http://dx.doi.org/10.1101/222943 2017-11-21 Cancer Biology Characterizing Cancer Drug Response and Biological Correlates: A Geometric Network Approach Allen Tannenbaum|Maryam Pouryahya|Jung Hun Oh|James Mathews|Joseph Deasy Stony Brook University;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/223008 2017-11-21 Plant Biology CC BY-NC-ND LRX Proteins play a crucial role in pollen grain and pollen tube cell wall development Tohnyui Ndinyanka Fabrice|Hannes Vogler|Christian Draeger|Gautam Munglani|Shibu Gupta|Aline Galatea Herger|Paul Knox|Ueli Grossniklaus|Christoph Ringli Institute of Plant and Microbial Biology & Zurich-Basel Plant Science Center, University of Zurich;|Centre for Plant Sciences, Faculty of Biological Sciences, University of Leeds;|University of Zurich
http://dx.doi.org/10.1101/222794 2017-11-21 Bioengineering CC BY-NC-ND Single-molecule fluorescent amplification of RNA using clampFISH probes Sara H Rouhanifard|Margaret Dunagin|Ian A Mellis|Sareh Bayatpour|Orsolya Symmons|Allison Cote|Arjun Raj University of Pennsylvania
http://dx.doi.org/10.1101/223024 2017-11-21 Physiology Phenotyping ciliary dynamics and coordination in response to CFTR-modulators in Cystic Fibrosis respiratory epithelial cells Maurizio Chioccioli|Luigi Feriani|Jurij Kotar|Preston E. Bratcher|Pietro Cicuta University of Cambridge;|National Jewish Health, Denver
http://dx.doi.org/10.1101/222877 2017-11-21 Genomics Dynamic reorganization of nuclear architecture during human cardiogenesis Paul A Fields|Vijay Ramani|Giancarlo Bonora|Galip Gurkan Yardimci|Alessandro Bertero|Hans Reinecke|Lil Pabon|William S Noble|Jay Shendure|Charles Murry University of Washington
http://dx.doi.org/10.1101/222505 2017-11-21 Cancer Biology CC BY-NC-ND Hyperactivation of extracellular signal-regulated kinase (ERK) by RAS-mediated signaling or inhibition of dual specificity phosphatase 6 (DUSP6) is associated with toxicity in lung adenocarcinoma cells with mutations in KRAS or EGFR Arun M Unni|Bryant Harbourne|Min Hee Oh|Sophia Wild|William W Lockwood|Harold Varmus Weill Cornell Medicine;|British Columbia Cancer Agency;|British Columbia Cancer Agency; University of British Columbia
http://dx.doi.org/10.1101/222539 2017-11-21 Physiology INSULIN-LIKE PEPTIDES REGULATE FEEDING PREFERENCE AND METABOLISM IN DROSOPHILA Uliana Semanyuk|Dmytro Gospodaryov|Hrystyna Fedenko|Ihor Yurkevych|Alexander Vaiserman|Kenneth Storey|Stephen Simpson|Oleh Lushchak Vasyl Stefanyk Precarpathian National University;|D.F. Chebotarev Institute of Gerontology;|Carleton University;|The University of Sydney
http://dx.doi.org/10.1101/222554 2017-11-21 Biochemistry CC BY Identification of key pathways and metabolic fingerprints of longevity in C. elegans Arwen Gao|Reuben Smith|Michel Van Weeghel|Rashmi Kamble|Riekelt Houtkooper Academic Medical Center
http://dx.doi.org/10.1101/222901 2017-11-21 Cell Biology Cytoplasmic import and processing of mRNA amplify transcriptional bursts accounting for the majority of cellular noise Maike M. K. Hansen|Ravi V. Desai|Michael L. Simpson|Leor S. Weinberger Gladstone Institutes;|Oak Ridge National Lab;|UCSF and Gladstone
http://dx.doi.org/10.1101/221762 2017-11-21 Cell Biology CC BY-NC-ND Allele-specific control of replication timing and genome organization during development Juan Carlos Rivera-Mulia|Andrew Dimond|Daniel Vera|Claudia Trevilla-Garcia|Takayo Sasaki|Jared Zimmerman|Catherine Dupont|Joost Gribnau|Peter Fraser|David M Gilbert Florida State University;|The Babraham Institute;|Department of Reproduction and Development, Erasmus MC
http://dx.doi.org/10.1101/222760 2017-11-21 Developmental Biology CC BY Integrated analysis of single-cell embryo data yields a unified transcriptome signature for the human preimplantation epiblast Giuliano G Stirparo|Thorsten Boroviak|Ge Guo|Jennifer Nichols|Austin Smith|Paul Bertone University of Cambridge
http://dx.doi.org/10.1101/214817 2017-11-21 Molecular Biology CC BY-ND Interplay of target site architecture and miRNA abundance determine miRNA activity and specificity Giovanna Brancati|Sarah H Carl|Helge Grosshans Friedrich Miescher Institute for Biomedical Research
http://dx.doi.org/10.1101/223321 2017-11-21 Evidence for, and Metabolic Consequences of, a Cardiac Mitochondrial KNa1.2 Channel Charles O Smith|Yves T Wang|Sergiy M Nadtochiy|James H Miller|Elizabeth A Jonas|Robert T Dirksen|Keith Nehrke|Paul S Brookes University of Rochester;|Yale University;|University of Rochester Medical Center
http://dx.doi.org/10.1101/223412 2017-11-21 Modular assembly of the nucleolar large subunit processome Zahra Assur Sanghai|Linamarie Miller|Kelly R. Molloy|Jonas Barandun|Mirjam Hunziker|Malik Chaker-Margot|Junjie Wang|Brian T. Chait|Sebastian Klinge The Rockefeller University
http://dx.doi.org/10.1101/221960 2017-11-21 Aging and neurodegeneration are associated with increased mutations in single human neurons Michael A Lodato|Rachel E Rodin|Craig L Bohrson|Michael E Coulter|Alison R Barton|Minseok Kwon|Maxwell A Sherman|Carl M Vitzhum|Lovelace J Luquette|Chandri Yandava|Pengwei Yang|Thomas W Chittenden|Nicole E Hatem|Steven C Ryu|Mollie B Woodworth|Peter J Park|Christopher A Walsh Boston Children's Hospital, Harvard Medical School, HHMI;|Harvard Medical School;|WuXi Nextcode;|WuXi Nextcode, Massachusetts Institute of Technology, Boston Children's Hospital;|Harvard Medical School, Brigham and Women's Hospital
http://dx.doi.org/10.1101/222851 2017-11-21 The ventral stream receives spatial information from the dorsal stream during configural face processing Valentinos Zachariou|Nicole Mlynaryk|Marine Vernet|Leslie Ungerleider NIH/NIMH
http://dx.doi.org/10.1101/223578 2017-11-21 Mutations in RPL3L and MYZAP increase risk of atrial fibrillation Rosa B Thorolfsdottir|Gardar Sveinbjornsson|Patrick Sulem|Stefan Jonsson|Gisli Halldorsson|Pall Melsted|Erna V Ivarsdottir|Olafur B Davidsson|Ragnar B Kristjansson|Gudmar Thorleifsson|Anna Helgadottir|Solveig Gretarsdottir|Gudmundur Norddahl|Sridharan Rajamani|Bjarni Torfason|Atli S Valgardsson|Jon T Sverrisson|Vinicius Tragante|Folkert W Asselbergs|Dan M Roden|Dawood Darbar|Terje R Pedersen|Marc S Sabatine|Maja-Lisa Lochen|Bjarni V Halldorsson|Ingileif Jonsdottir|David O Arnar|Unnur Thorsteinsdottir|Daniel F Gudbjartsson|Hilma Holm|Kari Stefansson deCODE genetics/Amgen, Inc., Reykjavik, Iceland;|Dept. of Cardiothoracic Surgery, Landspitali - Natl. Univ. Hospital, Reykjavik, Iceland;|Department of Medicine, Akureyri Hospital, 600 Akureyri, Iceland;|Dept. of Cardiology, Division Heart & Lungs, University Medical Center Utrecht;|Depts. of Medicine, Pharmacology, and Biomedical Informatics, Vanderbilt Univ.;|Division of Cardiology, Dept. of Medicine, University of Illinois at Chicago;|Center For Preventive Medicine, Oslo University Hospital and Medical Faculty;|TIMI Study Grp., Div. of Cardiovasc. Med., Brigham & Womens Hospital; Harvard;|Department of Community Medicine, UiT The Arctic University of Norway;|Faculty of Medicine, University of Iceland, Reykjavik, Iceland
http://dx.doi.org/10.1101/223529 2017-11-21 CC BY-NC On the proportional abundance of species: Integrating population genetics and community ecology Pablo A Marquet|Guillermo Espinoza|Sebastian R Abades|Angela Ganz|Rolando Rebolledo Pontificia Universidad Catolica de Chile;|Universidad Mayor;|Universidad de Valparaiso
http://dx.doi.org/10.1101/221671 2017-11-21 Infino: a Bayesian hierarchical model improves estimates of immune infiltration into tumor microenvironment Maxim E Zaslavsky|Jacqueline Buros Novik|Eliza J Chang|Jeffrey E Hammerbacher Icahn School of Medicine at Mount Sinai;|Icahn School of Medicine at Mount Sinai; Medical University of South Carolina
http://dx.doi.org/10.1101/222729 2017-11-21 CC BY-NC Rethinking phylogenetic comparative methods Josef C Uyeda|Rosana Zenil-Ferguson|Matthew W Pennell Virginia Polytechnic and State University;|University of Minnesota;|University of British Columbia
http://dx.doi.org/10.1101/217737 2017-11-21 CC BY-NC K-nearest neighbor smoothing for high-throughput single-cell RNA-Seq data Florian Wagner|Yun Yan|Itai Yanai NYU School of Medicine
http://dx.doi.org/10.1101/223479 2017-11-21 Computational Design of Asymmetric Three-dimensional RNA Structures and Machines. Joseph D Yesselman|Daniel Eiler|Erik D Carlson|Alexandra N Ooms|Wipapat Kladwang|Xuesong Shi|David A Costantino|Daniel Herschlag|Michael C Jewett|Jeffrey S Kieft|Rhiju Das Department of Biochemistry, Stanford University School of Medicine;|Dept of Biochemistry and Molecular Genetics, University of Colorado Denver School of Medicine;|Department of Chemical and Biological Engineering, Northwestern University;|Department of Cancer Genetics & Genomics, Stanford University School of Medicine
http://dx.doi.org/10.1101/223040 2017-11-21 CC BY-NC-ND Inference about causation between body mass index and DNA methylation in blood from a twin family study Shuai Li|Ee Ming Wong|Minh Bui|Tuong L Nguyen|Jihoon Joo|Jennifer Stone|Gillian S Dite|Pierre-Antoine Dugue|Roger L Milne|Graham G Giles|Richard Saffery|Melissa C Southey|John L Hopper Centre for Epidemiology and Biostatistics, University of Melbourne;|Genetic Epidemiology Laboratory, Department of Pathology, University of Melbourne;|Ctr. for Genetic Origins of Health & Disease, Curtin Univ.; Univ. of Western Australia;|Cancer Epidemiology and Intelligence Division, Cancer Council Victoria;|Murdoch Childrens Research Institute
http://dx.doi.org/10.1101/222380 2017-11-21 CC BY-NC-ND Stability in the genetic structure of a Zymoseptoria tritici population from epidemic to interepidemic stages at a small spatial scale David Morais|Clementine Duplaix|Ivan Sache|Valerie Laval|Frederic Suffert|Anne-Sophie Walker INRA;|AgroParisTech
http://dx.doi.org/10.1101/223487 2017-11-21 CC BY-NC-ND Migration alters oscillatory dynamics and promotes survival in connected bacterial populations Shreyas Gokhale|Arolyn Conwill|Tanvi Ranjan|Jeff Gore Massachusetts Institute of Technology;|Harvard University
http://dx.doi.org/10.1101/223263 2017-11-21 CC BY-NC-ND Assessing the genetic effect mediated through gene expression from summary eQTL and GWAS data Richard Barfield|Helian Feng|Alexander Gusev|Lang Wu|Wei Zheng|Bogdan Pasaniuc|Peter Kraft Fred Hutchinson Cancer Research Center;|Harvard T.H. Chan School of Public Health;|Dana-Farber Cancer Institute;|Vanderbilt University School of Medicine;|University of California Los Angeles
http://dx.doi.org/10.1101/223453 2017-11-21 CC BY-NC-ND Elevated and sustained reactive oxygen species levels facilitate mesoderm formation during early Xenopus development Yue Han|Yaoyao Chen|Nick R Love|Shoko Ishibashi|Enrique Amaya University of Manchester and Xiamen University;|University of Manchester
http://dx.doi.org/10.1101/217612 2017-11-21 CC BY Effect of vitamin D supplementation on biomarkers of inflammation and immune function: functional genomics analysis of the BEST-D trial Antonio J Berlanga-Taylor|Katherine Plant|Evelyn Lau|Andrew Dahl|Michael Hill|David Sims|Andreas Heger|Jonathan Emberson|Jane Armitage|Robert Clarke|Julian Knight Imperial College London;|University of Oxford
http://dx.doi.org/10.1101/223107 2017-11-21 CC BY Trends in Escherichia coli bloodstream infection, urinary tract infections and antibiotic susceptibilities in Oxfordshire, 1998-2016: an observational study Karina-Doris Vihta|Nicole Stoesser|Martin J Llewelyn|Phuong T Quan|Timothy Davies|Nicola Fawcett|Laura Dunn|Katie Jeffery|Christopher Butler|Gail Hayward|Monique Andersson|Marcus Morgan|Sarah Oakley|Amy Mason|David H Wyllie|Derrick Crook|Mark Wilcox|Alan P Johnson|Tim Peto|Sarah A Walker University of Oxford;|University of Sussex;|Oxford University Hospitals NHS Foundation Trust;|University of Leeds;|Public Health England
http://dx.doi.org/10.1101/223248 2017-11-21 CC BY Circulating selenium and prostate cancer risk: a Mendelian randomization analysis James Yarmolinsky|Carolina Bonilla|Philip C Haycock|Ryan JQ Langdon|Luca A Lotta|Claudia Langenberg|Caroline L Relton|Sarah J Lewis|David M Evans|George Davey Smith|Richard M Martin University of Bristol;|University of Cambridge;|University of Queensland;|-
http://dx.doi.org/10.1101/223420 2017-11-21 CC BY-NC-ND Zoonotic Babesia microti in the northeastern U.S.: evidence for the expansion of a specific parasite lineage Heidi K. Goethert|Philip J. Molloy|Victor Berardi|Karen Weeks|Sam Telford Tufts University;|Imugen, Inc.
http://dx.doi.org/10.1101/221739 2017-11-21 CC BY A multivariate analysis of CalEnviroScreen: comparing environmental and socioeconomic stressors versus chronic disease Ben K Greenfield|Jayant Rajan|Thomas E McKone Southern Illinois University Edwardsville;|Zuckerberg San Francisco General Hospital, University of California, San Francisco;|University of California - Berkeley
http://dx.doi.org/10.1101/222802 2017-11-21 CC BY-NC-ND Testing the parasite mass burden effect on host behaviour alteration in the Schistocephalus-stickleback system Lucie Grecias|Julie Valentin|Nadia Aubin-Horth Universite Laval;|Dept. de Biologie et Institut de Biologie Integrative et des Systemes, Universite Laval
http://dx.doi.org/10.1101/221580 2017-11-21 CC BY-NC-ND Subtle perturbations of the maize methylome reveal genes and transposons silenced by DNA methylation Sarah N Anderson|Greg Zynda|Jawon Song|Zhaoxue Han|Matthew Vaughn|Qing Li|Nathan M Springer University of Minnesota;|Texas Advanced Computing Center;|Northwest A&F University;|Huazhong Agricultural University
http://dx.doi.org/10.1101/223388 2017-11-21 Cancer Biology Acute myeloid/T-lymphoblastic leukemia (AMTL): A distinct category of acute leukemias with common pathogenesis in need of improved therapy Alejandro Gutierrez|Alex Kentsis Harvard Medical School;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/222836 2017-11-21 Bioinformatics CC BY Maize GO Annotation - Methods, Evaluation, and Review (maize-GAMER) Kokulapalan Wimalanathan|Iddo Friedberg|Carson M. Andorf|Carolyn J. Lawrence-Dill Iowa State University;|USDA-ARS
http://dx.doi.org/10.1101/223057 2017-11-21 Neuroscience CC BY-NC-ND A new analysis of resting state connectivity and graph theory reveals distinctive short-term modulations due to whisker stimulation in rats. Silke Kreitz|Benito de Celis Alonso|Michael Uder|Andreas Hess Inst. of Experimental & Clinical Pharmacol. & Toxicol., FAU Erlangen-Nuremberg;|Fac. of Mathematical & Physical Sciences, Benemerita Univ. Autonoma de Puebla;|Dept. of Radiology, University Hospital Erlangen, FAU Erlangen-Nuremberg
http://dx.doi.org/10.1101/222927 2017-11-21 Plant Biology CC BY-NC-ND k-mer grammar uncovers maize regulatory architecture Maria Katherine Mejia Guerra|Edward S. Buckler Cornell University;|USDA-ARS/Cornell University
http://dx.doi.org/10.1101/222653 2017-11-21 Neuroscience CC BY The Control of Tonic Pain by Active Relief Learning Suyi Zhang|Hiroaki Mano|Michael Lee|Wako Yoshida|Trevor Robbins|Mitsuo Kawato|Ben Seymour University of Cambridge, United Kingdom;|National Institute for Information and Communications Technology, Japan;|Advanced Telecommunications Research Institutes International, United Kingdom;|Advanced Telecommunications Research Institute International, Japan
http://dx.doi.org/10.1101/222596 2017-11-21 Genetics CC BY-NC-ND Gene expression imputation across multiple brain regions reveals schizophrenia risk throughout development. Laura M Huckins|Amanda Dobbyn|Douglas Ruderfer|Gabriel Hoffman|Weiqing Wang|Antonio F Pardinas|Veera M Rajagopal|Thomas D Als|Hoang Tan Hoang|Kiran Girdhar|James Boocock|Panagiotis Roussos|Menachem Fromer|Robin Kramer|Enrico Domenici|Eric Gamazon|Shaun Purcell|Ditte Demontis|Anders Borglum|James Walters|Michael O'Donovan|Patrick F Sullivan|Micahel Owen|Bernie Devlin|Solveig K Sieberts|Nancy Cox|Hae Kyung Im|Pamela Sklar|Eli Ayumi Stahl Icahn School of Medicine at Mount Sinai;|Vanderbilt University Medical Center, Nashville, TN;|Cardiff University;|Institut for Biomedicin, Aarhus University, Aarhus;|Icahn School of Medicine;|Dept. of Human Genetics, David Geffen School of Medicine, UCLA;|Human Brain Collection Core, National Institute of Mental Health, Bethesda, MD;|Lab. of Neurogenomic Biomarkers, Centre for Integrative Biology, Univ. of Trento;|Vanderbilt Univ. Med. Ctr.; Section of Genetic Medicine, University of Chicago;|Harvard;|-;|MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University, UK;|University of North Carolina at Chapel Hill, Karolinska Institutet;|Department of Psychiatry, University of Pittsburgh, Pittsburgh, PA;|Systems Biology, Sage Bionetworks, Seattle, WA;|Section of Genetic Medicine, Dept. of Medicine, University of Chicago;|University of Chicago, Chicago, Illinois, USA
http://dx.doi.org/10.1101/223099 2017-11-21 Biochemistry CC BY-NC-ND Fe2+/H2O2-mediated oxidation of homogentisic acid indicates the production of ochronotic and non-ochronotic pigments. Implications in Alkaptonuria and beyond. Koen Vercruysse|Adam Taylor|Juan Knight Tennessee State University;|Lancaster Medical School, Lancaster University
http://dx.doi.org/10.1101/222919 2017-11-21 Microbiology CC BY-ND Predictability and persistence of prebiotic dietary supplementation in a healthy human cohort Thomas Gurry|HST Microbiome Consortium|Sean Gibbons|Le Thanh Tu Nguyen|Sean Kearney|Ashwin Ananthakrishnan|Xiaofang Ziang|Zain Kassam|Eric Alm MIT;|Harvard Medical School;|Massachusetts General Hospital;|OpenBiome
http://dx.doi.org/10.1101/222828 2017-11-21 Neuroscience A Basal Ganglia Circuit Sufficient to Guide Birdsong Learning Lei Xiao|Gaurav Chattree|Francisco Garcia Oscos|Mou Cao|Matthew J Wanat|Todd F Roberts UT Southwestern Medical Center;|UT San Antonio
http://dx.doi.org/10.1101/221614 2017-11-21 Bioinformatics Serum proteins can successfully predict self-reported ethnicity: Implications for precision-medicine Ram Bishnoi|Raymond Palmer|Donald R Royall Augusta University, Augusta, GA, USA;|University of Texas Health Science Center, San Antonio, TX, USA
http://dx.doi.org/10.1101/223115 2017-11-21 Molecular Biology A Rice Dual-localized Pentatricopeptide Repeat Protein is involved in Organellar RNA Editing with MORFs Haijun Xiao|Yanghong Xu|Chenzi Ni|Qiannan Zhang|Feiya Zhong|Jishuai Huang|Yingguo Zhu|Jun Hu College of Life Sciences, Wuhan University, Wuhan 430072, China
http://dx.doi.org/10.1101/222935 2017-11-21 Microbiology CC BY-NC-ND Abundance of Enterovirus C in RD-L20B cell culture negative stool samples from Acute Flaccid Paralysis cases in Nigeria is geographically defined. Emmanuel Donbraye|Oluwatayo Israel Olasunkanmi|Babatunde Ayoola Opabode|Temitayo Racheal Ishola|TEMITOPE Oluwasegun Cephas Faleye|Moses Olubusuyi Moses Adewumi|Johnson Adekunle Adeniji Obafemi Awolowo University, Ile-Ife, Osun State, Nigeria;|University of Ibadan, Ibadan, Oyo State, Nigeria
http://dx.doi.org/10.1101/222984 2017-11-21 Molecular Biology CC BY-NC-ND Using Barcoded Zika Virus to Assess virus Population Structure in vitro and in Aedes aegypti Mosquitoes James Weger-Lucarelli|Selene M Garcia|Claudia Rueckert|Alex Byas|Shelby L O'Connor|Matthew T Aliota|Thomas C. Friedrich|David H. O'Connor|Gregory D. Ebel Colorado State University;|University of Wisconsin-Madison
http://dx.doi.org/10.1101/222786 2017-11-21 Genetics CC BY-NC-ND Transcriptomic Imputation of Bipolar Disorder and Bipolar subtypes reveals 29 novel associated genes Laura Huckins|Amanda Dobbyn|Whitney McFadden|Weiqing Wang|Douglas Ruderfer|Gabriel Hoffman|Veera Rajagopal|Hoang T Nguyen|Panagiotis Roussos|Menachem Fromer|Robin Kramer|Enrico Domenici|Eric Gamazon|Ditte Demontis|Anders Borglum|Bernie Devlin|Solveig K Sieberts|Nancy Cox|Hae Kyung Im|Pamela Sklar|Eli Ayumi Stahl Division of Psychiatric Genomic, Icahn School of Medicine at Mount Sinai;|Vanderbilt University Medical Center, Nashville, TN;|Institut for Biomedicin, Aarhus University, Aarhus;|Human Brain Collection Core, National Institute of Mental Health, Bethesda, MD;|Lab. of Neurogenomic Biomarkers, Centre for Integrative Biology, Univ. of Trento;|Vanderbilt Univ. Med. Ctr.; Section of Genetic Medicine,University of Chicago;|-;|Department of Psychiatry, University of Pittsburgh, Pittsburgh, PA;|Systems Biology, Sage Bionetworks, Seattle, WA;|University of Chicago, Chicago, Illinois, USA
http://dx.doi.org/10.1101/223123 2017-11-21 Developmental Biology CC BY-NC-ND Ca2+-induced mitochondrial ROS regulate the early embryonic cell cycle Yue Han|Shoko Ishibashi|Javier Iglesias-Gonzalez|Yaoyao Chen|Nick R Love|Enrique Amaya University of Manchester and Xiamen University;|University of Manchester
http://dx.doi.org/10.1101/222893 2017-11-21 Bioinformatics CC BY-NC-ND DNCON2: Improved protein contact prediction using two-level deep convolutional neural networks Badri Adhikari|Jie Hou|Jianlin Cheng University of Missouri - St. Louis;|University of Missouri - Columbia
http://dx.doi.org/10.1101/222588 2017-11-21 Neuroscience CC BY-NC-ND Active sampling state dynamically enhances olfactory bulb odor representation Rebecca Jordan|Izumi Fukunaga|Mihaly Kollo|Andreas T Schaefer Francis Crick Institute, University College London;|Okinawa Institute of Science and Technology Graduate University
http://dx.doi.org/10.1101/151696 2017-11-21 Neuroscience rTMS with individualized resting-state network mapping for neuropsychiatric sequelae of repetitive traumatic brain injury in a retired NFL player Shan H. Siddiqi|Nicholas T. Trapp|Carl D. Hacker|Timothy O. Laumann|Sridhar Kandala|Pashtun Shahim|Alexandre R. Carter|David L. Brody Washington University in St. Louis
http://dx.doi.org/10.1101/222992 2017-11-21 Bioinformatics CC BY-NC-ND A Web-resource for Nutrient Use Efficiency related Genes, QTLs, and microRNA in important cereals and model plants Anuj Kumar|Ajay Pandeya|Girik Malik|Hima Kumari P|Anil Kumar S|Mansi Sharma|Vijay Gahlaut|Prasad MNV Gajula|Prashanth Suravajhala|Krishna Pal Singh|Harindra Singh Balyan|Pushpendra Kumar Gupta Advanced Ctr. for Comput. & Appl. Biotechnol., Uttarakhand Council for Biotechnol.;|Department of Biotechnology, Graphic Era University, Dehradun, Uttarakhand, India;|Research Institute at Nationwide Childrens Hospital, Department of Pediatrics, OSU;|Department of Genetics, Osmania University, Hyderabad 500007, Telangana, India;|Dept. of Genetics and Plant Breeding, Ch. Charan Singh University, Uttar Pradesh;|Institute of Biotechnology, Professor Jayashankar Telangana State Agricultural Univ.;|Dept. of Biotechnology & Bioinformatics, Birla Institute of Scientific Research, Jaipur;|CCS Haryana Agricultural University, Hisar
http://dx.doi.org/10.1101/222695 2017-11-21 Genetics Proper Conditional Analysis in the Presence of Missing Data Identified Novel Independently Associated Low Frequency Variants in Nicotine Dependence Genes Bibo Jiang|Sai Chen|Yu Jiang|Mengzhen Liu|William G Iacono|John K Hewitt|John E Hokanson|Kenneth Krauter|Markku Laakso|Kevin W Li|Sharon M Lutz|Matthew McGue|Daniel McGuire|Anita Pandit|Gregory Zajac|Michael Boehnke|Goncalo R Abecasis|Scott I Vrieze|Xiaowei Zhan|Dajiang J Liu Department of Public Health Sciences, Penn State College of Medicine;|Center of Statistical Genetics, Department of Biostatistics, University of Michigan;|Department of Psychology, University of Minnesota;|Institute for Behavioral Genetics, University of Colorado Boulder;|Department of Epidemiology, School of Public Health, University of Colorado Denver;|Dept. of Medicine, University of Eastern Finland and Kuopio University Hospital;|Dept. of Biostatistics & Informatics, Univ. of Colorado, Anschutz Medical Campus;|Center of Statistical Genetics, Department of Biostatistics;|Quantitative Biomedical Research Center, Univ. of Texas Southwestern Medical Ctr.
http://dx.doi.org/10.1101/222810 2017-11-21 Animal Behavior and Cognition CC BY-ND Experimental evidence that female rhesus macaques (Macaca mulatta) perceive variation in male facial masculinity Kevin A Rosenfield|Stuart Semple|Alexander V Georgiev|Dario Maestripieri|James P HIgham|Constance Dubuc Penn State University;|University of Roehampton, London;|Bangor University;|University of Chicago;|New York University;|University of Cambridge
http://dx.doi.org/10.1101/222950 2017-11-21 Cell Biology Airway IRF7hi versus IRF7lo molecular response patterns determine clinical phenotypes in children with acute wheezing Kim Khoo|James Read|Kimberley Franks|Guicheng Zhang|Joelene Bizzintino|Laura Coleman|Christopher McCrae|Lisa Oberg|Niamh Troy|Franciska Prastanti|Janet Everard|Stephen Oo|Meredith Borland|Rose Maciewicz|Peter Le Seouf|Ingrid Laing|Anthony Bosco Cardiovasc. & Resp. Sciences, Univ. of Western Australia and Telethon Kids Inst.;|Telethon Kids Institute, The University of Western Australia;|Cardiovascular and Respiratory Sciences, University of Western Australia;|Cardiovascular and Respiratory Sciences, University of Western;|Biotech Unit, AstraZeneca, Sweden;|Cardiovascular and Respiratory Sciences, The University of Western Australia;|Division of Paediatrics, The University of Western Australia;|Emergency Department, Princess Margaret Hospital for Children, Perth;|Telethon Kids Institute, The University of Western Australia, Perth
http://dx.doi.org/10.1101/222844 2017-11-21 Microbiology CC BY-NC-ND Inter- and intracellular colonization of Arabidopsis roots by endophytic actinobacteria and the impact of plant hormones on their antimicrobial activity Anne van der Meij|Joost Willemse|Martinus A. Schneijderberg|Rene Geurts|Jos Raaijmakers|Gilles van Wezel Leiden University;|Wageningen University;|Netherlands Institute of Ecology (NIOO-KNAW)
http://dx.doi.org/10.1101/223206 2017-11-21 Genetics High Throughput Functional Evaluation of KCNQ1 Decrypts Variants of Unknown Significance Carlos Vanoye|Reshma Desai|Katarina Fabre|Franck Potet|Jean-Marc DeKeyser|Daniela Macaya|Jens Meiler|Charles Sanders|Alfred George Northwestern University;|GeneDx, Inc.;|Vanderbilt University
http://dx.doi.org/10.1101/222703 2017-11-21 Evolutionary Biology CC BY-NC-ND The predictability of genomic changes underlying a recent host shift in Melissa blue butterflies Samridhi Chaturvedi|Lauren K. Lucas|Chris C. Nice|James A. Fordyce|Matthew L. Forister|Zachariah Gompert Department of Biology, Utah State University, Logan, UT 84322-5305, USA;|Texas State University, San Marcos, TX 7866, USA;|University of Tennessee, Knoxville, TN 37996, USA;|University of Nevada, Reno, NV, 89557, USA
http://dx.doi.org/10.1101/222778 2017-11-21 Evolutionary Biology Experimental assay of a fitness landscape on a macroevolutionary scale Victoria Pokusaeva|Dinara Usmanova|Ekaterina Putintseva|Lorena Espinar|Karen Sarkisyan|Alexander Mishin|Natalya Bogatyreva|Dmitry Ivankov|Guillaume Filion|Lucas Carey|Fyodor Alexeevich Kondrashov Institute of Science and Technology Austria;|Columbia University;|Center for Genomic Regulation (CRG);|Shemyakin-Ovchinnikov Institute of Bioorganic Chemistry, Moscow, Russia;|IST, Austria;|Universitat Pompeu Fabra
http://dx.doi.org/10.1101/223164 2017-11-21 Neuroscience A model of multifractality as observed in the neuronal activity of the human basal ganglia Daniela Andres National University of San Martin
http://dx.doi.org/10.1101/223156 2017-11-21 Neuroscience Neural circuits for long-range color filling-in Peggy Gerardin|Clement Abbatecola|Frederic Devinck|Henry Kennedy|Michel Dojat|Kenneth Knoblauch Univ. Lyon, Univ. Claude Bernard Lyon 1, Inserm, Stem Cell & Brain Res. Inst. U1208;|University Rennes 2;|Univ. Grenoble Alpes, Inserm, CHU Grenoble Alpes, GIN
http://dx.doi.org/10.1101/223149 2017-11-21 Neuroscience CC BY-NC-ND Value generalization in human avoidance learning Agnes Norbury|Trevor W Robbins|Ben Seymour University of Cambridge
http://dx.doi.org/10.1101/223131 2017-11-21 Cell Biology CC BY Asymmetrical localization of components of the Nup107-160 subcomplex within the nuclear pore complex in fission yeast Haruhiko Asakawa|Tomoko Kojidani|Hui-Ju Yang|Chizuru Ohtsuki|Hiroko Osakada|Masaaki Iwamoto|Naomi Takagi|Koji Nagao|Chikashi Obuse|Yasushi Hiraoka|Tokuko Haraguchi Osaka University, Japan;|National Institute of Information and Communications Technology, Japan;|Hokkaido University, Japan
http://dx.doi.org/10.1101/219170 2017-11-21 Genomics CC BY-NC-ND Sex differences in the genetic architecture of obsessive-compulsive disorder Ekaterina A Khramtsova|Raphael Heldman|Eske M Derks|Dongmei Yu|Lea K Davis|Barbara E Stranger University of Chicago;|University of California, Berkeley;|Queensland Institute of Medical Research;|Harvard Medical School, Massachusetts General Hospital;|-;|Vanderbilt University
http://dx.doi.org/10.1101/223693 2017-11-22 Bioinformatics Prediction of potential disease-associated microRNAs using structural perturbation method Xiangxiang Zeng|Li Liu|Linyuan Lu|Quan Zou Xiamen University;|Hangzhou Normal University;|Tianjin University
http://dx.doi.org/10.1101/223305 2017-11-22 Biochemistry CC BY-NC-ND Blind prediction of noncanonical RNA structure at atomic accuracy Andrew Martin Watkins|Caleb Geniesse|Wipapat Kladwang|Paul Zakrevsky|Luc Jaeger|Rhiju Das Stanford University;|National Cancer Institute;|University of California, Santa Barbara
http://dx.doi.org/10.1101/222257 2017-11-22 Biochemistry Structure of the nucleotide exchange factor eIF2B reveals mechanism of memory-enhancing molecule Jordan C Tsai|Lakshmi E Miller-Vedam|Aditya A Anand|Priyadarshini Jaishankar|Henry C Nguyen|Adam R Renslo|Adam Frost|Peter Walter University of California at San Francisco
http://dx.doi.org/10.1101/223339 2017-11-22 Systems Biology CC BY-ND deepNF: Deep network fusion for protein function prediction Vladimir Gligorijevic|Meet Barot|Richard Bonneau Flatiron Institute, Simons Foundation;|Flatiron Institute, Simons Foundation; Center for Genomics & Systems Biology, NYU
http://dx.doi.org/10.1101/223230 2017-11-22 Neuroscience CC BY-ND Bidirectional Cycling Dynamics of Living Neuronal Networks in Vitro Arseniy Gladkov|Oleg Grinchuk|Yana Pigareva|Irina Mukhina|Victor Kazantsev|Alexey Pimashkin Lobachevsky State University of Nizhny Novgorod, Laboratory of Neuroengineering, Nizhny Novgorod, 60
http://dx.doi.org/10.1101/223271 2017-11-21 Synthetic Biology CC BY RetSynth: Solving all optimal retrosynthesis solutions using dynamically constrained integer linear programming Leanne S. Whitmore|Ali Pinar|Anthe George|Corey M Hudson Sandia National Laboratories; Joint BioEnergy Institute;|Sandia National Laboratories
http://dx.doi.org/10.1101/224253 2017-11-23 Neuroscience Neuronal resonance in the theta (4-10 Hz) frequency range is modulated by dynamic changes in the input resistance Jorge Vera|Ulises Pereira|Bryan Reynaert|Juan Bacigalupo|Magdalena Sanhueza Department of Biology, University of Chile;|Department of Statistics, The University of Chicago;|University of Chile
http://dx.doi.org/10.1101/224238 2017-11-23 Evolutionary Biology CC BY-NC-ND A Phylogenomic Study Quantifies Competing Mechanisms for Pseudogenization in Prokaryotes Eliran Avni|Dennis Montoya|David Lopez|Robert Modlin|Matteo Pellegrini|Sagi Snir University of Haifa;|University of California, Los Angeles
http://dx.doi.org/10.1101/222661 2017-11-23 Neuroscience CC BY Real-Time Tracking of Selective Auditory Attention from M/EEG: A Bayesian Filtering Approach Sina Miran|Sahar Akram|Alireza Sheikhattar|Jonathan Z Simon|Tao Zhang|Behtash Babadi University of Maryland, College Park;|Facebook;|Starkey Hearing Technologies
http://dx.doi.org/10.1101/222869 2017-11-23 Genomics CC BY-NC-ND A new standard for crustacean genomes: the highly contiguous, annotated genome assembly of the clam shrimp Eulimnadia texana reveals HOX gene order and identifies the sex chromosome James Guy Baldwin-Brown|Stephen C. Weeks|Anthony D. Long University of Utah;|University of Akron;|University of California, Irvine
http://dx.doi.org/10.1101/223784 2017-11-23 Neuroscience CC BY-NC-ND Analysis of fMRI data using noise-diffusion network models: a new covariance-coding perspective Matthieu Gilson Universitat Pompeu Fabra
http://dx.doi.org/10.1101/222125 2017-11-23 Neuroscience CC BY-NC-ND Signaling-dependent control of apical membrane size and self-renewal in rosette-stage human neuroepithelial stem cells Jan-Philip Medelnik|Kathleen Roensch|Satoshi Okawa|Antonio del Sol|Osvaldo Chara|Levan Mchedlishvili|Elly Tanaka Research Institute for Molecular Pathology (IMP), Vienna Biocenter (VBC);|DFG Research Center for Regenerative Therapies, Technische Universitaet Dresden;|Computational Biology Group, Luxembourg Centre for Systems Biomedicine, University of Luxembourg;|Center for Information Services and High Performance Computing (ZIH), TU Dresden;|University Hospital Greifswald Department of Neurosurgery
http://dx.doi.org/10.1101/223644 2017-11-23 Bioinformatics CC BY-NC-ND Non-coding Transcriptome Maps Across Twenty Tissues of the Korean Black Chicken, Yeonsan Ogye Hyosun Hong|Han-Ha Chai|Kyoungwoo Nam|Dajeong Lim|Kyung-Tai Lee|Yoon Jung Do|Chang-Yeon Cho|Jin-Wu Nam Hanyang University;|National Institute of Animal Science
http://dx.doi.org/10.1101/224212 2017-11-23 Plant Biology CC BY-NC-ND A comparison of root and shoot hydraulics, aquaporin expression and leaf gas exchange between two grapevine cultivars reveals differences in hydraulic control mediated by aquaporins Silvina Dayer|Johannes Daniel Scharwies|Sunita Ramesh|Wendy Sullivan|Franziska Doerflinger|Vinay Pagay|Stephen D Tyerman Institut des Sciences de la Vigne et du Vin;|The University of Adelaide
http://dx.doi.org/10.1101/223602 2017-11-23 Evolutionary Biology CC BY-NC-ND Pooled population resequencing of clam shrimp (Eulimnadia texana) from different vernal pools reveals signatures of local adaptation James Guy Baldwin-Brown|Anthony D. Long University of Utah;|University of California, Irvine
http://dx.doi.org/10.1101/223750 2017-11-23 Evolutionary Biology CC BY-NC-ND The origin and remolding of genomic islands of differentiation in the European sea bass Maud Duranton|Francois Allal|Christelle Fraisse|Nicolas Bierne|Francois Bonhomme|Pierre-Alexandre Gagnaire ISEM;|MARBEC
http://dx.doi.org/10.1101/223081 2017-11-23 Genetics CC BY-NC-ND Detecting past and ongoing natural selection among ethnically Tibetan women at high altitude in Nepal Choongwon Jeong|David B Witonsky|Buddha Basnyat|Maniraj Neupane|Cynthia M Beall|Geoff Childs|Sienna R Craig|John Novembre|Anna Di Rienzo University of Chicago;|Oxford University Clinical Research Unit, Patan Hospital, Kathmandu, Nepal;|Mountain Medicine Society of Nepal, Kathmandu, Nepal;|Case Western Reserve University;|Washington University in St. Louis;|Dartmouth College
http://dx.doi.org/10.1101/223735 2017-11-23 Genomics CC BY-NC-ND Expressed Exome Capture Sequencing (EecSeq): a method for cost-effective exome sequencing for all organisms with or without genomic resources Jonathan B Puritz|Kathleen E Lotterhos Department of Biological Sciences, University of Rhode Island, Kingston, RI 02881;|Dept. of Marine and Environmental Sciences, Northeastern Marine Science Center
http://dx.doi.org/10.1101/218529 2017-11-23 Genetics CC BY-ND An interlaboratory study of complex variant detection Stephen E Lincoln|Justin M Zook|Shimul Chowdhury|Shazia Mahamdallie|Andrew Fellowes|Eric W Klee|Rebecca Truty|Catherine Huang|Farol L Tomson|Megan H Cleveland|Peter M Vallone|Yan Ding|Sheila Seal|Wasanthi DeSilva|Russell K Garlick|Marc Salit|Nazneen Rahman|Stephen F Kingsmore|Swaroop Aradhya|Robert L Nussbaum|Matthew J Ferber|Brian H Shirts Invitae;|National Institute of Standards and Technology;|Rady Childrens Institute for Genomic Medicine;|The Institute of Cancer Research;|Peter MacCallum Cancer Centre;|Mayo Clinic;|SeraCare Life Sciences;|University of Washington
http://dx.doi.org/10.1101/224196 2017-11-23 Bioinformatics CC BY Quaternary structure evaluation tool for protein assemblies Selcuk Korkmaz|Jose M Duarte|Andreas Prlic|Dincer Goksuluk|Gokmen Zararsiz|Osman Saracbasi|Stephen K Burley|Peter W Rose Hacettepe University;|University of California San Diego;|Erciyes University;|Rutgers, The State University of New Jersey
http://dx.doi.org/10.1101/176172 2017-11-23 Neuroscience CC BY-NC Sensitivity to Pain Expectations: A Bayesian Model of Individual Differences Robert Hoskin|Carlo C Berzuini|Dan Acosta-Kane|Wael El-Deredy|Hui Guo|Deborah Talmi University of Manchester;|Princeton University
http://dx.doi.org/10.1101/223925 2017-11-22 Genomics CC BY-NC-ND Translational control plays an important role in the adaptive heat-shock response of Streptomyces coelicolor Giselda Bucca|Radhika Pothi|Andrew Hesketh|Carla Moller-Levet|David A Hodgson|Emma E Laing|Graham R Stewart|Colin P Smith University of Brighton;|University of Surrey;|University of Warwick
http://dx.doi.org/10.1101/223842 2017-11-22 Neuroscience CC BY-NC-ND Task-dependent modulation of spinal and transcortical stretch reflexes linked to motor learning rate Michael Dimitriou Umea University
http://dx.doi.org/10.1101/223834 2017-11-22 Neuroscience Advanced NeuroGPS-Tree: dense reconstruction of brain-wide neuronal population close to ground truth Hang Zhou|Shiwei Li|Xiong Feng|Jiacheng Han|Hongtao Kang|Yijun Chen|Yun Li|Jing Li|Lei Su|Anan Li|Hui Gong|Shaoqun Zeng|Tingwei Quan|Qingming Luo Huazhong University of Science and Technology
http://dx.doi.org/10.1101/223917 2017-11-22 Systems Biology Variance reduction for antithetic integral control of stochastic reaction networks Corentin Briat|Ankit Gupta|Mustafa Khammash ETH Zurich
http://dx.doi.org/10.1101/223909 2017-11-22 Neuroscience Immediate effects of psychosocial stress on attention depend on subjective experience and not directly on stress-related physiological changes Ismael Palacios-Garcia|Mario Villena-Gonzalez|German Campos-Arteaga|Claudio Artigas-Vergara|Karina Jaramillo|Vladimir Lopez|Eugenio Rodriguez|Jaime Silva Pontificia Universidad Catolica de Chile;|Universidad del Desarrollo
http://dx.doi.org/10.1101/223792 2017-11-22 Neuroscience Effects of background and contour luminance on the hue and brightness of the Watercolor effect Peggy Gerardin|Michel Dojat|Ken Knoblauch|Frederic Devinck INSERM U1208 Stem-Cell & Brain Research Inst., Dept. of Integrative Neurosci.;|Universite Grenoble Alpes, Grenoble Institut des Neurosciences, GIN;|Universite Rennes 2
http://dx.doi.org/10.1101/223867 2017-11-22 Neuroscience CC BY Cerebral Autoregulation, CSF outflow resistance and outcome following CSF diversion in Normal Pressure Hydrocephalus. Afroditi Despina Lalou|Marek Czosnyka|Joseph Donnelly|John Douglas Peter|Eva Nabbanja|Nicole C Keong|Matthew R Garnett|Zofia Czosnyka University of Cambridge;|Cambridge University Hospital;|National Neuroscience Institute and Duke - NUS Medical School
http://dx.doi.org/10.1101/223826 2017-11-22 Evolutionary Biology Effective population size and durability of plant resistances in the potato cyst nematode Globodera pallida Josselin Montarry|Eric J Petit|Sylvie Bardou-Valette|Romain Mabon|Pierre-Loup Jan|Sylvain Fournet|Eric Grenier INRA, UMR1349 IGEPP, Institute of Genetic Environment and Plant Protection;|INRA, Agrocampus-Ouest, UMR985 ESE, Ecology and Ecosystem Health
http://dx.doi.org/10.1101/224139 2017-11-22 Genomics CC BY-NC-ND Placenta DNA Methylation Adaptation to Maternal Glucose Tolerance in Pregnancy Andres Cardenas|Valerie Gagne-Ouellet|Catherine Allard|Diane Brisson|Patrice Perron|Luigi Bouchard|Marie-France Hivert Dept. of Population Med., Harvard Medical School; Harvard Pilgrim Health Care Inst.;|Centre de Recherche du Centre Hospitalier Universitaire de Sherbrooke, Quebec;|Department of Medicine, Universite de Montreal, Saguenay, QC, Canada
http://dx.doi.org/10.1101/224097 2017-11-22 Ecology The perfect storm: Extreme weather drives and predation maintains phase shift in dominant Chesapeake Bay bivalve Cassandra N Glaspie|Rochelle D Seitz|Romuald N Lipcius Oregon State University;|Virginia Institute of Marine Science
http://dx.doi.org/10.1101/224071 2017-11-22 Ecology Impacts of predators, habitat, recruitment, and disease on soft-shell clams Mya arenaria and stout razor clams Tagelus plebeius in Chesapeake Bay Cassandra N Glaspie|Rochelle D Seitz|Matthew B Ogburn|Christopher F Dungan|Anson H. Hines Oregon State University;|Virginia Institute of Marine Science;|Smithsonian Environmental Research Center;|Maryland Department of Natural Resources, Cooperative Oxford Laboratory
http://dx.doi.org/10.1101/224022 2017-11-22 Biochemistry CC BY Mechanochemical Coupling and Bi-Phasic Force-Velocity Dependence in the Ultra-Fast Ring ATPase SpoIIIE Ninning Liu|Gheorghe Chistol|Yuanbo Cui|Carlos Bustamante Wyss Institute, United States;|Harvard Medical School, United States;|University of California - Berkeley, United States;|University of California, Berkeley, United States
http://dx.doi.org/10.1101/223990 2017-11-22 Neuroscience CC BY-NC-ND The temporal evolution of conceptual object representations revealed through models of behavior, semantics and deep neural networks Brett B Bankson|Martin N Hebart|Iris I A Groen|Chris I Baker University of Pittsburgh;|NIMH
http://dx.doi.org/10.1101/223933 2017-11-22 Physiology CC BY Aiptasia as a model to study metabolic diversity and specificity in cnidarian-dinoflagellate symbioses Nils Raedecker|Jean-Baptiste Raina|Mathieu Pernice|Gabriela Perna|Paul Guagliardo|Matt Killburn|Manuel Aranda|Christian R. Voolstra Red Sea Research Center, KAUST University;|UTS;|University of Western Australia;|King Abdullah University of Science and Tehnology;|KAUST
http://dx.doi.org/10.1101/224170 2017-11-22 Molecular Biology Spliceosome profiling visualizes the operations of a dynamic RNP in vivo at nucleotide resolution Jordan Burke|Adam Longhurst|Daria Merkurjev|Jade Sales-Lee|Beiduo Rao|James Moresco|John Yates|Jingyi Jessica Li|Hiten D Madhani UCSF;|UCLA;|The Scripps Research Institute
http://dx.doi.org/10.1101/224048 2017-11-22 Evolutionary Biology CC BY-NC-ND Nextstrain: real-time tracking of pathogen evolution James Hadfield|Colin Megill|Sidney M Bell|John Huddleston|Barney Potter|Charlton Callender|Pavel Sagulenko|Trevor Bedford|Richard A Neher Fred Hutchinson Cancer Research Center;|Max Planck Institute for Developmental Biology;|University of Basel
http://dx.doi.org/10.1101/224162 2017-11-22 Cell Biology CC BY EB1 binding provides a diffusion trap mechanism regulating STIM1 localization and Ca2+ signaling Chi-Lun Chang|Yu-Ju Chen|Jen Liou UT Southwestern Medical Center
http://dx.doi.org/10.1101/223875 2017-11-22 Biophysics A hidden Markov model approach to characterizing the photo-switching behavior of fluorophores Lekha Patel|Nils Gustafsson|Yu Lin|Raimund Ober|Ricardo Henriques|Edward Cohen Imperial College London;|University College London;|European Molecular Biology Laboratory;|Texas A&M
http://dx.doi.org/10.1101/224063 2017-11-22 Bioinformatics CC BY-ND Modelling the Dynamics of Biological Systems with the Geometric Hidden Markov Model Borislav Vangelov|Mauricio Barahona Imperial College London
http://dx.doi.org/10.1101/224121 2017-11-22 Immunology CC BY-NC-ND Cyclin-Dependent Kinase Activity is Required for Type I Interferon Production Oya Cingoz|Stephen Goff Columbia University Medical Center
http://dx.doi.org/10.1101/222406 2017-11-22 Cell Biology BMPR2 inhibits activin- and BMP-signaling via wild type ALK2 Oddrun Elise Olsen|Meenu Sankar|Samah Elsaadi|Hanne Hella|Glenn Buene|Sagar Ramesh Darvekar|Kristine Misund|Takenobu Katagiri|Toril Holien Norwegian University of Science and Technology;|University of Skövde;|Saitama Medical University
http://dx.doi.org/10.1101/223891 2017-11-22 Cancer Biology CC BY Magnetic resonance imaging for characterization of a chick embryo model of cancer cell metastases Anne Herrmann|Arthur Taylor|Patricia Murray|Harish Poptani|Violaine SEE University of Liverpool
http://dx.doi.org/10.1101/224055 2017-11-22 Cell Biology CC BY-NC Nuclear Export Through Nuclear Envelope Remodeling in Saccharomyces cerevisiae Baojin Ding|Anne M Mirza|James Ashley|Vivian Budnik|Mary Munson University of Massachusetts Medical School
http://dx.doi.org/10.1101/213611 2017-11-22 Developmental Biology CC BY-NC-ND From pioneer to repressor: Bimodal foxd3 activity dynamically remodels neural crest regulatory landscape in vivo Daria Gavriouchkina|Ruth M Williams|Martyna Lukoseviciute|Tatiana Hochgreb-Hagele|Upeka Senanayake|Vanessa Chong-Morrison|Supat Thongjuea|Emmanouela Repapi|Adam Mead|Tatjana Sauka-Spengler University of Oxford
http://dx.doi.org/10.1101/223883 2017-11-22 Cell Biology CC BY Evaluation of anti insulin receptor antibodies as potential novel therapies for human insulin receptoropathy Gemma Brierley|Kenneth Siddle|Robert K Semple University of Cambridge
http://dx.doi.org/10.1101/219709 2017-11-22 Cancer Biology CC BY miR-16 suppresses growth of rhabdoid tumor cells Emily K Stroup|Yunku Yeu|Albert Budhipramono|Tae Hyun Hwang|Dinesh Rakheja|Anat Erdreich-Epstein|Theodore W. Laetsch|James F Amatruda|Kenneth S Chen UT Southwestern;|Cleveland Clinic;|Children's Hospital Los Angeles;|UT Southwestern Medical Center
http://dx.doi.org/10.1101/223511 2017-11-22 Biophysics CC BY-NC Efficient Flexible Backbone Protein-Protein Docking for Challenging Targets Nicholas A Marze|Shourya S Roy Burman|William Sheffler|Jeffrey J Gray Johns Hopkins University, Baltimore, Maryland 21218, USA;|University of Washington, Seattle, Washington 98195, USA
http://dx.doi.org/10.1101/223370 2017-11-22 Cell Biology Skeletal muscle fibro-adipogenic progenitors of dystrophic mice are insensitive to NOTCH-dependent regulation of adipogenesis Milica Marinkovic|Francesca Sacco|Filomena Spada|Lucia Lisa Petrilli|Claudia Fuoco|Elisa Micarelli|Theodora Pavlidou|Luisa Castagnoli|Matthias Mann|Cesare Gargioli|Gianni Cesareni Department of Biology, University of Rome Tor Vergata, Via della Ricerca Scientifica;|Dept. Proteomics & Signal Transduction, Max-Planck Institute of Biochemistry
http://dx.doi.org/10.1101/223545 2017-11-22 Genomics CC BY-NC-ND Genome-wide detection of genes under positive selection in worldwide populations of the barley scald pathogen Norfarhan Mohd-Assaad|Bruce A. McDonald|Daniel Croll ETH Zurich;|University of Neuchatel
http://dx.doi.org/10.1101/223669 2017-11-22 Biophysics CC BY-NC-ND Architecture of human interphase chromosome determines the spatiotemporal dynamics of chromatin loci Lei Liu|Guang Shi|Dave Thirumalai|Changbong Hyeon Korea Institute for Advanced Study;|The University of Texas at Austin
http://dx.doi.org/10.1101/223297 2017-11-22 Bioinformatics CC BY-ND New synthetic-diploid benchmark for accurate variant calling evaluation Heng Li|Jonathan M Bloom|Yossi Farjoun|Mark Fleharty|Laura D Gauthier|Benjamin Neale|Daniel MacArthur Broad Institute;|Massachusetts General Hospital
http://dx.doi.org/10.1101/223289 2017-11-22 Bioinformatics Pediatric Severe Sepsis Prediction Using Machine Learning Thomas Desautels|Jana Hoffman|Christopher Barton|Qingqing Mao|Melissa Jay|Jacob Calvert|Ritankar Das Dascena Inc., Hayward, CA, United States;|Department of Emergency Medicine, University of California San Francisco
http://dx.doi.org/10.1101/223446 2017-11-22 Neuroscience Classification and characterisation of brain network changes in chronic back pain: a multicenter study. Hiroaki Mano|Gopal Kotecha|Kenji Leibnitz|Takashi Matsubara|Aya Nakae|Nicholas Shenker|Masahiko Shibata|Valerie Voon|Wako Yoshida|Michael Lee|Toshio Yanagida|Mitsuo Kawato|Maria Rosa|Ben Seymour Center for Information and Neural Networks, NICT Japan.;|Cambridge University Hospitals NHS Foundation Trust;|3Graduate School of System informatics, Kobe University;|Immunology Frontiers Research Center, Osaka University;|Osaka University School of Medicine;|School of Clinical Medicine, University of Cambridge,;|Advanced Telecommunications Research Center International, Kyoto;|School of Clinical Medicine, University of Cambridge;|Center for Information and Neural Networks, NICT Japan;|Max-Planck UCL Centre for Computational Psychiatry and Ageing Research;|University of Cambridge
http://dx.doi.org/10.1101/223354 2017-11-22 Bioinformatics Prediction of Acute Kidney Injury with a Machine Learning Algorithm using Electronic Health Record Data Hamid Mohamadlou|Anna Lynn-Palevsky|Christopher Barton|Uli Chettipally|Lisa Shieh|Jacob Calvert|Ritankar Das Dascena, Inc.;|Department of Emergency Medicine, University of California San Francisco;|Dept. of Emergency Medicine, Univ. of California San Francisco; Kaiser Permanente;|Department of Medicine, Stanford University School of Medicine
http://dx.doi.org/10.1101/223552 2017-11-22 Biophysics CC BY-ND Regulatory mechanisms are revealed by the distribution of transcription initiation times in single microbial cells Sandeep Choubey|Jane Kondev|Alvaro Sanchez Brandeis Uniersity;|Brandeis University;|Yale University
http://dx.doi.org/10.1101/223974 2017-11-22 Bioinformatics CC BY-NC-ND q2-longitudinal: a QIIME 2 plugin for longitudinal and paired-sample analyses of microbiome data Nicholas Bokulich|Yilong Zhang|Matthew Dillon|Jai Ram Rideout|Evan Bolyen|Huilin Li|Paul Albert|James Gregory Caporaso Northern Arizona University;|Merck Research Laboratories;|NYU Langone Medical Center;|National Cancer Institute;|Northern Arizona Univ.
http://dx.doi.org/10.1101/223719 2017-11-22 Physiology Fast voltage sensitivity in retinal pigment epithelium: sodium channels and their novel role in phagocytosis Julia K Johansson|Teemu O Ihalainen|Heli Skottman|Soile Nymark BioMediTech, Tampere University of Technology;|BioMediTech, University of Tampere
http://dx.doi.org/10.1101/222737 2017-11-22 Evolutionary Biology CC BY-NC-ND What can an evolutionary perspective on women's health provide to the current public health paradigm? A case study on redefining thyroid cancer as a reproductive cancer Abigail Georgia Fraser University of Oxford
http://dx.doi.org/10.1101/223255 2017-11-22 Evolutionary Biology CC BY-NC-ND Time course analysis of the brain transcriptome during transitions between brood care and reproduction in the clonal raider ant Romain Libbrecht|Peter R Oxley|Daniel JC Kronauer Institute of Organismic & Molecular Evolution, Johannes Gutenberg University Mainz;|Samuel J. Wood Library, Weill Cornell Medicine;|Laboratory of Social Evolution and Behavior, The Rockefeller University
http://dx.doi.org/10.1101/223776 2017-11-22 Cancer Biology BCL11A interacts with SOX2 to control the expression of epigenetic regulators in lung squamous cell carcinoma Kyren A Lazarus|Fazal Hadi|Elisabetta Zambon|Karsten Bach|Maria-Francesca Santolla|Julie K Watson|Lucia L Correia|Madhumita Das|Rosemary Ugur|Sara Pensa|Lukas Becker|Lia S Campos|Graham Ladds|Pentao Liu|Gerard Evan|Frank McCaughan|John Le Quesne|Joo-Hyeon Lee|Dinis Calado|Walid T Khaled Department of Pharmacology, University of Cambridge, Cambridge, UK;|WT-MRC Stem Cell Institute, University of Cambridge, UK;|Department of Biochemistry, University of Cambridge, Cambridge, UK;|MRC Toxicology Unit, Lancaster Road, Leicester;|Cambridge Cancer Centre, Cambridge, UK;|Wellcome Trust Sanger Institute, Cambridge, UK;|The Francis Crick Institute, London, UK
http://dx.doi.org/10.1101/223180 2017-11-22 Bioinformatics CC BY quanTIseq: quantifying immune contexture of human tumors Francesca Finotello|Clemens Mayer|Christina Plattner|Gerhard Laschober|Dietmar Rieder|Hubert Hackl|Anne Krogsdam|Wilfried Posch|Doris Wilflingseder|Sieghart Sopper|Marieke Jsselsteijn|Douglas Johnsons|Yaomin Xu|Yu Wang|Melinda E Sanders|Monica V Estrada|Paula Ericsson-Gonzalez|Justin Balko|Noel F de Miranda|Zlatko Trajanoski Medical University of Innsbruck;|Leiden University;|Vanderbilt University;|Ericsson-Gonzalez
http://dx.doi.org/10.1101/223495 2017-11-22 Genetics CC BY-NC-ND Epigenome-wide association in adipose tissue from the METSIM cohort identifies novel loci and the involvement of adipocytes and macrophages in diabetes traits Luz Orozco|Colin Farrell|Chistopher Hale|Liudmilla Rubbi|Arturo Rinaldi|Mete Civelek|Calvin Pam|Larry Lam|Dennis Montoya|Chantle Edillor|Marcus Seldin|Mihcael Boehnke|Karen Mohlke|Steve Jacobsen|Johanna Kuusisto|Markku Laakso|Aldons Lusis|Matteo Pellegrini Department of Molecular, Cell and Developmental Biology, UCLA;|Departments of Human Genetics, University of California Los Angeles;|Dept. of Biostatistics and Center for Statistical Genetics, University of Michigan;|Department of Genetics, University of North Carolina;|Institute of Clinical Medicine, Internal Medicine, University of Eastern Finland
http://dx.doi.org/10.1101/223594 2017-11-22 Microbiology Developing a low-cost milliliter-scale chemostat array for precise control of cellular growth David H Skelding|Sam Frederick Mock Hart|Thejas Vidyasagar|Alexander E Pozhitkov|Wenying Shou Division of Basic Sciences, Fred Hutchinson Cancer Research Center, Seattle, WA;|University of Washington, Seattle, WA
http://dx.doi.org/10.1101/223438 2017-11-22 Genomics Genomic insights into the domestication of the chocolate tree, Theobroma cacao L. Omar E Cornejo|Muh-Ching Yee|Victor Dominguez|Mary Andrews|Alexandra Sockell|Erika Strandberg|Donald Livingstone|Conrad Stack|Alberto Romero|Pathmanathan Umaharan|Stefan Royaert|Nilesh R Tawari|Ng Pauline|Ray Schnell|Phillips Wilbert|Keithanne Mockaitis|Carlos D Bustamante|Juan Carlos Motamayor Washington State University;|Stanford University;|Indiana University;|MARS Incorporated;|The University of the West Indies;|Genome Institute of Singapore;|CATIE
http://dx.doi.org/10.1101/223503 2017-11-22 Evolutionary Biology CC BY-NC-ND Phylogenetic analysis of West Nile Virus in Maricopa County, Arizona: Evidence for dynamic behavior of strains in two major lineages in the American Southwest Crystal M. Hepp|Jill Hager Cocking|Michael Valentine|Steven J. Young|Dan Damian|Krystal Sheridan|Viacheslav Y. Fofanov|Joseph D. Busch|Daryn E. Erickson|Ryan C. Lancione|Kirk Smith|James Will|John Townsend|Paul S. Keim|David M. Engelthaler Northern Arizona University;|Translational Genomics Research Institute;|Maricopa County Environmental Services Department Vector Control Division;|Maricopa County Environmental Services Dept. Office of Enterprise Technology
http://dx.doi.org/10.1101/223073 2017-11-22 Genomics RNA G-quadruplexes mark repressive upstream open reading frames in human mRNAs Pierre Murat|Giovanni Marsico|Barbara Herdy|Avazeh Ghanbarian|Guillem Portella|Shankar Balasubramanian University of Cambridge;|Cancer Research UK Cambridge Institute;|Cambridge
http://dx.doi.org/10.1101/223859 2017-11-22 Systems Biology Quantifying relationships between chromosome organization and chromosomal aberrations Yuri Eidelman|Svetlana Slanina|Sergey Andreev Institute of Biochemical Physics (Russian Academy of Sciences);|Inst. of Biochem. Physics (Russian Acad. of Sciences); Natl. Research Nuclear Univ.
http://dx.doi.org/10.1101/223404 2017-11-22 Bioinformatics CC BY Computational haplotype recovery and long-read validation identifies novel isoforms of industrially relevant enzymes from natural microbial communities Samuel M Nicholls|Wayne Aubrey|Arwyn Edwards|Kurt de Grave|Sharon Huws|Leander Schietgat|Andre Soares|Christopher J Creevey|Amanda Clare Aberystwyth University;|Katholieke Universiteit Leuven;|Queen's University Belfast
http://dx.doi.org/10.1101/217489 2017-11-22 Immunology CC BY Single cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation Ricardo J Miragaia|Tomas Gomes|Agnieszka Chomka|Laura Jardine|Angela Riedel|Ahmed N Hegazy|Ida Lindeman|Guy Emerton|Thomas Krausgruber|Jacqueline Shields|Muzlifah Haniffa|Fiona Powrie|Sarah A Teichmann Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, UK;|Kennedy Institute of Rheumatology, University of Oxford, Oxford, UK;|Institute of Cellular Medicine, Newcastle University, Newcastle-Upon-Tyne, UK;|MRC Cancer Unit, University of Cambridge, Cambridge, UK;|Centre for Immune Regulation and Dept. of Immunology, University of Oslo, Norway;|WTSI, EMBL-EBI, Theory of Condensed Matter, Cavendish Laboratory
http://dx.doi.org/10.1101/224006 2017-11-22 Cancer Biology Quantitative relationships for radiation induced chromosome instability: data analysis Yuri Eidelman|Svetlana Slanina|Valentina Pyatenko|Igor Khvostunov|Sergey Andreev Institute of Biochemical Physics (Russian Academy of Sciences);|Institute of Biochemical Physics (Russian Academy of Sciences), Medical Radiological Research Center;|Medical Radiological Research Center;|Institute of Biochemical Physics (Russian Academy of Sciences); National Research Nuclear University
http://dx.doi.org/10.1101/223214 2017-11-22 Genomics CC BY-NC In-solution Y-chromosome capture-enrichment on ancient DNA libraries Diana I Cruz Davalos|Maria A Nieves-Colon|Alexandra Sockell|David G Poznik|Hannes Schroeder|Anne C Stone|Carlos D Bustamante|Anna-Sapfo Malaspinas|Maria C Avila-Arcos University of Bern;|School of Human Evolution and Social Change, Arizona State University;|Department of Genetics, Stanford University;|23andMe;|Centre for GeoGenetics, University of Copenhagen;|Department of Computational Biology, University of Lausanne;|International Lab. for Human Genome Research, Natl. Autonomous Univ. of Mexico
http://dx.doi.org/10.1101/217596 2017-11-23 CC BY-ND A systematic review of sample size and power in leading neuroscience journals Alice R. Carter|Kate Tilling|Marcus R. Munafo MRC Integrative Epidemiology Unit, Population Health Sciences, Univ. of Bristol;|MRC Integrative Epidemiol. Unit, School of Experimental Psychol., Univ. of Bristol
http://dx.doi.org/10.1101/224089 2017-11-23 Habitat complexity mediates benthic predator-prey interactions in Chesapeake Bay Cassandra N Glaspie|Rochelle D Seitz Oregon State University;|Virginia Institute of Marine Science
http://dx.doi.org/10.1101/223677 2017-11-23 CC BY Cooperating H3N2 influenza virus variants are not detectable in primary clinical samples Katherine S Xue|Alexander L Greninger|Ailyn Perez-Osorio|Jesse D Bloom University of Washington;|Washington State Department of Public Health;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/221846 2017-11-23 CaDrA: A computational framework for performing candidate driver analyses using binary genomic features Vinay K Kartha|Joseph G Kern|Paola Sebastiani|Liye Zhang|Xaralabos Varelas|Stefano Monti Boston Unviersity;|Boston University
http://dx.doi.org/10.1101/224295 2017-11-23 CC BY-NC-ND Ranked tree shapes, non-random extinctions and the loss of phylogenetic diversity Odile Maliet|Fanny Gascuel|Amaury Lambert Institut de Biologie de l’Ecole Normale Superieure (IBENS);|Center for Interdisciplinary Research in Biology (CIRB), College de France;|Laboratoire Probabilites et Modeles Aleatoires, UPMC Univ Paris 06
http://dx.doi.org/10.1101/222158 2017-11-23 Single-cell quantitative analysis of skeletal muscle cell population dynamics during regeneration and ageing Lucia Lisa Petrilli|Filomena Spada|Claudia Fuoco|Elisa Micarelli|Alessio Reggio|Marco Rosina|Cesare Gargioli|Luisa Castagnoli|Gianni Cesareni Department of Biology, University of Rome Tor Vergata, Rome, Italy
http://dx.doi.org/10.1101/224220 2017-11-23 CC BY-NC-ND Cyclic nature of the REM-like state in the cuttlefish Sepia officinalis Teresa L Iglesias|Jean Boal|Marcos Frank|Jochen Zeil|Roger Hanlon Okinawa Institute of Science and Technology;|Millersville University;|Washington State University;|Australian National University;|Marine Biological Laboratory, Woods Hole, MA
http://dx.doi.org/10.1101/223628 2017-11-23 Previously Hidden Dynamics at the TCR-pMHC Interface Revealed James Fodor|Blake T Riley|Natalie A Borg|Ashley M Buckle Monash University
http://dx.doi.org/10.1101/224329 2017-11-23 CC BY-NC-ND Allosteric effects in a catalytically impaired variant of the enzyme Cyclophilin A are unrelated to millisecond time scale motions Pattama Wapeesittipan|Antonia Mey|Malcolm Walkinshaw|Julien Michel University of Edinburgh
http://dx.doi.org/10.1101/224360 2017-11-23 Chromatin-release of the long ncRNA A-ROD is required for transcriptional activation of its target gene DKK1 Evgenia Ntini|Julia Liz|Jose M Muino|Annalisa Marsico|Ulf Andersson Oerom Max Planck Institute for Molecular Genetics, Berlin;|Max Delbrueck Center for Molecular Medicine, Berlin
http://dx.doi.org/10.1101/223032 2017-11-24 Genomics CC BY-NC-ND A genome-wide association study for host resistance to Ostreid Herpesvirus in Pacific oysters (Crassostrea gigas) Alejandro Gutierrez|Tim P. Bean|Chantelle Hooper|Craig A. Stenton|Matthew B. Sanders|Richard K. Paley|Pasi Rastas|Michaela Bryrom|Oswald Matika|Ross D. Houston Roslin Institute & Royal (Dick) School of Veterinary Studies, University of Edinburgh;|Centre for Environment Fisheries and Aquaculture Science (Cefas);|Dept. of Biosciences, Ecological Genetics Research Unit, University of Helsinki;|Guernsey Sea Farms Ltd.
http://dx.doi.org/10.1101/224535 2017-11-24 Bioinformatics CC BY-NC MEGAN-LR: New algorithms allow accurate binning and easy interactive exploration of metagenomic long reads and contigs Daniel Huson|Benjamin Albrecht|Caner Bagci|Irina Bessarab|Anna Gorska|Dino Jolic|Rohan B.H. Williams Univ. of Tubingen;|Center for Bioinformatics, University of Tuebingen, 72076 Tuebingen, Germany;|Singapore Centre for Environmental Life Sciences Engineering, National University of Singapore;|Max-Planck Institute for Developmental Biology, 72076 Tuebingen, Germany
http://dx.doi.org/10.1101/224626 2017-11-24 Re-arrangements in the cytoplasmic distribution of small RNAs following the maternal-to-zygotic transition in Drosophila embryos Mehmet Ilyas Cosacak|Hatice Yigit|Bunyamin Akgul Izmir institute of technology;|izmir institute of technology;|Izmir Institute of Technology
http://dx.doi.org/10.1101/224758 2017-11-24 Neuroscience CC BY Sensory cortex is optimised for prediction of future input Yosef Singer|Yayoi Teramoto|Ben Willmore|Jan W. H. Schnupp|Andrew J King|Nicol S Harper University of Oxford;|Oxford University;|City University of Hong Kong
http://dx.doi.org/10.1101/199497 2017-11-24 Neuroscience Two-Photon Imaging of Striatum Demonstrates Distinct Functions for Striosomes and Matrix in Reinforcement Learning Bernard Bloem|Rafiq Huda|Mriganka Sur|Ann M Graybiel MIT
http://dx.doi.org/10.1101/224543 2017-11-24 Cell Biology CC BY-NC-ND Altered hsrω lncRNA levels in activated Ras background further enhance Ras activity in Drosophila eye and induces more R7 photoreceptors Subhash C Lakhotia|Mukulika Ray Banaras Hindu University
http://dx.doi.org/10.1101/224675 2017-11-24 Evolutionary Biology CC BY-NC-ND Death and population dynamics affect mutation rate estimates and evolvability under stress in bacteria Antoine Frenoy|Sebastian Bonhoeffer ETH Zurich
http://dx.doi.org/10.1101/224717 2017-11-24 Bioinformatics CC BY Automated evaluation of quaternary structures from protein crystals Spencer Bliven|Aleix Lafita|Althea Parker|Guido Capitani|Jose M Duarte Paul Scherrer Institute, Switzerland
http://dx.doi.org/10.1101/224832 2017-11-24 Zoology Functional Plasticity of the gut and the Malpighian tubules underlies cold acclimation and mitigates cold-induced hyperkalemia in Drosophila melanogaster Gil Y Yerushalmi|Lidiya Misyura|Heath A MacMillan|Andrew Donini York University;|Carleton University
http://dx.doi.org/10.1101/224709 2017-11-24 Evolutionary Biology From tree tops to the ground: reversals to terrestrial habit in Galeandra orchids (Epidendroideae: Catasetinae) Aline C Martins|Thuane Bochorny|Oscar A Perez-Escobar|Guillaume Chomicki|Silvana HN Monteiro|Eric Smidt Universidade Federal do Parana;|Universidade estadual de Campinas;|Kew Gardens;|University of Oxford;|Universidade Estadual de Feira de Santana
http://dx.doi.org/10.1101/218594 2017-11-24 Neuroscience CC BY-ND Is the LAN effect in morphosyntactic processing an ERP artifact? Sendy Caffarra|Martha Mendoza|Doug Davidson Basque Center on Cognition, Brain and Language
http://dx.doi.org/10.1101/224667 2017-11-24 Cancer Biology The urinary microbiome associated with bladder cancer Viljemka Bucevic Popovic|Marijan Situm|Cheryl-Emiliane T Chow|Luisa S. Chan|Blanka Roje|Janos Terzic University of Split, Faculty of Science, Split, Croatia;|University Hospital Split, Department of Urology, Split, Croatia;|Second Genome Inc., San Francisco, California, USA;|University of Split, School of Medicine, Department of Immunology, Split, Croatia
http://dx.doi.org/10.1101/224634 2017-11-24 Bioinformatics CC BY-NC-ND VarExp: Estimating variance explained by Genome-Wide GxE summary statistics Vincent Laville|Amy Bentley|Florian Prive|Xiafoeng Zhu|William Gauderman|Thomas Winkler|Michael Province|DC Rao|Hugues Aschard Institut Pasteur;|NIH;|Institut Pasteur and Université Grenoble Alpes;|Case Western Reserve University;|University of Southern California;|University of Regensburg;|Washington University in St Louis;|-
http://dx.doi.org/10.1101/224527 2017-11-24 Bioinformatics DHSpred: support-vector-machine-based human DNase I hypersensitive sites prediction using the optimal features selected by random forest Balachandran Manavalan|Tae Hwan Shin|Gwang Lee Ajou University School of Medicine
http://dx.doi.org/10.1101/224642 2017-11-24 Molecular Biology CC BY-NC-ND Determinants of Transcription Initiation Directionality in Metazoans Mahmoud M Ibrahim|Aslihan Karabacak|Alexander Glahs|Ena Kolundzic|Antje Hirsekorn|Alexa Carda|Baris Tursun|Robert P Zinzen|Scott A Lacadie|Uwe Ohler Berlin Institute for Medical Systems Biology, Max-Delbrueck Center for Molecular Medicine;|Department of Biostatistics and Bioinformatics, Duke University Medical Center
http://dx.doi.org/10.1101/224188 2017-11-24 Ecology CC BY Effects of increased N and P availability on biomass allocation and root carbohydrate reserves differ between N-fixing and non-N-fixing savanna tree seedlings Varun Varma|Arockia M Catherin|Mahesh Sankaran University of Exeter;|National Centre for Biological Sciences
http://dx.doi.org/10.1101/224592 2017-11-24 Genomics Population level mitogenomics of the long-lived Greater Mouse-eared bat, Myotis myotis, reveals dynamic heteroplasmy and challenges the Free Radical Theory of Ageing David Jebb|Nicole M Foley|Conor V Whelan|Frederic Touzalin|Sebastien J Puechmaille|Emma C Teeling School of Biology and Environmental Science, University College Dublin, Belfield, Dublin 4, Ireland;|Laboratoire Evolution et Diversite Biologique, Universite Toulouse 3, Paul Sabatier 31062 Toulouse;|Applied Zoology and Conservation, Zoological Institute, Greifswald University, Greifswald, Germany
http://dx.doi.org/10.1101/224618 2017-11-24 Neuroscience CC BY-ND Brain-Computer Interfaces for Post-Stroke Motor Rehabilitation: A Meta-Analysis Maria A. Cervera|Surjo R. Soekadar|Junichi Ushiba|Jose del R. Millan|Meigen Liu|Niels Birbaumer|Gangadhar Garipelli Life Sciences & Technology, Ecole Polytechnique Federale de Lausanne;|Applied Neurotechnology Laboratory, University Hospital of Tubingen;|Dept. of Biosciences & Informatics, Faculty of Science and Technology, Keio Univ.;|Defitech Chair in Brain-Machine Interface, Ecole Polytech. Federale de Lausanne;|Department of Rehabilitation Medicine, Keio University School of Medicine, Tokyo;|WYSS Center for Bio and Neuroengineering, Geneva;|Clinical Neuroengineering Department, MindMaze SA, Lausanne
http://dx.doi.org/10.1101/224691 2017-11-24 Molecular Biology CC BY-NC-ND Antigen B from Echinococcus granulosus enters mammalian cells by endocytic pathways Edileuza D da Silva|Martin Cancela|Karina M Monteiro|Henrique B Ferreira|Arnaldo Zaha Universidade Federal do Rio Grande do Sul
http://dx.doi.org/10.1101/224683 2017-11-24 Evolutionary Biology Paleocene origin of the Neotropical lineage of cleptoparasitc bees Ericrocidini-Rhathymini (Hymenoptera, Apidae) Aline C Martins|David R da Luz|Gabriel AR Melo UFPR;|Universidade Federal do Parana
http://dx.doi.org/10.1101/224428 2017-11-24 Systems Biology CC BY-NC Mapping the phenotypic repertoire of the cytoplasmic 2-Cys peroxiredoxin - thioredoxin system. 1. Understanding commonalities and differences among cell types. Gianluca Selvaggio|Pedro M. B. M. Coelho|Armindo Salvador CNC - Center for Neuroscience and Cell Biology, University of Coimbra
http://dx.doi.org/10.1101/224279 2017-11-24 Genetics A reassessment of DNA immunoprecipitation-based genomic profiling Antonio Lentini|Cathrine Lagerwall|Svante Vikingsson|Heidi K Mjoseng|Karolos Douvlataniotis|Hartmut Vogt|Henrik Green|Richard R Meehan|Mikael Benson|Colm E Nestor Linkoping University, Linkoping, SE58183 Sweden.;|University of Edinburgh, UK
http://dx.doi.org/10.1101/224386 2017-11-24 Neuroscience CC BY-NC-ND Alpha/beta power compresses time in sub-second temporal judgments Tara van Viegen|Ian Charest|Ole Jensen|Ali Mazaheri University of Birmingham
http://dx.doi.org/10.1101/224485 2017-11-24 Biochemistry CC BY C-terminal truncation of Pik3r1 in mice models human lipodystrophic insulin resistance uncoupled from dyslipidemia Albert Kwok|Ilona Zvetkova|Sam Virtue|Isabel Huang-Doran|Patsy Tomlinson|David A. Bulger|Daniel Hart|Rachel Knox|Stephen Franks|Peter Voshol|Antonio Vidal-Puig|Amanda Sferruzzi-Perri|Jorgen Jensen|Stephen O'Rahilly|Robert K. Semple University of Cambridge, UK;|University of Cambridge;|Imperial College, London;|Louis Bolk Institute, Bunnick, The Netherlands;|Norwegian School of Sport Sciences, Norway
http://dx.doi.org/10.1101/224311 2017-11-24 Genomics CC BY-NC-ND Whole genome hybrid assembly and protein-coding gene annotation of the entirely black native Korean chicken breed Yeonsan Ogye Jang-il Sohn|Kyoungwoo Nam|Jun-Mo Kim|Dajeong Lim|Kyung-Tai Lee|Yoon Jung Do|Chang Yeon Cho|Namshin Kim|Jin-Wu Nam|Han-Ha Chae Department of Life Science, Hanyang University, Seoul 133-791, Republic of Korea;|Department of Animal Biotechnology & Environment, National Institute of Animal Science, RDA, Korea;|Animal Genetic Resource Research Center, National Institute of Animal Science, RDA, Koread;|Personalized Genomic Medicine Research Center, KRIBB, Daejeon 34141, Republic of Korea
http://dx.doi.org/10.1101/224378 2017-11-24 Genomics CC BY-NC-ND Deep-coverage whole genome sequences and blood lipids among 16,324 individuals Pradeep Natarajan|Gina M Peloso|Seyedeh Maryam Zekavat|May Montasser|Andrea Ganna|Mark Chaffin|Amit V Khera|Wei Zhao|Jonathan M Bloom|Jesse M Engreitz|Jason Ernst|Jeffrey R O'Connell|Sanni E Ruotsalainen|Maris Alver|Ani Manichaikul|W Craig Johnson|James A Perry|Timothy Poterba|Cotton Seed|Ida L Surakka|Tonu Esko|Samuli Ripatti|Veikko Salomaa|Adolfo Correa|Ramachandran S Vasan|Manolis Kellis|Benjamin M Neale|Eric S Lander|Goncalo Abecassis|Braxton Mitchell|Stephen S Rich|James G Wilson|L Adrienne Cupples|Jerome I Rotter|Cristen J Willer|Sekar Kathiresan Massachusetts General Hospital, Harvard Medical School, Broad Institute of Harvard and MIT;|Boston University School of Public Health;|Yale School of Medicine, Broad Institute of Harvard and MIT;|University of Maryland School of Medicine;|Massachusetts General Hospital, Broad Institute of Harvard and MIT;|Broad Institute of Harvard and MIT;|University of Michigan School of Public Health;|Harvard Society of Fellows, Broad Institute of Harvard and MIT;|University of California, Los Angeles;|Institute for Molecular Medicine Finland;|University of Tartu;|University of Virginia School of Medicine;|University of Washington;|University of Mississippi Medical Center;|Boston University School of Medicine, Boston University School of Public Health, Framingham Heart St;|Broad Institute of Harvard and MIT, Massachusetts Institute of Technology;|Boston University School of Public Health, Framingham Heart Study;|LABiomed, Harbor-UCLA;|-;|University of Michigan
http://dx.doi.org/10.1101/223743 2017-11-24 Neuroscience CC BY From image formation to image representation: the human visual system preserves the hierarchy of 2-dimensional pattern regularity Peter J Kohler|Anthony M. Norcia Stanford University
http://dx.doi.org/10.1101/224444 2017-11-24 Genomics 5-Formylcytosine controls nucleosome positioning through covalent histone-DNA interaction Eun-Ang Raiber|Guillem Portella|Sergio Martinez Cuesta|Robyn Hardisty|Pierre Murat|Zhe Li|Mario Iurlaro|Wendy Dean|Julia Spindel|Dario Beraldi|Mark Dawson|Wolf Reik|Shankar Balasubramanian University of Cambridge;|Cancer Research UK Cambridge Institute, University of Cambridge;|Friedrich Miescher Institute for Biomedical Research;|Babraham Institute;|University of Glasgow;|Peter MacCallum Cancer Centre
http://dx.doi.org/10.1101/224451 2017-11-24 Biophysics CC BY-NC Is chaos making a difference? Synchronization transitions in chaotic and non-chaotic neuronal networks kesheng xu|Jean Paul Maidana|Samy Castro|Patricio Orio Centro Interdisciplinario de Neurociencia de Valparaiso, Universidad de Valparaiso, Chile
http://dx.doi.org/10.1101/224436 2017-11-24 Evolutionary Biology CC BY-NC Prevalence of loss-of-function alleles does not correlate with lifetime fecundity and other life-history traits in metazoans Aleksandra V Bezmenova|Georgii A Bazykin|Alexey S Kondrashov Skolkovo Institute of Science and Technology;|Inst of Information Transmission Problems (Kharkevich Institute) of the Russian Academy of Sciences;|University of Michigan
http://dx.doi.org/10.1101/224410 2017-11-24 Neuroscience Dorsomedial prefrontal cortex activity during reinforcement learning discriminates response to Cognitive Behavioural Therapy in depression. Filippo Queirazza|Elsa Fouragnan|J. Douglas Steele|Jonathan Cavanagh|Marios Philiastides University of Glasgow;|University of Oxford;|University of Dundee
http://dx.doi.org/10.1101/224402 2017-11-24 Biochemistry CC BY-NC-ND REASSESSING THE REVOLUTIONS RESOLUTIONS Marin van Heel|Michael Schatz Brazilian Center for Research in Energy and Materials (CNPEM);|Image Science Software GmbH
http://dx.doi.org/10.1101/224261 2017-11-24 Neuroscience CC BY Cell-Type Specific Interrogation of Amygdala Drd2-Expressing Neurons Identifies Targets for Pharmacological Modulation of Fear Extinction Kerry J Ressler|Kenneth Mccullough|Nikolaos P Daskalakis|Gorgette Gafford|Filomene G Morrison Mclean Hospital, HMS;|Mclean Hospital;|Emory University
http://dx.doi.org/10.1101/223651 2017-11-24 Ecology The feasibility and stability of large complex biological networks: a random matrix approach Lewi Stone Tel Aviv University
http://dx.doi.org/10.1101/224956 2017-11-25 Neuroscience CC BY-NC-ND Static and dynamic measures of human brain connectivity predict complementary aspects of human cognitive performance Aurora I Ramos-Nunez|Simon Fischer-Baum|Randi Martin|Qiuhai Yue|Fengdan Ye|Michael Deem Rice University
http://dx.doi.org/10.1101/225037 2017-11-25 Biophysics CC BY-NC-ND Interaction of lecithin-cholesterol acyltransferase with lipid surfaces and apolipoprotein A-I derived peptides: implications for the cofactor mechanism of apolipoprotein A-I Marco G. Casteleijn|Petteri Parkkila|Tapani Viitala|Artturi Koivuniemi Division of Pharmaceutical Biosciences, Faculty of Pharmacy, University of Helsinki, Finland
http://dx.doi.org/10.1101/224824 2017-11-25 Molecular Biology CC BY Binding of the integrated stress response inhibitor, ISRIB, reveals a regulatory site in the nucleotide exchange factor, eIF2B Alisa F Zyryanova|Felix Weis|Alexandre Faille|Akeel Abo Alard|Ana Crespillo-Casado|Heather P Harding|Felicity Allen|Leopold Parts|Christophe Fromont|Peter M Fischer|Alan J Warren|David Ron Cambridge Institute for Medical Research;|Cambridge Inst. for Medical Research, Dept. of Haematology, Lab. of Molec. Biol.;|Cambridge Inst. for Medical Research, Dept. of Haematology, MRC Stem Cell Inst.;|Division of Biomolecular Science & Medicinal Chemistry, University of Nottingham;|Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/224808 2017-11-25 Plant Biology A global comparison of the nutritive values of forage plants grown in contrasting environments Mark Lee RBG Kew
http://dx.doi.org/10.1101/225029 2017-11-25 Immunology A Computational Model for the Evaluation of Complement System Regulation under Homeostasis, Disease, and Drug Intervention Nehemiah Zewde|Dimitrios Morikis University of California, Riverside
http://dx.doi.org/10.1101/225045 2017-11-25 Synthetic Biology CC BY-NC-ND Control of bacterial population density with population feedback and molecular sequestration Reed D McCardell|Shan Huang|Leopold N Green|Richard M Murray Caltech
http://dx.doi.org/10.1101/221994 2017-11-25 Immunology CC BY-NC-ND Single-Cell Immune Map of Breast Carcinoma Reveals Diverse Phenotypic States Driven by the Tumor Microenvironment Elham Azizi|Ambrose J. Carr|George Plitas|Andrew E. Cornish|Catherine Konopacki|Sandhya Prabhakaran|Juozas Nainys|Kenmin Wu|Vaidotas Kiseliovas|Manu Setty|Kristy Choi|Phuong Dao|Linas Mazutis|Alexander Y. Rudensky|Dana Pe'er Memorial Sloan Kettering Cancer Center;|Columbia University
http://dx.doi.org/10.1101/225003 2017-11-25 Evolutionary Biology CC BY-NC-ND The standard genetic code facilitates exploration of the space of functional nucleotide sequences Shubham Tripathi|Michael Deem Rice University
http://dx.doi.org/10.1101/224998 2017-11-25 Cancer Biology CC BY-NC-ND Modularity of the metabolic gene network as a prognostic biomarker for hepatocellular carcinoma Fengdan Ye|Dongya Jia|Mingyang Lu|Herbert Levine|Michael Deem Rice University;|The Jackson Laboratory
http://dx.doi.org/10.1101/224840 2017-11-25 CC BY-NC-ND Clusterdv, a simple density-based clustering method that is robust, general and automatic. Joao C Marques|Michael B Orger Rowland Institute at Harvard;|Champalimaud Centre for the Unknown
http://dx.doi.org/10.1101/224873 2017-11-25 Scale-specific analysis of fMRI data on the irregular cortical surface Yi Chen|Radoslaw Martin Cichy|Wilhelm Stannat|John-Dylan Haynes IKND, Uni-Klinikum Magdeburg;|Department of Education and Psychology, Free University Berlin;|Institute for Mathematics, Technical University Berlin;|Bernstein Center for Computational Neuroscience, Berlin
http://dx.doi.org/10.1101/224881 2017-11-25 A suite of transgenic driver and reporter mouse lines with enhanced brain cell type targeting and functionality Tanya L Daigle|Linda Madisen|Travis A Hage|Matthew T Valley|Ulf Knoblich|Rylan S Larsen|Marc M Takeno|Lawrence Huang|Hong Gu|Rachael Larsen|Maya Mills|Alice Bosma-Moody|La'Akea Siverts|Miranda Walker|Lucas T Graybuck|Zizhen Yao|Olivia Fong|Emma Garren|Garreck Lenz|Mariya Chavarha|Julie Pendergraft|James Harrington|Karla E Hirokawa|Julie A Harris|Medea McGraw|Douglas R Ollerenshaw|Kimberly Smith|Baker A Baker|Jonathan T Ting|Susan M Sunkin|Jerome Lecoq|Michael Z Lin|Edward S Boyden|Gabe J Murphy|Nuno da Costa|Jack Waters|Lu Li|Bosiljka Tasic|Hongkui Zeng Allen Institute for Brain Science;|Stanford University School of Medicine;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/225094 2017-11-25 CC BY-NC-ND Gene expression response to sea lice in Atlantic salmon skin: an RNA-Seq comparison between resistant and susceptible animals Diego Robledo|Alejandro P. Gutierrez|Agustin Barria|Jose Yanez|Ross M. Houston University of Edinburgh;|University of Chile
http://dx.doi.org/10.1101/225144 2017-11-25 CC BY Cell-free prototyping strategies for enhancing the sustainable production of polyhydroxyalkanoates bioplastics Richard Kelwick|Luca Ricci|Soo Mei Chee|David Bell|Alexander J Webb|Paul S Freemont Imperial College London;|Department of Life Sciences and Systems Biology, University of Turin
http://dx.doi.org/10.1101/224923 2017-11-25 CC BY-NC-ND A Non-Classical Phase Diagram for Virus-Bacterial Co-Evolution Mediated by CRISPR Pu Han|Michael W Deem Rice University
http://dx.doi.org/10.1101/224725 2017-11-25 DDX3 is exploited by Arenaviruses to suppress type I interferons and favor their replication Maria Eugenia Loureiro|Andre Luiz Zorzetto-Fernandes|Sheli Radoshitzky|Xiaoli Chi|Simone Dallari|Nuha Marooki|Psylvia Leger|Sabrina Foscaldi|Sonia Sharma|Nora Lopez|Juan Carlos de la Torre|Sina Bavari|Elina Zuniga Division of Biological Sciences, University of California San Diego;|United States Army Medical Research Institute of Infectious Diseases;|Ctr. de Virologia Animal- ICT Milstein, Consejo Nacl. de Invest. Cientificas y Tecnicas;|La Jolla Institute for Allergy and Immunology;|Department of Immunology and Microbiology, The Scripps Research Institute
http://dx.doi.org/10.1101/223685 2017-11-25 CC BY-NC-ND A non-genetic meiotic repair program inferred from spore survival values in fission yeast wild isolates: a clue for an epigenetic ratchet-like model of ageing? Xavi Marsellach Independent Researcher
http://dx.doi.org/10.1101/224774 2017-11-25 CC BY-NC-ND Common risk variants identified in autism spectrum disorder Jakob Grove|Stephan Ripke|Thomas Damm Als|Manuel Mattheisen|Raymond Walters|Hyejung Won|Jonatan Pallesen|Esben Agerbo|Ole A Andreassen|Richard Anney|Rich Belliveau|Francesco Bettella|Joseph D Buxbaum|Jonas Bybjerg-Grauholm|Marie Bkved-Hansen|Felecia Cerrato|Kimberly Chambert|Jane H Christensen|Claire Churchhouse|Karin Dellenvall|Ditte Demontis|Silvia De Rubeis|Bernie Devlin|Srdjan Djurovic|Ashley Dumont|Jacqueline Goldstein|Christine S Hansen|Mads E Hauberg|Mads V Hollegaard|Sigrun Hope|Daniel P Howrigan|Hailiang Huang|Christina Hultman|Lambertus Klei|Julian Maller|Joanna Martin|Alicia R Martin|Jennifer Moran|Mette Nyegaard|Terje Nrland|Duncan S Palmer|Aarno Palotie|Carsten B Pedersen|Marianne G Pedersen|Timothy Poterba|Jesper B Poulsen|Beate St Pourcain|Per Qvist|Karola Rehnstrom|Avi Reichenberg|Jennifer Reichert|Elise Robinson|Kathryn Roeder|Panos Roussos|Evald Saemundsen|Sven Sandin|F Kyle Satterstrom|George D Smith|Hreinn Stefansson|Kari Stefansson|Stacy Steinberg|Christine Stevens|Patrick F Sullivan|Patrick Turley|G Bragi Walters|Xinyi Xu|Daniel Geschwind|Merete Nordentoft|David M Hougaard|Thomas Werge|Ole Mors|Preben B Mortensen|Benjamin M Neale|Mark J Daly|Anders D Brglum iPSYCH/Aarhus University;|Massachusetts General Hospital/Broad Institute;|David Geffen School of Medicine, University of California;|NORMENT - KG Jebsen Centre for Psychosis Research, University of Oslo;|MRC Centre for Neuropsychiatric Genetics and Genomics, Cardiff University;|Stanley Center for Psychiatric Research, Broad Institute;|Seaver Autism Ctr. for Research & Treatment, Icahn School of Medicine at Mt. Sinai;|iPSYCH/Statens Serum Institut;|Department of Medical Epidemiology and Biostatistics, Karolinska;|Department of Psychiatry, University of Pittsburgh School of Medicine, Pittsburgh;|Department of Psychiatry, University of Pittsburgh School of Medicine;|Massachusetts General Hospital/Broad Institute/University of Helsinki;|Language & Genetics Dept., Max Planck Institute for Psycholinguistics, Nijmegen;|Wellcome Trust Sanger Institute;|Computational Biology Department, Carnegie Mellon University;|Department of Psychiatry, Icahn School of Medicine at Mount Sinai;|The State Diagnostic and Counselling Centre, Iceland;|MRC Integrative Epidemiology Unit, University of Bristol, Bristol;|deCODE genetics/Amgen;|Departments of Genetics and Psychiatry, University of North Carolina, Chapel Hill;|-;|iPSYCH/University of Copenhagen;|iPSYCH/University of Copenhagen/Mental Health Services Copenhagen;|iPSYCH/Aarhus University Hospital
http://dx.doi.org/10.1101/224352 2017-11-25 CC BY-NC-ND Ecological Change Points: The strength of density dependence and the loss of history Jose Miguel Ponciano|Mark L Taper|Brian Dennis University of Florida;|Montana State University;|University of idaho
http://dx.doi.org/10.1101/224741 2017-11-25 Dose response relationships for gamma radiation induced chromosomal instability Yuri Eidelman|Svetlana Slanina|Valentina Pyatenko|Igor Khvostunov|Sergey Andreev Institute of Biochemical Physics, Russian Academy of Sciences;|Inst. of Biochemical Physics, Russian Acad. of Sciences, Med. Radiological Res. Ctr.;|Medical Radiological Research Center;|Inst. of Biochemical Physics, Russian Acad. of Sciences; Natl. Res. Nuclear Univ.
http://dx.doi.org/10.1101/225151 2017-11-25 CC BY-ND Proof of concept continuous event logging in living cells Andrey Shur|Richard M Murray California Institute of Technology
http://dx.doi.org/10.1101/225011 2017-11-25 CC BY-NC-ND Nonequilibrium entropic bounds for Darwinian replicators Jordi Pinero|Ricard Sole University Pompeu Fabra
http://dx.doi.org/10.1101/224915 2017-11-25 Improving bioinformatics prediction of microRNA targets by ranks aggregation Aurelien Quillet|Chadi Saad|Gaetan Ferry|Youssef Anouar|Nicolas Vergne|Thierry Lecroq|Christophe Dubessy Normandie Univ, UNIROUEN, INSERM, U1239, DC2N, IRIB, 76000 ROUEN, France;|Normandie Univ, UNIROUEN, LITIS, IRIB, 76000 ROUEN, France;|Normandie Univ, UNIROUEN, CNRS, UMR6085, 76000 ROUEN, France
http://dx.doi.org/10.1101/224733 2017-11-25 CC BY-NC-ND Combining accurate tumour genome simulation with crowd sourcing to benchmark somatic structural variant detection Anna Ying-Wah Lee|Adam D. Ewing|Kyle Ellrott|Yin Hu|Kathleen E. Houlahan|J. Christopher Bare|Shadrielle Melijah G. Espiritu|Vincent Huang|Kristen Dang|Zechen Chong|Cristian Caloian|Takafumi N. Yamaguchi|Michael R. Kellen|Ken Chen|Thea C. Norman|Stephen H. Friend|Justin Guinney|Gustavo Stolovitzky|David Haussler|Adam A. Margolin|Joshua M. Stuart|Paul C. Boutros Ontario Institute for Cancer Research;|Mater Research Institute;|Oregon Health & Science University;|Sage Bionetworks;|University of Alabama at Birmingham;|-;|University of Texas MD Anderson Cancer Center;|T.J. Watson Research Center;|University of California, Santa Cruz
http://dx.doi.org/10.1101/224337 2017-11-25 CC BY-NC-ND Human VMPFC encodes early signatures of confidence in perceptual decisions Sabina Gherman|Marios G Philiastides University of Glasgow
http://dx.doi.org/10.1101/224949 2017-11-25 CC BY-NC-ND Brain Modularity Mediates the Relation of Cognitive Performance to Task Complexity Qiuhai Yue|Randi Martin|Simon Fischer-Baum|Aurora I Ramos-Nunez|Fengdan Ye|Michael W Deem Rice University
http://dx.doi.org/10.1101/225102 2017-11-25 Zika virus infection preferentially counterbalances human peripheral monocyte and/or NK-cell activity Fok Moon Lum|David Lee|Tze-Kwang Chua|Jeslin JL Tan|Cheryl YP Lee|Xuan Liu|Yongxiang Fang|Bernett Lee|Wearn-Xin Yee|Natasha Rickett|Po-Ying Chia|Vanessa Lim|Yee-Sin Leo|David Matthews|Julian Hiscox|Lisa FP Ng Singapore Immunology Network;|School of Cellular and Molecular Medicine, University of Bristol;|Centre for Genomic Research, Institute of Integrative Biology, University of Liverpool;|National Institute of Health Research, University of Liverpool;|Commun. Diseases Ctr., Inst. of Infect. Diseases & Epidemiol., Tan Tock Seng Hosp.
http://dx.doi.org/10.1101/224907 2017-11-25 CC BY-ND Deciphering cis-regulatory logic with 100 million synthetic promoters Carl de Boer|Ronen Sadeh|Nir Friedman|Aviv Regev The Broad Institute;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/224782 2017-11-25 Antigen-induced but not innate memory CD8 T cells express NKG2D and are recruited to the lung parenchyma upon viral infection Morgan Grau|Severine Valsesia|Julien Mafille|Sophia Djebali|Martine Tomkowiak|Anne-Laure Mathieu|Daphne Laubreton|Simon De bernard|Pierre-Emmanuel Jouve|Laurent Buffat|Thierry Walzer|Yann LEVERRIER|jacqueline marvel Inserm;|AltraBio
http://dx.doi.org/10.1101/225086 2017-11-25 CC BY Common lizards break Dollo's law of irreversibility: genome-wide phylogenomics support a single origin of viviparity and re-evolution of oviparity Hans Recknagel|Nick Kamenos|Kathryn R Elmer University of Glasgow
http://dx.doi.org/10.1101/225177 2017-11-26 Genomics CC BY-NC-ND DECENT: Differential Expression with Capture Efficiency AdjustmeNT for Single-Cell RNA-seq Data Chengzhong Ye|Terence P Speed|Agus Salim Walter and Eliza Hall Institute for Medical Research;|La Trobe University
http://dx.doi.org/10.1101/209155 2017-11-26 Neuroscience Neural Interactome: Interactive Simulation of a Neuronal System Jimin Kim|William Leahy|Eli Shlizerman University of Washington, Department of Electrical Engineering;|University of Washington, Department of Applied Mathematics;|University of Washington, Departments of Applied Math and Electrical Engineering
http://dx.doi.org/10.1101/224345 2017-11-26 Genomics Tracing cellular heterogeneity in pooled genetic screens via multi-level barcoding Michael Boettcher|Sergio Covarrubias|Anne Biton|James A Blau|Haopeng Wang|Noah Zaitlen|Michael T McManus UCSF;|University of California, San Francisco
http://dx.doi.org/10.1101/225052 2017-11-25 Molecular Biology CC BY-NC-ND AtRsgA from Arabidopsis thaliana controls maturation of the small subunit of the chloroplast ribosome Marek Mutwil|Janowski Marcin|Reimo Zoschke|Lars Scharff|Sylvia Martinez Jaime|Camilla Ferrari|Sebastian Proost|Nooshin Omranian|Magdalena Musialak-Lange|Zoran Nikoloski|Alexander Graf|Mark A. Schottler|Arun Sampathkumar|Neha Vaid Max Planck Institute of Molecular Plant Physiology;|Copenhagen Plant Science Centre
http://dx.doi.org/10.1101/225284 2017-11-26 Refactoring gene sequences for broad assembly standards compatibility Tyson R Shepherd Massachusetts Institute of Technology
http://dx.doi.org/10.1101/225201 2017-11-26 Evolutionary Biology CC BY-NC-ND Genomic and geographic footprints of differential introgression between two highly divergent fish species Ahmed Souissi|Francois Bonhomme|Manuel Manchado|Lilia Bahri Sfar|Pierre- Alexandre Gagnaire Université de Montpellier, Place Eugène Bataillon;|IFAPA Centro El Toruño, Junta de Andalucía;|Université de Tunis El Manar, Faculté des Sciences de Tunis
http://dx.doi.org/10.1101/225193 2017-11-26 Genetics CC BY Elevated polygenic burden for autism is associated with differential DNA methylation at birth. Eilis Hannon|Diana Schendel|Christine Ladd-Acosta|Jakob Grove|Christine Soholm Hansen|Shan V Andrews|David Hougaard|Michaeline Bresnahan|Ole Mors|Mads Vilhelm Hollegaard|Marie Baekvad-Hansen|Mady Hornig|Preben Bo Mortensen|Anders Borglum|Thomas Werge|Marianne Giortz Pedersen|Merete Nordentoft|Joseph Buxbaum|Daniele Fallin|Jonas Bybjerg-Grauholm|Abraham Reichenberg|Jonathan Mill University of Exeter;|Aarhus University;|Johns Hopkins Bloomberg School of Public Health;|-;|Statens Serum Institut;|Columbia University;|Aarhus University Hospital;|University of Copenhagen;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/225169 2017-11-26 Genomics CC BY-NC-ND Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries Seyedeh M. Zekavat|Sanni Ruotsalainen|Robert E. Handsaker|Maris Alver|Jonathan Bloom|Tim Poterba|Cotton Seed|Jason Ernst|Mark Chaffin|Jesse Engreitz|Adolfo Correa|Andres Metspalu|Veikko Salomaa|Manolis Kellis|Mark J. Daly|James G. Wilson|Benjamin M. Neale|Steven McCaroll|Ida Surakka|Tonu Esko|Andrea Ganna|Samuli Ripatti|Sekar Kathiresan|Pradeep Natarajan Yale School of Medicine, Broad Institute of MIT and Harvard;|University of Helsinki;|Broad Institute of MIT and Harvard;|University of Tartu;|Broad Institute of MIT and Harvard, Analytic and Translational Genetics Unit;|University of California, Los Angeles;|University of Mississippi Medical Center;|Estonian Genome Center;|National Institute for Health and Welfare, Helsinki, Finland;|Broad Institute of MIT and Harvard, Massachusetts Institute of Technology;|Broad Institute of MIT and Harvard, Harvard Medical School;|Broad Institute of MIT and Harvard, Estonian Genome Center;|Broad Institute of MIT and Harvard, Harvard Medical School, Massachusetts General Hospital;|-
http://dx.doi.org/10.1101/225235 2017-11-26 Cancer Biology Cytokine response of acute myeloid leukemia cells has impact on patient prognosis: Insights from mathematical modeling Thomas Stiehl|Anthony D Ho|Anna Marciniak-Czochra Heidelberg University, Institute of Applied Mathematics;|Heidelberg University Hospital, Medical Clinic V
http://dx.doi.org/10.1101/218669 2017-11-27 Biochemistry Dimerization of the Pragmin pseudo-kinase regulates protein tyrosine phosphorylation celine lecointre|valerie simon|clement kerneur|frederic allemand|aurelie fournet|ingrid montarras|jean-luc pons|muriel gelin|constance brignatz|serge urbach|gilles labesse|serge roche cnrs;|CNRS
http://dx.doi.org/10.1101/225342 2017-11-27 Bioinformatics CC BY High-throughput ANI Analysis of 90K Prokaryotic Genomes Reveals Clear Species Boundaries Chirag Jain|Luis M. Rodriguez-R|Adam M. Phillippy|Konstantinos T. Konstantinidis|Srinivas Aluru School of Computational Science and Engineering, Georgia Institute of Technology;|School of Civil and Environmental Engineering, Georgia Institute of Technology;|National Human Genome Research Institute, National Institutes of Health
http://dx.doi.org/10.1101/225367 2017-11-27 Biophysics CC BY Failure through expanding voids in bacterial streamers Ishita Biswas|Ranajay Ghosh|Mohtada Sadrzadeh|Aloke Kumar University of Alberta;|University of Central Florida, Orlando;|Indian Institute of Science
http://dx.doi.org/10.1101/225243 2017-11-27 Neuroscience Instructive starPEG-Heparin biohybrid 3D cultures for modeling human neural stem cell plasticity, neurogenesis, and neurodegeneration Christos Papadimitriou|Mehmet I Cosacak|Violeta Mashkaryan|Hilal Celikkaya|Laura Bray|Prabesh Bhattarai|Heike Hollak|Xin Chen|Shuijin He|Christopher L Antos|Alvin Thomas|Jens Friedrichs|Andreas Dahl|Yixin Zhang|Uwe Freudenberg|Carsten Werner|Caghan Kizil German Center for Neurodegenerative Diseases (DZNE) Dresden, Germany;|Center for Regenerative Therapies Dresden (CRTD), TU Dresden, Germany;|Institute of Health Biomedical Innovation (IHBI), Queensland University of Technology, Australia;|ShanghaiTech University, Shanghai, People's Republic of China;|B CUBE, Center for Molecular Bioengineering, TU Dresden, Germany;|Leibniz Institute of Polymer Research Dresden, Max Bergmann Center of Biomaterials Dresden, Germany;|German Center for Neurodegenerative Diseases (DZNE) Dresden, Helmholtz Association, Germany
http://dx.doi.org/10.1101/225417 2017-11-27 Zoology CC BY-NC-ND Equine strongyle communities are constrained by horse sex and species dipersal-fecundity trade-off Guillaume Salle|Sawomir Kornas|Marta Basiaga INRA;|Dept of Environmental Zoology, Institute of Animal Sciences, University of Agriculture in Krakow
http://dx.doi.org/10.1101/225391 2017-11-27 Neuroscience Molecule guided laser ablation as a novel therapeutic strategy to control itch. Linda Nocchi|Mariangela D'Attilia|Nainika Roy|Rahul Dhandapani|Andrei Traista|Mariano Maffei|Laura Castaldi|Emerald Perlas|Paul A Heppenstall European Molecular Biology Laboratory (EMBL)
http://dx.doi.org/10.1101/225318 2017-11-27 Synthetic Biology CC BY-ND Modeling Dynamic Transcriptional Circuits with CRISPRi Samuel E Clamons|Richard M Murray California Institute of Technology
http://dx.doi.org/10.1101/224550 2017-11-27 Immunology A single cycle influenza virus coated in H7 hemagglutinin provides heterotypic protection and neutralising antibody responses to both glycoproteins. Timothy J Powell|Pramila Rijal|Rosanna M McEwen-Smith|Haewon Byun|Marc Hardwick|Lisa M Schimanski|Kuan-Ying A Huang|Rodney S Daniels|Alain R M Townsend MRC Human Immunology Unit MRC Weatherall Institute of Molecular Medicine University of Oxford;|Division of Pediatric Infectious Diseases Department of Pediatrics Chang Gung Childrens Hospital;|Crick Worldwide Influenza Centre The Francis Crick Institute 1 Midland Road London
http://dx.doi.org/10.1101/225326 2017-11-27 Genomics Comparison of reprogramming factor targets reveals both species-specific and conserved mechanisms in early iPS cells Kai Fu|Constantinos Chronis|Abdenour Soufi|Giancarlo Bonora|Miguel Edwards|Steve Smale|Kenneth Zaret|Kathrin Plath|Matteo Pellegrini University of California, Los Angeles;|University of Pennsylvania
http://dx.doi.org/10.1101/225813 2017-11-27 Learning to read the imprints of consciousness on global brain dynamics: an application to intra-operative monitoring of anesthesia Leandro M Alonso|Guillermo Solovey|Toru Yanagawa|Alex Proekt|Guillermo Cecchi|Marcelo O Magnasco Laboratory of Integrative Neuroscience, The Rockefeller University;|Instituto del Calculo, FCEyN, Universidad de Buenos Aires, (C1428EGA), Argentina;|Laboratory for Adaptive Intelligence, Brain Science Institute, RIKEN, Saitama, Japan;|Anesthesiology and Critical Care, University of Pennsylvania, Philadelphia, PA;|IBM, Thomas J. Watson Research Center, Yorktown Heights, NY
http://dx.doi.org/10.1101/225888 2017-11-27 CC BY Early Archean origin of heterodimeric Photosystem I Tanai Cardona Imperial College London
http://dx.doi.org/10.1101/225532 2017-11-27 CC BY-NC-ND Reversed depth in anti-correlated random dot stereograms and central-peripheral difference in visual inference Li Zhaoping|Joelle Ackermann University College London;|ETH Zurich
http://dx.doi.org/10.1101/225540 2017-11-27 CC BY-NC-ND Deferiprone, an iron chelator, is preventive and therapeutic in experimental crescentic glomerulonephritis Tai-Di Chen|Jeong-Hun Ko|Maria Prendecki|Stephen P. McAdoo|Charles D. Pusey|H. Terence Cook|Jacques Behmoaras Chang Gung Memorial Hospital;|Imperial College London
http://dx.doi.org/10.1101/221713 2017-11-27 Endospores and other lysis-resistant bacteria comprise a widely shared core community within the human microbiota Sean Michael Kearney|Sean M Gibbons|Mathilde Poyet|Thomas Gurry|Kevin Bullock|Jessica Allegretti|Clary Clish|Eric J Alm Massachusetts Institute of Technology;|Broad Institute;|Brigham and Women's Hospital
http://dx.doi.org/10.1101/225656 2017-11-27 CC BY-ND Drug repurposing for yellow fever using high content screening Denise RB Pilger|Carolina Borsoi Moraes|Laura Gil|Lucio Freitas-Junior Universidade de Sao Paulo;|Fiocruz
http://dx.doi.org/10.1101/225714 2017-11-27 Systems genetics identifies modifiers of Alzheimer's disease risk and resilience Sarah M. Neuner|Timothy J Hohman|Ryan Richholt|David A Bennett|Julie A Schneider|Philip L De Jager|Matthew J Huentelman|Kristen M. S. O'Connell|Catherine C Kaczorowski The Jackson Laboratory and The University of Tennessee Health Science Center;|Vanderbilt University Medical Center;|Translational Genomics Research Institute;|Rush University Medical Center;|Columbia University Medical Center and Broad Institute;|The Jackson Laboratory
http://dx.doi.org/10.1101/225250 2017-11-27 CC BY-ND Paramecium Learning: New Insights and Modifications Abolfazl Alipour|Mohammadreza Dorvash|Yasaman Yeganeh|Gholamreza Hatam Department of Psychological and Brain Sciences, Indiana University, Bloomington;|School of Pharmacy, Shiraz University of Medical Sciences, Shiraz, Iran;|Basic Sci. in Infectious Diseases Res. Ctr., School of Medicine, Shiraz Univ. of Med.
http://dx.doi.org/10.1101/225938 2017-11-27 Dopaminergic drug treatment remediates exaggerated cingulate prediction error responses in obsessive-compulsive disorder Graham K Murray|Franziska Knolle|Karen D Ersche|Kevin J Craig|Sanja Abbot|Shalia S Shabbir|Naomi A Fineberg|John Suckling|Barbara J Sahakian|Edward T Bullmore|Trevor W Robbins University of Cambridge;|GlaxoSmithKline;|Queen Elizabeth II Hospital, Welwyn Garden City
http://dx.doi.org/10.1101/225805 2017-11-27 CC BY-NC-ND The Plateau Method for Forensic DNA SNP Mixture Deconvolution Darrell O Ricke|Joe Isaacson|James Watkins|Philip Fremont-Smith|Tara Boettcher|Martha Petrovick|Edward Wack|Eric Schwoebel MIT Lincoln Laboratory
http://dx.doi.org/10.1101/225557 2017-11-27 Energy saving in vision at the first synapse: The ON and OFF pathways measure temporal differences Bart M. ter Haar Romeny Eindhoven University of Technology
http://dx.doi.org/10.1101/225672 2017-11-27 CC BY-NC What goes up must come down - Biomechanical impact analysis of jumping locusts Simon Reichel|Susanna Labisch|Jan-Henning Dirks University of Applied Sciences Bremen;|Hochschule Bremen
http://dx.doi.org/10.1101/225755 2017-11-27 The effects of host species and sexual dimorphism differ among root, leaf and flower microbiomes of wild strawberries in situ Na Wei|Tia-Lynn Ashman University of Pittsburgh
http://dx.doi.org/10.1101/225664 2017-11-27 CC BY-NC-ND Prioritized memory access explains planning and hippocampal replay Marcelo Gomes Mattar|Nathaniel D Daw Princeton University
http://dx.doi.org/10.1101/225698 2017-11-27 CC BY Bioentities: a resource for entity recognition and relationship resolution in biomedical text mining John A Bachman|Benjamin M Gyori|Peter Sorger Harvard Medical School
http://dx.doi.org/10.1101/225821 2017-11-27 CC BY-NC-ND The structure of SALM5 suggests a dimeric assembly for the presynaptic RPTP ligand recognition Sudeep Karki|Prodeep Paudel|Celeste Sele|Alexander V Shkumatov|Tommi Kajander Institute of Biotechnology, University of Helsinki;|Vrije Universiteit Brussel
http://dx.doi.org/10.1101/225649 2017-11-27 EASI-tag enables accurate multiplexed and interference-free MS2-based proteome quantification Sebastian Virreira Winter|Florian Meier|Christoph Wichmann|Juergen Cox|Matthias Mann|Felix Meissner Max Planck Institute of Biochemistry
http://dx.doi.org/10.1101/225771 2017-11-27 CC BY-NC-ND Origin, evolution, and distribution of the molecular machinery for biosynthesis of sialylated lipooligosaccharide structures in Campylobacter coli Alejandra Culebro|Miguel P. Machado|Joao Andre Carrico|Mirko Rossi Faculty of Veterinary Medicine, University of Helsinki;|Faculdade de Medicina, Universidade de Lisboa
http://dx.doi.org/10.1101/225763 2017-11-27 CC BY-ND Frequency-dependent Maternal Effects across Species and Environments Rachel M Germain|Tess N Grainger|Natalie T Jones|Benjamin Gilbert University of British Columbia;|University of Toronto;|University of California San Diego
http://dx.doi.org/10.1101/225508 2017-11-27 CC BY-NC-ND Diabetic Retinopathy detection through integration of Deep Learning classification framework Alexander Rakhlin n/a
http://dx.doi.org/10.1101/225573 2017-11-27 CC BY-NC Mining therapeutic insights from large scale drug screenings with transfer learning Mi Yang|Jaak Simm|Pooya Zakeri|Yves Moreau|Julio Saez-Rodriguez RWTH Aachen University;|KU Leuven;|RWTH Aachen University, EMBL EBI
http://dx.doi.org/10.1101/225375 2017-11-27 CC BY Functional Parcellation of the Default Mode Network: A Large-Scale Meta-Analysis Shaoming Wang|Adrienne A. Taren|David V. Smith Temple University;|University of Oklahoma
http://dx.doi.org/10.1101/225490 2017-11-27 CC BY A design framework and exemplar metrics for FAIRness Mark D Wilkinson|Susanna-Assunta Sansone|Erik Schultes|Peter Doorn|Luiz Olavo Bonino da Silva Santos|Michel Dumontier Universidad Politecnica de Madrid;|University of Oxford;|Dutch Techcenter for Life Sciences;|Data Archiving and Networked Services;|Leiden University Medical Centre;|Institute of Data Science, Maastricht University
http://dx.doi.org/10.1101/225433 2017-11-27 Androgen receptor binding sites are highly mutated in prostate cancer Tunc MOROVA|Mehmet GONEN|Attila GURSOY|Ozlem KESKIN|Nathan A LACK Koc University;|Vancouver Prostate Centre, University of British Columbia
http://dx.doi.org/10.1101/222083 2017-11-27 CC BY-NC-ND Eukaryotically expressed encapsulins as orthogonal compartments for multiscale molecular imaging Felix Sigmund|Christoph Massner|Philipp Erdmann|Anja Stelzl|Hannes Rolbieski|Helmut Fuchs|Martin Hrabe de Angelis|Mitul Desai|Sarah Bricault|Alan Jasanoff|Vasilis Ntziachristos|Juergen Plitzko|Gil Gregor Westmeyer Institute of Biological and Medical Imaging, Helmholtz Zentrum Muenchen, Germany;|Dept. of Molecular Structural Biology, Max Planck Inst. of Biochemistry, Germany;|Institute for Experimental Genetics, Helmholtz Zentrum Muenchen, Germany;|Dept. of Biological Engineering, Massachusetts Institute of Technology, Cambridge;|Chair for Biological Imaging, Technical University of Munich, Germany;|Dept. of Nuclear Medicine, School of Medicine, Technical Univ. of Munich, Germany
http://dx.doi.org/10.1101/225425 2017-11-27 CC BY-NC-ND Estimating the number of missing experiments in a neuroimaging meta-analysis Pantelis Samartsidis|Silvia Montagna|Angela R. Laird|Peter T. Fox|Timothy D. Johnson|Thomas E. Nichols MRC Biostatistics Unit, University of Cambridge;|School of Mathematics, Statistics and Actuarial Science, University of Kent;|Department of Physics, Florida International University;|Research Imaging Institute, University of Texas;|University of Michigan;|Oxford Big Data Institute and Wellcome Centre for Integrative Neuroimaging, University of Oxford
http://dx.doi.org/10.1101/142273 2017-11-27 CC BY Dissecting FcγR Regulation Through a Multivalent Binding Model Ryan A. Robinett|Ning Guan|Anja Lux|Markus Biburger|Falk Nimmerjahn|Aaron S Meyer Massachusetts Institute of Technology;|Friedrich Alexander University of Erlangen-Nurnberg;|University of California, Los Angeles
http://dx.doi.org/10.1101/224766 2017-11-27 CC BY-NC-ND Integrating animal movement with habitat suitability for estimating dynamic landscape connectivity Marielle L. van Toor|Bart Kranstauber|Scott H. Newman|Diann J. Prosser|John Y. Takekawa|Georgios Technitis|Robert Weibel|Martin Wikelski|Kamran Safi Department of Migration and Immuno-Ecology, Max Planck Institute for Ornithology;|Department of Evolutionary Biology and Environmental Studies, University of Zurich;|Food & Agriculture Org. of the United Nations, Animal Production & Health Div.;|U.S. Geological Survey, Patuxent Wildlife Research Center;|Audubon California, Richardson Bay Audubon Center & Sanctuary;|Department of Geography, University of Zurich
http://dx.doi.org/10.1101/225565 2017-11-27 Bioinformatics ProLego: tool for extracting and visualizing topological modules in protein structures Taushif Khan|Shailesh Kumar Panday|Indira Ghosh Interuniversity Institute for Bioinformatics in Brussels;|School of Computational and Integrative Sciences, Jawaharlal Nehru University
http://dx.doi.org/10.1101/225482 2017-11-27 Neuroscience Anterior cingulate cortex connectivity is associated with suppression of behavior in a rat model of chronic pain Laurel S Morris|Christian Sprenger|Ken Koda|Daniela M de la Mora|Tomomi Yamada|Hiroaki Mano|Yuto Kashiwagi|Yoshichika Yoshioka|Yasuhide Morioka|Ben Seymour University of Cambridge, Cambridge, United Kingdom;|Shionogi & Company Ltd., Osaka, Japan;|National Institute of Information and Communications Technology, Osaka, Japan
http://dx.doi.org/10.1101/221408 2017-11-27 Neuroscience CC BY-NC Extended "Constant Field" equations: an electrodiffusion model of NMDA receptors Keivan Moradi|Kamran Moradi|Fatemeh Bakouie|Shahriar Gharibzadeh Amirkabir University of Technology;|Tehran University of Medical Sciences
http://dx.doi.org/10.1101/225524 2017-11-27 Neuroscience CC BY GABAergic deficits and schizophrenia-like behaviors in a mouse model carrying patient-derived neuroligin-2 R215H mutation Gong Chen|Dongyun Jiang|Zheng Wu|Yi Hu|Siu-Pok Yee Penn State University, United States;|Penn State Univ, United States;|University of Connecticut Health Center, United States
http://dx.doi.org/10.1101/225607 2017-11-27 Neuroscience CC BY-NC-ND Shared Spatiotemporal Category Representations in Biological and Artificial Deep Neural Networks Michelle R. Greene|Bruce C. Hansen Bates College;|Colgate University
http://dx.doi.org/10.1101/225623 2017-11-27 Bioinformatics Reconstructing phylogeny from reduced-representation genome sequencing data without assembly or alignment Huan Fan|Anthony R Ives|Yann Surget-Groba University of Wisconsin-Madison;|Universite du Quebec en Outaouais
http://dx.doi.org/10.1101/226183 2017-11-28 Plant Biology CC BY-ND PWO1 interacts with PcG proteins and histones to regulate Arabidopsis flowering and development. Mareike L Hohenstatt|Pawel Mikulski|Olga Komarynets|Constanze Klose|Ina Kycia|Albert Jeltsch|Sara Farrona|Daniel Schubert Institute for Genetics, Heinrich-Heine-University Duesseldorf, Germany;|John Innes Centre, Norwich, UK;|Universite de Geneve, Switzerland;|The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA;|Institute for Biochemistry, University of Stuttgart, Germany;|Plant and AgriBiosciences Centre, National University Ireland Galway, Ireland;|Institute of Biology, Freie Universitaet Berlin, Germany
http://dx.doi.org/10.1101/225722 2017-11-28 Developmental Biology Evolution and cell-type specificity of human-specific genes preferentially expressed in progenitors of fetal neocortex Marta Florio|Michael Heide|Holger Brandl|Anneline Pinson|Sylke Winkler|Pauline Wimberger|Wieland B. Huttner|Michael Hiller Department of Genetics, Harvard Medical School;|Max Planck Institute of Molecular Cell Biology and Genetics;|Technische Universitaet Dresden, Universitaetsklinikum Carl Gustav Carus
http://dx.doi.org/10.1101/226167 2017-11-28 Neuroscience CC BY-NC-ND The Functional Connectivity between the Locust Leg Pattern Generating Networks and the Subesophageal Ganglion Higher Motor Center Daniel Knebel|Jan Rillich|Leonard Nadler|Hans Joachim Pflueger|Amir Ayali Tel Aviv University;|Freie Unversitat Berlin
http://dx.doi.org/10.1101/225979 2017-11-28 Cell Biology PDGFRα signaling in cardiac stem and stromal cells modulates quiescence, metabolism and self-renewal, and promotes anatomical and functional repair Richard P Harvey|Naisnana Asili|Munira Xaymardan|Elvira Forte|Ashley J Waardenberg|James Cornwell|Vaibhao Janbandhu|Scott Kesteven|Vashe Chandrakanthan|Helena Malinowska|Henrik Reinhard|Sile Yang|Hilda Pickett|Peter Schofield|Daniel Christ|Ishtiaq Ahmed|James Chong|Corey Heffernan|Joan Li|Mary Simonian|Romaric Bouveret|Surabhi Srivastava|Rakesh Mishra|Jyotsna Dhawan|Robert Nordon|Peter Macdonald|Robert Graham|Michael Feneley Victor Chang Cardiac Research Institute;|Faculty of Dentistry, University of Sydney;|Telomere Length Regulation Unit, Children Medical Research Inst., Univ. of Sydney;|Garvan Institute of Medical Research;|Centre for Cellular and Molecular Biology, India;|Graduate School of Biomedical Engineering, University of New South Wales
http://dx.doi.org/10.1101/225599 2017-11-28 Evolutionary Biology Pathogen evolution: slow and steady spreads the best Todd Parsons|Amaury Lambert|Troy Day|Sylvain Gandon CNRS & Universite Pierre et Marie Curie;|Universite Pierre et Marie Curie & College de France;|Queen's University;|CNRS & Centre d'Ecologie Fonctionnelle et Evolutive
http://dx.doi.org/10.1101/226449 2017-11-28 CC BY Integrated Analysis of Gene Expression Differences in Twins Discordant for Disease and Binary Phenotypes Sivateja Tangirala|Chirag Patel Harvard Medical School
http://dx.doi.org/10.1101/226381 2017-11-28 CC BY Effect of migration and environmental heterogeneity on the maintenance of quantitative variation: a simulation study Tegan Krista McDonald|Sam Yeaman University of Calgary
http://dx.doi.org/10.1101/226415 2017-11-28 CC BY-ND Practice induces a qualitative change in the memory representation for visuomotor learning David M Huberdeau|John W Krakauer|Adrian M Haith Johns Hopkins University
http://dx.doi.org/10.1101/226423 2017-11-28 CC BY A linear-time algorithm to sample the dual-birth model Niema Moshiri University of California, San Diego
http://dx.doi.org/10.1101/226324 2017-11-28 Uncoupling Intraflagellar Transport and Primary Cilia Formation Demonstrates Deep Integration of IFT in Hedgehog Signaling Thibaut Eguether|Fabrice P Cordelieres|Gregory J Pazour University of Mass Med School;|Universite de Bordeaux
http://dx.doi.org/10.1101/223958 2017-11-28 Clinical Trials Targeting regulatory T cells with Interleukin-2 treatment in type 1 diabetes: a response-adaptive, non-randomised, open-label trial of repeat doses of Aldesleukin (DILfrequency) Eleonora Seelig|James Howlett|Linsey Porter|Lucy Truman|James Heywood|Jane Kennet|Emma L Arbon|Katerina Anselmiova|Neil M Walker|Ravinder Atkar|Marcin L Pekaiski|Ed Rytina|Mark Evans|Linda S Wicker|John A Todd|Adrian P Mander|Simon Bond|Frank Waldron-Lynch University of Cambridge;|Cambridge University Hospitals NHS Foundation Trust;|University of Oxford
http://dx.doi.org/10.1101/223966 2017-11-28 Epidemiology CC BY Causal inference in cancer epidemiology: what is the role of Mendelian randomization? James Yarmolinsky|Kaitlin H Wade|Rebecca C Richmond|Ryan J Langdon|Caroline J Bull|Kate M Tilling|Caroline L Relton|Sarah J Lewis|George Davey Smith|Richard M Martin University of Bristol
http://dx.doi.org/10.1101/225516 2017-11-28 Epidemiology CC BY-NC-ND Automated detection of sleep-boundary times using wrist-worn accelerometry Johanna O'Donnell|Sven Hollowell|Gholamreza Salimi-Khorshidi|Carmelo Velardo|Claire Sexton|Kazem Rahimi|Heidi Johansen-Berg|Lionel Tarassenko|Aiden Doherty Inst. of Biomedical Engineering, Dept. of Engineering Science, Univ. of Oxford;|Nuffield Department of Population Health, University of Oxford, United Kingdom;|George Inst. for Global Health, Nuffield Dept. of Obstet. & Gynaecol., Univ. of Oxford;|Inst. of Biomedical Engineering, Dept. of Engineering Science, University of Oxford;|Nuffield Department of Neuroscience, University of Oxford, United Kingdom;|Nuffield Dept. of Population Health, University of Oxford, United Kingdom
http://dx.doi.org/10.1101/224014 2017-11-28 Clinical Trials Evaluating a sepsis prediction machine learning algorithm using minimal electronic health record data in the emergency department and intensive care unit Hoyt Burdick|Eduardo Pino|Denise Gabel-Comeau|Carol Gu|Heidi Huang|Anna Lynn-Palevsky|Ritankar Das Cabell Huntington Hospital; Marshall University School of Medicine;|Cabell Huntington Hospital;|Dascena Inc.
http://dx.doi.org/10.1101/223701 2017-11-28 Epidemiology CC BY-NC-ND Transmission patterns of hyper-endemic multi-drug resistant Klebsiella pneumoniae in a Cambodian neonatal unit: a longitudinal study with whole genome sequencing Pieter Smit|Nicole Stoesser|Sreymom Pol|Esther van Kleef|Mathupanee Oonsivilai|Pisey Tan|Leakhena Neou|Claudia Turner|Paul Turner|Ben S Cooper University of Oxford;|Cambodia-Oxford Medical Research Unit;|Mahidol Oxford Research Unit
http://dx.doi.org/10.1101/225730 2017-11-28 Epidemiology Statistical power of clinical trials has increased whilst effect size remained stable: an empirical analysis of 137 032 clinical trials between 1975-2017 Herm J Lamberink|Willem M Otte|Michel RT Sinke|Daniel Lakens|Paul P Glasziou|Joeri K Tijdink|Christiaan H Vinkers University Medical Center Utrecht and Utrecht University;|Eindhoven University of Technology;|Bond University;|VU University
http://dx.doi.org/10.1101/226175 2017-11-28 Evolutionary Biology CC BY-NC Host shifts result in parallel genetic changes when viruses adapt to closely related species Ben Longdon|Jonathan P Day|Joel M Alves|Sophia CL Smith|Thomas M Houslay|John E McGonigle|Lucia Tagliaferri|Francis M Jiggins University of Exeter;|University of Cambridge
http://dx.doi.org/10.1101/226340 2017-11-28 Neuroscience CC BY-NC-ND Disruption to functional networks in neonates with perinatal brain injury predicts motor skills at 8 months Annika C Linke|Conor Wild|Leire Zubiaurre-Elorza|Charlotte Herzmann|Hester Duffy|Victor K Han|David SC Lee|Rhodri Cusack Western University, London, ON, Canada;|Children's Health Research Institute, London, ON, Canada
http://dx.doi.org/10.1101/226027 2017-11-28 Synthetic Biology CC BY-NC-ND Biofilm Lithography: High-resolution cell patterning via optogenetic adhesin expression Xiaofan Jin|Ingmar H Riedel-Kruse Stanford University
http://dx.doi.org/10.1101/226290 2017-11-28 Microbiology CC BY-NC-ND RodZ promotes MreB polymer formation and curvature localization to determine the cylindrical uniformity of E. coli shape Randy M Morgenstein|Benjamin P Bratton|Joshua W Shaevitz|Zemer Gitai Oklahoma State;|Princeton University;|Princeton
http://dx.doi.org/10.1101/226274 2017-11-28 Neuroscience CC BY-NC-ND Laminar-specific cortical dynamics in human visual and sensorimotor cortices James J Bonaiuto|Sofie S Meyer|Simon Little|Holly Rossiter|Martina F Callaghan|Fred Dick|Gareth R Barnes|Sven Bestmann University College London;|Cardiff University;|Birkbeck College, University of London
http://dx.doi.org/10.1101/225615 2017-11-28 Bioengineering CC BY-NC-ND Photocatalytic disinfection of surfaces with copper doped TiO2 nanotube coatings illuminated by ceiling mounted fluorescent lights Tilen Koklic|Stefan Pintaric|Irena Zdovc|Majda Golob|Polona Umek|Alma Mehle|Martin Dobeic|Janez Strancar Jozef Stefan Institute;|Univ. of Ljubljana, Inst. of Environmental & Animal Hygiene with Animal Behavior;|University of Ljubljana, Veterinary Faculty, Institute of Microbiology and Parasitology
http://dx.doi.org/10.1101/226134 2017-11-28 Neuroscience Short-term dosage regimen for stimulation-induced long-lasting desynchronization Thanos Manos|Magteld Zeitler|Peter Tass Research Centre Juelich;|Stanford University
http://dx.doi.org/10.1101/226357 2017-11-28 Evolutionary Biology CC BY-NC-ND Diminishing returns of inoculum size on the rate of a plant RNA virus evolution Rebeca Navarro|Silvia Ambros|Fernando Martinez|Santiago F Elena IBMCP, CSIC-UPV
http://dx.doi.org/10.1101/226043 2017-11-28 Neuroscience CC BY-NC-ND Tracking the dynamic functional connectivity structure of the human brain across the adult lifespan Yunman Xia|Qunlin Chen|Mengze Li|Jiang Qiu SouthWest University
http://dx.doi.org/10.1101/226373 2017-11-28 Genetics CC BY-NC Caudal counter-represses Hunchback to regulate even-skipped stripe 2 expression in Drosophila embryos Ben J Vincent|Max V Staller|Francheska Lopez-Rivera|Meghan DJ Bragdon|Zeba Wunderlich|Javier Estrada|Angela H DePace Harvard Medical School
http://dx.doi.org/10.1101/225987 2017-11-28 Evolutionary Biology Population genomic analysis reveals contrasting demographic changes of two closely related dolphin species in the last glacial Nagarjun Vijay|Chungoo Park|Jooseong Oh|Soyeong Jin|Elizabeth Kern|Hyun Woo Kim|Jianzhi Zhang|Joong-Ki Park University of Michigan;|Chonnam National University;|Ewha Womans University;|National Institute of Fisheries Science
http://dx.doi.org/10.1101/226191 2017-11-28 Evolutionary Biology Alternative mating tactics and tactical deception: Is the common cuttlefish (Sepia officinalis) nothing but a common cheat? Gavan Michael Cooke Anglia Ruskin University
http://dx.doi.org/10.1101/226019 2017-11-28 Evolutionary Biology CC BY Developmental loci harbor clusters of accelerated regions that evolved independently in ape lineages Dennis Kostka|Alisha K. Holloway|Katherine Pollard University of Pittsburgh School of Medicine;|Phylos Bioscience;|Gladstone Institutes, UCSF
http://dx.doi.org/10.1101/221259 2017-11-28 Genomics Recurrence of de novo mutations in families Hakon Jonsson|Patrick Sulem|Gudny A. Arnadottir|Gunnar Palsson|Hannes P. Eggertsson|Snaedis Kristmundsdottir|Florian Zink|Birte Kehr|Kristjan E. Hjorleifsson|Brynjar Orn Jensson|Ingileif Jonsdottir|Sigurdur Einar Marelsson|Sigurjon Axel Gudjonsson|Arnaldur Gylfason|Adalbjorg Jonasdottir|Aslaug Jonasdottir|Simon N. Stacey|Olafur Th. Magnusson|Unnur Thorsteinsdottir|Gisli Masson|Augustine Kong|Bjarni V. Halldorsson|Agnar Helgason|Daniel F. Gudbjartsson|Kari Stefansson deCODE genetics / Amgen Inc.;|Department of Pediatrics, Landspitali University Hospital, Reykjavik, Iceland
http://dx.doi.org/10.1101/225631 2017-11-28 Bioinformatics Tumor-specific Causal Inference (TCI): A Bayesian Method for Identifying Causative Genome Alterations within Individual Tumors Gregory Cooper|Chunhui Cai|Xinghua Lu University of Pittsburgh
http://dx.doi.org/10.1101/226159 2017-11-28 Evolutionary Biology CC BY-NC Phylogenomics of montane frogs of the Brazilian Atlantic Forest supports a scenario of isolation in sky islands followed by relative climatic stability Marcio R. Pie|Brant C Faircloth|Luiz Fernando Ribeiro|Marcos R. Bornschein|John McCormack Universidade Federal do Parana;|Louisiana State University;|Pontificia Universidade Catolica do Parana;|Universidade Estadual Paulista
http://dx.doi.org/10.1101/226126 2017-11-28 Neuroscience All-Resolutions Inference for Brain Imaging Jonathan D. Rosenblatt|Livio Finos|Wouter D. Weeda|Aldo Solari|Jelle J. Goeman Ben Gurion University of the Negev;|University of Padua;|Leiden University;|University of Milano-Bicocca
http://dx.doi.org/10.1101/226100 2017-11-28 Neuroscience CC BY-NC Thalamocortical Projectional Divergence Leads to Complexity in Functional Organizations in Mouse Auditory Cortex Shinpei Ohga|Hiroaki Tsukano|Masao Horie|Hiroki Terashima|Nana Nishio|Yamato Kubota|Kuniyuki Takahashi|Ryuichi Hishida|Hirohide Takebayashi|Katsuei Shibuki Brain Research Institute, Niigata University;|Graduate School of Medical and Dental Sciences, Kagoshima University;|NTT Communication Science Laboratories;|Graduate School of Medicine and Dental Sciences, Niigata University
http://dx.doi.org/10.1101/225995 2017-11-28 Neuroscience CC BY Tracking and optimizing human performance using deep reinforcement learning in closed-loop behavioral- and neurofeedback: a proof of concept Martin Dinov|Robert Leech Imperial College London
http://dx.doi.org/10.1101/226480 2017-11-29 CC BY Label-free non-invasive quantitative measurement of lipid contents in individual microalgal cells using refractive index tomography JaeHwang Jung|Seong-Joo Hong|Han-Byeol Kim|Geon Kim|Moosung Lee|Seungwoo Shin|SangYun Lee|Dong-Jin Kim|Choul-Gyun Lee|YongKeun Park KAIST;|Inha University;|Nelson Mandela African Institution of Science and Technology
http://dx.doi.org/10.1101/226282 2017-11-29 CC BY-NC-ND Electrophysiological properties of human β-cell lines EndoC-βH1 and -βH2 conform with human β-cells Benoit Hastoy|Mahdieh Godazgar|Anne Clark|Vibe Nylander|Ioannis Spiliotis|Martijn van de Bunt|Margarita Chibalina|Amy Barrett|Carla Burrows|Andrei Tarasov|Raphael Scharfmann|Anna Gloyn|Patrik Rorsman Oxford Centre for Diabetes, Endocrinology and Metabolism, University of Oxford;|INSERM U1016, Cochin Institute, Universite Paris Descartes
http://dx.doi.org/10.1101/226589 2017-11-29 CC BY-NC-ND The paradoxical sustainability of periodic migration and habitat destruction Zong Xuan Tan|Kang Hao Cheong Yale University;|Singapore Institute of Technology
http://dx.doi.org/10.1101/224600 2017-11-29 CC BY-NC-ND The MALDI TOF E2/E3 ligase assay as an universal tool for drug discovery in the ubiquitin pathway Virginia De Cesare|Clare Johnson|Victoria Barlow|James Hastie|Axel Knebel|Matthias Trost MRC PPU, University of Dundee;|MRC PPU Reagents and Services, University of Dundee;|ICaMB, Newcastle University
http://dx.doi.org/10.1101/226597 2017-11-29 Genetics CC BY-NC-ND A new sequence logo plot to highlight enrichment and depletion Kushal K Dey|Dongyue Xie|Matthew Stephens University of Chicago
http://dx.doi.org/10.1101/226654 2017-11-29 Evolutionary Biology CC BY Effective polyploidy causes phenotypic delay and influences bacterial evolvability Lei Sun|Helen K. Alexander|Balazs Bogos|Daniel J. Kiviet|Martin Ackermann|Sebastian Bonhoeffer ETH Zurich;|University of Oxford
http://dx.doi.org/10.1101/164905 2017-11-29 CC BY-NC-ND CYRI (FAM49) proteins are local inhibitors of Scar/WAVE induced lamellipodia that bind directly to active Rac1 Loic Fort|Jose Batista|Peter A Thomason|Heather J Spence|Jennifer Greaves|Kirsty J Martin|Kurt I Anderson|Peter Brown|Sergio Lilla|Matthwe P Neilson|Petra Tafelmeyer|Sara Zanivan|Shehab Ismail|Nicholas C.O. Tomkinson|Luke H Chamberlain|Robert H Insall|Laura M Machesky CRUK Beatson Institute;|University of Strathclyde;|Francis Crick Institute;|Hybrigenics, France;|Strathclyde University
http://dx.doi.org/10.1101/226001 2017-11-29 Biophysics CC BY Biomolecular simulations under realistic macroscopic salt conditions Gregory Ross|Arien S. Rustenburg|Patrick B. Grinaway|Josh Fass|John D. Chodera Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/226118 2017-11-29 Biophysics Toward Machine Learning-based Data-driven Functional Protein Studies: Understanding Colour Tuning Rules and Predicting the Absorption Wavelengths of Microbial Rhodopsins Masayuki Karasuyama|Keiichi Inoue|Hideki Kandori|Ichiro Takeuchi Nagoya Institute of Technology, JST PRESTO, National Inst. for Materials Science;|Nagoya Institute of Technology, OptoBioTechnology Research Center, JST PRESTO;|Nagoya Institute of Technology, OptoBioTechnology Research Center;|Nagoya Institute of Technology, RIKEN, National Institute for Materials Science
http://dx.doi.org/10.1101/226605 2017-11-29 Biochemistry CC BY-ND Presence of WH2 like domain in VgrG-1 toxin of Vibrio cholerae reveals the molecular mechanism of actin cross-linking Priyanka Dutta|Jijumon A S|Mohit Mazumder|Drisya Dileep|Samudrala Gourinath|Asish K Mukhopadhyay|Sankar Maiti Indian Institute of Science Education and Research Kolkata;|JNU, New Delhi;|JNU New Delhi;|National Institute of Cholera and Enteric Disease, Kolkata
http://dx.doi.org/10.1101/226639 2017-11-29 Animal Behavior and Cognition RESCUE OF AN AGGRESSIVE FEMALE SEXUAL COURTSHIP IN MICE BY CRISPR/Cas9 SECONDARY MUTATION IN VIVO. Jozsef Zakany|Denis Duboule University of Geneva, Switzerland;|University of Geneva and EPFL, Switzerland
http://dx.doi.org/10.1101/226563 2017-11-29 Evolutionary Biology CC BY Collapse and rescue of cooperation in evolving dynamic networks Erol Akcay University of Pennsylvania
http://dx.doi.org/10.1101/226084 2017-11-29 Developmental Biology CC BY-NC-ND An adaptable chromosome preparation methodology for use in invertebrate research organisms Longhua Guo|Alice Accorsi|Shuonan He|Carlos Guerrero-Hernandez|Shamilene Sivagnanam|Sean McKinney|Matthew Gibson|Alejandro Sanchez Alvarado UCLA;|Stowers Institute for Medical Research
http://dx.doi.org/10.1101/226506 2017-11-29 Differentiation of primate primordial germ cell-like cells following transplantation into the adult gonadal niche Enrique Sosa|Di Chen|Ernesto J Rojas|Jon Hennebold|Karen Peters|Zhuang Wu|Truong N Lam|Jennifer Mitchell|Ramesh Tailor|Marvin Meistrich|Kyle Orwig|Gunapala Shetty|Amander T Clark UCLA;|Oregon National Primate Research Center;|Magee Womens Research Institute, University of Pittsburgh School of Medicine;|MD Anderson Cancer Center;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/227009 2017-11-29 CC BY-NC-ND Soluble amyloid-beta buffering by plaques in Alzheimer disease dementia versus high-pathology controls Thomas Esparza|Mihika Gangolli|Nigel J. Cairns|David L. Brody Washington University School of Medicine
http://dx.doi.org/10.1101/226993 2017-11-29 CRISPR-Cas12a target binding unleashes single-stranded DNase activity Janice S Chen|Enbo Ma|Lucas B Harrington|Xinran Tian|Jennifer A Doudna University of California, Berkeley
http://dx.doi.org/10.1101/226969 2017-11-29 Sniff-invariant intensity perception using olfactory bulb coding of inhalation dynamics Rebecca Jordan|Mihaly Kollo|Andreas T Schaefer Francis Crick Institute
http://dx.doi.org/10.1101/226951 2017-11-29 CC BY-ND Reciprocal Disruptions in Thalamic and Hippocampal Resting-State Functional Connectivity in Youth with 22q11.2 Deletions Charles H Schleifer|Amy Lin|Leila Kushan|Jie Lisa Ji|Genevieve Yang|Carrie E Bearden|Alan Anticevic Yale University;|University of California at Los Angeles
http://dx.doi.org/10.1101/224030 2017-11-29 Inhibition of the Platelet-activating factor receptor for the treatment of Amyotrophic Lateral Sclerosis? Marcelo RS Briones|Amanda M Snyder|Elizabeth B Neely|James R Connor|James R Broach Federal University of Sao Paulo, Brazil;|Pennsylvania State University College of Medicine, Hershey, PA, United States
http://dx.doi.org/10.1101/225680 2017-11-29 CC BY Community-driven data analysis training for biology Berenice Batut|Saskia Hiltemann|Andrea Bagnacani|Dannon Baker|Vivek Bhardwaj|Clemens Blank|Anthony Bretaudeau|Loraine Gueguen|Martin Cech|John Chilton|Dave Clements|Olivia Doppelt-Azeroual|Anika Erxleben|Mallory Freeberg|Simon Gladman|Youri Hoogstrate|Hans-Rudolf Hotz|Torsten Houwaart|Pratik Jagtap|Delphine Lariviere|Gildas Le Corguille|Thomas Manke|Fabien Mareuil|Fidel Ramirez|Devon Ryan|Florian Sigloch|Nicola Soranzo|Joachim Wolff|Pavankumar Videm|Markus Wolfien|Aisanjiang Wubuli|Dilmurat Yusuf|Rolf Backofen|Anton Nekrutenko|Bjorn Gruning Albert-Ludwigs-University, Freiburg Germany;|Erasmus Medical Centre;|University of Rostock;|Johns Hopkins University;|INRA, UMR IGEPP, BIPAA/GenOuest, Campus Beaulieu, Rennes, France;|CNRS, UMPC, FR2424, ABiMS, Station Biologique, Roscoff, France.;|The Pennsylvania State University;|Institut Pasteur et CNRS;|European Bioinformatics Institute;|The University of Melbourne;|Friedrich Miescher Institute for Biomedical Research, Basel, Switzerland;|University of Minnesota Medical School, Minnesota, USA;|The Pennsylvania State University, University Park, PA, USA;|UPMC, CNRS, FR2424, ABiMS, Station Biologique, Roscoff, France;|Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany;|Institut Pasteur et CNRS, Paris, France;|Albert-Ludwigs-University, Freiburg, Germany;|Earlham Institute, Norwich, UK;|Department of Systems Biology and Bioinformatics, University of Rostock, Germany;|Leibniz Institute for Farm Animal Biology (FBN), Dummerstorf, Germany
http://dx.doi.org/10.1101/226886 2017-11-29 CC BY-NC Neutrophil adhesion in brain capillaries contributes to cortical blood flow decreases and impaired memory function in a mouse model of Alzheimer's disease Jean C. Cruz Hernandez|Oliver Bracko|Calvin J. Kersbergen|Victorine Muse|Mohammad Haft-Javaherian|Maxime Berg|Laibaik Park|Lindsay K. Vinarcsik|Iryna Ivasyk|Yiming Kang|Marta Cortes-Canteli|Myriam Peyrounette|Vincent Doyeux|Amy Smith|Joan Zhou|Gabriel Otte|Jeffrey D. Beverly|Elizabeth Davenport|Yohan Davit|Sidney Strickland|Costantino Iadecola|Sylvie Lorthois|Nozomi Nishimura|Chris B. Schaffer Nancy E. and Peter C. Meinig School of Biomedical Engineering, Cornell University;|Institut de Mecanique des Fluides de Toulouse, Univ. de Toulouse, CNRS, France;|Feil Family Brain & Mind Research Institute, Weill Cornell Medicine, New York, NY;|Centro Nacional de Investigaciones Cardiovasculares Carlos III, Madrid, Spain;|Patricia & John Rosenwald Lab. for Neurobiology & Genetics, Rockefeller Univ.
http://dx.doi.org/10.1101/226944 2017-11-29 CC BY-NC Structure of lekking courts of male White-bearded Manakins (Manacus manacus) is linked to their attractiveness Kirill Tokarev|Yntze van der Hoek Dept. of Psychology, Hunter College, City University of New York;|Universidad Regional Amazonica IKIAM, Tena, Ecuador
http://dx.doi.org/10.1101/226548 2017-11-29 ShuTu: Open-Source Software for Efficient and Accurate Reconstruction of Dendritic Morphology Dezhe Z. Jin|Ting Zhao|David Hunt|Rachel Pearcy|Ching-Lung Hsu|Nelson Spruston Pennsylvania State University;|Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/226795 2017-11-29 Enumerating all possible biosynthetic pathways from metabolic networks Aarthi Ravikrishnan|Meghana Nasre|Karthik Raman Indian Institute of Technology Madras
http://dx.doi.org/10.1101/225128 2017-11-29 Penetrance of polygenic obesity susceptibility loci across the body mass index distribution: an update on scaling effects. Arkan Abadi|Akram Alyass|Sebastien Robiou du Pont|Ben Bolker|Pardeep Singh|Viswanathan Mohan|Rafael Diaz|James C Engert|Hertzel C Gerstein|Sonia S Anand|David Meyre McMaster University;|Madras Diabetes Research Foundation;|ECLA-Academic Research Organization;|McGill University
http://dx.doi.org/10.1101/226928 2017-11-29 CC BY-NC-ND Foliar pathogens of California grasses infect multiple hosts: implications for grassland diversity Erin R Spear|Erin A Mordecai Stanford University
http://dx.doi.org/10.1101/226894 2017-11-29 Transcriptome-wide analysis of the functional intronome using spliceosome profiling Weijun Chen|Jill Moore|Hakan Ozadam|Hennady P Shulha|Nicholas Rhind|Zhiping Weng|Melissa J. Moore RNA Therapeutics Institute, University of Massachusetts Medical School;|Bioinformatics and Integrative Biology, University of Massachusetts Medical School;|Program in Systems Biology, University of Massachusetts Medical School;|Dept. of Biochem. & Molecular Pharmacol., Univ. of Massachusetts Medical School;|UMASS Medical School
http://dx.doi.org/10.1101/226837 2017-11-29 Conformational control of translation termination on the 70S ribosome Egor Svidritskiy|Andrei A. Korostelev UMass Medical School
http://dx.doi.org/10.1101/226860 2017-11-29 CC BY-NC-ND Niche separation increases with genetic distance among bloom-forming cyanobacteria Nicolas Tromas|Zofia E Taranu|Bryan D Martin|Amy Willis|Nathalie Fortin|Charles W Greer|B. Jesse Shapiro University of Montreal;|University of Ottawa;|University of Washington;|National Research Council of Canada
http://dx.doi.org/10.1101/225441 2017-11-29 CC BY-NC-ND Assessing the Gene Regulatory Landscape in 1,188 Human Tumors Claudia Calabrese|Kjong-Van Lehmann|Lara Urban|Fenglin Liu|Serap Erkek|Nuno Fonseca|Andre Kahles|Leena Helena Kilpinen-Barrett|Julia Markowski|Sebastian Waszak|Jan Korbel|Zemin Zhang|Alvis Brazma|Gunnar Raetsch|Roland Schwarz|Oliver Stegle EMBL-EBI;|ETH Zuerich;|Beijing Advanced Innovation Center for Genomics and College of Life Sciences;|EMBL;|University College London;|MDC-BIMSB;|-;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/226803 2017-11-29 CC BY-NC-ND Multiple inputs ensure yeast cell size homeostasis during cell cycle progression Cecilia Garmendia|Olivier Tassy|Audrey Matifas|Nacho Molina|Gilles Charvin IGBMC
http://dx.doi.org/10.1101/226829 2017-11-29 CC BY-NC-ND A quantitative PCR based environmental DNA assay for detecting Atlantic salmon (Salmo salar L.) Siobhan Atkinson|Jeannette E.L. Carlsson|Bernard Ball|Damian Egan|Mary Kelly-Quinn|Ken Whelan|Jens Carlsson University College Dublin
http://dx.doi.org/10.1101/226266 2017-11-29 Genetics CC BY-NC-ND Epigenetic influences on aging: a longitudinal genome-wide methylation study in old Swedish twins Yunzhang Wang|Robert Karlsson|Erik Lampa|Qian Zhang|Asa K. Hedman|Malin Almgren|Catarina Almqvist|Allan F. McRae|Riccardo Marioni|Erik Ingelsson|Peter M. Visscher|Ian J. Deary|Lars Lind|Tiffany Morris|Stephan Beck|Nancy L. Pedersen|Sara Hagg Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden;|Department of Medical Sciences, Cardiovascular Epidemiology, Uppsala University, Uppsala, Sweden;|Institute for Molecular Bioscience, The University of Queensland, Brisbane, Australia;|Cardiovascular Medicine Unit, Department of Medicine Solna, Karolinska Institute, Stockholm;|Department of Clinical Neuroscience, Centrum for Molecular Medicine, Karolinska Institutet;|Centre for Genomic and Experimental Medicine, University of Edinburgh, United Kingdom;|Stanford University;|Cntr for Cognitive Ageing and Cognitive Epidemiology, Dept of Psychology, University of Edinburgh;|Department of Medical Sciences, Cardiovascular Epidemiology, Uppsala University, Sweden;|Cancer Institute, University College London, London, United Kingdom
http://dx.doi.org/10.1101/226712 2017-11-29 Biophysics Single-Molecule Peptide Fingerprinting Jetty van Ginkel|Mike Filius|Malwina Szczepaniak|Pawel Tulinksi|Anne S. Meyer|Chirlmin Joo Technical University of Delft;|Technical Unversity of Delft
http://dx.doi.org/10.1101/226530 2017-11-29 Neuroscience CC BY-NC-ND Learning a neural response metric for retinal prosthesis Nishal P Shah|Sasidhar Madugula|E.J. Chichilnisky|Yoram Singer|Jonathon Shlens Stanford University, Google Brain;|Stanford University;|Princeton University, Google Brain;|Google Brain
http://dx.doi.org/10.1101/226514 2017-11-29 Neuroscience Identification and Targeting of Cortical Ensembles Luis Carrillo-Reid|Shuting Han|Ekaterina Taralova|Tony Jebara|Rafael Yuste Columbia University
http://dx.doi.org/10.1101/226738 2017-11-29 Microbiology Increased usage of antiseptics is associated with reduced susceptibility in clinical isolates of S. aureus Katherine Hardy|Katie Sunnucks|Hannah Gil|Sahida Shabir|Eleftheria Trampari|Peter Hawkey|Mark A Webber Public Health England;|University of Birmingham;|Heart of England NHS Foundation Trust;|Quadram Institute
http://dx.doi.org/10.1101/226316 2017-11-29 Neuroscience Loss of Wt1 in the murine spinal cord alters interneuron composition and locomotion Danny Schnerwitzki|Sharn Perry|Anna Ivanova|Fabio Viegas Caixeta|Paul Cramer|Sven Guenther|Kathrin Weber|Atieh Tafreshiha|Lore Becker|Ingrid L. Vargas Panesso|Thomas Klopstock|Martin Hrabe de Angelis|Manuela Schmidt|Klas Kullander|Christoph Englert Leibniz Institute on Aging, Fritz Lipmann Institute (FLI);|Department of Neuroscience, Uppsala University;|German Mouse Clinic, Institute of Experimental Genetics, Helmholtz Center Munich;|Dept. of Neurology, Friedrich-Baur-Institut, Ludwig Maximilian University Munich;|Inst. of Systematic Zoology & Evolutionary Biology with Phyletic Museum, Univ. Jena;|Department of Molecular Genetics
http://dx.doi.org/10.1101/226522 2017-11-29 Neuroscience CC BY-NC-ND Rapid, noninvasive, and unsupervised detection of sleep/wake using piezoelectric monitoring for pharmacological studies in narcoleptic mice Sarah Wurts Black|Jessica D. Sun|Alex Laihsu|Nikki Kimura|Pamela Santiago|Kevin D. Donohue|Bruce F. O'Hara|Ross Bersot|Paul S. Humphries Reset Therapeutics;|Signal Solutions, LLC and University of Kentucky
http://dx.doi.org/10.1101/224790 2017-11-29 Evolutionary Biology Time calibrated tree of Dioscorea (Dioscoreaceae) indicated four origins of yams in the Neotropics since Eocene Ricardo S Couto|Aline Martins|Monica Bolson|Rosana C Lopes|Eric C Smidt|Joao M. A. Braga Universidade Iguacu;|UFPR;|Universidade Federal do Parana;|Universidade Federal do Rio de Janeiro;|Jardim Botanico do Rio de Janeiro
http://dx.doi.org/10.1101/226308 2017-11-29 Pathology UV-Induced Keratin 1 Proteolysis Mediates UV-Induced Skin Damage Mingchao Zhang|Dhruba Tara Maharjan|Hao He|Yujia Li|Wei Yan|Weixin Yan|Yujie Zhu|Weihai Ying Med-X Research Inst. and School of Biomed. Engineering, Shanghai Jiao Tong Univ.;|Institute of Systems Biomedicine, Shanghai Jiao Tong University;|School of Mechanical Engineering, Shanghai Jiao Tong University;|Shanghai Ninth People Hospital, School of Medicine, Shanghai Jiao Tong University
http://dx.doi.org/10.1101/226571 2017-11-29 Neuroscience Altered sensitivity to motion of area MT neurons following long-term V1 lesions Maureen A Hagan|Tristan A Chaplin|Krystel R Huxlin|Marcello G P Rosa|Leo L Lui Monash University;|University of Rochester
http://dx.doi.org/10.1101/226456 2017-11-29 Systems Biology Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes Amitabh Sharma|Arda Halu|Julius L. Decano|Jorg Menche|Yang-Yu Liu|Rashmi B. Prasad|Joao Fadista|Marc Santolini|Megha Padi|Scott T. Weiss|Marc Vidal|Edwin K. Silverman|Masanori Aikawa|Albert-Laszlo Barabasi|Leif Groop|Joseph Loscalzo Brigham and Women's Hospital;|Austrian Academy of Sciences;|Lund University;|Northeastern University;|Dana Farber Cancer Institute
http://dx.doi.org/10.1101/226670 2017-11-29 Genetics CC BY The asexual genome of Drosophila Stephan Schiffels|Ville Mustonen|Michael Lassig Max-Planck-Institut for the Science of Human History, Jena, Germany;|Department of Biosciences, University of Helsinki, Helsinki, Finland;|Universität zu Köln, Köln, Germany
http://dx.doi.org/10.1101/226472 2017-11-29 Microbiology CC BY-NC-ND The Vibrio cholerae Type VI Secretion System Can Modulate Host Intestinal Mechanics to Displace Commensal Gut Bacteria Savannah L Logan|Jacob Thomas|Jinyuan Yan|Ryan P Baker|Drew S Shields|Joao B Xavier|Brian K Hammer|Raghuveer Parthasarathy The University of Oregon;|Georgia Institute of Technology;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/226050 2017-11-29 Neuroscience Identifying the in vivo cellular correlates of antipsychotic drugs Radhika Joshi|MITRADAS PANICKER UMass medical school;|National Center for Biological Sciences
http://dx.doi.org/10.1101/226662 2017-11-30 CC BY-NC Genome-based transmission modeling separates imported tuberculosis from recent transmission within an immigrant population Diepreye Ayabina|Janne O Ronning|Kristian Alfsnes|Nadia Debech|Ola B Brynildsrud|Trude Arnesen|Gunnstein Norheim|Anne-Torunn Mengshoel|Rikard Rykkvin|Ulf R Dahle|Caroline Colijn|Vegard Eldholm Imperial College London;|Norwegian Institute of Public Health
http://dx.doi.org/10.1101/227116 2017-11-30 CC BY Optimal Vaccination of a General Population Network via Genetic Algorithms Lloyd Sanders ETH
http://dx.doi.org/10.1101/227561 2017-11-30 CC BY-NC-ND Defining Depression Cohorts Using the EHR: Multiple Phenotypes Based on ICD-9 Codes and Medication Orders Wendy Marie Ingram|Anna M Baker|Jason P Brown|Fernando S Goes|Peter P Zandi|Sharon Larson Johns Hopkins School of Public Health;|Bucknell Univeristy;|Geisinger Health System;|Johns Hopkins School of Medicine;|Thomas Jefferson University
http://dx.doi.org/10.1101/227553 2017-11-30 CC BY Actin Redundancy in Chlamydomonas is Required for Flagellar Protein Synthesis and Gating Brittany Jack|David M. Mueller|Ann C. Fee|Ashley Tetlow|Prachee Avasthi University of Kansas Medical Center;|University of Missouri-Kansas City
http://dx.doi.org/10.1101/222646 2017-11-30 CC BY-NC-ND Cytomegalovirus infection is a risk factor for TB disease in Infants Julius Muller|Magali Matsumiya|Margaret A Snowden|Bernard Bernard|Iman Satti|Stephanie A Harris|Rachel Tanner|Matthew K O'Shea|Lisa Stockdale|Leanne Marsay|Agnieszka Chomka|Rachel Harrington-Kandt|Zita-Rose Manjaly Thomas|Vivek Naranbhai|Elena Stylianou|Stanley Kimbung Mbandi|Mark Hatherill|Gregory Hussey|Hassan Mahomed|Michele Tameris|J. Bruce McClain|Thomas G Evans|Willem A Hanekom|Thomas J Scriba|Helen McShane|Helen A Fletcher University of Oxford;|Aeras;|London School of Hygiene & Tropical Medicine;|University of Cape Town;|University of Cape town
http://dx.doi.org/10.1101/227389 2017-11-30 High resolution genetic mapping of causal regulatory interactions in the human genome Natsuhiko Kumasaka|Andrew Knights|Daniel Gaffney Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/227173 2017-11-30 CC BY-NC-ND The use of salivary α-amylase as an evolutionary solution to host selection in parasitoids Gladys Bichang'a|Jean-Luc Da Lage|Claire-Marie Mailhan|Frederic Marion-Poll|Claire Capdevielle-Dulac|Michel Zivy|Thierry Balliau|Bruno Le Ru|Laure Kaiser-Arnauld|Gerald Juma|Esther Maina|Paul-andre Calatayud University of Nairobi;|CNRS;|SupAgro;|AgroPariTech;|IRD;|INRA-Moulon;|IRD and icipe
http://dx.doi.org/10.1101/227462 2017-11-30 CC BY An open resource for nonhuman primate imaging Michael Milham|Lei Ai|Bonhwang Koo|Ting Xu|Fabien Balezeau|Mark G Baxter|Paula L Croxson|Christienne G Damatac|Noam Harel|Winrich Freiwald|Timothy D Griffiths|Stefan Everling|Benjamin Jung|Sabine Kastner|David A Leopold|Rogier B Mars|Ravi S Menon|Adam Messinger|John H Morrison|Jennifer Nacef|Jamie Nagy|Michael Ortiz Rios|Christopher I Petkov|Mark Pinsk|Colline Poirier|Reza Rajimehr|Matthew FS Rushworth|Brian E Russ|Michael Schmid|Caspar M Schwiedrzik|Jerome Sallet|Jakob Seidlitz|Leslie Ungerleider|Alexander Thiele|Doris Tsao|Essa Yacoub|Frank Ye|Wilbert Zarco|Daniel S Margulies|Charles E Schroeder Child Mind Institute;|Newcastle University;|Mount Sinai School of Medicine;|Donders Institute for Brain, Cognition and Behavior;|University of Minnesota Medical School;|The Rockefeller University;|The University of Western Ontario;|National Institute of Mental Health;|Princeton University;|University of Oxford;|California National Primate Research Center; University of California, Davis;|Massachusetts Institute of Technology;|National Institute of Mental Health; University of Oxford;|California Institute of Technology;|Max Planck Institute for Human Cognitive and Brain Sciences;|Nathan S. Kline Inst. for Psychiatric Res.; Columbia Coll. of Physicians & Surgeons
http://dx.doi.org/10.1101/227041 2017-11-30 The GCTx format and cmap{Py, R, M} packages: resources for the optimized storage and integrated traversal of dense matrices of data and annotations Oana M Enache|David L Lahr|Ted E Natoli|Lev Litichevskiy|David Wadden|Corey Flynn|Joshua Gould|Jacob K Asiedu|Rajiv Narayan|Aravind Subramanian Broad Institute of MIT and Harvard;|University of Washington;|MediaSilo
http://dx.doi.org/10.1101/226811 2017-11-30 CC BY-NC A genome-wide resource for high-throughput genomic tagging of yeast ORFs Matthias Meurer|Yuanqiang Duan|Ehud Sass|Ilia Kats|Konrad Herbst|Benjamin C Buchmuller|Verena Dederer|Florian Huber|Daniel Kirrmaier|Martin Stefl|Koen Van Laer|Tobias P Dick|Marius K Lemberg|Anton Khmelinskii|Emmanuel D Levy|Michael Knop ZMBH, Heidelberg University;|Department of Structural Biology, Weizmann Institute of Science;|Cell Morphogenesis and Signal Transduction, German Cancer Research Center;|Division of Redox Regulation, German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/227249 2017-11-30 BLINK: A Package for Next Level of Genome Wide Association Studies with Both Individuals and Markers in Millions Meng Huang|Xiaolei Liu|Yao Zhou|Ryan M. Summers|Zhiwu Zhang Washington State University;|Huazhong Agriculture University
http://dx.doi.org/10.1101/227371 2017-11-30 CC BY-NC-ND Promoter boundaries for the luxCDABE and betIBA-proXWV operons in Vibrio harveyi defined by the method RAIL: Rapid Arbitrary PCR Insertion Libraries Christine M Hustmyer|Chelsea A Simpson|Stephen G Olney|Matthew L Bochman|Julia C van Kessel Indiana University
http://dx.doi.org/10.1101/227454 2017-11-30 Constrained Instruments and their Application to Mendelian Randomization with Pleiotropy Lai Jiang|Karim Oualkacha|Vanessa Didelez|Antonio Ciampi|Pedro Rosa|Andrea L. Benedet|Sulantha S. Mathotaarachchi|Brent Richards|Celia M.T. Greenwood Department of Epidemiology, Biostatistics & Occupational Health, McGill University;|Departement de mathematiques, L'Universite du Quebec a Montreal;|Leibniz Institute, University of Bremen;|Translational Neuroimaging Laboratory, Douglas Hospital, McGill University;|Department of Medicine, McGill University
http://dx.doi.org/10.1101/227363 2017-11-30 Physico-chemical properties of co-formulation of insulin with pramlintide Dayana C Silva|Luis Mauricio Lima Universidade Federal do Rio de Janeiro
http://dx.doi.org/10.1101/227488 2017-11-30 CC BY-NC-ND In vivo multiphoton fluorescence imaging with polymer dots Ahmed M Hassan|Xu Wu|Jeremy W Jarrett|Shihan Xu|David R Miller|Jiangbo Yu|Evan P Perillo|Yen-Liang Liu|Daniel T Chiu|Hsin-Chih Yeh|Andrew K Dunn The University of Texas at Austin;|University of Washington
http://dx.doi.org/10.1101/226746 2017-11-30 CC BY A clustering neural network model of insect olfaction Cengiz Pehlevan|Alexander Genkin|Dmitri B. Chklovskii Simons Foundation;|NYU Langone Medical Center;|Center for Computational Biology, Flatiron Institute
http://dx.doi.org/10.1101/227132 2017-11-30 Rice blast resistance gene Pii is controlled by a pair of NBS-LRR genes Pii-1 and Pii-2 Hiroki Takagi|Akira Abe|Aiko Uemura|Kaori Oikawa|Hiroe Utsushi|Hiroki Yaegashi|Hideko Kikuchi|Motoki Shimizu|Yoshiko Abe|Hiroyuki Kanzaki|Hiromasa Saitoh|Ryohei Terauchi|Koki Fujisaki Ishikawa Prefectural University;|Iwate Biotechnology Research Center;|Kyoto University
http://dx.doi.org/10.1101/227082 2017-11-30 Introgression of a block of genome under infinitesimal selection Himani Sachdeva|Nicholas H. Barton IST Austria
http://dx.doi.org/10.1101/227165 2017-11-30 CC BY-NC-ND No evidence for correlations between handgrip strength and sexually dimorphic acoustic properties of voices Chengyang Han|Hongyi Wang|Vanessa Fasolt|Amanda Hahn|Iris J Holzleitner|Lisa DeBruine|David Feinberg|Benedict Jones University of Glasgow;|East China Normal University;|Humboldt State University;|McMaster University
http://dx.doi.org/10.1101/227355 2017-11-30 CC BY-ND A rhamnose-inducible system for precise and temporal control of gene expression in cyanobacteria Ciaran Laurence Kelly|Andrew Hitchcock|Antonio Torres-Mendez|John Heap Imperial College London, London, UK;|University of Sheffield, Sheffield, UK;|Centre for Genomic Regulation (CRG), Barcelona, Spain
http://dx.doi.org/10.1101/226852 2017-11-30 Visual Representation of Experimental Protocols James Scott-Brown|Antonis Papachristodoulou University of Oxford
http://dx.doi.org/10.1101/225904 2017-11-30 Improving the annotation of the Heterorhabditis bacteriophora genome Florence McLean|Duncan Berger|Dominik Laetsch|Hillel Schwartz|Mark Blaxter University of Edinburgh;|California Institute of Technology
http://dx.doi.org/10.1101/226092 2017-11-30 Serotonin 5-HT1A receptor binding and self-transcendence in healthy control subjects - a replication study using Bayesian hypothesis testing Gina Griffioen|Granville James Matheson|Simon Cervenka|Lars Farde|Jacqueline Borg Karolinska Institutet
http://dx.doi.org/10.1101/227330 2017-11-30 CC BY-NC-ND The interplay between facilitation and habitat type drive spatial vegetation patterns in global drylands Miguel Berdugo|Santiago Soliveres|Sonia Kefi|Fernando Tomas Maestre Universidad Rey Juan Carlos;|University of Bern;|Institut des sciences de l'evolution de Montpellier, CNRS
http://dx.doi.org/10.1101/227280 2017-11-30 CC BY-NC-ND Peripatric speciation associated with genome expansion and female-biased sex ratios in the moss genus Ceratodon Marta Nieto-Lugilde|Olaf Werner|Stuart F. McDaniel|Petr Koutecky|Jan Kucera|Samah Mohamed Rizk|Rosa M. Ros Universidad de Murcia;|University of Florida;|University of South Bohemia;|Ain Shams University
http://dx.doi.org/10.1101/227298 2017-11-30 CC BY-NC-ND Hybrid Songbirds are Deficient in Learning and Memory Michael A McQuillan|Timothy C Roth|Alex V Huynh|Amber M Rice Lehigh University;|Franklin & Marshall College
http://dx.doi.org/10.1101/227348 2017-11-30 CC BY-NC-ND Formin3 regulates dendritic architecture via microtubule stabilization and is required for somatosensory nociceptive behavior Ravi Das|Jamin M Letcher|Jenna M Harris|Istvan Foldi|Sumit Nanda|Hansley M Bobo|Jozsef Mihaly|Giorgio A Ascoli|Daniel N Cox Georgia State University;|Biological Research Centre, Hungarian Academy of Sciences, Institute of Genetics;|George Mason University
http://dx.doi.org/10.1101/227397 2017-11-30 CC BY-NC Classifying cells with Scasat - a tool to analyse single-cell ATAC-seq Syed Murtuza Baker|Connor Rogerson|Andrew Hayes|Andrew D. Sharrocks|Magnus Rattray University of Manchester
http://dx.doi.org/10.1101/227413 2017-11-30 Recombination of ecologically and evolutionarily significant loci maintains genetic cohesion in the Pseudomonas syringae species complex Marcus M Dillion|Shalabh Thakur|Renan ND Almeida|David S Guttman University Of Toronto
http://dx.doi.org/10.1101/227439 2017-11-30 CC BY Oxford Nanopore sequencing in a research-based undergraduate course Yi Zeng|Christopher Herbert Martin University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/227322 2017-11-30 CC BY-NC-ND Generalization and search in risky environments Eric Schulz|Charley M. Wu|Quentin J. M. Huys|Andreas Krause|Maarten Speekenbrink Harvard University;|Max Planck Institute for Human Development;|ETZ Zurich;|ETH Zurich;|University College London
http://dx.doi.org/10.1101/227421 2017-11-30 Neuroscience CC BY-ND Counterfactual reasoning underlies the learning of priors in decision making Ariel Zylberberg|Daniel M Wolpert|Michael N Shadlen Department of Neuroscience, Columbia University & Howard Hughes Medical Institute;|Computational and Biological Learning Laboratory, Department of Engineering, Cambridge University
http://dx.doi.org/10.1101/226217 2017-11-30 Neuroscience Differential temporal dynamics during visual imagery and perception Nadine Dijkstra|Pim Mostert|Floris de Lange|Sander Erik Bosch|Marcel van Gerven Radboud University, Donders Institute for Brain, Cognition & Behaviour
http://dx.doi.org/10.1101/227181 2017-11-30 Systems Biology CC BY-NC-ND Biological Self-organisation and Markov blankets Ensor Rafael Palacios|Adeel Razi|Thomas Parr|Michael Kirchhoff|Karl Friston Wellcome Trust Centre for Neuroimaging;|University of Wollongong
http://dx.doi.org/10.1101/227314 2017-11-30 Evolutionary Biology Gene regulatory network rewiring by an adaptively evolving microRNA cluster in Drosophila Yang Lyu|Zhongqi Liufu|Juan Xiao|Yuxin Chen|Chung-I Wu|Tian Tang University of Michigan;|Sun Yat-sen University;|University of Chicago
http://dx.doi.org/10.1101/226936 2017-11-30 Evolutionary Biology CC BY-NC-ND Rapid evolution of gained essential developmental functions of a young gene via interactions with other essential genes Yuh Chwen G Lee|Iuri M Ventura|Gavin R Rice|Don-Yuan Chen|Manyuan Long University of Chicago;|University of California, Davis;|University of California, Berkeley
http://dx.doi.org/10.1101/227207 2017-11-30 Cell Biology CC BY Decrease of Nibrin expression in chronic hypoxia is associated with hypoxia-induced chemoresistance in medulloblastoma cells Sophie Cowman|Yuen Ngan Fan|Barry Pizer|Violaine See University of Liverpool;|University of Manchester;|Alder Hey Children NHS Foundation Trust
http://dx.doi.org/10.1101/227264 2017-11-30 Cancer Biology CC BY An Essential Role for Argonaute 2 in EGFR-KRAS Signaling in Pancreatic Cancer Development Sunita Shankar|Jean Tien|Ronald F Siebenaler|Vijaya L Dommeti|Sylvia Zelenka-Wang|Kristin M Juckette|Alice Xu|Malay Mody|Andrew Goodrum|Grace Tsaloff|Ingrid J Apel|Lisha Wang|Javed Siddiqui|Jiaqi Shi|Chandan Kumar-Sinha|Arul M Chinnaiyan University of Michigan
http://dx.doi.org/10.1101/227140 2017-11-30 Neuroscience Altering brain dynamics with transcranial random noise stimulation Onno van der Groen|Nicole Wenderoth|Jason Mattingley ETH Zurich;|University of Queensland
http://dx.doi.org/10.1101/227033 2017-11-30 Genetics CC BY-NC Gene Expression Distribution Deconvolution in Single Cell RNA Sequencing Jingshu Wang|Mo Huang|Eduarodo Torre|Hannah Dueck|Sydney Shaffer|John Murray|Arjun Raj|Mingyao Li|Nancy R Zhang University of Pennsylvania
http://dx.doi.org/10.1101/227090 2017-11-30 Biophysics Statistical methods for large ensemble of super-resolution stochastic single particle trajectories Nathanael Hoze|david holcman ETH;|ENS
http://dx.doi.org/10.1101/227223 2017-11-30 Plant Biology CC BY-NC-ND Characterisation of the pathogenicity of strains of Pseudomonas syringae towards cherry and plum Michelle T Hulin|John W Mansfield|Philip Brain|Xiangming Xu|Robert W Jackson|Richard Harrison NIAB EMR;|Imperial College London;|University of Reading
http://dx.doi.org/10.1101/226845 2017-11-30 Neuroscience CC BY-NC-ND On the Impact of Interhemispheric White Matter: Age, Executive Functioning, and Dedifferentiation in the Frontal Lobes Abigail B Waters|Kayle S Sawyer|David A Gansler Suffolk University;|Boston University
http://dx.doi.org/10.1101/227066 2017-11-30 Bioinformatics CC BY-NC SNPTB: nucleotide variant identification and annotation in Mycobacterium tuberculosis genomes Aditi Gupta Center for Emerging Pathogens, Rutgers New Jersey Medical School, Newark, NJ
http://dx.doi.org/10.1101/226977 2017-11-30 Neuroscience Tau hyperphosphorylation on T217 in cerebrospinal fluid is specifically associated to amyloid-β pathology Nicolas R Barthelemy|Randall J Bateman|Philippe Marin|Francois Becher|Chihiro Sato|Sylvain Lehmann|Audrey Gabelle Washington University School of Medicine, Department of Neurology;|Institut de Genomique Fonctionnelle, CNRS, INSERM, Universite de Montpellier;|CEA, iBiTec-S, Service de Pharmacologie et d Immunoanalyse, LEMM;|Laboratoire de Biochimie Proteomique Clinique, CHU de Montpellier;|Memory Resources & Res. Ctr. of Montpellier, Dept. of Neurology, CHU Montpellier
http://dx.doi.org/10.1101/225136 2017-11-30 Cancer Biology Aberrant splicing in B-cell acute lymphoblastic leukemia Kathryn L. Black|Ammar S. Naqvi|Katharina E. Hayer|Scarlett Yang|Elisabeth Gillespie|Asen Bagashev|Vinodh Pillai|Sarah Tasian|Matthew R. Gazzara|Martin Carroll|Deanne Taylor|Kristen W. Lynch|Yoseph Barash|Andrei Thomas-Tikhonenko Children's Hospital of Philadelphia;|University of Pennsylvania
http://dx.doi.org/10.1101/227157 2017-11-30 Genetics CC BY-NC-ND Assessment of the performance of different hidden Markov models for imputation in animal breeding Andrew Whalen|Gregor Gorjanc|Roger Ros-Freixedes|John M Hickey The Roslin Institute, University of Edinburgh
http://dx.doi.org/10.1101/226985 2017-11-30 Genetics CC BY-ND Common variant burden contributes significantly to the familial aggregation of migraine in 1,589 families Padhraig Gormley|Mitja I Kurki|Marjo E Hiekkala|Kumar Veerapen|Paavo Happola|Adele Mitchell|Dennis Lal|Priit Palta|Ida Surakka|Mari A Kaunisto|Eija Hamalainen|Salli Vepsalainen|Hannele Havanka|Hanna Harno|Matti Ilmavirta|Markku Nissila|Erkki Sako|Marja-Liisa Sumelahti|Jarmo Liukkonen|Matti Sillanpaa|Liisa Metsahonkala|Pekka Jousilahti|Verneri Anttila|Veikko Salomaa|Ville Artto|Markus Farkkila|Heiko Runz|Mark J Daly|Benjamin M Neale|Samuli Ripatti|Mikko Kallela|Maija Wessman|Aarno Palotie Broad Institute of MIT and Harvard;|Institute of Genetics, Folkhalsan Research Center, Helsinki, Finland;|Institute for Molecular Medicine Finland FIMM, HiLIFE, University of Helsinki, Finland;|Merck Research Laboratories, Merck and Co., Kenilworth, NJ, USA;|Department of Neurology, Helsinki University Central Hospital, Helsinki, Finland;|Regional State Administrative Agency for Northern Finland, Oulu, Finland;|Neurology, Clinical Neurosciences, Univ. of Helsinki and Helsinki University Hospital;|Department of Neurology, Central Hospital Central Finland;|Terveystalo Clinical Research, Turku, Finland;|Turku Headache Center, Turku, Finland;|Terveystalo, Tampere, Finland;|Laakarikeskus Ikioma, Mikkeli, Finland;|University of Turku, and Turku University Hospital, Turku, Finland;|Epilepsy Unit for Children and Adolescents, Helsinki University Hospital, Finland;|National Institute for Health and Welfare, Helsinki, Finland;|-
http://dx.doi.org/10.1101/227058 2017-11-30 Systems Biology CC BY-NC-ND Catalytic potential and disturbance rejection of glycolytic kinases in the human red blood cell James T Yurkovich|Miguel A Alcantar|Zachary B Haiman|Bernhard O Palsson University of California, San Diego
http://dx.doi.org/10.1101/227751 2017-12-01 CC BY-NC-ND An experimental and computational framework to build a dynamic protein atlas of human cell division Yin Cai|M. Julius Hossain|Jean-Karim Heriche|Antonio Z. Politi|Nike Walther|Birgit Koch|Malte Wachsmuth|Bianca Nijmeijer|Moritz Kueblbeck|Marina Martinic|Rene Ladurner|Jan-Michael Peters|Jan Ellenberg Roche Diagnostics;|European Molecular Biology Laboratory (EMBL);|Max Planck Institute for Medical Research;|Luxendo GmbH;|Research Institute of Molecular Pathology (IMP);|Stanford School of Medicine
http://dx.doi.org/10.1101/227546 2017-12-01 Diverse functions of closely homologous actin isoforms are defined by their nucleotide, rather than their amino acid sequence. Pavan Vedula|Satoshi Kurosaka|Nicolae Leu|Yuri Wolf|Svetlana Shabalina|Junling Wang|Stephanie Sterling|Dawei Dong|Anna Kashina University of Pennsylvania;|National Institutes of Health
http://dx.doi.org/10.1101/227512 2017-12-01 Single Molecule Pull-down for Quantification of Membrane Receptor Multisite Phosphorylation Emanuel Salazar-Cavazos|Keith A. Lidke|Diane S. Lidke Dept. of Pathology and Comprehensive Cancer Center, University of New Mexico;|Department of Physics & Astronomy, University of New Mexico
http://dx.doi.org/10.1101/215871 2017-12-01 Predicting CTCF-mediated chromatin interactions by integrating genomic and epigenomic features Yan Kai|Jaclyn Andricovich|Zhouhao Zeng|Jun Zhu|Alexandros Tzatsos|Weiqun Peng The George Washington University;|National Institutes of Health
http://dx.doi.org/10.1101/222224 2017-12-01 CC BY-NC-ND Growth inhibition by amino acids in Saccharomyces cerevisiae Stephanie J Ruiz|Joury S van 't Klooster|Frans Bianchi|Bert Poolman University of Groningen
http://dx.doi.org/10.1101/227587 2017-12-01 Intraflagellar transport proteins undergo nonaxonemal staged hindrance between the recruiting distal appendages and the cilium Tony Yang|Minh Nguyet Thi Tran|Weng Man Chong|Chia-En Huang|Jung-Chi Liao Academia Sinica
http://dx.doi.org/10.1101/227611 2017-12-01 Biophysics CC BY-NC-ND Prospects for recurrent neural network models to learn RNA biophysics from high-throughput data Michelle J Wu|Johan OL Andreasson|Wipapat Kladwang|William J Greenleaf|Rhiju Das Stanford University;|-
http://dx.doi.org/10.1101/227538 2017-12-01 Microbiology CC BY-NC-ND Collateral sensitivity to β-lactam drugs in drug-resistant tuberculosis is driven by the transcriptional wiring of BlaI operon genes Anna S Trigos|Benjamin Goudey|Justin Bedo|Thomas Conway|Noel G Faux|Kelly Wyres IBM Research - Australia, Peter MacCallum Cancer Centre;|IBM Research - Australia;|The Walter and Eliza Hall Institute of Medical Research;|Peter MacCallum Cancer Centre;|University of Melbourne
http://dx.doi.org/10.1101/227074 2017-12-01 Neuroscience CC BY Subjective inflation of color saturation in the periphery under temporal overload Sivananda Rajananda|Megan A.K. Peters|Hakwan Lau|Brian Odegaard University of California-Los Angeles; University of California-Riverside;|University of California-Riverside;|Univ. of California-Los Angeles, Brain Research Institute; University of Hong Kong;|University of California-Los Angeles
http://dx.doi.org/10.1101/227652 2017-12-01 Genomics CC BY-NC-ND Gene expression effects of lithium and valproic acid in a serotonergic cell line Diana Balasubramanian|John F Pearson|Martin A Kennedy University of Otago, Christchurch;|University of Otago
http://dx.doi.org/10.1101/227603 2017-12-01 Microbiology Annihilation of Methicillin-resistant Staphylococcus aureus via Photobleaching of Staphyloxanthin Pu-Ting Dong|Haroon Mohammad|Xiaoyu Wang|Jie Hui|Junjie Li|Lijia Liang|Mohamed N. Seleem|Ji-Xin Cheng Department of Chemistry, Boston University, Boston, MA 02215, USA;|Dept. of Comparative Pathobiology, College of Veterinary Medicine, Purdue Univ.;|Molecular Biology, Cell Biology & Biochemistry, Boston University;|Department of Physics and Astronomy, Purdue University;|Department of Electrical and Computer Engineering, Boston University;|State Key Lab. of Supramolec. Structure & Materials, Inst. of Theoretical Chemistry;|Photonics Center, Boson University, Boston, MA 02215, USA
http://dx.doi.org/10.1101/227637 2017-12-01 Synthetic Biology CC BY-NC-ND Engineering a Functional small RNA Negative Autoregulation Network with Model-guided Design Chelsea Hu|Melissa Takahashi|Yan Zhang|Julius Lucks Cornell University;|Massachusetts Institute of Technology;|Georgia Institute of Technology;|Northwestern University
http://dx.doi.org/10.1101/227660 2017-12-01 Evolutionary Biology CC BY-NC-ND Model-based detection and analysis of introgressed Neanderthal ancestry in modern humans Matthias Steinrucken|Jeffrey P. Spence|John A. Kamm|Emilia Wieczorek|Yun S. Song University of Chicago;|University of California, Berkeley
http://dx.doi.org/10.1101/222307 2017-12-02 Genetics CC BY-NC-ND Genetic architecture drives seasonal onset of hibernation in the 13-lined ground squirrel Katharine R Grabek|Thomas F Cooke|L. Elaine Epperson|Kaitlyn K Spees|Gleyce F Cabral|Shirley C Sutton|Dana K Merriman|Sandy L Martin|Carlos D Bustamante Stanford University School of Medicine;|Stanford University;|National Jewish Health;|University of Wisconsin Oshkosh;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/227835 2017-12-02 Biochemistry Natively Oxidized Amino Acid Residues in the Spinach Cytochrome b6f Complex Terry M. Bricker|Ryan M. Taylor|Larry Sallans|Laurie K. Frankel Department of Biological Sciences, Biochemistry and Molecular Biology Section, Louisiana State Univ.;|The Rieveschl Laboratories for Mass Spectrometry, Department of Chemistry, University of Cincinnati
http://dx.doi.org/10.1101/227876 2017-12-02 Developmental Biology Decoding the regulatory logic of the Drosophila male stem cell system Fani Papagiannouli|Srividya Tamirisa|Eugen Rempel|Olga Ermakova|Nils Trost|Jun Zhou|Juliane Mundorf|Samantha Brunel|Naima Ruhland|Michael Boutros|Jan U Lohmann|Ingrid Lohmann Dept. of Developmental Biology, Beckman Center, Stanford Univ. School of Medicine;|Centre for Organismal Studies (COS) Heidelberg, 69120, Heidelberg, Germany;|German Cancer Res. Ctr., Div. Signaling & Functional Genomics; Univ. of Heidelberg;|Institute for Genetics; CECAD, University of Cologne;|Institut Jacques Monod, University Paris-Diderot, 75205 Paris, France
http://dx.doi.org/10.1101/227645 2017-12-02 Bioinformatics CytoGAN: Generative Modeling of Cell Images Peter Goldsborough|Nick Pawlowski|Juan C Caicedo|Shantanu Singh|Anne Carpenter Broad Institute;|Imperial College London
http://dx.doi.org/10.1101/227918 2017-12-02 Cell Biology CC BY-NC-ND C-type lectin-like receptor 2 (CLEC-2)-dependent DC migration is controlled by tetraspanin CD37 Charlotte M de Winde|Alexandra L Matthews|Sjoerd van Deventer|Alie van der Schaaf|Neil D Tomlinson|Jing Yang|Erik Jansen|Johannes A Eble|Bernhard Nieswandt|Helen M McGettrick|Carl G Figdor|Sophie E Acton|Michael G Tomlinson|Annemiek B van Spriel Radboudumc, Radboud Inst. for Molec. Life Sci.; MRC-LMCB, Univ. Coll. London;|School of Biosciences, University of Birmingham;|Radboudumc, Radboud Institute for Molecular Life Sciences;|Institute of Cardiovascular Sciences, University of Birmingham;|Institute for Physiological Chemistry and Pathobiochemistry;|University Clinic of Wurzburg & Rudolf Virchow Center;|Institute of Inflammation and Ageing, University of Birmingham;|MRC-LMCB, University College London;|School of Biosciences, Univ. of Birmingham; Ctr. of Membrane Proteins & Receptors
http://dx.doi.org/10.1101/227702 2017-12-02 Evolutionary Biology Analysis of archaic human haplotypes suggest 5-hmC to act as epigenetic guide for meiotic point recombination Bernett Lee|Samantha Cyrill|Wendy Lee|Rosella Melchiotti|Anand Andiappan|Michael Poidinger|Olaf Rotzschke Singapore Immunology Network;|Guy's and St Thomas' NHS Foundation Trust and King's College London
http://dx.doi.org/10.1101/227892 2017-12-02 Systems Biology CC BY-ND Multi-scale model of the proteomic and metabolic consequences of reactive oxygen species Laurence Yang|Nathan Mih|James T. Yurkovich|Joon Ho Park|Sangwoo Seo|Donghyuk Kim|Jonathan M. Monk|Colton J. Lloyd|Justin Tan|Ye Gao|Jared T. Broddrick|Ke Chen|David Heckmann|Adam M. Feist|Bernhard O. Palsson University of California, San Diego;|Seoul University;|Kyung Hee University
http://dx.doi.org/10.1101/227926 2017-12-02 Cancer Biology CC BY-NC-ND Exploring Drivers of Gene Expression in The Cancer Genome Atlas Andrea Rau|Michael J Flister|Hallgeir Rui|Paul Livermore Auer INRA, University of Wisconsin-Milwaukee;|Medical College of Wisconsin;|University of Wisconsin-Milwaukee
http://dx.doi.org/10.1101/227025 2017-12-02 CC BY-NC Real-time halo correction in phase contrast imaging Mikhail Eugene Kandel|Michael Fanous|Catherine Best-Popescu|Gabriel Popescu University of Illinois;|Department of Bioengineering, The University of Illinois at Urbana-Champaign;|UIUC
http://dx.doi.org/10.1101/227108 2017-12-02 A 16S rRNA gene sequencing and analysis protocol for the Illumina MiniSeq platform Monica Pichler|Omer K. Coskun|Ana Sofia Ortega|Nicola Conci|Gert Worheide|Sergio Vargas|William D. Orsi Deptartment of Earth and Environmental Sciences, LMU Munich
http://dx.doi.org/10.1101/228221 2017-12-02 CC BY-NC-ND HOME: A histogram based machine learning approach for effective identification of differentially methylated regions Akanksha Srivastava|Yuliya V Karpievitch|Steven R Eichten|Justin O Borevitz|Ryan Lister University of Western Australia;|The Australian National University
http://dx.doi.org/10.1101/192344 2017-12-02 CC BY-NC-ND Comprehensive, Integrated, and Phased Whole-Genome Analysis of the Primary ENCODE Cell Line K562 Bo Zhou|Steve S Ho|Xiaowei Zhu|Xianglong Zhang|Noah Spies|Seunggyu Byeon|Joseph G Arthur|Reenal Pattni|Noa Ben-Efraim|Michael S Haney|Rajini R Haraksingh|Giltae Song|Dimitri Perrin|Wing H Wong|Alexej Abyzov|Alexander E Urban Stanford University;|Pusan National University;|The University of the West Indies;|Queensland University of Technology;|Mayo Clinic
http://dx.doi.org/10.1101/228882 2017-12-04 Genomics CC BY-ND Complete mitochondrial genome of Glomeridesmus spelaeus (Diplopoda), a troglobitic species from Carajas iron-ore caves (Para, Brazil) Gisele Lopes Nunes|Renato Renison Moreira Oliveira|Eder Soares Pires|Santelmo Vasconcelos|Thadeu Pietrobon|Xavier Prous|Guilherme Oliveira Instituto Tecnologico Vale;|Vale
http://dx.doi.org/10.1101/228536 2017-12-04 Molecular Biology Transcription activation domains of the yeast factors Met4 and Ino2: tandem activation domains with properties similar to the yeast Gcn4 activator Derek Pacheco|linda warfield|michelle brajcich|hannah robbins|jie luo|jeff ranish|Steven Hahn fred hutchinson cancer research center;|university of washington;|institute for systems biology
http://dx.doi.org/10.1101/228841 2017-12-04 Evolutionary Biology CC BY-NC-ND Dynamic copy number evolution of X- and Y-linked ampliconic genes in human populations Elise A Lucotte|Laurits Skov|Moises Coll Macia|Kasper Munch|Mikkel Heide Schierup Aarhus University;|Aarhus Unversity
http://dx.doi.org/10.1101/228601 2017-12-04 Synthetic Biology CC BY-NC-ND Enhancing Cas9 Activity in Heterochromatin Rene Daer|Cassandra Barrett|Karmella Haynes Arizona State University
http://dx.doi.org/10.1101/228718 2017-12-04 Neuroscience CC BY A zinc-finger fusion protein refines Gal4-defined neural circuits Shamprasad Varija Raghu|Farhan Mohammad|Jia Yi Chua|Claudia Barros|Joanne Lam|Mavis Loberas|Sadhna Sahani|Adam Claridge-Chang Duke-NUS Medical School;|University of Plymouth;|Institute for Molecular and Cell Biology
http://dx.doi.org/10.1101/228767 2017-12-04 Systems Biology CC BY-ND Defining the relevant combinatorial space of the PKC/CARD-CC signal transduction nodes Jens Staal|Yasmine Driege|Mira Haegman|Styliani Iliaki|Rudi Beyaert Ghent University
http://dx.doi.org/10.1101/228379 2017-12-04 Genetics CC BY KDM2B is a histone H3K79 demethylase and induces transcriptional repression via SIRT1-mediated chromatin silencing Sang Beom Seo|Joo-Young Kang|Ji-Young Kim|Kee-Beom Kim|Jin Woo Park|Hanna Cho|Ja Young Hahm|Yun-Cheol Chae|Daehwan Kim|Hyun Kook|Sangmyung Rhee|Nam-Chul Ha Chung-Ang University;|Chonnam National University;|Seoul National University
http://dx.doi.org/10.1101/228775 2017-12-04 Genetics CC BY-ND Targeted RNA knockdown by crRNA guided Csm in zebrafish Thomas Fricke|Gintautas Tamulaitis|Dalia Smalakyte|Michal Pastor|Agnieszka Kolano|Virginijus Siksnys|Matthias Bochtler International Institute of Molecular and Cell Biology;|Institute of Biotechnology, Vilnius University;|Polish Academy of Sciences, Institute of Biochemistry and Biophysics;|International Institute of Molecular and Cell Biology & Polish Academy of Sciences, Institute of Bio
http://dx.doi.org/10.1101/228064 2017-12-04 Physiology CC BY The promiscuous estrogen receptor: evolution of physiological estrogens and response to phytochemicals and endocrine disruptors Michael E. Baker|Richard Lathe University of California, San Deigo;|University of Edinburgh
http://dx.doi.org/10.1101/228486 2017-12-03 Neuroscience Systematic genetic interaction studies identify histone demethylase Utx as potential target for ameliorating Huntington's disease Wan Song|Nora Zsindely|Aniko Farago|J. Lawrence Marsh|Laszlo Bodai University of California Irvine;|University of Szeged;|University of California Irvine, University of Szeged
http://dx.doi.org/10.1101/228353 2017-12-03 Biophysics CC BY-NC Static length changes of cochlear outer hair cells can tune low-frequency hearing Nikola Ciganovic|Rebecca L. Warren|Batu Keceli|Stefan Jacob|Anders Fridberger|Tobias Reichenbach Department of Bioengineering, Imperial College London;|Department of Clinical and Experimental Medicine, Linkoping University;|The Rolf Luft Research Center for Diabetes and Endocrinology, Karolinska Institutet
http://dx.doi.org/10.1101/228437 2017-12-03 Neuroscience CC BY Glucose facilitates Aβ oligomerization and tau phosphorylation in C. elegans model of Alzheimer's disease Waqar Ahmad University of Queensland
http://dx.doi.org/10.1101/228080 2017-12-03 Bioinformatics CC BY Interpretation of biological experiments changes with evolution of Gene Ontology and its annotations Aurelie Tomczak|Jonathan M Mortensen|Rainer Winnenburg|Charles Liu|Dominique T Alessi|Varsha Swamy|Francesco Vallania|Shane Lofgren|Winston A Haynes|Nigam H Shah|Mark A Musen|Purvesh Khatri Stanford University
http://dx.doi.org/10.1101/228163 2017-12-03 Biophysics Dynamical model of the CLC-2 ion channel exhibits a two-step gating mechanism Keri A. McKiernan|Anna K. Koster|Merritt Maduke|Vijay S. Pande Stanford University
http://dx.doi.org/10.1101/228189 2017-12-03 Bioinformatics CC BY-NC-ND Unsupervised correction of gene-independent cell responses to CRISPR-Cas9 targeting Francesco Iorio|Fiona M Behan|Emanuel Goncalves|Charlotte Beaver|Rizwan Ansari|Rachel Pooley|Piers Wilkinson|Sarah Harper|Euan Stronach|Julio Saez-Rodriguez|Kosuke Yusa|Mathew J Garnett European Molecular Biology Laboratory;|Wellcome Trust Sanger Institute;|GlaxoSmithKline;|JRC-COMBINE, RWTH Aachen University
http://dx.doi.org/10.1101/228007 2017-12-03 Neuroscience CC BY-NC-ND Decoding affective states across databases using functional near-infrared spectroscopy Lucas Trambaiolli|Juliana Tossato|Andre Cravo|Claudinei Biazoli|Joao Sato Universidade Federal do ABC
http://dx.doi.org/10.1101/227983 2017-12-03 Microbiology CC BY The physiological regulation of macropinocytosis during Dictyostelium growth and development Thomas Williams|Robert R Kay MRC - Laboratory of Molecular Biology
http://dx.doi.org/10.1101/227801 2017-12-03 Bioinformatics CC BY Does relaxing the infinite sites assumption give better tumor phylogenies? An ILP-based comparative approach Paola Bonizzoni|Simone Ciccolella|Gianluca Della Vedova|Mauricio Soto Univ. Milano-Bicocca
http://dx.doi.org/10.1101/228320 2017-12-03 Plant Biology CC BY-NC-ND Reassessing the evolution of strigolactone synthesis and signalling Catriona Walker|Tom Bennett University of Leeds
http://dx.doi.org/10.1101/228155 2017-12-03 Bioinformatics CC BY-NC-ND Altered transcription factor binding events predict personalized gene expression and confer insight into functional cis-regulatory variants Wenqiang W Shi|Oriol Fornes|Wyeth W Wasserman University of British Columbia
http://dx.doi.org/10.1101/228262 2017-12-03 Biophysics CC BY-NC-ND On-line Optimization of Hamiltonian Replica Exchange Simulations Justin MacCallum|Kari Gaalswyk|Mir Ishruna Muniyat University of Calgary
http://dx.doi.org/10.1101/228254 2017-12-03 Genetics CC BY-NC Systemizing is genetically correlated with autism and is genetically distinct from social autistic traits Varun Warrier|Roberto Toro|Bhismadev Chakrabarti|Anders Borglum|Jakob Grove|David Hinds|Thomas Bourgeron|Simon Baron-Cohen University of Cambridge;|Institut Pasteur;|University of Reading;|-;|Aarhus University;|23andMe
http://dx.doi.org/10.1101/227496 2017-12-03 Cancer Biology CC BY-NC-ND Fibroblast Growth Factor 2 lethally sensitizes cancer cells to stress-targeted therapeutic inhibitors Matheus H. Dias|Cecilia S. Fonseca|Julianna D. Zeidler|Layra L. Albuquerque|Marcelo S. da Silva|Eduardo Cararo-Lopes|Marcelo S. Reis|Vincent Noel|Ian A. Prior|Hugo A. Armelin Instituto Butantan;|University of Liverpool
http://dx.doi.org/10.1101/228213 2017-12-03 Neuroscience CC BY-NC-ND Fast Intensity Adaptation Enhances the Encoding of Sound in Drosophila Jan Clemens|Nofar Ozeri-Engelhard|Mala Murthy Princeton Neuroscience Institute, Princeton University, Princeton, NJ, USA;|Princeton Neuroscience Institute & Department of Molecular Biology, Princeton University
http://dx.doi.org/10.1101/227520 2017-12-03 Bioinformatics CC BY RIFRAF: a frame-resolving consensus algorithm Kemal Eren|Ben Murrell University of California, San Diego
http://dx.doi.org/10.1101/228171 2017-12-03 Bioinformatics In silico and in vitro screening of FDA-approved drugs for potential repurposing against tuberculosis Sridharan Brindha|Jagadish Chandrabose Sundaramurthi|Savariar Vincent|Devadasan Velmurugan|John Joel Gnanadoss Loyola College, Nungambakkam, Chennai 600034, Tamil Nadu, India;|National Institute for Research in Tuberculosis (ICMR), Chetpet, Chennai 600031, Tamil Nadu, India;|CAS in Crystallography and Biophysics, University of Madras, Chennai 600025, Tamil Nadu, India
http://dx.doi.org/10.1101/227868 2017-12-03 Ecology Metabolic traits predict the effects of warming on phytoplankton competition Elvire Bestion|Bernardo Garcia-Carreras|Charlotte-Elisa Schaum|Samraat Pawar|Gabriel Yvon-Durocher University of Exeter;|Imperial College London
http://dx.doi.org/10.1101/227827 2017-12-03 Evolutionary Biology CC BY-NC-ND ProteomeVis: a web app for exploration of protein properties from structure to sequence evolution across organisms' proteomes Amy Gilson|Niamh Durfee|Rostam Razban|Hendrick Strobelt|Kasper Kinkla|Jeong-Mo Choi|Hanspeter Pfister|Eugene Shakhnovich Harvard University
http://dx.doi.org/10.1101/228338 2017-12-03 Cell Biology CC BY Combined aptamer and transcriptome sequencing of single cells Cyrille L Delley|Leqian Liu|Maen F Sarhan|Adam R Abate Bioengineering and Therapeutic Sciences, University of California San Francisco
http://dx.doi.org/10.1101/228130 2017-12-03 Biochemistry A novel method for estimating LDC levels: total cholesterol and non-HDLC can be used to predict the normal LDLC level in apparently healthy population Guo-Ming Zhang|Shumei Bai|Gao-Ming Zhang|Xiao-Bo Ma Shuyang People's Hospital;|Affiliated Hospital of Shandong University of Traditional Chinese Medicine
http://dx.doi.org/10.1101/227843 2017-12-03 Bioinformatics CC BY-NC GrandPrix: Scaling up the Bayesian GPLVM for single-cell data Sumon Ahmed|Magnus Rattray|Alexis Boukouvalas THE UNIVERSITY OF MANCHESTER
http://dx.doi.org/10.1101/227744 2017-12-03 Ecology Ecological, angler and spatial heterogeneity drive social and ecological outcomes in an integrated landscape model of freshwater recreational fisheries Shuichi Matsumura|Ben Beardmore|Wolfgang Haider|Ulf Dieckmann|Robert Arlinghaus Gifu University;|Wisconsin Department of Natural Resources;|School of Resource & Environmental Management, Simon Fraser University;|International Institute for Applied Systems Analysis;|Leibniz-Institute of Freshwater Ecology and Inland Fisheries
http://dx.doi.org/10.1101/224477 2017-12-03 Neuroscience Neuronal glutamate transporters control dopaminergic signaling and compulsive behaviors Stefania Bellini|Kelsey E Fleming|Modhurika De|John P McCauley|Maurice A Petroccione|Lianna Y D'Brant|Artem Tkachenko|SoYoung Kwon|Lindsey A Jones|Annalisa Scimemi SUNY Albany;|Emma Willard
http://dx.doi.org/10.1101/227793 2017-12-03 Neuroscience Subthalamic nucleus neurons differentially encode early and late aspects of speech production Witold J Lipski|Ahmad Alhourani|Tara Pirnia|Peter W Jones|Christina Dastolfo-Hromack|Leah B Helou|Donald J Crammond|Susan Shaiman|MIchael W Dickey|Lori L Holt|Julie A Fiez|Robert S Turner|Robert Mark Richardson University of Pittsburgh;|Carnegie Mellon University
http://dx.doi.org/10.1101/227942 2017-12-03 Evolutionary Biology CC BY-NC-ND Quantifying and visualising divergence between pairs of phylogenetic trees: implications for phylogenetic reconstruction Martin Ross Smith Durham University
http://dx.doi.org/10.1101/227967 2017-12-03 Neuroscience CC BY-NC-ND Overestimating environmental volatility increases switching behavior and is linked to activation of dorsolateral prefrontal cortex in schizophrenia Lorenz Deserno|Rebecca Boehme|Christoph Mathys|Teresa Katthagen|Jakob Kaminski|Klaas Enno Stephan|Andreas Heinz|Florian Schlagenhauf Max-Planck-Institute for Human Cognitive and Brain Sciences, Leipzig;|Center for Social & Affective Neuroscience, Linköping University;|Scuola Internazionale Superiore di Studi Avanzati (SISSA), Trieste, Italy;|Dept of Psychiatry & Psychotherapy, Charité Universitätsmedizin Berlin;|Translational Neuromodeling Unit (TNU), Univ. of Zurich & ETH Zurich, Switzerland
http://dx.doi.org/10.1101/227306 2017-12-03 Neuroscience Interleukin-4 restores neurogenic plasticity of the primary human neural stem cells through suppression of Kynurenic acid production upon Amyloid-β42 toxicity Christos Papadimitriou|Hilal Celikkaya|Mehmet Ilyas I Cosacak|Violeta Mashkaryan|Prabesh Bhattarai|Weilin Lin|Alvin Thomas|Yixin Zhang|Uwe Freudenberg|Carsten Werner|Caghan Kizil German Center for Neurodegenerative Diseases (DZNE) Dresden, Germany;|Center for Regenerative Therapies Dresden (CRTD), TU Dresden;|Center for Regenerative Therapies Dresden (CRTD), TU Dresden, Germany;|B CUBE, Center for Molecular Bioengineering, TU Dresden, Germany;|Leibniz Institute of Polymer Research Dresden, Max Bergmann Center of Biomaterials Dresden;|German Center for Neurodegenerative Diseases (DZNE), Dresden, Helmholtz Association, Germany
http://dx.doi.org/10.1101/228528 2017-12-03 Biophysics CC BY Towards simple kinetic models of functional dynamics for a kinase subfamily Mohammad Muneeb Sultan|Gert Kiss|Vijay Pande Stanford University;|Revolution Medicines
http://dx.doi.org/10.1101/228395 2017-12-03 Systems Biology CC BY-NC-ND Deciphering microbial interactions in synthetic human gut microbiome communities Ophelia S Venturelli|Alex C Carr|Garth Fisher|Ryan H Hsu|Rebecca Lau|Benjamin P Bowen|Trent Northen|Adam P Arkin University of Wisconsin-Madison;|Lawrence Berkeley National Laboratory;|University of California Berkeley
http://dx.doi.org/10.1101/228031 2017-12-03 Genomics CC BY-ND Cancer subtype identification using somatic mutation data Marieke Lydia Kuijjer|Joseph Nathaniel Paulson|Peter Salzman|Wei Ding|John Quackenbush Dana-Farber Cancer Institute;|Genentech;|Bristol-Myers Squibb;|University of Massachusetts Boston
http://dx.doi.org/10.1101/228114 2017-12-03 Genomics Multiplex Confounding Factor Correction for Genomic Association Mapping with Squared Sparse Linear Mixed Model Haohan Wang|Xiang Liu|Yunpeng Xiao|Ming Xu|Eric P Xing Carnegie Mellon University;|Beijing Univ. of Posts & Telecoms;|Chongqing Univ. of Posts & Telecoms;|Tsinghua University
http://dx.doi.org/10.1101/222281 2017-12-03 Neuroscience A prediction model of working memory across health and psychiatric disease using whole-brain functional connectivity Masahiro Yamashita|Yujiro Yoshihara|Ryuichiro Hashimoto|Noriaki Yahata|Naho Ichikawa|Yuki Sakai|Takashi Yamada|Noriko Matsukawa|Go Okada|Saori C Tanaka|Kiyoto Kasai|Nobumasa Kato|Yasumasma Okamoto|Ben Seymour|Hidehiko Takahashi|Mitsuo Kawato|Hiroshi Imamizu Advanced Telecommunications Research Institute International;|Kyoto University Graduate School of Medicine;|Medical Institute of Developmental Disabilities Research, Showa University;|Molecular Imaging Center, National Institute of Radiological Sciences;|Hiroshima University Graduate School of Biomedical & Health Sciences;|Graduate School of Medicine, The University of Tokyo;|Department of Engineering, University of Cambridge;|Department of Psychology, The University of Tokyo
http://dx.doi.org/10.1101/227504 2017-12-03 Bioinformatics CC BY MetaRiPPquest: A Peptidogenomics Approach for the Discovery of Ribosomally Synthesized and Post-translationally Modified Peptides Hosein Mohimani|Alexey Gurevich|Kelsey L Alexander|C. Benjamin Naman|Tiago Leao|Evgenia Glukhov|Nathan A Moss|Tal Luzzatto Knaan|Fernando Vargas|Louis-Felix Nothias|Nitin K Singh|John G Sanders|Rodolfo A S Benitez|Luke R Thompson|Md Nafiz Hamid|James T Morton|Alla Mikheenko|Alexander Shlemov|Anton Korobeynikov|Iddo Friedberg|Rob Knight|Kasthuri Venkateswaran|William Gerwick|Lena Gerwick|Peter C Dorrestein|Pavel A Pevzner Carnegie Mellon University;|St. Petersburg State University;|University of California San Diego;|California Institute of Technology;|Iowa State University;|Iowa State Universtiy
http://dx.doi.org/10.1101/228106 2017-12-03 Genomics Variable Selection in Heterogeneous Datasets: A Truncated-rank Sparse Linear Mixed Model with Applications to Genome-wide Association Studies Haohan Wang|Bryon Aragam|Eric P. Xing Carnegie Mellon University
http://dx.doi.org/10.1101/228296 2017-12-03 Cell Biology Nestin in immature embryonic neurons regulates axon growth cone morphology and Sema3a sensitivity Christopher J Bott|Colin G Johnson|Chan Choo Yap|Noelle D Dwyer|Karen Newell-Litwa|Bettina Winckler University of Virginia;|East Carolina University
http://dx.doi.org/10.1101/228122 2017-12-03 Biophysics CC BY-NC-ND Spatial organization and dynamics of RNase E and ribosomes in Caulobacter crescentus Camille A Bayas|Jiarui Wang|Marissa K Lee|Jared M Schrader|Lucy Shapiro|W.E. Moerner Stanford University;|Wayne State University
http://dx.doi.org/10.1101/227694 2017-12-03 Scientific Communication and Education CC BY Assessing the Landscape of U.S. Postdoctoral Salaries Rodoniki Athanasiadou|Adriana Bankston|McKenzie Carlisle|Carrie Niziolek|Gary Steven McDowell Future of Research
http://dx.doi.org/10.1101/228015 2017-12-03 Evolutionary Biology CC BY-NC-ND Unlocking the biological potential of Euglena gracilis: evolution, cell biology and significance to parasitism Mark Field -;|University of Dundee
http://dx.doi.org/10.1101/227991 2017-12-03 Neuroscience Drosophila have distinct activity-gated pathways that mediate attraction and aversion to CO2 Floris van Breugel|Ainul Huda|Michael H. Dickinson California Institute of Technology
http://dx.doi.org/10.1101/227884 2017-12-03 Evolutionary Biology CC BY-ND Phylogenomics places orphan protistan lineages in a novel eukaryotic super-group Matthew W Brown|Aaron Heiss|Ryoma Kamikawa|Yuji Inagaki|Akinori Yabuki|Alexander K Tice|Takashi Shiratori|Ken Ishida|Tetsuo Hashimoto|Alastair G.B. Simpson|Andrew J Roger Mississippi State University;|American Museum of Natural History;|Kyoto University;|University of Tsukuba;|JAMSTEC;|Dalhousie University
http://dx.doi.org/10.1101/228072 2017-12-03 Quantitative Imaging of Receptor-Ligand Engagement in Intact Live Animals Alena Rudkouskaya|Nattawut Sinsuebphon|Jamie Ward|Kate Tubbesing|Xavier Intes|Margarida Barroso Albany Medical College;|Rensselaer Polytechnic Institute
http://dx.doi.org/10.1101/229047 2017-12-04 CC BY Cytokine receptor-Eb1 interaction couples cell polarity and fate during asymmetric cell division Yukiko M Yamashita|Cuie Chen|Aghapi Mordovanakis|Alan J Hunt|Michael Mayer|Ryan Cummings|David Sept University of Michigan, Ann Arbor, HHMI, United States;|University of Michigan, United States;|University of Michigan, Ann Arbor, United States;|University of Fribourg, United States;|University of Michigan Ann Arbor, Switzerland
http://dx.doi.org/10.1101/228247 2017-12-04 CC BY-NC-ND The emerging role of physical modeling in the future of structure determination Kari Gaalswyk|Mir Ishruna Muniyat|Justin MacCallum University of Calgary
http://dx.doi.org/10.1101/228932 2017-12-04 CC BY-NC-ND The ventral visual pathway represents animal appearance over animacy, unlike human behavior and deep neural networks Stefania Bracci|Ioannis Kalfas|Hans Op de Beeck KU Leuven
http://dx.doi.org/10.1101/228965 2017-12-04 Reconciling age-related changes in behavioural and neural indices of human perceptual decision making David P. McGovern|Aoife Hayes|Simon P. Kelly|Redmond O'Connell Trinity College Dublin;|University College Dublin
http://dx.doi.org/10.1101/228981 2017-12-04 CC BY-NC-ND Bioinformatics analysis quantifies neighborhood preferences of cancer cells in Hodgkin lymphoma. Jennifer Scheidel|Hendrik Schaefer|Joerg Ackermann|Marie Hebel|Tim Schaefer|Claudia Doering|Sylvia Hartmann|Martin-Leo Hansmann|Ina Koch Johann Wolfgang Goethe-University Frankfurt/M.;|Universitaetsklinikum Frankfurt
http://dx.doi.org/10.1101/229211 2017-12-04 CC BY-NC-ND A Multi-Species Functional Embedding Integrating Sequence and Network Structure Mark Leiserson|Jason Fan|Anthony Cannistra|Inbar Fried|Tim Lim|Thomas Schaffner|Mark Crovella|Benjamin Hescott Univ of Maryland, College Park, Ctr for Bioinformatics and Computational Biology;|University of Washington;|University of North Carolina Medical School;|Boston University;|Princeton University;|Northeastern University
http://dx.doi.org/10.1101/228361 2017-12-04 CC BY-NC-ND Unifying intra- and inter-specific variation in tropical tree mortality James S Camac|Richard Condit|Richard G FitzJohn|Lachlan McCalman|Daniel Steinberg|Mark Westoby|S Joseph Wright|Daniel S Falster The University of Melbourne;|Field Museum of Natural History and Morton Arboretum;|Imperial College;|CSIRO data61;|Macquarie University;|Smithsonian Tropical Research Institute;|University of New South Wales
http://dx.doi.org/10.1101/229146 2017-12-04 CC BY-NC-ND Longitudinal standards for mid-life cognitive performance: Identifying abnormal within-person changes in the Wisconsin Registry for Alzheimer's Prevention Rebecca L Koscik|Erin M. Jonaitis|Lindsay R. Clark|Kimberly D. Mueller|Samantha L Allison|Carey E. Gleason|Richard J. Chappell|Bruce P. Hermann|Sterling C. Johnson University of Wisconsin-Madison
http://dx.doi.org/10.1101/228759 2017-12-04 Inhibitory networks orchestrate the self-organization of computational function in cortical microcircuit motifs through STDP Stefan Hauesler|Wolfgang Maass Bernstein Ctr for Comp Neurosci Munich, Fac of Biology, Ludwig-Maximilians-Univ;|Graz University of Technology
http://dx.doi.org/10.1101/228809 2017-12-04 Choice of PP1 catalytic subunit affects neither the requirement for G-actin nor the insensitivity to Sephin1 of PPP1R15A-regulated eIF2αP dephosphorylation Ana Crespillo-Casado|Zander Claes|Meng S. Choy|Wolfgang Peti|Mathieu Bollen|David Ron Cambridge Institute for Medical Research, University of Cambridge, United Kingdom;|Department of Cellular and Molecular Medicine, KU Leuven, Belgium;|Department of Chemistry and Biochemistry, University of Arizona, Tucson
http://dx.doi.org/10.1101/229062 2017-12-04 CC BY-NC Modifiable risk factors moderate the relationship between amyloid and cognition in midlife Lindsay R. Clark|Rebecca L. Koscik|Samantha L. Allison|Sara E. Berman|Cynthia M. Carlsson|Derek L. Norton|Barbara B. Bendlin|Sanjay Asthana|Tobey J Betthauser|Bradley T. Christian|Sterling C. Johnson University of Wisconsin-Madison
http://dx.doi.org/10.1101/228973 2017-12-04 CC BY-NC-ND Visual recency bias is explained by a mixture model of short term memory Kristjan Kalm|Dennis Norris Medical Research Council;|MRC Cognition and Brain Sciences Unit, University of Cambridge
http://dx.doi.org/10.1101/229229 2017-12-04 CC BY Optogenetics reprogramming of planktonic cells for biofilm formation Fan Jin|Aiguo Xia|Shuai Yang|Yajia Huang|Zhenyu Jin|Lei Ni|Lu Pu|Guang Yang University of Science and Technology of China, China;|Huazhong University of Science and Technology, China
http://dx.doi.org/10.1101/229187 2017-12-04 Laws of concatenated perception: Vision goes for novelty, Decisions for perseverance David Pascucci|Giovanni Mancuso|Elisa Santandrea|Chiara Della Libera|Gijs Plomp|Leonardo Chelazzi University of Fribourg;|University of Verona
http://dx.doi.org/10.1101/229153 2017-12-04 CC BY-NC Neural Coding of Noisy and Reverberant Speech in Human Auditory Cortex Krishna C Puvvada|Marisel Villafane-Delgado|Christian Brodbeck|Jonathan Z Simon University of Maryland, College Park;|Michigan State University
http://dx.doi.org/10.1101/229195 2017-12-04 TIMELINE OF BRAIN ALTERATIONS IN ALZHEIMER'S DISEASE ACROSS THE ENTIRE LIFESPAN Pierrick Coupe|Jose V Manjon|Enrique Lanuza|Gwenaelle Catheline University of Bordeaux, LaBRI UMR 5800, PICTURA Research Group;|Universitat Politècnica de València;|Univ. Valencia, Dept. of Cell Biology;|Univ. Bordeaux, CNRS, EPHE PSL Research Univ., INCIA, UMR 5283
http://dx.doi.org/10.1101/228478 2017-12-04 Collective cell behaviour in mechanosensing of substrate thickness Camelia G Tusan|Yu Hin Man|Hoda Zarkoob|David A Johnson|Orestis G Andriotis|Philipp J Thurner|Shoufeng Yang|Edward A Sander|Eileen Gentleman|Bram Sengers|Nicholas Evans University of Southampton;|University of Iowa;|Technical University of Vienna;|King's College London
http://dx.doi.org/10.1101/228551 2017-12-04 polyCluster: Defining Communities of Reconciled Cancer Subtypes with Biological and Prognostic Significance Katherine Eason|Gift Nyamundanda|Anguraj Sadanandam Institute of Cancer Research (ICR), London, UK
http://dx.doi.org/10.1101/228387 2017-12-04 CC BY-NC Plant−soil feedbacks between arbuscular- and ecto-mycorrhizal communities Kohmei Kadowaki|Satoshi Yamamoto|Hirotoshi Sato|Akifumi S Tanabe|Amane Hidaka|Hirokazu Toju Kyoto University;|Kobe University;|Ryukoku University
http://dx.doi.org/10.1101/228585 2017-12-04 CC BY Competition and niche construction in a model of cancer metastasis Jimmy Qian|Erol Akcay Department of Biology, University of Pennsylvania
http://dx.doi.org/10.1101/228452 2017-12-04 NEW GENOMIC DATA AND ANALYSES CHALLENGE THE TRADITIONAL VISION OF ANIMAL EPITHELIUM EVOLUTION Hassiba Belahbib|Emmanuelle Renard|Sebastien Santini|Cyril Jourda|Jean-Michel Claverie|Carole Borchiellini|Andre Le Bivic Aix-Marseille University;|CIRAD;|CNRS
http://dx.doi.org/10.1101/228098 2017-12-04 CC BY Botulinum-neurotoxin-like sequences identified from an Enterococcus sp. genome assembly Charles HD Williamson|Theresa J Smith|Brian T Foley|Karen Hill|Paul Keim|Jason W Sahl Pathogen and Microbiome Institute, Northern Arizona University;|Molecular and Translational Sciences Div., US Army Medical Research Institute of Infectious Diseases;|Theoretical Division, Los Alamos National Laboratory;|Bioscience Division, Los Alamos National Laboratory
http://dx.doi.org/10.1101/228940 2017-12-04 CC BY-NC Antiretroviral treatment, prevention of transmission, and modeling the HIV epidemic: why the ART efficacy, coverage, and effectiveness parameters matter Reuben Granich|Somya Gupta|Matthew Wollmers|Brian Williams Independent Health Consultant, San Francisco, California, United States;|Independent Consultant, Delhi, India;|Independent Health Consultant, Washington DC;|SACEMA
http://dx.doi.org/10.1101/228148 2017-12-04 Testing Equality of Curves After Covariate Adjustment Parichoy Pal Choudhury|Prosenjit Kundu|Qian-Li Xue|Reyhan Westbrook|Ciprian Crainiceanu The Johns Hopkins University
http://dx.doi.org/10.1101/228999 2017-12-04 CC BY-NC-ND Hybrid peeling for fast and accurate calling, phasing, and imputation with sequence data of any coverage in pedigrees Andrew Whalen|Roger Ros-Freixedes|David L Wilson|Gregor Gorjanc|John M Hickey The Roslin Institute, University of Edinburgh;|University of Edinburgh
http://dx.doi.org/10.1101/226720 2017-12-04 CC BY-ND Comparative genomics of bdelloid rotifers: evaluating the effects of asexuality and desiccation tolerance on genome evolution Reuben W Nowell|Pedro Almeida|Christopher G Wilson|Thomas P Smith|Diego Fontaneto|Alastair Crisp|Gos Micklem|Alan Tunnacliffe|Chiara Boschetti|Timothy G Barraclough Imperial College London;|National Research Council of Italy;|University of Cambridge;|University of Cambridge, University of Plymouth
http://dx.doi.org/10.1101/228544 2017-12-04 CC BY-NC-ND Genomic responses to selection for tame/aggressive behaviors in the silver fox (Vulpes vulpes) Xu Wang|Lenore Pipes|Lyudmila N. Trut|Yury Herbeck|Anastasiya V. Vladimirova|Rimma G. Gulevich|Anastasiya V. Kharlamova|Jennifer L. Johnson|Gregory M. Acland|Anna V. Kukekova|Andrew G. Clark Auburn University;|Cornell University;|Institute of Cytology and Genetics of the Russian Academy of Sciences;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/229179 2017-12-04 Evolution of vertical and oblique transmission under fluctuating selection Yoav Ram|Uri Liberman|Marcus W. Feldman Stanford University;|Tel Aviv University
http://dx.doi.org/10.1101/229070 2017-12-04 CC BY-NC-ND Localization of adaptive variants in human genomes using averaged one-dependence estimation Lauren Alpert Sugden|Elizabeth G Atkinson|Annie P Fischer|Stephen Rong|Brenna M Henn|Sohini Ramachandran Brown University;|Broad Institute;|SUNY Stony Brook
http://dx.doi.org/10.1101/228577 2017-12-04 Time-resolved analyses of elemental distribution and concentration in living plants: An example using manganese toxicity in cowpea leaves Pax Blamey|David Paterson|Adam Walsh|Nader Afshar|Brigid McKenna|Miaomiao Cheng|Caixan Tang|Neal Menzies|Peter Kopittke The University of Queensland;|Australian Synchrotron ANSTO;|La Trobe University
http://dx.doi.org/10.1101/229096 2017-12-04 CC BY A quantitative model for characterizing the evolutionary history of mammalian gene expression Jenny Chen|Ross Swofford|Jeremy Johnson|Beryl B Cummings|Noga Rogel|Kerstin Lindblad-Toh|Wilfried Haerty|Federica di Palma|Aviv Regev Broad Institute;|Broad Institute of MIT and Harvard;|Earlham Institute
http://dx.doi.org/10.1101/229138 2017-12-04 CC BY-NC-ND Personalized modeling of the human gut microbiome reveals distinct bile acid deconjugation and biotransformation potential in healthy and IBD individuals Almut Heinken|Dmitry A. Ravcheev|Federico Baldini|Laurent Heirendt|Ronan MT Fleming|Ines Thiele University of Luxembourg
http://dx.doi.org/10.1101/229039 2017-12-04 CC BY-NC-ND Organisation of the transcriptional regulation of genes involved in protein transactions in yeast Duygu Dikicioglu|Daniel J H Nightingale|Valerie Wood|Kathryn S Lilley|Stephen G Oliver University of Cambridge
http://dx.doi.org/10.1101/229203 2017-12-04 CC BY Regionalization of the nervous system requires axial allocation prior to neural lineage commitment Vicki Metzis|Sebastian Steinhauser|Edvinas Pakanavicius|Mina Gouti|Despina Stamataki|Robin Lovell-Badge|Nicholas M Luscombe|James Briscoe The Francis Crick Institute;|Max-Delbrück Center for Molecular Medicine,
http://dx.doi.org/10.1101/227959 2017-12-04 CC BY-NC-ND The hydrophobin-like OmSSP1 may be an effector in the ericoid mycorrhizal symbiosis Salvatore Casarrubia|Stefania Daghino|Annegret Kohler|Emmanuelle Morin|Hassine-Radhouane Khouja|Yohann Daguerre|Claire Veneault-Fourrey|Francis Michel Martin|Silvia Perotto|Elena Martino Department of Life Sciences and Systems Biology, University of Turin, Turin, Italy;|INRA, UMR INRA-Lorraine University, IAM, Labex ARBRE, INRA-Nancy, Champenoux, France;|Lorraine University, UMR INRA-UL, IAM, Faculty of Sciences and Tech., Vandoeuvre les Nancy, France
http://dx.doi.org/10.1101/228403 2017-12-04 CC BY-NC-ND Natural Variation of OsLG3 Controls Drought Stress Tolerance in Rice by Inducing ROS Scavenging Haiyan Xiong|Jianping Yu|Jinjie Li|Xin Wang|Pengli Liu|Hongliang Zhang|Yan Zhao|Zhigang Yin|Yang Li|Yan Guo|Binying Fu|Wensheng Wang|Zhikang Li|Jauhar Ali|Zichao Li China Agriculture University;|Chinese Academy of Agricultural Sciences;|International Rice Research Institute
http://dx.doi.org/10.1101/228593 2017-12-04 Neural Computations Underlying Causal Structure Learning Momchil Tomov|Hayley Dorfman|Samuel Gershman Harvard University
http://dx.doi.org/10.1101/228429 2017-12-04 Neuroscience CC BY Suppression of the dihydrolipoamide dehydrogenase gene (dld-1) protects against the toxicity of human amyloid beta in C. elegans model of Alzheimer's disease Waqar Ahmad University of Queensland
http://dx.doi.org/10.1101/228833 2017-12-04 Microbiology CC BY-NC-ND Electron microscopy reveals unique nano forms of bacterial spores Sumanta Ghosh|Biprashekhar Chakraborty|Sandip Dey|Chiranjit Biswas|Rukhsana Chowdhury|Krishnananda Chattopadhyay|Jayati Sengupta CSIR-Indian Institue of Chemical Biology;|CSIR-Indian Institute of Chemical Biology
http://dx.doi.org/10.1101/228569 2017-12-04 Pharmacology and Toxicology CC BY-NC-ND Non-blocking modulation as the major mechanism of sodium channel inhibition by riluzole Anett K Szabo|Krisztina Pesti|Peter Lukacs|Matyas C Foldi|Zoltan Gerevich|Beata Sperlagh|Arpad Mike MTA-ELTE NAP B Opto-Neuropharmacology Group, Budapest, Hungary;|Institute of Neurophysiology, Charite Universitatsmedizin Berlin, Berlin, Germany;|Dept of Pharmacology, Institute of Experimental Medicine, Budapest, Hungary
http://dx.doi.org/10.1101/227728 2017-12-04 Biochemistry CC BY-NC-ND A myopic perspective on the future of protein diagnostics Ulf Landegren|Rasel A. Al-Amin|Johan Bjorkesten Uppsala University
http://dx.doi.org/10.1101/229088 2017-12-04 Biophysics Recovery of equilibrium free energy from non-equilibrium thermodynamics with mechanosensitive ion channels in E. coli Ugur Cetiner|Oren Raz|Sergei Sukharev|Christopher Jarzynski University of Maryland, College Park;|University of Maryland, College Park. Weizmann Institute of Science, Israel.
http://dx.doi.org/10.1101/229104 2017-12-04 Systems Biology CC BY-NC-ND Estimating global enzyme abundance levels from cofactor requirements: a model-based analysis of the iron metabolism in yeast Duygu Dikicioglu|Stephen G Oliver University of Cambridge
http://dx.doi.org/10.1101/228460 2017-12-04 Bioinformatics CONFOLD2: Improved contact-driven ab initio protein structure modeling Badri Adhikari|Jianlin Cheng University of Missouri - St. Louis;|University of Missouri - Columbia
http://dx.doi.org/10.1101/228783 2017-12-04 Physiology CC BY-NC-ND Disrupting myeloid-specific LXRα phosphorylation promotes FoxM1 expression and modulates atherosclerosis by inducing macrophage proliferation Mathew C Gage|Natalia Becares-Salles|Rikah Louie|Kirsty Waddington|Yu Zhang|Thais Tittanegro|Sabela Rodriguez-Lorenzo|Avith Jathanna|Benoit Pourcet|Oscar M Pello|Juan Vladimir De la Rosa|Antonio Castrillo|Ines Pineda Torra University College London;|CSIC
http://dx.doi.org/10.1101/228726 2017-12-04 Neuroscience CC BY-NC A weighted graph of the projections to mouse auditory cortex Nuno Macarico da Costa|Kevan A.C. Martin|Franziska D. Sagesser Swiss Federal Institute of Technology Zurich / University of Zurich
http://dx.doi.org/10.1101/228874 2017-12-04 Ecology CC BY-NC Identifying Important Interaction Modifications in Ecological Systems Christopher Terry|Michael B Bonsall|Rebecca J Morris Department of Zoology, University of Oxford;|Biological Sci., Fac. of Natural & Environmental Sciences, Univ. of Southampton
http://dx.doi.org/10.1101/228619 2017-12-04 Microbiology CC BY-NC Accurate Determination of Bacterial Abundances in Human Metagenomes Using Full-length 16S Sequencing Reads Fanny Perraudeau|Sandrine Dudoit|James Hudson Bullard University of California, Berkeley and Whole Biome;|University of California, Berkeley;|Whole Biome
http://dx.doi.org/10.1101/228890 2017-12-04 Neuroscience CC BY-NC-ND Suppressed sensory response to predictable object stimuli throughout the ventral visual stream David Richter|Matthias Ekman|Floris P. de Lange Donders Institute for Brain, Cognition and Behaviour, Radboud University Nijmegen
http://dx.doi.org/10.1101/228684 2017-12-04 Pharmacology and Toxicology CC BY-NC-ND Non-blocking modulation contributes to sodium channel inhibition by a covalently attached photoreactive riluzole analog Peter Lukacs|Matyas C Foldi|Luca Valanszki|Emilio Casanova|Beata Biri-Kovacs|Laszlo Nyitray|Andras Malnasi-Csizmadia|Arpad Mike MTA-ELTE NAP B Opto-Neuropharmacology Group, Budapest, Hungary;|Ludwig Boltzmann Institute for Cancer Research (LBI-CR), Vienna, Austria;|Department of Biochemistry, Eotvos Lorand University, Budapest, Hungary
http://dx.doi.org/10.1101/228791 2017-12-04 Microbiology CC BY-NC-ND Pneumococcal vaccine impacts on the population genomics of non-typeable Haemophilus influenzae David W Cleary|Vanessa T Devine|Denise E Morris|Karen L Osman|Rebecca A Gladstone|Stephen D Bentley|Saul N Faust|Stuart C Clarke University of Southampton;|N. Ireland Ctr for Stratified Medicine & Clinical Translational Research Innovation Ctr;|Wellcome Trust Sanger Institute;|University Hospital Southampton Foundation NHS Trust
http://dx.doi.org/10.1101/228668 2017-12-04 Genomics CC BY Evolution of carbapenem resistance in Acinetobacter baumannii during a prolonged infection Jane Hawkey|David B Ascher|Louise Judd|Ryan R Wick|Xenia Kostoulias|Heather Cleland|Denis W Spelman|Alex Padiglione|Anton Y Peleg|Kathryn E Holt University of Melbourne;|Monash University
http://dx.doi.org/10.1101/228676 2017-12-04 Neuroscience CC BY The Brain/MINDS 3D digital marmoset brain atlas Alexander Woodward|Tsutomu Hashikawa|Masahide Maeda|Takaaki Kaneko|Keigo Hikishima|Atsushi Iriki|Hideyuki Okano|Yoko Yamaguchi Neuroinformatics Japan Center, RIKEN Brain Science Institute;|Laboratory for Marmoset Neural Architecture, RIKEN Brain Science Institute;|Animal Resources Section, Okinawa Institute of Science and Technology;|Laboratory for Symbolic Cognitive Development, RIKEN Brain Science Institute
http://dx.doi.org/10.1101/228734 2017-12-04 Evolutionary Biology CC BY A-to-I RNA editing uncovers hidden signals of adaptive genome evolution in animals Niko Popitsch|Christian D. Huber|Ilana Buchumenski|Eli Eisenberg|Michael Jantsch|Arndt von Haeseler|Miguel Gallach Oxford NIHR Biomedical Research Center & Children's Cancer Research Institute;|University of California, Los Angeles;|Bar-Ilan University;|Tel Aviv University;|Medical University of Vienna;|CIBIV/MFPL - University of Vienna & Medical University of Vienna;|CIBIV/MFPL - Medical University of Vienna
http://dx.doi.org/10.1101/228692 2017-12-04 Evolutionary Biology Structurally informed evolutionary models improve phylogenetic reconstruction for emerging, seasonal, and pandemic influenza viruses Xueting Qiu|Justin Bahl The Center for Infectious Disease, The University of Texas School of Public Health, Houston
http://dx.doi.org/10.1101/228825 2017-12-04 Neuroscience CC BY-NC-ND Gaze Bias Differences Capture Individual Choice Behavior Armin W. Thomas|Felix Molter|Ian Krajbich|Hauke R. Heekeren|Peter N. C. Mohr Technische Universitaet Berlin;|Freie Universitaet Berlin;|Ohio State University
http://dx.doi.org/10.1101/228817 2017-12-04 Genetics CC BY-NC-ND polymapR: linkage analysis and genetic map construction from F1 populations of outcrossing polyploids Peter Bourke|Geert van Geest|Roeland E. Voorrips|Johannes Jansen|Twan Kranenburg|Arwa Shahin|Richard G. F. Visser|Paul Arens|Marinus J. M. Smulders|Chris Maliepaard Wageningen University and Research
http://dx.doi.org/10.1101/228635 2017-12-05 Quantifying antimicrobial access and practices for paediatric diarrheal disease in an urban community setting in Southeast Asia Le Thi Quynh Nhi|Ruklanthi de Alwis|Phung Khanh Lam|Nguyen Nhon Hoa|Nguyen Minh Nhan|Le Thi Tu Oanh|Dang Thanh Nam|Bui Nguyen Ngoc Han|Hoang Thi Huyen|Vu Thuy Duong|Lu Lan Vi|Bui Thi Thuy Tien|Hoang Thi Diem Tuyet|Le Hoang Nha|Guy Thwaites|Do Van Dung|Stephen Baker Oxford University Clinical Research Unit;|University of Medicine and Pharmacy in Ho Chi Minh City, Vietnam;|The Hospital for Tropical Diseases, Ho Chi Minh City, Vietnam;|Hung Vuong Hospital;|Ho Chi Minh City Department of Health;|OUCRU
http://dx.doi.org/10.1101/229500 2017-12-05 Tuberculosis outbreak investigation using phylodynamic analysis Denise Kuehnert|Mireia Coscolla|David Stucki|John Metcalfe|Lukas Fenner|Sebastien Gagneux|Tanja Stadler University Hospital Zurich, Zurich, Switzerland;|Swiss Tropical and Public Health Institute, Basel, Switzerland;|University of Basel, Basel, Switzerland;|University of California, San Francisco, USA;|Institute of Social and Preventive Medicine, University of Bern, Bern, Switzerland;|ETH Zurich, Basel, Switzerland
http://dx.doi.org/10.1101/224147 2017-12-05 Evidence against tetrapod-wide digit identities and for a limited frame shift in bird wings Thomas A Stewart|Cong Liang|Justin Cotney|James P Noonan|Thomas Sanger|Gunter Wagner The University of Chicago;|Yale University;|UConn Health;|Loyola University in Chicago
http://dx.doi.org/10.1101/229583 2017-12-05 CC BY-ND Multi-SKAT: General framework to test multiple phenotype associations of rare variants Diptavo Dutta|Laura Scott|Michael Boehnke|Seunggeun Lee Center for Statistical Genetics, University of Michigan;|School of Public Health, Univ. of Michigan;|University of Michigan
http://dx.doi.org/10.1101/222976 2017-12-05 CC BY-ND Development of an in vitro pre-mRNA splicing assay using plant nuclear extract Mohammed Albaqami|Anireddy Reddy Colorado State University
http://dx.doi.org/10.1101/229617 2017-12-05 Scanning along a compressed timeline of the future Inder Singh|Marc W. Howard Boston University
http://dx.doi.org/10.1101/229476 2017-12-05 CC BY-NC-ND Distinct chromatin signatures of DNA hypomethylation in aging and cancer Raul F. Perez|Juan Ramon Tejedor|Gustavo F. Bayon|Agustin F. Fernandez|Mario F. Fraga CINN-CSIC, IUOPA;|FINBA, IUOPA;|IUOPA;|FINBA, HUCA, IUOPA;|CINN-CSIC
http://dx.doi.org/10.1101/229443 2017-12-05 CC BY-NC-ND Molecular Identification and Characterization of Two Rubber Dandelion Amalgaviruses Humberto J Debat|Zinan Luo|Brian J Iaffaldano|Xiaofeng Zhuang|Katrina Cornish IPAVE-CIAP-INTA;|The Ohio State University
http://dx.doi.org/10.1101/229450 2017-12-05 CC BY-NC fluxweb: a package to easily estimate energy fluxes in food webs Benoit Gauzens|Andrew Barnes|Malte Jochum|Jes Hines|Shaopeng Wang|Darren Giling|Benjamin Rosebaum|Ulrich Brose German Centre for Integrative Biodiversity Research (iDiv);|Institute of Plant Sciences, University of Bern
http://dx.doi.org/10.1101/229567 2017-12-05 Brain networks, dimensionality, and global signal averaging in resting-state fMRI: Hierarchical network structure results in low-dimensional spatiotemporal dynamics Stephen J Gotts|Adrian W Gilmore|Alex Martin National Institute of Mental Health, NIH
http://dx.doi.org/10.1101/229534 2017-12-05 CC BY-NC-ND Systematic transcriptomics reveals a biphasic mode of sarcomere morphogenesis in flight muscles regulated by Spalt Maria L Spletter|Christiane Barz|Assa Yeroslaviz|Xu Zhang|Sandra B Lemke|Erich Brunner|Giovanni Cardone|Konrad Basler|Bianca H Habermann|Frank Schnorrer Muscle Dynamics Group, Max Planck Institute of Biochemistry, Germany;|Computational Biology Group, Max Planck Institute of Biochemistry, Germany;|Aix Marseille University, CNRS, IBDM, 13288 Marseille, France;|Institute of Molecular Life Sciences, University of Zurich, 8057 Zurich, Switzerland;|Imaging Facility, Max Planck Institute of Biochemistry, 82152 Martinsried, Germany
http://dx.doi.org/10.1101/229559 2017-12-05 CC BY-NC-ND Barley Long Non-Coding RNAs and Their Tissue-Specific Co-expression Pattern with Coding-Transcripts Gokhan Karakulah|Turgay Unver Dokuz Eylul University
http://dx.doi.org/10.1101/228742 2017-12-05 CC BY-NC-ND PET studies of the glial cell marker TSPO in psychosis patients - a meta-analysis using individual participant data Pontus Plaven-Sigray|Granville J Matheson|Karin Collste|Abhishekh H Ashok|Jennifer M Coughlin|Oliver D Howes|Romina Mizrahi|Martin G Pomper|Pablo Rusjan|Mattia Veronese|Yuchuan Wang|Simon Cervenka Karolinska Institutet;|King's College London; Hammersmith Hospital; Imperial College London;|Johns Hopkins Medical Institutions;|University of Toronto;|King's College London
http://dx.doi.org/10.1101/229526 2017-12-05 Gating by induced α-γ asynchrony in selective attention David Pascucci|Alexis Hervais-Adelman|Christoph Michel|Gijs Plomp University of Fribourg;|University of Geneva;|University of Geneve
http://dx.doi.org/10.1101/208959 2017-12-05 CC BY SciRide Finder : citation-based paradigm in biomedical literature search. Adam Volanakis|Krawczyk Konrad SciRide
http://dx.doi.org/10.1101/229252 2017-12-05 CC BY-NC-ND Accurate estimation of neural population dynamics without spike sorting Eric Trautmann|Sergey Stavisky|Subhaneil Lahiri|Katherine Ames|Matthew Kaufman|Stephen Ryu|Surya Ganguli|Krishna Shenoy Stanford University;|Columbia University;|Cold Spring Harbor Laboratory;|Stanford, Palo Alto Medical Foundation;|Stanford, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/229161 2017-12-05 Aging in a relativistic biological space-time Davide Maestrini|Daniel Abler|Vikram Adhikarla|Saro Armenian|Sergio Branciamore|Nadia Carlesso|Guido Marcucci|Ya-Huei Kuo|Prativa Sahoo|Russell Rockne City of Hope, National Medical Center
http://dx.doi.org/10.1101/229427 2017-12-05 CC BY Automated detection of Mycobacterial growth on 96-well plates for rapid and accurate Tuberculosis drug susceptibility testing Philip W Fowler|Ana L Gilbertoni Cruz|Sarah J Hoosdally|Lisa Jarrett|Emanuele Borroni|Matteo Chiacchiaretta|Priti Rathod|Timothy M Walker|Esther Robinson|Timothy EA Peto|Daniela M. Cirillo|E Grace Smith|Derrick W Crook University of Oxford;|Natl Mycobacterial Reference Service, Natl Infection Service, Public Health England;|IRCCS San Raffaele Scientific Institute
http://dx.doi.org/10.1101/229260 2017-12-05 Distinct descending motor cortex pathways and their roles in movement Michael Economo|Sarada Viswanathan|Bosiljka Tasic|Erhan Bas|Johan Winnubst|Vilas Menon|Lucas T Graybuck|Thuc Nghi Nguyen|Lihua Wang|Charles Richard Gerfen|Jayaram Chandrashekar|Hongkui Zeng|Loren Lee Looger|Karel Svoboda HHMI/Janelia Research Campus;|Allen Institute for Brain Science;|National Institute of Mental Health
http://dx.doi.org/10.1101/229492 2017-12-05 Developmental Biology CC BY Two consecutive microtubule-based epithelial seaming events mediate dorsal closure in the scuttle fly Megaselia abdita Juan Jose Fraire-Zamora|Johannes Jaeger|Jerome Solon Centre for Genomic Regulation, Spain;|Complexity Science Hub Vienna, Austria;|Center for Genomic Regulation, Spain
http://dx.doi.org/10.1101/229393 2017-12-05 Genetics CC BY-NC-ND Neurohormonal signalling controls insulin sensitivity and specificity in C. elegans Nicholas Burton|Vivek Dwivedi|Kirk Burkhart|Rebecca Kaplan|Ryan Baugh|H. Robert Horvitz University of Cambridge;|Massachusetts Institute of Technology;|Duke University
http://dx.doi.org/10.1101/229435 2017-12-05 Systems Biology CC BY Modeling and simulating networks of interdependent protein interactions Bianca K Stoecker|Johannes Koester|Eli Zamir|Sven Rahmann University Hospital Essen, University of Duisburg-Essen;|Max Planck Institute for Medical Research;|University of Duisburg-Essen
http://dx.doi.org/10.1101/229401 2017-12-05 Neuroscience Spontaneous Pre-encoding Activation of Neural Patterns Predicts Memory Talya Sadeh|Janice Chen|Yonatan Goshen-Gottstein|Morris Moscovitch Ben-Gurion University of the Negev;|Johns Hopkins University;|Tel-Aviv University;|University of Toronto
http://dx.doi.org/10.1101/229385 2017-12-05 Bioinformatics CC BY-NC-ND Predicting DNA accessibility in the pan-cancer tumor genome using RNA-seq, WGS, and deep learning Kamil Wnuk|Jeremi Sudol|Shahrooz Rabizadeh|Christopher Szeto|Charles Vaske NantOmics
http://dx.doi.org/10.1101/229054 2017-12-05 Biochemistry CC BY Engineering a promiscuous pyrrolysyl-tRNA synthetase by a high throughput FACS screen Adrian Hohl|Ram Karan|Anstassja Akal|Dominik Renn|Xuechao Liu|Alaguraj Dharamarajnadar|Seema Arun Ghoprade|Michael Groll|Magnus Rueping|Jorg Eppinger King Abdullah University of Science and Technology, KAUST;|King Abdullah University of Science and Technology. KAUST;|King Abdullah University of science and Technology, KAUST;|Technische Universität München
http://dx.doi.org/10.1101/229468 2017-12-05 Genomics CC BY-NC Grafting or Pruning in the Animal Tree: Lateral Gene Transfer and Gene Loss? Julie Christine Dunning Hotopp University of Maryland Baltimore
http://dx.doi.org/10.1101/229237 2017-12-05 Neuroscience CC BY-NC-ND Characterizing the effects of sex, APOE ε4, and literacy on mid-life cognitive trajectories: Application of Information-Theoretic model-averaging and multi-model inference techniques to the Wisconsin Registry for Alzheimer's Prevention Study Rebecca L. Koscik|Derek L. Norton|Samantha L. Allison|Erin M Jonaitis|Lindsay R. Clark|Kimberly D. Mueller|Bruce P. Hermann|Corinne D. Engelman|Carey E. Gleason|Mark A. Sager|Richard J. Chappell|Sterling C. Johnson University of Wisconsin-Madison
http://dx.doi.org/10.1101/229377 2017-12-05 Zoology CC BY-ND Spawning Biology and Induced Breeding of freshwater catfish Mystus dibrugarensis: An approach to conservation BHENILA BAILUNG|SHYAMA PRASAD BISWAS DIBRUGARH UNIVERSITY, ASSAM
http://dx.doi.org/10.1101/229245 2017-12-05 Genomics CC BY-NC-ND Three-way clustering of multi-tissue multi-individual gene expression data using constrained tensor decomposition Miaoyan Wang|Jonathan Fischer|Yun S. Song University of California, Berkeley
http://dx.doi.org/10.1101/229328 2017-12-05 Bioengineering Engineering Human CNS Morphogenesis: Controlled Induction of Singular Neural Rosette Emergence Gavin T Knight|Brady F Lundin|Nisha Iyer|Lydia MT Ashton|William A Sethares|Rebecca L Willett|Randolph Ashton University of Wisconsin-Madison;|University of Wisconsin Madison
http://dx.doi.org/10.1101/228627 2017-12-05 Biophysics CC BY-NC-ND Specific cholesterol binding drives drastic structural alterations in apolipoprotein A1 Arjun Ray|Shantanu Sengupta|Lipi Thukral CSIR-Institute of Genomics and Integrative Biology
http://dx.doi.org/10.1101/229351 2017-12-05 Generation of Variation and Mean Fitness Increase: Necessity is the Mother of Genetic Invention Yoav Ram|Lee Altenberg|Uri Liberman|Marcus W. Feldman Stanford University;|University of Hawai'i at Manoa;|Tel Aviv University
http://dx.doi.org/10.1101/229336 2017-12-05 Genomics CC BY Determining cell fate specification and genetic contribution to cardiac disease risk in hiPSC-derived cardiomyocytes at single cell resolution Quan Nguyen|Samuel Lukowski|Han Chiu|Clayton Friedman|Anne Senabouth|Liam Crowhurst|Timothy Bruxmer|Angelika Christ|Nathan Palpant|Joseph Powell Institute for Molecular Bioscience
http://dx.doi.org/10.1101/229286 2017-12-04 Biophysics Cell size regulation through tunable geometric localization of the bacterial actin cytoskeleton Alexandre Colavin|Handuo Shi|Kerwyn Casey Huang Stanford University
http://dx.doi.org/10.1101/228866 2017-12-04 Plant Biology CC BY-NC-ND The transcriptional dynamics of two filmy ferns from Hymenophyllaceae with different niche preferences unravel key aspects of their desiccation tolerance and vertical distribution along host trees Giovanni Larama|Enrique Ostria-Gallardo|Graciela Berrios|Ana Gutierrez|Ingo Ensminger|Leon A. Bravo Departamento de Ingenieria Matematica, Universidad de La Frontera, Temuco, Chile.;|Laboratorio de Fisiologia y Biologia Molecular Vegetal, Universidad de La Frontera, Temuco, Chile.;|University of Toronto, Mississauga, Canada.;|Scientific and Technological Bioresource Nucleus BIOREN-UFRO, Temuco, Chile.
http://dx.doi.org/10.1101/230052 2017-12-06 Cancer Biology Network analysis of mass spectrometry imaging data from colorectal cancer identifies key metabolites common to metastatic development. Paolo Inglese|Nicole Strittmatter|Luisa Doria|Anna Mroz|Abigail Spencer|Liam Poynter|Andreas Danhorn|Hiromi Kudo|Reza Mirnezami|Robert D Goldin|Jeremy K Nicholson|Zoltan Takats|Robert C Glen Imperial College London
http://dx.doi.org/10.1101/229682 2017-12-06 Biophysics CC BY-NC-ND A physics-explicit model of bacterial conjugation shows the stabilizing role of the conjugative junction Jakub Pastuszak|Bartlomiej Waclaw School of Physics and Astronomy, The University of Edinburgh;|The University of Edinburgh
http://dx.doi.org/10.1101/229740 2017-12-06 Biophysics CC BY-NC-ND Quantitative mass imaging of single molecules in solution Gavin Young|Nikolas Hundt|Daniel Cole|Adam Fineberg|Joanna Andrecka|Andrew Tyler|Anna Olerinyova|Ayla Ansari|Erik G Marklund|Miranda P Collier|Shane A Chandler|Olga Tkachenko|Joel Allen|Max Crispin|Neil Billington|Yasuharu Takagi|James R Sellers|Cedric Eichmann|Philip Selenko|Lukas Frey|Roland Riek|Martin R Galpin|Weston B Struwe|Justin L P Benesch|Philipp Kukura University of Oxford;|Cell Biology and Physiology Center, National Heart, Lung and Blood Institute;|Leibniz Institute of Molecular Pharmacology;|ETH Zurich
http://dx.doi.org/10.1101/229922 2017-12-06 Synthetic Biology An orthogonal and pH-tunable sensor-selector for muconic acid biosynthesis in yeast Tim Snoek|David Romero-Suarez|Jie Zhang|Mette L. Skjoedt|Suresh Sudarsan|Michael K. Jensen|Jay D. Keasling Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark;|Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark; JBEI
http://dx.doi.org/10.1101/229849 2017-12-06 Cancer Biology The Activation of MEK1 by Enhanced Homodimerization Drives Tumorigenesis Jimin Yuan|Wan Hwa Ng|Zizi Tian|Jiajun Yap|Manuela Baccarini|Zhongzhou Chen|Jiancheng Hu National Cancer Centre Singapore;|China Agricultural University;|Max F. Perutz Laboratories
http://dx.doi.org/10.1101/229658 2017-12-06 Cancer Biology DARPP-32 and t-DARPP promote lung cancer growth through IKKα-dependent cell migration and Akt/Erk-mediated cell survival Sk. Kayum Alam|Matteo Astone|Ping Liu|Stephanie R Hall|Abbygail M Coyle|Erin N Dankert|Dane K Hoffman|Wei Zhang|Rui Kuang|Anja C Roden|Aaron S Mansfield|Luke H Hoeppner The Hormel Institute, University of Minnesota;|Mayo Clinic;|University of Minnesota
http://dx.doi.org/10.1101/229724 2017-12-06 Cancer Biology CC BY-NC Effect sizes of somatic mutations in cancer Vincent L. Cannataro|Stephen G. Gaffney|Jeffrey P. Townsend Yale University
http://dx.doi.org/10.1101/230029 2017-12-06 Bioengineering CC BY-NC-ND Transcription factor SmWRKY1 positively promote the biosynthesis of tanshinones in Salvia miltiorrhiza Wenzhi Cao|Yao Wang|Min Shi|Xiaolong Hao|Weiwei Zhao|Yu Wang|Jie Ren|Guoyin Kai Shanghai Normal University;|Shanghai Normal University; Zhejiang Chinese Medical University
http://dx.doi.org/10.1101/229757 2017-12-06 Microbiology CC BY-ND A simple mung bean infection model for studying the virulence of Pseudomonas aeruginosa Sneha Garge|Sheyda Azimi|Stephen P Diggle The Maharaja Sayajirao University of Baroda, Vadodara, India;|School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
http://dx.doi.org/10.1101/225797 2017-12-06 Genetics CC BY-NC-ND Diagnostic utility of telomere length measurement in a hospital setting Jonathan K. Alder|Vidya Sagar Hanumanthu|Margaret A. Strong|Amy E. DeZern|Susan E. Stanley|Clifford M. Takemoto|Ludmila Danilova|Carolyn D. Applegate|Stephen G. Bolton|David W Mohr|Robert A. Brodsky|James F. Casella|Carol W Greider|J. Brooks Jackson|Mary Armanios University of Pittsburgh School of Medicine;|Johns Hopkins University School of Medicine;|Johns Hopkins University;|University of Minnesota Medical School
http://dx.doi.org/10.1101/229914 2017-12-06 Microbiology Light assisted antibiotics Aikaterini Argyraki|Merete Markvart|Camilla Stavnsbjerg|Kasper Nrskov Kragh|Lars Bjrndal|Thomas Bjarnsholt|Paul Michael Petersen Department of Photonics Engineering, Technical University of Denmark;|Cariology and Endodontics, Department of Odontology, University of Copenhagen;|Dept of Immunology & Microbiology, Costerton biofilm Center, Univ of Copenhagen
http://dx.doi.org/10.1101/229971 2017-12-06 Microbiology CC BY-NC-ND The rust fungus Melampsora larici-populina expresses a conserved genetic program and distinct sets of secreted protein genes during infection of its two host plants, larch and poplar Cecile Lorrain|Clemence Marchal|Stephane Hacquard|Christine Delaruelle|Jeremy Petrowski|Benjamin Petre|Arnaud Hecker|Pascal Frey|Sebastien Duplessis INRA (France);|JIC (UK);|MPI (Germany);|Lorraine University (France)
http://dx.doi.org/10.1101/229880 2017-12-06 Genetics CC BY-NC-ND Quantitative morphological variation in the developing Drosophila wing Alexis Matamoro-Vidal|Yunxian Huang|Isaac Salazar-Ciudad|Osamu Shimmi|David Houle Institut Jacques Monod;|University of Helsinki;|Universitat Autonoma de Barcelona and University of Helsinki;|Florida State University
http://dx.doi.org/10.1101/229997 2017-12-06 Plant Biology Extremely flexible infection programs in a fungal plant pathogen Janine Haueisen|Mareike Moeller|Christoph Jakob Eschenbrenner|Jonathan Grandaubert|Heike Seybold|Holger Adamiak|Eva Holtgrewe Stukenbrock Environmental Genomics, Christian-Albrechts University Kiel
http://dx.doi.org/10.1101/224980 2017-12-06 Developmental Biology CC BY-NC-ND Shared Genetic Requirements for Atf5 Translation in the Vomeronasal Organ and Main Olfactory Epithelium Ryan P Dalton UC Berkeley
http://dx.doi.org/10.1101/229716 2017-12-06 Cell Biology CC BY-NC-ND Distinct SoxB1 networks are required for naïve and primed pluripotency Andrea Corsinotti|Frederick CK Wong|Tulin Tatar|Iwona Szczerbinska|Florian Halbritter|Douglas Colby|Sabine Gogolok|Raphael Pantier|Kirsten Liggat|Elham S Mirfazeli|Elisa Hall-Ponsele|Nicholas Mullin|Valerie Wilson|Ian Chambers University of Edinburgh; University of Tsukuba;|University of Edinburgh; University of Cambridge;|University of Edinburgh;|University of Edinburgh; Genome Institute of Singapore; University of Singapore;|Univ of Edinburgh; CeMM Res Ctr for Molec Medicine, Austrian Acad of Sciences
http://dx.doi.org/10.1101/229930 2017-12-06 Evolutionary Biology CC BY Shifts in diversification rates and host jump frequencies shaped the diversity of host range among Sclerotiniaceae fungal plant pathogens Olivier Navaud|Adelin Barbacci|Andrew Taylor|John P Clarkson|Sylvain Raffaele LIPM, Universite de Toulouse, INRA, CNRS, Castanet-Tolosan, France;|Warwick Crop Centre, School of Life Sciences, University of Warwick, Wellesbourne, Warwick CV35 9EF,
http://dx.doi.org/10.1101/229591 2017-12-06 Developmental Biology CC BY-NC-ND Estrogen receptor inhibition enhances cold-induced adipocyte beiging and glucose sensitivity Kfir Lapid|Ajin Lim|Eric D. Berglund|Jonathan M. Graff University of Texas Southwestern Medical Center
http://dx.doi.org/10.1101/229625 2017-12-06 Plant Biology Alleviation of Al toxicity by Si is associated with the formation of Al-Si complexes in root tissues of sorghum Peter Kopittke|Alessandra Gianoncelli|George Kourousias|Kathryn Green|Brigid McKenna The University of Queensland;|Elettra Sincrotrone Trieste
http://dx.doi.org/10.1101/227272 2017-12-06 CC BY-NC-ND Comparison of Small Gut and Whole Gut Microbiota of First-Degree Relatives with Adult Patients with Celiac Disease and Controls Sudarshan A Shetty|Rahul Bodkhe|Dhiraj P. Dhotre|Anil K Verma|Khushbo Bhatia|Asha Mishra|Gurvinder Kaur|Pranav Pande|Dhinoth K. Bangarusamy|Beena P Santosh|Rajadurai C Perumal|Vineet Ahuja|Yogesh S Shouche|Govind K Makharia National Centre for Microbial Resource, National Centre for Cell Science, India;|Dept of Gastroenterology & Human Nutrition, All India Institute of Medical Sciences;|Transplant Immunology & Immunogenetics, All India Institute of Medical Sciences;|AgriGenome Labs Pvt Ltd. Kerala, India
http://dx.doi.org/10.1101/229542 2017-12-06 Shared and distinct transcriptomic cell types across neocortical areas Bosiljka Tasic|Zizhen Yao|Kimberly A Smith|Lucas Graybuck|Thuc Nghi Nguyen|Darren Bertagnolli|Jeff Goldy|Emma Garren|Michael N Economo|Sarada Viswanathan|Osnat Penn|Trygve Bakken|Vilas Menon|Jeremy A Miller|Olivia Fong|Karla E Hirokawa|Kanan Lathia|Christine Rimorin|Michael Tieu|Rachael Larsen|Tamara Casper|Eliza Barkan|Matthew Kroll|Seana Parry|Nadiya V Shapovalova|Daniel Hirchstein|Julie Pendergraft|Tae Kyung Kim|Aaron Szafer|Nick Dee|Peter Groblewski|Ian Wickersham|Ali Cetin|Julie A Harris|Boaz P Levi|Susan M Sunkin|Linda Madisen|Tanya L Daigle|Loren Looger|Amy Bernard|John Phillips|Ed Lein|Michael Hawrylycz|Karel Svoboda|Allan R Jones|Christof Koch|Hongkui Zeng Allen Institute for Brain Science;|Howard Hughes Medical Institute;|Massachusetts Institute of Technology;|Allen Institute for Brain Sciencev
http://dx.doi.org/10.1101/229781 2017-12-06 Evidence against the detectability of a hippocampal place code using functional magnetic resonance imaging Christopher R Nolan|Joyce M.G. Vromen|Allen Cheung|Oliver Baumann The University of Queensland
http://dx.doi.org/10.1101/229831 2017-12-06 Testing hypotheses about the microbiome using an ordination-based linear decomposition model Yijuan Hu|Glen A. Satten Emory University;|Centers for Disease Control and Prevention
http://dx.doi.org/10.1101/229302 2017-12-06 CC BY-ND BrainImageR: Spatiotemporal gene set analysis referencing the human brain Sara Linker|Jonathan Y Hsu|Adela Pfaff|Debha Amatya|Shu-Meng Ko|Sarah Voter|Quinn Wong|Fred H Gage Salk Institute for Biological Studies
http://dx.doi.org/10.1101/229641 2017-12-06 Succinct De Bruijn Graph Construction for Massive Populations Through Space-Efficient Merging Martin D Muggli|Christina Boucher Department of Computer Science, Colorado State University, Fort Collins, CO;|Department of Computer and Information Science and Engineering, University of Florida, Gainesville
http://dx.doi.org/10.1101/229708 2017-12-06 CC BY-NC TahcoRoll: An Efficient Approach for Signature Profiling in Genomic Data through Variable-Length k-mers Chelsea Jui-Ting Ju|Jyun-Yu Jiang|Ruirui Li|Zeyu Li|Wei Wang UCLA
http://dx.doi.org/10.1101/229815 2017-12-06 CC BY-NC-ND Housekeeping genes, revisited at the single-cell level Yingxin Lin|Shila Ghazanfar|Dario Strbenac|Andy Wang|Ellis Patrick|Terence Speed|Jean Yang|Pengyi Yang The University of Sydney;|Bioinformatics Division, Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/229732 2017-12-06 CC BY A new CRISPR screening approach for identifying novel autophagy-related factors and cytoplasm-to-lysosome trafficking routes Christopher J Shoemaker|Tina Q Huang|Nicholas R Weir|Nicole Polyakov|Vladimir Denic Harvard University
http://dx.doi.org/10.1101/228924 2017-12-06 Latent TB infection in foreign-born communities: import vs. transmission in the Netherlands derived through mathematical modelling Hester Korthals Altes|Serieke Kloet|Frank Cobelens|Martin Bootsma National Institute for Public Health and the Environment;|Academic Medical Centre;|Utrecht University
http://dx.doi.org/10.1101/229823 2017-12-06 CC BY Transcriptomic analysis of longitudinal Burkholderia pseudomallei infecting the cystic fibrosis lung Erin P. Price|Linda T. Viberg|Timothy J. Kidd|Scott C. Bell|Bart J. Currie|Derek S. Sarovich University of the Sunshine Coast;|Menzies School of Health Research;|The University of Queensland;|QIMR Berghofer Medical Research Institute
http://dx.doi.org/10.1101/230011 2017-12-06 CC BY-NC-ND Learning from mistakes: Accurate prediction of cell type-specific transcription factor binding Jens Keilwagen|Stefan Posch|Jan Grau Julius Kuehn-Institut;|Institute of Computer Science, Martin Luther University Halle-Wittenberg
http://dx.doi.org/10.1101/229773 2017-12-06 Characterization of Gene Expression Changes Over Healthy Term Pregnancies Anna K Knight|Anne L Dunlop|Varun Kilaru|Dawayland Cobb|Elizabeth J Corwin|Karen N Conneely|Alicia K Smith Emory University
http://dx.doi.org/10.1101/229906 2017-12-06 Transfer RNA genes experience exceptionally elevated mutation rates Bryan Thornlow|Josh Hough|Jackie Roger|Henry Gong|Todd Lowe|Russell Corbett-Detig Department of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz CA 95064
http://dx.doi.org/10.1101/229674 2017-12-06 CC BY-ND Timing of host feeding drives rhythms in parasite replication Kimberley F Prior|Daan R van der Veen|Aidan J O'Donnell|Katherine Cumnock|David Schneider|Arnab Pain|Amit Subudhi|Abhinay Ramaprasad|Samuel SC Rund|Nicholas J Savill|Sarah E Reece University of Edinburgh;|University of Surrey;|Stanford University;|King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/230227 2017-12-06 CC BY Folic acid instability and bacterial metabolism combine to impact C. elegans development and ageing Claire Maynard|Ian Cummins|Jacalyn Green|David Weinkove Durham University;|Midwestern University
http://dx.doi.org/10.1101/230102 2017-12-06 CC BY-NC-ND Evolutionary plasticity in the innate immune function of Akirin Jolanta Polanowska|Jia-Xuan Chen|Julien Soule|Shizue Omi|Jerome Belougne|Clara Taffoni|Nathalie Pujol|Matthias Selbach|Olivier Zugasti|Jonathan J Ewbank CIML, Aix Marseille Univ, CNRS, INSERM, Marseille, France;|Max Delbruck Center for Molecular Medicine;|Charite-Universitatsmedizin Berlin
http://dx.doi.org/10.1101/229690 2017-12-06 CC BY-NC-ND Gene birth and constraint avoidance both contribute to structural disorder in overlapping genes Sara Willis|Joanna Masel University of Arizona
http://dx.doi.org/10.1101/230086 2017-12-06 CC BY-NC-ND pysster: Learning Sequence and Structure Motifs in DNA and RNA Sequences using Convolutional Neural Networks Stefan Budach|Annalisa Marsico Max Planck Institute for Molecular Genetics
http://dx.doi.org/10.1101/229419 2017-12-06 CC BY Patterns of selection reveal shared molecular targets over short and long evolutionary timescales Jing Li|Ignacio Vazquez-Garcia|Karl Persson|Jia-Xing Yue|Benjamin Barre|Asier Gonzalez|Michael N Hall|Anthony Long|Jonas Warringer|Ville Mustonen|Gianni Liti Institute for Research on Cancer and Aging, Nice (IRCAN);|Wellcome Trust Sanger Institute and University of Cambridge;|University of Gothenburg;|French National Centre for Scientific Research;|Université Côte d'Azur, CNRS, INSERM, IRCAN;|University of Basel;|UC Irvine;|University of Helsinki
http://dx.doi.org/10.1101/231027 2017-12-07 CC BY-NC-ND Erlang distribution predicts the number of driver events for childhood and young adulthood cancers Aleksey V Belikov Lab of Innovative Med & Agrobiotechnol, School of Biol & Medical Physics, MIPT
http://dx.doi.org/10.1101/230771 2017-12-07 A role for the Tgf-β/Bmp co-receptor Endoglin in the molecular oscillator that regulates the hair follicle cycle Maria Inmaculada Calvo Sanchez|Elisa Carrasco|Sandra Fernandez-Martos|Gema Moreno-Bueno|Carmelo Bernabeu|Miguel Quintanilla|Jesus Espada IRYCIS, Ramon y Cajal University Hospital;|IIB, CSIC-UAM;|CIB, CSIC
http://dx.doi.org/10.1101/230326 2017-12-07 Evolutionary Biology Mutation accumulation in selfing populations under fluctuating selection Eddie KH Ho|Aneil F Agrawal University of Toronto
http://dx.doi.org/10.1101/230854 2017-12-07 Evolutionary Biology CC BY-NC-ND Tuning Spatial Profiles of Selection Pressure to Modulate the Evolution of Resistance Maxwell G De Jong|Kevin B. Wood University of Michigan
http://dx.doi.org/10.1101/230318 2017-12-07 Cancer Biology CC BY What does not kill a tumour may make it stronger: in silico Insights on Chemotherapeutic Drug Resistance Sara Hamis|Perumal Nithiarasu|Gibin Powathil Department of Mathematics, College of Science, Swansea University;|Zienkiewicz Centre for Computational Engineering, Swansea University
http://dx.doi.org/10.1101/230201 2017-12-07 Systems Biology CC BY-NC-ND Metabolic and Hormonal Alterations Induced by Roux-en-Y Gastric Bypass Loqmane Seridi|Gregory C Leo|Dohm Lynis|Walter J Pories|James Lenhard Janssen Research & Development;|Brody School of Medicine, East Carolina University;|Janssen Research & Development, LLC
http://dx.doi.org/10.1101/230243 2017-12-07 Neuroscience CC BY-ND Functional connectivity of music-induced analgesia in fibromyalgia Victor M Pando-Naude|Fernando A Barrios|Sarael Alcauter|Erick Pasaye|Lene Vase|Elvira Brattico|Peter Vuust|Eduardo A. Garza-Villarreal Universidad Nacional Autónoma de México;|University of Aarhus;|Instituto Nacional de Psiquiatria
http://dx.doi.org/10.1101/230888 2017-12-07 Neuroscience CC BY-NC-ND Diminished Cortical Thickness is Associated with Impulsive Choice in Adolescence Marieta Pehlivanova|Daniel Wolf|Aristeidis Sotiras|Antonia Kaczkurkin|Tyler Moore|Rastko Ciric|Philip Cook|Angel Garcia de La Garza|Adon Rosen|Kosha Ruparel|Anup Sharma|Russell Shinohara|David Roalf|Ruben Gur|Christos Davatzikos|Raquel Gur|Joseph Kable|Theodore D Satterthwaite Department of Psychology, University of Pennsylvania;|Department of Psychiatry, Perelman School of Medicine, University of Pennsylvania;|Department of Radiology, Perelman School of Medicine, University of Pennsylvania;|Department of Biostatistics, Epidemiology, & Informatics, University of Pennsylvania
http://dx.doi.org/10.1101/230367 2017-12-07 Neuroscience Alu elements, evolution of the human brain, and the spectrum of neurological disease Peter A Larsen|Kelsie E Hunnicutt|Roxanne J Larsen|Anne D Yoder|Ann M Saunders Duke University;|Zinfandel Pharmaceuticals, Inc.
http://dx.doi.org/10.1101/230862 2017-12-07 Biophysics The Relation Between α-Helical Conformation and Amyloidogenicity Boris Haimov|Simcha Srebnik Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/230607 2017-12-07 Animal Behavior and Cognition Correlated disasters and need-based transfers: The limits of risk pooling systems in simulated ecologies Marco Campenni|Lee Cronk|Athena Aktipis Arizona State University;|Rutgers University
http://dx.doi.org/10.1101/230557 2017-12-07 Neuroscience CC BY-NC-ND The Role of Left Dorsolateral Prefrontal Cortex in Language Processing Jana Klaus|Dennis J.L.G. Schutter Radboud University
http://dx.doi.org/10.1101/230722 2017-12-07 Ecology CC BY The predictability of a lake phytoplankton community, from hours to years Mridul K. Thomas|Simone Fontana|Marta Reyes|Michael Kehoe|Francesco Pomati Technical University of Denmark;|Swiss Federal Institute of Forest, Snow and Landscape Research;|Eawag: Swiss Federal Institute of Aquatic Science and Technology;|University of Saskatchewan;|Eawag, swiss federal institue of water science and technology
http://dx.doi.org/10.1101/230474 2017-12-07 Bioinformatics CC BY Full-Length Envelope Analyzer (FLEA): A tool for longitudinal analysis of viral amplicons Kemal Eren|Steven Weaver|Robert Ketteringham|Morne Valentyn|Melissa Laird Smith|Venkatesh Kumar|Sanjay Mohan|Sergei L Kosakovsky Pond|Ben Murrell University of California, San Diego;|Temple University;|University of Cape Town;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/230615 2017-12-07 Biochemistry CC BY Dual tRNA mimicry in the Cricket Paralysis Virus IRES uncovers an unexpected similarity with the Hepatitis C Virus IRES Israel S Fernandez|Vera P Pisareva|Andrey V Pisarev Columbia University;|SUNY Downstate Medical Center, Brooklyn, NY, 11203, USA.
http://dx.doi.org/10.1101/230656 2017-12-07 Neuroscience CC BY Low-frequency alternating current stimulation rhythmically suppresses stimulus-induced gamma-band oscillations in visual cortex and impairs perceptual performance Jim D Herring|Sophie Esterer|Tom R Marshall|Ole Jensen|Til O Bergmann University of Amsterdam;|Cardiff University;|University of Oxford;|University of Birmingham;|University of Tuebingen
http://dx.doi.org/10.1101/230631 2017-12-07 Neuroscience CC BY-ND Non-Invasive Brain Stimulation to Investigate Language Production in Healthy Speakers: A Review and Meta-Analysis Jana Klaus|Dennis J.L.G. Schutter Radboud University
http://dx.doi.org/10.1101/230540 2017-12-07 Neuroscience CC BY Increasing sensitivity and accuracy of brain-wide quantitative studies in light-sheet microscopy Caroline Mullenbroich|Ludovico Silvestri|Lapo Turrini|Tommaso Alterini|Antonino Paolo Di Giovanna|Irene Costantini|Ali Gheisari|Francesco Vanzi|Leonardo Sacconi|Francesco Saverio Pavone INO-CNR;|LENS, European Laboratory for Nonlinear Spectroscopy;|LENS;|European Laboratory for Non-Linear Spectroscopy
http://dx.doi.org/10.1101/230599 2017-12-07 Neuroscience CC BY Planning and navigation as active inference Raphael Kaplan|Karl Friston University College London
http://dx.doi.org/10.1101/230789 2017-12-07 Biophysics CC BY-ND Formation of correlated chromatin domains at nanoscale dynamic resolution during transcription Haitham Ahmed Shaban|Roman Barth|Kerstin Bystricky LBME/CBi, CNRS; University of Toulouse;|LBME/CBI, CNRS; University of Toulouse
http://dx.doi.org/10.1101/230623 2017-12-07 Neuroscience CC BY-ND Putting Focus on Transcranial Direct Current Stimulation in Language Production Studies Jana Klaus|Dennis J.L.G. Schutter Radboud University
http://dx.doi.org/10.1101/230375 2017-12-07 Genetics A Very Oil Yellow1 modifier of the Oil Yellow1-N1989 allele uncovers a cryptic phenotypic impact of cis-regulatory variation in maize Rajdeep S Khangura|Sandeep Marla|Bala P Venkata|Nicholas Heller|Guri S Johal|Brian P Dilkes Purdue University;|Kansas State University;|Donald Danforth Plant Science Center;|University of Illinois
http://dx.doi.org/10.1101/230482 2017-12-07 Genomics CC BY-NC-ND Modeling the Structural Origins of Drug Resistance to Isoniazid via key Mutations in Mycobacterium tuberculosis Catalase-Peroxidase, KatG Matthew W. Marney|Robert P. Metzger|David Hecht|Faramarz Valafar Department of Chemistry and Biochemistry, San Diego State University, San Diego, CA 92182-1030;|Department of Chemistry, Southwestern College, Chula Vista, CA 91910;|San Diego State University
http://dx.doi.org/10.1101/230508 2017-12-07 Neuroscience Neural Representations Behind Social Norm Inferences In Humans Felipe Pegado|Michelle H.A. Hendriks|Steffie Amelynck|Nicky Daniels|Jessica Bulthe|Haemy Lee Masson|Bart Boets|Hans Op de Beeck KU Leuven
http://dx.doi.org/10.1101/230839 2017-12-07 Biophysics Assessment of hydrophobicity scales for protein stability and folding using energy and RMSD criteria Simcha Srebnik|Boris Haimov Technion - Israel Institute of Technology
http://dx.doi.org/10.1101/230565 2017-12-07 Epidemiology The impact of regular school closure on seasonal influenza epidemics: a data-driven spatial transmission model for Belgium Giancarlo De Luca|Kim Van Kerckhove|Pietro Coletti|Chiara Poletto|Nathalie Bossuyt|Niel Hens|Vittoria Colizza Sorbonne Universites, UPMC Univ. Paris 06, INSERM, IPLESP;|Hasselt University;|Scientific Institute of Public Health (WIV-ISP);|Hasselt University, University of Antwerp;|Sorbonne Universites, UPMC Univ. Paris 06, INSERM, IPLESP, ISI Foundation
http://dx.doi.org/10.1101/219857 2017-12-07 Epidemiology CC BY-NC-ND Climatic influence on the anthrax niche in warming northern latitudes Michael G Walsh|Allard W de Smalen|Siobhan Mor Faculty of Medicine, University of Sydney;|University of Sydney
http://dx.doi.org/10.1101/230458 2017-12-07 Neuroscience Neuronal tracing and analysis by multispectral tracing in densely labeled mouse brain Douglas H Roossien|John M Webb|Benjamin V Sadis|Yan Yan|Lia Y Min|Aslan S Dizaji|Luke J Bogart|Cristina Mazuski|Robert S Huth|Johanna S Stecher|Jeff W Lichtman|Takao K Hensch|Erik D Herzog|Dawen Cai Department of Cell and Developmental Biology, University of Michigan Medical School;|Department of Biology, Washington University in St. Louis;|Department of Neurology, Boston Children's Hospital, Harvard Medical School;|Department of Molecular and Cellular Biology, Center for Brain Science, Harvard University
http://dx.doi.org/10.1101/230300 2017-12-07 Developmental Biology Genetic knockdown and knockout approaches in Hydra Mark Lommel|Anja Tursch|Laura Rustarazo-Calvo|Benjamin Trageser|Thomas W Holstein Heidelberg University
http://dx.doi.org/10.1101/230276 2017-12-07 Biophysics CC BY-NC-ND Routine Single Particle CryoEM Sample and Grid Characterization by Tomography Alex J Noble|Venkata P Dandey|Hui Wei|Julia Brasch|Jillian Chase|Priyamvada Acharya|Yong Zi Tan|Zhening Zhang|Laura Y Kim|Giovanna Scapin|Micah Rapp|Edward T Eng|William J Rice|Anchi Cheng|Carl J Negro|Lawrence Shapiro|Peter D Kwong|David Jeruzalmi|Amedee des Georges|Clinton S Potter|Bridget Carragher Natl Resource for Automated Molecular Microscopy, New York Structural Biol Ctr;|Department of Biochemistry and Molecular Biophysics, Columbia University;|Department of Chemistry and Biochemistry, City College of New York;|Vaccine Research Center, NIAID, NIH; SEMC, NYSBC;|Department of Structural Chemistry and Chemical Biotechnology, Merck & Co., Inc.;|Vaccine Research Center, NIAID, NIH
http://dx.doi.org/10.1101/230466 2017-12-07 Systems Biology Cell Lysate Microarray for Mapping the Network of Genetic Regulators for Histone Marks Li Cheng|Cheng-xi Liu|Shuang-ying Jiang|Sha Hou|Jin-guo Huang|Zi-qing Chen|Yang-yang Sun|Huan Qi|He-wei Jiang|Jing-fang Wang|Yi-ming Zhou|Daniel Mike Czajkowsky|Jun-biao Dai|Sheng-ce Tao Shanghai Jiao Tong University;|Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences;|Beijing NeoAntigen Biotechnology Co. Ltd
http://dx.doi.org/10.1101/230268 2017-12-07 Biophysics Conformational Ensemble of RNA Oligonucleotides from Reweighted Molecular Simulations Sandro Bottaro|Giovanni Bussi|Scott D Kennedy|Douglas H Turner|Kresten Lindorff-Larsen Structural Biology & NMR Laboratory, Dept of Biology, Univ of Copenhagen;|SISSA, International School for Advanced Studies, Trieste, Italy;|Dept of Biochemistry & Biophysics, Univ of Rochester School of Med & Dentistry;|Department of Chemistry, University of Rochester
http://dx.doi.org/10.1101/229294 2017-12-07 Developmental Biology CC BY Cardiac directed differentiation using small molecule Wnt modulation at single-cell resolution Clayton Friedman|Quan Nguyen|Samuel Lukowski|Abbigail Helfer|Han Chiu|Holly Voges|Shengbao Suo|Jing-Dong Han|Pierre Osteil|Guangdun Peng|Naihe Jing|Greg Ballie|Anne Senabouth|Angelika Christ|Timothy Bruxner|Charles Murry|Emily Wong|Jun Ding|Yuliang Wang|James Hudson|Ziv Bar-Joseph|Patrick Tam|Joseph Powell|Nathan Palpant Institute for Molecular Bioscience;|School of Biomedical Sciences The University of Queensland,;|Chinese Academy of Sciences;|Childrens Medical Research Institute;|Shanghai Institute of Biochemistry and Cell Biology;|Institute for Molecular Bioscience,;|The University of Washington;|Carnegie Mellon University;|University of Washington;|University of Sydney
http://dx.doi.org/10.1101/230649 2017-12-07 Developmental Biology CC BY-NC-ND Continuous addition of progenitors forms the cardiac ventricle in zebrafish Anastasia Felker|Karin D. Prummel|Anne M. Merks|Michaela Mickoleit|Eline C. Brombacher|Jan Huisken|Daniela Panakova|Christian Mosimann Institute of Molecular Life Sciences, University of Zurich, Zurich, Switzerland;|Max Delbruck Ctr for Molecular Medicine in the Helmholtz Assoc, Berlin, Germany;|Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany;|Morgridge Institute for Research, Madison, Wisconsin, USA
http://dx.doi.org/10.1101/230698 2017-12-07 Physiology CC BY Mycobacterium tuberculosis LprE enhances bacterial persistence by inhibiting cathelicidin and autophagy in macrophages Avinash Padhi|Ella Bhagyaraj|Mehak Khan|Mainak Biswas|Srabasti Sengupta|Geetanjali Ganguli|Manaswini Jagadeb|Ananyaashree Behera|Kaliprasad Pattanaik|Ishani Das|Pawan Gupta|Vinay Nandicoori|Avinash Sonawane KIIT University;|The Institute of Microbial Technology;|National Institute of Immunology;|Institute of Microbial Technology
http://dx.doi.org/10.1101/230706 2017-12-07 Cell Biology NuMA is a negative regulator of 53BP1 in DNA double-strand break repair Naike Salvador-Moreno|Jing Liu|Karen Haas|Laurie Parker|Chaitali Chakraborty|Stephen Kron|Kurt Hodges|Lance Miller|Paul Robinson|Sophie Lelievre|Pierre-Alexandre Vidi Wake Forest School of Medicine;|Indiana University-Purdue University Indianapolis;|University of Minnesota;|University of Chicago;|University of Kentucky;|Purdue University
http://dx.doi.org/10.1101/229963 2017-12-07 Evolutionary Biology CC BY-ND A delay-deterministic model for inferring fitness effects from time-resolved genome sequence data Nuno R Nene|Alistair S Dunham|Christopher J R Illingworth University of Cambridge
http://dx.doi.org/10.1101/229864 2017-12-07 Evolutionary Biology CC BY Speciation in sympatry with ongoing secondary gene flow and an olfactory trigger in a radiation of Cameroon cichlids Jelmer W Poelstra|Emilie J Richards|Christopher Martin University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/230219 2017-12-07 Ecology Collective animal navigation and migratory culture: from theoretical models to empirical evidence Andrew Berdahl|Albert Kao|Andrea Flack|Peter Westley|Edward Codling|Iain Couzin|Anthony Dell|Dora Biro University of Washington;|Harvard University;|Max Planck Institute for Ornithology;|University of Alaska Fairbanks;|University of Essex;|National Great Rivers Research and Education Center;|University of Oxford
http://dx.doi.org/10.1101/230292 2017-12-07 Evolutionary Biology Understanding the evolution of anisogamy in the early diverging fungus, Allomyces Sujal Phadke|Shawn Rupp|Melissa Wilson-Sayres J Craig Venter Institute;|Arizona State University, Tempe, AZ
http://dx.doi.org/10.1101/230342 2017-12-07 Evolutionary Biology CC BY-NC-ND Copy number variation of ampliconic genes across major human Y haplogroups Danling Ye|Arslan A Zaidi|Marta Tomaszkiewicz|Corey Liebowitz|Mark D Shriver|Kateryna D Makova The Pennsylvania State University
http://dx.doi.org/10.1101/230078 2017-12-07 Neuroscience CC BY Top-down sharpening of hierarchical visual feature representations Mohamed Abdelhack|Yukiyasu Kamitani Kyoto University
http://dx.doi.org/10.1101/230235 2017-12-07 Neuroscience Methods for chair restraint and training of the common marmoset on oculomotor tasks Kevin D Johnston|Kevin Barker|Lauren Schaeffer|David Schaeffer|Stefan Everling Department of Physiology and Pharmacology, University of Western Ontario;|Neuronitek, London, Ontario, Canada;|Robarts Research Institute, London, Ontario, Canada
http://dx.doi.org/10.1101/229989 2017-12-07 Neuroscience Criterion Setting Modulates Neural Excitability of Human Visual Cortex Niels A Kloosterman|Jan Willem de Gee|Markus Werkle-Bergner|Douglas D. Garrett|Johannes Jacobus Fahrenfort Max Planck UCL Centre for Computational Psychiatry;|Dept of Neurophysiology & Pathophysiology, Univ Med Ctr Hamburg-Eppendorf;|Max Planck Institute for Human Development;|Vrije Universiteit Amsterdam
http://dx.doi.org/10.1101/230490 2017-12-07 Neuroscience CC BY-NC-ND Controlling motion artefact levels in MR images by suspending data acquisition during periods of head motion Remi Castella|Lionel Arn|Estelle Dupuis|Martina Callaghan|Bogdan Draganski|Antoine Lutti University Hospital of Lausanne;|Ecole Polytechnique Federale de Lausanne;|Wellcome Trust Center for Neuroimaging
http://dx.doi.org/10.1101/227579 2017-12-08 Epidemiology CC BY-NC-ND Excess deaths associated with the chikungunya epidemic of 2014 in Jamaica were higher among children under 5 and over 40 years of age, an analysis based on official data. Andre Ricardo Ribas Freitas|Maria Rita Donalisio Sao Leopoldo Mandic Medical School;|Universidade Estadual de Campinas, Faculdade de Ciencias Medicas, Campinas, SP, Brasil
http://dx.doi.org/10.1101/229955 2017-12-08 Genomics CC BY-NC-ND Decoding the chromatin proteome of a single genomic locus by DNA sequencing Tessy Korthout|Deepani Poramba-Liyanage|Kitty Verzijlbergen|Tibor van Welsem|Fred van Leeuwen Netherlands Cancer Institute
http://dx.doi.org/10.1101/231134 2017-12-08 Epidemiology CC BY-NC-ND Efficacy of Aedes aegypti control by indoor Ultra Low Volume (ULV) insecticide spraying in Iquitos, Peru Christian Gunning|Kenichi Okamoto|Helvio Astete|Gissella Vasquez|Erik Erhardt|Clara Del Aguila|Raul Pinedo|Roldan Cardenas|Carlos Pacheco|Enrique Chalco|Hugo Rodriguez-Ferruci|Thomas W Scott|Alun L Lloyd|Fred Gould|Amy Morrison NCSU;|NAMRU-6;|UC Davis
http://dx.doi.org/10.1101/230045 2017-12-08 Epidemiology CC BY-NC-ND Farm productive realities and the dynamics of bovine viral diarrhea (BVD) transmission Bryan Iotti|Eugenio Valdano|Lara Savini|Luca Candeloro|Armando Giovannini|Sergio Rosati|Vittoria Colizza|Mario Giacobini University of Turin;|Universitat Rovira i Virgili;|Istituto Zooprofilattico Sperimentale dell'Abruzzo e del Molise;|Universitá degli Studi di Torino;|Institut Pierre Louis d'Epidemiologie et de Santé Publique
http://dx.doi.org/10.1101/231001 2017-12-08 Genomics CC BY-NC-ND Prioritizing Parkinson's Disease genes using population-scale transcriptomic data Yang I Li|Garrett Wong|Jack Humphrey|Towfique Raj Section of Genetic Medicine;|Icahn School of Medicine at Mount Sinai;|University College London
http://dx.doi.org/10.1101/231159 2017-12-08 Neuroscience Emergence of dynamically reconfigurable hippocampal responses by learning to perform probabilistic spatial reasoning Ingmar Kanitscheider|Ila Fiete University of Texas at Austin
http://dx.doi.org/10.1101/231373 2017-12-08 Epidemiology CC BY-NC Measuring mosquito-borne viral suitability and its implications for Zika virus transmission in Myanmar Pablo N Perez|Luiz CJ Alcantara|Uri Obolski|Maricelia Maia de Lima|Elizabeth Ashley|Frank Smithuis|Peter Horby|Richard Maude|Jose Lourenco Imperial College London;|Laboratory of Haematology, Genetics and Computational Biology, FIOCRUZ, Brazil;|Department of Zoology, University of Oxford, UK;|Myanmar-Oxford Clinical Research Unit, Yangon;|Nuffield Department of Medicine, University of Oxford, UK;|Mahidol-Oxford Tropical Medicine Research Unit, Thailand
http://dx.doi.org/10.1101/228445 2017-12-08 Epidemiology CC BY-NC-ND Excess mortality in Guadeloupe and Martinique, islands of the French West Indies, during the chikungunya epidemic of 2014 Andre Ricardo Ribas Freitas|Pedro Maria Alarcon-Elbal|Maria Rita Donalisio Sao Leopoldo Mandic Medical School;|Univ. Iberoamericana, Inst. de Medicina Tropical & Salud Global, Santo Domingo;|State Univ of Campinas, Fac of Med Sciences, Public Health, Campinas, Sao Paulo
http://dx.doi.org/10.1101/230516 2017-12-08 Bioinformatics PERSONAL GENOMICS: new concepts for future community data banks Guy E. Dodin Universite Paris Diderot, Laboratoire ITODYS
http://dx.doi.org/10.1101/230532 2017-12-08 Evolutionary Biology CC BY-NC-ND Complex multicellularity in fungi: evolutionary convergence, single origin, or both? Laszlo Nagy|Krisztina Krizsan Hungarian Academy of Sciences, Biological Research Center;|Biological Research Center, Synthetic and Systems Biology Unit
http://dx.doi.org/10.1101/230524 2017-12-08 Genetics CC BY-NC-ND Is there association between APOE e4 genotype and structural brain ageing phenotypes, and does that association increase in older age in UK Biobank? (N = 8,395) Donald M. Lyall|Simon R. Cox|Laura M. Lyall|Carlos Celis-Morales|Breda Cullen|Daniel F. Mackay|Joey Ward|Rona J. Strawbridge|Andrew M. McIntosh|Naveed Sattar|Daniel J. Smith|Jonathan Cavanagh|Ian J. Deary|Jill P. Pell University of Glasgow;|University of Edinburgh
http://dx.doi.org/10.1101/231290 2017-12-08 Neuroscience Increased microglial synapse elimination in patient-specific models of schizophrenia Carl M Sellgren|Jessica Gracias|Bradley Watmuff|Carleton P Goold|Jessica M Thanos|Ting Fu|Rakesh Karmacharya|Hannah E Brown|Jennifer Wang|Steven D Sheridan|Roy H Perlis Massachusetts General Hospital;|Novartis Institutes of BioMedical Research
http://dx.doi.org/10.1101/230896 2017-12-08 Neuroscience White Matter Hyperintensities and Cognitive Decline in de Novo Parkinson's Disease Patients Mahsa Dadar|Yashar Zeighami|Yvonne Yau|Seyed-Mohammad Fereshtehnejad|Josefina Maranzano|Ronald B. Postuma|Alain Dagher|D. Louis Collins McGill University
http://dx.doi.org/10.1101/231217 2017-12-08 Bioinformatics CC BY-NC Defining a landscape of molecular phenotypes using a simple single sample scoring method Momeneh Foroutan|Dharmesh Bhuva|Kristy Horan|Ruqian Lyu|Joseph Cursons|Melissa J Davis The Walter and Eliza Hall Institute of Medical Research
http://dx.doi.org/10.1101/226613 2017-12-08 Epidemiology Cross-reactive immunity drives global oscillation and opposed alternation patterns of seasonal influenza A viruses Lorenzo Gatti|Jitao David Zhang|Maria Anisimova|Martin Schutten|Albert Osterhaus|Erhard van der Vries Institute of Applied Simulations, Zurich University of Applied Sciences, Switzerland;|Hoffmann-La Roche Ltd.;|Clinical Virology and Diagnostics, the Netherlands;|Res. Ctr. for Emerging Infections & Zoonoses, Veterinary Univ. Hannover, Germany;|Dept. of Infectious Diseases & Immunology, Faculty of Veterinary Med., Utrecht Univ.
http://dx.doi.org/10.1101/231092 2017-12-08 Microbiology Programmable transport of micro- and nanoparticles by Paramecium caudatum Richard Mayne|Jack Morgan|Neil Phillips|James Whiting|Andrew Adamatzky University of the West of England
http://dx.doi.org/10.1101/230961 2017-12-08 Neuroscience Spatio-Temporal Pattern of Appraising Social and Emotional Relevance: Evidence from Event-Related Brain Potentials Annekathrin Schacht|Pascal Vrticka University of Goettingen, Institute for Psychology;|Max Planck Inst for Human Cognitive & Brain Sciences, Dept of Social Neuroscience
http://dx.doi.org/10.1101/230250 2017-12-08 Neuroscience CC BY-NC To be a Grid Cell: Shuffling procedures for determining 'Gridness' Caswell Barry|Neil Burgess UCL
http://dx.doi.org/10.1101/230417 2017-12-08 Biophysics CC BY-NC-ND Repertoire analysis of antibody CDR-H3 loops suggests affinity maturation does not typically result in rigidification Jeliazko R. Jeliazkov|Adnan Sljoka|Daisuke Kuroda|Nobuyuki Tsuchimura|Naoki Katoh|Kouhei Tsumoto|Jeffrey J. Gray Johns Hopkins University;|Kwansei Gakuin University;|University of Tokyo
http://dx.doi.org/10.1101/229856 2017-12-08 Animal Behavior and Cognition CC BY BEHAVIORAL VARIABILITY AS A MEASURE OF SUBTLE PHENOTYPIC TRAIT EXPRESSION OF MOUSE EXECUTIVE FUNCTION DISTORTION Pavel Prosselkov|Qi Zhang|Hiromichi Goto|Denis Polygalov|Thomas J. McHugh|Shigeyoshi Itohara Brain Science Institute, RIKEN, Japan;|Brain Science Institute, RIKEN, JAPAN
http://dx.doi.org/10.1101/230193 2017-12-08 Microbiology ANTISEPTIC AGENTS ELICIT SHORT-TERM, PERSONALIZED AND BODY SITE-SPECIFIC SHIFTS IN RESIDENT SKIN BACTERIAL COMMUNITIES Adam J SanMiguel|Jacquelyn S Meisel|Joseph Horwinski|Qi Zheng|Charles W Bradley|Elizabeth Grice University of Pennsylvania
http://dx.doi.org/10.1101/230680 2017-12-08 Microbiology The Combined activities of FtsW and MurJ are required for lipid II translocation during cell division in Escherichia coli Xiaolong Liu|Nils Y Meiresonne|Ahmed Bouhss|Tanneke den Blaauwen Univeristy of Amsterdam;|University of Amsterdam;|Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Univ Paris-Sud, University Paris-S;|University of Amsterdam, SILS, Bacterial Cell Biology
http://dx.doi.org/10.1101/230904 2017-12-08 Microbiology Diversity and evolution of the emerging Pandoraviridae family Matthieu Legendre|Elisabeth Fabre|Olivier Poirot|Sandra Jeudy|Audrey Lartigue|Jean-Marie Alempic|Laure Beucher|Nadege Philippe|Lionel Bertaux|Karine Labadie|Yohann Coute|Chantal Abergel|Jean-Michel Claverie IGS, UMR7256 Aix-Marseille University CNRS;|BIG-BGE, Univ. Grenoble Alpes, CEA, INSERM;|CEA-Institut de Genomique
http://dx.doi.org/10.1101/230094 2017-12-08 Bioinformatics ProGeM: A framework for the prioritisation of candidate causal genes at molecular quantitative trait loci David Stacey|Eric Fauman|Daniel Ziemek|Benjamin Sun|Eric Harshfield|Angela Wood|Adam Butterworth|Karsten Suhre|Dirk Paul University of Cambridge;|Pfizer Worldwide Research and Development;|Weill-Cornell Medicine-Qatar
http://dx.doi.org/10.1101/226688 2017-12-08 Neuroscience Generative adversarial networks for reconstructing natural images from brain activity K. Seeliger|U. Guclu|L. Ambrogioni|Y. Gucluturk|M. A. J. van Gerven Radboud University, Donders Institute for Brain, Cognition and Behaviour
http://dx.doi.org/10.1101/230110 2017-12-08 Neuroscience Effort distribution changes effector choice, behaviour and performance: A visuomotor tracking study using finger forces Satishchandra Salam|Varadhan SKM Indian Institute of Technology Madras
http://dx.doi.org/10.1101/230995 2017-12-08 Neuroscience Inhibition of Glyoxalase 1 reduces alcohol self-administration in dependent and nondependent rats Giordano de Guglielmo|Dana Conlisk|Amanda Barkley-Levenson|Abraham Palmer|Olivier George The Scripps Research Institute;|University of California San Diego
http://dx.doi.org/10.1101/230151 2017-12-08 Molecular Biology CC BY-NC-ND Spotiton: New Features and Applications Venkata P Dandey|Hui Wei|Zhening Zhang|Yong Zi Tan|Priyamvada Acharya|Edward T Eng|William J Rice|Peter A Kahn|Clinton S. Potter|Bridget Carragher New York Structural Biology Center;|Engineering Arts
http://dx.doi.org/10.1101/231357 2017-12-08 Developmental Biology CC BY Rif1 prolongs the embryonic S phase at the Drosophila mid-blastula transition Charlers A Seller|Patrick H O'Farrell University of California, San Francisco, United States
http://dx.doi.org/10.1101/229872 2017-12-08 Ecology CC BY-ND Earthquake-induced habitat migration in a riparian spawning fish: implications for conservation management Shane Orchard|Michael J. H. Hickford|David R. Schiel University of Canterbury;|Marine Ecology Research Group, University of Canterbury
http://dx.doi.org/10.1101/230847 2017-12-08 Paleontology Terrestrial effects of moderately nearby supernovae Adrian L. Melott|Brian C. Thomas University of Kansas;|Washburn University
http://dx.doi.org/10.1101/231241 2017-12-08 Microbiology CC BY-ND Identification and characterization of siderophore producing arsenic tolerant Staphylococcus sp. TA6 and its possible involvement in arsenic geocycle Saurav Das|Madhumita Barooah Department of Agricultural Biotechnology, Assam Agricultural University
http://dx.doi.org/10.1101/224584 2017-12-08 Evolutionary Biology CC BY-NC-ND An endogenous amdoparvovirus in the genome of the Transcaucasian mole vole (Ellobius lutescens): implications for ecology and evolution of carnivore amdoparvoviruses. Robert James Gifford|Soledad Marsile-Medun MRC-University of Glasgow Centre for Virus Research;|Agrocampus Ouest
http://dx.doi.org/10.1101/230003 2017-12-08 Neuroscience CC BY-NC-ND Autistic traits, but not schizotypy, predict overweighting of sensory information in Bayesian visual integration Povilas Karvelis|Aaron R Seitz|Stephen M Lawrie|Peggy Series University of Edinburgh;|University of California Riverside
http://dx.doi.org/10.1101/230185 2017-12-08 Animal Behavior and Cognition Spatiotemporal information is differentially conveyed by hippocampal projections to the anterior olfactory nucleus during episodic-like odour memory. Afif J. Aqrabawi|Junchul Kim Department of Cell and Systems Biology, University of Toronto;|Department of Psychology, University of Toronto
http://dx.doi.org/10.1101/231415 2017-12-08 Systems Biology CC BY-NC-ND Identification of Gene Regulation Models from Single-Cell Data Lisa Weber|William Raymond|Brian Munsky Colorado State University
http://dx.doi.org/10.1101/230383 2017-12-08 Ecology CC BY-NC-ND Seasonal temperature variation influences climate suitability for dengue, chikungunya, and Zika transmission John H Huber|Marissa L Childs|Jamie M Caldwell|Erin A Mordecai University of Notre Dame;|Stanford University
http://dx.doi.org/10.1101/231118 2017-12-08 Bioinformatics CC BY-NC-ND Comparative Annotation Toolkit (CAT) - simultaneous clade and personal genome annotation Ian T Fiddes|Joel Armstrong|Mark Diekhans|Stefanie Nachtweide|Zev N Kronenberg|Jason G Underwood|David Gordon|Dent Earl|Thomas Keane|Evan E Eichler|David Haussler|Mario Stanke|Benedict Paten UC Santa Cruz;|University of Greifswald;|University of Washington School of Medicine;|Pacific Biosciences;|European Bioinformatics Institute
http://dx.doi.org/10.1101/231399 2017-12-08 Neuroscience CC BY Drosophila Fezf coordinates laminar-specific connectivity through cell-intrinsic and cell-extrinsic mechanisms Matthew Pecot|Ivan Santiago|Jing Peng|Curie Ahn|Burak Gur|Chundi Xu|Aziz Karakhanyan|Marion Silies Harvard Medical School, United States;|European Neuroscience Institute, United States
http://dx.doi.org/10.1101/231019 2017-12-08 Neuroscience CC BY-NC-ND Shared understanding is correlated with shared neural responses in the default mode network Mai Nguyen|Tamara Vanderwal|Uri Hasson Princeton;|Yale
http://dx.doi.org/10.1101/230672 2017-12-08 Neuroscience Locating highly correlated sources from MEG with (recursive) (R)DS-MUSIC Niko Makela|Matti Stenroos|Jukka Sarvas|Risto Ilmoniemi Department of Neuroscience and Biomedical Engineering, Aalto University
http://dx.doi.org/10.1101/231381 2017-12-08 Neuroscience CC BY Feature-specific awake reactivation in human V1 after visual training Ji Won Bang|Yuka Sasaki|Takeo Watanabe|Dobromir Rahnev New York University, United States;|Brown University, United States;|Brown;|Georgia Institute of Technology, United States
http://dx.doi.org/10.1101/231233 2017-12-08 Bioinformatics CC BY-ND HumCFS: A database of fragile sites in human chromosomes Rajesh Kumar|Gandharva Nagpal|Vinod Kumar|Salman Sadullah Usmani|Piyush Agrawal|Gajendra Pal Singh Raghava CSIR-Institute of Microbial Technology, Chandigarh 160036, India;|Center for Computational Biology, Indraprastha Institute of Information Technology, New Delhi 110020
http://dx.doi.org/10.1101/231050 2017-12-08 Evolutionary Biology Rapid diversification of Pseudomonas aeruginosa in cystic fibrosis lung-like conditions Alana Schick|Rees Kassen University of Ottawa
http://dx.doi.org/10.1101/231076 2017-12-08 Genetics CC BY-NC-ND Examination of the Shared Genetic Basis of Anorexia Nervosa and Obsessive-Compulsive Disorder Zeynep Yilmaz|Matthew Halvorsen|Julien Bryois|Dongmei Yu|Laura M. Thornton|Stephanie Zerwas|Nadia Micali|Rainald Moessner|Christie L. Burton|Gwyneth Zai|Lauren Erdman|Martien J. Kas|Paul D. Arnold|Lea K. Davis|James A. Knowles|Gerome Breen|Jeremiah M. Scharf|Gerald Nestadt|Carol A. Mathews|Cynthia M. Bulik|Manuel Mattheisen|James J. Crowley Department of Psychiatry, University of North Carolina at Chapel Hill;|Department of Genetics, University of North Carolina at Chapel Hill;|Department of Medical Epidemiology and Biostatistics, Karolinska Institutet;|Department of Psychiatry, Massachusetts General Hospital, Harvard Medical School;|-;|Department of Psychiatry, Faculty of Medicine, University of Geneva;|Department of Psychiatry and Psychotherapy, University of Tuebingen;|Genetics & Genome Biology, The Hospital for Sick Children, Toronto;|Department of Psychiatry, University of Toronto;|Groningen Institute for Evolutionary Life Sciences, University of Groningen;|Div of Genetic Medicine, Dept of Medicine, Vanderbilt University Medical Center;|Department of Psychiatry, University of Southern California, Los Angeles;|Institute of Psychiatry, Psychology & Neuroscience, King's College London;|Dept of Psychiatry and Behavioral Science, Johns Hopkins University;|Department of Psychiatry, Genetics Institute, University of Florida, Gainesville;|Department of Biomedicine, Aarhus University
http://dx.doi.org/10.1101/230359 2017-12-08 Bioinformatics Long Read Annotation (LoReAn): automated eukaryotic genome annotation based on long-read cDNA sequencing David Cook|Jose Espejo Valle-Inclan|Alije Pajoro|Hanna Rovenich|Bart Thomma|Luigi Faino Kansas State University;|Wageningen University
http://dx.doi.org/10.1101/231316 2017-12-08 Cancer Biology CC BY-NC-ND A Multifactorial Model of T Cell Expansion and Durable Clinical Benefit in Response to a PD-L1 Inhibitor Mark DM Leiserson|Vasilis Syrgkanis|Amy Gilson|Miroslav Dudik|Samuel Funt|Alexandra Snyder|Lester Mackey University of Maryland, College Park;|Microsoft Research New England;|California Council on Science and Technology;|Microsoft Research New York;|Memorial Sloan Kettering Cancer Center;|Adaptive Biotechnologies
http://dx.doi.org/10.1101/230953 2017-12-08 Bioinformatics CC BY-NC-ND Comparative systems analysis of the secretome of the opportunistic pathogen Aspergillus fumigatus and other Aspergillus species R.P. Vivek-Ananth|Karthikeyan Mohanraj|Muralidharan Vandanashree|Anupam Jhingran|James P. Craig|Areejit Samal Institute of Mathematical Sciences, Homi Bhabha National Institute, Chennai, India;|Stony Brook University, Stony Brook, New York 11794-3369, USA
http://dx.doi.org/10.1101/231100 2017-12-08 Cell Biology Extended logistic growth model for heterogeneous populations Wang Jin|Scott McCue|Matthew Simpson Queensland University of Technology
http://dx.doi.org/10.1101/231068 2017-12-08 Systems Biology Increased glutaminolytic flux and activation of mitochondrial metabolism by BCL2 hyperactivity in lymphoma Kirandeep Kaur|Simar Singh|Helma Zecena|Laurent Dejean|Fabian Volker Filipp University of California Merced, Systems Biology and Cancer Metabolism;|California State University of Fresno
http://dx.doi.org/10.1101/230946 2017-12-08 Genomics CC BY-NC-ND Resolving the Full Spectrum of Human Genome Variation using Linked-Reads Patrick Marks|Sara Garcia|Alvaro Martinez Barrio|Kamila Belhocine|Jorge Bernate|Rajiv Bharadwaj|Keith Bjornson|Claudia Catalanotti|Josh Delaney|Adrian Fehr|Brendan Galvin|Haynes Heaton|Jill Herschleb|Christopher Hindson|Esty Holt|Cassandra B. Jabara|Susanna Jett|Nikka Keivanfar|Sofia Kyriazopoulou-Panagiotopoulou|Monkol Lek|Bill Lin|Adam Lowe|Shazia Mahamdallie|Shamoni Maheshwari|Tony Makarewicz|Jamie Marshall|Francesca Meschi|Chris O'keefe|Heather Ordonez|Pranav Patel|Andrew Price|Ariel Royall|Elise Ruark|Sheila Seal|Michael Schnall-Levin|Preyas Shah|Stephen Williams|Indira Wu|Andrew Wei Xu|Nazneen Rahman|Daniel MacArthur|Deanna M. Church 10x Genomics, Inc.;|10x Genomics, Inc.; Wellcome Trust Sanger Institute; University of Cambridge;|10x Genomics, Inc.; Purigen Biosystems, Inc.;|10x Genomics, Inc.; Illumina, Inc.;|The Institute of Cancer Research;|Broad Institute of MIT and Harvard;|Massachusetts General Hospital; Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/231282 2017-12-08 Bioinformatics CC BY-NC-ND Show me your neighbours, and I'll tell you what you are - cellular microenvironment matters Timea Toth|Tamas Balassa|Norbert Bara|Ferenc Kovacs|Andras Kriston|Csaba Molnar|Lajos Haracska|Farkas Sukosd|Peter Horvath Biological Research Centre of the Hungarian Academy of Sciences;|Single-Cell Technologies Ltd;|University of Szeged
http://dx.doi.org/10.1101/230797 2017-12-08 Genetics CC BY-NC-ND Insular Celtic population structure and genomic footprints of migration Ross P. Byrne|Rui Martiniano|Lara M. Cassidy|Matthew Carrigan|Garrett Hellenthal|Orla Hardiman|Daniel G Bradley|Russell L McLaughlin Smurfit Institute of Genetics, Trinity College Dublin;|Wellcome Trust Sanger Institute, Cambridge, United Kingdom;|UCL Genetics Institute, Department of Genetics, Evolution and Environment, University College London;|Academic Unit of Neurology, Trinity Biomedical Sciences Institute, Trinity College Dublin
http://dx.doi.org/10.1101/230920 2017-12-08 Genetics CC BY-NC-ND Genome wide association study of behavioral, physiological and gene expression traits in a multigenerational mouse intercross Natalia M. Gonzales|Jungkyun Seo|Ana Isabel Hernandez-Cordero|Celine L. St. Pierre|Jennifer S. Gregory|Margaret G. Distler|Mark Abney|Stefan Canzar|Arimantas Lionikas|Abraham A Palmer University of Chicago;|Duke University;|University of Aberdeen;|Washington University at St. Louis;|Ludwig-Maximilians-Universitat Munchen;|University of California, San Diego
http://dx.doi.org/10.1101/229013 2017-12-08 Immunology CC BY-NC-ND Deep Sequencing Reveals Transient Segregation of T Cell Repertoires in Splenic T Cell Zones During an Immune Response Johannes Textor|Anke Fahnrich|Martin Meinhardt|Cornelia Tune|Sebastian Klein|Rene Pagel|Peter Konig|Kathrin Kalies|Jurgen Westermann Department of Tumor Immunology, Radboud Institute for Molecular Life Sciences, Nijmegen, NL;|Center for Structural and Cell Biology in Medicine, Institute of Anatomy, University Lübeck, DE
http://dx.doi.org/10.1101/230938 2017-12-08 Biochemistry CC BY-NC-ND Nicotinamide mononucleotide (NMN) affords cardioprotection by stimulating glycolysis Sergiy Nadtochiy|Yves T Wang|Keith Nehrke|Joshua Munger|Paul S Brookes University of Rochester Medical Center
http://dx.doi.org/10.1101/230987 2017-12-08 Systems Biology CC BY-NC-ND A deep mutational scan of an acidic activation domain Max V Staller|Alex S Holehouse|Devjanee Swain-Lenz|Rahul K Das|Rohit V Pappu|Barak A Cohen Washington University in St. Louis;|Duke
http://dx.doi.org/10.1101/230409 2017-12-08 Ecology CC BY Assembly-free and alignment-free sample identification using genome skims Shahab Sarmashghi|Kristine Bohmann|M. Thomas P. Gilbert|Vineet Bafna|Siavash Mirarab University of California, San Diego;|University of Copenhagen
http://dx.doi.org/10.1101/231258 2017-12-08 Genomics CC BY-NC-ND The fruitENCODE project sheds light on the genetic and epigenetic basis of convergent evolution of climacteric fruit ripening Peitao Lv|Sheng Yu|Ning Zhu|Yun-Ru Chen|Biyan Zhou|Yu Pan|David Tzeng|Joao Paulo Fabi|Jordi Garcia-Mas|Nenghui Ye|Jianhua Zhang|Donald Grierson|Zhangjun Fei|Jim Giovannoni|silin zhong State Key Laboratory of Agrobiotechnology, School of Life Sciences, The Chinese University of Hong K;|College of Horticulture, South China Agricultural University, Guangzhou, China;|College of Horticulture and Landscape Architecture, Southwest University, China;|Department of Food Science and Experimental Nutrition, FCF, University of Sao Paulo, Sao Paulo, Braz;|IRTA, Centre for Research in Agricultural Genomics CSIC-IRTA-UAB-UB, Barcelona, Spain;|Department of Biology, Hong Kong Baptist University. Hong Kong, China;|Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University,;|Boyce Thompson Institute for Plant Research, Cornell University, Ithaca, New York, USA;|The Chinese University of Hong Kong
http://dx.doi.org/10.1101/231365 2017-12-08 Plant Biology CC BY-NC-ND BRUTUS-LIKE proteins moderate the transcriptional response to iron deficiency in roots Jorge Rodriguez-Celma|Robert T Green|James M Connorton|Inga Kruse|Yan Cui|Hong Qing Ling|Janneke Balk John Innes Centre;|Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/231035 2017-12-08 Molecular Biology CC BY-NC-ND Increasing Cas9-mediated homology-directed repair efficiency through covalent tethering of DNA repair template Eric J Aird|Klaus N Lovendahl|Amber St. Martin|Reuben S Harris|Wendy R Gordon University of Minnesota
http://dx.doi.org/10.1101/231167 2017-12-08 Ecology CC BY-NC-ND Marine proteorhodopsins rival photosynthesis in solar energy capture Laura Gomez-Consarnau|Naomi M Levine|Lynda S Cutter|Deli Wang|Brian Seegers|Javier Aristegui|Jed A Fuhrman|Josep M Gasol|Sergio A Sanudo-Wilhelmy Department of Biological Sciences, University of Southern California, 90089 Los Angeles, CA, USA;|State Key Laboratory of Marine Environmental Science, Xiamen University, 361005 Xiamen, China;|Universidad de Las Palmas de Gran Canaria, 35017 Las Palmas de Gran Canaria, Spain;|Institut de Ciències del Mar-CMIMA (CSIC), 08003, Barcelona, Spain
http://dx.doi.org/10.1101/231043 2017-12-08 Plant Biology LRX- and FER-dependent extracellular sensing coordinates vacuolar size for cytosol homeostasis Kai Dunser|Shibu Gupta|Christoph Ringli|Jurgen Kleine-Vehn Dept of Applied Genetics & Cell Biology, Univ of Natural Resources & Life Sciences;|Institute of Plant and Microbial Biology, University of Zurich, Switzerland
http://dx.doi.org/10.1101/225359 2017-12-07 Genomics CC BY Population genomics of hypervirulent Klebsiella pneumoniae clonal group 23 reveals early emergence and rapid global dissemination Margaret MC Lam|Kelly L Wyres|Sebastian Duchene|Ryan R Wick|Louise M Judd|Yunn-Hwen Gan|Chu-Han Hoh|Sophia Achuleta|James Molton|Shirin Kalimuddin|Tse Hsien Koh|Virginie Passet|Sylvain Brisse|Kathryn E Holt Dept of Biochem & Molec Biol, Bio21 Molec Sci & Biotech Inst, Univ of Melbourne;|Dept of Biochemistry, Yong Loo Lin School of Medicine, Natl Univ of Singapore;|Dept of Medicine, Yong Loo Lin School of Medicine, Natl Univ of Singapore;|Department of Infectious Diseases, Singapore General Hospital;|Department of Microbiology, Singapore General Hospital;|Institut Pasteur, Microbial Evolutionary Genomics
http://dx.doi.org/10.1101/230144 2017-12-07 Neuroscience CC BY Zebrafish differentially process colour across visual space to match natural scenes Maxime JY Zimmermann|Noora E Nevala|Takeshi Yoshimatsu|Daniel Osorio|Dan-Eric Nilsson|Philipp Berens|Tom Baden University of Sussex, UK;|University of Lund, Sweden;|Tuebingen University, Germany
http://dx.doi.org/10.1101/231142 2017-12-07 Systems Biology Systems biology analysis of mitogen activated protein kinase inhibitor resistance in malignant melanoma Helma Zecena|Daniel Tveit|Zi Wang|Ahmed Farhat|Parvita Panchal|Jing Liu|Simar Singh|Amandeep Sanghera|Ajay Bainiwal|Shuan Teo|Frank Meyskens|Feng Liu-Smith|Fabian Volker Filipp University of California Merced, Systems Biology and Cancer Metabolism;|University of California Irvine, School of Medicine, Chao Family Comprehensive Cancer Center
http://dx.doi.org/10.1101/231175 2017-12-07 Bioinformatics CC BY-ND Differential expression analysis of log-ratio transformed counts: benchmarking methods for RNA-Seq data Thomas Quinn|Tamsyn Crowley|Mark Richardson Deakin University;|University of New England
http://dx.doi.org/10.1101/231605 2017-12-08 CC BY-NC-ND High resolution in situ structural determination of heterogeneous specimen Benjamin Himes|Peijun Zhang University of Pittsburgh School of Medicine, HHMI Janelia Research Campus;|University of Oxford
http://dx.doi.org/10.1101/231621 2017-12-08 CC BY-NC Statistical Approaches to Decreasing the Discrepancy of Non-detects in qPCR Data Valeriia Sherina|Helene McMurray|Winslow Powers|Hartmut Land|Tanzy Love|Matthew N McCall University of Rochester Medical Center;|University of Rochester
http://dx.doi.org/10.1101/231548 2017-12-08 CC BY-NC-ND Evolution and characterization of carboplatin resistance at single cell resolution Devora Champa|Si Sun|Cheng-Yu Tsai|Stephen B Howell|Olivier Harismendy UC San Diego
http://dx.doi.org/10.1101/231480 2017-12-08 Shallow whole genome sequencing for robust copy number profiling of formalin-fixed paraffin-embedded breast cancers Suet Feung Chin|Angela Santoja|Marta Grzelak|Soomin Ahn|Stephen John Sammut|Harry Clifford|Oscar M Rueda|Michelle Pugh|Mae A Goldgraben|Helen A Bardwell|Eun Yoon Cho|Elena Provenzano|Federico Rojo|Emilio Alba|Carlos Caldas Cancer Research UK Cambridge Institute, University of Cambridge;|Instituto de Investigacion Biomedica de Malaga, Spain;|Department of Pathology, Ewha Womans Univerisity School of Medicine, Seoul;|Inivata UK;|Dept of Pathol & Translational Genomics, Samsung Med Ctr, Sungkyunkwan Univ;|Cambridge Experimental Cancer Medicine Ctr; NIHR Cambridge Biomed Res Ctr;|Pathology Department, Instituto de Investigacion Sanitaria Fundacion Jimenez Diaz
http://dx.doi.org/10.1101/231647 2017-12-08 Burly1 is a mouse QTL for lean body mass that maps to a 0.8-Mb region on chromosome 2 Cailu Lin|Brad D. Fesi|Michael Marquis|Natalia P. Bosak|Anna Lysenko|Mohammed Amin Koshnevisan|Fujiko F. Duke|Maria L. Theodorides|Theodore M. Nelson|Amanda H. McDaniel|Mauricio Avigdor|Charles J. Arayata|Lauren Shaw|Alexander A. Bachmanov|Danielle R. Reed Monell Chemical Senses Center, 3500 Market St, Philadelphia PA
http://dx.doi.org/10.1101/231662 2017-12-08 CC BY-NC-ND Linked-Read sequencing resolves complex structural variants Sarah Garcia|Stephen Williams|Andrew Wei Xu|Jill Herschleb|Patrick Marks|David Stafford|Deanna M. Church 10x Genomcis, Inc;|10x Genomics, Inc;|10X Genomics, Inc
http://dx.doi.org/10.1101/225847 2017-12-08 Neuroscience High-efficiency optogenetic silencing with soma-targeted anion-conducting channelrhodopsins Mathias Mahn|Lihi Gibor|Katayun Cohen-Kashi Malina|Pritish Patil|Yoav Printz|Shir Oring|Rivka Levy|Ilan Lampl|Ofer Yizhar Weizmann Institute of Science, Israel
http://dx.doi.org/10.1101/230912 2017-12-08 Neuroscience CC BY-NC Integrated analysis of anatomical and electrophysiological human intracranial data Arjen Stolk|Sandon Griffin|Roemer van der Meij|Callum Dewar|Ignacio Saez|Jack J. Lin|Giovanni Piantoni|Jan-Mathijs Schoffelen|Robert T. Knight|Robert Oostenveld Helen Wills Neuroscience Institute, University of California, Berkeley;|Department of Cognitive Science, University of California, San Diego;|Department of Neurology, University of California, Irvine;|Massachusetts General Hospital and Harvard Medical School;|Radboud University, Donders Institute for Brain, Cognition, and Behaviour
http://dx.doi.org/10.1101/231423 2017-12-08 Genetics Cell-type specific eQTL of primary melanocytes facilitates identification of melanoma susceptibility genes Tongwu Zhang|Jiyeon Choi|Michael A Kovacs|Jianxin Shi|Mai Xu|Alisa M Goldstein|Mark M Iles|Stuart MacGregor|Laufey T Amundadottir|Matthew H Law|Stacie K Loftus|William J Pavan|Kevin M Brown National Cancer Institute;|-;|University of Leeds;|QIMR Berghofer Institute;|National Human Genome Research Institute
http://dx.doi.org/10.1101/230581 2017-12-09 Ecology CC BY Iran's roads: mitigating the most serious threat to the critically endangered Asiatic cheetah Acinonyx jubatus venaticus Jamshid Parchizadeh|Maria Gatta|Roberta Bencini|Ali Turk Qashqaei|Mohammad Ali Adibi|Samual T. Williams Third Floor, Number 24, Zartoshtian Alley, Hafez Street, Tehran City, Iran;|University of the Witwatersrand;|University of Western Australia;|Plan for the Land Society;|Department of the Environment, Iran;|University of Venda
http://dx.doi.org/10.1101/231670 2017-12-09 Zoology CC BY-NC-ND A eDNA-qPCR combination assay to non-invasively detect the presence of the parasite Schistocephalus solidus inside its intermediate host, the threespine stickleback Chloe Berger|Nadia Aubin-Horth Universite Laval
http://dx.doi.org/10.1101/230979 2017-12-09 Evolutionary Biology CC BY-NC Variation in physiological function across source populations of a New Zealand freshwater snail Emma S Greimann|Samuel Fahrner|James D Woodell|Samantha K Hennessey|Michael R Kline|Jorge A Moreno|Madeline R Peters|Jennifer L Cruise|Maurine Neiman|Joel Sharbrough University of Iowa;|University of Minnesota;|University of St. Thomas;|Colorado State University
http://dx.doi.org/10.1101/231431 2017-12-09 Genomics CC BY Evolutionary stability of topologically associating domains is associated with conserved gene regulation Jan Krefting|Miguel A. Andrade-Navarro|Jonas Ibn-Salem Faculty of Biology, Johannes Gutenberg University of Mainz, 55128 Mainz, Germany
http://dx.doi.org/10.1101/230128 2017-12-09 Neuroscience CC BY-NC-ND Optogenetic dissection of descending behavioral control in Drosophila Jessica Cande|Gordon J Berman|Shigehiro Namiki|Jirui Qiu|Wyatt Korff|Gwyneth Card|Joshua W Shaevitz|David L Stern Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, VA 20147;|Department of Biology, Emory University, Atlanta, Georgia 30322;|Research Center for Advanced Science and Technology, University of Tokyo, Tokyo 153-8904, Japan;|Department of Physics, Emory University, Atlanta, Georgia 30322;|Department of Physics, Princeton University, Princeton, New Jersey 08544
http://dx.doi.org/10.1101/231472 2017-12-09 Immunology Legionella protection and vaccination mediated by Mucosal Associated Invariant T (MAIT) cells Huimeng Wang|Criselle D'Souza|Xin Yi Lim|Lyudmila Kostenko|Troi J Pediongco|Sidonia BG Eckle|Bronwyn S Meehan|Nancy Wang|Shihan Li|Jeffrey YW Mak|David P Fairlie|Yoichiro Iwakura|Jennifer M Gunnersen|Andrew W Stent|Jamie Rossjohn|Glen P Westall|Lars Kjer-Nielsen|Richard A Strugnell|James McCluskey|Alexandra J Corbett|Timothy Stopford Christopher Hinks|Zhenjun Chen University of Melbourne;|University of Queensland;|Tokyo University of Science;|Monash University;|Alfred Hospital, Melbourne;|University of Oxford
http://dx.doi.org/10.1101/231779 2017-12-10 Unraveling mitotic protein networks by 3D multiplexed epitope drug screening Lorenz Maier|Stefan Kallenberger|Katharina Jechow|Marcel Waschow|Roland Eils|Christian Conrad German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/231746 2017-12-10 CC BY-NC The ERK MAPK pathway modulates Gq-dependent locomotion in Caenorhabditis elegans Brantley Coleman|Irini Topalidou|Michael Ailion University of Washington
http://dx.doi.org/10.1101/211789 2017-12-10 CC BY-NC-ND The ancestral animal genetic toolkit revealed by diverse choanoflagellate transcriptomes Daniel Richter|Parinaz Fozouni|Michael Eisen|Nicole King University of California, Berkeley and Sorbonne Universités;|University of California, Berkeley and University of California, San Francisco;|University of California, Berkeley and HHMI
http://dx.doi.org/10.1101/232017 2017-12-10 In situ architecture of the algal nuclear pore complex Shyamal Mosalaganti|Jan Kosinski|Sahradha Albert|Miroslava Schaffer|Juergen M Plitzko|Wolfgang Baumeister|Benjamin D Engel|Martin Beck European Molecular Biology Laboratory, Heidelberg, Germany;|Max Planck Institute of Biochemistry, Martinsried, Germany
http://dx.doi.org/10.1101/231985 2017-12-10 Epithelial stratification shapes infection dynamics Carmen Lia Murall|Robert Jackson|Ingeborg Zehbe|Nathalie Boulle|Michel Segondy|Samuel Alizon CNRS;|Lakehead University & Thunder Bay Regional Health Research Institute;|INSERM, EFS, University of Montpellier
http://dx.doi.org/10.1101/227777 2017-12-10 CC BY-NC-ND Cytoskeletal mechanisms of axonal contractility Sampada P Mutalik|Joby Joseph|Pramod A Pullarkat|Aurnab Ghose Indian Institute of Science Education and Research (IISER) Pune, India;|University of Hyderabad, India;|Raman Research Institute (RRI), Bengaluru, India
http://dx.doi.org/10.1101/232066 2017-12-10 CC BY-NC-ND Decoupling cellular response to topography and stiffness in three dimensions Colin D. Paul|Alex Hruska|Jack R. Staunton|Hannah A. Burr|Jiyun Kim|Nancy Jiang|Kandice Tanner National Cancer Institute
http://dx.doi.org/10.1101/232033 2017-12-10 CC BY-NC-ND Mitochondrial heteroplasmy is responsible for Atovaquone drug resistance in Plasmodium falciparum Sasha V Siegel|Andrea V Rivero|Swamy R Adapa|ChengQi Wang|Roman Manetsch|Rays HY Jiang|Dennis E Kyle University of South Florida;|Northeastern University;|University of Georgia
http://dx.doi.org/10.1101/232041 2017-12-10 Biphasic mechanosensitivity of TCR mediated adhesion of T lymphocytes Astrid Wahl|Celine Dinet|Pierre Dillard|Pierre-Henri Puech|Laurent Limozin|Kheya Sengupta CINaM;|LAI/INSERM;|LAI/CNRS;|CINaM/CNRS
http://dx.doi.org/10.1101/231274 2017-12-10 CC BY-NC-ND Using Topological Rearrangements to Characterize De-mixed Liquid Phases in Bio-membranes Sahithya S Iyer|Madhusmita Tripathy|Anand Srivastava Indian Institute of Science Bangalore
http://dx.doi.org/10.1101/231845 2017-12-10 Mechanisms of KCNQ1 Channel Dysfunction in Long QT Syndrome Involving Voltage Sensor Domain Mutations Hui Huang|Georg Kuenze|Jarrod Smith|Keenan C Taylor|Amanda M Duran|Arina Hadziselimovic|Jens Meiler|Carlos Vanoye|Alfred George|Charles Sanders Vanderbilt University;|Northwestern University
http://dx.doi.org/10.1101/232298 2017-12-11 Bioinformatics Prometheus: omics portals for interkingdom comparative genomic analyses Gunhwan Ko|Insu Jang|Namjin Koo|Seong-Jin Park|Sang-Ho Oh|Min-Seo Kim|Jin-Hyuk Choi|Hyeongmin Kim|Young Mi Sim|Iksu Byeon|Pan-Gyu Kim|Kye Young Kim|Gukhee Han|Jong-Cheol Yoon|Yunji Hong|Kyung-Lok Moon|Banghyuk Lee|Deayeon Ko|Wangho Song|Yong-Min Kim Korea Research Institute of Bioscience and Biotechnology
http://dx.doi.org/10.1101/232199 2017-12-11 Cell Biology Ultrastructural analysis of intracellular membrane and microtubule behavior during mitosis of Drosophila S2 cells Anton Strunov|Lidiya V. Boldyreva|Evgeniya N. Andreyeva|Gera A. Pavlova|Julia V. Popova|Alena V. Razuvaeva|Alina F. Anders|Fioranna Renda|Alexey V. Pindyurin|Maurizio Gatti|Elena Kiseleva Inst of Molecular and Cellular Biology, Siberian Branch of RAS, Novosibirsk, Russia;|IBPM CNR and Dept of Biology & Biotechnology, Sapienza University of Rome, Italy
http://dx.doi.org/10.1101/232314 2017-12-11 Molecular Biology CC BY-NC-ND Cell-wall synthesis and ribosome maturation are co-regulated by an RNA switch in Mycobacterium tuberculosis Stefan Schwenk|Alexandra Moores|Irene Nobeli|Timothy D McHugh|Kristine Bourke Arnvig University College London;|Birkbeck College
http://dx.doi.org/10.1101/232322 2017-12-11 Microbiology CC BY-NC-ND A semi-lethal CRISPR-Cas system permits DNA acquisition in Enterococcus faecalis Karthik Hullahalli|Marinelle Rodrigues|Uyen Nguyen|Kelli Palmer University of Texas at Dallas
http://dx.doi.org/10.1101/231803 2017-12-11 Neuroscience CC BY-ND Toxoplasmosis, but not borreliosis, is associated with psychiatric disorders: A cross-sectional survey on 46 thousand of subjects Jaroslav Flegr|Jiri Horacek Dept. Biology, Fac. Science, Charles University;|Applied Neurosciences and Brain Imagination, National Institute of Mental Health, Klecany
http://dx.doi.org/10.1101/232264 2017-12-11 Ecology CC BY-NC-ND Predators or mutualists? Lack of dispersal distance benefits and small caching profits makes scatterhoarding rodents antagonists of oaks Micha Bogdziewicz|Elizabeth E Crone|Rafa Zwolak Adam Mickiewicz University;|Tufts University
http://dx.doi.org/10.1101/232132 2017-12-11 Bioinformatics CC BY-NC-ND Large-scale structural variation detection in subterranean clover subtypes using optical mapping validated at nucleotide level Yuxuan Yuan|zbynek Milec|Philipp E Bayer|Jan Vrana|Jaroslav Dolezel|David Edwards|William Erskine|Parwinder Kaur University of Western Australia;|Centre of the Region Hana for Biotechnological and Agricultural Research;|University of Western Australia; Telethon Kids Institute
http://dx.doi.org/10.1101/231944 2017-12-11 Evolutionary Biology De novo mutations in autism spectrum disorders and an empirical test of the neutral DNA model Shi Huang|Ye Zhang Central South University
http://dx.doi.org/10.1101/232025 2017-12-11 Bioinformatics CC BY-ND Computer-aided prediction of antigen presenting cell modulators for designing peptide-based vaccine adjuvants Gandharva Nagpal|Kumardeep Chaudhary|Piyush Agrawal|Gajendra Pal Singh Raghava CSIR - Institute of Microbial Technology, Chandigarh, India;|Ctr for Computational Biology, Indraprastha Inst of Information Technol, New Delhi
http://dx.doi.org/10.1101/231837 2017-12-11 Animal Behavior and Cognition CC BY Remembrance of Inferences Past Ishita Dasgupta|Eric Schulz|Noah D. Goodman|Samuel J. Gershman Harvard University;|Stanford University
http://dx.doi.org/10.1101/231928 2017-12-11 Genetics CC BY Funmap2: an R package for QTL mapping using longitudinal phenotypes Nating Wang|Tinyi Chu|Jiangtao Luo|Rongling Wu|Zhong Wang College of Biological Sciences and Technology, Beijing Forestry University, PR China;|Graduate Field of Computational Biology, Cornell University, Ithaca, NY 14850, USA;|Dept of Biostatistics, College of Public Health, Univ of Nebraska Med Ctr, Omaha
http://dx.doi.org/10.1101/231993 2017-12-11 Evolutionary Biology CC BY-NC-ND Two conceptions of evolutionary games: reductive vs effective Artem Kaznatcheev University of Oxford
http://dx.doi.org/10.1101/231811 2017-12-11 Plant Biology CC BY-NC-ND VlbZIP30 of grapevine functions in drought tolerance via the abscisic acid core signaling pathway Mingxing Tu|Xianhang Wang|Yanxun Zhu|Dejun Wang|Xuechuan Zhang|Ye Cui|Yajuan Li|Min Gao|Zhi Li|Xiping Wang State Key Lab of Crop Stress Biol in Arid Areas, Coll of Horticul, Northwest A&F Univ;|Biomarker Technologies Corporation
http://dx.doi.org/10.1101/232074 2017-12-11 Microbiology CC BY-ND Data Analyses and new Findings Indicate a Primordial Neurotropic Pathogen Evolved into Infectious Causes of Several CNS Neurodegenerative Diseases William J. Todd|Lidiya Dubytska|Peter J. Mottram|Xiaochu Wu|Yuliya Y. Sokolova Louisiana State University;|Southern University and Louisiana State University;|Louisiana State University and Institute of Cytology, Russian Academy of Sciences
http://dx.doi.org/10.1101/232090 2017-12-11 Evolutionary Biology CC BY-NC Are Nonsense Alleles of Drosophila melanogaster Genes under Any Selection? Nadezhda Potapova|Maria Andrianova|Georgii Bazykin|Alexey Kondrashov MSU, IITP RAS;|IITP RAS, Skolkovo Institute of Science and Technology;|MSU, University of Michigan
http://dx.doi.org/10.1101/231936 2017-12-11 Neuroscience CC BY-NC-ND A chemosensory switch couples genetic sex to behavioral valence Kelli A. Fagan|Jintao Luo|Ross C. Lagoy|Frank C. Schroeder|Dirk R. Albrecht|Douglas S. Portman University of Rochester;|Worcester Polytechnic Institute;|Boyce Thompson Institute
http://dx.doi.org/10.1101/231878 2017-12-11 Microbiology CC BY-ND Rarefaction, alpha diversity, and statistics Amy Willis University of Washington
http://dx.doi.org/10.1101/231852 2017-12-11 Evolutionary Biology CC BY-NC-ND Male success against con- and heterospecific competitors indicates a positive but modest role for sexual selection as driver of speciation Jeremy S Davis|Leonie C Moyle Indiana University
http://dx.doi.org/10.1101/231324 2017-12-11 Bioinformatics CC BY-NC-ND Global optimization approach for circular and chloroplast genome assembly Sebastien Francois|Rumen Andonov|Dominique Lavenier|Hristo Djidjev Univ Rennes, Inria, CNRS, IRISA;|Univ Rennes, Inria, CNRS, IRISA,;|LANL
http://dx.doi.org/10.1101/232058 2017-12-11 Molecular Biology Molecular map of GNAO1-related disease phenotypes and reactions to treatment Ivana Mihalek|Meredith Park|McKenna Kelly|Jeff L Waugh|Annapurna Poduri|Olaf Bodamer Division of Genetics and Genomics, Boston Childrens Hospital, Harvard Medical School, Boston, MA, U;|Epilepsy Genetics Program, Department of Neurology, Boston Childrens Hospital, Boston, MA;|Department of Neurology, Harvard Medical School, Boston, MA, USA
http://dx.doi.org/10.1101/232280 2017-12-11 Physiology CC BY TRIF is a key inflammatory mediator of acute sickness behavior and cancer cachexia Kevin Glenn Burfeind|Xinxia Zhu|Peter Robert Levasseur|Katherine A Michaelis|Mason Andrew Norgard|Daniel L Marks Oregon Health & Science University
http://dx.doi.org/10.1101/231597 2017-12-11 Synthetic Biology CC BY Tools for engineering coordinated system behaviour in synthetic microbial consortia Nicolas Kylilis|Guy-Bart Stan|Karen M Polizzi Imperial College London
http://dx.doi.org/10.1101/231910 2017-12-11 Neuroscience CC BY-NC-ND Value Encoding in the Globus Pallidus: fMRI reveals an interaction effect between reward and dopamine drive Vincenzo G Fiore|Tobias Nolte|Francesco Rigoli|Peter Smittenaar|Xiaosi Gu|Raymond J Dolan University of Texas at Dallas, 2200 West Mockingbird Lane, Dallas, TX 75235, USA;|University College London, 12 Queen Square, London WC1N 3BG, UK
http://dx.doi.org/10.1101/231761 2017-12-11 Bioinformatics afpCOOL: An Accurate Tool for Antifreeze Protein Detection Morteza Eslami|Ramin Shirali-hossein-zade|Zeinab Takalloo|Ghasem Mahdevar|Abbasali Emamjomeh|Reza Hasan Sajedi|Javad Zahiri Department of Computer Engineering, Arak University, Arak, Iran;|Computer Engineering Department, Sharif University of Technology, Tehran, Iran;|Dept of Biochemistry, Faculty of Biol Sciences, Tarbiat Modares Univ, Tehran, Iran;|Department of Mathematics, Faculty of Sciences, University of Isfahan, Isfahan, Iran;|CBB, PBB, Faculty of Agriculture, University of Zabol, Iran;|BioCOOL, Dept of Biophysics, Fac of Biol Sciences, Tarbiat Modares Univ, Tehran
http://dx.doi.org/10.1101/232223 2017-12-11 Cell Biology Acto-myosin driven functional nanoclusters of GPI-anchored proteins are generated by integrin receptor signaling Joseph Mathew Kalappurakkal|Anupama Ambika Anilkumar|Chandrima Patra|Thomas S van Zanten|Michael Sheetz|Satyajit Mayor National Centre for Biological Sciences;|St Johns Research Institute;|National University of Singapore;|National Centre for Biological Sciences, TIFR
http://dx.doi.org/10.1101/232231 2017-12-11 Immunology Transplacental protection against asthma by maternal treatment with a bacterial-derived immunomodulatory agent Kyle T Mincham|Naomi M Scott|Jean-Francois Lauzon-Joset|Jonatan Leffler|Alexander N Larcombe|Philip A Stumbles|Sarah A Robertson|Christian Pasquali|Patrick G Holt|Deborah H Strickland Telethon Kids Institute;|Robinson Research Institute and School of Medicine;|OM Pharma
http://dx.doi.org/10.1101/232108 2017-12-11 Genetics Highly tamoxifen-inducible principal-cell-specific Cre mice with complete fidelity in cell specificity and no leakiness Lihe Chen|Chao Gao|Long Zhang|Ye Zhang|Enuo Chen|Wenzheng Zhang NHLBI;|Albany Medical College
http://dx.doi.org/10.1101/232165 2017-12-11 Neuroscience Differential default-mode network functional connectivity and morphometric changes in Alzheimers disease Kamil A Grajski|Steven L Bressler NuroSci, LLC;|Florida Atlantic University, Center for Complex Systems and Brain Sciences;|-
http://dx.doi.org/10.1101/232181 2017-12-11 Genetics CC BY-NC-ND Pivotal roles of PCNA loading and unloading on heterochromatin function Ryan Janke|Grant King|Martin Kupiec|Jasper Rine University of California, Berkeley;|Tel Aviv University
http://dx.doi.org/10.1101/229609 2017-12-11 Neuroscience CC BY-NC-ND Cerebral White Matter Sex Dimorphism in Alcoholism: A Diffusion Tensor Imaging Study Kayle S Sawyer|Nasim Maleki|George M Papadimitriou|Nikos Makris|Marlene Oscar-Berman|Gordon J Harris Boston University;|Massachusetts General Hospital;|Harvard Medical School
http://dx.doi.org/10.1101/231209 2017-12-11 Evolutionary Biology CC BY-ND System drift and speciation Josh S Schiffman|Peter L Ralph University of Southern California;|University of Oregon
http://dx.doi.org/10.1101/231498 2017-12-11 Scientific Communication and Education CC BY-NC-ND Understanding Research Development Needs in Capacity Building for NCD Research: The Case of Thailand Naruemol Singha-Dong|April Bigelow|Philip Furspan|Benjaporn Rajataramya|Antonia Villarruel|Kathleen Potempa Suranaree University of Technology;|University of Michigan;|Praboromarajchanok Institute for Health Workforce Development;|University of Pennsylvania
http://dx.doi.org/10.1101/231449 2017-12-11 Neuroscience Physical mechanisms of ultrasonic neurostimulation of the retina Mike D Menz|Patrick Ye|Kamyar Firouzi|Kim Butts Pauly|Butrus T Khuri-Yakub|Stephen A Baccus Stanford University
http://dx.doi.org/10.1101/231340 2017-12-11 Neuroscience Deep Brain Stimulation for Parkinson's disease changes perception in the Rubber Hand Illusion Catherine Ding|Colin J Palmer|Jakob Hohwy|George J Youssef|Bryan Paton|Naotsugu Tsuchiya|Julie C Stout|Dominic Thyagarajan Monash Health;|UNSW Australia;|Monash University;|Deakin University;|University of Newcastle
http://dx.doi.org/10.1101/231696 2017-12-11 Neuroscience The functional organization of descending sensory-motor pathways in Drosophila Shigehiro Namiki|Michael Hughes Dickinson|Allan M Wong|Wyatt Korff|Gwyneth M Card Janelia Research Campus, Howard Hughes Medical Institute;|California Institute of Technology
http://dx.doi.org/10.1101/231613 2017-12-11 Neuroscience Sensory and decisional components of endogenous attention are dissociable. Sanjna Banerjee|Shrey Grover|Suhas Ganesh|Devarajan Sridharan Indian Institute of Science Bangalore
http://dx.doi.org/10.1101/231712 2017-12-11 Pharmacology and Toxicology CC BY-NC-ND Predicting Response to Platin Chemotherapy Agents with Biochemically-inspired Machine Learning Eliseos J Mucaki|Jonathan Z.L Zhao|Dan Lizotte|Peter K Rogan Western University
http://dx.doi.org/10.1101/231688 2017-12-11 Ecology CC BY-NC Microhabitats shape diversity-productivity relationships in freshwater bacterial communities Marian L Schmidt|Bopaiah A Biddanda|Anthony D Weinke|Edna Chiang|Fallon Januska|Ruben Props|Vincent J Denef University of Michigan, Ann Arbor;|Grand Valley State University;|University of Wisconsin, Madison;|Universiteit Gent
http://dx.doi.org/10.1101/231753 2017-12-11 Neuroscience How fast is neural winner-take-all when deciding between many options? Birgit Kriener|Rishidev Chaudhuri|Ila Fiete University of Oslo;|The University of Texas at Austin
http://dx.doi.org/10.1101/225581 2017-12-11 Microbiology CC BY-NC-ND Metabolic retroconversion of trimethylamine N-oxide and the gut microbiota Lesley Hoyles|Maria L. Jimenez-Pranteda|Julien Chilloux|Francois Brial|Antonis Myridakis|Thomas Aranias|Christophe Magnan|Glenn R. Gibson|Jeremy D. Sanderson|Jeremy K. Nicholson|Dominique Gauguier|Anne L. McCartney|Marc-Emmanuel Dumas Imperial College London;|University of Reading;|University Pierre & Marie Curie;|Université Denis Diderot;|Guy's and St Thomas' NHS Foundation Trust and King's College London
http://dx.doi.org/10.1101/231977 2017-12-10 Immunology High-resolution repertoire analysis of Tfr and Tfh cells reveals unexpectedly high diversities indicating a bystander activation of follicular T cells Paul-Gydeon G. Ritvo|Wahiba Chaara|Karim El Soufi|Benjamin Bonnet|Adrien Six|Encarnita Mariotti-Ferrandiz|David Klatzmann Sorbonne Universite, INSERM, UMR S 959, Immunol-Immunopathol-Immunotherapy;|Inflamm-Immunopath-Biotherapy Dept (DHU- i2B), Hopital Pitie-Salpetriere, AP-HP
http://dx.doi.org/10.1101/232140 2017-12-10 Animal Behavior and Cognition CC BY A fungal pathogen that robustly manipulates the behavior of Drosophila melanogaster in the laboratory Carolyn Elya|Tin Ching Lok|Quinn E Spencer|Hayley McCausland|Michael B Eisen University of California, Berkeley
http://dx.doi.org/10.1101/232173 2017-12-10 Cell Biology mTORC1 activates PASK-Wdr5 signaling to epigenetically connect the nutrient status with myogenesis. Chintan Kikani|Xiaoying Wu|Sarah Fogarty|Seong Anthony Woo Kang|Noah Dephoure|Steve Gygi|David Sabatini|Jared Rutter University of Utah;|Fred Hutchinson Cancer Research Center;|Massachusetts Institutue of Technology;|Weill Cornell Medical Center;|Harvard Medical School;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/231902 2017-12-10 Animal Behavior and Cognition CC BY-NC-ND Death pheromones triggering hygienic behavior in honey bees (Apis mellifera L.) Alison McAfee|Abigail Chapman|Immacolata Iovinella|Ylonna Gallagher-Kurtzke|Troy F Collins|Heather Higo|Lufiani L Madilao|Paolo Pelosi|Leonard J Foster University of British Columbia;|Universita degli Studi di Firenze;|Austrian Institute of Technology GmbH
http://dx.doi.org/10.1101/231829 2017-12-10 Neuroscience Species and individual differences in serotonin receptor expression in identified neurons are correlated with a motor behavior Arianna N Tamvacakis|Adriano Senatore|Paul S Katz Georgia State University;|University of Toronto;|University of Massachusetts Amherst
http://dx.doi.org/10.1101/231795 2017-12-10 Animal Behavior and Cognition CC BY-ND Effects of latent toxoplasmosis on olfactory functions of men and women Jaroslav Flegr|Manfred Milinski|Sarka Kankova|Martin Hula|Jana Hlavacova|Katerina Sykorova Division of Biology, Faculty of Science, Charles University;|Department of Evolutionary Ecology, Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/232116 2017-12-10 Biophysics CC BY-NC-ND Non-native Interactions Explain the Folding Rate Differences in α-Spectrin Domains and the Origin of Internal Friction Effects Fernando Bruno da Silva|Vinícius G Contessoto|Vinícius M Oliveira|Jane Clarke|Vitor B P Leite São Paulo State University - UNESP;|Cambridge University
http://dx.doi.org/10.1101/231969 2017-12-11 CC BY Conditioning on a collider may induce spurious associations: Do the results of Gale et al. (2017) support a protective effect of neuroticism in population sub-groups? Tom G Richardson|George Davey Smith|Marcus R Munafo University of Bristol
http://dx.doi.org/10.1101/232686 2017-12-11 Three classes of response elements for human PRC2 and MLL1/2-trithorax complexes Junqing Du|Brian D. Kirk|Jia Zeng|Jianpeng Ma|Qinghua Wang Baylor College of Medicine
http://dx.doi.org/10.1101/232397 2017-12-11 Human iPSC-derived RPE and retinal organoids reveal impaired alternative splicing of genes involved in pre-mRNA splicing in PRPF31 autosomal dominant retinitis pigmentosa Adriana Buskin|Lili Zhu|Valeria Chichagova|Basudha Basu|Sina Mozaffari-Jovin|David Dolan|Alastair Droop|Joseph Collin|Revital Bronstein|Sudeep Mehrotra|Michael Farkas|Gerrit Hilgen|Kathryn White|Dean Hallam|Katarzyna Bialas|Git Chung|Carla Mellough|Yuchun Ding|Natalio Krasnogor|Stefan Przyborski|Jumana Al-Aama|Sameer Alharthi|Yaobo Xu|Gabrielle Wheway|Katarzyna Szymanska|Martin McKibbin|Chris F Inglehearn|David J Elliott|Susan Lindsay|Robin R Ali|David H Steel|Lyle Armstrong|Evelyne Sernagor|Eric Pierce|Reinhard Luehrmann|Sushma-Nagaraja Grellscheid|Colin A Johnson|Majlinda Lako Institute of Genetic Medicine, Newcastle University, UK;|Leeds Institute of Molecular Medicine, University of Leeds, UK;|Max-Planck Institute of Biophysical Chemistry, Gottingen, Germany;|Department of Biological Sciences, University of Durham, UK;|MRC Medical Bioinformatics Centre, University of Leeds, UK;|Ocular Genomics Institute, Mass Eye and Ear and Harvard Medical School, Boston;|Depts of Ophthalmol and Biochem, Jacobs School of Med & Biomedical Science;|Institute of Neuroscience, Newcastle University, UK;|Electron Microscopy Research Services, Newcastle University, UK;|Institute for Cell and Molecular Biosciences, Newcastle University, UK;|Interdisciplinary Computing & Complex Biosystems Research Grp, Newcastle Univ;|Department of Biological Sciences, University of Durham UK;|King Abdulaziz University, Saudi Arabia;|Centre for Research in Biosciences, University of the West of England, UK;|UCL Institute of Opthalmology, UK;|Ocular Genomics Institute, Mass Eye and Ear and Harvard Medical School
http://dx.doi.org/10.1101/232652 2017-12-11 The preprophase band-associated kinesin-14 OsKCH2 is a processive minus-end-directed microtubule motor Kuo-Fu Tseng|Pan Wang|Yuh-Ru Julie Lee|Joel Bowen|Allison M. Gicking|Lijun Guo|Bo Liu|Weihong Qiu Oregon State University;|Henan University;|University of California at Davis
http://dx.doi.org/10.1101/232462 2017-12-11 Collective cell migration without proliferation: density determines cell velocity and wave velocity Sham Tlili|Estelle Gauquelin|Brigitte Li|Olivier Cardoso|Benoit Ladoux|Helene Delanoe-Ayari|Francois Graner Univ. Singapore;|Univ. Paris Diderot;|Univ. Lyon
http://dx.doi.org/10.1101/232595 2017-12-11 CC BY-NC-ND Interdependence Theory of Tissue Failure: Bulk and Boundary Effects Daniel Suma|Aylin Acun|Pinar Zorlutuna|Dervis Vural University of Minnesota;|University of Notre Dame
http://dx.doi.org/10.1101/232561 2017-12-11 CC BY-NC Comparative analysis of kidney organoid and adult human kidney single cell and single nucleus transcriptomes Haojia Wu|Kohei Uchimura|Erinn Donnelly|Yuhei Kirita|Samantha A Morris|Benjamin D Humphreys Washington University in St. Louis;|Washington University in St Louis
http://dx.doi.org/10.1101/232645 2017-12-11 Physical epistatic landscape of antibody binding affinity Rhys M Adams|Justin B Kinney|Aleksandra M Walczak|Thierry Mora Ecole normale superieure;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/230813 2017-12-11 Clinical Trials TORC1 inhibition as an immunotherapy to reduce infections in the elderly Joan B Mannick|Melody Morris|Hans-Ulrich P Hockey|Guglielmo Roma|Martin Beibel|Kenneth Kulmatycki|Mollie Watkins|Tea Shavlakadze|Weihua Zhou|Dean Quinn|David J. Glass|Lloyd B. Klickstein resTORbio;|Novartis Institutes for Biomedical Research
http://dx.doi.org/10.1101/231720 2017-12-11 Epidemiology CC BY-NC Systemic Inflammation Mediates the Relationship between Obesity and Health Related Quality of Life Jeffrey Wilkins|Palash Ghosh|Juan Vivar|Bibhas Chakraborty|Sujoy Ghosh Biomedical Biotechnology Research Institute, North Carolina Central University;|Centre for Quantitative Medicine, Duke-NUS Medical School, Singapore;|Center for Tobacco Products, Food and Drug Administration;|Prog in Cardiovasc & Metab Disorders; Ctr for Comput Biol, Duke-NUS Med School
http://dx.doi.org/10.1101/230821 2017-12-11 Neuroscience CC BY-NC-ND Leveraging heterogeneity for neural computation with fading memory in layer 2/3 cortical microcircuits Renato Duarte|Abigail Morrison Inst of Neuroscience and Medicine (INM-6); Inst for Advanced Simulation (IAS-6)
http://dx.doi.org/10.1101/232330 2017-12-11 Genetics Genome-wide association analysis links multiple psychiatric liability genes to oscillatory brain activity Dirk JA Smit|Margareth J Wright|Jacqueline Meyers|Nick Martin|Yvonne YW Ho|Stephen M Malone|Jian Zhang|Scott J Burwell|David B Chorlian|Eco JC de Geus|Damiaan Denys|Narelle K Hansell|Jouke-Jan Hottenga|Matt McGue|Catharina EM van Beijsterveldt|Neda Jahanshad|Paul M Thompson|Christopher D Whelan|Sarah E Medland|Bernice Porjesz|William G Iacono|Dorret I Boomsma Academic Medical Center;|Queensland Brain Institute, University of Queensland, Brisbane, Australia;|Henri Begleiter Neurodynamics Lab, SUNY Downstate Medical Center;|QIMR Berghofer Medical Research Institute, Brisbane, Australia;|Department of Psychology, University of Minnesota, Minneapolis, Minnesota, USA;|Henri Begleiter Neurodynamics Lab, State University of New York Downstate;|Department of Psychology, University of Minnesota, Minneapolis, MN, USA;|Henri Begleiter Neurodynamics Laboratory, SUNY Downstate;|Biological Psychology, Vrije Universiteit, Amsterdam;|Psychiatry department, Academic Medical Center, University of Amsterdam;|Biological Psychology, Vrije Universiteit Amsterdam, The Netherlands;|Imaging Genetics Ctr, USC Mark & Mary Stevens Neuroimaging & Informatics Inst;|Henri Begleiter Neurodynamics Lab., State University of New York Downstate
http://dx.doi.org/10.1101/232249 2017-12-11 Molecular Biology CC BY-NC-ND Results of follow-up experiments to "Odorant cues linked to social immunity induce lateralized antennal stimulation in honey bees (Apis mellifera L.)" Alison McAfee|Troy F Collins|Leonard J Foster University of British Columbia
http://dx.doi.org/10.1101/229799 2017-12-11 Bioinformatics CC BY-ND GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA, miRNA, and mRNA data in GDC Ruidong Li|Han Qu|Shibo Wang|Julong Wei|Le Zhang|Renyuan Ma|Jianming Lu|Jianguo Zhu|Wei-De Zhong|Zhenyu Jia Genetics, Genomics, and Bioinformatics Program, University of California, Riverside;|Department of Botany and Plant Sciences, University of California, Riverside;|Department of Mathematics, Bowdoin College, Brunswick, ME, USA;|Department of Urology, Guangzhou First People Hospital, Guangzhou, China;|Department of Urology, Guizhou Provincial People Hospital, Guizhou, China
http://dx.doi.org/10.1101/232801 2017-12-12 Plant Biology CC BY-NC-ND A Genetic Pathway Composed of EDT1/HDG11, ERECTA, and E2Fa Loci Regulates Water Use Efficiency by Modulating Stomatal Density Chengbin Xiang|Xiao-Yu Guo|Yao Wang|Ping Xu|Guo-Hua Yu|Li-Yong Zhang|Yan Xiong School of Life Sciences;|USTC;|Fujian Agriculture and Forestry University
http://dx.doi.org/10.1101/232603 2017-12-12 Neuroscience The effect of single pyramidal neuron firing across and within layers in mouse V1 Jochen F Meyer|Peyman Golshani|Stelios Smirnakis Baylor College of Medicine;|UCLA;|Harvard Medical School
http://dx.doi.org/10.1101/232736 2017-12-12 Bioinformatics CC BY Identifying drug-gene interactions from CRISPR knockout screens with drugZ Gang Wang|Michal Zimmermann|Keith Mascall|Walter F Lenoir|Jason Moffat|Stephane Angers|Daniel Durocher|Traver Hart The University of Texas MD Anderson Cancer Center;|Lunenfeld-Tanenbaum Research Institute, Mount Sinai Hospital;|Dept of Pharmaceutical Sciences, Leslie Dan Faculty of Pharmacy, Univ of Toronto;|Donnelly Centre, University of Toronto;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/232405 2017-12-12 Evolutionary Biology CC BY-NC The Facultative Sex Coalescent with Crossing Over Recombination and Multi-Site Gene Conversion Matthew Hartfield|Stephen Wright|Aneil Agrawal Aarhus University;|University of Toronto;|Univ. of Toronto
http://dx.doi.org/10.1101/225870 2017-12-12 Genomics CC BY-ND Genome-wide discovery of somatic coding and regulatory variants in Diffuse Large B-cell Lymphoma Sarah Arthur|Aixiang Jiang|Bruno Grande|Miguel Alcaide|Anja Mottok|Daisuke Ennishi|Christopher Rushton|Selin Jessa|Prince Kumar Lat|Prasath Pararajalingam|Barbara Meissner|Merrill Boyle|Lauren Chong|Daniel Lai|Pedro Farinha|Graham Slack|Jordan Davidson|Kevin Bushell|Sohrab Shah|Dipankar Sen|Steven Jones|Andrew J Mungall|Randy Gascoyne|Marco A Marra|Christian Steidl|Joseph Connors|David Scott|Ryan D Morin Simon Fraser University;|BC Cancer Agency
http://dx.doi.org/10.1101/232918 2017-12-12 Genomics CC BY Large scale gene duplication affected the European eel (Anguilla anguilla) after the 3R teleost duplication Christoffer Rozenfeld|Jose Blanca|Victor Gallego Albiach|Victor Garcia-Carpintero|Juan G Herranz-Jusdado|Luz Perez|Juan F Asturiano|Joaquin Canizares|David S Penaranda Universitat Politècnica de València
http://dx.doi.org/10.1101/232744 2017-12-12 Cancer Biology Clinically Important sex differences in GBM biology revealed by analysis of male and female imaging, transcriptome and survival data Wei Yang|Nicole M Warrington|Sara J Taylor|Eduardo Carrasco|Kyle W. Singleton|Ningying Wu|Justin D. Lathia|Michael E. Berens|Albert H. Kim|Jill S. Barnholtz-Sloan|Kristin R. Swanson|Jingqin Luo|Joshua B. Rubin Washington University School of Medicine;|Mayo Clinic Scottsdale;|Cleveland Clinic;|Tgen Corporation;|Case Western Reserve;|Mayo Clinic, Scottsdale
http://dx.doi.org/10.1101/232728 2017-12-12 Genomics CC BY-NC-ND Transcriptome Analysis of Adult C. elegans Cells Reveals Tissue-specific Gene and Isoform Expression Rachel Kaletsky|Vicky Yao|April Williams|Alexi M Runnels|Sean B King|Alicja Tadych|Shiyi Zhou|Olga G Troyanskaya|Coleen T. Murphy Princeton University
http://dx.doi.org/10.1101/231266 2017-12-12 Immunology CC BY-NC-ND Matrix-corrected mass spectrometry enables sensitive detection of food allergens and reveals widespread soy contamination of processed foods Derek Croote|Ido Braslavsky|Stephen R. Quake Stanford University;|The Hebrew University of Jerusalem
http://dx.doi.org/10.1101/232835 2017-12-12 Bioinformatics CC BY Pathway enrichment analysis of -omics data Juri Reimand|Ruth Isserlin|Veronique Voisin|Mike Kucera|Christian Tannus-Lopes|Asha Rostamianfar|Lina Wadi|Mona Meyer|Jeff Wong|Changjiang Xu|Daniele Merico|Gary D. Bader University of Toronto;|Ontario Institute for Cancer Research;|Deep Genomics Inc
http://dx.doi.org/10.1101/233098 2017-12-12 Mir-132 controls beta cell proliferation and survival in mouse model through the PTEN/AKT/FOXO3 signaling HASSAN MZIAUT|Georg Henniger|Katharina Ganss|Sebastian Hempel|Steffen Wolk|Johanna McChord|Kamal Chowdhury Chowdhury|Klaus Peter Knoch|Jurgen Weitz|Michele Solimena|Stephan Kersting Paul Langerhans Institute Dresden of the Helmholtz Center Munich at University Hospital Carl Gustav;|Department of General, Thoracic and Vascular Surgery, Medizinische Fakultat Carl Gustav Carus, TU D;|Max Planck Institute, Molecular Cell Biology - Gottingen, Germany;|Department of Surgery, University of Erlangen
http://dx.doi.org/10.1101/233270 2017-12-12 CC BY-NC-ND Female mate choice is a reproductive isolating barrier in Heliconius butterflies Laura Southcott|Marcus Kronforst University of Chicago
http://dx.doi.org/10.1101/233205 2017-12-12 CC BY-NC-ND The landscape of actionable genomic alterations in cell-free circulating tumor DNA from 21,807 advanced cancer patients Oliver Zill|Kimberly Banks|Stephen Fairclough|Stefanie Mortimer|James Vowles|Reza Mokhtari|David R Gandara|Philip C Mack|Justin Odegaard|Rebecca Nagy|Arthur Baca|Helmy Eltoukhy|Darya Chudova|Richard Lanman|AmirAli Talasaz Genentech, Inc;|Guardant Health, Inc;|University of California Davis Comprehensive Cancer Center
http://dx.doi.org/10.1101/233122 2017-12-12 CC BY-NC Copy number variation in fungi and its implications for wine yeast genetic diversity and adaptation Jacob Steenwyk|Antonis Rokas Vanderbilt University
http://dx.doi.org/10.1101/232868 2017-12-12 Female grant applicants are equally successful when peer reviewers assess the science, but not when they assess the scientist Holly O Witteman|Michael Hendricks|Sharon Straus|Cara Tannenbaum Laval University;|McGill University;|Li Ka Shing Knowledge Institute of St. Michael's Hospital;|Institute for Gender and Health, Canadian Institutes of Health Research
http://dx.doi.org/10.1101/233023 2017-12-12 Genetic and cellular sensitivity of Caenorhabditis elegans to the chemotherapeutic agent cisplatin Francisco Javier Garcia-Rodriguez|Carmen Martinez-Fernandez|David Brena|Ernest Nadal|Mike Boxem|Sebastian Honnen|Antonio Miranda-Vizuete|Alberto Villanueva|Julian Ceron Bellvitge Biomedical Research Institute - IDIBELL;|Catalan Institute of Oncology (ICO);|Utrecht University;|Heinrich Heine University Dusseldorf;|Instituto de Biomedicina de Sevilla
http://dx.doi.org/10.1101/232611 2017-12-12 CC BY-NC Teaching data science fundamentals through realistic synthetic clinical cardiovascular data Ted Laderas|Nicole Vasilevsky|Bjorn Pederson|Melissa Haendel|Shannon McWeeney|David Dorr Oregon Health & Science University
http://dx.doi.org/10.1101/232959 2017-12-12 Microbiology High-dimensional microbiome interactions shape host fitness Alison L Gould|Vivian Zhang|Lisa Lamberti|Eric W Jones|Benjamin Obadia|Alex Gavryushkin|Jean M Carlson|Niko Beerenwinkel|William B Ludington UC Berkeley, Dept Molecular & Cell Biology;|ETH Zurich, Computational Biology Group, Dept Biosystems Science & Engineering;|UC Santa Barbara, Complex Systems Group, Dept Physics
http://dx.doi.org/10.1101/232793 2017-12-12 Evolutionary Biology CC BY-NC-ND Cryptic genetic variation defines the adaptive evolutionary potential of enzymes Florian Baier|Nansook Hong|Gloria Yang|Anna Pabis|Alexandre Barrozo|Paul D Carr|Shina CL Kamerlin|Colin J Jackson|Nobuhiko Tokuriki University of British Columbia;|Australian National University;|Uppsala University
http://dx.doi.org/10.1101/232520 2017-12-12 Animal Behavior and Cognition CC BY-NC-ND incR: a free new R package to analyse incubation behaviour Pablo Capilla-Lasheras University of Exeter
http://dx.doi.org/10.1101/232934 2017-12-12 Ecology Who is the host of the host-associated microbiome? Colony-level dynamics overshadow individual-level characteristics in the fur microbiome of a social mammal, the Egyptian fruit-bat oren kolodny|Maya Weinberg|Leah Reshef|Lee Harten|Abraham Hefetz|Uri Gophna|Marcus W Feldman|Yossi Yovel Stanford University;|Department of Zoology, Tel Aviv University, Tel Aviv;|School of Molecular Cell Biology and Biotechnology, Tel Aviv University;|Department of Biology, Stanford University, Stanford
http://dx.doi.org/10.1101/233056 2017-12-12 Genomics CC BY-NC-ND Study of the mitotic chromatin shows involvement of histone modifications in bookmarking and reveals nucleosome deposition patterns Elisheva Javasky|Inbal Shamir|Shashi Gandhi|Shawn Egri|Oded Sandler|Noam Kaplan|Jacob D Jaffe|Alon Goren|Itamar Simon Inst of Medical Research Israel-Canada, Faculty of Medicine, The Hebrew University;|The Broad Institute of Harvard and MIT;|Rappaport Faculty of Medicine, Technion Israel Institute of Technology;|University of California, San Diego
http://dx.doi.org/10.1101/233049 2017-12-12 Microbiology CC BY-NC Outbreak of invasive wound mucormycosis in a burn unit due to multiple strains of Mucor circinelloides f. circinelloides resolved by whole genome sequencing Dea Garcia-Hermoso|Alexis Criscuolo|Soo chan Lee|Matthieu Legrand|Marc Chaouat|Blandine Denis|Matthieu Lafaurie|Martine Rouveau|Charles Soler|Jean-Vivien Schaal|Maurice Mimoun|Alexandre Mebazaa|Joseph Heitman|Dromer Francoise|Sylvain Brisse|Bretagne Stephane|Alexandre Alanio Institut Pasteur, Unite de Mycologie Moleculaire, CNRMA;|Institut Pasteur, Bioinformatics and Biostatistics Hub, C3BI, USR 3756 IP CNRS;|STCEID, Department of Biology, University of Texas San Antonio;|INSERM; Serv d'Anesthesie-Reanimation; APHP, Groupe Hosp Saint-Louis-Lariboisi;|Serv de chirurg plastique, reconstructrice, esthetique & traitement chirurg des brules;|Serv de Maladies Infect et Tropicales; APHP, Groupe Hosp Saint-Louis-Lariboisiere;|Laboratoire de Microbiologie, Hopital Saint-Louis, Groupe Hospitalier Laroboisiere;|Service de Biologie medicale, Hopital d'instruction des Armees, Clamart, France;|Centre de traitement des brules, Hopital d'instruction des Armees;|INSERM; Serv d'Anesthesie-Reanimation; AP-HP, Groupe Hosp Saint-Louis-Lariboisi;|Molecular Genetics and Microbiology, Duke University Medical Center, Durham;|Institut Pasteur, Biodiversity and epidemiology of bacterial pathogens, Paris, France;|Laboratoire de Parasitologie-Mycologie, Hopital Saint-Louis
http://dx.doi.org/10.1101/232876 2017-12-12 Biophysics CC BY-NC-ND Structural basis for endotoxin neutralization and anti-inflammatory activity of thrombin-derived C-terminal peptides Rathi Saravanan|Daniel A Holdbrook|Jitka Petrlova|Shalini Singh|Nils A Berglund|Yeu Khai Choong|Peter J Bond|Martin Malmsten|Artur Schmidtchen Lee Kong Chian School of Medicine, Nanyang Technological University, Singapore;|Bioinformatics Institute (A*STAR), Singapore;|Division of Dermatology & Venerology, Dept of Clinical Sciences, Lund University;|Department of Pharmacy, Uppsala University, Sweden;|Department of Chemistry, Aarhus University, Denmark;|Department of Pharmacy, University of Copenhagen, Denmark
http://dx.doi.org/10.1101/232751 2017-12-12 Developmental Biology CC BY-NC A revised understanding of Tribolium morphogenesis further reconciles short and long germ development Matthew Alan Benton University of Cologne
http://dx.doi.org/10.1101/232967 2017-12-12 Physiology Apparent diffusion in nucleus pulposus is associated with pain and mobility improvements after spinal mobilization for acute low back pain Paul Thiry|Francois Reumont|Jean-Michel Brismee|Frederic Dierick OMT Skills;|Texas Tech University Health Sciences Center;|Haute Ecole Louvain en Hainaut
http://dx.doi.org/10.1101/232819 2017-12-12 Plant Biology CC BY-NC-ND An epigenetic breeding system in soybean for increased yield and stability Sunil Kumar Kenchanmane Raju|Mon-Ray Shao|Robersy Sanchez|Ying-Zhi Xu|Ajay Sandhu|George Graef|Sally Mackenzie University of Nebraska Lincoln;|University of Nebraska Lincoln, Pennsylvania State University
http://dx.doi.org/10.1101/233494 2017-12-13 Ultrafast glutamate sensors resolve synaptic short-term plasticity Nordine Helassa|Celine Durst|Catherine Coates|Silke Kerruth|Urwa Arif|Christian Schulze|J. Simon Wiegert|Michael Geeves|Thomas Oertner|Katalin Torok University of Liverpool;|Center for Molecular Neurobiology Hamburg;|St George's, University of London;|University of Kent
http://dx.doi.org/10.1101/233452 2017-12-13 Control of mechanical pain hypersensitivity through ligand-targeted photoablation of TrkB positive sensory neurons Rahul Dhandapani|Cynthia Mary Arokiaraj|Francisco J Taberner|Paola Pacifico|Sruthi Raja|Linda Nocchi|Carla Portulano|Federica Franciosa|Mariano Maffei|Ahmad Fawzi Hussain|Fernanda de Castro Reis|Luc Reymond|Emerald Perlas|Simone Garcovich|Stefan Barth|Kai Johnsson|Stefan G Lechner|Paul A Heppenstall EMBL Mouse Biology Unit, Via Ramarini 32, Monterotondo 00015, Italy.;|Institute of Pharmacology, Heidelberg University, Im Neuenheimer Feld 366, 69120 Heidelberg, Germany;|EMBL Mouse Biology Unit, Via Ramarini 32, Monterotondo 00015, Italy;|Department of Gynecology and Obstetrics, University Hospital RWTH Aachen;|Ecole Polytechnique Federale de Lausanne;|Institute of Dermatology, Catholic University of the Sacred Heart, Rome;|Institute of Infectious Disease and Molecular Medicine (IDM), University of Cape Town, South Africa
http://dx.doi.org/10.1101/233247 2017-12-13 Reanalysis of global proteomic and phosphoproteomic data identified a large number of glycopeptides Yingwei Hu|Punit Shah|David J. Clark|Minghui Ao|Hui Zhang Johns Hopkins University
http://dx.doi.org/10.1101/233718 2017-12-13 Cell Biology CC BY-NC-ND ZMYND10 functions in a chaperone relay during axonemal dynein assembly Girish R Mali|Patricia Yeyati|Seiya Mizuno|Margaret A Keighren|Petra zur Lage|Amaya Garcia-Munoz|Atsuko Shimada|Hiroyuki Takeda|Frank Edlich|Satoru Takahashi|Alex von Kriegsheim|Andrew Jarman|Pleasantine Mill MRC Laboratory of Molecular Biology, Cambridge;|MRC Human Genetics Unit, Inst of Genetics & Molecular Med, Univ of Edinburgh;|Laboratory Animal Resource Center, University of Tsukuba;|Centre for Integrative Physiology, University of Edinburgh;|Systems Biology Ireland, University College Dublin;|Department of Biological Sciences, University of Tokyo;|Institute for Biochemistry and Molecular Biology, University of Freiburg;|Department of Anatomy and Embryology, Faculty of Medicine, University of Tsukuba;|Institute of Genetics and Molecular Medicine, University of Edinburgh
http://dx.doi.org/10.1101/233163 2017-12-13 Genomics LTRs activated by Epstein-Barr virus-induced transformation of B cells alter the transcriptome Amy Leung|Candi Trac|Hiroyuki Kato|Rama Natarajan|Dustin E Schones City of Hope
http://dx.doi.org/10.1101/232892 2017-12-13 Neuroscience CC BY-NC-ND Robust detrending, rereferencing, outlier detection, and inpainting for multichannel data Alain de Cheveigne|Dorothee Arzounian Ecole normale superiéure;|Ecole normale supérieure
http://dx.doi.org/10.1101/232926 2017-12-13 Neuroscience CC BY White matter correlates of hemi-face dominance in emotional expression Stefano Ioannucci|Nathalie George|Leonardo Cerliani|Michel Thiebaut de Schotten BCBlab;|ICM;|Institut du Cerveau et de la Moelle Epiniere
http://dx.doi.org/10.1101/232538 2017-12-13 Neuroscience Implicit reward associations impact face processing: Time-resolved evidence from event-related brain potentials and pupil dilations Wiebke Hammerschmidt|Igor Kagan|Louisa Kulke|Annekathrin Schacht Affective Neurosci & Psychophysiol Lab, Inst for Psychology, Univ of Goettingen;|Decision and Awareness Group, German Primate Center, Goettingen
http://dx.doi.org/10.1101/233387 2017-12-13 Neuroscience CC BY-NC-ND Characterizing the response to face pareidolia in human category-selective visual cortex Susan G Wardle|Kiley Seymour|Jessica Taubert Macquarie University;|Western Sydney University;|National Institutes of Health
http://dx.doi.org/10.1101/233338 2017-12-13 Neuroscience CC BY Understanding Biological Visual Attention Using Convolutional Neural Networks Grace W. Lindsay|Kenneth D. Miller Columbia University
http://dx.doi.org/10.1101/233346 2017-12-13 Neuroscience A Quantitative Assessment of Prefrontal Cortex in Humans Relative to Nonhuman Primates Chad J Donahue|Matthew F Glasser|Todd M Preuss|James K Rilling|David C Van Essen Washington University in St. Louis School of Medicine;|St. Luke's Hospital;|Yerkes National Primate Research Center
http://dx.doi.org/10.1101/233445 2017-12-13 Microbiology Archaeal community structure and underlying ecological processes in swine manure slurry Priyanka Kumari|Hong Lim Choi College of Agricultural and Life Science, Seoul National University
http://dx.doi.org/10.1101/233585 2017-12-13 Neuroscience CC BY Haploinsufficiency of Parkinsonism Gene SYNJ1 Contributes to Dopamine neuron Vulnerability in Aged Mice Zhenyu Yue|Ping-Yue Pan|Patricia Sheehan|Qian Wang|Yuanxi Zhang|Jing Wang|Farida El Gaamouch|Li Zhu|Dongming Cai Icahn School of Medicine at Mount Sinai, United States
http://dx.doi.org/10.1101/233593 2017-12-13 Developmental Biology Combination of mitochondrial tRNA and OXPHOS mutation reduces lifespan and physical condition in aged mice Gesine Reichart|Johannes Mayer|Tursonjan Tokay|Falko Lange|Cindy Johne|Simone Baltrusch|Markus Tiedge|Georg Fuellen|Saleh Ibrahim|Rudiger Kohling Rostock University Medical Center;|Luebeck University Meddical Center
http://dx.doi.org/10.1101/233700 2017-12-13 Evolutionary Biology A butterfly chromonome reveals selection dynamics during extensive and cryptic chromosomal reshuffling Jason A Hill|Ramprasad Neethiraj|Pasi Rastas|Nathan Clark|Nathan Morehouse|Maria Celorio|Jofre Carnicer Cols|Heinrich Dircksen|Camille Meslin|Kristin Sikkink|Maria Vives|Heiko Vogel|Christer Wiklund|Joel Kingsolver|Carol Boggs|Soren Nylin|Christopher Wheat Population Genetics, Department of Zoology, Stockholm University, Sweden;|Department of Zoology, University of Cambridge, UK;|Department of Computational and Systems Biology, University of Pittsburgh, USA;|Department of Biological Sciences, University of Cincinnati, USA;|Departament d'Ecologia, Universitat de Barcelona, Catalonia, Spain;|Dept. of Ecology, Evolution and Behavior, University of Minnesota, St Paul, USA;|Department of Entomology, Max Planck Institute for Chemical Ecology, Germany;|Department of Biology, University of North Carolina, Chapel Hill, USA;|Department of Biological Sciences, University of South Carolina, Columbia, USA
http://dx.doi.org/10.1101/233296 2017-12-13 Genetics CC BY-ND Genomic heritability estimates in sweet cherry reveal non-additive genetic variance is relevant for industry-prioritized traits Julia Piaskowski|Craig Hardner|Lichun Cai|Yunyang Zhao|Amy Iezzoni|Cameron Peace Washington State University;|University of Queensland;|Michigan State University;|North Carolina State University
http://dx.doi.org/10.1101/233197 2017-12-13 Genomics Structural disruption of genomic regions containing ultraconserved elements is associated with neurodevelopmental phenotypes Ruth B. McCole|Wren Saylor|Claire Redin|Chamith Y. Fonseka|Harrison Brand|Jelena Erceg|Michael E. Talkowski|C.-ting Wu Department of Genetics, Harvard Medical School, Boston, MA 02115, USA.;|Center for Genomic Medicine, Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/233379 2017-12-13 Genomics Gene editing of the multi-copy H2A.B gene family by a single pair of TALENS Nur Diana Anuar|Matt Field|Sebastian Kurscheid|Lei Zhang|Edward Rebar|Philip Gregory|Josephine Bowles|Peter Koopman|David Tremethick|Tatiana Soboleva The Australian National University;|James Cook University;|Sangamo Therapeutics;|bluebird bio;|The University of Queensland;|david.tremethick@anu.edu.au
http://dx.doi.org/10.1101/233361 2017-12-13 Biophysics CC BY-NC-ND Tissue architectural cues drive the emergence of non-random trafficking of human tumor cells in the larval zebrafish Colin D. Paul|Kevin Bishop|Alexus Devine|William J. Wulftange|Elliott L. Paine|Jack R. Staunton|Steven Shema|Val Bliskovsky|Lisa M. Miller Jenkins|Nicole Y. Morgan|Raman Sood|Kandice Tanner National Cancer Institute;|National Human Genome Research Institute;|National Institute of Biomedical Imaging and Bioengineering;|National Human Genomic Research Institute
http://dx.doi.org/10.1101/233569 2017-12-13 Biochemistry CC BY-NC-ND Pre-mature senescence in the oldest leaves of low nitrate-grown Atxdh1 mutant uncovers a role for purine catabolism in plant nitrogen metabolism Moshe Sagi|Aigerim Soltabayeva|Sudhakar Srivastava|Assylay Kurmanbayeva|Aizat Bekturova|Robert Fluhr Ben Gurion University;|Weizmann Institute of Science
http://dx.doi.org/10.1101/233411 2017-12-13 Evolutionary Biology CC BY-NC-ND Medaka population genome structure and demographic history unveiled via Genotyping-by-Sequencing Takafumi Katsumura|Shoji Oda|Hiroshi Mitani|Hiroki Oota Okayama University;|University of Tokyo;|Kitasato University School of Medicine
http://dx.doi.org/10.1101/232215 2017-12-13 Bioengineering Robust direct differentiation and maturation of human pluripotent stem cells to hepatocyte-like cells Ken-ichiro Kamei|Momoko Yoshioka|Shiho Terada|Yumie Tokunaga|Yong Chen Kyoto University;|Ecole Normale Superieure
http://dx.doi.org/10.1101/231522 2017-12-13 Bioinformatics CC BY-NC-ND OCR-Stats: Robust estimation and statistical testing of mitochondrial respiration activities using Seahorse XF Analyzer Vicente A Yepez M|Laura S Kremer|Arcangela Iuso|Mirjana Gusic|Robert Kopajtich|Eliska Konarikova|Agnieszka Nadel|Leonhard Wachutka|Holger Prokisch|Julien Gagneur Department of Informatics, Technical University of Munich, Germany;|Institute of Human Genetics, Helmholtz Center Munich, Germany
http://dx.doi.org/10.1101/233320 2017-12-13 Evolutionary Biology CC BY-NC Rapid adaptation in large populations with very rare sex: scalings and spontaneous oscillations Michael T Pearce|Daniel S Fisher Stanford University
http://dx.doi.org/10.1101/233288 2017-12-13 Plant Biology CC BY Exploring the Genetics of Lesion and Nodal Resistance in Pea (Pisum sativum L.) to Sclerotinia sclerotiorum Using Genome-wide Association Studies and RNA-Seq Hao-Xun Chang|Hyunkyu Sang|Jie Wang|Kevin E. McPhee|Xiaofeng Zhuang|Lyndon D. Porter|Martin Chilvers Department of Plant, Soil and Microbial Sciences. Michigan State University.;|Department of Plant Biology. Michigan State University.;|Department of Plant Sciences and Plant Pathology. Montana State University.;|Department of Horticulture and Crop Science. the Ohio State University.;|USDA-ARS
http://dx.doi.org/10.1101/233064 2017-12-13 Biophysics CC BY-ND Application of the fluctuation theorem for non-invasive force measurement in living neuronal axons Kumiko Hayashi|Yuta Tsuchizawa|Mitsuhiro Iwaki|Yasushi Okada Tohoku University;|RIKEN, Osaka University;|RIKEN;|RIKEN, The University of Tokyo
http://dx.doi.org/10.1101/233544 2017-12-13 Bioinformatics CC BY-NC MAGpy: a reproducible pipeline for the downstream analysis of metagenome-assembled genomes (MAGs) Robert Stewart|Marc Auffret|Tim Snelling|Rainer Roehe|Mick Watson The Roslin Institute;|SRUC;|The Rowett Institute;|University of Edinburgh
http://dx.doi.org/10.1101/232884 2017-12-13 Systems Biology A quantitative network modeling approach to evaluate the role of cytokine combinations on CD4+ T cell differentiation, partial polarization, and plasticity Mariana Esther Martinez-Sanchez|Leonor Huerta|Elena Alvarez-Buylla|Carlos Villarreal Lujan Universidad Nacional Autonoma de Mexico, Instituto de Ecologia;|Universidad Nacional Autonoma de Mexico, Instituto de Investigacion Biomedica Basica;|Instituto de Fisica, Universidad Nacional Autonoma de Mexico
http://dx.doi.org/10.1101/233080 2017-12-13 Bioinformatics CC BY-NC-ND Hercules: a profile HMM-based hybrid error correction algorithm for long reads Can Firtina|Ziv Bar-Joseph|Can Alkan|A. Ercument Cicek Bilkent University;|Carnegie Mellon University
http://dx.doi.org/10.1101/233395 2017-12-13 Genomics CC BY-NC-ND Global phylogenomics of multidrug-resistant Staphylococcus aureus sequence type 772: the Bengal Bay clone Eike J Steinig|Sebastian Duchene|D. Ashley Robinson|Stefan Monecke|Maho Yokoyama|Maisem Laabei|Peter Slickers|Patiyan Andersson|Deborah Williamson|Angela Kearns|Richard Goering|Elizabeth Dickson|Ralf Ehricht|Margaret Ip|Matthew VN O'Sullivan|Geoffrey W Coombs|Andreas Petersen|Grainne Brennan|Anna C Shore|David C Coleman|Annalisa Pantosti|Herminia de Lencastre|Henrik Westh|Nobumichi Kobayashi|Helen Heffernan|Birgit Strommenger|Franziska Layer|Stefan Weber|Hege Aamot|Leila Skakni|Sharon J Peacock|Derek Sarovich|Philip Giffard|Simon Harris|Julian Parkhill|Ruth C Massey|Matthew TG Holden|Stephen D Bentley|Steven YC Tong Australian Institute of Tropical Health and Medicine, Townsville, Australia;|Department of Biochemistry & Molecular Biology, University of Melbourne, Melbourne, Australia;|University of Mississippi Medical Center, Jackson, United States;|Abbott (Alere Technologies GmbH), Jena, Germany;|Milner Centre for Evolution, University of Bath, Bath, United Kingdom;|Menzies School of Health Research, Darwin, Australia;|The Peter Doherty Institute for Infection and Immunity, Melbourne, Australia;|Public Health England, National Infection Service, London, United Kingdom;|Creighton University, Omaha, United States;|Scottish Microbiology Reference Laboratories, Glasgow, United Kingdom;|The Chinese University of Hong Kong, Hong Kong;|The University of Sydney, Sydney, Australia;|School of Veterinary and Laboratory Sciences, Murdoch University, Murdoch, Australia;|Statens Serum Institut, Copenhagen, Denmark;|National MRSA Reference Laboratory, St. James Hospital, Dublin, Ireland;|Microbiology Research Unit, School of Dental Science, University of Dublin, Dublin, Ireland;|Istituto Superiore di Sanita, Rome, Italy;|The Rockefeller University, New York City, United States of America;|University of Copenhagen, Copenhagen, Denmark;|Sapporo Medical University, Sapporo, Japan;|Institute of Environmental Science and Research, Wellington, New Zealand;|Robert Koch Institute, Wernigerode, Germany;|Sheikh Khalifa Medical City, Abu Dhabi, United Arab Emirates;|Akershus University Hospital, Lorenskog, Norway;|King Fahd Medical City, Riyadh, Kingdom of Saudi Arabia;|London School of Hygiene and Tropical Medicine, United Kingdom;|Sunshine Coast University, Sippy Downs, Australia,;|Wellcome Trust Sanger Institute, Cambridge, United Kingdom;|School of Cellular and Molecular Medicine, University of Bristol, United Kingdom;|University of St Andrews, St Andrews, United Kingdom
http://dx.doi.org/10.1101/232843 2017-12-13 Genetics CC BY-ND On negative heritability and negative estimates of heritability David Steinsaltz|Andy Dahl|Kenneth W. Wachter University of Oxford;|University of California, San Francisco;|University of California, Berkeley
http://dx.doi.org/10.1101/233015 2017-12-13 Systems Biology CC BY-ND Metagenomic signature of natural strongyle infection in susceptible and resistant horses Allison Clark|Guillaume Salle|Valentine Ballan|Fabrice Reigner|Annabelle Meynadier|Jacques Cortet|Christine Koch|Mickael Riou|Alexandra Blanchard|Nuria Mach Open University of Catalonia;|INRA
http://dx.doi.org/10.1101/233486 2017-12-13 Evolutionary Biology CC BY-NC-ND Genetic landscapes reveal how human genetic diversity aligns with geography Benjamin M Peter|Desislava Petkova|John Novembre University of Chicago;|Wellcome Trust Center for Human Genetics
http://dx.doi.org/10.1101/233478 2017-12-13 Ecology CC BY The assessment of fishery status depends on the condition of fish habitats Christopher J Brown|Andrew Broadley|Fernanda Adame|Trevor A Branch|Mischa Turschwell|Rod M Connolly Australian Rivers Institute, Griffith University;|School of Aquatic and Fishery Sciences, University of Washington;|Australian Rivers Institute - Coast and Estuaries, School of Environment, Griffith University
http://dx.doi.org/10.1101/232553 2017-12-12 Neuroscience CC BY-NC Structurally conserved primate lncRNAs are transiently expressed during human cortical differentiation and influence cell type specific genes Andrew R. Field|Frank M.J. Jacobs|Ian T. Fiddes|Alex P.R. Phillips|Andrea M. Reyes-Ortiz|Erin LaMontagne|Lila Whitehead|Vincent Meng|Jimi L. Rosenkrantz|Maximillian Haeussler|Sol Katzman|Sofie R. Salama|David Haussler University of California, Santa Cruz
http://dx.doi.org/10.1101/233072 2017-12-12 Bioinformatics CC BY-ND Predictions of Protein-Protein Interactions in Schistosoma Mansoni J. White Bear|Dave T. Barkan|Fred P. Davis|Andrej Sali University of California San Francisco;|University of Caliornia San Francisco;|Janelia Farm, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/233924 2017-12-13 CC BY-NC-ND The genomic and ecological context of hybridization affect the probability that symmetrical incompatibilities drive hybrid speciation. Aaron A. Comeault University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/233908 2017-12-13 CC BY-NC-ND Geometry of the sample frequency spectrum and the perils of demographic inference Zvi Rosen|Anand Bhaskar|Sebastien Roch|Yun S. Song University of California, Berkeley;|Stanford University;|University of Wisconsin, Madison
http://dx.doi.org/10.1101/233502 2017-12-13 Carriers of mitochondrial DNA macrohaplogroup L3 basic lineages migrated back to Africa from Asia around 70,000 years ago. Vicente M Cabrera|Julia Patricia Marrero Rodriguez|Khaled K Abu-Amero|Jose M Larruga University of La Laguna;|King Saud University
http://dx.doi.org/10.1101/233882 2017-12-13 CC BY-NC-ND The transcriptome of Paraphelidium tribonemae illuminates the ancestry of Fungi and Opisthosporidia Guifre Torruella|Xavier Grau-Bove|David Moreira|Sergey A Karpov|John Burns|Arnau Sebe-Pedros|Eckhard Volcker|Purificacion Lopez-Garcia CNRS-Universite Paris-Sud;|Universitat Pompeu Fabra-CSIC;|CNRS;|Russian Academy of Science - University of St Petersburg;|American Museum of Natural History;|Weizmann Institute of Science;|Penard Laboratory
http://dx.doi.org/10.1101/234021 2017-12-13 CC BY-ND netSmooth: Network-smoothing based imputation for single cell RNA-seq Jonathan Ronen|Altuna Akalin Max Delbrueck Center for Molecular Medicine
http://dx.doi.org/10.1101/234096 2017-12-13 CC BY-NC-ND Parental legacy, demography, and introgression influenced the evolution of the two subgenomes of the tetraploid Capsella bursa-pastoris (Brassicaceae) Dmytro Kryvokhyzha|Adriana Salcedo|Mimmi C. Eriksson|Tianlin Duan|Nilesh Tawari|Jun Chen|Maria Guerrina|Julia M. Kreiner|Tyler V. Kent|Ulf Lagercrantz|John R. Stinchcombe|Sylvain Glemin|Stephen I. Wright|Martin Lascoux Uppsala University;|University of Toronto;|University of Gothenburg;|Genome Institute of Singapore
http://dx.doi.org/10.1101/231738 2017-12-13 Neuroscience CC BY-NC-ND Trait-level paranoia shapes inter-subject synchrony in brain activity during an ambiguous social narrative Emily S Finn|Philip R Corlett|Gang Chen|Peter A Bandettini|R Todd Constable National Institute of Mental Health;|Yale University
http://dx.doi.org/10.1101/232454 2017-12-13 Neuroscience CC BY-NC Estimating the functional dimensionality of neural representations Christiane Ahlheim|Bradley C Love University College London;|University College London; The Alan Turing Institute
http://dx.doi.org/10.1101/232678 2017-12-13 Neuroscience Phasic Activation of Ventral Tegmental, but not Substantia Nigra, Dopamine Neurons Promotes Model-Based Pavlovian Reward Learning Ronald Keiflin|Heather J Pribut|Nisha B Shah|Patricia H Janak Johns Hopkins University
http://dx.doi.org/10.1101/232439 2017-12-13 Neuroscience CC BY Shape-related characteristics of age-related differences in subcortical structures Christopher R Madan University of Nottingham
http://dx.doi.org/10.1101/232694 2017-12-13 Physiology CC BY-NC-ND Derivation and validation of a VISITAG™-guided contact force ablation protocol for pulmonary vein isolation David R Tomlinson Plymouth Hospitals NHS Trust
http://dx.doi.org/10.1101/232587 2017-12-13 Neuroscience CC BY Tracking the Canonical Computations of Perceptual Processing in a Quasi-Continuous Sensory Flow Jean-Remi King|Valentin Wyart New York University, Frankfurt Institute for Advanced Studies;|Ecole Normale Superieure, INSERM
http://dx.doi.org/10.1101/232710 2017-12-13 Neuroscience CC BY Riemannian Geometry Boosts Representational Similarity Analyses of Dense Neural Time Series Alexandre Barachant|Jean-Remi King Independent researcher;|New York University, Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/232488 2017-12-13 Neuroscience CC BY-NC-ND Three-Dimensional Binocular Eye-Hand Coordination in Normal Vision and with Simulated Visual Impairment Guido Maiello|MiYoung Kwon|Peter J Bex Justus-Liebig University Giessen;|Department of Ophthalmology, University of Alabama at Birmingham;|Department of Psychology, Northeastern University
http://dx.doi.org/10.1101/232413 2017-12-13 Systems Biology CC BY-NC Modeling systemic colorimetric parameters as a tool for processing images of clumps of toxic cyanobacteria targeted at their boundaries detection Yuri Bespalov|Konstantin Nosov|P. S. Kabalyants V.N. Karazin Kharkiv National University
http://dx.doi.org/10.1101/232546 2017-12-13 Clinical Trials CC BY-ND Similar clinical improvement and maintenance after rTMS at 5 Hz using a simple vs. complex protocol in Alzheimer's disease Ruth Alcala|Erik Daniel Morelos-Santana|Jose Francisco Cortes-Sotres|Eduardo A Garza-Villarreal|Ana Luisa Sosa|Jorge Julio Gonzalez-Olvera Instituto Nacional de Psiquiatria Ramon de la Fuente Muniz;|Inst Nacional de Neurol y Neurocirugía Manuel Velasco Suárez
http://dx.doi.org/10.1101/233692 2017-12-13 Epidemiology CC BY A frailty index for UK Biobank participants Dylan M Williams|Juulia Jylhava|Nancy L Pedersen|Sara Hagg Karolinska Institutet
http://dx.doi.org/10.1101/232355 2017-12-13 Epidemiology Close encounters between infants and household members measured through wearable proximity sensors Laura Ozella|Francesco Gesualdo|Michele Tizzoni|Caterina Rizzo|Elisabetta Pandolfi|Ilaria Campagna|Alberto Eugenio Tozzi|Ciro Cattuto ISI Foundation;|Bambino Gesù Children's Hospital IRCCS;|Istituto Superiore di Sanità
http://dx.doi.org/10.1101/234450 2017-12-14 Biochemistry CC BY-NC-ND Genetic dissection of cyclic pyranopterin monophosphate biosynthesis in plant mitochondria Inga Kruse|Andrew E Maclean|Lionel Hill|Janneke Balk John Innes Centre
http://dx.doi.org/10.1101/234476 2017-12-14 Neuroscience KCC2-dependent Steady-state Intracellular Chloride Concentration and pH in Cortical Layer 2/3 Neurons of Anesthetized and Awake Mice Juan Carlos Boffi|Johannes Knabbe|Michaela Kaiser|Thomas Kuner Heidelberg University
http://dx.doi.org/10.1101/234153 2017-12-14 Genetics CC BY-NC Simulating Pedigrees Ascertained for Multiple Disease-Affected Relatives Christina M Nieuwoudt|Samantha J Jones|Angela Brooks-Wilson|Jinko Graham Simon Fraser University;|Canada's Michael Smith Genome Sciences Centre
http://dx.doi.org/10.1101/234062 2017-12-14 Bioinformatics CC BY-NC-ND iterativeWGCNA: iterative refinement to improve module detection from WGCNA co-expression networks Emily Greenfest-Allen|Jean-Philippe Cartailler|Mark A Magnuson|Christian J Stoeckert University of Pennsylvania;|Vanderbilt University
http://dx.doi.org/10.1101/234351 2017-12-14 Neuroscience CC BY-NC-ND A cortical immune network map identifies a subset of human microglia involved in Tau pathology Ellis Patrick|Marta Olah|Mariko Taga|Hans-Ulrich Klein|Jishu Xu|Charles C White|Daniel Felsky|Chris Gaiteri|Lori B Chibnik|Sara Mostafavi|Julie A Schneider|David A Bennett|Elizabeth M Bradshaw|Philip L De Jager University of Sydney;|Columbia University;|Broad Institute;|Rush University Medical Center;|Harvard T.H. Chan School of Public Health;|University of British Columbia
http://dx.doi.org/10.1101/234435 2017-12-14 Microbiology Prevalence, mechanisms and comparison of detection methods of fosfomycin resistance in E. coli from urinary tract infections Jennifer L Cottell|Mark A Webber Micropathology Ltd;|Quadram Institute
http://dx.doi.org/10.1101/232447 2017-12-14 Cancer Biology CC BY Alterations in Cell Motility, Proliferation, and Metabolism in Novel Models of Acquired Temozolomide Resistant Glioblastoma Deanna M Tiek|Janice D Rone|Garrett T Graham|Evan L Pannkuk|Bassem R Haddad|Rebecca B Riggins Georgetown University
http://dx.doi.org/10.1101/234377 2017-12-14 Evolutionary Biology CC BY-NC-ND Is the sky the limit? On the expansion threshold of a species' range Jitka Polechova University of Vienna
http://dx.doi.org/10.1101/233510 2017-12-14 Neuroscience CC BY-NC-ND Probabilistic thresholding of functional connectomes: application to schizophrenia Frantisek Vasa|Edward T Bullmore|Ameera X Patel University of Cambridge
http://dx.doi.org/10.1101/232942 2017-12-14 Neuroscience CC BY-ND Fractals in Action: An fMRI study on the Generation of new Hierarchical Levels in Motor Sequences Mauricio de Jesus Dias Martins|Roberta Bianco|Daniela Sammler|Arno Villringer Max Planck Institute for Human Cognitive and Brain Sciences
http://dx.doi.org/10.1101/233429 2017-12-14 Ecology Patchiness and scale-free correlations: characterising criticality in ecosystems. Sumithra Sankaran|Sabiha Majumder|Ashwin Viswanathan|Vishwesha Guttal Centre for Ecological Sciences, Indian Institute of Science;|Department of Physics, Indian Institute of Science;|ETH Zurich
http://dx.doi.org/10.1101/233841 2017-12-14 Bioinformatics CC BY-NC-ND CLAN: the CrossLinked reads ANalysis tool Cuncong Zhong|Shaojie Zhang University of Kansas;|University of Central Florida
http://dx.doi.org/10.1101/223941 2017-12-14 Ecology Demographic causes of adult sex ratio variation and their consequences for parental cooperation Luke J. Eberhart-Phillips|Clemens Kuepper|Maria Cristina Carmona-Isunza|Orsolya Vincze|Sama Zefania|Medardo Cruz-Lopez|Andras Kosztolanyi|Tom E. X. Miller|Zoltan Barta|Innes Cuthill|Terry Burke|Tamas Szekely|Joseph I. Hoffman|Oliver Krueger Research Group Behavioural Genetics and Evolutionary Ecology, Max Planck Institute for Ornithology;|Department of Biology and Biochemistry, University of Bath;|Department of Evolutionary Zoology, University of Debrecen;|Department of Animal Biology, University of Toliara;|Posgrado de Ciencias del Mar y Limnologia, Unidad Academica Mazatlan, Universidad Nacional Autonoma;|Department of Ecology, University of Veterinary Medicine Budapest;|Department of BioSciences, Program in Ecology and Evolutionary Biology, Rice University;|School of Biological Sciences, University of Bristol;|Department of Animal and Plant Sciences, University of Sheffield;|Department of Animal Behaviour, Bielefeld University
http://dx.doi.org/10.1101/232702 2017-12-14 Neuroscience An accumulation-of-evidence task using visual pulses for mice navigating in virtual reality Lucas Pinto|Sue Ann Koay|Ben Engelhard|Alice M Yoon|Ben Deverett|Stephan Y Thiberge|Ilana Witten|David W Tank|Carlos Brody Princeton University;|Princeton University and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/233874 2017-12-14 Genomics Hormone Control Regions mediate opposing steroid receptor-dependent genome organizations Francois Le Dily|Enrique Vidal|Yasmina Cuartero|Javier Quilez|Silvina Nacht|Guillermo P Vicent|Priyanka Sharma|Gaetano Verde|Miguel Beato CRG-Centre for Genomic Regulation;|CRG/CNAG;|Universitat Internacional de Catalunya
http://dx.doi.org/10.1101/233957 2017-12-14 Evolutionary Biology CC BY-ND Mechanisms that maintain coexistence of antibiotic sensitivity and resistance also promote high frequencies of multidrug resistance Sonja Lehtinen|Francois Blanquart|Marc Lipsitch|Christophe Fraser The Oxford Big Data Institute, University of Oxford;|Center for Interdisciplinary Research in Biology, Collège de France;|Harvard School of Public Health;|-
http://dx.doi.org/10.1101/233742 2017-12-14 Ecology CC BY-NC-ND Selective effects of temperature on body mass depend on trophic interactions and network position Avril Weinbach|Korinna Allhoff|Elisa Thebault|Francois Massol|Nicolas Loeuille Sorbonne Universities, UPMC Univ Paris 06, CNRS, iEES-Paris,4 place Jussieu, Paris, France;|Institut fuer Evolution und Oekologie, Eberhard Karls Universitaet Tuebingen, Germany;|University of Lille, CNRS, UMR 8198 - Evo-Eco-Paleo, SPICI group, Lille, France
http://dx.doi.org/10.1101/233601 2017-12-14 Bioinformatics CC BY-ND AntAngioCOOL: An R Package for Computational Detection of Anti-Angiogenic Peptides Javad Zahiri|Babak Khorsand-Ghaffari|Ramin Shirali Hossein Zade|Mohammadjavad Kargar|Ali Akbar Yousefi TMU;|Ferdowsi University of Mashhad;|Sharif University of Technology;|University of Science and Culture, Tehran
http://dx.doi.org/10.1101/234120 2017-12-14 Pathology CC BY-NC-ND Pediatric Bone Age Assessment Using Deep Convolutional Neural Networks Vladimir Iglovikov|Alexander Rakhlin|Alexandr Kalinin|Alexey Shvets Lyft Inc.;|National Research University of Electronic Technology;|University of Michigan;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/233916 2017-12-14 Ecology CC BY-ND A temperature dependent trophic cascade modifies temperature dependence of ecosystem function Jessica Garzke|Stephanie J Connor|Ulrich Sommer|Mary I O'Connor Institute for the Oceans and Fisheries, University of British Columbia;|Canadian Rivers Institute, University of New Brunswick;|GEOMAR Helmholtz Centre for Ocean Research Kiel;|Department of Zoology, University of British Columbia
http://dx.doi.org/10.1101/233684 2017-12-14 Neuroscience Behavioral context determines network state and variability dynamics in monkey motor cortex Alexa Riehle|Thomas Brochier|Martin Paul Nawrot|Sonja Gruen Institut de Neurosciences de la Timone (INT), CNRS-AMU;|Computational Systems Neuroscience, Dept Biology,University of Cologne;|INM-6, Forschungszentrum Juelich
http://dx.doi.org/10.1101/233528 2017-12-14 Neuroscience Individual differences in fear learning: Specificity to trait-anxiety beyond other measures of negative affect, and mediation via amygdala activation Rachel Sjouwerman|Robert Scharfenort|Tina B Lonsdorf University Medical Center Hamburg - Eppendorf
http://dx.doi.org/10.1101/233783 2017-12-14 Neuroscience CC BY-NC-ND A short, robust brain activation control task optimised for pharmacological fMRI studies Jessica-Lily Harvey|Lysia Demetriou|John McGonigle|Matthew B Wall Division of Brain Sciences, Imperial College London;|Imanova Centre for Imaging Sciences
http://dx.doi.org/10.1101/233148 2017-12-14 Genomics CC BY-NC-ND Leishmania naiffi and Leishmania guyanensis reference genomes highlight genome structure and gene content evolution in the Viannia subgenus Simone Coughlan|Ali Shirley Taylor|Eoghan Feane|Mandy Sanders|Gabriele Schonian|James A Cotton|Tim Downing School of Mathematics, Applied Mathematics and Statistics, National University of Ireland, Galway.;|School of Biotechnology, Dublin City University, Dublin, Ireland;|Wellcome Trust Sanger Institute, Hinxton, UK;|Charite University Medicine, Berlin, Germany
http://dx.doi.org/10.1101/233619 2017-12-14 Neuroscience Simultaneous Estimation of Population Receptive Field and Hemodynamic Parameters from Single Point BOLD Responses using Metropolis-Hastings Sampling Stanislaw Ryszard Adaszewski|David Slater|Lester Melie-Garcia|Bogdan Draganski|Piotr Bogorodzki Laboratoire de Recherche en Neuroimagerie, DNC, CHUV, Lausanne, Switzerland;|Instytut Radioelektroniki i Technik Multimedialnych, WEITI, PW, Warsaw, Poland
http://dx.doi.org/10.1101/233189 2017-12-14 Neuroscience Ultrasound Produces Extensive Brain Activation via a Cochlear Pathway Hongsun Guo|Mark Hamilton|Sarah J. Offutt|Cory D. Gloeckner|Tianqi Li|Yohan Kim|Wynn Legon|Jamu K. Alford|Hubert H. Lim University of Minnesota;|Medtronic;|University of Minnesota; University of Virginia School of Medicine
http://dx.doi.org/10.1101/233551 2017-12-14 Neuroscience CC BY-NC-ND Tracking temporal hazard in the human electroencephalogram using a forward encoding model Sophie K Herbst|Lorenz Fiedler|Jonas Obleser University of Luebeck
http://dx.doi.org/10.1101/233353 2017-12-14 Physiology CC BY Long-range infra-sound acoustic signaling in human in vivo Xiaoyue Chang|Li Zhang|Xiguang Wei|Zengfu Peng|Zhiguo Zhang|Zhong Liu|Pei-Wen Li|Pui Tao Lai|Shing Chow Chan|Edward Yang University of Hong Kong;|Hong Kong Baptist University;|Shenzhen University;|National Chiao-Tung University
http://dx.doi.org/10.1101/233577 2017-12-14 Neuroscience CC BY Glucocorticoid receptor-mediated amygdalar metaplasticity underlies adaptive modulation of fear memory by stress Ran Inoue|Kareem Abdou|Ayumi Hayashi-Tanaka|Shin-ichi Muramatsu|Kaori Mino|Kaoru Inokuchi|Hisashi Mori University of Toyama, Japan;|Jichi Medical University, Japan
http://dx.doi.org/10.1101/233460 2017-12-14 Microbiology CC BY Drivers of antimicrobial resistance amongst intestinal Escherichia coli isolated from children in South Asia and sub-Saharan Africa Danielle Ingle|Myron M. Levine|Karen L. Kotloff|Kathryn E Holt|Roy M. Robins-Browne The Australian National University and The University of Melbourne;|Center for Vaccine Development, University of Maryland School of Medicine;|University of Melbourne;|The University of Melbourne
http://dx.doi.org/10.1101/234161 2017-12-14 Genetics CC BY-NC-ND Gene networks underlying faster flowering induction in response to far-red light Maria Pazos Navarro|Federico M Ribalta|Bhavna Hurgobin|Janine S Croser|Parwinder Kaur Centre for Plant Genetics and Breeding, UWA School of Agriculture and Environment, The University of;|School of Biological Sciences, The University of Western Australia
http://dx.doi.org/10.1101/233635 2017-12-14 Genetics Examining the genetic influences of educational attainment and the validity of value-added measures of progress Tim T Morris|Neil M Davies|Danny Dorling|Rebecca C Richmond|George Davey Smith University of Bristol;|University of Oxford
http://dx.doi.org/10.1101/234245 2017-12-14 Genomics CC BY-NC-ND The genomic ancestry, landscape genetics, and invasion history of introduced mice in New Zealand Andrew James Veale|James Russell|Carolyn King Unitec;|University of Auckland;|University of Waikato
http://dx.doi.org/10.1101/234229 2017-12-14 Neuroscience CC BY-NC-ND Premarin has opposing effects on spatial learning, neural activation and serum cytokine levels in middle age dependent on reproductive history Liisa Galea|Meighen Roes|Christina van den Brink|Carmen Chow|Rand Mahmoud|Stephanie Lieblich|Paula Duarte-Guterman University of British Columbia
http://dx.doi.org/10.1101/234211 2017-12-14 Neuroscience Ultrasonic Neuromodulation Causes Widespread Cortical Activation via an Indirect Auditory Mechanism Tomokazu Sato|Mikhail Shapiro|Doris Tsao California Institute of Technology
http://dx.doi.org/10.1101/233973 2017-12-14 Evolutionary Biology CC BY-NC Verbalizing phylogenomic conflict: Representation of node congruence across competing reconstructions of the neoavian explosion Nico Franz|Lukas Musher|Joseph Brown|Shizhuo Yu|Bertram Ludaescher Arizona State University;|American Museum of Natural History;|University of Sheffield;|University of California at Davis;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/234179 2017-12-14 Neuroscience CC BY-NC-ND Template-based prediction of vigilance fluctuations in resting-state fMRI Maryam Falahpour|Catie Chang|Chi Wah Wong|Thomas Liu Center for Functional MRI, University of California San Diego;|National Institutes of Health
http://dx.doi.org/10.1101/233981 2017-12-14 Microbiology CC BY-ND A new method to isolate algal species from mix algal culture Ehsan Ali|Saima S Mirza University of Agriculture Faisalabad, Pakistan;|University of Agriculture, Faisalabad
http://dx.doi.org/10.1101/234260 2017-12-14 Immunology The Role of Conformational Dynamics in Abacavir-Induced Hypersensitivity Syndrome Itamar Kass|James Fodor|Blake T Riley|Ashley M Buckle|Natalie A Borg Monash University
http://dx.doi.org/10.1101/231506 2017-12-14 Neuroscience CC BY-NC-ND Reconciling persistent and dynamic hypotheses of working memory coding in prefrontal cortex Sean E Cavanagh|John P Towers|Joni D Wallis|Laurence T Hunt|Steven W Kennerley University College London;|University of California, Berkeley;|University of Oxford
http://dx.doi.org/10.1101/233999 2017-12-14 Microbiology CC BY-NC-ND The Escherichia coli CpxAR system does not sense surface contact Tom E. P. Kimkes|Matthias Heinemann University of Groningen
http://dx.doi.org/10.1101/233171 2017-12-14 Neuroscience Intrinsic neuronal dynamics predict distinct functional roles during working memory Dante Francisco Wasmuht|Eelke Spaak|Timothy J. Buschman|Earl K. Miller|Mark G. Stokes University of Oxford;|Princeton;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/234237 2017-12-14 Cell Biology CC BY-NC-ND Reticular adhesions: A new class of adhesion complex that mediates cell-matrix attachment during mitosis John G Lock|Matthew C Jones|Janet A Askari|Xiaowei Gong|Anna Oddone|Helene Olofsson|Sara Goransson|Melike Lakadamyali|Martin J Humphries|Staffan Stromblad School of Medical Sciences, University of New South Wales;|Wellcome Trust Centre for Cell-Matrix Research, University of Manchester;|Department of Biosciences and Nutrition, Karolinska Institutet;|Centre for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology;|Perelman School of Medicine, Department of Physiology, University of Pennsylvania
http://dx.doi.org/10.1101/233940 2017-12-13 Cell Biology Neural network control of focal position during time-lapse microscopy of cells Ling Wei|Elijah Roberts Johns Hopkins University
http://dx.doi.org/10.1101/233890 2017-12-13 Microbiology Dynamic protein aggregation regulates bacterial dormancy depth critical for antibiotic tolerance Yingying Pu|Yingxing Li|Qi Ma|Tian Tian|Ziyi Zhao|Alexander McVey|Fan Bai Biodynamic Optical Imaging Center (BIOPIC), School of Life Sciences, Peking University;|Centre for Synthetic and Systems Biology, The University of Edinburgh
http://dx.doi.org/10.1101/234088 2017-12-13 Developmental Biology Growth control through regulation of insulin-signaling by nutrition-activated steroid hormone Kurt Buhler|Jason Clements|Mattias Winant|Veerle Vulsteke|Patrick Callaerts KU Leuven
http://dx.doi.org/10.1101/233825 2017-12-13 Developmental Biology CC BY The complement system supports normal postnatal development and gonadal function in both sexes Donald Conrad|Arthur Lee|Jannette Rusch|Abul Usmani|Ana Lima|Wendy Wong|Ni Huang|Maarja Lepamets|Katinka Vigh-Conrad|Ronald Worthington|Reedik Magi|John Niederhuber|Xiaobo Wu|John Atkinson|Rex Hess Washington University School of Medicine;|Inova Health System;|University of Tartu;|Southern Illinois University at Edwardsville;|Inova Health Systems;|University of Illinois at Urbana Champaign
http://dx.doi.org/10.1101/233791 2017-12-13 Developmental Biology An eye-targeted double-RNAi screen reveals negative roles for the Archipelago ubiquitin ligase and CtBP in Drosophila Dpp BMP2/4 signaling. Nadia Eusebio|Paulo S Pereira Instituto de Biologia Molecular e Celular /i3S
http://dx.doi.org/10.1101/233775 2017-12-13 Developmental Biology FGFs are orchestra conductors of Shh-dependent oligodendroglial fate specification in the ventral spinal cord Marie-Amelie Farreny|Eric Agius|Sophie Bel-Vialar|Nathalie Escalas|Nagham Khouri-Farah|Chadi Soukkarieh|Fabienne Pituello|Philippe Cochard|Cathy Soula Center for Developmental Biology, Center for Integrative Biology, Univ of Toulouse
http://dx.doi.org/10.1101/233817 2017-12-13 Cell Biology mRNA structure determines specificity of a polyQ-driven phase separation Erin M Langdon|Peggy Billingsly|Amirhossein Ghanbari Niaki|Grace McLaughlin|Chase Weidmann|Therese Gerbich|Christina M Termini|Kevin M Weeks|Sua Myong|Amy Gladfelter University of North Carolina;|Johns Hopkins;|University of North Carolina Chapel Hill;|University of California Los Angeles;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/232827 2017-12-13 Neuroscience CC BY-NC-ND Identification of a novel caspase cleavage site in huntingtin that regulates mutant huntingtin clearance. Dale D.O. Martin|Mandi E. Schmidt|Yen T. Nguyen|Nikola Lazic|Michael R. Hayden Centre for Molecular Medicine and Therapeutics, University of British Columbia
http://dx.doi.org/10.1101/233130 2017-12-13 Microbiology The impact of HIV-1 within-host evolution on transmission dynamics Kristof Theys|Pieter Libin|Andrea-Clemencia Pineda-Pena|Ann Nowe|Anne-Mieke Vandamme|Ana Abecasis University of Leuven, Department of Microbiology and Immunology, Rega Institute for Medical Research;|Artificial Intelligence Lab, Department of computer science, Vrije Universiteit Brussel, Belgium;|Molecular Biology and Immunology Department, Fundacion Instituto de Immunologia de Colombia (FIDIC);|Institute for Hygiene and Tropical Medicine, IHMT, University Nova de Lisboa, UNL, Lisbon, Portuga
http://dx.doi.org/10.1101/234617 2017-12-14 CC BY-NC-ND A High Resolution Map of Meiotic Recombination in Cryptococcus Demonstrates Decreased Recombination in Unisexual Reproduction Cullen Roth|Sheng Sun|R. Blake Billmyre|Joseph Heitman|Paul Magwene Department of Biology, Duke University, Durham, North Carolina, United States of America;|Department of Molecular Genetics and Microbiology, Duke University Medical Center, Durham, NC
http://dx.doi.org/10.1101/233312 2017-12-14 Prevalence and patterns of higher-order interactions Elif Tekin|Cynthia White|Tina Manzhu Kang|Nina Singh|Mauricio Cruz-Loya|Robert Damoiseaux|Van M. Savage|Pamela J Yeh University of California, Los Angeles
http://dx.doi.org/10.1101/234559 2017-12-14 CC BY-NC-ND Supergene evolution triggered by the introgression of a chromosomal inversion Paul Jay|Annabel Whibley|Lise Frezal|Angeles de Cara|Reuben W. Nowell|James Mallet|Kanchon K. Dasmahapatra|Mathieu Joron Centre d'Ecologie Fonctionnelle et Evolutive, UMR 5175 CNRS;|Department of Cell and Developmental Biology, John Innes Centre;|IBENS, Dept de Biologie, Ecole Normale Superieure, CNRS, Inserm, PSL Res Univ;|Department of Life Sciences, Imperial College London;|Dept of Organismic & Evolutionary Biology, Biology Laboratories, Harvard University;|Department of Biology, University of York
http://dx.doi.org/10.1101/234039 2017-12-14 Systems Biology CC BY-NC-ND The Cell Cycle Browser: an interactive tool for visualizing, simulating, and perturbing cell cycle progression David Borland|Hong Yi|Gavin D Grant|Kasia M Kedziora|Hui Xiao Chao|Rachel A Haggerty|Jayashree Kumar|Samuel C Wolff|Jeanette G Cook|Jeremy E Purvis The University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/232272 2017-12-14 Cell Biology GORAB, a Golgi protein required for centriole structure and duplication Levente Kovacs|Jennifer Chao-Chu|Sandra Schneider|Marco Gottardo|George Tzolovsky|Nikola S Dzhindzhev|Maria Giovanna Riparbelli|Giuliano Callaini|David M Glover Department of Genetics, University of Cambridge;|Department of Anatomy, University of Hong Kong;|Center for Molecular Medicine and Institute for Biochemistry of the University of Cologne;|Carl Zeiss Microscopy Ltd, ZEISS Group, Cambridge;|Department of Life Sciences, University of Siena
http://dx.doi.org/10.1101/233676 2017-12-14 Neuroscience CC BY-NC-ND Skilled lipreaders read and listen to lips Satu Saalasti|Jussi Alho|Juha Lahnakoski|Mareike Bacha-Trams|Enrico Glerean|Iiro Jaaskelainen|Uri Hasson|Mikko Sams University of Helsinki;|Aalto University;|Max Planck Institute;|Aalto University, Espoo, Finland;|University of Princeton
http://dx.doi.org/10.1101/234278 2017-12-14 Bioinformatics CC BY-NC-ND Host_microbe_mapper allows to analyse and interpret the expression of dual RNA-seq measurements and reveals potential microbial contaminations in the data Thomas Nussbaumer Helmholtz Zentrum Munich
http://dx.doi.org/10.1101/232975 2017-12-14 Molecular Biology CC BY-ND Isolation of nucleic acids from low biomass samples: detection and removal of sRNA contaminants Anna Heintz-Buschart|Dilmurat Yusuf|Anne Kaysen|Alton Etheridge|Joelle V Fritz|Patrick May|Carine de Beaufort|Bimal Babu Upadhyaya|Anubrata Ghosal|David J Galas|Paul Wilmes Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 4362 Esch-sur-Alzette, LU;|Pacific Northwest Research Institute, Seattle, WA, 98122, USA;|Centre Hospitalier de Luxembourg, 1210 Luxembourg, Luxembourg
http://dx.doi.org/10.1101/234989 2017-12-15 Bioinformatics A methodology for unsupervised clustering using iterative pruning to capture fine-scale structure Kridsadakorn Chaichoompu|Fentaw Abegaz|Sissades Tongsima|Philip James Shaw|Anavaj Sakuntabhai|Bruno Cavadas|Luisa Pereira|Kristel Van Steen University of Liege;|National Center for Genetic Engineering and Biotechnology;|Institut Pasteur;|Universidade do Porto
http://dx.doi.org/10.1101/234823 2017-12-15 Systems Biology Application of Atlas of Cancer Signalling Network in pre-clinical studies L. Cristobal Monraz Gomez|Maria Kondratova|Jean-Marie Ravel|Emmanuel Barillot|Andrei Zinovyev|Inna Kuperstein Institut Curie;|Nancy's regional hospital;|Institut curie
http://dx.doi.org/10.1101/234799 2017-12-15 Physiology CC BY-NC-ND Transmural unipolar electrogram morphology is achieved within 7s at the posterior left atrial wall during pulmonary vein isolation: VISITAG™ Module-based lesion assessment during radiofrequency ablation David Tomlinson|Madison Myles|Kara Stevens|Adam J Streeter Plymouth Hospitals NHS Trust;|Dorset Heart Centre, Royal Bournemouth and Christchurch Hospitals NHS Foundation Trust;|Department of Medical Statistics, Plymouth University Peninsula Schools of Medicine and Dentistry
http://dx.doi.org/10.1101/234815 2017-12-15 Genetics CC BY-NC LD Score regression as an estimator of confounding and genetic correlations in genome-wide association studies James J Lee|Carson C Chow University of Minnesota Twin Cities;|National Institutes of Health
http://dx.doi.org/10.1101/234732 2017-12-15 Neuroscience CC BY Multi-attribute Decision-making is Best Characterized by an Attribute-Wise Reinforcement Learning Model Shaoming Wang|Bob Rehder New York University
http://dx.doi.org/10.1101/235028 2017-12-15 Microbiology Cultivation and genomic analysis of Candidatus Nitrosocaldus islandicus, a novel obligately thermophilic ammonia-oxidizing Thaumarchaeon Anne Daebeler|Craig Herbold|Julia Vierheilig|Christopher J Sedlacek|Petra Pjevac|Mads Albersten|Rasmus H Kirkegaard|Jose R de la Torre|Holger Daims|Michael Wagner University of Vienna;|Aalborg University;|San Franscisco State University
http://dx.doi.org/10.1101/234955 2017-12-15 Bioinformatics CC BY Real-time search of all bacterial and viral genomic data Phelim Bradley|Henk den Bakker|Eduardo Rocha|Gil McVean|Zamin Iqbal University of Oxford;|University of Georgia;|Institut Pasteur;|European Bioinformatics Institute
http://dx.doi.org/10.1101/234070 2017-12-15 Neuroscience Low beta power reflects perceived temporal probabilities for uncertain future events Alessandro Tavano|Erich Schroger|Sonja A. Kotz Inst of Psychology, Univ of Leipzig; Max Planck Institute for Empirical Aesthetics;|Institute of Psychology, University of Leipzig;|Maastricht University
http://dx.doi.org/10.1101/234971 2017-12-15 Genetics CC BY-NC-ND Effects of acclimation time and epigenetic mechanisms on growth of Neurospora in fluctuating environments Ilkka Kronholm|Tarmo Ketola University of Jyväskylä
http://dx.doi.org/10.1101/235051 2017-12-15 Genomics Heterogeneous cross-linked polymers to reconstruct chromatin reorganization during cell differentiation Ofir Shukron|David Holcman ENS
http://dx.doi.org/10.1101/234310 2017-12-15 Cancer Biology CC BY An antisense RNA capable of modulating the expression of the tumour suppressor microRNA-34a Jason T Serviss|Felix Clemens Richter|Jimmy Van den Eynden|Nathanael Andrews|Miranda Houtman|Mattias Vesterlund|Laura Schwarzmueller|Per Johnsson|Erik Larsson Lekholm|Dan Grander|Katja Pokrovskaja Tamm Department of Oncology and Pathology, Karolinska Institutet;|Kennedy Institute of Rheumatology, University of Oxford;|Institute of Biomedicine, The Sahlgrenska Academy, University of Gothenburg;|Department of Medicine, Karolinska University Hospital;|Center for Experimental Molecular Medicine (CEMM), Academic Medical Center;|Department of Cell and Molecular Biology, Karolinska Institutet
http://dx.doi.org/10.1101/234930 2017-12-15 Genomics CC BY Specificity of RNAi, LNA and CRISPRi as loss-of-function methods in transcriptional analysis Lovorka Stojic|Aaron Lun|Jasmin Mangei|Patrice Mascalchi|Valentina Quarantotti|Alexis Barr|Chris Bakal|John Marioni|Fanni Gergely|Duncan Odom CRUK Cambridge Institute;|DKFZ;|Univeristy of Bordeaux;|Institute of Cancer Research
http://dx.doi.org/10.1101/234906 2017-12-15 Cancer Biology Macrophage-derived granulin drives resistance to immune checkpoint inhibition in metastatic pancreatic cancer Valeria Quaranta|Carolyn Rainer|Sebastian R Nielsen|Meirion Raymant|Muhammad S Ahmed|Dannielle Engle|Arthur Taylor|Trish Murray|Fiona Campbell|Daniel Palmer|David Tuveson|Ainhoa Mielgo|Michael Schmid University of Liverpool, UK;|Cold Spring Harbor Laboratory, USA
http://dx.doi.org/10.1101/234443 2017-12-15 Neuroscience CC BY-NC-ND Speed dependent descending control of innate freezing behavior in Drosophila melanogaster Ricardo Zacarias|Shigehiro Namiki|Gwyneth Card|Maria L Vasconcelos|Marta A Moita Champalimaud Foundation;|Janelia Research Campus
http://dx.doi.org/10.1101/234633 2017-12-15 Developmental Biology Self-organization of a functional human organizer by combined WNT and NODAL signalling Iain Martyn|Tatiane Kanno|Albert Ruzo|Eric Siggia|Ali Brivanlou The Rockefeller University
http://dx.doi.org/10.1101/234708 2017-12-15 Plant Biology CC BY-ND Trait components of whole plant water use efficiency are defined by unique, environmentally responsive genetic signatures in the model C4 grass Setaria Max J Feldman|Patrick Z Ellsworth|Noah Fahlgren|Malia A Gehan|Asaph B Cousins|Ivan Baxter Donald Danforth Plant Science Center;|Washington State University;|USDA-ARS
http://dx.doi.org/10.1101/234831 2017-12-15 Genetics Melanin pathway genes regulate color and morphology of butterfly wing scales Yuji Matsuoka|Antonia Monteiro National University of Singapore
http://dx.doi.org/10.1101/234765 2017-12-15 Neuroscience CC BY-NC-ND Partial ablation of the orexin field induces a subnarcoleptic phenotype in a conditional mouse model of orexin neurodegeneration Sarah W Black|Jessica D. Sun|Pamela Santiago|Alex Laihsu|Nikki Kimura|Akihiro Yamanaka|Ross Bersot|Paul S. Humphries Reset Therapeutics;|Nagoya University
http://dx.doi.org/10.1101/234690 2017-12-15 Microbiology CC BY-NC-ND Amplicon sequencing of the 16S-ITS-23S rRNA operon with long-read technology for improved phylogenetic classification of uncultured prokaryotes Joran Martijn|Anders E. Lind|Ian Spiers|Lina Juzokaite|Ignas Bunikis|Olga Vinnere Pettersson|Thijs J.G. Ettema Uppsala University;|Science for Life Laboratory, Uppsala University
http://dx.doi.org/10.1101/234427 2017-12-15 Cell Biology A tissue-specific self-interacting chromatin domain forms independently of enhancer-promoter interactions Jill M Brown|Nigel A Roberts|Bryony Graham|Dominic Waithe|Christoffer Lagerholm|Jelena M Telenius|Sara De Ornellas|Marieke Oudelaar|Izabela Szczerbal|Christian Babbs|Mira T Kassouf|Jim R Hughes|Douglas R Higgs|Veronica J Buckle Oxford University;|Poznan University of Life Sciences
http://dx.doi.org/10.1101/234740 2017-12-15 Biophysics CC BY High accuracy measurements of nanometer-scale distances between fluorophores at the single-molecule level Stefan Niekamp|Jongmin Sung|Walter Huynh|Ronald D Vale|Nico Stuurman Dept of Cellular and Molecular Pharmacology and Howard Hughes Medical Institute, UCSF
http://dx.doi.org/10.1101/234344 2017-12-15 Bioinformatics Reliable detection of translational regulation with Ribo-seq Sonia Chothani|Eleonora Adami|Sivakumar Viswanathan|Norbert Hubner|Stuart Cook|Sebastian Schafer|Owen Rackham Duke-NUS school of medicine;|Max Delbruck Center for Molecular ;|National Heart Centre, Singapore
http://dx.doi.org/10.1101/234112 2017-12-15 Cell Biology Transcription establishes microenvironments that organize euchromatin Lennart Hilbert|Yuko Sato|Hiroshi Kimura|Frank Julicher|Alf Honigmann|Vasily Zaburdaev|Nadine Vastenhouw Center for Systems Biology Dresden;|Tokyo Institute of Technology;|Max Planck Institute for the Physics of Complex Systems;|Max Planck Institute of Molecular Cell Biology and Genetics
http://dx.doi.org/10.1101/234856 2017-12-15 Genomics CC BY Sequence variation aware genome references and read mapping with the variation graph toolkit Erik Garrison|Jouni Siren|Adam M Novak|Glenn Hickey|Jordan M Eizenga|Eric T Dawson|William Jones|Michael F Lin|Benedict Paten|Richard Durbin Wellcome Trust Sanger Institute;|University of California, Santa Cruz;|Wellcome Trust Sanger Institute; National Cancer Institute (US);|DNAnexus;|Wellcome Trust Sanger Institute; Department of Genetics, Cambridge University
http://dx.doi.org/10.1101/234492 2017-12-15 Immunology CC BY-NC-ND Single-cell RNA-sequencing redefines blood cell type classification in mosquitoes Maiara S. Severo|Jonathan J.M. Landry|Randall L. Lindquist|Christian Goosmann|Volker Brinkmann|Paul Collier|Anja E. Hauser|Vladimir Benes|Sarah A. Teichmann|Elena A. Levashina Vector Biology Unit, Max Planck Institute for Infection Biology;|Genomics Core Facility, European Molecular Biology Laboratories;|Deutsches Rheumaforschungszentrum (DRFZ);|Microscopy Core Facility, Max Planck Institute for Infection Biology;|Immune Dynamics and Intravital Microscopy, Charite Universitaetsmedizin;|Wellcome Trust Sanger Institute and European Bioinformatics Institute;|Vector Biology Unit, Max-Planck-Institute for Infection Biology
http://dx.doi.org/10.1101/235135 2017-12-15 Recovery Dynamics of the High Frequency Alternating Current Nerve Block Adrien Rapeaux|Emma Brunton|Kianoush Nazarpour|Timothy Constandinou Imperial College London;|Newcastle University
http://dx.doi.org/10.1101/235176 2017-12-15 CC BY-NC-ND Stability, affinity and chromatic variants of the glutamate sensor iGluSnFR Jonathan S Marvin|Benjamin Scholl|Daniel E Wilson|Kaspar Podgorski|Abbas Kazemipour|Johannes Alexander Mueller|Susanne Schoch-McGovern|Samuel S-H Wang|Francisco Jose Urra Quiroz|Nelson Rebola|Huan Bao|Justin P Little|Ariana N Tkachuk|Adam W Hantman|Edwin R Chapman|Dirk Dietrich|David A DiGregorio|David Fitzpatrick|Loren L Looger Howard Hughes Medical Institute (HHMI), Janelia Research Campus;|Max Planck Florida Institute for Neuroscience;|Department of Neuropathology, University of Bonn;|Princeton Neuroscience Institute and Dept of Molecular Biology, Princeton University;|Unit of Dynamic Neuronal Imaging and Ctr Natl de la Recherche Sci, Inst Pasteur;|HHMI, Department of Neuroscience, University of Wisconsin, Madison;|Department of Neurosurgery, University of Bonn
http://dx.doi.org/10.1101/234948 2017-12-15 CC BY-NC-ND Testing hypotheses on population dynamics: A test for the inhomogeneous Poisson point process model Niklas Hohmann FAU Erlangen Nuremberg
http://dx.doi.org/10.1101/235085 2017-12-15 CC BY-ND H2AFX AND MDC1 PROTECT GENOMIC INTEGRITY IN MALE GERM CELLS BY PROMOTING RECOMBINATION AND ACTIVATION OF THE RECOMBINATION-DEPENDENT CHECKPOINT Erika Testa|Daniela Nardozi|Cristina Antinozzi|Monica Faieta|Stefano Di Cecca|Cinzia Caggiano|Tomoyuki Fukuda|Elena Bonanno|Lou Zenkun|Andros Maldonado|Ignasi Roig|Monica Di Giacomo|Marco Barchi University of Rome Tor Vergata;|Niigata University and Nara Institute of Science and Technology;|Mayo Clinic;|Institut de Biotecnologia i Biomedicina, Universitat Autonoma de Barcelona;|European Molecular Biology - Rome
http://dx.doi.org/10.1101/225920 2017-12-15 Cost evaluation during decision making in patients at early stages of psychosis Anna O Ermakova|Nimrod Gileadi|Franziska Knolle|Azucena Justicia Diaz|Rachel Anderson|Paul C Fletcher|Michael Moutoussis|Graham Murray East London NHS Foundation Trust;|University of Cambridge;|University College London
http://dx.doi.org/10.1101/235127 2017-12-15 CC BY-NC-ND The Variability Puzzle in Human Memory Michael J. Kahana|Eash Aggarwal|Tung D. Phan University of Pennsylvania
http://dx.doi.org/10.1101/234500 2017-12-15 CC BY-NC-ND Genome-wide post-transcriptional dysregulation by microRNAs in human asthma as revealed by Frac-seq Rocio Teresa Martinez-Nunez|Hitasha Rupani|Manuela Plate|Mahesan Niranjan|Rachel C Chambers|Peter H Howarth|Tilman Sanchez-Elsner School of Immunology & Microbial Sciences, Kings College London, UK;|University Hospital Southampton NHS Foundation Trust, Southampton, UK;|Centre for Inflammation and Tissue Repair, UCL Respiratory, UCL, London, UK;|School of Electronics and Computer Science, University of Southampton, UK;|Clinical & Experimental Sciences, Faculty of Medicine, Univ of Southampton, UK
http://dx.doi.org/10.1101/235150 2017-12-15 A mathematical approach to differentiate spontaneous and induced evolution to drug resistance during cancer treatment James M. Greene|Jana L. Gevertz|Eduardo D. Sontag Department of Mathematics and CQB, Rutgers University;|Department of Mathematics and Statistics, The College of New Jersey
http://dx.doi.org/10.1101/233759 2017-12-15 Whole genome data reveal the complex history of a diverse ecological community Lynsey Bunnefeld|Jack Hearn|Graham N Stone|Konrad Lohse University of Stirling;|University of Edinburgh
http://dx.doi.org/10.1101/235093 2017-12-15 CC BY-NC-ND SLAM-ITseq: Sequencing cell type-specific transcriptomes without cell sorting Wayo Matsushima|Veronika A Herzog|Tobias Neumann|Katharina Gapp|Johannes Zuber|Stefan L L Ameres|Eric A Miska Department of Genetics, University of Cambridge, Downing Street, UK;|Institute of Molecular Biotechnology, Vienna Biocenter Campus, Vienna, Austria;|Research Institute of Molecular Pathology, Vienna Biocenter Campus, Austria
http://dx.doi.org/10.1101/235267 2017-12-15 Germ layer specific regulation of cell polarity and adhesion: insight into the evolution of mesoderm Miguel Salinas-Saavedra|Amber Q. Rock|Mark Q. Martindale Whitney Laboratory for Marine Bioscience; Dept of Biology, University of Florida
http://dx.doi.org/10.1101/234534 2017-12-15 CC BY-NC-ND The role of explicit strategies during reinforcement-based motor learning Peter James Holland|Olivier Codol|Joseph M Galea University of Birmingham
http://dx.doi.org/10.1101/235010 2017-12-15 CC BY-NC-ND The IRE1a-XBP1 pathway promotes T helper cell differentiation by resolving secretory stress and accelerating proliferation Jhuma Pramanik|Xi Chen|Gozde Kar|Tomas Gomes|Johan Henriksson|Zhichao Miao|Kedar Natarajan|Andrew N. J. McKenzie|Bidesh Mahata|Sarah A. Teichmann Wellcome Trust Sanger Institute, Wellcome Genome Campus, Cambridge, UK;|MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge, UK
http://dx.doi.org/10.1101/234526 2017-12-15 Neuroscience CC BY-NC-ND Multiplicative Updates for Optimization Problems with Dynamics Abbas Kazemipour|Behtash Babadi|Min Wu|Kaspar Podgorski|Shaul Druckmann Stanford University;|University of Maryland;|Janelia Research Campus
http://dx.doi.org/10.1101/234658 2017-12-15 Epidemiology CC BY Disentangling reporting and disease transmission using second order statistics Eamon B. O'Dea|John M. Drake University of Georgia
http://dx.doi.org/10.1101/234013 2017-12-15 Genetics The Anorexia Nervosa Genetics Initiative: Overview and Methods Laura M Thornton|Melissa A Munn-Chernoff|Jessica H Baker|Anders Jureus|Richard Parker|Anjali K Henders|Janne T Larsen|Liselotte Petersen|Hunna J Watson|Zeynep Yilmaz|Katherine M Kirk|Scott Gordon|Virpi M Leppa|Felicity C Martin|David C Whiteman|Catherine M Olsen|Thomas Werge|Nancy L Pedersen|Walter Kaye|Andrew W Bergen|Katherine A Halmi|Michael Strober|Allan S Kaplan|D. Blake Woodside|James Mitchell|Craig L Johnson|Harry Brandt|Steven Crawford|L. John Horwood|Joseph M Boden|John F Pearson|Laramie E Duncan|Jakob Grove|Manuel Mattheisen|Jennifer Jordan|Martin A Kennedy|Andreas Birgegard|Paul Lichtenstein|Claes Norring|Tracey D Wade|Grant Montgomery|Nicholas G Martin|Mikael Landen|Preben Bo Mortensen|Patrick F Sullivan|Cynthia M Bulik University of North Carolina at Chapel Hill;|Karolinska Institutet;|QIMR Berghofer Medical Research Institute;|The University of Queensland;|Aarhus University;|The Lundbeck Foundation Initiative for Integrative Psychiatric Research;|University of California, San Diego;|Biorealm Research;|Weill Cornell Medical College;|University of California at Los Angeles;|University of Toronto;|University of North Dakota School of Medicine and Health Sciences;|Eating Recovery Center;|The Center for Eating Disorders at Sheppard Pratt;|University of Otago;|Stanford University;|Flinders University
http://dx.doi.org/10.1101/234682 2017-12-15 Biophysics CC BY-NC-ND pytc: a python package for analysis of Isothermal Titration Calorimetry experiments hiranmayi duvvuri|lucas c wheeler|Michael Harms university of oregon;|University of Oregon
http://dx.doi.org/10.1101/234864 2017-12-15 Neuroscience Associated valence impacts early visual processing of linguistic stimuli: Evidence from ERPs in a cross-modal learning paradigm Mareike Bayer|Annika Grass|Annekathrin Schacht Berlin School of Mind and Brain, Humboldt-Universitaet zu Berlin, Berlin;|Affective Neuroscience & Psychophysiology Lab, Institute of Psychology, University of Goettingen
http://dx.doi.org/10.1101/234575 2017-12-15 Neuroscience Brain and psychological determinants of placebo pill response in chronic pain patients Etienne Vachon-Presseau|Sara E Berger|Taha B Abdullah|Lejian Huang|Guillermo Cecchi|James W Griffith|Thomas J Schnitzer|Apkar Vania Apkarian Northwestern University;|IBM Watson Research Center;|Northwestern university
http://dx.doi.org/10.1101/233239 2017-12-15 Epidemiology CC BY-NC-ND Using an agent-based sexual-network model to guide mitigation efforts for controlling chlamydia Asma Azizi|Jeremy Dewar|James Mac Hyman Tulane University
http://dx.doi.org/10.1101/234609 2017-12-15 Neuroscience CC BY-NC-ND Visual Continuous Recognition Reveals Widespread Cortical Contributions to Scene Memory Timothy M Ellmore|Chelsea P Reichert|Kenneth Ng|Ning Mei The City College of the City University of New York;|The Graduate Center of the City University of New York
http://dx.doi.org/10.1101/234369 2017-12-15 Animal Behavior and Cognition CC BY-NC-ND AWARENESS OF THE OUTCOME OF SELF-INITIATED POINTING ACTIONS Andrei Gorea|Lionel Granjon|Dov Sagi Universite Paris Descartes & CNRS, Laboratoire Psychologie de la Perception;|Weizmann Institute, Department of Neurobiology, Brain Research
http://dx.doi.org/10.1101/234849 2017-12-15 Biophysics CC BY The cooperation of the haves and the have-nots Eberhard Bodenschatz|Albert J Bae|Kaumudi H Prabhakara Max-Planck Institute for Dynamics and Self-Organization, Germany;|Cornell University, Germany
http://dx.doi.org/10.1101/233213 2017-12-15 Neuroscience Ubiquitin ligase LNX1 is a major regulator of glycine recapture by the presynaptic transporter GlyT2 Enrique Nunez|Esther Arribas-Gonzalez|Beatriz Lopez-Corcuera|Carmen Aragon|Jaime de Juan-Sanz Centro de Biologia Molecular Severo Ochoa;|Weill Cornell Medicine
http://dx.doi.org/10.1101/234625 2017-12-15 Neuroscience Pharmacological manipulation of olfactory bulb granule cell excitability modulates beta oscillations: Testing a model Boleslaw Osinski|Alex Kim|Wenxi Xiao|Nisarg M Mehta|Leslie M Kay University of Chicago
http://dx.doi.org/10.1101/234781 2017-12-15 Microbiology The first recorded incidence of Deinococcus radiodurans R1 biofilm formation and its implications in heavy metals bioremediation Sudhir K Shukla|Toleti Subba Rao Bhabha Atomic Research Centre
http://dx.doi.org/10.1101/233007 2017-12-15 Neuroscience A neural model of working memory Sanjay G Manohar|Nahid Zokaei|Sean James Fallon|Tim Vogels|Masud Husain University of Oxford
http://dx.doi.org/10.1101/235069 2017-12-15 Neuroscience CC BY-NC-ND Distractor inhibition contributes to retroactive attentional orienting within working memory: Evidence by lateralized event-related parameters of the EEG Daniel Schneider|Anna Barth|Henrike Haase|Clayton Hickey|Edmund Wascher Leibniz Research Centre for Working Environment and Human Factors;|Center for Mind/Brain Sciences (CiMeC), University of Trento
http://dx.doi.org/10.1101/234914 2017-12-15 Bioinformatics CC BY-NC-ND Integrative inference of subclonal tumour evolution from single-cell and bulk sequencing data Salem Malikic|Katharina Jahn|Jack Kuipers|Cenk Sahinalp|Niko Beerenwinkel Simon Fraser University;|ETH Zurich;|D-BSSE, ETH Zurich;|Indiana University Bloomington
http://dx.doi.org/10.1101/234807 2017-12-15 Evolutionary Biology CC BY Migration, acculturation, and the maintenance of between-group cultural variation Alex Mesoudi University of Exeter
http://dx.doi.org/10.1101/234963 2017-12-15 Genetics CC BY Genetic evidence for shared risks across psychiatric disorders and related traits in a Swedish population twin sample Mark J Taylor|Joanna Martin|Yi Lu|Isabell Brikell|Sebastian Lundstrom|Henrik Larsson|Paul Lichtenstein Dept of Medical Epidemiology & Biostatistics, Karolinska Inst, Stockholm, Sweden;|Inst of Neurosci & Physiology, Gillberg Neuropsychiatry Ctr, Gothenburg, Sweden;|School of Medical Sciences, Örebro Univ; Karolinska Inst, Stockholm, Sweden
http://dx.doi.org/10.1101/234419 2017-12-15 Physiology CC BY-NC-ND Autophagy-dependent gut-to-yolk biomass conversion generates visceral polymorbidity in aging C. elegans Marina Ezcurra|Alexandre Benedetto|Thanet Sornda|Ann Gilliat|Catherine Au|Qifeng Zhang|Sophie van Schelt|Alexandra L Petrache|Yila de la Guardia|Shoshana Bar-Nun|Eleonor Tyler|Michael J Wakelam|David Gems School of Biological and Chemical Sciences, Queen Mary University of London;|Division of Biomedical and Life Sciences, Faculty of Health and Medicine, Lancaster University;|Institute of Healthy Ageing, and Department of Genetics, Evolution and Environment, University Colle;|The Babraham Institute;|The George S. Wise Faculty of Life Sciences, Tel-Aviv University
http://dx.doi.org/10.1101/234641 2017-12-15 Neuroscience Central Role of Cognitive Control Networks in Weight Loss During Voluntary Calorie Restriction Selin Neseliler|Wen Hu|Kevin Larcher|Maria Zacchia|Mahsa Dadar|Stephanie G. Scala|Marie Lamarche|Yashar Zeighami|Stephen Stotland|Maurice Larocque|Errol B. Marliss|Alain Dagher Montreal Neurological Institute,McGill University;|Crabtree Nutrition Laboratories,McGill University Health Centre Research Institute;|McGill University;|Department of Psychology, McGill University;|Clinique Motivation Minceur
http://dx.doi.org/10.1101/233668 2017-12-15 Bioinformatics CC BY-NC-ND Comparative Qualitative Phosphoproteomics Analysis Identifies Shared Phosphorylation Motifs and Associated Biological Processes in Flowering Plants Shireen Al-Momani|Da Qi|Zhe Ren|Andrew Jones Institute of Integrative Biology, University of Liverpool;|BGI-Shenzhen, Shenzhen
http://dx.doi.org/10.1101/234724 2017-12-15 Neuroscience CC BY-NC The tortoise and the hare: interactions between reinforcement learning and working memory. Anne GE Collins University of California, Berkeley
http://dx.doi.org/10.1101/235432 2017-12-16 Bioengineering CC BY-NC Video Assessment of Head Impact Exposure in American Football Calvin Kuo|Lyndia C Wu|Jesus Loza|Daniel Senif|Scott Anderson|David B Camarillo Stanford University
http://dx.doi.org/10.1101/235333 2017-12-16 Biophysics CC BY-NC Modulation of formin processivity by profilin and mechanical tension Mikael Kerleau|Luyan Cao|Emiko Suzuki|Hugo Wioland|Sandy Jouet|Berengere Guichard|Martin Lenz|Guillaume Romet-Lemonne|Antoine Jegou Institut Jacques Monod - CNRS, Paris, France;|LPTMS, CNRS, Universite Paris-Sud, Universite Paris-Saclay, 91405 Orsay, France
http://dx.doi.org/10.1101/235291 2017-12-16 Neuroscience CC BY-NC-ND A cortical pathway modulates sensory input into the olfactory striatum Kate A White|Yun-Feng Zhang|Zhijian Zhang|Janardhan P Bhattarai|Andrew H Moberly|Estelle in 't Zandt|Huijie Mi|Xianglian Jia|Marc V Fuccillo|Fuqiang Xu|Minghong Ma|Daniel W Wesson University of Florida, Case Western Reserve University;|University of Pennsylvania Perelman School of Medicine;|Wuhan Institute of Physics and Mathematics;|University of Florida;|Wuhan University;|Shenzhen Institutes of Advanced Technology
http://dx.doi.org/10.1101/235416 2017-12-16 Neuroscience CC BY-ND Does 10-Hz cathodal oscillating current of the parieto-occipital lobe modulate target detection? Sarah S Sheldon|Kyle E Mathewson University of Alberta
http://dx.doi.org/10.1101/235234 2017-12-16 Genetics A Comprehensive Evaluation of the Genetic Architecture of Sudden Cardiac Arrest Foram N Ashar|Rebeca N Mitchell|Christine M Albert|Christopher Newton-Cheh|Jennifer A Brody|Martina Muller-Nurasyid|Anna Moes|Thomas Meitinger|Angel Mak|Heikki Huikuri|M Juhani Junttila|Philippe Goyette|Sara L Pulit|Raha Pazoki|Michael W Tanck|Marieke T Blom|XiaoQing Zhao|Aki S Hauvlinna|Reza Jabbari|Charlotte Glinge|Vinicius Tragante|Stefan A Escher|Aravinda Chakravarti|Georg Ehret|Josef Coresh|Man Li|Ronald J Prineas|Oscar H Franco|Pui-Yan Kwok|Thomas Lumley|Florence Dumas|Barbara McKnight|Jerome I Rotter|Rozenn N Lemaitre|Susan R Heckbert|Christopher J O'Donnell|Shih-Jen Hwang|Jean-Claude Tardif|Marja-Leena Kortelainen|Martin VanDenburgh|Andre G Uitterlinden|Albert Hofman|Bruno H.C. Stricker|Paul I.W. de Bakker|Paul W Franks|Jan-Hakan Jansson|Folkert W Asselbergs|Marc K Halushka|Joseph J Maleszewski|Jacob Tfelt-Hansen|Thomas Engstrom|Veikko Salomaa|Renu Virmani|Frank Kolodgie|Arthur A.M. Wilde|Hanno L Tan|Connie R Bezzina|Mark Eijgelsheim|John D Rioux|Xavier Jouven|Stefan Kaab|Bruce M Psaty|David S Siscovick|Dan Arking|Nona Sotoodehnia Institute of Genetic Medicine, Johns Hopkins, Baltimore, USA;|Divs of Preventive Medicine & Cardiovascular Medicine, Brigham & Women's Hosp;|Ctr for Human Genetic Research & Cardiovascular Res Ctr, Mass General Hospital;|Cardiovascular Health Research Unit, University of Washington, Seattle, USA;|Department of Medicine I, Ludwig-Maximilians University, Munich, Germany;|German Center for Cardiovascular Research, Partner Site Munich Heart Alliance;|Cardiovascular Research Institute and Institute for Human Genetics, UCSF;|Research Unit of Internal Medicine, University Hospital and University of Oulu;|Montreal Heart Institute, University of Montreal, Quebec, Canada;|Department of Genetics, University Medical Centre Utrecht, The Netherlands;|Department of Epidemiology and Biostatistics, Imperial College London, UK;|Dept of Clinical Epidemiology, Biostatistics & Bioinformatics, Academic Medical Ctr;|Dept of Clinical & Exp Cardiol, Heart Center, Academic Med Ctr, Amsterdam;|CVPath Institute, Gaithersburg, USA;|National Institute for Health and Welfare, Helsinki, Finland;|Dept of Cardiology, University Hospital Copenhagen, Rigshospitalet, Denmark;|Department of Cardiology, Division Heart & Lungs, University of Utrecht;|Genetic & Molecular Epidemiology Unit, Dept of Clinical Sciences, Lund University;|Department of Epidemiology, Johns Hopkins University, Baltimore, USA;|Public Health Sciences, Wake Forest University, Winston-Salem, USA;|Department of Epidemiology, Erasmus MC, Erasmus, The Netherlands;|Department of Statistics, University of Auckland, NZ;|Paris Sudden Death Expertise Center, University Paris Sorbonne citè;|Department of Biostatistics, University of Washington, Seattle, USA;|Departments of Pediatrics and Medicine, Harbor-UCLA Medical Center, Los Angeles;|NHLBI Framingham Heart Study, Boston, USA;|Department of Forensic Medicine, University of Oulu, Finland;|Divs of Preventive Med and Cardiovascular Med, Brigham & Women's Hospital;|Dept of Medical Genetics, Ctr for Molecular Medicine, Univ Medical Centre Utrecht;|Dept of Public Health & Clinical Medicine, Research Unit Skelleftea, Lund University;|Department of Pathology, Johns Hopkins University, Baltimore, USA;|Department of Laboratory Medicine & Pathology, Mayo Clinic, Rochester, USA;|Dept of Clinical & Experimental Cardiology, Heart Center, Acad Med Ctr, Amsterdam;|Dept of Nephrology, University Medical Center Groningen, The Netherlands;|Depts of Medicine, Epidemiology, and Health Services, University of Washington;|New York Academy of Medicine, New York, USA;|Johns Hopkins University School of Medicine;|Departments of Medicine and Epidemiology, University of Washington
http://dx.doi.org/10.1101/235382 2017-12-16 Genomics Performance Assessment and Selection of Normalization Procedures for Single-Cell RNA-Seq Michael B Cole|Davide Risso|Allon Wagner|David DeTomaso|John Ngai|Elizabeth Purdom|Sandrine Dudoit|Nir Yosef Department of Physics, University of California, Berkeley;|Department of Healthcare Policy and Research, Weill Cornell Medicine, New York, NY;|Department of Electrical Engineering and Computer Sciences, University of California, Berkeley;|Center for Computational Biology, University of California, Berkeley;|Department of Molecular and Cell Biology, University of California, Berkeley;|Department of Statistics, University of California, Berkeley
http://dx.doi.org/10.1101/235218 2017-12-16 Neuroscience The intricate interplay of spatial attention and expectation Arianna Zuanazzi|Uta Noppeney University of Birmingham
http://dx.doi.org/10.1101/235259 2017-12-16 Neuroscience CC BY-NC-ND Global, multiplexed dendritic computations under in vivo-like conditions Balazs B Ujfalussy|Mate Lengyel|Tiago Branco MTA Institute of Experimental Medicine, Budapest, Hungary;|University of Cambridge, Cambridge, UK;|Sainsbury Wellcome Centre, University College London, UK
http://dx.doi.org/10.1101/235242 2017-12-16 Genomics Ultraconserved elements occupy specific arenas of three-dimensional mammalian genome organization Ruth McCole|Jelena Erceg|Wren Saylor|C.-ting Wu Harvard Medical School
http://dx.doi.org/10.1101/235317 2017-12-16 Genetics On the decidability of population size histories from finite allele frequency spectra Soheil Gravel|Simon Gravel McGill University
http://dx.doi.org/10.1101/235192 2017-12-16 Evolutionary Biology Population genomics of pneumococcal carriage in Massachusetts children following PCV-13 introduction Patrick Mitchell|Taj Azarian|Nicholas J Croucher|Alanna Callendrello|Claudette M Thompson|Stephen I Pelton|Marc Lipsitch|William Hanage Center for Communicable Disease Dynamics, Dept of Epidemiology, Harvard Univ;|Department of Infectious Disease Epidemiology, Imperial College London;|Division of Pediatric Infectious Diseases, Boston Medical Center
http://dx.doi.org/10.1101/235341 2017-12-16 Ecology CC BY-ND Phylofactorization - a graph partitioning algorithm to identify phylogenetic scales of ecological data Alex D Washburne|Justin D Silverman|Jamie T Morton|Daniel Becker|Daniel Crowley|Sayan Mukherjee|Lawrence A David|Raina K Plowright Montana State University;|Duke University Program for Computational Biology and Bioinformatics;|Department of Pediatrics, UCSD;|Department of Microbiology and Immunology, Montana State University;|Department of Statistical Science, Mathematics, and Computer Science, Duke University;|Center for Genomics and Computational Biology, Duke University
http://dx.doi.org/10.1101/235374 2017-12-16 Ecology CC BY-ND Microbial community structure predicted by the stable marriage problem Akshit Goyal|Veronika Dubinkina|Sergei Maslov National Centre for Biological Sciences, Bangalore, India;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/235275 2017-12-16 Microbiology CC BY-NC-ND Growth and extended survival of Escherichia coli O157:H7 in soil organic matter Gitanjali NandaKafle|Amy A Christie|Sebastien Vilain|Volker S Brozel South Dakota State University, USA;|Universite de Bordeaux, France
http://dx.doi.org/10.1101/235499 2017-12-16 High throughput single cell RNA-seq of developing mouse kidney and human kidney organoids reveals a roadmap for recreating the kidney Alexander N Combes|Belinda Phipson|Luke Zappia|Kynan Lawlor|Pei Xuan Er|Alicia Oshlack|Melissa Little Murdoch Childrens Research Institute;|Murdoch Childrens Research Institute,
http://dx.doi.org/10.1101/235481 2017-12-16 CC BY-NC-ND Insights into DNA substrate selection by APOBEC3G from structural, biochemical, and functional studies. Samantha J. Ziegler|Chang Liu|Mark Landau|Olga Buzovetsky|Belete A. Desimmie|Qi Zhao|Tomoaki Sasaki|Ryan C. Burdick|Vinay K. Pathak|Karen S. Anderson|Yong Xiong Yale University;|National Cancer Institute at Frederick
http://dx.doi.org/10.1101/235564 2017-12-16 Complementary studies of lipid membrane dynamics using iSCAT and STED microscopy Francesco Reina|Silvia Galiani|Dilip Shrestha|Erdinc Sezgin|Gabrielle de Wit|Daniel Cole|B. Christoffer Lagerholm|Philipp Kukura|Christian Eggeling MRC Human Immunology Unit, Weatherall Institute of Molecular Medicine, University of Oxford, UK;|Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, Oxford;|Wolfson Imaging Centre Oxford, Weatherall Institute of Molecular Medicine, University of Oxford, UK;|Physical and Theoretical Chemistry Laboratory, Department of Chemistry, University of Oxford, UK;|University of Oxford, Friedrich-Schiller University, Leibniz Institute of Photonic Technology (IPHT)
http://dx.doi.org/10.1101/232363 2017-12-16 CC BY-NC-ND RNA sequencing of Stentor cell fragments reveals key processes underlying cellular regeneration Henning Onsbring Gustafson|Mahwash Jamy|Thijs J. G. Ettema Department of Cell and Molecular Biology, Science for Life Laboratory, Uppsala University
http://dx.doi.org/10.1101/235630 2017-12-16 Microbiology CC BY Mapping mutational effects along the evolutionary landscape of HIV envelope Hugh K Haddox|Adam S Dingens|Sarah K Hilton|Julie Overbaugh|Jesse D Bloom Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/235606 2017-12-16 Neuroscience CC BY Sleep spindle refractoriness segregates periods of memory reactivation James Antony|Luis R Piloto|Margaret Wang|Paula Pacheco|Kenneth A Norman|Ken A Paller Princeton University;|University of Pennsylvania;|Northwestern University
http://dx.doi.org/10.1101/235523 2017-12-16 Evolutionary Biology Metals enable a non-enzymatic acetyl CoA pathway Sreejith Jayasree Varma|Kamila B. Muchowska|Paul Chatelain|Joseph Moran University of Strasbourg & CNRS
http://dx.doi.org/10.1101/235101 2017-12-16 Neuroscience AP-4 mediated ATG9A sorting underlies axonal and autophagosome biogenesis defects in a mouse model of AP-4 deficiency syndrome Davor Ivankovic|Guillermo Lopez-Domenech|James Drew|Sharon A Tooze|Josef T Kittler University College London;|The Francis Crick Institute
http://dx.doi.org/10.1101/235614 2017-12-16 Neuroscience CC BY S1PR3 mediates inflammatory pain and itch via distinct TRP channel-dependent pathways Rose Z Hill|Takeshi Morita|Rachel B Brem|Diana M Bautista UC Berkeley
http://dx.doi.org/10.1101/235390 2017-12-17 CC BY-ND Identification of Subsets of Genetic Alterations in KRAS-mutant Lung Cancer using Association Rule Mining Junior Tayou None
http://dx.doi.org/10.1101/235689 2017-12-17 CC BY-NC-ND Statistical mechanics of cell decision-making: the cell migration force distribution Haralampos Hatzikirou Helmholtz Centre for Infection Research
http://dx.doi.org/10.1101/235473 2017-12-17 Neuroscience CC BY On how the dentate gyrus contributes to memory discrimination Milenna van Dijk|Andre Fenton New York University
http://dx.doi.org/10.1101/235713 2017-12-17 Genetics CC BY-NC-ND A cytoplasmic Argonaute protein promotes the inheritance of RNAi Fei Xu|Xuezhu Feng|Xiangyang Chen|Chenchun Weng|Qi Yan|Ting Xu|Minjie Hong|Shouhong Guang School of LIfe Sciences, University of Science and Technology of China;|School of Life Sciences, University of Science and Technology of China
http://dx.doi.org/10.1101/235515 2017-12-17 Plant Biology CC BY-NC-ND Multiple strategies for heat adaptation in rice endosperms revealed by on-site cell-specific analysis Hiroshi Wada|Yuto Hatakeyama|Yayoi Onda|Hiroshi Nonami|Taiken Nakashima|Rosa Erra-Balsells|Satoshi Morita|Kenzo Hiraoka|Fukuyo Tanaka|Hiroshi Nakano National Agriculture and Food Research Organization;|National Agricultural Research Organization;|Ehime University;|Hokkaido University;|University of Buenos Aires;|The University of Yamanashi
http://dx.doi.org/10.1101/236091 2017-12-18 CC BY-NC-ND CLIQ-BID: A method to quantify bacteria-induced damage to eukaryotic cells by automated live-imaging of bright nuclei Yann Wallez|Stephanie Bouillot|Emmanuelle Soleilhac|Philippe Huber|Ina Attree|Eric Faudry UGA, CEA, INSERM, CNRS, Bacterial Pathogenesis and Cellular Responses;|UGA, CEA, INSERM; Genetics & Chemogenomics, CMBA Platform
http://dx.doi.org/10.1101/236109 2017-12-18 Neuroscience CC BY-NC-ND A potential link between gambling addiction severity and central dopamine levels — evidence from spontaneous eye blink rates in gamblers and controls David Mathar|Antonius Wiehler|Karima Chakroun|Dominique Goltz|Jan Peters Dept of Psychology, Biological Psychology, University of Cologne, Germany;|Motivation Brain Behavior, ICM - Hopital Pitie-Salpetriere, Paris, France;|Dept of Systems Neuroscience, Univ Medical Center Hamburg-Eppendorf, Germany
http://dx.doi.org/10.1101/236059 2017-12-18 Neuroscience Replay of Stimulus Specific Temporal Patterns during Associative Memory Formation Sebastian Michelmann|Howard Bowman|Simon Hanslmayr University of Birmingham;|University of Birmingham, University of Kent at Canterbury
http://dx.doi.org/10.1101/233114 2017-12-18 Developmental Biology CC BY Ex vivo live cell tracking in kidney organoids using light sheet fluorescence microscopy Marie Held|Ilaria Santeramo|Bettina Wilm|Patricia Murray|Raphael Levy University of Liverpool;|Univeristy of Liverpool;|Unicersity of Liverpool
http://dx.doi.org/10.1101/235911 2017-12-18 Cancer Biology CC BY-ND Size Matters: Metastatic cluster size and stromal recruitment in the establishment of successful prostate cancer to bone metastases Arturo Araujo|Leah Cook|Conor Lynch|David Basanta H. Lee Moffitt Cancer Center & Research Institute;|University of Nebraska Medical Center
http://dx.doi.org/10.1101/236075 2017-12-18 Ecology CC BY-NC Robust, real-time and autonomous monitoring of ecosystems with an open, low-cost, networked device Sarab S Sethi|Robert M Ewers|Nick S Jones|David Orme|Lorenzo Picinali Imperial College London
http://dx.doi.org/10.1101/236083 2017-12-18 Microbiology CC BY Human Herpes Virus 6 (HHV-6) - Pathogen or Passenger? A pilot study of clinical laboratory data and next generation sequencing Colin Sharp|Tanya Golubchik|William F Gregory|Anna McNaughton|Nicholas Gow|Mathyruban Selvaratnam|Alina Mirea|Dona Foster|Monique Andersson|Paul Klenerman|Katie Jeffery|Philippa Matthews Edinburgh Genomics;|Big Data Institute, University of Oxford;|Roslin Institute, Edinburgh;|University of Oxford;|Oxford University Hospitals NHS Foundation Trust
http://dx.doi.org/10.1101/235960 2017-12-18 Neuroscience CC BY-NC Mushroom body-specific profiling of gene expression identifies regulators of long-term memory in Drosophila Yves F. Widmer|Adem Bilican|Remy Bruggmann|Simon Sprecher University of Fribourg;|University of Bern
http://dx.doi.org/10.1101/235978 2017-12-18 Neuroscience CC BY Formation of retinal direction-selective circuitry initiated by starburst amacrine cell homotypic contact Thomas A Ray|Suva Roy|Christopher Kozlowski|Jingjing Wang|Jon Cafaro|Samuel Hulbert|Christopher V E Wright|Greg D Field|Jeremy N Kay Duke University School of Medicine, United States;|Vanderbilt University, United States
http://dx.doi.org/10.1101/232579 2017-12-18 Animal Behavior and Cognition Integration of A New Sensory Skill with Vision After Less Than 3 Hours of Training James Negen|Lisa Wen|Lore Thaler|Marko Nardini Durham University
http://dx.doi.org/10.1101/235424 2017-12-18 Cell Biology CC BY-NC-ND Muscle specific stress fibers give rise to sarcomeres and are mechanistically distinct from stress fibers in non-muscle cells Aidan M Feinx|NIlay Taneja|Abigail C Neininger|Mike R Visetsouk|Benjamin R Nixon|Annabelle E Manalo|Jason R Becker|Scott W Crawley|David M Bader|Matthew J Tyska|Jennifer H Gutzman|Dylan T Burnette Vanderbilt University School of Medicine;|University of Wisconsin Milwaukee;|Vanderbilt University Medical Center;|The University of Toledo
http://dx.doi.org/10.1101/235853 2017-12-18 Microbiology The ecological genetics of Pseudomonas syringae residing on the kiwifruit leaf surface Christina Straub|Elena Colombi|Li Li|Hongwen Huang|Matthew D Templeton|Honour C McCann|Paul B Rainey NZIAS, Massey University;|Wuhan Botanical Garden, Chinese Academy of Sciences;|South China Botanical Garden, Chinese Academy of Sciences;|Plant and Food Research
http://dx.doi.org/10.1101/229112 2017-12-18 Epidemiology Sex-specific genome-wide association study in glioma identifies new risk locus at 3p21.31 in females, and finds sex-differences in risk at 8q24.21 Quinn T Ostrom|Ben Kinnersley|Margaret R. Wrensch|Jeanette E. Eckel-Passow|Georgina Armstrong|Terri Rice|Yanwen Chen|John K. Wiencke|Lucie S. McCoy|Helen M. Hansen|Christopher I. Amos|Jonine L. Bernstein|Elizabeth B. Claus|Dora Il'yasova|Christoffer Johansen|Daniel H. Lachance|Rose K Lai|Ryan T. Merrell|Sara H. Olson|Siegel Sadetzki|Joellen M. Schildkraut|Sanjay Shete|Joshua B. Rubin|Justin D. Lathia|Michael E. Berens|Ulrika Andersson|Preetha Rajaraman|Stephen J. Chanock|Martha S. Linet|Zhaoming Wang|Meredith Yeager|Richard S. Houlston|Robert B. Jenkins|Beatrice Melin|Melissa L. Bondy|Jill S. Barnholtz-Sloan Case Comprehensive Cancer Center, Case Western Reserve University School of Medicine;|Institute of Cancer Research;|University of California, San Francisco;|Mayo Clinic;|Baylor College of Medicine;|Memorial Sloan Kettering Cancer Center;|School of Public Health, Yale University;|School of Public Health, Georgia State University;|Institute of Cancer Epidemiology, Danish Cancer Society;|Keck School of Medicine, University of Southern California;|NorthShore University Health System;|Gertner Institute, Chaim Sheba Medical Center;|University of Virginia School of Medicine;|MD Anderson Cancer Center;|Washington University School of Medicine;|Cleveland Clinic Foundation;|The Translational Genomics Research Institute;|Faculty of Medicine, Umeå University;|National Cancer Institute;|The Institute of Cancer Research
http://dx.doi.org/10.1101/235358 2017-12-18 Clinical Trials CC BY-NC-ND Correction of the Framingham Risk Score Data Reported in SPRINT Frederick Warner|Sanket S. Dhruva|Joseph S. Ross|Pranammya Dey|Karthik Murugiah|Harlan M. Krumholz Yale School of Medicine
http://dx.doi.org/10.1101/235903 2017-12-18 Bioinformatics Hi-TOM: a platform for high-throughput tracking of mutations induced by CRISPR/Cas systems Qing Liu|Chun Wang|Xiaozhen Jiao|Huawei Zhang|Lili Song|Yanxin Li|Caixia Gao|Kejian Wang China National Rice Research Institute, Chinese Academy of Agricultural Sciences;|Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Beijing, China;|Pediatric Translational Medicine Institute, Shanghai Childrens Medical Center, School of medicine,
http://dx.doi.org/10.1101/235952 2017-12-18 Plant Biology Blue Light Negatively Regulates Tolerance to Phosphate Deficiency in Arabidopsis Chuan-Ming Yeh|Koichi Kobayashi|Sho Fujii|Hidehiro Fukaki|Nobutaka Mitsuda|Masaru Ohme-Takagi Saitama University;|The University of Tokyo;|Kobe University;|National Institute of Advanced Industrial Science and Technology
http://dx.doi.org/10.1101/235226 2017-12-18 Cell Biology AP-4 vesicles unmasked by organellar proteomics to reveal their cargo and machinery Alexandra K Davies|Daniel N Itzhak|James R Edgar|Tara L Archuleta|Jennifer Hirst|Lauren P Jackson|Margaret S Robinson|Georg H H Borner Cambridge Institute for Medical Research;|Dept of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry;|Dept of Biological Sciences/Center for Structural Biology, Vanderbilt University
http://dx.doi.org/10.1101/235648 2017-12-18 Neuroscience CC BY-NC-ND Coherent representations of subjective spatial position in primary visual cortex and hippocampus Aman B Saleem|Efthymia Mika Diamanti|Julien Fournier|Kenneth D Harris|Matteo Carandini University College London
http://dx.doi.org/10.1101/227215 2017-12-18 Genetics CC BY-NC-ND Optimal cross selection for long-term genetic gain in two-part programs with rapid recurrent genomic selection Gregor Gorjanc|Robert Chris Gaynor|John Micheal Hickey The Roslin Institute and Royal (Dick) School of Veterinary Studies, University of Edinburgh
http://dx.doi.org/10.1101/235655 2017-12-18 Genetics CC BY-NC-ND Deep generative models of genetic variation capture mutation effects Adam J Riesselman|John B Ingraham|Debora Susan Marks Harvard Medical School;|Harvard
http://dx.doi.org/10.1101/235937 2017-12-18 Genetics Linkage Disequilibrium Estimation in Low Coverage High-Throughput Sequencing Data Timothy P. Bilton|John C. McEwan|Shannon M. Clarke|Rudiger Brauning|Tracey C. van Stijn|Suzanne J. Rowe|Ken G. Dodds AgResearch
http://dx.doi.org/10.1101/235549 2017-12-18 Evolutionary Biology Molecular data from Orthonectid worms show they are highly degenerate members of phylum Annelida not phylum Mesozoa. Philipp Schiffer|Helen Robertson|Maximilian J Telford Centre for Life's Origins and Evolution, Department of Genetics, Evolution and Environment, UCL
http://dx.doi.org/10.1101/235887 2017-12-18 Genomics CC BY-ND Multiplexed targeted resequencing identifies coding and regulatory variation underlying phenotypic extremes of HDL-cholesterol in humans Sumeet A. Khetarpal|Paul L. Babb|Wei Zhao|William F. Hancock-Cerutti|Christopher D. Brown|Daniel J. Rader|Benjamin F. Voight University of Pennsylvania
http://dx.doi.org/10.1101/236331 2017-12-18 CC BY-NC-ND Selective attention controls olfaction in rodents Kaitlin S Carlson|Marie A. Gadziola|Emma S. Dauster|Daniel W. Wesson Case Western Reserve University and University of Florida;|Case Western Reserve University;|University of Florida and Case Western Reserve University
http://dx.doi.org/10.1101/236323 2017-12-18 Identifying (un)controllable dynamical behavior with applications to biomolecular networks Jordan C Rozum|Reka Albert Pennsylvania State University
http://dx.doi.org/10.1101/236042 2017-12-18 CC BY Copy number variation and neurodevelopmental problems in females and males in the general population Joanna Martin|Kristiina Tammimies|Robert Karlsson|Yi Lu|Henrik Larsson|Paul Lichtenstein|Patrik Magnusson Dept of Medical Epidemiology & Biostatistics, Karolinska Institutet, Stockholm;|Center of Neurodevelopmental Disorders at Karolinska Institutet), Stockholm
http://dx.doi.org/10.1101/230334 2017-12-18 CC BY-NC-ND Long-read sequencing of nascent RNA in S. pombe reveals coupling among RNA processing events Lydia Herzel|Korinna Straube|Karla M. Neugebauer Massachusetts Institute of Technology;|Yale University
http://dx.doi.org/10.1101/236208 2017-12-18 CC BY-ND Importance of homo-dimerization of Fanconi-associated nuclease 1 in DNA flap cleavage Timsi Rao|Simonne Longerich|Weixing Zhao|Hideki Aihara|Patrick Sung|Yong Xiong Yale University, New Haven, CT;|Yale University;|University of Minnesota, Minneapolis, MN
http://dx.doi.org/10.1101/236133 2017-12-18 CC BY-NC-ND Distinct co-expression networks using multi-omic data reveal novel interventional targets in HPV-positive and negative head-and-neck squamous cell cancer Raquel Lopes Costa|Mariana Boroni|Marcelo A. Soares Instituto Nacional do Cancer, Rio de Janeiro, Brazil
http://dx.doi.org/10.1101/235945 2017-12-18 CC BY-NC-ND Multivariate genotypic analyses that identify specific genotypes to characterize disease and control groups in ADNI Derek Beaton|Jenny Rieck|Fahd Alhazmi|Herve Abdi Baycrest Health Sciences;|CUNY;|-;|The University of Texas at Dallas
http://dx.doi.org/10.1101/236141 2017-12-18 CC BY Random Forest Feature Selection, Fusion and Ensemble Strategy: Combining Multiple Morphological MRI Measures to Discriminate among healthy elderly, MCI, cMCI and Alzheimer's disease patients: from the Alzheimer's disease neuroimaging initiative (ADNI) database Stavros I Dimitriadis|Dimitris Liparas|Magda Tsolaki Cardiff Univ Brain Research Imaging Centre, School of Psychology, Cardiff Univ;|High Performance Computing Center Stuttgart, University of Stuttgart, Germany;|3rd Department of Neurology, Medical School, Aristotle Univ of Thessaloniki, Greece
http://dx.doi.org/10.1101/236273 2017-12-18 CC BY-NC-ND The segregation of vocal circuits solves a credit assignment problem associated with multi-objective reinforcement learning Don Murdoch|Ruidong Chen|Jesse H Goldberg Cornell University
http://dx.doi.org/10.1101/235184 2017-12-18 CC BY-NC-ND Performance of serological antibody tests for bovine tuberculosis in cattle from infected herds in Northern Ireland Lyanne McCallan|Cathy Brooks|Catherine Couzens|Fiona Young|Andrew Byrne|Jim McNair Agri-food and Biosciences Institute
http://dx.doi.org/10.1101/236232 2017-12-18 CC BY-NC-ND Fibroblast state switching orchestrates dermal maturation and wound healing Emanuel Rognoni|Angela Oliveira Pisco|Toru Hiratsuka|Kalle Sipila|Julio Belmonte|Atefeh Mobasseri|Rui Dilao|Fiona Watt King's College London;|European Molecular Biology Laboratory;|Instituto Superior Tecnico
http://dx.doi.org/10.1101/236281 2017-12-18 CC BY-NC-ND Two sets of wing homologs in the crustacean, Parhyale hawaiensis Courtney M Clark-Hachtel|Yoshinori Tomoyasu Miami University
http://dx.doi.org/10.1101/236190 2017-12-18 Antenatal microbial colonisation of mammalian gut Elisa Borghi|Valentina Massa|Marco Severgnini|Grazia Fazio|Laura Avagliano|Elena Menegola|Gaetano Bulfamante|Giulia Morace|Francesca Borgo Universita degli Studi di Milano;|Institute of Biomedical Technologies, National Research Council;|Universita degli Studi di Milano-Bicocca
http://dx.doi.org/10.1101/236299 2017-12-18 Network of orthologs and evolutionary context search unveil the landscape of gene transposition-duplication within the Brassicaceae family. Dong-Ha Oh|Maheshi Dassanayake Louisiana State University
http://dx.doi.org/10.1101/236356 2017-12-18 CC BY Anomalous Diffusion as a Descriptive Model of Cell Migration Igor D Luzhanskey|John P MacMunn|Joshua D Cohen|Lauren E Barney|Lauren E Jansen|Alyssa D Schwartz|Shelly Peyton University of Massachusetts Amherst;|Johns Hopkins University School of Medicine;|University of Massachusetts, Amherst
http://dx.doi.org/10.1101/236257 2017-12-18 CC BY-NC-ND Adult-specific trimethylation of histone H3 lysine 4 is prone to dynamic changes with aging in C. elegans somatic cells Mintie Pu|Minghui Wang|Wenke Wang|Satheeja Santhi Velayudhan|Siu Sylvia Lee Department of Molecular Biology and Genetics, Cornell University;|Computational Biology Service Unit, Cornell University
http://dx.doi.org/10.1101/236364 2017-12-18 In toto fluorescence live imaging in scuttle fly Megaselia abdita reveals gradual transitions towards a novel extraembryonic architecture. Francesca Caroti|Everado Gonzalez Avalos|Paula Gonzalez Avalos|Dimitri Kromm|Viola Noeske|Maike Wosch|Lucas Schutz|Lars Hufnagel|Steffen Lemke Centre for Organismal Studies Heidelberg, Germany;|Heidelberg University, Faculty of Biosciences, Germany;|European Molecular Biology Laboratory, Heidelberg, Germany
http://dx.doi.org/10.1101/236158 2017-12-18 Neuroscience CC BY-NC BDNF and Tau as biomarkers of severity in Multiple Sclerosis Azul Islas-Hernandez|Hugo S Aguilar-Talamantes|Brenda Bertado-Cortes|Georgina de Jesus Mejia-delCastillo|Raul Carrera-Pineda|Carlos Fredy Cuevas-Garcia|Paola Garcia-delaTorre Inst Mexicano del Seguro Social, Unidad de Invest Med en Enfermedades Neurol;|Instituto Mexicano del Seguro Social, Hospital Psiquiatrico Hector Tovar Acosta;|Instituto Mexicano del Seguro Social, Hospital de Especialidades CMN SXXI
http://dx.doi.org/10.1101/236240 2017-12-18 Physiology CC BY-NC Computational Model for Simulating Drug-Induced Arrhythmia Sensitivity of Human iPSC-derived Cardiomyocytes Xin Gao|Yue Yin|Neil J Daily|Tyler Engel|Li Pang|Brian E Carlson|Tetsuro Wakatsuki University of Michigan;|InvivoSciences, Inc.;|National Center for Toxicological Research/FDA
http://dx.doi.org/10.1101/236307 2017-12-18 Genetics CC BY-ND Large-scale discovery of mouse transgenic integration sites reveals frequent structural variation and insertional mutagenesis Leslie O. Goodwin|Erik Splinter|Tiffany L. Davis|Rachel Urban|Hao He|Robert E. Braun|Elissa J. Chesler|Vivek Kumar|Max van Min|Juliet Ndukum|Vivek M. Philip|Laura G. Reinholdt|Karen Svenson|Jacqueline K. White|Michael Sasner|Cathleen Lutz|Stephen A. Murray The Jackson Laboratory;|Cergentis, B.V.;|The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/235408 2017-12-18 Epidemiology Sex-specific gene and pathway modeling of inherited glioma risk Quinn T Ostrom|Warren Coleman|William Huang|Joshua B. Rubin|Justin D. Lathia|Michael E. Berens|Gil Speyer|Peter Liao|Margaret R. Wrensch|Jeanette E. Eckel-Passow|Georgina Armstrong|Terri Rice|John K. Wiencke|Lucie S. McCoy|Helen M. Hansen|Christopher I. Amos|Jonine L. Bernstein|Elizabeth B. Claus|Dora Il'yasova|Christoffer Johansen|Daniel H. Lachance|Rose K. Lai|Ryan T. Merrell|Sara H. Olson|Siegel Sadetzki|Joellen M. Schildkraut|Sanjay Shete|Richard S. Houlston|Robert B. Jenkins|Ulrika Andersson|Preetha Rajaraman|Stephen J. Chanock|Martha S. Linet|Zhaoming Wang|Meredith Yeager|Beatrice Melin|Melissa L. Bondy|Jill S. Barnholtz-Sloan Case Western Reserve University School of Medicine;|University School;|Case Western Reserve University;|Washington University School of Medicine;|Cleveland Clinic Foundation;|The Translational Genomics Research Institute;|University of California, San Francisco;|Mayo Clinic;|Dan L. Duncan Comprehensive Cancer Center, Baylor College of Medicine;|Memorial Sloan Kettering Cancer Center;|School of Public Health, Yale University;|School of Public Health, Georgia State University;|Institute of Cancer Epidemiology, Danish Cancer Society;|Keck School of Medicine, University of Southern California;|NorthShore University HealthSystem;|Gertner Institute, Chaim Sheba Medical Center;|University of Virginia School of Medicine;|University of Texas MD Anderson Cancer Center;|The Institute of Cancer Research;|Umeå University;|National Cancer Institute;|Case Comprehensive Cancer Ctr, Case Western Reserve Univ School of Medicine
http://dx.doi.org/10.1101/235580 2017-12-18 Systems Biology CC BY-NC-ND Transcriptomes and Raman spectra are linked linearly through a shared low-dimensional subspace Koseki J. Kobayashi-Kirschvink|Hidenori Nakaoka|Arisa Oda|Ken-ichiro F. Kamei|Kazuki Nosho|Hiroko Fukushima|Yu Kanesaki|Shunsuke Yajima|Haruhiko Masaki|Kunihiro Ohta|Yuichi Wakamoto The University of Tokyo;|Tokyo University of Agriculture;|University of Tokyo
http://dx.doi.org/10.1101/235721 2017-12-18 Neuroscience CC BY-NC-ND Measures of time series coupling based on generalized weighted multiple regression Roberto D Pascual-Marqui|Rolando J Biscay|Jorge Bosch-Bayard|Pascal Faber|Toshihiko Kinoshita|Kieko Kochi|Patricia Milz|Keiichiro Nishida|Masafumi Yoshimura The KEY Institute for Brain-Mind Research, University of Zurich, Switzerland;|Centro de Investigacion en Matematicas, Guanajuato, Mexico;|Instituto de Neurobiologia, Universidad Nacional Autonoma de Mexico, Queretaro, Mexico;|Department of Neuropsychiatry, Kansai Medical University, Osaka, Japan
http://dx.doi.org/10.1101/235739 2017-12-18 Evolutionary Biology CC BY-NC-ND Fast Bayesian Inference of Phylogenetic Models Using Parallel Likelihood Calculation and Adaptive Metropolis Sampling Venelin Mitov|Tanja Stadler ETH Zurich
http://dx.doi.org/10.1101/235556 2017-12-18 Molecular Biology Characterisation and modelling of a polyhydroxyalkanoate synthase from Aquitalea sp. USM4 reveals a mechanism for polymer elongation Aik-Hong Teh|Nyet-Cheng Chiam|Go Furusawa|Kumar Sudesh Universiti Sains Malaysia
http://dx.doi.org/10.1101/235622 2017-12-18 Bioinformatics CC BY SemEHR: A General-purpose Semantic Search System to Surface Semantic Data from Clinical Notes for Tailored Care, Trial Recruitment and Clinical Research Honghan Wu|Giulia Toti|Katherine Morley|Zina Ibrahim|Amos Folarin|Richard Jackson|Ismail Kartoglu|Asha Agrawal|Clive Stringer|Darren Gale|Genevieve Gorrell|Angus Roberts|Matthew Broadbent|Robert Stewart|Richard Dobson King's College London;|King's College Hospital NHS Foundation Trust;|The University of Sheffield;|South London and Maudsley NHS Foundation Trust
http://dx.doi.org/10.1101/235465 2017-12-18 Evolutionary Biology CC BY-NC-ND Sex in the wild: why field-based studies play a critical role in resolving the problem of sex Maurine Neiman|Patrick Meirmans|Tanja Schwander|Stephanie Meirmans University of Iowa;|University of Amsterdam;|University of Lausanne
http://dx.doi.org/10.1101/235705 2017-12-18 Ecology CC BY-NC Biodiversity loss under future global socio-economic and climate scenarios Abhishek Chaudhary|Arne O Mooers ETH Zurich;|Simon Fraser University
http://dx.doi.org/10.1101/235598 2017-12-18 Microbiology CC BY-NC-ND Molecular insights into Vibrio cholerae's intra-amoebal host-pathogen interactions Charles Van der Henst|Stephanie Clerc|Sandrine Stutzmann|Candice Stoudmann|Tiziana Scrignari|Catherine Maclachlan|Graham Knott|Melanie Blokesch Swiss Federal Institute of Technology Lausanne (EPFL)
http://dx.doi.org/10.1101/236067 2017-12-18 Microbiology Characterisation of two Toxoplasma PROPPINs homologous to Atg18/WIPI suggests they have evolved distinct specialised functions Hoa Mai Nguyen|Shuxian Liu|Wassim Daher|Feng Tan|Sebastien Besteiro DIMNP, UMR5235 CNRS - Univ. Montpellier, 34095 cedex 5 Montpellier, France;|Dept of Parasitology, School of Basic Medical Sciences, Wenzhou Medical Univ;|DIMNP, UMR5235 CNRS - Univ. Montpellier, 34095 cedex 5 Montpellier, France
http://dx.doi.org/10.1101/235812 2017-12-18 Bioinformatics CC BY-NC-ND Topology independent structural matching discovers novel templates for protein interface Claudio Mirabello|Bjorn Wallner Linkoping University
http://dx.doi.org/10.1101/235895 2017-12-18 Microbiology CC BY-NC-ND Fitness traits of deoxynivalenol and nivalenol-producing Fusarium graminearum species complex strains from wheat Camila P Nicolli|Franklin J Machado|Pierri Spolti|Emerson M Del Ponte Universidade Federal de Vicosa
http://dx.doi.org/10.1101/235879 2017-12-18 Biochemistry Mutations alter RNA-mediated conversion of human prions Erik J Alred|Izra Lodangco|Jennifer Gallaher|Ulrich Hansmann University of Oklahoma
http://dx.doi.org/10.1101/235788 2017-12-18 Microbiology CC BY-ND ACI-1 class A beta-lactamase is widespread across human gut microbiomes due to transposons harboured by tailed prophages Chris M Rands|Elizaveta V Starikova|Harald Brussow|Evgenia V Kriventseva|Vadim M Govorun|Evgeny M Zdobnov University of Geneva;|Federal Research and Clinical Center of Physical-Chemical Medicine, Moscow;|KU Leuven
http://dx.doi.org/10.1101/235861 2017-12-18 Bioinformatics Multi-Parametric and Multi-Regional Histogram Analysis of MRI: Revealing Imaging Phenotypes of Glioblastoma Correlated with Patient Survival Chao Li|Shuo Wang|Angela Serra|Turid Torheim|Jiun-Lin Yan|Natalie R Boonzaier|Tomasz Matys|Mary A McLean|Florian Markowetz|Stephen J Price University of Cambridge;|University of Salerno
http://dx.doi.org/10.1101/236182 2017-12-19 Epidemiology CC BY Searching for the causal effects of BMI in over 300 000 individuals, using Mendelian randomization Louise Amanda Claire Millard|Neil M Davies|Kate Tilling|Tom R Gaunt|George Davey Smith University of Bristol
http://dx.doi.org/10.1101/236588 2017-12-19 Biochemistry CRISPR-typing PCR (ctPCR), a new Cas9-based DNA detection method Qiao Wang|Beibei Zhang|Xinhui Xu|Feifei Long|Jinke Wang State Key Laboratory of Bioelectronics, Southeast University, Nanjing 210096, China;|Nanjing Foreign Language School, Nanjing 210096, China
http://dx.doi.org/10.1101/236554 2017-12-19 Neuroscience CC BY-ND Social interactions impact on the dopaminergic system and drive individuality Nicolas Torquet|Fabio Marti|Cynthia Campart|Stefania Tolu|Claire Nguyen|Virginie Oberto|Jeremie Naude|Steve Didienne|Soizic Jezequel|Laura Le Gouestre|Nicolas Debray|Alexandre Mourot|Jean Mariani|Philippe Faure Sorbonne Universités, INSERM, CNRS, Neuroscience Paris Seine - IBPS;|Sorbonne Univ, INSERM, CNRS UMS, 28 Phénotypage du Petit Animal;|Sorbonne Univ, INSERM, CNRS, Biological Adaptation and Ageing - IBPS
http://dx.doi.org/10.1101/236547 2017-12-19 Neuroscience CC BY LARGE, an AMPA receptor interactor, plays a large role in long-term memory formation by driving homeostatic scaling-down Bo Am Seo|Taesup Cho|Daniel Z Lee|Hwa Young Lee|Joong-Jae Lee|Boyoung Lee|Seong-Wook Kim|Kathryn A Cunningham|Kelly T Dineley|Thomas A Green|Ho Min Kim|Se-Young Choi|Hee-Sup Shin|Myoung-Goo Kang Korea Advanced Institute of Science and Technology, Korea (South), Republic of;|Institute for Basic Science, Korea (South), Republic of;|University of Texas Medical Branch, United States;|Seoul National University, Korea (South), Republic of
http://dx.doi.org/10.1101/236489 2017-12-19 Synthetic Biology CC BY-NC-ND Self-limiting population genetic control with sex-linked genome editors Austin Burt|Anne Deredec Imperial College London;|UMR BIOGER, INRA AgroParisTech, Universite Paris-Saclay
http://dx.doi.org/10.1101/235770 2017-12-19 Ecology CC BY Theoretical solutions for the evaluation of discrimination capacity of species distribution models Boris Leroy|Robin Delsol|Bernard Hugueny|Christine N Meynard|Cheima Barhoumi|Morgane Barbet-Massin|Celine Bellard UMR Biologie des Organismes et des Ecosystemes Aquatiques, Museum National dHistoire Naturelle;|Centre for Biodiversity Theory and Modelling Station dEcologie Theorique et Experimentale du CNRS;|Institut de Recherche pour le Developpement;|Institut National de Recherche Agronomique (INRA) Centre de Biologie pour la Gestion des Populations;|ISEM Montpellier;|Universite de Paris Sud
http://dx.doi.org/10.1101/236471 2017-12-19 Bioinformatics CC BY-ND A protein standard that emulates homology for the characterization of protein inference algorithms Matthew The|Fredrik Edfors|Yasset Perez-Riverol|Samuel H Payne|Michael R Hoopmann|Magnus Palmblad|Bjorn Forsstrom|Lukas Kall KTH - Royal Institute of Technology;|European Molecular Biology Laboratory, European Bioinformatics Institute;|Biological Sciences Division, Pacific Northwest National Laboratory;|Institute for Systems Biology;|Leiden University Medical Center
http://dx.doi.org/10.1101/236505 2017-12-19 Zoology Phylogenomics offers resolution of major tunicate relationships Kevin M. Kocot|Michael G. Tassia|Kenneth M. Halanych|Billie J. Swalla University of Alabama;|Auburn University;|University of Washington
http://dx.doi.org/10.1101/236562 2017-12-19 Developmental Biology CC BY Micropattern differentiation of mouse pluripotent stem cells recapitulates embryo regionalized fates and patterning Anna-Katerina Hadjantonakis|Sophie Morgani|Eric D Siggia|Jakob J Metzger|Jenny Nichols Memorial Sloan Kettering Cancer Center, United States;|Rockefeller University, United States;|Cambridge University, United States
http://dx.doi.org/10.1101/236448 2017-12-19 Evolutionary Biology CC BY-NC-ND A phylogenomic framework and timescale for comparative genomics and evolutionary developmental biology of tunicates Frederic Delsuc|Herve Philippe|Georgia Tsagkogeorga|Paul Simion|Marie-Ka Tilak|Xavier Turon|Susanna Lopez-Legentil|Jacques Piette|Patrick Lemaire|Emmanuel J. P. Douzery ISEM, Universite de Montpellier, CNRS, IRD, EPHE, Montpellier, France;|Centre for Biodiversity Theory and Modelling, UMR CNRS 5321, Moulis, France;|School of Biological and Chemical Sciences, Queen Mary University of London, UK;|Center for Advanced Studies of Blanes (CEAB, CSIC), Girona, Spain;|Center for Marine Science, University of North Carolina Wilmington, NC, USA;|CRBM, UMR 5237, CNRS, Universite de Montpellier, Montpellier, France
http://dx.doi.org/10.1101/234674 2017-12-19 Genomics CC BY-NC-ND Genome-wide association study of suicide death: Results from the first wave of Utah completed suicide data Andrey A Shabalin|John S Anderson|Jess Shade|Amanda Bakian|Todd Darlington|Daniel E Adkins|Brian Mickey|Hilary Coon|Anna Docherty University of Utah School of Medicine
http://dx.doi.org/10.1101/236455 2017-12-19 Biophysics CC BY Theoretical Analysis of Inducer and Operator Binding for Cyclic-AMP Receptor Protein Mutants Tal Einav|Julia Duque|Rob Phillips California Institute of Technology;|London Centre for Nanotechnology
http://dx.doi.org/10.1101/236398 2017-12-19 Systems Biology Functional Compensation Between Hematopoietic Stem Cells In Vivo Lisa Nguyen|Zheng Wang|Elizabeth Chu|Jiya Eerdeng|Adnan Chowdhury|Rong Lu University of Southern California
http://dx.doi.org/10.1101/236265 2017-12-19 Bioinformatics CC BY-NC-ND A general method to predict the effect of single amino acid substitutions on enzyme catalytic activity Yu-Hsiu Lin|Cheng Lai Victor Huang|Christina Ho|Max Shatsky|Jack F Kirsch University of California, Berkeley, CA, USA;|Lawrence Berkeley National Laboratory, Berkeley, CA, USA;|QB3 Institute, University of California, Berkeley, CA, USA
http://dx.doi.org/10.1101/235986 2017-12-19 Microbiology Distribution of Sigma factors delineates segregation of virulent and avirulent Mycobacterium Aayatti Mallick Gupta|Sukhendu Mandal University of Calcutta
http://dx.doi.org/10.1101/236422 2017-12-18 Biochemistry CC BY-NC-ND Single-cell quantification of the concentration and dissociation constant of endogenous proteins Akira T Komatsubara|Michiyuki Matsuda|Kazuhiro Aoki Laboratory of Bioimaging and Cell Signaling, Graduate School of Biostudies, Kyoto University;|Okazaki Institute for Integrative Bioscience and National Institute for Basic Biology
http://dx.doi.org/10.1101/236406 2017-12-18 Biophysics CC BY-NC-ND Riding the Cell Jamming Boundary: Geometry, Topology, and Phase of Human Corneal Endothelium Nigel H Brookes University of Auckland
http://dx.doi.org/10.1101/236737 2017-12-19 Foxd1 is required for terminal differentiation of anterior hypothalamic neuronal subtypes. Elizabeth A Newman|Jun Wan|Jie Wang|Jiang Qian|Seth Blackshaw Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/236794 2017-12-19 CC BY-NC-ND The primary transcriptome, small RNAs, and regulation of antimicrobial resistance in Acinetobacter baumannii Carsten Kroger|Keith D. MacKenzie|Ebtihal Y. Al-Shabib|Morgan W. B. Kirzinger|Danae M. Suchan|Tzu-Chiao Chao|Valentyna Akulova|Alesksandra A. Miranda-CasoLuengo|Vivian A. Monzon|Tyrrell Conway|Sathesh K. Sivasankaran|Jay C. D. Hinton|Karsten Hokamp|Andrew D. S. Cameron Trinity College Dublin, Ireland;|University of Regina, Canada;|Oklahoma State University, USA;|University of Miami, USA;|University of Liverpool, UK
http://dx.doi.org/10.1101/236612 2017-12-19 Regulation of mitochondrial dynamics by Aurora A kinase Rhys Grant|Ahmed M Abdelbaki|Alessia Bertoldi|Maria P Gavilan|Jorg Mansfeld|David M Glover|Catherine Lindon University of Cambridge;|CABIMER;|Technical University Dresden
http://dx.doi.org/10.1101/236802 2017-12-19 CC BY Candidate cancer driver mutations in super-enhancers and long-range chromatin interaction networks Lina Wadi|Liis Uuskula-Reimand|Keren Isaev|Shimin Shuai|Vincent Huang|Minggao Liang|Drew Thompson|Yao Li|Luyao Ruan|Marta Paczkowska|Michal Krassowski|Irakli Dzneladze|Ken Kron|Alexander Murison|Parisa Mazrooei|Robert G Bristow|Jared T Simpson|Mathieu Lupien|Michael D Wilson|Lincoln D Stein|Paul C Boutros|Juri Reimand Ontario Institute for Cancer Research, Toronto, Ontario, Canada;|SickKids Research Institute, Toronto, Ontario, Canada;|Princess Margaret Cancer Centre, Toronto, Ontario, Canada;|University of Toronto, Toronto, Ontario, Canada
http://dx.doi.org/10.1101/236729 2017-12-19 Cytosolic delivery of large supramolecular protein complexes arranged on DNA nanopegboards Pavel M. Nikolov|Katja J. Kossmann|Alessa Schilling|Alessandro Angelin|Josipa Brglez|Alina Klein|Robert Tampe|Kersten S. Rabe|Christof M. Niemeyer Institute for Biological Interfaces (IBG 1), Karlsruhe Institute of Technology (KIT);|Institute of Biochemistry, Biocenter, Goethe-University Frankfurt
http://dx.doi.org/10.1101/236901 2017-12-19 Synthetic hormone-responsive transcription factors can monitor and re-program plant development Arjun Khakhar|Alexander Leydon|Andrew Lemmex|Eric Klavins|Jennifer Nemhauser University of Washington
http://dx.doi.org/10.1101/236679 2017-12-19 CC BY-NC-ND Simplifying the combined use of CRISPR-Cas9 and Cre-loxP technologies for the efficient generation of targeted conditional gene knockouts in mammalian cells Tzahi Noiman|Chaim Kahana Weizmann Institute of Science
http://dx.doi.org/10.1101/232900 2017-12-19 Genomics CC BY Correcting for population stratification reduces false positive and false negative results in joint analyses of host and pathogen genomes Olivier Naret|Nimisha Chaturvedi|Istvan Bartha|Christian Hammer|Jacques Fellay EPFL
http://dx.doi.org/10.1101/236844 2017-12-19 Bioinformatics ProteomeGenerator: A framework for comprehensive proteomics based on de novo transcriptome assembly and high-accuracy peptide mass spectral matching Paolo Cifani|Avantika Dhabaria|Akihide Yoshimi|Omar Abdel-Wahab|John T Poirier|Alex Kentsis MSKCC
http://dx.doi.org/10.1101/235762 2017-12-19 Microbiology CC BY Spontaneous dormancy protects Trypanosoma cruzi during extended drug exposure Fernando J Sanchez-Valdez|Angel Padilla|Wei Wang|Dylan Orr|Rick L. Tarleton University of Georgia
http://dx.doi.org/10.1101/236000 2017-12-19 Microbiology CC BY-NC-ND Host adaptation mediated by intergenic evolution in a bacterial pathogen Hossein Khademi|Lars Jelsbak Technical University of Denmark
http://dx.doi.org/10.1101/236596 2017-12-19 Molecular Biology CC BY-ND Recent improvements to the automatic characterization and data collection algorithms on MASSIF-1 Olof Svensson|Maciej Gilski|Didier Nurizzo|Matthew W Bowler European Synchrotron Radiation Facility;|European Molecular Biology Laboratory, Grenoble Outstation;|European Molecular Biology Laboratory
http://dx.doi.org/10.1101/237289 2017-12-20 Cell Biology CC BY-NC-ND RAB-35 and ARF-6 GTPases Mediate Engulfment and Clearance Following Linker Cell-Type Death Lena M Kutscher|Wolfgang Keil|Shai Shaham The Rockefeller University
http://dx.doi.org/10.1101/237248 2017-12-20 Systems Biology CC BY-NC-ND Quantification of very low-abundant proteins in bacteria using the HaloTag and epi-fluorescence microscopy Hannah Talyor|Alessia Lepore|Dirk Landgraf|Burak Okumus|Sebastian Jaramillo-Riveri|Lorna McLaren|Johan Paulsson|Meriem El Karoui Institute of Cell Biology and SynthSys, University of Edinburgh;|Department of System Biology, Harvard Medical School
http://dx.doi.org/10.1101/236786 2017-12-20 Microbiology Missing pstS locus associated with an insertion in tetM in vancomycin resistant Enterococcus faecium Kimon Lemonidis|Talal S. Salih|Stephanie J. Dancer|Iain S. Hunter|Nicholas P. Tucker University of Strathclyde;|Edinburgh Napier University
http://dx.doi.org/10.1101/237263 2017-12-20 Cell Biology CC BY The spatial position of budding yeast chromosomes affects gene expression Francesca Di Giovanni|Marco Di Stefano|Davide Bau|Lucas B Carey|Marc A. Marti-Renom|Manuel Mendoza Centre for Genomic Regulation (CRG);|Universitat Pompeu Fabra;|CNAG-CRG;|Center for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/236646 2017-12-20 Evolutionary Biology CC BY-NC-ND Ancient tropical extinctions contributed to the latitudinal diversity gradient Andrea Sanchez Meseguer|Fabien L Condamine CNRS
http://dx.doi.org/10.1101/236760 2017-12-20 Bioinformatics Siccuracy: An R-package for executing genotype imputation strategy simulations with AlphaImpute Stefan McKinnon Edwards The Roslin Institute
http://dx.doi.org/10.1101/235820 2017-12-20 Bioinformatics bioSyntax: Syntax Highlighting For Computational Biology Artem Babaian|Anicet Ebou|Alyssa Fegen|Ho Yin Jeffrey Kam|German E Novakovsky|Jasper Wong University of British Columbia;|Institut National Polytechnique Felix Houphouet-Boigny;|University of Waterloo
http://dx.doi.org/10.1101/236851 2017-12-20 Bioinformatics CC BY-NC-ND Real-value and confidence prediction of protein backbone dihedral angles through a hybrid method of clustering and deep learning Yujuan Gao|Sheng Wang|Minghua Deng|Jinbo Xu Peking University;|Toyota Technological Institute at Chicago
http://dx.doi.org/10.1101/237032 2017-12-20 Neuroscience CC BY-NC-ND NeuroField: Theory and Simulation of Multiscale Neural Field Dynamics Paula Sanz-Leon|P. A. Robinson|S. A. Knock|P. D. Drysdale|R. G. Abeysuriya|P. K. Fung|C. J. Rennie|X. Zhao School of Physics, University of Sydney, Sydney, New South Wales, Australia;|Oxford Centre for Human Brain Activity, Wellcome Centre for Integrative Neuroimaging;|Downstate Medical Center, State University of New York, Brooklyn, United States
http://dx.doi.org/10.1101/236224 2017-12-20 Neuroscience CC BY Fully unsupervised online spike sorting based on an artificial spiking neural network Marie Bernert|Blaise Yvert CEA and INSERM;|INSERM
http://dx.doi.org/10.1101/235044 2017-12-20 Evolutionary Biology CC BY-NC-ND Identification of the first endogenous Ophiovirus sequence. Robert James Gifford|Soledad Marsile-Medun MRC-University of Glasgow Centre for Virus Research;|Agrocampus Ouest
http://dx.doi.org/10.1101/237107 2017-12-20 Genomics CC BY-NC-ND Cleaning clinical genomic data: Simple identification and removal of recurrently miscalled variants in single genomes Matthew A Field|Gaetan Burgio|Jalila Al Shekaili|Simon J Foote|Matthew C Cook|T Daniel Andrews The John Curtin School of Medical Research, The Australian National University;|Sultan Qaboos University Hospital, Oman
http://dx.doi.org/10.1101/237073 2017-12-20 Systems Biology CC BY Non-parametric mixture models identify trajectories of childhood immune development relevant to asthma and allergy Howard HF Tang|Shu Mei Teo|Danielle CM Belgrave|Michael D Evans|Daniel J Jackson|Marta Brozynska|Merci MH Kusel|Sebastian L Johnston|James E Gern|Robert F Lemanske|Angela Simpson|Adnan Custovic|Peter D Sly|Patrick G Holt|Kathryn E Holt|Michael Inouye Baker Heart and Diabetes Institute, Melbourne, Victoria, Australia;|Department of Paediatrics, Imperial College, London, United Kingdom;|University of Wisconsin School of Medicine and Public Health, Madison, Wisconsin, USA;|Telethon Kids Institute, University of Western Australia, Perth, Western Australia, Australia;|Airway Disease Infection Section, NHLI, Imperial College London, Norfolk Place, London, UK;|Division of Infection, Immunity and Respiratory Medicine, The University of Manchester;|Child Health Research Centre, The University of Queensland, Brisbane, Queensland, Australia;|Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Parkville, Victori
http://dx.doi.org/10.1101/236968 2017-12-20 Neuroscience CC BY-ND Developmental effects of maternal smoking during pregnancy on the human frontal cortex transcriptome Stephen A Semick|Leonardo Collado-Torres|Christina A Markunas|Joo Heon Shin|Amy Deep-Soboslay|Ran Tao|Laura J Bierut|Brion S Maher|Eric O Johnson|Thomas M Hyde|Daniel R Weinberger|Dana B Hancock|Joel E Kleinman|Andrew Jaffe Lieber Institute for Brain Development;|RTI International;|Washington University School of Medicine;|Johns Hopkins Bloomberg School of Public Health
http://dx.doi.org/10.1101/236430 2017-12-20 Bioengineering CC BY-NC-ND Analysis of Bone Healing with a Novel Bone Wax Substitute Compared to Bone Wax in a Porcine Bone Defect Model Tristan Tham|Peter Costantino|Keith Roberts|John Burban|John Shanahan New York Head & Neck Insititute;|NYHNI;|Hemostasis LLC
http://dx.doi.org/10.1101/236711 2017-12-20 Bioinformatics CC BY-NC Metannot: A succinct data structure for compression of colors in dynamic de Bruijn graphs Harun Mustafa|Andre Kahles|Mikhail Karasikov|Gunnar Raetsch ETH Zuerich
http://dx.doi.org/10.1101/236687 2017-12-20 Ecology CC BY-NC-ND The compound topology of a continent-wide host-parasite network explained by an integrative hypothesis of specialization. Gabriel Moreira Felix|Rafael Barros Pereira Pinheiro|Robert Poulin|Boris R. Krasnov|Marco Aurelio Ribeiro Mello Universidade de Campinas;|Universidade Federal de Minas Gerais;|University of Otago;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/236893 2017-12-20 Bioinformatics CC BY-NC Clustering of Circular Consensus Sequences: Accurate Error Correction and Assembly of Single Molecule Real-Time Reads from Multiplexed Amplicon Libraries Felix Francis|Michael D Dumas|Scott B Davis|Randall J Wisser University of Delaware
http://dx.doi.org/10.1101/236943 2017-12-20 Evolutionary Biology Adaptive plasticity generates microclines in threespine stickleback male nuptial color Chad Brock|Molly Cummings|Daniel Bolnick University of Wyoming;|University of Texas at Austin
http://dx.doi.org/10.1101/231464 2017-12-20 Neuroscience CC BY-NC-ND Transient topographical dynamics of the electroencephalogram predict brain connectivity and behavioural responsiveness during drowsiness Iulia M Comsa|Tristan A Bekinschtein|Srivas Chennu University of Cambridge;|University of Kent
http://dx.doi.org/10.1101/237123 2017-12-20 Molecular Biology Structural basis of transcription inhibition by fidaxomicin (lipiarmycin A3) Wei Lin|Kalyan Das|David Degen|Abhishek Mazumder|Diego Duchi|Dongye Wang|Yon W. Ebright|Richard Y. Ebright|Elena Sineva|Matthew Gigliotti|Aashish Srivastava|Sukhendu Mandal|Yi Jiang|Yu Liu|Ruiheng Yin|Zhening Zhang|Edward Eng|Dennis Thomas|Stefano Donadio|Haibo Zhang|Changsheng Zhang|Achillefs Kapanidis|Richard H. Ebright Rutgers University;|KU Leuven;|Oxford University;|New York Structural Biology Center;|NAICONS Srl.;|Chinese Academy of Sciences, Guangzhou
http://dx.doi.org/10.1101/236539 2017-12-20 Genomics CC BY-NC-ND Comparative genomics of the major parasitic worms Avril Coghlan|Makedonka Mitreva|Matthew Berriman -;|Sanger Institute;|McDonnell Genome Institute
http://dx.doi.org/10.1101/236869 2017-12-20 Genetics CC BY-ND Probabilistic fine-mapping of transcriptome-wide association studies Nicholas Mancuso|Gleb Kichaev|Huwenbo Shi|Malika Freund|Claudia Giambartolomei|Alexander Gusev|Bogdan Pasaniuc University of California Los Angeles;|University of California, Los Angeles;|UCLA;|Dana Farber Cancer Institute
http://dx.doi.org/10.1101/236653 2017-12-20 Cancer Biology CC BY-NC-ND Assessment of patient-specific efficacy of chemo- and targeted-therapies: a micropharmacology approach Aleksandra A Karolak|Branton Huffstutler|Zain Khan|Katarzyna A Rejniak Moffitt Cancer Center & Research Institute
http://dx.doi.org/10.1101/237008 2017-12-19 Molecular Biology CC BY-NC-ND Spatial organization of single mRNPs at different stages of the gene expression pathway Srivathsan Adivarahan|Samir Rahman|Daniel Zenklusen Departement de biochimie et medecine moleculaire, Universite de Montreal
http://dx.doi.org/10.1101/236216 2017-12-19 Bioinformatics CC BY-NC-ND Conservation of separase N-terminal domain Michael Melesse|Joshua N. Bembenek|Igor B. Zhulin University of Tennessee Knoxville
http://dx.doi.org/10.1101/237016 2017-12-19 Cancer Biology CC BY-NC-ND The cancer-mutation network and the number and specificity of driver mutations Jaime Iranzo|Inigo Martincorena|Eugene V Koonin National Center for Biotechnology Information, National Library of Medicine, National Institutes of;|Wellcome Trust Sanger Institute, Hinxton CB10 1SA, Cambridgeshire, UK
http://dx.doi.org/10.1101/236778 2017-12-19 Neuroscience CC BY The signaling lipid sphingosine 1-phosphate regulates mechanical pain Rose Z Hill|Benjamin Hoffman|Takeshi Morita|Stephanie M Campos|Ellen A Lumpkin|Rachel B Brem|Diana M Bautista UC Berkeley;|Columbia University;|Indiana University
http://dx.doi.org/10.1101/236463 2017-12-19 Bioinformatics CC BY-NC-ND Content-Aware Image Restoration: Pushing the Limits of Fluorescence Microscopy Martin Weigert|Uwe Schmidt|Tobias Boothe|Andreas M\uuml;ller|Alexander Dibrov|Akanksha Jain|Benjamin Wilhelm|Deborah Schmidt|Coleman Broaddus|Sian Culley|Mauricio Rocha-Martins|Fabian Segovia-Miranda|Caren Norden|Ricardo Henriques|Marino Zerial|Michele Solimena|Jochen Rink|Pavel Tomancak|Loic Royer|Florian Jug|Eugene W. Myers Center for Systems Biology Dresden (CSBD);|Max-Planck Institute of Molecular Cell Biology and Genetics;|University Hospital and Faculty of Medicine Carl Gustav Carus,TU Dresden;|University College London;|Faculty of Medicine, TU Dresden;|CZ Biohub
http://dx.doi.org/10.1101/237099 2017-12-19 Molecular Biology Deep sequencing reveals two Jurkat subpopulations with distinct miRNA profiles during camptothecin-induced apoptosis Ipek Erdogan|Mehmet Ilyas Ilyas Cosacak|Ayten Nalbant Aldanmaz|Bunyamin Akgul Izmir Institute of Technology
http://dx.doi.org/10.1101/235846 2017-12-19 Genomics CC BY The prognostic effects of somatic mutations in ER-positive breast cancer Obi L Griffith|Nicholas C Spies|Meenakshi Anurag|Malachi Griffith|Jingqin Luo|Dongsheng Tu|Belinda Yeo|Jason Kunisaki|Christopher A Miller|Kilannin Krysiak|Jasreet Hundal|Benjamin Ainscough|Zachary Skidmore|Katie Campbell|Runjun Kumar|Catrina Fronick|Lisa Cook|Jacqueline E Snider|Sherri Davies|Shyam M Kavuri|Eric C Chang|Vincent Magrini|David E Larson|Robert S Fulton|Shuzen Liu|Samuel Leung|David Voduc|Ron Bose|Mitch Dowsett|Richard K Wilson|Torsten O Nielsen|Elaine R Mardis|Matthew J Ellis McDonnell Genome Institute, Washington University School of Medicine, St. Louis, MO;|Lester and Sue Smith Breast Center and Dan L. Duncan Cancer Center, Baylor College of Medicine;|Siteman Cancer Center, Washington University School of Medicine, St. Louis, MO;|Genetic Pathology Evaluation Centre, University of British Columbia, Vancouver, Canada;|The Institute of Cancer Research, London, UK;|Department of Medicine, Washington University School of Medicine, St. Louis, MO;|Department of Medicine, Division of Oncology, Washington University School of Medicine, St. Louis
http://dx.doi.org/10.1101/237065 2017-12-19 Bioinformatics CC BY Exploring Single-Cell Data with Multitasking Deep Neural Networks Matthew Amodio|Krishnan Srinivasan|David van Dijk|Hussein Mohsen|Kristina Yim|Rebecca Muhle|Kevin R Moon|Susan Kaech|Ryan Sowell|Ruth Montgomery|James Noonan|Guy Wolf|Smita Krishnaswamy Yale University
http://dx.doi.org/10.1101/237040 2017-12-19 Biochemistry Directed evolution of CRISPR-Cas9 to increase its specificity Jungjoon K Lee|Euihwan Jeong|Joonsun Lee|Minhee Jung|Eunji Shin|Young-hoon Kim|Kangin Lee|Daesik Kim|Jin-Soo Kim|Seokjoong Kim Toolgen;|seoul national university;|Seoul national university;|Institute for Basic Science
http://dx.doi.org/10.1101/237420 2017-12-21 Genomics A single-cell catalogue of regulatory states in the ageing Drosophila brain Kristofer Davie|Jasper Janssens|Duygu Koldere|Uli Pech|Sara Aibar|Maxime De Waegeneer|Samira Makhzami|Valerie Christiaens|Carmen Bravo Gonzalez-Blas|Gert Hulselmans|Katina Spanier|Thomas Moerman|Bram Vanspauwen|Jeroen Lammertyn|Bernard Thienpont|Sha Liu|Patrik Verstreken|Stein Aerts VIB Center for Brain & Disease Research;|KU Leuven Department of Biosystems;|KU Leuven, Department of Human Genetic
http://dx.doi.org/10.1101/237255 2017-12-21 Microbiology CC BY Comprehensive analysis of Verticillium nonalfalfae in silico secretome uncovers putative effector proteins expressed during hop invasion Kristina Marton|Marko Flajsman|Sebastjan Radisek|Katarina Kosmelj|Jernej Jakse|Branka Javornik|Sabina Berne University of Ljubljana, Biotechnical faculty;|Slovenian Institute of Hop Research and Brewing;|University of Ljubljana, Biotechnical Faculty
http://dx.doi.org/10.1101/191973 2017-12-21 Neuroscience CC BY-NC-ND Xenomai-based multiple-process system, for real-time data acquisition and graphical display control Caron Hadrien|Pierre Pouget ICM;|CNRS
http://dx.doi.org/10.1101/237024 2017-12-21 Genetics CC BY-NC-ND Identification of methylation and hydroxymethylation haplotype blocks as distal regulatory elements aids in deconvolution of heterogeneous brain tissues Qin Ma|Zhengzheng Xu|Huan Lu|Ziying Xu|Yuanyuan Zhou|Bifeng Yuan|Weimin Ci Beijing Institute of Genomics, Chinese Academy of Sciences;|Wuhan University
http://dx.doi.org/10.1101/236984 2017-12-21 Genetics CC BY-NC-ND Control of meiotic double-strand-break formation by ATM: local and global views Agnieszka Lukaszewicz|Julian Lange|Scott Keeney|Maria Jasin Memorial Sloan Kettering Cancer Center;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/237180 2017-12-21 Bioinformatics CC BY NanoPack: visualizing and processing long read sequencing data Wouter De Coster|Svenn D'Hert|Darrin T. Schultz|Marc Cruts|Christine Van Broeckhoven Neurodegenerative Brain Diseases Grp, Ctr for Molec Neurol, VIB & Univ of Antwerp;|Neuromics Support Facility, Center for Molecular Neurology, VIB & Univ of Antwerp;|Dept of Biomolecular Engineering and Bioinformatics, Univ California Santa Cruz
http://dx.doi.org/10.1101/237172 2017-12-21 Neuroscience CC BY-NC-ND An analysis of EEG networks and their correlation with cognitive impairment in preschool children with epilepsy Eli Kinney-Lang|Michael Yoong|Matthew Hunter|Krishnaraya Kamath Tallur|Jay Shetty|Ailsa McLellan|Richard FM Chin|Javier Escudero University of Edinburgh, School of Engineering;|University of Edinburgh, Muir Maxwell Epilepsy Centre;|Royal Hospital for Sick Children;|Royal Hospital for Sick Children; University of Edinburgh
http://dx.doi.org/10.1101/237339 2017-12-21 Microbiology CC BY-NC-ND Characterizing co-expression networks underpinning maize stalk rot virulence in Fusarium verticillioides through computational subnetwork module analyses Man S Kim|Huan Zhang|Huijuan Yan|Byung-Jun Yoon|Won Bo Shim Texas A&M University
http://dx.doi.org/10.1101/237321 2017-12-21 Genomics Genome-wide association study implicates CHRNA2 in cannabis use disorder Ditte Demontis|Veera M Rajagopal|Thorgeir Thorgeirsson|Thomas D Als|Jakob Grove|Jonatan Pallesen|Carsten Hjorthoj|Gunnar W Reginsson|Thorarinn Tyrfingsson|Valgerdur Runarsdottir|Per Qvist|Jane H Christensen|Laura M Huckins|Eli A Stahl|Allan Timmermann|Esben Agerbo|Thomas Werge|Ole Mors|Preben B Mortensen|Merete Nordentoft|Mark Daly|Hreinn Stefansson|Kari Stefansson|Mette Nyegaard|Anders D Borglum Aarhus University;|deCODE genetics;|Copenhagen University Hospital;|National Center of Addiction Medicine, SAA, Vogur Hospital;|Icahn School of Medicine at Mount Sinai;|Copenhagen University;|Aarhus University Hospital;|Broad Institute of Harvard and MIT
http://dx.doi.org/10.1101/237164 2017-12-21 Evolutionary Biology CC BY-ND First genome-wide analysis of an endangered lichen reveals isolation by distance and strong population structure Jessica Allen|Sean McKenzie|Robin Sleith|S. Elizabeth Alter The New York Botanical Garden, 2900 Southern Blvd, Bronx, NY 10458;|Rockefeller University, 1230 York Avenue, New York, NY 10065;|York College, Biology Department, 94-20 Guy R Brewer Blvd, Jamaica, NY 11451
http://dx.doi.org/10.1101/237214 2017-12-21 Bioinformatics CC BY-ND Robust expression variability testing reveals heterogeneous T cell responses Nils Eling|Arianne C. Richard|Sylvia Richardson|John C. Marioni|Catalina A. Vallejos EMBL European Bioinformatics Institute, CRUK Cambridge Institute;|CRUK Cambridge Institute, Cambridge Institute for Medical Research;|MRC Biostatistics Unit;|The Alan Turing Institute, UCL Department of Statistical Science
http://dx.doi.org/10.1101/235531 2017-12-21 Evolutionary Biology CC BY-NC-ND Mineral facilitated horizontal gene transfer: A new principle for evolution of life? Karina K Sand|Stanislav Jelavic University of Aberystwyth;|Independent scholar
http://dx.doi.org/10.1101/236828 2017-12-21 Microbiology CC BY Discovery and biosynthesis of the antibiotic bicyclomycin in distant bacterial classes Natalia M Vior|Rodney Lacret|Govind Chandra|Siobhan Dorai-Raj|Martin Trick|Andrew W Truman John Innes Centre
http://dx.doi.org/10.1101/237818 2017-12-21 Neuroscience CC BY-NC-ND Cellular diversity in the Drosophila midbrain revealed by single-cell transcriptomics Vincent Croset|Christoph D Treiber|Scott Waddell Center for Neural Circuits and Behaviour, University of Oxford
http://dx.doi.org/10.1101/237495 2017-12-21 Cancer Biology CC BY-NC-ND Lack of Evidence that Ursodeoxycholic Acid's Effects on the Gut Microbiome Influence Colorectal Adenoma Risk Talima Pearson|J Gregory Caporaso|Monica Yellowhair|Nicholas A Bokulich|Denise J Roe|Betsy C Wertheim|Mark Linhart|Jessica A Martinez|Cherae Bilagody|Heidie Hornstra|David S Alberts|Peter Lance|Patricia A Thompson Northern Arizona University;|University of Arizona;|Stony Brook School of Medicine
http://dx.doi.org/10.1101/237719 2017-12-21 Cell Biology CC BY-ND A Testis ER Chaperone Marks Mature Olfactory and Vomeronasal Sensory Neurons Ryan P Dalton UC Berkeley
http://dx.doi.org/10.1101/237438 2017-12-21 Cancer Biology Modeling acute myeloid leukemia in a continuum of differentiation states Heyrim Cho|Kimberly Ayers|Lisette de Pillis|Ya-Huei Kuo|Jeho Park|Ami Radunskaya|Russell C. Rockne Department of Mathematics, University of Maryland;|Department of Mathematics, Pomona College;|Department of Mathematics, Harvey Mudd College;|Department of Hematological Malignancies Translational Science, City of Hope;|Division of Mathematical Oncology, City of Hope
http://dx.doi.org/10.1101/232777 2017-12-21 Immunology CC BY The Phagocyte Oxidase Controls Tolerance to Mycobacterium tuberculosis infection. Andrew J Olive|Clare M Smith|Michael C Kiritsy|Christopher M Sassetti University of Massachusetts Medical School
http://dx.doi.org/10.1101/237479 2017-12-21 Genetics CC BY-NC-ND A memory element imposes epigenetic behavior on intrinsically labile RNAi-induced heterochromatin spread. R A Greenstein|Stephen K Jones|Eric C Spivey|James R Rybarski|Ilya Finkelstein|Bassem Al-Sady University of California at San Francisco;|University of Texas at Austin
http://dx.doi.org/10.1101/237669 2017-12-21 Neuroscience CC BY-NC-ND A Parallel Processing Model of Drosophila Olfactory Sensory Neurons and Its Biological Validation Aurel A. A Lazar|Chung-Heng Yeh Columbia University
http://dx.doi.org/10.1101/237610 2017-12-21 Molecular Biology CC BY-NC-ND Computational docking reveals evolutionary conservation of a specific interaction between 15d-Prostaglandin-J2 and eIF4A. So Jeong Yun|Hyunjoon Kim|Seung Gee Lee|Seung-Hyun Jung|Joon Hyun Kim|Jeong Eun Ryu|N. Jiten Singh|Jouhyun Jeon|Jin-Kwan Han|Cheol-Hee Kim|Sanguk Kim|Kwang S. Kim|Sung Key Jang|Woo Jae Kim Pohang University of Science and Technology;|University of Ottawa;|Chungnam National University;|Dept of Cellular & Molecular Medicine, Faculty of Medicine, University of Ottawa
http://dx.doi.org/10.1101/237230 2017-12-21 Microbiology CC BY Division of labor during biofilm matrix production Anna Dragos|Heiko T. Kiesewalter|Marivic Martin|Chin-Yu Hsu|Raimo Hartmann|Tobias Wechsler|Knut Drescher|Nicola Stanley-Wall|Rolf Kummerli|Akos T. Kovacs Bacterial Interactions & Evolution Group, DTU Bioengineering, Tech Univ of Denmark;|School of Life Sciences, University of Dundee;|Max Planck Institute for Terrestrial Microbiology;|Department of Plant and Microbial Biology, University of Zurich
http://dx.doi.org/10.1101/237412 2017-12-20 Biophysics CC BY-NC-ND Structural organization and energy storage in crosslinked actin-assemblies Rui Ma|Julien Berro Yale University
http://dx.doi.org/10.1101/237560 2017-12-20 Bioengineering Sequential Super-Resolution Imaging using DNA Strand Displacement Diane S Lidke|Cheyenne Martin|Farzin Farzam|Jeremy S Edwards|Sandeep Pallikkuth|Mathew R Lakin|Keith A Lidke University of New Mexico
http://dx.doi.org/10.1101/237446 2017-12-20 Cell Biology Transcriptomic characterization of 20 organs and tissues from mouse at single cell resolution creates a Tabula Muris Stephen R. Quake|Tony Wyss-Coray|Spyros Darmanis -;|Stanford University and Chan Zuckerberg Biohub;|Stanford University;|Chan Zuckerberg Biohub
http://dx.doi.org/10.1101/236836 2017-12-20 Systems Biology Information Flow in Planar Polarity Katherine H. Fisher|Alexander George Fletcher|David I. Strutt University of Sheffield
http://dx.doi.org/10.1101/237636 2017-12-20 Neuroscience Autophagy enhances memory erasure through synaptic destabilization Mohammad Shehata|Kareem Abdou|Kiriko Choko|Mina Matsuo|Hirofumi Nishizono|Kaoru Inokuchi University of Toyama
http://dx.doi.org/10.1101/228650 2017-12-20 Neuroscience CC BY-NC EGL-19 AND EXP-2 ION CHANNELS MODELLING WITHIN C. ELEGANS PHARYNGEAL MUSCLE CELL ALLOWS REPRODUCTION OF CA2+ DRIVEN ACTION POTENTIALS, BOTH SINGLE EVENTS AND TRAINS Andrey Palyanov|Khristina Samoilova|Natalia Palyanova Ershov Institute of Informatics Systems;|Novosibirsk State University;|Institute of Molecular Biology and Biophysics
http://dx.doi.org/10.1101/234252 2017-12-20 Biochemistry CC BY Process proteomics of beer reveals a dynamic proteome with extensive modifications Benjamin L Schulz|Toan K Phung|Michele Bruschi|Agnieszka Janusz|Jeff Stewart|John Mehan|Peter Healy|Amanda S Nouwens|Glen P Fox|Claudia E Vickers The University of Queensland;|Cargill Malt;|Lion
http://dx.doi.org/10.1101/237644 2017-12-20 Developmental Biology A simple bioreactor-based method to generate kidney organoids from pluripotent stem cells Aneta Przepiorski|Veronika Sander|Tracy Tran|Jennifer Hollywood|Brie Sorrenson|Jen-Hsing Shih|Ernst J Wolvetang|Andrew P McMahon|Teresa M Holm|Alan J Davidson University of Auckland;|University of Southern California;|University of Queensland
http://dx.doi.org/10.1101/237388 2017-12-20 Developmental Biology CC BY-NC-ND CHARACTERIZATION OF THE bHLH FAMILY OF TRANSCRIPTIONAL REGULATORS IN THE ACOEL S. roscoffensis AND THEIR PUTATIVE ROLE IN NEUROGENESIS Elena Perea-Atienza|Simon G. Sprecher|Pedro Martinez Departament de Genetica, Universitat de Barcelona, Spain;|Department of Biology, University of Fribourg, Switzerland
http://dx.doi.org/10.1101/220293 2017-12-20 Cell Biology Phospho-signal flow from a pole-localized microdomain spatially patterns transcription factor activity Keren Lasker|Alex von Diezmann|Daniel G. Ahrens|Thomas H. Mann|W. E. Moerner|Lucy Shapiro Stanford University
http://dx.doi.org/10.1101/236695 2017-12-20 Biochemistry Proteomic and biochemical comparison of the cellular interaction partners of human VPS33A and VPS33B Morag R Hunter|Geoffrey G Hesketh|Anne-Claude Gingras|Stephen C Graham University of Cambridge;|Lunenfeld-Tanenbaum Research Institute;|Lunenfeld-Tanenbaum Research Institute and University of Toronto
http://dx.doi.org/10.1101/237693 2017-12-21 Cell "hashing" with barcoded antibodies enables multiplexing and doublet detection for single cell genomics Marlon Stoeckius|Shiwei Zheng|Brian Houck-Loomis|Stephanie Hao|Bertrand Yeung|Peter Smibert|Rahul Satija New York Genome Center;|BioLegend Inc.
http://dx.doi.org/10.1101/238303 2017-12-21 Mathematical models for cell migration with real-time cell cycle dynamics Sean T Vittadello|Scott McCue|Gency Gunasingh|Nikolas Haass|Matthew Simpson Queensland University of Technology;|University of Queensland
http://dx.doi.org/10.1101/237578 2017-12-21 CC BY-NC Challenges in Using ctDNA to Achieve Early Detection of Cancer Imran S Haque|Olivier Elemento Freenome;|Weill Cornell Medicine
http://dx.doi.org/10.1101/238311 2017-12-21 The mechanical microenvironment regulates ovarian cancer cell morphology, migration, and spheroid disaggregation Andrew J McKenzie|Stephanie R Hicks|Kathryn V Svec|Hannah Naughton|Zoe L Edmunds|Alan K Howe University of Vermont
http://dx.doi.org/10.1101/210518 2017-12-21 CC BY-NC-ND Study on Linear Combination of Long Memory Processes Corrupted by Additive Noises for fMRI Time Series Analysis Wonsang You|Catherine Limperopoulos Children's National Health System
http://dx.doi.org/10.1101/238378 2017-12-21 CC BY-NC-ND Building a 3D Integrated Cell Gregory R. Johnson|Rory M. Donovan-Maiye|Mary M. Maleckar Allen Institute for Cell Science
http://dx.doi.org/10.1101/237362 2017-12-21 CC BY-NC-ND Partial Correlation Analysis Reveals Abnormal Retinotopically Organized Functional Connectivity of Visual Areas in Amblyopia Janine Mendola|Jack Lam|Michelle Rosenstein|Lindsay B Lewis|Amir Shmuel McGill University
http://dx.doi.org/10.1101/238295 2017-12-21 A simple test identifies selection on complex traits in breeding and experimentally-evolved populations Timothy Mathes Beissinger|Jochen Kruppa|David Cavero|Ngoc-Thuy Ha|Malena Erbe|Henner Simianer USDA-ARS, University of Missouri;|Inst for Animal Breeding & Genet., Univ. of Veterinary Medicine, Hannover, Germany;|H&N International GmbH, Cuxhaven, Germany;|University of Goettingen, Center for Integrated Breeding Research, Germany;|Inst for Animal Breeding, Bavarian State Research Centre for Agriculture, Grub
http://dx.doi.org/10.1101/237917 2017-12-21 Real-time visual interactions across the boundary of awareness Noya Meital-Kfir|Dov Sagi Weizmann Institute of Science
http://dx.doi.org/10.1101/238279 2017-12-21 Lhx2 regulates temporal changes in chromatin accessibility and transcription factor binding in retinal progenitor cells. Seth Blackshaw|Cristina Zibetti|Sheng Liu|Jun Wan|Jiang Qian Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/238329 2017-12-21 CC BY-NC-ND Diversification, sympatry, and the emergence of mega-diverse tropical assemblages Jacob B Socolar|Alexander C Lees University of Connecticut;|Manchester Metropolitan University
http://dx.doi.org/10.1101/238345 2017-12-21 CC BY-NC-ND Functional triplet motifs underlie accurate predictions of single-trial responses in populations of tuned and untuned V1 neurons Joseph B Dechery|Jason N MacLean University of Chicago
http://dx.doi.org/10.1101/236919 2017-12-21 Bioty: A cloud-based development toolkit for programming experiments and interactive applications with living cells Peter Washington|Karina Samuel-Gama|Shirish Goyal|Ingmar H Riedel-Kruse Stanford University
http://dx.doi.org/10.1101/237743 2017-12-21 CC BY-NC-ND Quantifying long-term predictability in microbial plankton dynamics Caterina R Giner|Vanessa Balague|Anders K. Krabberd|Isabel Ferrera|Albert Rene|Esther Garces|Josep M. Gasol|Ramiro Logares|Ramon Massana Institute of Marine Sciences (ICM-CSIC);|Institute of Marine Sciences;|University of Oslo, Department of Biosciences
http://dx.doi.org/10.1101/237842 2017-12-21 CC BY-NC-ND The essential genome of Escherichia coli K-12 Emily Goodall|Ashley Robinson|Iain Johnston|Sara Jabbari|Keith Turner|Adam Cunningham|Peter Lund|Jeffrey Cole|Ian Henderson University of Birmingham;|Discuva Ltd.;|j.a.cole@bham.ac.uk
http://dx.doi.org/10.1101/237933 2017-12-21 CC BY-NC A model of protein interactions for regulating plant stem cells Jeremy Gruel|Julia Deichmann|Benoit Landrein|Thomas Hitchcock|Henrik Jonsson Sainsbury Laboratory, Cambridge University;|University of Cambridge
http://dx.doi.org/10.1101/236018 2017-12-21 CC BY Fluorescent reporter lines for auxin and cytokinin signalling in barley (Hordeum vulgare) Gwendolyn Kristin Kirschner|Yvonne Stahl|Jafargholi Imani|Maria von Korff|Ruediger Simon Inst for Develop Genet, Cluster of Excellence on Plant Sci, Heinrich Heine Univ;|Res Ctr for BioSystems, Land Use & Nutrition, Justus Liebig University;|Inst for Plant Genet, Cluster of Excellence on Plant Sci, Heinrich Heine Univ
http://dx.doi.org/10.1101/237776 2017-12-21 Evolutionary Biology CC BY-NC-ND A comprehensive assessment of inbreeding and laboratory adaptation in Aedes aegypti mosquitoes Perran A Ross|Nancy M Endersby-Harshman|Ary A Hoffmann Bio21 Institute and the University of Melbourne
http://dx.doi.org/10.1101/237297 2017-12-21 Genetics CC BY-NC-ND Genetic structure and sex-biased gene flow in the history of southern African populations Vladimir Bajic|Chiara Barbieri|Alexander Hubner|Tom Guldemann|Christfried Naumann|Linda Gerlach|Falko Berthold|Hirosi Nakagawa|Sununguko W. Mpoloka|Lutz Roewer|Josephine Purps|Mark Stoneking|Brigitte Pakendorf Department of Evolutionary Genetics, MPI for Evolutionary Anthropology;|Dept of Linguistic and Cultural Evolution, MPI for the Science of Human History;|Institute of Asian and African Studies, Humboldt University, Berlin;|Dept of Human Behavior, Ecology and Culture, MPI for Evolutionary Anthropology;|Independent researcher;|Institute of Global Studies, Tokyo University of Foreign Studies, Tokyo;|Department of Biological Sciences, University of Botswana, Gaborone;|Charité - Universitätsmedizin Berlin;|Dept of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology;|Laboratoire Dynamique du Langage, CNRS and Université de Lyon
http://dx.doi.org/10.1101/237461 2017-12-21 Genomics CC BY-NC-ND Non-B DNA affects polymerization speed and error rate in sequencers and living cells Wilfried M. F. Guiblet|Marzia A. Cremona|Monika Cechova|Robert S. Harris|Iva Kejnovska|Eduard Kejnovsky|Kristin Eckert|Francesca Chiaromonte|Kateryna D. Makova Penn State University, University Park;|Academy of Sciences of the Czech Republic, Brno;|Penn State University, College of Medicine, Hershey
http://dx.doi.org/10.1101/236604 2017-12-21 Neuroscience Uncovering the heterogeneity and temporal complexity of neurodegenerative diseases with Subtype and Stage Inference Alexandra L Young|Razvan-Valentin V Marinescu|Neil P Oxtoby|Martina Bocchetta|Keir Yong|Nicholas Firth|David M Cash|David L Thomas|Katrina M Dick|Jorge Cardoso|John van Swieten|Barbara Borroni|Daniela Galimberti|Mario Masellis|Maria Carmela Tartaglia|James B Rowe|Caroline Graff|Fabrizio Tagliavini|Giovanni Frisoni|Robert Laforce|Elizabeth Finger|Alexandre Medonca|Sandro Sorbi|Jason D Warren|Sebastian Crutch|Nick C Fox|Sebastien Ourselin|Jonathan M Schott|Jonathan D Rohrer|Daniel C Alexander Centre for Medical Image Computing, University College London;|Dementia Research Centre, Institute of Neurology, University College London;|Leonard Wolfson Experimental Neurol Ctr, UCL Inst of Neurology, Univ Coll London;|Erasmus Medical Center, Rotterdam;|University of Brescia;|University of Milan;|Sunnybrook Health Sciences Centre, University of Toronto;|University of Toronto;|University of Cambridge;|Karolinska Institutet, Stockholm;|Istituto Neurologico Carlo Besta, Milan;|IRCCS San Giovanni di Dio Fatebenefratelli Brescia;|Universite Laval, Quebec;|University of Western Ontario;|Universidade de Lisboa;|University of Florence;|-
http://dx.doi.org/10.1101/237727 2017-12-21 Bioinformatics CC BY-NC-ND Dr.Paso: Drug response prediction and analysis system for oncology research Francisco Azuaje|Tony Kaoma|Celine Jeanty|Petr V. Nazarov|Arnaud Muller|Sang-Yoon Kim|Anna Golebiewska|Gunnar Dittmar|Simone P. Niclou Luxembourg Institute of Health (LIH)
http://dx.doi.org/10.1101/232991 2017-12-21 Zoology CC BY Tetrapods on the EDGE: Overcoming data limitations to identify phylogenetic conservation priorities Rikki Gumbs|Claudia L Gray|Oliver R Wearn|Nisha R Owen Imperial College London;|Zoological Society of London;|Institute of Zoology, Zoological Society of London
http://dx.doi.org/10.1101/236620 2017-12-21 Microbiology The structure of the influenza A virus genome Bernadeta Dadonaite|Egle Barilaite|Ervin Fodor|Alain Laederach|David LV Bauer Sir William Dunn School of Pathology, University of Oxford;|Department of Biology, University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/237859 2017-12-21 Neuroscience CC BY Data-driven brain-types and their cognitive consequences Joe Bathelt|Amy Johnson|Mengya Zhang|Duncan E. Astle MRC Cognition & Brain Sciences Unit, University of Cambridge;|-
http://dx.doi.org/10.1101/237529 2017-12-21 Developmental Biology CC BY-NC-ND Osterix functions downstream of anti-Mullerian hormone signaling to regulate Mullerian duct regression Rachel Mullen|Ying Wang|Bin Liu|Emma L Moore|Richard R Behringer MD Anderson Cancer Center;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/237883 2017-12-21 Bioinformatics CC BY Decomposing the Apoptosis Pathway Into Biologically Interpretable Principal Components Min Wang|Steven M Kornblau|Kevin R Coombes The Ohio State University;|The University of Texas M.D. Anderson Cancer Center
http://dx.doi.org/10.1101/237198 2017-12-21 Neuroscience Measurement of the mapping between intracranial EEG and fMRI recordings in the human brain David W Carmichael|Serge Vulliemoz|Teresa Murta|Umair Chaudhary|Suejen Perani|Roman Rodionov|Maria MJ Rosa|Karl Friston|Louis Lemieux UCL Great Ormond Street Institute of Child Health;|University Hospital and University of Geneva;|UCL Institute of Neurology;|UCL
http://dx.doi.org/10.1101/237651 2017-12-21 Neuroscience CC BY-NC-ND Gaze Behaviour During Sensorimotor Adaptation Parcellates the Explicit and Implicit Contributions to Learning Anouk J de Brouwer|Mohammed Albaghdadi|Randy Flanagan|Jason P Gallivan Queen's University
http://dx.doi.org/10.1101/237875 2017-12-21 Biophysics The role of conformational entropy in the determination of structural-kinetic relationships for helix-coil transitions Joseph F Rudzinski|Tristan Bereau Max Planck Institute for Polymer Research
http://dx.doi.org/10.1101/237735 2017-12-21 Plant Biology Engineering resistance against Tomato yellow leaf curl virus via the CRISPR/Cas9 system in tomato Magdy Mahfouz|Manal Tashkandi|Zahir ALI|Fatimah Aljedaani|Ashwag Shami KAUST;|Kaust
http://dx.doi.org/10.1101/237586 2017-12-21 Genomics Firefly genomes illuminate the origin and evolution of bioluminescence Timothy R Fallon|Sarah E Lower|Ching-Ho Chang|Manabu Bessho-Uehara|Gavin J Martin|Adam J Bewick|Megan Behringer|Humberto J Debat|Isaac Wong|John C Day|Anton Suvorov|Christian J Silva|David W Hall|Robert J. Schmitz|David R Nelson|Sara Lewis|Shuji Shigenobu|Seth M Bybee|Amanda M Larracuente|Yuichi Oba|Jing-Ke Weng Massachusetts Institute of Technology;|Cornell University;|University of Rochester;|Nagoya University;|Brigham Young University;|University of Georgia;|Arizona State University;|IPAVE-CIAP-INTA;|Centre for Ecology and Hydrology (CEH) Wallingford;|University of California Davis;|University of Tennessee HSC;|Tufts University;|National Institute for Basic Biology;|Chubu University;|Whitehead Institute for Biomedical Research
http://dx.doi.org/10.1101/237826 2017-12-21 Plant Biology CC BY-NC-ND The co-regulatory interaction of transpiration and water potential: Implications for stomatal conductance models and height growth in trees Robert Beyer|Hans Pretzsch|Paul-Henry Cournede University of Cambridge;|Technische Universitaet Muenchen;|CentraleSupelec
http://dx.doi.org/10.1101/237768 2017-12-21 Plant Biology CC BY-NC-ND Peripheral infrastructure vectors and an extended set of plant parts for the modular cloning system Johannes Gantner|Theresa Ilse|Jana Ordon|Carola Kretschmer|Ramona Gruetzner|Christian Loefke|Yasin Dagdas|Katharina Buerstenbinder|Sylvestre Marillonnet|Johannes Stuttmann Martin Luther University of Halle;|Leibniz Institute of Plant Biochemistry Halle;|Gregor Mendel Institute Vienna;|Martin Luther University Halle
http://dx.doi.org/10.1101/238873 2017-12-22 Macrophage resilience and control of intracellular bacteria requires sst1-dependent integration of c-Myc, stress response and type I IFN pathways Bidisha Bhattacharya|Sujoy Chatterjee|Robert Berland|Alexander Pichugin|Alexander Ivanov|John H Connor|Bo-Shiun Yan|Lester Kobzik|Igor Kramnik Boston University School of Medicine, National Emerging Infectious Diseases Laboratory;|Harvard T. H. Chan School of Public Health;|Department of Chemistry & Chemical Biology, Northeastern University;|Institute of Biochemistry and Molecular Biology, National Taiwan University Medical College, Taipei
http://dx.doi.org/10.1101/238931 2017-12-22 CC BY-NC-ND Experimental Evolution Across Different Thermal Regimes Yields Genetic Divergence in Recombination Fraction But No Divergence in Temperature-Associated Plastic Recombination Kathryn P Kohl|Nadia Singh Winthrop University;|University of Oregon
http://dx.doi.org/10.1101/238816 2017-12-22 The bovine alveolar macrophage DNA methylome is resilient to infection with Mycobacterium bovis Alan M O'Doherty|Kevin Rue-Albrecht|David A Magee|Simone Ahting|Rachelle E Irwin|Thomas J Hall|John A Browne|Nicolas C Nalpas|Colum Walsh|Stephen Gordon|Marcin W. Wojewodzic|David E MacHugh University College Dublin;|University of Oxford;|Trinity College Dublin;|Ulster University;|University of Tubingen;|Oslo University Hospital
http://dx.doi.org/10.1101/238808 2017-12-22 Hybrid correction of highly noisy Oxford Nanopore long reads using a variable-order de Bruijn graph Pierre Morisse|Thierry Lecroq|Arnaud Lefebvre University of Rouen, LITIS EA4108
http://dx.doi.org/10.1101/238998 2017-12-22 CC BY-NC-ND Handling Multiplicity in Neuroimaging through Bayesian Lenses with Hierarchical Modeling Gang Chen|Yaqiong Xiao|Paul A Taylor|Tracy Riggins|Fengji Geng|Elizabeth Redcay|Robert W Cox National Institutes of Health;|University of Maryland
http://dx.doi.org/10.1101/238923 2017-12-22 Transcriptome dynamics describe and predict state transition from health to leukemia Russell C. Rockne|Sergio Branciamore|Jing Qi|Guerry J. Cook|Wei-Kai Hua|Emily Carnahan|Ayelet Marom|Herman Wu|Davide Maestrini|Xiwei Wu|Chao Guo|Denis O'Meally|Yate-Ching Yuan|Zheng Liu|Nadia Carlesso|Leo D. Wang|Stephen Forman|Ya-Huei Kuo|Guido Marcucci Beckman Research Institute, City of Hope
http://dx.doi.org/10.1101/238352 2017-12-22 Rap2 and TNIK control Plexin-dependent synaptic tiling in C. elegans Xi Chen|Akihiro CE Shibata|Nicholas L Weilinger|Ardalan Hendi|Mizuki Kurashina|Ethan Fortes|Brian MacVicar|Hideji Murakoshi|Kota Mizumoto University of British Columbia;|National Institute for Physiological Sciences
http://dx.doi.org/10.1101/238899 2017-12-22 Multiplexed imaging of high density libraries of RNAs with MERFISH and expansion microscopy Guiping Wang|Jeffrey R Moffitt|Xiaowei Zhuang Harvard University
http://dx.doi.org/10.1101/238675 2017-12-22 Pan-cancer characterisation of microRNA with hallmarks of cancer reveals role of microRNA-mediated downregulation of tumour suppressor genes Andrew Dhawan|Jacob G Scott|Adrian L Harris|Francesca M Buffa University of Oxford, Oxford, United Kingdom;|Cleveland Clinic, Cleveland, USA
http://dx.doi.org/10.1101/238949 2017-12-22 CC BY-NC-ND Wolbachia Infection Associated with Increased Recombination in Drosophila Nadia Singh University of Oregon
http://dx.doi.org/10.1101/238980 2017-12-22 The PTPRT pseudo-phosphatase domain is a denitrase Yiqing Zhao|Shuliang Zhao|Yujun Hao|Benlian Wang|Peng Zhang|Xiuing Feng|Yicheng Chen|Jing Song|John Mieyal|Sanford Markowitz|Rob Ewing|Ronald Conlon|Masaru Miyagi|Zhenghe Wang Case Western Reserve Univeristy;|Case Western Reserve University
http://dx.doi.org/10.1101/238709 2017-12-22 Biochemistry Protein Interaction Screen on Peptide Matrix (PRISMA) reveals interaction footprints and the PTM-dependent interactome of intrinsically disordered C/EBPβ Gunnar Dittmar|Daniel Perez-Hernandez|Elisabeth Kowenz-Leutz|Marieluise Kirchner|Guenther Kahlert|Radoslaw Wesolowski|Katharina Baum|Maria Knoblich|Arnaud Muller|Jana Wolf|Ulf Reimer|Achim Leutz Luxembourg Institute of Health;|Max Delbrueck Center;|Berlin Institute of Health;|JPT
http://dx.doi.org/10.1101/238766 2017-12-22 Bioinformatics CC BY-NC-ND OmicsNet: Integration of Multi-Omics Data using Path Analysis in Multilayer Networks Murodzhon Akhmedov|Alberto Arribas|Roberto Montemanni|Francesco Bertoni|Ivo Kwee Institute of Oncology Research, Bellinzona, CH;|Dalle Molle Institute for Artificial Intelligence, Manno, CH
http://dx.doi.org/10.1101/238592 2017-12-22 Neuroscience CC BY-NC CosMIC: A Consistent Metric for Spike Inference from Calcium Imaging Stephanie Reynolds|Simon R Schultz|Pier Luigi Dragotti Imperial College London
http://dx.doi.org/10.1101/238733 2017-12-22 Cell Biology CYRI1-mediated inhibition of RAC1 signalling restricts Salmonella Typhimurium infection Kyoko E Yuki|Hadir Marei|Evgenij Fiskin|Megan M Eva|Angelica A Gopal|Jeremy A Schwartzentruber|Jacek Majewski|Mathieu Cellier|Judith N Mandl|Silvia M Vidal|Danielle Malo|Ivan Dikic Dept of Human Genetics, McGill Univ; McGill Univ Research Ctr on Complex Traits;|Institute of Biochemistry II, Goethe University Faculty of Medicine;|Dept of Physiology, McGill Univ; McGill Univ Research Ctr on Complex Traits;|Department of Human Genetics, McGill University;|Centre INRS-Institut Armand-Frappier;|McGill University; McGill University Research Centre on Complex Traits;|University Hospital - Goethe University Frankfurt
http://dx.doi.org/10.1101/238774 2017-12-22 Neuroscience CC BY-NC-ND Stimulus content shapes cortical response statistics Mihaly Banyai|Andreea Lazar|Liane Klein|Johanna Klon-Lipok|Wolf Singer|Gergo Orban Computational Systems Neuroscience Lab, MTA Wigner RCP, Budapest;|Ernst Strüngmann Institute for Neuroscience, Frankfurt
http://dx.doi.org/10.1101/237990 2017-12-22 Genomics CC BY-NC-ND Correcting values of DNA sequence similarity for errors in sequencing Timothy J Hackmann University of Florida
http://dx.doi.org/10.1101/238519 2017-12-22 Neuroscience CC BY-NC-ND Aberrant cerebellar-default-mode functional connectivity underlying auditory verbal hallucinations in schizophrenia revealed by multi-voxel pattern analysis of resting-state functional connectivity MRI data Takashi Itahashi|Masaru Mimura|Sayaka Hasegawa|Masayuki Tani|Nobumasa Kato|Ryu-ichiro Hashimoto Medical Institute of Developmental Disabilities Research, Showa University, Tokyo;|Department of Neuropsychiatry, School of Medicine, Keio University, Tokyo, Japan;|Department of Psychiatry, Showa University School of Medicine, Tokyo, Japan
http://dx.doi.org/10.1101/238758 2017-12-22 Neuroscience CC BY Sparse ordinal logistic regression and its application to brain decoding Emi Satake|Kei Majima|Shuntaro Aoki|Yukiyasu Kamitani Kyoto University;|ATR Computational Neuroscience Laboratories
http://dx.doi.org/10.1101/238600 2017-12-22 Ecology CC BY-NC-ND A simple spatially explicit neutral model explains range size distribution of reef fishes Adriana Alzate|Thijs Janzen|Dries Bonte|James Rosindell|Rampal Etienne University of Groningen;|Carl von Ossietzky University, Oldenburg;|Ghent University;|Imperial College London
http://dx.doi.org/10.1101/238493 2017-12-22 Neuroscience CC BY-NC-ND Cell-type specific parallel circuits in the bed nucleus of the stria terminalis and the central nucleus of the amygdala of the mouse Jiahao Ye|Pierre Veinante Institut des Neurosciences Cellulaires et Integratives CNRS; Univ de Strasbourg
http://dx.doi.org/10.1101/238634 2017-12-22 Genomics CC BY-NC-ND Phenotype loss is associated with widespread divergence of the gene regulatory landscape in evolution Juliana Gusson Roscito|Katrin Sameith|Genis Parra|Bjorn Langer|Andreas Petzold|Miguel Trefaut Rodrigues|Michael Hiller Max Planck Institute CBG/PKS; Center for Systems Biology, Dresden, Germany;|Center for Regenerative Therapies TU, Dresden, Germany;|Instituto de Biociencias, Universidade de Sao Paulo, Brazil
http://dx.doi.org/10.1101/238683 2017-12-22 Bioinformatics DeepSimulator: a deep simulator for Nanopore sequencing Yu Li|Renmin Han|Chongwei Bi|Mo Li|Sheng Wang|Xin Gao King Abdullah University of Science and Technology
http://dx.doi.org/10.1101/238691 2017-12-22 Plant Biology CC BY-NC-ND Analysis of RDR1/RDR2/RDR6-independent small RNAs in Arabidopsis thaliana improves MIRNA annotations and reveals novel siRNA loci Seth Polydore|Michael Axtell Pennsylvania State University
http://dx.doi.org/10.1101/237503 2017-12-22 Epidemiology Quantifying biases in test-negative studies of vaccine effectiveness Joseph A Lewnard|Christine A Tedijanto|Benjamin J Cowling|Marc Lipsitch Ctr for Communicable Disease Dynamics, Harvard TH Chan School of Public Health;|School of Public Health, Li Ka Shing Faculty of Medicine, University of Hong Kong
http://dx.doi.org/10.1101/236752 2017-12-22 Epidemiology Effect of antimicrobial treatment for acute otitis media on carriage of Streptococcus pneumoniae with reduced susceptibility to penicillin in a randomized, double-blind, placebo-controlled trial Joseph A Lewnard|Paula A Tahtinen|Miia K Laine|Laura Lindholm|Jari Jalava|Pentti Huovinen|Marc Lipsitch|Aino Ruohola Center for Communicable Disease Dynamics, Harvard TH Chan School of Public Health, USA;|Department of Paediatrics and Adolescent Medicine, Turku University Hospital, Finland;|Expert Microbiology Unit, National Institute for Health and Welfare, Finland;|Infectious Disease Control and Vaccinations Unit, National Institute for Health and Welfare, Finland;|Department of Medical Microbiology and Immunology, University of Turku, Finland
http://dx.doi.org/10.1101/238543 2017-12-22 Epidemiology CC BY-NC-ND Catching up to a fast-moving target: Evaluation of a health system strengthening intervention in rural Rwanda 2005-2010 using data from repeated cross-sectional surveys Dana Thomson|Cheryl Amoroso|Sidney Atwood|Matthew H Bonds|Felix Cyamatare Rwabukwisi|Peter Drobac|Karen E Finnegan|Didi Bertrand Farmer|Paul E Farmer|Antoinette Habinshuti|Lisa R Hirschhorn|Anatole Manzi|Peter Niyigena|Michael L Rich|Sara Stulac|Megan Murray|Agnes Binagwaho Department of Global Health and Social Medicine, Harvard Medical School;|Partners In Health / Inshuti Mu Buzima, Rwinkwavu Rwanda;|Division of Global Health Equity, Brigham and Women's Hospital, Boston MA USA;|Woods Institute, Stanford University, Stanford CA USA;|University of Global Health Equity, Kigali Rwanda;|Department of International Health, Johns Hopkins University, Baltimore MD USA;|Feinberg School of Medicine, Northwestern University, Chicago IL USA
http://dx.doi.org/10.1101/204651 2017-12-22 Epidemiology CC BY-NC-ND Small-scale field testing of Alpha-cypermethrin water-dispersible granules in comparison with the recommended wettable powder formulation for indoor residual spraying against malaria vectors in Benin Nicolas Moiroux|Armel Djenontin|Barnabas Zogo|Aziz Boureima|Ibrahim Sidick|Olivier Pigeon|Cedric Pennetier Institut de Recherche pour le Developpement (IRD);|Universite d'Abomey-Calavi;|Centre de Recherche en Entomologie de Cotonou;|Walloon Agricultural Research Centre;|Institut de Recherche pour le Developpement
http://dx.doi.org/10.1101/211052 2017-12-22 Epidemiology CC BY Trends, geographic variation, and factors associated with prescribing of gluten-free foods in English primary care: a cross sectional study Alex Walker|Helen J Curtis|Seb Bacon|Richard Croker|Ben Goldacre University of Oxford
http://dx.doi.org/10.1101/238527 2017-12-22 Epidemiology CC BY-NC Breast cancer incidence as a function of the number of previous mammograms: analysis of the NHS screening programme Daniel Corcos INSERM
http://dx.doi.org/10.1101/238642 2017-12-22 Neuroscience Unfolding of a noise-invariant neural representation of attended speech Lorenz Fiedler|Malte Woestmann|Sophie K Herbst|Jonas Obleser University of Luebeck
http://dx.doi.org/10.1101/238550 2017-12-22 Genomics Transcription-dependent spreading of canonical yeast GATA factor across the body of highly expressed genes Aria Ronsmans|Maxime Wery|Camille Gautier|Marc Descrimes|Evelyne Dubois|Antonin Morillon|Isabelle Georis ULB - Laboratoire de Microbiologie;|Institut Curie;|Labiris
http://dx.doi.org/10.1101/238568 2017-12-22 Genetics Modulatory upregulation of an insulin peptide gene by different pathogens in C. elegans Song-Hua Lee|Shizue Omi|Nishant Thakur|Clara Taffoni|Jerome Belougne|Ilka Engelmann|Jonathan J Ewbank|Nathalie Pujol CIML Aix Marseille Universite INSERM CNRS
http://dx.doi.org/10.1101/238469 2017-12-22 Microbiology Wall teichoic acid is a pathogen-associated molecular pattern of Staphylococcus aureus that is recognized by langerin (CD207) on skin Langerhans cells Rob van Dalen|Matevz Rumpret|Felix F Fuchsberger|Nienke H van Teijlingen|Jonas Hanske|Christoph Rademacher|Teunis B.H. Geijtenbeek|Jos A. G. Van Strijp|Christopher Weidenmaier|Andreas Peschel|Nina M van Sorge University Medical Centre Utrecht; Utrecht University;|Univ Medical Centre Utrecht; Utrecht Univ; Max Planck Inst of Colloids & Interfaces;|Academic Medical Centre, University of Amsterdam;|Max Planck Institute of Colloids and Interfaces;|Academic Medical Center, University of Amsterdam;|University of Tuebingen;|University Medical Center Utrecht, Utrecht University
http://dx.doi.org/10.1101/238717 2017-12-22 Cell Biology CC BY Hepatic NF-kB-inducing Kinase (NIK) Suppresses Liver Regeneration in Chronic Liver Disease Yi Xiong|Adriana Souza Torsoni|Feihua Wu|Hong Shen|Yan Liu|Mark J Canet|Yatrik M Shah|Bishr M Omary|Yong Liu|Liangyou Rui University of Michigan Medical School, United States;|University of Michigan, United States;|Wuhan University, United States;|The University of Michigan Medical School, United States
http://dx.doi.org/10.1101/237602 2017-12-22 Developmental Biology CC BY PolNet Analysis: a software tool for the quantification of network-level endothelial cell polarity and blood flow during vascular remodelling Miguel O. Bernabeu|Martin L. Jones|Rupert W. Nash|Anna Pezzarossa|Peter V. Coveney|Holger Gerhardt|Claudio A. Franco The University of Edinburgh;|The Francis Crick Institute;|Universidade de Lisboa;|University College London;|Max-Delbrueck Center for Molecular Medicine
http://dx.doi.org/10.1101/238428 2017-12-22 Bioinformatics CC BY-NC Transcriptional evaluation of the developmental accuracy, reproducibility and robustness of kidney organoids derived from human pluripotent stem cells Belinda Phipson|Pei Xuan Er|Lorna Hale|David Yen|Kynan Lawlor|Minoru Takasato|Jane Sun|Ernst Wolvetang|Alicia Oshlack|Melissa Little Murdoch Childrens Research Institute;|RIKEN Center for Developmental Biology;|University of Queensland
http://dx.doi.org/10.1101/238477 2017-12-22 Ecology CC BY-NC-ND Variations in δ13C of different plant organs: implications for post-photosynthetic fractionation Yonge Zhang|Xinxiao Yu|Lihua Chen|Guodong Jia Beijing Forestry University
http://dx.doi.org/10.1101/238360 2017-12-22 Genomics CC BY-NC-ND The genomic false shuffle: epigenetic maintenance of topological domains in the rearranged gibbon genome Nathan H. Lazar|Kimberly A. Nevonen|Brendan O'Connell|Richard Edward Green|Thomas J. Meyer|Mariam Okhovat|Lucia Carbone Oregon Health & Science University;|University of California Santa Cruz
http://dx.doi.org/10.1101/237784 2017-12-22 Genomics CC BY Comparative analysis of neutrophil and monocyte epigenomes Daniel Rico|Joost HA Martens|Kate Downes|Enrique Carrillo-de-Santa-Pau|Vera Pancaldi|Alessandra Breschi|David Richardson|Simon Heath|Sadia Saeed|Mattia Frontini|Lu Chen|Stephen Watt|Fabian Muller|Laura Clarke|Hindrik HD Kerstens|Steven P Wilder|Emilio Palumbo|Sarah Djebali|Emanuele Rainieri|Angelika Merkel|Anna Esteve-Codina|Marc Sultan|Alena van Bommel|Marta Gut|Marie-Laure Yaspo|Miriam Rubio|Jose Maria Fernandez|Anthony Attwood|Victor de la Torre|Romina Royo|Stamatina Fragkogianni|Josep Lluis Gelpi|David Torrents|Valentina Iotchkova|Colin Logie|Ali Aghajanirefah|Abhishek A Singh|Eva M Janssen-Megens|Kim Berentsen|Wendy Erber|Augusto Rendon|Myrto Kostadima|Remco Loos|Martijn A van der Ent|Anita Kaan|Nilofar Sharifi|Dirk S Paul|Daniela C Ifrim|Jessica Quintin|Michael I Love|David G Pisano|Frances Burden|Nicola Foad|Samantha Farrow|Daniel R Zerbino|Ian Dunham|Taco Kuijpers|Hans Lehrach|Thomas Lengauer|Paul Bertone|Mihai G Netea|Martin Vnigron|Stephan Beck|Paul Flicek|Ivo Gut|Willem H Ouwehand|Christoph Bock|Nicole Soranzo|Roderic Guigo|Alfonso Valencia|Hendrik Stunnenberg Newcastle University;|NCMLS;|Cambridge;|CNIO;|BSC;|CRG;|EBI;|CNAG;|WTSI;|MPI-I;|MPI-MG;|NCLMS;|UWA;|UCL;|Radboudumc;|Dana-Farber;|AMC;|CeMM
http://dx.doi.org/10.1101/238188 2017-12-22 Systems Biology CC BY-NC-ND Algorithms for Search for Common Ancestors Rita Gitik University of Michigan, Ann Arbor
http://dx.doi.org/10.1101/238246 2017-12-22 Neuroscience CC BY-NC-ND Does force-field adaptation induce after-effects on space representation? Carine Michel|Lucie Bonnetain|Olivier White INSERM UMR1093-CAPS, Univ Bourgogne Franche-Comte, UFR des Sci du Sport;|Universite de Bourgogne-Franche Comte
http://dx.doi.org/10.1101/237891 2017-12-22 Ecology CC BY-ND Going through the motions: incorporating movement analyses into disease research Eric R Dougherty|Dana P Seidel|Colin J Carlson|Orr Speigel|Wayne M Getz University of California - Berkeley;|Ben-Gurion University of the Negev, Israel
http://dx.doi.org/10.1101/229948 2017-12-22 Neuroscience Correct laminar positioning in the neocortex influences proper dendritic and synaptic development Fanny Sandrine Martineau|Surajit Sahu|Vanessa Plantier|Emmanuelle Buhler|Fabienne Schaller|Lauriane Fournier|Genevieve Chazal|Hiroshi Kawasaki|Alfonso Represa|Francoise Watrin|Jean-Bernard Manent INMED, Aix-Marseille University, INSERM U901 Marseille 13009, France;|Dept of Medical Neuroscience, Grad School of Medical Sciences, Kanazawa Univ
http://dx.doi.org/10.1101/237685 2017-12-22 Bioinformatics Identification and analysis of mobile genetic elements in Gibbon genome Kamal Rawal|Jaisri Jagannadham|Chahat Kubba|Tanya Sharma Jaypee Institute of Information Technology, Noida
http://dx.doi.org/10.1101/238220 2017-12-22 Bioinformatics CC BY-NC Visualizing genome synteny with xmatchview Rene L Warren BC Cancer Agency
http://dx.doi.org/10.1101/238626 2017-12-22 Zoology Physical properties characterization of Natural Protein Fibre Peacock Feather Barbs Sekhar Das|Seiko Jose|Pintu Pandit Central Sheep and Wool Research Institute, Avikanagar;|Institute of Chemical Technology
http://dx.doi.org/10.1101/238394 2017-12-22 Cell Biology Tension-dependent regulation of mammalian Hippo signaling through LIMD1 Consuelo Ibar|Elmira Kirichenko|Ben Keepers|Ed Enners|Katelyn Fleisch|Kenneth Irvine Rutgers;|Rutgers / HHMI;|Rutgers State University of New York
http://dx.doi.org/10.1101/238071 2017-12-22 Evolutionary Biology CC BY-NC-ND Inferring Phylogenetic Networks Using PhyloNet Dingqiao Wen|Yun Yun|Jiafan Zhu|Luay Nakhleh Rice University
http://dx.doi.org/10.1101/237974 2017-12-22 Evolutionary Biology Reconstructing the evolution of metabolism in budding yeasts Kevin Correia|Shi M. Yu|Radhakrishnan Mahadevan University of Toronto
http://dx.doi.org/10.1101/238089 2017-12-22 Neuroscience CC BY-NC-ND Impaired expected value computations coupled with overreliance on prediction error learning in schizophrenia Dennis Hernaus|James M Gold|James A Waltz|Michael J Frank University of Maryland, Maryland Psychiatric Research Center;|Brown University, Department of Cognitive, Linguistic & Psychological Sciences
http://dx.doi.org/10.1101/238121 2017-12-22 Genomics Tandem Duplicate Genes in Maize are Abundant and Date to Two Distinct Periods of Time Thomas John Y Kono|Alex B. Brohammer|Suzanne E. McGaugh|Candice Hirsch University of Minnesota
http://dx.doi.org/10.1101/238113 2017-12-22 Neuroscience CC BY-NC-ND Individual connectomes are unique and stable in the developing brain from adolescence to young adulthood. Corey Horien|Xilin Shen|Dustin Scheinost|R. Todd Constable Yale University;|Yale Univeristy
http://dx.doi.org/10.1101/238048 2017-12-22 Genetics CC BY Tri-methylation of Histone H3 Lysine 4 Facilitates Gene Expression in Ageing Cells Cristina Cruz|Monica Della Rosa|Christel Krueger|Qian Gao|Lucy Field|Jonathan Houseley The Babraham Institute
http://dx.doi.org/10.1101/237958 2017-12-22 Genomics CC BY-NC-ND Genome-Epigenome Interactions Associated with Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Santiago Herrera|Wilfred de Vega|David Ashbrook|Suzanne Vernon|Patrick McGowan Lehigh University;|University of Toronto;|The Bateman Horne Center of Excellence
http://dx.doi.org/10.1101/238212 2017-12-22 Microbiology CC BY-NC-ND Hydrogen production by Sulfurospirillum spp. enables syntrophic interactions of Epsilonproteobacteria Stefan Kruse|Tobias Goris|Martin Westermann|Lorenz Adrian|Gabriele Diekert Friedrich Schiller University Jena, Institute of Microbiology;|Friedrich Schiller University Jena;|Helmholtz Center for Environmental Research - UFZ
http://dx.doi.org/10.1101/238238 2017-12-22 Biophysics CC BY-NC-ND A jump distance based parameter inference scheme for particulate trajectories in biological settings Rebecca Menssen|Madhav Mani Northwestern University
http://dx.doi.org/10.1101/238006 2017-12-22 Biophysics Millieu-Initiated Inversion of he Aqueous Polyproline II/Beta Propensity of the Alanine Tripeptide: Energetics Origin of the Onset of Amyloid Formation Samuel Krimm|Noemi G. Mirkin University of Michigan
http://dx.doi.org/10.1101/238154 2017-12-22 Biochemistry CC BY-NC-ND Active site alanine substitutions can convert deubiquitinating enzymes into avid ubiquitin-binding domains Marie Morrow|Michael Morgan|Marcello Clerici|Katerina Growkova|Ming Yan|David Komander|Michal Simicek|Titia Sixma|Cynthia Wolberger Johns Hopkins University School of Medicine;|Netherlands Cancer Institute;|University of Ostrava;|MRC Laboratory of Molecular Biology
http://dx.doi.org/10.1101/238196 2017-12-22 Genetics CC BY-NC-ND Shu complex SWS1-SWSAP1 is required for mouse meiotic recombination in concert with the BRCA2 C terminus Carla M. Abreu|Rohit Prakash|Peter J. Romanienko|Ignasi Roig|Scott Keeney|Maria Jasin Memorial Sloan Kettering Cancer Center;|Rutgers-Cancer Institute of New Jersey;|Universitat Autonoma de Barcelona;|Howard Hughes Medical Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/238097 2017-12-22 Cancer Biology CC BY HNF1A is a Novel Oncogene and Central Regulator of Pancreatic Cancer Stem Cells Ethan Abel|Masashi Goto|Brian Magnuson|Saji Abraham|Nikita Ramanathan|Emily Hotaling|Anthony A. Alaniz|Chandan Kumar-Sinha|Michele L. Dziubinski|Sumithra Urs|Lidong Wang|Jiaqi Shi|Meghna Waghray|Mats Ljungman|Howard C Crawford|Diane M. Simeone New York University Langone Medical Center, United States;|University of Michigan, United States;|New York University Langone Health, United States;|NYU Langone Health, United States
http://dx.doi.org/10.1101/238063 2017-12-22 Cell Biology CC BY-NC-ND Comprehensive Cell Type Specific Transcriptomics of the Human Kidney V Sivakamasundari|Mohan Bolisetty|Santhosh Sivajothi|Shannon Bessonett|Diane Ruan|Paul Robson The Jackson Laboratory
http://dx.doi.org/10.1101/238170 2017-12-21 Biophysics CC BY-NC-ND Sequence determinants of protein phase behavior from a coarse-grained model Gregory L Dignon|Wenwei Zheng|Young C. Kim|Robert B. Best|Jeetain Mittal Lehigh University, Bethlehem, Pennsylvania 18015, United States;|National Institutes of Health, Bethesda, Maryland 20892, United States;|Naval Research Laboratory, Washington, DC 20375, United States
http://dx.doi.org/10.1101/238261 2017-12-21 Physiology CC BY-ND Uterine progesterone signaling is a target for metformin therapy in polycystic ovary syndrome Min Hu|Yuehui Zhang|Jiaxing Feng|Xue Xu|Jiao Zhang|Wei Zhao|Xiaozhu Guo|Juan Li|Edvin Vestin|Peng Cui|Xin Li|Xiao-ke Wu|Mats Brannstrom|Linus R Shao|Hakan Billig Inst of Neuroscience & Physiology, The Sahlgrenska Academy, Univ of Gothenburg;|First Affiliated Hospital, Heilongjiang University of Chinese Medicine;|Second Affiliated Hospital, Heilongjiang University of Chinese Medicine;|Sahlgrenska University Hospital, Sahlgrenska Academy, University of Gothenburg
http://dx.doi.org/10.1101/237941 2017-12-21 Cancer Biology Somatic Mutations Predict Acute Myeloid Leukemia Years Before Diagnosis Pinkal Desai|Nuria Mencia-Trinchant|Oleksandr Savenkov|Michael S Simon|Gloria Cheang|Sangmin Lee|Michael Samuel|Ellen K Ritchie|Monica L Guzman|Karla V Ballman|Gail J Roboz|Duane C Hassane Weill Cornell Medical College;|Wayne State University
http://dx.doi.org/10.1101/238147 2017-12-21 Evolutionary Biology Neural Changes Underlying Rapid Fly Song Evolution Yun Ding|Joshua L Lillvis|Jessica Cande|Gordon J Berman|Benjamin J Arthur|Min Xu|Barry J Dickson|David L Stern Janelia Research Campus, the Howard Hughes Medical Institute;|Department of Biology, Emory University
http://dx.doi.org/10.1101/238162 2017-12-21 Neuroscience RANbodies: reporter-nanobody fusions as versatile, small, sensitive immunohistochemical reagents Joshua Sanes|Masahito Yamagata Harvard
http://dx.doi.org/10.1101/236638 2017-12-23 CC BY-NC-ND Deficient autophagy drives aging in Hydra Szymon TOMCZYK|Quentin SCHENKELAARS|Nenad SUKNOVIC|Yvan WENGER|Kazadi EKUNDAYO|Wanda BUZGARIU|Christoph BAUER|Kathleen E FISCHER|Steven AUSTAD|Brigitte GALLIOT Department of Genetics and Evolution, University of Geneva;|Bioimaging Platform, Faculty of Science, University of Geneva;|Department of Biology, University of Alabama at Birmingham
http://dx.doi.org/10.1101/239038 2017-12-23 Neuroscience Δ9-tetrahydrocannabinol Attenuates Oxycodone Self-Administration Under Extended Access Conditions Jacques D Nguyen|Yanabel Grant|Kevin M Creehan|Candy S Hwang|Sophia Vandewater|Kim D Janda|Maury Cole|Michael A Taffe The Scripps Research Institute;|La Jolla Alcohol Research, Inc
http://dx.doi.org/10.1101/239012 2017-12-23 Cancer Biology CC BY Predicting resistance of clinical Abl mutations to targeted kinase inhibitors using alchemical free-energy calculations Kevin Hauser|Christopher Negron|Steven K. Albanese|Soumya Ray|Thomas Steinbrecher|Robert Abel|John D. Chodera|Lingle Wang Schrodinger;|Gerstner Sloan Kettering Graduate School, Memorial Sloan Kettering Cancer Center;|Sloan Kettering Institute, Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/238857 2017-12-23 Bioinformatics An accurate and rapid continuous wavelet dynamic time warping algorithm for unbalanced global mapping in nanopore sequencing Renmin Han|Yu Li|Sheng Wang|Xin Gao King Abdullah University of Science and Technology;|KAUST
http://dx.doi.org/10.1101/239061 2017-12-23 Neuroscience CC BY-NC-ND Entrainment of theta, not alpha, oscillations is predictive of the brightness enhancement of a flickering stimulus Jennifer K Bertrand|Nathan J Wispinski|Kyle E Mathewson|Craig S Chapman University of Alberta
http://dx.doi.org/10.1101/211177 2017-12-23 Neuroscience Left-Lateralized Contributions of Saccades to Cortical Activity during a One-Back Word Recognition Task Yu-Cherng C Chang|Sheraz Khan|Samu Taulu|Gina R Kuperberg|Emery N Brown|Matti S Hamalainen|Simona Temereanca Athinoula A. Martinos Ctr for Biomedical Imaging, Massachusetts General Hospital;|Institute for Learning and Brain Sciences, University of Washington;|Dept of Anesthesia, Critical Care & Pain Medicine, Massachusetts General Hospital;|Department of Neuroscience, Brown University
http://dx.doi.org/10.1101/238840 2017-12-23 Plant Biology CC BY-NC-ND Comparative analysis of genetic diversity and differentiation of cauliflower (Brassica oleracea var. botrytis) accessions from two ex situ genebanks Eltohamy Yousef|Thomas Mueller|Andreas Boerner|Karl J Schmid University of Hohenheim;|Leibniz Institute of Crop Plant Research and Plant Genetics
http://dx.doi.org/10.1101/239004 2017-12-23 Systems Biology CC BY-ND Tellurium Notebooks - An Environment for Dynamical Model Development, Reproducibility, and Reuse Herbert M Sauro|Kyle Medley|Kiri Choi|Matthias Konig|Lucian Smith|Joseph Hellerstein|Stuart Sealfon|Stanley Gu University of Washington;|Humboldt University of Berlin;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/239053 2017-12-23 Bioinformatics CC BY-NC-ND Alignment-Free Approaches Predict Novel Nuclear Mitochondrial Segments (NUMTs) in the Human Genome Wentian Li|Jerome Freudenberg Feinstein Institute for Medical Research
http://dx.doi.org/10.1101/239020 2017-12-23 Bioinformatics CC BY-NC-ND Learning and Mapping Lyme Disease Patient Trajectories from Electronic Medical Data for Stratification of Disease Risk and Therapeutic Response Osamu Ichikawa|Benjamin S Glicksberg|Brian A Kidd|Li Li|Joel T Dudley Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/237313 2017-12-23 Genomics CC BY-NC-ND Discovery and characterization of coding and non-coding driver mutations in more than 2,500 whole cancer genomes Esther Rheinbay|Morten Muhlig Nielsen|Federico Abascal|Grace Tiao|Henrik Hornshj|Julian M Hess|Randi Istrup Istrup Pedersen|Lars Feuerbach|Radhakrishnan Sabarinathan|Henrik Tobias Madsen|JAEGIL KIM|Loris Mularoni|Shimin Shuai|Andres Arturo Lanzos Camaioni|Carl Herrmann|Yosef E Maruvka|Ciyue Shen|Samir B Amin|Johanna Bertl|Priyanka Dhingra|Klev Diamanti|Abel Gonzalez-Perez|Qianyun Guo|Nicholas J Haradhvala|Keren Isaev|Malene Juul|Jan Komorowski|sushant kumar|Donghoon Lee|Lucas Lochovsky|Eric Minwei Minwei Liu|Oriol Pich|david tamborero|Husen M. Umer|Liis Uuskula-Reimand|Claes Wadelius|Lina Wadi|Jing Zhang|Keith A Boroevich|Joana Carlevaro-Fita|Dimple Chakravarty|Calvin Wing Yiu YW Chan|Nuno A Fonseca|Mark P Hamilton|Chen Hong|Andre Kahles|Youngwook Kim|Kjong-Van Lehmann|Todd Andrew A Johnson|Abdullah Kahraman|Keunchil Park|Gordon Saksena|Lina Sieverling|Nicholas A Sinnott-Armstrong|Peter J Campbell|Asger Hobolth|Manolis Kellis|Michael S Lawrence|Ben Raphael|Mark A Rubin|Chris Sander|Lincoln Stein|Josh Stuart|Tatsuhiko Tsunoda|David A Wheeler|Rory Johnson|Juri Reimand|Mark B Gerstein|Ekta Khurana|Nuria Lopez-Bigas|Inigo Martincorena|Jakob Skou Skou Pedersen|Gad Getz Broad Institute;|Department of Molecular Medicine (MOMA), Aarhus University Hospital, Aarhus, Denmark;|Wellcome Trust Sanger Institute, Hinxton CB10 1SA, Cambridgeshire, UK;|Division of Applied Bioinformatics, German Cancer Research Center, Im Neuenheimer Feld 280, Heidelbe;|Institute for Research in Biomedicine (IRB Barcelona);|Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada;|Centre for Genomic Regulation (CRG), Barcelona 08003, Spain;|Division of Theoretical Bioinformatics, German Cancer Research Center (DKFZ), 69120 Heidelberg, Germ;|Department of Cell Biology, Harvard Medical School, Boston, MA, USA;|Department of Genomic Medicine, the University of Texas MD Anderson Cancer Center, Houston, Texas, U;|Department of Physiology and Biophysics, Weill Cornell Medicine, 1300 York Avenue, New York, NY, 100;|Computational Biology and Bioinformatics, Department of Cell and Molecular Biology, Uppsala Universi;|Institute for Research in Biomedicine (IRB Barcelona), The Barcelona Institute of Science and Techno;|Bioinformatics Research Centre (BiRC), Aarhus University, Aarhus, Denmark;|Computational Biology Program, Ontario Institute for Cancer Research, Toronto, Ontario, Canada;|Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut 06520,;|Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520,;|Genetics and Genome Biology Program, SickKids Research Institute, Toronto, ON, Canada;|Science for Life Laboratory, Department of Immunology, Genetics and Pathology, Uppsala University, U;|Laboratory for Medical Science Mathematics, RIKEN Center for Integrative Medical Sciences, Yokohama,;|Department of Genitourinary Medical Oncology - Research, Division of Cancer Medicine, The University;|European Bioinformatics Institute. European Molecular Biology Laboratory. Wellcome Trust Genome Camp;|Department of Molecular and Cellular Biology, Baylor College of Medicine, 1 Baylor Plaza Houston M82;|Division of Computational Biology, Memorial Sloan Kettering Cancer Center, New York, NY 10065, USA;|Samsung Medical Center, Sungkyunkwan University School of Medicine South Korea;|Institute of Molecular Life Sciences and Swiss Institute of Bioinformatics, University of Zurich, CH;|Department of Genetics, Stanford University School of Medicine, Stanford, California, USA;|Bioinformatics Research Centre (BiRC), Aarhus University, Aarhus, Denmark.;|Massachusetts General Hospital, Center for Cancer Research, Charlestown, Massachusetts 02129, USA;|Department of Computer Science, Princeton University, Princeton, New Jersey 08540, USA;|Weill Cornell Medicine and New York Presbyterian, Department of Pathology and Laboratory Medicine, N;|Center for Biomolecular Science and Engineering, University of California at Santa Cruz, Santa Cruz,;|Department of Medical Science Mathematics, Medical Research Institute, Tokyo Medical and Dental Univ;|Human Genome Sequencing Center, Baylor College of Medicine, Houston, TX, USA;|Department of Medical Oncology, Inselspital, University Hospital and University of Bern, 3010 Bern,;|Program in Computational Biology and Bioinformatics, Yale University, New Haven, Connecticut, USA;|Massachusetts General Hospital, Department of Pathology, Boston, Massachusetts, USA;|-
http://dx.doi.org/10.1101/238956 2017-12-23 Zoology CC BY-NC-ND Hematology, biochemistry, and toxicology of wild hawksbill turtles (Eretmochelys imbricata) nesting in mangrove estuaries in the eastern Pacific Ocean Aubrey M Tauer|Michael J Liles|Sofia Chavarria|Melissa Valle|Sada Amaya|Gabriela Quijada|Oscar Melendez|Stanley Rodriguez|Eric F Lock|Ana V Henriquez|Alexander R Gaos|Jeffrey A Seminoff Cūra Earth;|Eastern Pacific Hawksbill Initiative;|Departmento de Medicina Veterinaria, Universidad de El Salvador;|Centro de Investigacion y Desarrollo en Salud, Universidad de El Salvador;|Division of Biostatistics, School of Public Health, University of Minnesota;|Biology Department, San Diego State University, San Diego;|National Oceanic and Atmospheric Administration, National Marine Fisheries Service, Southwest Fishe
http://dx.doi.org/10.1101/238881 2017-12-22 Neuroscience CC BY-NC-ND Emergence of reward expectation signals in identified dopamine neurons Luke T Coddington|Joshua T Dudman Howard Hughes Medical Institute
http://dx.doi.org/10.1101/239178 2017-12-24 Evolutionary Biology CC BY-NC-ND MatSim: Monte Carlo simulation for the generation of mating tables Antonio Carvajal-Rodriguez Universidad de Vigo
http://dx.doi.org/10.1101/239442 2017-12-24 Bioinformatics CC BY-NC-ND Modeling Spatio-temporal Dynamics of Chromatin Marks Petko Fiziev|Jason Ernst University of California, Los Angeles
http://dx.doi.org/10.1101/238832 2017-12-24 Bioinformatics CC BY-NC-ND FarmCPUpp: Efficient Large-Scale GWAS Patrick S Schnable|Aaron Kusmec Iowa State University
http://dx.doi.org/10.1101/239236 2017-12-24 Bioinformatics CC BY-NC-ND DeepMHC: Deep Convolutional Neural Networks for High-performance peptide-MHC Binding Affinity Prediction Jianjun Hu|Zhonghao Liu University of South Carolina
http://dx.doi.org/10.1101/239228 2017-12-24 Neuroscience CC BY-NC-ND 3D Axonal Morphometry of White Matter Ali Abdollahzadeh|Ilya Belevich|Eija Jokitalo|Jussi Tohka|Alejandra Sierra Biomedical Imaging Unit, A.I. Virtanen Inst for Molec Sci, Univ of Eastern Finland;|Electron Microscopy Unit, Institute of Biotechnology, University of Helsinki, Finland
http://dx.doi.org/10.1101/239368 2017-12-24 Bioinformatics Chromatin interaction data visualization in the WashU Epigenome Browser Daofeng Li|Silas Hsu|Deepak Purushotham|Ting Wang Washington University in St. Louis
http://dx.doi.org/10.1101/239285 2017-12-24 Evolutionary Biology CC BY-NC-ND Caring for parents: an evolutionary rationale Jozsef Garay|Szabolcs Szamado|Zoltan Varga|Eors Szathmary MTA-ELTE Theoretical Biology & Evolutionary Ecology Research Group, Eotvos Univ;|MTA Centre for Social Sciences;|Department of Mathematics, Szent Istvan University
http://dx.doi.org/10.1101/239277 2017-12-24 Ecology CC BY-NC-ND Competitive release from native range does not predict invasive success of a globally dominant exotic ant species Senay Yitbarek|Ivette Perfecto|John Vandermeer University of California Berkeley;|University of Michigan
http://dx.doi.org/10.1101/239293 2017-12-24 Biochemistry Brain, immune system and selenium: a starting point for a new diagnostic marker for Alzheimer's disease? Cesare Achilli|Annarita Ciana|Giampaolo Minetti University of Pavia
http://dx.doi.org/10.1101/238741 2017-12-24 Developmental Biology CC BY-NC Contact-dependent cell communications drive morphological invariance during ascidian embryogenesis Leo Guignard|Ulla-Maj Fiuza|Bruno Leggio|Emmanuel Faure|Julien Laussu|Lars Hufnagel|Gregoire Malandain|Christophe Godin|Patrick Lemaire CRBM, Universite de Montpellier; Inria Virtual Plants, CIRAD, INRA, Universite de Montpellier, F;|CRBM, Universite de Montpellier, France; EMBL, Heidelberg, Germany;|Inria Virtual Plants, CIRAD, INRA, Universite de Montpellier, France;|CRBM, Universite de Montpellier, France;|European Molecular Biology Laboratory, Cell Biology and Biophysics Unit, 69117, Heidelberg, DE;|Universite Cote d'Azur, Inria, CNRS, I3S, France
http://dx.doi.org/10.1101/239319 2017-12-24 Genomics CC BY-NC-ND SAKE (Single-cell RNA-Seq Analysis and Klustering Evaluation) Identifies Markers of Resistance to Targeted BRAF Inhibitors in Melanoma Cell Populations Yu-Jui Ho|Naishitha Anaparthy|David Molik|Toby Aicher|Ami Patel|James Hicks|Molly Gale Hammell CSHL;|Stony Brook University;|University of Notre Dame;|Middlebury College;|Mount Sinai Health System;|USC
http://dx.doi.org/10.1101/239269 2017-12-24 Genetics CC BY-NC-ND Shared Genetic Contributions to Atrial Fibrillation and Ischemic Stroke Risk Sara L Pulit|Lu-Chen Weng|Patrick F McArdle|Ludovic Trinquart|Seung Huan Choi|Braxton D Mitchell|Jonathan Rosand|Paul IW de Bakker|Emilia J Benjamin|Patrick T Ellinor|Steven J Kittner|Steven A Lubitz|Christopher D Anderson Department of Genetics, University Medical Center Utrecht, Utrecht University, NL;|Cardiovascular Research Center, Massachusetts General Hospital, Boston, MA, USA;|Dept of Medicine, Program for Personalized & Genomic Medicine, Univ of Maryland;|Department of Biostatistics, Boston University School of Public Health, Boston, MA;|Center for Genomic Medicine, Massachusetts General Hospital, Boston, MA, USA;|Cardiology Preventive Med Sections, Boston Univ School of Med, Boston, MA, USA;|Department of Neurology, University of Maryland School of Medicine, Baltimore, MD;|-
http://dx.doi.org/10.1101/237925 2017-12-24 Evolutionary Biology CC BY Coadapted genomes and selection on hybrids: Fisher's geometric model explains a variety of empirical patterns Alexis Simon|Nicolas Bierne|John J. Welch Institut des Sciences de l'Evolution UMR5554, Universite de Montpellier, CNRS-IRD-EPHE-UM, France;|Department of Genetics, University of Cambridge, Downing St. Cambridge, CB23EH, UK
http://dx.doi.org/10.1101/239418 2017-12-24 Evolutionary Biology CC BY A complex performance landscape for suction-feeding reveals constraints and adaptations in a population of reef damselfish Tal Keren|Moshe Kiflawi|Christopher Martin|Victor China|Ofri Mann|Roi Holzman The Inter-University Institute for Marine Sciences, Eilat, Israel;|University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/239194 2017-12-24 Neuroscience Rotary jet-spun porous microfibers as scaffolds for stem cells delivery to central nervous system injury Laura N Zamproni|Marco AVM Grinet|Mayara TVV Mundim|Marcella BC Reis|Layla T Galindo|Fernanda R Marciano|Anderson O Lobo|Marimelia Porcionatto Federal University of Sao Paulo;|Instituto Tecnologico da Aeronautica;|Laboratory of Biomedical Nanotechnology, Universidade Brasil
http://dx.doi.org/10.1101/239350 2017-12-24 Bioengineering Upper Limit for Angular Compounding Speckle Reduction Yonatan Winetraub|Chris Wu|Steven Chu|Adam de la Zerda Stanford
http://dx.doi.org/10.1101/239251 2017-12-24 Genomics High-throughput optical mapping of replicating DNA Francesco De Carli|Nikita Menezes|Wahiba Berrabah|Valerie Barbe|Auguste Genovesio|Olivier Hyrien IBENS, Dept de Biologie, Ecole Normale Sup, CNRS, Inserm, PSL Research Univ;|Comm. a l'Energie Atomique et aux Energies Alt, Genoscope, Inst de biologie
http://dx.doi.org/10.1101/239400 2017-12-24 Plant Biology An unconventional NOI/RIN4 domain of a rice NLR protein binds host EXO70 protein to confer fungal immunity Koki Fujisaki|Yoshiko Abe|Eiko Kanzaki|Kazue Ito|Hiroe Utsushi|Hiromasa Saitoh|Aleksandra Biaas|Mark Banfield|Sophien Kamoun|Ryohei Terauchi Iwate Biotechnology Research Center;|The Sainsbury Laboratory;|John Innes Centre
http://dx.doi.org/10.1101/239459 2017-12-24 Bioengineering CC BY MAPLE: a Modular Automated Platform for Large-scale Experiments, a low-cost robot for integrated animal-handling and phenotyping Tom Alisch|James D Crall|Dave Zucker|Benjamin L de Bivort Harvard University;|FlySorter, LLC
http://dx.doi.org/10.1101/239160 2017-12-24 Neuroscience CC BY-NC Association of Peripheral Blood Pressure with Grey Matter Volume in 19- to 40-Year-Old Adults H. Lina Schaare|Shahrzad Kharabian Masouleh|Frauke Beyer|Deniz Kumral|Marie Uhlig|Janis D Reinelt|Andrea MF Reiter|Leonie Lampe|Anahit Babayan|Miray Erbey|Josefin Roebbig|Matthias L Schroeter|Hadas Okon-Singer|Karsten Mueller|Natacha Mendes|Daniel S Margulies|A. Veronica Witte|Michael Gaebler|Arno Villringer Max Planck Institute for Human Cognitive and Brain Sciences;|University of Haifa
http://dx.doi.org/10.1101/239426 2017-12-24 Biochemistry "CapZyme-Seq" comprehensively defines promoter-sequence determinants for RNA 5' capping with NAD+ Irina O Vvedenskaya|Jeremy G Bird|Yuanchao Zhang|Yu Zhang|Xinfu Jiao|Ivan Barvik|Libor Krasny|Megerditch Kiledjian|Deanne M Taylor|Richard H Ebright|Bryce E Nickels Rutgers University;|Chinese Academy of Sciences, , Shanghai;|Charles University in Prague;|Children's Hospital, Philadelphia, PA
http://dx.doi.org/10.1101/239129 2017-12-24 Immunology CC BY-NC-ND A primate specific loss of function polymorphism in TLR2 gene decreases inflammation and protects humans from organ dysfunction in Malaria Aditya Panda|Bidyut Das|Rina Tripathy|Ashok Satyapathy|Shobona Sharma|Balachandran Ravindran institute of Life Sciences, Bhubaneswar;|SCB Medical College, Cuttack;|Regional Medical Research Centre, Bhubaneswar;|Tata Institute of Fundamental Research, Mumbai;|institute of Life Sciences
http://dx.doi.org/10.1101/238584 2017-12-24 Neuroscience CC BY-NC-ND MEG sensor patterns reflect perceptual but not categorical similarity of animate and inanimate objects Daria Proklova|Daniel Kaiser|Marius Peelen The University of Western Ontario;|Freie Universitat Berlin;|Radboud University
http://dx.doi.org/10.1101/239335 2017-12-23 Biophysics CC BY A systematic approach for dissecting the molecular mechanisms of transcriptional regulation in bacteria Nathan M Belliveau|Stephanie L Barnes|William T Ireland|Danie L Jones|Michael Sweredoski|Annie Moradian|Sonja Hess|Justin B Kinney|Rob Phillips California Institute of Technology;|Uppsala University;|AstraZeneca;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/218487 2017-12-23 Developmental Biology Cell-nonautonomous local and systemic responses to cell arrest enable long-bone catch-up growth Alberto Rosello-Diez|Linda Madisen|Sebastien Bastide|Hongkui Zeng|Alexandra L Joyner Sloan Kettering Institute;|Allen Institute for Brain Science;|Institut Pasteur
http://dx.doi.org/10.1101/239202 2017-12-23 Microbiology A divergent CheW stabilizes nucleoid-associated chemosensory arrays Annick Guiseppi|Juan-Jesus Vicente|Aurelie Barneoud|Audrey Moine|Leon Espinosa|Marie-Jeanne Basse|Virginie Molle|Tam Mignot|Philippe Roche|Emilia Mauriello Laboratoire de Chimie Bacterienne, CNRS-Universite Aix-Marseille;|Physiology & Biophysics, University of Washington;|CNRS, INSERM, Aix Marseille Univ, Institute Paoli-Calmettes, CRCM;|Montpellier II et I Univ, CNRS, Lab de Dynamique des Interactions Membr Normal
http://dx.doi.org/10.1101/239509 2017-12-25 Genetics CC BY-NC A study of Kibbutzim in Israel reveals risk factors for cardiometabolic traits and subtle population structure Einat Granot-Hershkovitz|David Karasik|Yechiel Friedlander|Laura Rodriguez-Murillo|Rajkumar Dorajoo|Jianjun Liu|Anshuman Sewda|Inga Peter|Shai Carmi|Hagit Hochner The Hebrew University of Jerusalem;|Bar-Ilan University;|Icahn School of Medicine at Mount Sinai;|Genome Institute of Singapore;|Genome Institute of Singapore, National University of Singapore
http://dx.doi.org/10.1101/239475 2017-12-25 Animal Behavior and Cognition CC BY-NC-ND Caste-biased movements by termites in isolation Hiroyuki Shimoji|Nobuaki Mizumoto|Kohei Oguchi|Shigeto Dobata Kwansei Gakuin University;|Kyoto University;|University of Tokyo
http://dx.doi.org/10.1101/239558 2017-12-25 Animal Behavior and Cognition CC BY Active learning reveals underlying decision strategies Paula Parpart|Eric Schulz|Maarten Speekenbrink|Bradley C Love University College London;|Harvard University
http://dx.doi.org/10.1101/239624 2017-12-25 Neuroscience Glyoxalase (GLO1) inhibition or genetic overexpression does not alter ethanol locomotor effects: implications for GLO1 as a therapeutic target in alcohol use disorders Amanda M Barkley-Levenson|Frances A Lagarda|Abraham A Palmer University of California San Diego
http://dx.doi.org/10.1101/239582 2017-12-25 Bioinformatics CC BY AMBER: Assessment of Metagenome BinnERs Fernando Meyer|Peter Hofmann|Peter Belmann|Ruben Garrido-Oter|Adrian Fritz|Alexander Sczyrba|Alice Carolyn McHardy Helmholtz Centre for Infection Research;|Faculty of Technology, Bielefeld University, Bielefeld, Germany;|Max Planck Institute for Plant Breeding Research, Cologne, Germany
http://dx.doi.org/10.1101/239517 2017-12-25 Systems Biology CC BY-NC The null additivity of multi-drug combinations Dor Russ|Roy Kishony Technion, Israel Institute of Technology
http://dx.doi.org/10.1101/239566 2017-12-25 Genomics CC BY-NC An optimized strategy for cloning-based locus-specific bisulfite sequencing PCR Mario Van Poucke|Xanthippe Boulougouris|Bart De Spiegeleer|Christian Burvenich|Luc Duchateau|Luc Peelman Ghent University
http://dx.doi.org/10.1101/239541 2017-12-25 Plant Biology An ancient integration in a plant NLR is maintained as a trans-species polymorphism Helen J Brabham|Inmaculada Hernandez-Pinzon|Samuel Holden|Jennifer Lorang|Matthew J Moscou The Sainsbury Laboratory;|Oregon State University
http://dx.doi.org/10.1101/238824 2017-12-25 Genetics CC BY Consortium genome-wide meta-analysis for childhood dental caries traits Simon Haworth|Dmitry Shungin|Justin T van der Tas|Strahinja Vucic|Carolina Medina Gomez|Victor Yakimov|Bjarke Feenstra|John R Shaffer|Myoung Keun Lee|Marie Standl|Elisabeth Thiering|Carol Wang|Klaus Bnnelykke|Johannes Waage|Leon Eyrich Jessen|Pia Elisabeth Nrrisgaard|Raimo Joro|Ilkka Seppala|Olli Raitakari|Tom Dudding|Olja Grgic|Edwin Ongkosuwito|Anu Vierola|Aino-Maija Eloranta|Nicola X West|Steven J Thomas|Daniel W McNeil|Steven M Levy|Rebecca Slayton|Ellen A Nohr|Terho Lehtimaki|Timo Lakka|Hans Bisgaard|Craig Pennell|Jan Kuhnisch|Mary L Marazita|Mads Melbye|Frank Geller|Fernando Rivadeneira|Eppo B Wolvius|Paul W Franks|Ingegerd Johansson|Nicholas J Timpson University of Bristol, Bristol, UK;|Umeå University, Umeå, Sweden;|Erasmus Medical Center, Rotterdam, The Netherlands;|Statens Serum Institut, Copenhagen, Denmark;|University of of Pittsburgh, Pennsylvania, USA;|Helmholtz Zentrum München, Neuherberg, Germany;|The University of Western Australia, Perth, Australia;|University of Copenhagen, Copenhagen, Denmark;|University of Eastern Finland, Kuopio Campus, Finland;|University of Tampere, Tampere, Finland;|Turku University Hospital, Turku, Finland;|University of Bristol;|West Virginia University, West Virginia, USA;|University of Iowa, Iowa, USA;|University of Washington, Washington, USA;|University of Southern Denmark, Odense, Denmark;|Ludwig-Maximilians-Universität München, Munich, Germany;|University of Pittsburgh, Pennsylvania, USA;|Lund University, Malmö, Sweden
http://dx.doi.org/10.1101/239483 2017-12-25 Genomics CC BY-NC Epigenomic and genomic landscape of Drosophila melanogaster heterochromatic genes Parna Saha|Divya Tej Sowpati|Rakesh Kumar Mishra CSIR - Centre for Cellular and Molecular Biology
http://dx.doi.org/10.1101/237628 2017-12-25 Genomics Genome-wide stability of the DNA replication program in single mammalian cells Saori Takahashi|Hisashi Miura|Takahiro Shibata|Koji Nagao|Katsuzumi Okumura|Masato Ogata|Chikashi Obuse|Shin-ichiro Takebayashi|Ichiro Hiratani RIKEN Center for Developmental Biology, Japan;|Mie University, Japan;|Osaka University, Japan
http://dx.doi.org/10.1101/239749 2017-12-25 Neuroscience Equivalent high-resolution identification of neuronal cell types with single-nucleus and single-cell RNA-sequencing Trygve E Bakken|Rebecca D Hodge|Jeremy M Miller|Zizhen Yao|Thuc N Nguyen|Brian Aevermann|Eliza Barkan|Darren Bertagnolli|Tamara Casper|Nick Dee|Emma Garren|Jeff Goldy|Lucas T Gray|Matthew Kroll|Roger S Lasken|Kanan Lathia|Sheana Parry|Christine Rimorin|Richard H Scheuermann|Nicholas J Schork|Soraya I Shehata|Michael Tieu|Kimberly A Smith|Hongkui Zeng|Ed S Lein|Bosiljka Tasic Allen Institute for Brain Science;|J. Craig Venter Institute
http://dx.doi.org/10.1101/239301 2017-12-26 CC BY-ND Auxin regulates endosperm cellularization in Arabidopsis Duarte D. Figueiredo|Rita A. Batista|Claudia Kohler Swedish University of Agricultural Sciences and Linnean Center for Plant Biology
http://dx.doi.org/10.1101/240135 2017-12-26 CC BY-NC-ND Cdk9, Spt5 and histone H2B mono-ubiquitylation cooperate to ensure antisense suppression by the Clr6-CII/Rpd3S HDAC complex Miriam Sanso|Daniel Pinto|Peter Svensson|Viviane Page|Pabitra K Parua|Danny A. Bitton|Jean Mbogning|Patricia Garcia|Elena Hidalgo|Francois Robert|Jurg Bahler|Jason Tanny|Robert P. Fisher Icahn School of Medicine at Mount Sinai;|McGill University;|Karolinska Institutet;|University College London;|Universitat Pompeu Fabra;|Institut de recherches cliniques de Montreal (IRCM)
http://dx.doi.org/10.1101/240143 2017-12-26 In vivo imaging of radial spoke proteins reveals independent assembly and turnover of the spoke head and stalk Karl Lechtreck|Ilaria Mengoni|Batare Okivie|Kiersten Brooke Hilderhoff The University of Georgia
http://dx.doi.org/10.1101/239913 2017-12-26 Developmental Biology CC BY-NC Comparing the differentiation potential of Brachyury+ mesodermal cells generated from 3-D and 2-D culture systems Jing Zhou|Antonius Plagge|Patricia Murray University of Liverpool
http://dx.doi.org/10.1101/239921 2017-12-26 Systems Biology CC BY-NC-ND Viral replication modes in single-peak fitness landscapes: a dynamical systems analysis Joan Forners|Tomas Lazaro|Tomas Alarcon|Santiago F. Elena|Josep Sardanyes Universitat Politecnica de Catalunya;|Centre de Recerca Matematica;|Instituto de Biologia Molecular y Celular de Plantas
http://dx.doi.org/10.1101/239905 2017-12-26 Genetics WSL5, a pentatricopeptide repeat protein, is essential for chloroplast biogenesis in rice under cold stress Xi Liu|Jie Lan|Yunshuai Huang|Penghui Cao|Chunlei Zhou|Yakun Ren|Niqing He|Shijia Liu|Yunlu Tian|Thanhliem Nguyen|Ling Jiang|Jianmin Wan State Key Lab for Crop Genet & Germplasm Enhance, Jiangsu Plant Gene Engin Res;|Nanjing Agricultural University;|State Key Lab for Crop Genet & Germplasm Enhance, Chinese Acad of Agric Sci
http://dx.doi.org/10.1101/239947 2017-12-26 Bioinformatics Reproducible Bioinformatics Project: A community for reproducible bioinformatics analysis pipelines Neha Kulkarni|Luca Alessandri|Riccardo Panero|Maddalena Arigoni|Martina Olivero|Francesca Cordero|Marco Beccuti|Raffaele A Calogero University of Torino, Italy
http://dx.doi.org/10.1101/240002 2017-12-26 Systems Biology CC BY-NC-ND Transcriptional dysregulation study reveals a core network involving the genesis for Alzheimer's disease Guofeng Meng|Hongkang Mei BT science Inc.;|GSK
http://dx.doi.org/10.1101/235002 2017-12-26 Genomics CC BY-ND Extensive sex differences at the initiation of genetic recombination Kevin Brick|Sarah Thibault-Sennett|Fatima Smagulova|Kwan Wood Lam|Yongmei Pu|Florencia Pratto|Rafael Daniel Camerini-Otero|Galina V Petukhova NIDDK, National Institutes of Health, Bethesda, MD, USA;|USUHS, Bethesda, MD, USA;|Universite de Rennes 1, Inserm UMR1085-Irset, Rennes, France
http://dx.doi.org/10.1101/239954 2017-12-26 Evolutionary Biology Frequent Non-random Shifts in the Temporal Sequence of Developmental Landmark Events during Fish Evolutionary Diversification Fumihiro Ito|Tomotaka Matsumoto|Tatsumi Hirata National Institute of Genetics
http://dx.doi.org/10.1101/217653 2017-12-26 Immunology Comprehensive profiling of TCRβ repertoire in a non-model species (the bank vole) using high-throughput sequencing Magdalena Migalska|Alvaro Sebastian|Jacek Radwan Adam Mickiewicz University in Poznan;|Adam Mickiewicz University, Instituto Aragones de Empleo;|Evolutionary Biology Group, Faculty of Biology, Adam Mickiewicz University
http://dx.doi.org/10.1101/234187 2017-12-26 Neuroscience A Near Complete Zonal Map of Mouse Olfactory Receptors Longzhi Tan|Xiaoliang Xie Harvard University
http://dx.doi.org/10.1101/239988 2017-12-26 Microbiology CC BY-NC-ND A 23bp Indel Polymorphism in TLR2 Gene Enhances Inflammation and Disease Severity in Dengue A. Raj Kumar Patro|Sriprasad Mohanty|Aditya Kumar Panda|Birendra Kumar Prusty|Diwakar Kumar Singh|Sagar Gaikwad|Tanuja Saswat|Soma Chattopadhyay|Rina Tripathy|Bidyut Das|Balachandran Ravindran Infectious Disease Biology Group, Institute of Life Sciences, Bhubaneswar, India;|Department of Medicine, SCB Medical College & Hospital, Cuttack, India;|Department of Biochemistry, SCB Medical College & Hospital, Cuttack, India
http://dx.doi.org/10.1101/240010 2017-12-26 Animal Behavior and Cognition Optimal planning of eye movements David Hoppe|Constantin A Rothkopf Center for Cognitive Science & Department of Psychology, TU Darmstadt
http://dx.doi.org/10.1101/239814 2017-12-26 Neuroscience CC BY-NC-ND Paradigm Shift in Sensorimotor Control Research and Brain Machine Interface Control: The Influence of Context on Sensorimotor representations Yao Zhao|John P Hessburg|Jaganth Nivas Asok Kumar|Joseph Thachil Thachil Francis SUNY Downstate Medical School;|University of Houston
http://dx.doi.org/10.1101/239673 2017-12-26 Genetics CC BY A cloning-free method for CRISPR/Cas9-mediated genome editing in fission yeast Xiao-Ran Zhang|Jia-Bei He|Yi-Zheng Wang|Li-Lin Du National Institute of Biological Sciences, Beijing;|Tsinghua University
http://dx.doi.org/10.1101/239871 2017-12-26 Bioinformatics CC BY-NC-ND Accelerating SNP genotyping from whole genome sequencing data for bedside diagnostics Chen Sun|Paul Medvedev The Pennsylvania State University
http://dx.doi.org/10.1101/239855 2017-12-26 Genetics Genetic structure of the grey side-gilled sea slug (Pleurobranchaea maculata) in coastal waters of New Zealand Yeserin Yildirim|Marti J Anderson|Selina Patel|Craig D Millar|Paul B. Rainey Linnaeus University;|Massey University;|The University of Auckland
http://dx.doi.org/10.1101/239848 2017-12-26 Plant Biology Genetic Analysis of callus initiation in Gossypium tomentosum and Gossypium darwinii Yelena Kolezeva|Nikolay Vasilyev|Ivan Alpatov Samara University
http://dx.doi.org/10.1101/206318 2017-12-26 Immunology Evolutionary Origin of the Mammalian Hematopoietic System Found in a Colonial Chordate Benyamin Rosental|Mark A. Kowarsky|Jun Seita|Daniel M. Corey|Katherine J. Ishizuka|Karla J. Palmeri|Shih-Yu Chen|Rahul Sinha|Jennifer Okamoto|Gary Mantalas|Lucia Manni|Tal Raveh|D. Nathaniel Clarke|Aaron M. Newman|Norma F. Neff|Garry P. Nolan|Stephen R. Quake|Irving L. Weissman|Ayelet Voskoboynik Stanford University;|Stanford University. Medical Sciences Innovation Hub Program, RIKEN, Tokyo.;|Stanford University. Chan Zuckerberg Biohub;|Universita degli Studi di Padova
http://dx.doi.org/10.1101/239806 2017-12-26 Bioinformatics CC BY-NC Efficient graph-color compression with neighborhood-informed Bloom filters Ingo Schilken|Harun Mustafa|Gunnar Ratsch|Carsten Eickhoff|Andre Kahles ETH Zurich, Department of Computer Science, Zurich, Switzerland
http://dx.doi.org/10.1101/234286 2017-12-26 Plant Biology CC BY-ND Bundle-sheath cells are internal leaf "water valves" controlled via xylem acidification by H+-ATPase Nos Wigoda|Yael Grunwald|Adi Yaaran|Nir Sade|Tanmayee Torne|Sanbon Chaka Gosa|Nava Moran|Menachem Moshelion Hebrew University of Jerusalem;|University of California Davis
http://dx.doi.org/10.1101/238964 2017-12-26 Neuroscience In vivo clonal analysis reveals spatiotemporal regulation of thalamic nucleogenesis Samuel Wong|Earl Parker Scott|Ella Borgenheimer|Madeline Freeman|Guo-li Ming|Qing-Feng Wu|Hongjun Song|Yasushi Nakagawa University of Pennsylvania;|University of Minnesota;|University of Minnesta;|Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
http://dx.doi.org/10.1101/239863 2017-12-25 Bioinformatics CC BY-NC-ND TARGETED SEARCHES FOR NOVEL PEPTIDES IN BIG MASS SPECTROMETRY DATA SETS Yu Gao|Jiao Ma|Alan Saghatelian|John R Yates The Scripps Research Institute;|Salk Institute for Biological Studies
http://dx.doi.org/10.1101/239780 2017-12-25 Biophysics CC BY-ND Cooperativity in Plant Plasma Membrane Intrinsic Proteins (PIPs): Mechanism of Increased Water Transport in Maize PIP1 Channels in Hetero-tetramers Manu Vajpai|Mishtu Mukherjee|Ramasubbu Sankararamakrishnan Indian Institute of Technology Kanpur
http://dx.doi.org/10.1101/230425 2017-12-25 Synthetic Biology Clustering enzymes using E.coli inner cell membrane as scaffold in metabolic pathway You Wang|Yuqi Wu|Yang Suo|Huaqing Guo|Yineng Yu|Ruonan Yin|Rui Xi|Jiajie Wu|Nan Hua|Yuehan Zhang|Shaobo Zhang|Zhenming Jin|Yushu Wang|Lin He|Gang Ma Bio-X-Renji Hospital Research Center, Renji Hospital, School of Medicine, Shanghai Jiao Tong Univ.;|Bio-X Institutes, Shanghai Jiao Tong Univ.
http://dx.doi.org/10.1101/239707 2017-12-25 Evolutionary Biology Was maize domesticated in the Balsas Basin? Complex patterns of genetic divergence, gene flow and ancestral introgressions among Zea subspecies suggest an alternative scenario Alejandra Moreno Letelier|Jonas A. Aguirre Liguori|Maud I Tenaillon|Daniel Pinero|Brandon S Gaut|Alejandra Vazquez Lobo|Luis E Eguiarte Universidad Nacional Autonoma de Mexico;|Génétique Quantitative et Evolution Le Moulon, Institut National de la Recherche agrono;|University of California Irvine;|Universidad Autoonoma del Estado de Morelos
http://dx.doi.org/10.1101/239731 2017-12-25 Neuroscience Rethinking dopamine prediction errors Samuel Joseph Gershman|Geoffrey Schoenbaum Harvard University;|National Institutes of Health
http://dx.doi.org/10.1101/239756 2017-12-25 Ecology Recruitment and abundance of intertidal barnacles and mussels along the Atlantic Canadian coast: pelagic influences and relationships with predator abundance Ricardo A Scrosati|Julius A Ellrich St. Francis Xavier University
http://dx.doi.org/10.1101/240176 2017-12-27 Neuroscience Cell-autonomous regulation of structural and functional plasticity in inhibitory neurons by excitatory synaptic inputs Haiyan He|Wanhua Shen|Lijun Zheng|Xia Guo|Hollis Tremaine Cline The Scripps Research Institute;|College of Life and Environmental Sciences, Hangzhou Normal University;|College of Life and Environmental Sciences, Hangzhou Normal University,
http://dx.doi.org/10.1101/240119 2017-12-27 Neuroscience Role of the Visual Experience-Dependent Nascent Proteome in Neuronal Plasticity Han-Hsuan Liu|Daniel McClatchy|Lucio Schiapparelli|Wanhua Shen|John R Yates|Hollis T. Cline The Scripps Research Institute;|College of Life and Environmental Sciences, Hangzhou Normal University
http://dx.doi.org/10.1101/240077 2017-12-27 CC BY-NC-ND Barcoding analysis of HIV drug resistance mutations using Oxford Nanopore MinION (ONT) sequencing Claudia Gonzalez|Jessica Gondola|Alma Y Ortiz|Juan A Castillo|Juan M Pascale|Alexander Augusto Martinez Gorgas Memorial Institute for Health Studies
http://dx.doi.org/10.1101/240275 2017-12-27 CC BY Bivariate Gaussian Mixture Model of GWAS (BGMG) quantifies polygenic overlap between complex traits beyond genetic correlation Oleksandr Frei|Dominic Holland|Olav B. Smeland|Alexey A. Shadrin|Chun Chieh Fan|Aree Witoelar|Yunpeng Wang|Srdjan Djurovic|Wesley Thompson|Ole A. Andreassen|Anders M. Dale NORMENT, KG Jebsen Centre for Psychosis Research, Institute of Clinical Medicine, University of Oslo;|Center for Multimodal Imaging and Genetics, University of California at San Diego, La Jolla, CA 9203;|Department of Medical Genetics, Oslo University Hospital, 0424, Oslo, Norway;|University of California, San Diego, Department of Family Medicine and Public Health
http://dx.doi.org/10.1101/240226 2017-12-27 Nanjinganthus:An Unexpected Flower from the Jurassic of China qiang fu|Jose Bienvenido DIEZ|Mike POLE|Manuel GARCIA-AVILA|Zhong-Jian LIU|Hang CHU|Yemao Hou|Pengfei YIN|Guo-Qiang ZHANG|Kaihe DU|Xin WANG Nanjing Institute of Geology and Palaeontology Chinese Academy of Sciences;|Departamento de Geociencias, Universidad de Vigo;|Queensland Herbarium;|Facultade de Bioloxia, Asociacion Paleontoloxica Galega, Universidade Vigo;|Shenzhen Key Laboratory for Orchid Conservation and Utilization;|Tianjin Center, China Geological Survey;|Key Laboratory of Vertebrate Evolution and Human Origin Chinese Academy Sciences;|College of Life Sciences, Nanjing Normal University
http://dx.doi.org/10.1101/239996 2017-12-27 Bioinformatics CC BY-NC-ND Interaction of quercetin with transcriptional regulator LasR of Pseudomonas aeruginosa: Mechanistic insights of the inhibition of virulence through quorum sensing Hovakim Grabski|Lernik Hunanyan|Susanna Tiratsuyan|Hrachik Vardapetyan Russian-Armenian University
http://dx.doi.org/10.1101/239962 2017-12-27 Bioinformatics CC BY-NC-ND SeqsLab: an integrated platform for cohort-based annotation and interpretation of genetic variants on Spark Ming-Tai Chang|Yi-An Tung|Jen-Ming Chung|Hung-Fei Yao|Yun-Lung Li|Yin-Hung Lin|Yao-Ting Wang|Chien-Yu Chen|Chung-Tsai Su Atgenomix;|National Taiwan University;|National Taiwan University College of Medicine
http://dx.doi.org/10.1101/240192 2017-12-27 Neuroscience Quantitative Analysis on the role of Raffinose Synthase in Hippocampal Neurons Shatrunjai P Singh|Vijendra P Singh University of Cincinnati;|Baptist Easley Hospital
http://dx.doi.org/10.1101/240259 2017-12-27 Evolutionary Biology Sex-determination and sex chromosomes are shared across the radiation of dioecious Nepenthes pitcher plants Mathias Scharmann|T. Ulmar Grafe|Faizah Metali|Alex Widmer ETH Zurich;|Universiti Brunei Darussalam
http://dx.doi.org/10.1101/239244 2017-12-27 Evolutionary Biology CC BY-NC-ND Fine-grained genetic-environment association in an admixed population of mussels in the small isolated Kerguelen island Christelle Fraisse|Anne Haguenauer|Karin Gerard|Alexandra Anh-Thu Weber|Nicolas Bierne|Anne Chenuil Institute of Science and Technology Austria, Austria;|Institut Mediterraneen de Biodiversite et d'Ecologie marine et continentale, France;|Lab de Ecosistemas Marinos Antarticos y Subantarticos, Inst de la Patagonia, Chile;|Zoological Institute, University of Basel, Switzerland;|Institut des Sciences de l'Evolution UMR5554, University Montpellier, France
http://dx.doi.org/10.1101/239798 2017-12-27 Plant Biology Image-based tracking of ripening in wheat cultivar mixtures: a quantifying approach parallel to the conventional phenology Abbas Haghshenas|Yahya Emam Shiraz University
http://dx.doi.org/10.1101/240325 2017-12-27 Biochemistry Self-assembling all-enzyme hydrogels for biocatalytic flow processes Theo Peschke|Sabrina Gallus|Patrick Bitterwolf|Yong Hu|Claude Oelschlaeger|Norbert Willenbacher|Kersten S. Rabe|Christof M. Niemeyer Karlsruhe Institute of Technology
http://dx.doi.org/10.1101/239897 2017-12-27 Systems Biology CC BY-NC-ND A minimal "push-pull" bistability model explains oscillations between quiescent and proliferative cell states. Sandeep Krishna|Sunil Laxman National Centre for Biological Sciences;|Institute for Stem Cell Biology and Regenerative Medicine
http://dx.doi.org/10.1101/240580 2017-12-28 Systems Biology CC BY-NC-ND Dynamic Optimization with Particle Swarms (DOPS): A meta-heuristic for parameter estimation in biochemical models Jeffrey Varner|Adithya Sagar|Rachel LeCover|Christine Shoemaker Cornell University
http://dx.doi.org/10.1101/237370 2017-12-28 Pharmacology and Toxicology CC BY-NC-ND Broad spectrum proteomics analysis of the inferior Colliculus following acute hydrogen sulfide exposure Dong-Suk Kim|Poojya Anantharam|Andrea Hoffman|Mitchell L Meade|Nadja Grobe|Jeffery M Gearhart|Elizabeth M Whitley|Belinda Mahama|Wilson K Rumbeiha Veterinary Diagnostic & Production Animal Medicine, Iowa State University;|Henry M Jackson Foundation; 711HPW/USAFSAM/FHOF, Wright Patterson AFB;|711HPW/RHDJ, Wright Patterson Air Force Base, Dayton, OH, US;|Pathogenesis, LLC, Gainesville, FL, US
http://dx.doi.org/10.1101/240341 2017-12-28 Bioinformatics MSAC: Compression of multiple sequence alignment files Sebastian Deorowicz|Joanna Walczyszyn|Agnieszka Debudaj-Grabysz Silesian University of Technology
http://dx.doi.org/10.1101/240531 2017-12-28 Biophysics Resolution limit of image analysis algorithms Edward A K Cohen|Anish V Abraham|Raimund J Ober Imperial College London;|Texas A&M University
http://dx.doi.org/10.1101/240366 2017-12-28 Bioengineering Isoxanthopterin: An Optically Functional Biogenic Crystal in the Eyes of Decapod Crustaceans Benjamin A Palmer|Anna Hirsch|Vlad Brumfeld|Eliahu D Aflalo|Iddo Pinkas|Amir Sagi|Shaked Rozenne|Dan Oron|Leslie Leiserowitz|Leeor Kronik|Steve Weiner|Lia Addadi Weizmann Institute of Science;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/240572 2017-12-28 Plant Biology CC BY-ND Decoding the gene co-expression network underlying the ability of Gevuina avellana Mol. to live in diverse light conditions Enrique Ostria-Gallardo|Aashish Ranjan|Yasunori Ichihashi|Luis Corcuera|Neelima Sinha University of La Frontera;|National Institute of Plant Genome Research;|RIKEN Center for Sustainable Resource Science;|Katalapi Park;|Department of Plant Biology, University of California, Davis
http://dx.doi.org/10.1101/236976 2017-12-28 Microbiology Prevalence of dual clarithromycin and metronidazole resistance in Helicobacter pylori estimated by molecular methods in Santiago, Chile Patricio Gonzalez-Hormazabal|Maher Musleh|Susana Escandar|Hector Valladares|Enrique Lanzarini|V. Gonzalo Castro|Lilian Jara|Zoltan Berger Human Genetics Program, Inst of Biomed Sci, School of Medicine, Univ of Chile;|Department of Surgery, University of Chile Clinical Hospital, Santiago, Chile;|Dept of Gastroenterology, University of Chile Clinical Hospital, Santiago, Chile;|Department of Surgery, University of Chile Clinical Hospital, Santiago, Chile
http://dx.doi.org/10.1101/240358 2017-12-28 Bioinformatics Whisper: Read sorting allows robust mapping of sequencing data Sebastian Deorowicz|Agnieszka Debudaj-Grabysz|Adam Gudys|Szymon Grabowski Silesian University of Technology;|Lodz University of Technology
http://dx.doi.org/10.1101/240556 2017-12-28 Neuroscience CC BY-NC-ND Task Engagement Enhances Population Encoding of Stimulus Meaning in Primary Auditory Cortex Sophie Bagur|Martin Averseng|Diego Elgueda|Stephen David|Jonathan Fritz|Pingbo Yin|Shihab Shamma|Yves Boubenec|Srdjan Ostojic Ecole Superieure de Physique et Chimie Industrielles de la Ville de Paris;|Ecole Normale Superieure;|University of Maryland;|Oregon Health and Science University;|Ecole Normale Superieure Paris
http://dx.doi.org/10.1101/240051 2017-12-28 Neuroscience CC BY-NC-ND Calcium channel levels at single synapses predict release probability and are upregulated in homeostatic potentiation Kate M O'Connor-Giles|Scott J Gratz|Joseph J Bruckner|Roberto X. Hernandez|Karam Khateeb|Gregory Macleod University of Wisconsin-Madison;|University of Oregon;|Florida Atlantic University
http://dx.doi.org/10.1101/240200 2017-12-28 Bioengineering CC BY Mechanism of Membrane Recovery in Intra-Cytoplasmic Sperm Injection Ricky Li|Hao Chang|Brian Luo University of Connecticut;|Watercare Services Limited;|Convergent Science
http://dx.doi.org/10.1101/240457 2017-12-28 Bioengineering Tissue disorder strength measured by quantitative phase imaging as intrinsic cancer marker Masanori Takabayashi|Hassaan Majeed|Andre Kajdacsy-Balla|Gabriel Popescu Kyushu Institute of Technology;|University of Illinois at Urbana-Champaign;|University of Illinois at Chicago
http://dx.doi.org/10.1101/240069 2017-12-28 Neuroscience 50 Hz volumetric functional imaging with continuously adjustable depth of focus Rongwen Lu|Masashi Taminoto|Minoru Koyama|Na Ji HHMI Janelia Research Campus;|HHMI Janelia Research Campus; University of California, Berkeley
http://dx.doi.org/10.1101/240374 2017-12-28 Cell Biology CC BY-NC-ND An ordered pattern of Ana2 phosphorylation by Plk4 is required for centriole assembly Tiffany A McLamarrah|Daniel W Buster|Brian J Galletta|Cody J Boese|John M Ryniawec|Natalie A Hollingsworth|Amy E Byrnes|Christopher W Brownlee|Kevin C Slep|Nasser M Rusan|Gregory C Rogers University of Arizona;|National Heart, Lung, and Blood Institute (NHLBI), National Institutes of Health;|University of North Carolina, Chapel Hill
http://dx.doi.org/10.1101/240416 2017-12-28 Evolutionary Biology CC BY-NC-ND Juvenile honest food solicitation and parental investment as a life history strategy: a kin demographic selection model Jozsef Garay|Villo Csiszar|Tamas F. Mori|Andras Szilagyi|Zoltan Varga|Szabolcs Szamado MTA-ELTE Res Group in Theoretical Biol & Evolutionary Ecol, Eotvos Lorand Univ;|Department of Probability Theory and Statistics, Eotvos Lorand University;|Department of Mathematics, Szent Istvan University;|MTA Centre for Social Sciences
http://dx.doi.org/10.1101/240523 2017-12-28 Immunology CC BY B1a B cells require autophagy for metabolic homeostasis and self-renewal Alexander J Clarke|Thomas Riffelmacher|Daniel Braas|Richard J Cornall|Anna Katharina Simon Kennedy Institute of Rheumatology, University of Oxford;|Dept of Molecular & Medical Pharmacology; UCLA Metabolomics Center, UCLA;|Nuffield Department of Medicine, University of Oxford
http://dx.doi.org/10.1101/240234 2017-12-28 Bioinformatics bcGST - an interactive bias-correction method to identify over-represented gene-sets in boutique arrays Kevin YX Wang|Alexander Menzies|Ines Silva|James Wilmott|Yibing Yan|Matthew Wongchenko|Richard Kefford|Richard Scolyer|Georgina Long|Garth Tarr|Samuel Mueller|Jean Yang The University of Sydney, School of Mathematics and Statistics;|Melanoma Institute Australia;|Genentech Inc
http://dx.doi.org/10.1101/240473 2017-12-28 Cell Biology CC BY-ND Short-term hyperglycaemia induces motor defects in C. elegans. Runita Shirdhankar|Nabila Sorathia|Medha Rajyadhyaksha Sophia College, University of Mumbai
http://dx.doi.org/10.1101/238865 2017-12-28 Neuroscience CC BY-NC-ND Individual differences in motor noise and adaptation rate are optimally related Rick van der Vliet|Maarten A Frens|Linda de Vreede|Zeb Jonker|Gerard M Ribbers|Ruud W Selles|Jos van der Geest|Opher Donchin Erasmus MC;|Rijndam Rehabilitation Centre;|Ben Gurion University of the Negev
http://dx.doi.org/10.1101/240408 2017-12-28 Bioengineering Far-UVC light: A new tool to control the spread of airborne-mediated microbial diseases David Welch|Manuela Buonanno|Veljko Grilj|Igor Shuryak|Connor Crickmore|Alan W Bigelow|Gerhard Randers-Pehrson|Gary W Johnson|David J Brenner Columbia University Medical Center
http://dx.doi.org/10.1101/240440 2017-12-28 Evolutionary Biology CC BY-NC-ND One problem, too many solutions: How costly is honest signalling of need? Szabolcs Szamado|Daniel Czegel|Istvan Zachar MTA Centre for Social Sciences;|Evolutionary Systems Research Group, MTA, Centre for Ecological Research;|MTA-ELTE Theoretical Biol & Evolutionary Ecol Research Grp, Eotvos Lorand Univ
http://dx.doi.org/10.1101/240184 2017-12-28 Bioinformatics CC BY-NC ClassificaIO: machine learning for classification graphical user interface Raeuf Roushangar|George I. Mias Michigan State University
http://dx.doi.org/10.1101/240101 2017-12-28 Neuroscience CC BY-NC-ND Neural computations combine low- and high-order motion cues similarly, in dragonfly and monkey Eyal Nitzany|Gil Menda|Paul S Shamble|James R Golden|Qin Hu|Ron R Hoy|Jonathan Victor Cornell University and Weill Cornell Medical College;|Cornell University;|Microsoft;|Weill Cornell Medical College
http://dx.doi.org/10.1101/236026 2017-12-28 Neuroscience CC BY-NC-ND Confidence modulates exploration and exploitation in value-based learning Annika Boldt|Charles Blundell|Benedetto De Martino Institute of Cognitive Neuroscience, University College London;|Google DeepMind
http://dx.doi.org/10.1101/240549 2017-12-28 Neuroscience CC BY Examining molecular determinants underlying heterogeneity of synaptic release probability using optical quantal imaging Yulia Akbergenova|Yao V Zhang|Shirley Weiss-Sharabi|Karen L Cunningham|J. Troy Littleton Massachusetts Institute of Technology, United States
http://dx.doi.org/10.1101/240424 2017-12-28 Genomics CC BY-NC-ND Mendelian inheritance errors in whole genome sequenced trios are enriched in repeats and cluster within copy number losses Prachi Kothiyal|Wendy S Wong|Dale L Bodian|John E Niederhuber Inova Translational Medicine Institute
http://dx.doi.org/10.1101/240481 2017-12-28 Developmental Biology CC BY-NC-ND sFlt-1 (sVEGFR1) induces placental endoplasmic reticulum stress in trophoblast cell: implications for the complications in preeclampsia - an in vitro study Sankat Mochan|Manoj Kumar Dhingra|Betsy Varghese|Sunil Kumar Gupta|Shobhit saxena|Pallavi Arora|Neerja Rani|Arundhati Sharma|Kalpana Luthra|Sadanand Dwivedi|Neerja Bhatla|Rani Kumar|Renu Dhingra All India Institute of Medical Sciences, New Delhi-110029, India;|World College of Medical Sciences Research & Hospital, Jhajjar, Haryana, India;|Hamad Medical Corporation, Doha, Qatar;|Consultant, Medical Council of India, New Delhi-110077
http://dx.doi.org/10.1101/239715 2017-12-28 Bioinformatics CC BY-ND False discovery rate estimation and heterobifunctional cross-linkers Lutz Fischer|Juri Rappsilber University of Edinburgh
http://dx.doi.org/10.1101/240218 2017-12-28 Evolutionary Biology CC BY-NC-ND Species delimitation in the presence of strong incomplete lineage sorting and hybridization Alexandra Anh-Thu Weber|Sabine Stohr|Anne Chenuil Aix-Marseille University, IMBE, CNRS, IRD, UAPV;|Swedish Museum of Natural History, Department of Zoology
http://dx.doi.org/10.1101/240093 2017-12-28 Paleontology Muon Radiation Dose and Marine Megafaunal Extinction at the end-Pliocene Supernova Adrian Melott|Franciole Marinho|Laura Paulucci University of Kansas;|Universidade Federal de Sao Carlos;|Universidade Federal do ABC
http://dx.doi.org/10.1101/240515 2017-12-28 Bioinformatics CC BY-NC-ND De novo profile generation based on sequence context specificity with the long short-term memory network Kazunori D Yamada|Kengo Kinoshita Tohoku University
http://dx.doi.org/10.1101/240432 2017-12-28 Ecology CC BY-NC-ND POLLINATOR SPECIES RICHNESS TRENDS: NO DECELERATING DECLINES IN DUTCH BEES AND BUMBLEBEES Tom Van Dooren iEES Paris
http://dx.doi.org/10.1101/240085 2017-12-28 Cancer Biology A measure of vascular reactivity to overcome neurovascular uncoupling in functional imaging of brain tumors: initial results Henning U. Voss|Kyung K. Peck|Nicole M. Petrovich Brennan|Andrei I. Holodny Weill Cornell Medicine;|Memorial Sloan-Kettering Cancer Center
http://dx.doi.org/10.1101/240317 2017-12-28 Neuroscience CC BY Deep image reconstruction from human brain activity Guohua Shen|Tomoyasu Horikawa|Kei Majima|Yukiyasu Kamitani ATR;|Kyoto University
http://dx.doi.org/10.1101/240044 2017-12-28 Neuroscience MEG/EEG group study with MNE: recommendations, quality assessments and best practices Mainak Jas|Eric Larson|Denis-Alexander Engemann|Jaakko Leppakangas|Samu Taulu|Matti Hamalainen|Alexandre Gramfort Telecom ParisTech, Universite Paris-Saclay, Paris, France;|University of Washington, Institute for Learning and Brain Sciences, Seattle WA, USA;|INRIA, Universite Paris-Saclay, Saclay, France;|Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown MA
http://dx.doi.org/10.1101/240713 2017-12-28 CC BY-NC-ND Scaling of G1 duration with population doubling time by a cyclin in Saccharomyces cerevisiae Heidi M Blank|Michelle Callahan|Ioannis P. E. Pistikopoulos|Aggeliki O Polymenis|Michael Polymenis Texas A&M University
http://dx.doi.org/10.1101/240721 2017-12-28 CC BY-NC-ND A genetically encoded adhesin toolbox for programming multicellular morphologies and patterns David Shaanan Glass|Ingmar H Riedel-Kruse Stanford University;|Stanford
http://dx.doi.org/10.1101/226068 2017-12-28 In Vitro Study Of Dentin Hypersensitivity Treated By Whitlockite Glass-Ceramics Amanda de Castro Juraski|Daniele Ribeiro|Patricia da Ana|Juliana Daguano Universidade Federal do ABC
http://dx.doi.org/10.1101/240648 2017-12-28 Genomics The Tandem Duplicator Phenotype is a prevalent genome-wide cancer configuration driven by distinct gene mutations Francesca Menghi|Floris P Barthel|Vinod Yadav|Ming Tang|Bo Ji|Zhonghui Tang|Gregory W Carter|Yijun Ruan|Ralph Scully|Roel GW Verhaak|Jos Jonkers|Edison T Liu The Jackson Laboratory for Genomic Medicine;|MD Anderson Cancer Center;|The Jackson Laboratory;|Beth Israel Deaconess Medical Center and Harvard Medical School;|Netherlands Cancer Institute
http://dx.doi.org/10.1101/240655 2017-12-28 Biophysics CC BY-ND Patterns in protein flexibility: a comparison of NMR "ensembles", MD trajectories and crystallographic B-factors Anthony Riga|Jasmin Rivera|David Snyder Department of Chemistry, William Paterson University of NJ;|William Paterson University of NJ
http://dx.doi.org/10.1101/240630 2017-12-28 Cell Biology CC BY-NC-ND Multiple Determinants and Consequences of Cohesion Fatigue in Mammalian Cells Hem Sapkota|Emilia Wasiak|Gary J Gorbsky University of Oklahoma Health Sciences Center;|Oklahoma Medical Research Foundation
http://dx.doi.org/10.1101/240127 2017-12-28 Evolutionary Biology Transgenerational cues about local mate competition affect offspring sex ratios in the spider mite Tetranychus urticae Alison Duncan|Cassandra Marinosci|Celine Devaux|Sophie Lefevre|Sara Magalhaes|Joanne Griffin|Adeline Valente|Ophelie Ronce|Isabelle Olivieri University of Montpellier;|University of Lisbon
http://dx.doi.org/10.1101/240028 2017-12-28 Biophysics CC BY-NC-ND Development of High-Order Organization of Guanine-Based Reflectors Underlies the Dual Functionality of the Zebrafish Iris Dvir Gur|Jan-David Nicolas|Vlad Brumfeld|Omri Bar-Elli|Dan Oron|Gil Levkowitz Weizmann Institute of Science;|Institute for X-ray Physics
http://dx.doi.org/10.1101/240606 2017-12-28 Molecular Biology Boosting ATM Activity Promotes Longevity in Nematodes and Mice Minxian Qian|Zuojun Liu|Linyuan Peng|Fanbiao Meng|Xiaolong Tang|Ying Ao|Lei Shi|Mingyan Zhou|Ming Wang|Baoming Qin|Xinyue Cao|Zimei Wang|Zhongjun Zhou|Baohua Liu Shenzhen University Health Science Center;|Guangzhou Institutes of Biomedicine and Health;|The University of Hong Kong
http://dx.doi.org/10.1101/240598 2017-12-28 Systems Biology The interaction landscape between transcription factors and the nucleosome Fangjie Zhu|Lucas Fanung|Eevi Kaasinen|Biswajyoti Sahu|Yimeng Yin|Bei Wei|Svetlana Dodonova|Patrick Cramer|Jussi Taipale Karolinska Institute;|Max Planck Institute for Biophysical Chemistry;|University of Helsinki;|Karolinska Institutet
http://dx.doi.org/10.1101/240796 2017-12-29 Ecology The network structure of cancer ecosystems Simon P P Castillo|Rolando Rebolledo|Matias Arim|Michael E Hochberg|Pablo A Marquet Departamento de Ecologia, Facultad de Ciencias Biologicas, Pontificia Universidad Catolica de Chile;|Institute for Medical and Biological Engineering (IIBM), Pontifical Catholic University of Chile;|Departmento de Ecologia y Evolucion, Universidad de la Republica, PC 11400 Montevideo, Uruguay;|ISEM, University of Montpellier, 34090, Montpellier, France
http://dx.doi.org/10.1101/240770 2017-12-29 Neuroscience CC BY-NC-ND Scalable volumetric imaging for ultrahigh-speed brain mapping at synaptic resolution Hao Wang|Qingyuan Zhu|Lufeng Ding|Yan Shen|Chao-Yu Yang|Fang Xu|Chang Shu|Yujie Guo|Zhiwei Xiong|Qinghong Shan|Fan Jia|Peng Su|Qian-Ru Yang|Bing Li|Xiaobin He|Xi Chen|Feng Wu|Jiang-Ning Zhou|Fuqiang Xu|Hua Han|Pak-Ming Lau|Guo-Qiang Bi University of Science and Technology of China;|Institute of Automation, Chinese Academy of Sciences;|Wuhan Institute of Physics and Mathematics, Chinese Academy of Sciences
http://dx.doi.org/10.1101/240788 2017-12-29 Cell Biology The Transcriptional Program of Regeneration in the Giant Single Cell, Stentor coeruleus Pranidhi Sood|Rebecca McGillivary|Wallace F Marshall University of California San Francisco
http://dx.doi.org/10.1101/240838 2017-12-29 Biophysics CC BY-NC-ND Cell cycle repression and DNA repair defects follow constricted migration Charlotte R Pfeifer|Yuntao Xia|Kuangzheng Zhu|Dazhen Liu|Jerome Irianto|Shane M Harding|Roger A Greenberg|Dennis E Discher University of Pennsylvania
http://dx.doi.org/10.1101/240283 2017-12-29 CC BY-NC-ND Is a large eye size a risk factor for myopia? A Mendelian randomization study Denis Plotnikov|Jeremy Guggenheim Cardiff University;|-
http://dx.doi.org/10.1101/240960 2017-12-29 Three-photon fluorescence microscopy with an axially elongated Bessel focus Cristina Rodriguez|Yajie Liang|Rongwen Lu|Na Ji Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/241034 2017-12-29 CC BY-NC-ND Bacterial Community Shift in Marine Tar Balls following Low Salinity Exposure Mai H Tran|Joong-Wook Park Department of Biological and Environmental Sciences, Troy University, Troy, AL
http://dx.doi.org/10.1101/240671 2017-12-29 CC BY-NC-ND Circuit and cellular mechanisms facilitate the transformation from dense to sparse coding in the insect olfactory system Rinaldo L Betkiewicz|Martin Paul Nawrot|Benjamin Lindner Bernstein Center for Computational Neuroscience Berlin, Berlin, Germany;|Computational Systems Neuroscience, Inst of Zoology, Univ of Cologne, Germany;|Department of Physics, Humboldt University Berlin, Berlin, Germany
http://dx.doi.org/10.1101/240846 2017-12-29 CC BY Precautionary Coherence Unravels Dose Escalation Designs David C. Norris Precision Methodologies, LLC
http://dx.doi.org/10.1101/240994 2017-12-29 CC BY-NC-ND Murine polyomavirus microRNAs promote viuria during the acute phase of infection James M Burke|Clovis R Bass|Emin T Ulug|Christopher S Sullivan The University of Texas at Austin
http://dx.doi.org/10.1101/240978 2017-12-29 CC BY-NC Can net diversification rates account for spatial patterns of species richness? Camilo Sanin|Ivan Jimenez|Jon Fjeldsa|Carsten Rahbek|Daniel Cadena Universidad de los Andes;|Missouri Botanical Garden;|Natural History Museum of Denmark
http://dx.doi.org/10.1101/241000 2017-12-29 IMPROVEMENTS TO BAYESIAN GENE ACTIVITY STATE ESTIMATION FROM GENOME-WIDE TRANSCRIPTOMICS DATA Craig Disselkoen|Nathan Hekman|Brian Gilbert|Sydney Benson|Matthew Anderson|Matthew DeJongh|Aaron Best|Nathan Tintle University of California, San Diego;|Dordt College;|Brown University;|University of St. Thomas;|Georgia Southern University;|Hope College
http://dx.doi.org/10.1101/240747 2017-12-29 Genomics CC BY Improved Aedes aegypti mosquito reference genome assembly enables biological discovery and vector control Benjamin J Matthews|Olga Dudchenko|Sarah Kingan|Sergey Koren|Igor Antoshechkin|Jacob E Crawford|William J Glassford|Margaret Herre|Seth N Redmond|Noah H Rose|Gareth D Weedall|Yang Wu|Sanjit S Batra|Carlos A Brito-Sierra|Steven D Buckingham|Corey L Campbell|Saki Chan|Eric Cox|Benjamin R Evans|Thanyalak Fansiri|Igor Filipovic|Albin Fontaine|Andrea Gloria-Soria|Richard Hall|Vinita S Joardar|Andrew K Jones|Raissa G G Kay|Vamsi Kodali|Joyce Lee|Gareth J Lycett|Sara N Mitchell|Jill Muehling|Michael R Murphy|Arina Omer|Frederick A Partridge|Paul Peluso|Aviva Presser Aiden|Vidya Ramasamy|Gordana Rasic|Sourav Roy|Karla Saavedra-Rodriguez|Shruti Sharan|Atashi Sharma|Melissa Smith|Joe Turner|Allison M Weakley|Zhilei Zhao|Omar S Akbari|William C Black|Han Cao|Alistair C Darby|Catherine Hill|J. Spencer Johnston|Terence D Murphy|Alexander S Raikhel|David B Sattelle|Igor V Sharakhov|Bradley J White|Li Zhao|Erez Lieberman Aiden|Richard S Mann|Louis Lambrechts|Jeffrey R Powell|Maria V Sharakhova|Zhijian Tu|Hugh M Robertson|Carolyn S McBride|Alex R Hastie|Jonas Korlach|Daniel E Neafsey|Adam M Phillippy|Leslie B Vosshall The Rockefeller University;|Baylor College of Medicine;|Pacific Biosciences;|National Human Genome Research Institute, National Institutes of Health;|Caltech;|Verily Life Sciences;|Columbia University;|Broad Institute of MIT and Harvard;|Princeton University;|Liverpool School of Tropical Medicine;|Southern Medical University;|Purdue University;|UCL;|Colorado State University;|Bionano Genomics;|National Center for Biotechnology Information, National Library of Medicine, NIH;|Yale University;|Armed Forces Research Institute of Medical Sciences (AFRIMS);|QIMR Berghofer Medical Research Institute;|Institut Pasteur;|Oxford Brookes University;|University of California Riverside;|Virginia Tech;|University of Liverpool;|UCSD;|Texas A&M University;|Columbia Univeresity;|University of Illinois at Urbana-Champaign;|Harvard T.H. Chan School of Public Health
http://dx.doi.org/10.1101/240820 2017-12-29 Bioinformatics A Simulation Analysis and Screening of Deleterious Non-Synonymous Single Nucleotide Polymorphisms (SNPs) in Human CDKN1A Gene G. M. Shazzad Hossain Prince|Trayee Dhar Noakhali Science and Technology University
http://dx.doi.org/10.1101/240697 2017-12-29 Neuroscience CC BY-NC-ND Satiation State-dependent Dopaminergic Control of Food Seeking in Drosophila Dan Landayan|David S Feldman|Fred W Wolf University of California, Merced
http://dx.doi.org/10.1101/240754 2017-12-29 Bioinformatics CC BY-NC-ND Deep learning reveals many more inter-protein residue-residue contacts than direct coupling analysis Tianming Zhou|Sheng Wang|Jinbo Xu Toyota Technological Institute at Chicago and Tsinghua University;|Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology;|Toyota Technological Institute at Chicago
http://dx.doi.org/10.1101/240812 2017-12-29 Genomics CC BY-ND A nonparametric estimator of population structure unifying admixture models and principal components analysis Irineo Cabreros|John D. Storey Princeton University
http://dx.doi.org/10.1101/240390 2017-12-29 Animal Behavior and Cognition CC BY High- to low-level decoding does not generally improve perceptual performance Long Luu|Cheng Qiu|Alan Stocker University of Pennsylvania
http://dx.doi.org/10.1101/240929 2017-12-29 Evolutionary Biology CC BY Proposal for practical multi-kingdom classification of eukaryotes based on monophyly and comparable divergence time criteria Leho Tedersoo Natural History Museum, University of Tartu
http://dx.doi.org/10.1101/240853 2017-12-29 Neuroscience CC BY-ND Membrane potential correlates of network decorrelation and improved SNR by cholinergic activation in the somatosensory cortex. Inbal Meir|Yonatan Katz|Ilan Lampl Weizmann Institute of Science
http://dx.doi.org/10.1101/240879 2017-12-29 Microbiology Candidatus Nitrosocaldus cavascurensis, an ammonia oxidizing, extremely thermophilic archaeon with a highly mobile genome Sophie S Abby|Michael Melcher|Melina Kerou|Mart Krupovic|Michaela Stieglmeier|Claudia Rossel|Kevin Pfeifer|Christa Schleper University of Vienna;|Institut Pasteur, Paris
http://dx.doi.org/10.1101/240895 2017-12-29 Developmental Biology Crosstalk between one carbon metabolism and eph signaling promotes neural stem cells differentiation through epigenetic remodeling Mohamad-Ali Fawal|Thomas Jungas|Anthony Kischel|Christophe Audouard|Jason S Iacovoni|Alice Davy Center for Integrative Biology;|Bioinformatic Plateau I2MC, INSERM
http://dx.doi.org/10.1101/240945 2017-12-29 Neuroscience Differential effects of learned associations with words and pseudowords on event-related brain potentials Louisa Kulke|Mareike Bayer|Anna-Maria Grimm|Annekathrin Schacht Affective Neuroscience & Psychophysiology Laboratory, University of Goettingen;|Berlin School of Mind and Brain, Humboldt-Universitaet zu Berlin, Germany;|Deutsches Institut fuer Internationale Paedagogische Forschung, Frankfurt am Main;|Affective Neuroscience and Psychophysiology Laboratory, University of Goettingen
http://dx.doi.org/10.1101/240911 2017-12-29 Genetics CC BY-NC-ND A genome-wide association study for shared risk across major psychiatric disorders in a nation-wide birth cohort implicates fetal neurodevelopment as a key mediator Andrew J. Schork|Hyejung Won|Vivek Appadurai|Ron Nudel|Mike Gandal|Olivier Delaneau|David Hougaard|Marie Baekved-Hansen|Jonas Bybjerg-Grauholm|Marianne Gioertz Pedersen|Carsten Boecker Pedersen|Benjamin M. Neale|Mark J. Daly|Merete Nordentoft|Ole Mors|Anders D. Boerglum|Preben Bo Mortensen|Alfonso Buil|Wesley K. Thompson|Daniel Geschwind|Thomas Werge Institute of Biological Psychiatry, Mental Health Services Copenhagen;|University of California, Los Angeles, Los Angeles;|University of Geneva;|Statens Serum Institut, Copenhagen, Denmark;|Aarhus University;|Broad Institute of Harvard and MIT;|University of Copenhagen;|Aarhus University Hospital;|University of California, Los Angeles
http://dx.doi.org/10.1101/240705 2017-12-29 Neuroscience CC BY Bias toward long gene misregulation in synaptic disorders can be an artefact of amplification-based methods Ayush T Raman|Amy E Pohodich|Ying-Wooi Wan|Hari Krishna Yalamanchili|Bill Lowry|Huda Y. Zoghbi|Zhandong Liu Baylor College of Medicine;|University of California, Los Angeles
http://dx.doi.org/10.1101/240937 2017-12-29 Genomics Dot2dot: Accurate Whole-Genome Tandem Repeats Discovery Loredana M. Genovese|Marco M. Mosca|Marco Pellegrini|Filippo Geraci Istituto di Informatica e Telematica, CNR
http://dx.doi.org/10.1101/240762 2017-12-29 Microbiology CC BY-NC-ND Localized Recombination Drives Diversification of Killing Spectra for Phage Derived Syringacins David Baltrus|Meara Clark|Caitlin Smith|Kevin Hockett University of Arizona;|Penn State University
http://dx.doi.org/10.1101/240804 2017-12-29 Genomics CC BY-ND Extending Tests of Hardy-Weinberg Equilibrium to Structured Populations Wei Hao|John D. Storey Princeton University
http://dx.doi.org/10.1101/241059 2017-12-29 Physiology Changes in levels of major yolk protein in the coelomic fluid and gonad during the reproductive cycle in wild sea urchins, Mesocentrotus nudus Kazuhiro Ura|Narumi Takei|Ichiro Higuchi|Tomoharu Yuhi|Osamu Nishimiya|Yasuaki Takagi Hokkaido University
http://dx.doi.org/10.1101/241067 2017-12-29 Molecular Biology 3.7 Å cryo-EM structure of the core Centromere Binding Factor 3 complex Wenjuan Zhang|Natalya Lukoynova|Shomon Miah|Cara K Vaughan Birkbeck College;|Institute of Structural and Molecular Biology
http://dx.doi.org/10.1101/241042 2017-12-29 Cancer Biology MYC-driven epigenetic reprogramming favors the onset of tumorigensis by inducing a stem cell-like state Vittoria Poli|Luca Fagnocchi|Alessandra Fasciani|Alessandro Cherubini|Stefania Mazzoleni|Sara Ferrillo|Annarita Miluzio|Gabriella Gaudioso|Valentina Vaira|Alice Turdo|Miriam Giaggianesi|Aurora Chinnici|Elisa Lipari|Silvio Bicciato|Silvano Bosari|Matilde Todaro|Alessio Zippo University of Trento;|Fondazione Istituto Nazionale di Genetica Molecolare;|Fondazione IRCCS Ca' Granda Ospedale Maggiore Policlinico;|University of Palermo;|University of Modena and Reggio Emilia
http://dx.doi.org/10.1101/240903 2017-12-29 Biophysics CC BY-NC-ND Visualization of class A GPCR oligomerization by image-based fluorescence fluctuation spectroscopy Ali Isbilir|Jan Moeller|Andreas Bock|Ulrike Zabel|Paolo Annibale|Martin J. Lohse University of Wuerzburg and Max Delbrueck Center for Molecular Medicine;|University of Wuerzburg
http://dx.doi.org/10.1101/241299 2017-12-30 Myopic control of neural dynamics David Hocker|Il Memming Park Stony Brook University
http://dx.doi.org/10.1101/241224 2017-12-30 Pharmacological Macrophage Attenuation by Imatinib Reverts Hepatic Steatosis and Inflammation in Obese Mice Shefaa Al Asfoor|Theresa V. Rohm|Angela J. T. Bosch|Thomas Dervos|Diego Calabrese|Matthias S. Matter|Achim Weber|Claudia Cavelti-Weder University of Basel;|University of Zurich
http://dx.doi.org/10.1101/241166 2017-12-30 Biophysics Outperforming nature: synthetic enzyme built from DNA flips lipids of biological membranes at record rates Alexander Ohmann|Chen-Yu Li|Christopher Maffeo|Kareem Al Nahas|Kevin N Baumann|Kerstin Gopfrich|Jejoong Yoo|Ulrich F Keyser|Aleksei Aksimentiev Cavendish Laboratory, University of Cambridge, UK;|Ctr for Biophysics & Computational Biology, Univ of Illinois at Urbana-Champaign;|Center for the Physics of Living Cells, University of Illinois at Urbana-Champaign;|Department of Physics, University of Illinois at Urbana-Champaign, USA
http://dx.doi.org/10.1101/241257 2017-12-30 Genomics CC BY-ND Genome-wide association across Saccharomyces cerevisiae strains reveals substantial variation in underlying gene requirements for toxin tolerance. Maria Sardi|Vaishnavi Paithane|Michael Place|De Elegant Robinson|James Hose|Dana J. Wohlbach|Audrey P. Gasch University of Wisconsin Madison;|Dickinson College
http://dx.doi.org/10.1101/241265 2017-12-30 Genetics A Regression-based Framework for Scalable Pathway-guided Search in Genome-wide Association Studies. Shrayashi Biswas|Soumen Pal|Samsiddhi Bhattacharjee National Institute of Biomedical Genomics
http://dx.doi.org/10.1101/241240 2017-12-30 Ecology Factor analysis on the Tasmanian topsoil microscopic community Ayem Kakar|Yelena Kolezeva Charles Darwin University;|Charles Darwin University; Samara University
http://dx.doi.org/10.1101/241133 2017-12-30 Genomics CC BY-ND The Functional False Discovery Rate with Applications to Genomics Xiongzhi Chen|David G. Robinson|John D. Storey Washington State University;|Princeton University
http://dx.doi.org/10.1101/194696 2017-12-30 Developmental Biology Single-cell RNA-Seq Resolves Cellular Heterogeneity and Transcriptional Dynamics during Spermatogonia Stem Cells Establishment and Differentiation Jinyue Liao|Shuk Han Ng|Jiajie Tu|Alfred Chun Shui Luk|Yan Qian|Nelson Leung Sang Tang|Bo Feng|Wai-Yee Chan|Pierre Fouchet|Tin-Lap Lee The Chinese University of Hong Kong;|French Alternative Energy and Atomic Energy Commission
http://dx.doi.org/10.1101/241075 2017-12-30 Evolutionary Biology CC BY-NC-ND Pervasive and diverse collateral sensitivity profiles inform optimal strategies to limit antibiotic resistance Jeff Maltas|Kevin Wood University of Michigan
http://dx.doi.org/10.1101/241083 2017-12-30 Cell Biology Co-translational protein targeting facilitates centrosomal recruitment of PCNT during centrosome maturation Guadalupe Sepulveda|Mark Antkowiak|Ingrid Brust-Mascher|Karan Mahe|Tingyoung Ou|Noemi Castro|Lana N Christensen|Lee Cheung|Daniel Yoon|Bo Huang|Li-En Jao Department of Cell Biology and Human Anatomy, University of California, Davis, School of Medicine;|Department of Anatomy, Physiology and Cell Biology, University of California, Davis;|Department of Pharmaceutical Chemistry, University of California, San Francisco
http://dx.doi.org/10.1101/241125 2017-12-30 Neuroscience Analysis of ipsilateral corticocortical connectivity in the mouse brain Akiya Watakabe|Junya Hirokawa RIKEN;|Doshisha Univ
http://dx.doi.org/10.1101/240986 2017-12-30 Bioinformatics CC BY-NC-ND TCIApathfinder: an R client for The Cancer Imaging Archive REST API Pamela Russell|Kelly Fountain|Dulcy Wolverton|Debashis Ghosh Colorado School of Public Health;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/241174 2017-12-30 Plant Biology NRT1.1-dependent NH4+ toxicity in Arabidopsis is associated with disturbed balance between NH4+ uptake and assimilation Shaofen Jian|Qiong Liao|Haixing Song|Qiang Liu|Joe Eugene Lepo|Chunyun Guan|Jianhua Zhang|Zhenhua Zhang Hunan Agricultural University;|Center for Environmental Diagnostics and Bioremediation, University of West Florida;|Hong Kong Baptist University
http://dx.doi.org/10.1101/240887 2017-12-30 Bioinformatics PEA: an integrated R toolkit for plant epitranscriptome analysis Jingjing Zhai|Jie Song|Qian Cheng|Yunjia Tang|Chuang Ma Center of Bioinformatics, College of Life Sciences, Northwest A&F University
http://dx.doi.org/10.1101/233304 2017-12-30 Neuroscience Association of BDNF Val66Met Polymorphism and Brain BDNF levels with Major Depression and Suicide Mariam Youssef|Mark Underwood|Yung-Yu Huang|Shu-chi Hsiung|Yan Liu|Norman Simpson|Mihran Bakalian|Gorazd Rosoklija|Andrew J. Dwork|Victoria Arango|J. John Mann New York State Psychiatric Institute, Columbia University, NY, Minia University, Egypt;|New York State Psychiatric Institute, Columbia University NY;|New York State Psychiatric Institute, NY;|New York State Psychiatric Institute, NY, Macedonian Academy of Sciences and Arts, Rep. of Macedonia;|New York State Psychiatric Institute, Columbia University, NY
http://dx.doi.org/10.1101/241091 2017-12-30 Neuroscience CC BY-NC-ND Disrupted structural connectivity in Pediatric Bipolar Disorder Henrique M Fernandes|Joana Cabral|Tim J Van Hartevelt|Louis-David Lord|Carsten Gleesborg|Arne Moller|Gustavo Deco|Peter C Whybrow|Predrag Petrovic|Anthony C James|Morten L Kringelbach Department of Psychiatry, University of Oxford, Oxford, OX3 7JX, UK;|Center of Functionally Integrative Neuroscience (CFIN), Aarhus University, Aarhus, Denmark;|Theoretical and Computational Neuroscience Group, Center of Brain and Cognition, Universitat Pompeu;|Semel Institute for Neuroscience and Human Behavior, University of California, Los Angeles, USA;|Cognitive Neurophysiology Research Group, Department of Clinical Neuroscience, Karolinska Institute,
http://dx.doi.org/10.1101/241141 2017-12-30 Neuroscience Unconsciously Implanted Visuoauditory Memory in the Presence of Cholecystokinin Retrieved in Behavioral Contexts Zicong Zhang|Christine Xuejiao Zheng|Yujie Peng|Yiping Guo|Danyi Lu|Xiao Li|Wenjian Sun|Peng Tang|Sherry Ling He|Min Li|Qing Liu|Fuqiang Xu|Gabriel Ng|Xi Chen|Jufang He Boston Children's Hospital;|City University of Hong Kong;|Guangzhou Institute of Biomedicine and Health;|Wuhan Institute of Physics and Mathematics;|The Hong Kong Polytechnic University
http://dx.doi.org/10.1101/240499 2017-12-30 Molecular Biology CC BY-NC-ND On a non-trivial application of Algebraic Topology to Molecular Biology Ido Braslavsky|Joel Stavans Hebrew University of Jerusalem;|Weizmann Institute of Science
http://dx.doi.org/10.1101/241182 2017-12-30 Biophysics MicroED Structures of HIV-1 Gag CTD-SP1 Reveal Binding Interactions with the Maturation Inhibitor Bevirimat Michael D. Purdy|Dan Shi|Jakub Chrustowicz|Johan Hattne|Tamir Gonen|Mark Yeager University of Virginia School of Medicine;|Howard Hughes Medical Institute, Janelia Research Campus;|Howard Hughes Medical Institute and University of California, Los Angeles
http://dx.doi.org/10.1101/241356 2017-12-31 Genomics PRDM9 and an Epidemic of Gene Conversion and Non-Homologous Recombination among Alu Elements in Ancestral Gorillas Aaron Wacholder|David D Pollock University of Colorado School of Medicine
http://dx.doi.org/10.1101/241315 2017-12-31 Neuroscience CC BY-ND A topographic axis of transcriptional identity in thalamus James W Phillips|Anton Schulmann|Erina Hara|Chenghao Liu|Brenda Shields|Wyatt Korff|Andrew Lemire|Joshua Dudman|Sacha B Nelson|Adam Hantman HHMI Janelia Research Campus;|Brandeis University
http://dx.doi.org/10.1101/179036 2017-12-31 Plant Biology Symbiotic root infections in Medicago truncatula require remorin-mediated receptor stabilization in membrane nanodomains Pengbo Liang|Thomas F. Stratil|Claudia Popp|Macarena Marin|Jessica Folgmann|Kirankumar S. Mysore|Jiangqi Wen|Thomas Ott University of Freiburg, Faculty of Biology, Cell Biology;|University of Munich (LMU);|Noble Research Institute, Ardmore;|University of Freiburg
http://dx.doi.org/10.1101/241380 2017-12-31 Plant Biology Multivariate analysis reveals environmental and genetic determinants of element covariation in the maize grain ionome Alexandra Asaro|Brian Dilkes|Ivan Baxter Donald Danforth Plant Science Center;|Purdue University;|USDA-ARS
http://dx.doi.org/10.1101/241471 2017-12-31 Neuroscience Transcranial alternating current stimulation modulates auditory temporal resolution in elderly people Alina Baltus|Christoph S Herrmann Oldenburg University
http://dx.doi.org/10.1101/241414 2017-12-31 Bioinformatics DeepGS: Predicting phenotypes from genotypes using Deep Learning Wenlong Ma|Zhixu Qiu|Jie Song|Qian Cheng|Chuang Ma Center of Bioinformatics, College of Life Sciences, Northwest A&F University
http://dx.doi.org/10.1101/241208 2017-12-30 Cell Biology CC BY-NC-ND The mitochondrial Rho-GTPase, Miro, is resident at peroxisomes and regulates peroxisomal trafficking and morphology Christian Covill-Cooke|Guillermo Lopez-Domenech|Nicol Birsa|Josef T Kittler University College London
http://dx.doi.org/10.1101/241307 2017-12-30 Bioengineering CC BY-NC-ND Polypyrrole increases branching and neurite extension by Neuro2A cells on PBAT ultrathin fibers Alessandro E.C. Granato|Andre C. Ribeiro|Fernanda R. Marciano|Bruno V. M. Rodrigues|Anderson O. Lobo|Marimelia Porcionatto UNIFESP;|Universidade Brasil;|Harvard-MIT; Universidade Brasil
http://dx.doi.org/10.1101/241331 2017-12-30 Neuroscience CC BY-NC-ND The Class I E3 Ubiquitin Ligase TRIM67 Modulates Brain Development and Behavior Nicholas P Boyer|Caroline Monkiewicz|Sheryl S Moy|Stephanie Gupton University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/241539 2017-12-31 Caffeine downregulates inflammatory pathways involved in autoimmunity Merve Iris|Pei-Suen Tsou|Amr Sawalha University of Michigan and Marmara University;|University of Michigan
http://dx.doi.org/10.1101/241596 2017-12-31 CC BY PlasmoTron: an open-source platform for automated culture of malaria parasites Theo Sanderson|Julian C. Rayner Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/241554 2017-12-31 Scientific Communication and Education CC BY-ND Disequilibrium in Gender Ratios among Authors who Contributed Equally Nichole A Broderick|Arturo Casadevall University of Connecticut;|Johns Hopkins School of Public Health
http://dx.doi.org/10.1101/241521 2017-12-31 Plant Biology CC BY-NC Identification of an arabinopyranosyltransferase from Physcomitrella patens involved in the synthesis of the hemicellulose xyloglucan Lei Zhu|Murali Dama|Markus Pauly University of California, Berkeley;|Heinrich-Heine University Duesseldorf
http://dx.doi.org/10.1101/241505 2017-12-31 Bioinformatics CC BY-NC-ND A deep convolutional neural network approach for astrocyte detection Ilida Suleymanova|Tamas Balassa|Sushil Tripathi|Csaba Molnar|Mart Saarma|Yulia Sidorova|Peter Horvath Institute of Biotechnology (HiLIFE), University of Helsinki;|Hungarian Academy of Sciences, Biological Research Centre;|Helsinki Institute of Life Science (HiLIFE), Faculty of Medicine, University of Helsinki
http://dx.doi.org/10.1101/241562 2017-12-31 Ecology CC BY-NC Mesophotic Coral Ecosystems Inside and Outside a Caribbean Marine Protected Area Erika Gress|Maria J Arroyo-Gerez|Georgina Wright|Dominic A Andradi-Brown Conservation Leadership Programme
http://dx.doi.org/10.1101/241323 2017-12-31 Neuroscience Binocular System with Asymmetric Eyes Jacek Turski University of Houston-Downtown
http://dx.doi.org/10.1101/241372 2017-12-31 Biophysics Converting a broad matrix metalloproteinase family inhibitor into a specific inhibitor of MMP-9 and MMP-14 Jason Shirian|Valeria Arkadash|Itay Cohen|Tamila Sapir|Evette S Radisky|Niv Papo|Julia M Shifman Hebrew University Of Jerusalem;|Ben Gurion University fo the Negev;|Ben Gurion University of the Negev;|Hebrew University of Jerusalem;|Mayo Research Foundation
http://dx.doi.org/10.1101/241398 2017-12-31 Cancer Biology CC BY-NC-ND A Suv39H1-low chromatin state drives migratory cell populations in cervical cancer Calvin Rodrigues|Chitra Pattabiraman|Suma Mysore Narayana|Rekha V Kumar|Dimple Notani|Patrick Varga-Weisz|Sudhir Krishna National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bangalore, India;|Department of Pathology, Kidwai Cancer Institute, Bangalore, India;|The Babraham Institute, Cambridge, UK; & School of Biological Sciences, University of Essex, UK
http://dx.doi.org/10.1101/241497 2017-12-31 Biophysics Polarization of Myosin II refines tissue material properties to buffer mechanical stress. Maria Duda|Nargess Khalilgharibi|Nicolas Carpi|Anna Bove|Matthieu Piel|Guillaume Charras|Buzz Baum|Yanlan Mao MRC Laboratory for Molecular Cell Biology, University College London, Gower Street, London WC1E 6BT,;|London Centre for Nanotechnology, University College London, Gower Street, London WC1E 6BT, UK;|Institut Curie, PSL Research University, CNRS, UMR 144, 75005 Paris, France
http://dx.doi.org/10.1101/241190 2017-12-31 Bioinformatics CC BY-NC-ND Comparison of computational methods for imputing single-cell RNA-sequencing data Lihua Zhang|Shihua Zhang Academy of Mathematics and Systems Science, Chinese Academy of Sciences
http://dx.doi.org/10.1101/241026 2017-12-31 Bioinformatics CC BY-NC-ND AFCMEasyModel: An Easy Interface for Modeling Competing Endogenous RNA Networks using ODEs Mohammad Mansour Tarek Armed Forces College of Medicine (AFCM)
http://dx.doi.org/10.1101/241646 2018-01-01 CC BY-ND DECODE-ing sparsity patterns in single-cell RNA-seq Shahin Mohammadi|Jose Davila-Velderrain|Manolis Kellis|Ananth Grama Massachusetts Institute of Technology;|Purdue University
http://dx.doi.org/10.1101/241638 2018-01-01 CC BY-NC-ND Stability, incumbency and ecological reorganization after the Permian-Triassic mass extinction Peter D Roopnarine|Allen Weik|Kenneth D Angielczyk|Ashley A. Dineen California Academy of Sciences;|The Field Museum
http://dx.doi.org/10.1101/241703 2018-01-01 CC BY-NC-ND FabElm_BarcodeDb: matK barcode database of legumes Bharat Kumar Mishra|Sakshi Chaudhary|Jeshima K Yasin ICAR-NBPGR
http://dx.doi.org/10.1101/241661 2018-01-01 The influence of cortical depth on neuronal responses in mouse visual cortex Philip O'Herron|John J Woodward|Prakash Kara Medical University of South Carolina;|University of Minnesota
http://dx.doi.org/10.1101/240614 2018-01-01 CC BY-NC-ND Large-scale, high-resolution comparison of the core visual object recognition behavior of humans, monkeys, and state-of-the-art deep artificial neural networks Rishi Rajalingham|Elias B. Issa|Pouya Bashivan|Kohitij Kar|Kailyn Schmidt|James J DiCarlo Massachusetts Institute of Technology;|Columbia University
http://dx.doi.org/10.1101/241604 2018-01-01 CC BY-NC-ND Enhanced Waddington Landscape Model with Cell-Cell Communication Can Explain Molecular Mechanisms of Self-Organization Hosein Fooladi|Parsa Moradi|Ali Sharifi-Zarchi|Babak Hossein Khalaj Sharif University of Technology;|Sharif University of Technology and Royan Institute
http://dx.doi.org/10.1101/241679 2018-01-01 Regulation of individual differences in recruitment behaviour within honey bee foraging groups Ebi Antony George|Axel Brockmann National Centre for Biological Sciences
http://dx.doi.org/10.1101/241513 2018-01-01 CC BY-NC Using insects to detect, monitor and predict the distribution of Xylella fastidiosa: a case study in Corsica Astrid Cruaud|Anne-Alicia Gonzalez|Martin Godefroid|Sabine Nidelet|Jean-Claude Streito|Jean-Marc Thuillier|Jean-Pierre Rossi|Sylvain Santoni|Jean-Yves Rasplus INRA
http://dx.doi.org/10.1101/241794 2018-01-01 Machine learning based classification of deep brain stimulation outcomes in a rat model of binge eating using ventral striatal oscillations. Wilder Doucette|Lucas Dwiel|Jared E Boyce|Amanda A Simon|Jibran Y Khokhar|Alan I Green Dartmouth
http://dx.doi.org/10.1101/241620 2018-01-01 Micro-scale ecology regulates particulate organic matter turnover in model marine microbial communities Tim N Enke|Gabriel E Leventhal|Matthew Metzger|Jose T Saavedra|Otto X Cordero Department of Environmental Systems Science, ETH Zurich;|Department of Civil and Environmental Engineering, Massachusetts Institute of Technology
http://dx.doi.org/10.1101/241786 2018-01-01 Green trend of light extinction in canopy: new construction on image mining Abbas Haghshenas|Yahya Emam Shiraz University
http://dx.doi.org/10.1101/241406 2018-01-01 Neuroscience Acoustically Targeted Chemogenetics for Noninvasive Control of Neural Circuits Jerzy O Szablowski|Brian Lue|Audrey Lee-Gosselin|Dina Malounda|MIkhail G Shapiro California Institute of Technology
http://dx.doi.org/10.1101/189951 2018-01-01 Developmental Biology Non-canonical apical constriction shapes emergent matrices in C. elegans Sophie S Katz|Alison Renee Frand University of California Los Angeles
http://dx.doi.org/10.1101/241752 2018-01-01 Biophysics The effectiveness of glass beads for plating cell cultures Alidivinas Prusokas|Michele Hawkins|Conrad Nieduszynski|Renata Retkute University of York;|University of Oxford;|University of Warwick
http://dx.doi.org/10.1101/241653 2018-01-01 Genetics CC BY-NC-ND Defects in the neuroendocrine axis cause global development delay in a Drosophila model of NGLY1 Deficiency Tamy Rodriguez|Joshua Mast|Tom Hartl|Ethan Perlstein Perlara
http://dx.doi.org/10.1101/241802 2018-01-02 CC BY-NC-ND DAtest: a framework for choosing differential abundance or expression method Jakob Russel|Jonathan Thorsen|Asker D. Brejnrod|Hans Bisgaard|Soren J. Sorensen|Mette Burmolle University of Copenhagen;|Copenhagen Prospective Studies on Asthma in Childhood, COPSAC
http://dx.doi.org/10.1101/242065 2018-01-02 CC BY meaRtools: an R package for the Comprehensive Analysis of Neuronal Networks Recorded on Multi-Electrode Arrays Sahar Gelfman|Quanli Wang|Yi-Fan Lu|Diana Hall|Christopher Bostick|Ryan Dhindsa|Matt Halvorsen|K. Melodi McSweeney|Ellese Cotterill|Tom Edinburgh|Slave Petrovski|Michael J Boland|Andrew S Allen|David B Goldstein|Stephen J Eglen Columbia University Medical Center;|Westmont College;|University of North Carolina at Chapel Hill;|University of Cambridge;|University of Melbourne;|Duke University
http://dx.doi.org/10.1101/241869 2018-01-02 CC BY Benchmark of lncRNA Quantification for RNA-Seq of Cancer Samples Hong Zheng|Kevin Brennan|Mikel Hernaez|Olivier Gevaert Stanford University;|University of Illinois at Urbana-Champaign
http://dx.doi.org/10.1101/242123 2018-01-02 CC BY-NC Changes in genome organization of parasite-specific gene families during the Plasmodium transmission stages Evelien M Bunnik|Kate B Cook|Nelle Varoquaux|Gayani Batugedara|Jacques Prudhomme|Lirong Shi|Chiara Andolina|Leila S Ross|Declan Brady|David A Fidock|Francois Nosten|Rita Tewari|Photini Sinnis|Ferhat Ay|Jean-Philippe Vert|William Noble|Karine G Le Roch The University of Texas Health Science Center at San Antonio;|University of Washington;|University of California Berkeley;|University of California Riverside;|Johns Hopkins Bloomberg School of Public Health;|Mahidol University;|Columbia University Medical Center;|University of Nottingham;|Columbia University;|La Jolla Institute for Allergy & Immunology;|MINES ParisTech;|University of California, Riverside
http://dx.doi.org/10.1101/242156 2018-01-02 A Multi-layer, Self-aligning Hydrogel Micro-molding Process Offering a Fabrication Route to Perfusable 3D In-Vitro Microvasculature Hossein Heidari|Hayden Taylor UC Berkeley
http://dx.doi.org/10.1101/242073 2018-01-02 Biochemistry Comprehensive mapping of Cystic Fibrosis mutations to CFTR protein identifies mutation clusters and molecular docking predicts corrector binding site Steven V Molinski|Vijay M Shahani|Adithya S Subramanian|Stephen S MacKinnon|Geoffrey Woollard|Marcon Laforet|Onofrio Laselva|Leonard D Morayniss|Christine E Bear|Andreas Windemuth Cyclica Inc.;|Hospital for Sick Children;|Hospital for Sick Children, University of Toronto
http://dx.doi.org/10.1101/241901 2018-01-02 Cell Biology Dynamin-2 facilitates Atg9 recycling from nascent autophagosomes Alejandro Martorell Riera|Cinta Iriondo Martinez|Samuel Itskanov|Janos Steffen|Brett Roach|Carla M Koehler|Alexander M Van der Bliek David Geffen School of Medicine at UCLA;|UCLA
http://dx.doi.org/10.1101/240952 2018-01-02 Genetics CC BY Euchromatic histone methyltransferases regulate peripheral heterochromatin tethering via histone and non-histone protein methylations Alhad Ashok Ketkar|Radhika Arasala Rao|Neelam Kedia|Febina Ravindran|Vairavan Lakshmanan|Pankaj Kumar|Abhishek Mohanty|Shilpa Kumar|Sufi O. Raja|Akash Gulyani|Chandraprakash Chaturvedi|Marjorie Brand|Dasaradhi Palakodeti|Shravanti Rampalli Institute for Stem Cell Biology and Regenerative Medicine (inStem);|Institute for Stem Cell Biology and Regenerative Medicine, SASTRA University;|Sanjay Gandhi Postgraduate Institute of Medical Sciences;|Sprott Centre for Stem Cell Research;|Institute For Stem Cell Biology and Regenerative Medicine (inStem)
http://dx.doi.org/10.1101/241943 2018-01-02 Neuroscience CC BY Active avoidance requires inhibitory signaling in the rodent prelimbic prefrontal cortex Maria M Diehl|Christian Bravo-Rivera|Jose Rodriguez-Romaguera|Pablo Abner Pagan-Rivera|Anthony Burgos-Robles|Gregory Quirk University of Puerto Rico, Medical Sciences Campus, Puerto Rico;|University of North Carolina at Chapel Hill, Puerto Rico;|Massachusetts Institute of Technology, United States;|University of Puerto Rico, Puerto Rico
http://dx.doi.org/10.1101/241919 2018-01-02 Neuroscience An unbiased decoding of ventral striatal oscillations in a rat model of binge eating: Finding the balance between model complexity and performance. Lucas Dwiel|Michael A Connerney|Alan I Green|Jibran Y Khokhar|Wilder Doucette Dartmouth College;|Dartmouth
http://dx.doi.org/10.1101/242024 2018-01-02 Immunology Representativeness and robustness of TCR repertoire diversity assessment by high-throughput sequencing Wahiba Chaara|Encarnita Mariotti-Ferrandiz|Ariadna Gonzalez-Tort|Laura Florez|Adrien Six|David Klatzmann Sorbonne Univ, INSERM, UMR S 959, Immunol-Immunopathology- Immunotherapy
http://dx.doi.org/10.1101/241273 2018-01-02 Microbiology Comparative RNA-seq based transcriptomic analysis of Aspergillus nidulans recombinant strains overproducing heterologous glycoside hydrolases Andre Damasio|Felipe Calzado|Gabriela Felix Persinoti|Cesar Terrasan|Mariane Zubieta|Marcelo Rubio|Fabiano Contesini Institute of Biology, University of Campinas (UNICAMP);|Brazilian Bioethanol Science and Technology Laboratory (CTBE)
http://dx.doi.org/10.1101/242016 2018-01-02 Biochemistry Biochemical analyses reveal amino acid residues critical for cell cycle-dependent phosphorylation of human Cdc14A phosphatase by cyclin-dependent kinase 1 Sara Ovejero|Patricia Ayala|Marcos Malumbres|Felipe Pimentel-Muinos|Avelino Bueno|Maria P. Sacristan Inst de Biologia Molecul y Celular del Cancer, Univ de Salamanca, CSIC, Salamanca;|Centro Nacional de Investigaciones Oncologicas, Madrid, Spain
http://dx.doi.org/10.1101/241836 2018-01-02 Neuroscience CC BY-NC-ND Organization of Area hV5/MT+ in Subjects with Homonymous Visual Field Defects Amalia Papanikolaou|Georgios A Keliris|T. Dorina Papageorgiou|Ulrich Schiefer|Nikos K Logothetis|Stelios M Smirnakis University College London;|University of Antwerp;|Baylor College of Medicine;|Hochschule Aalen;|Max Planck Institute for Biological Cybernetics;|Harvard Medical School
http://dx.doi.org/10.1101/240861 2018-01-02 Cancer Biology Candidate urine biomarker discovery from only five pairs of samples before and after tumor resection in glioma patients Jianqiang Wu|Jun Zhang|Yuanli Zhao|Youhe Gao Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences;|Peking University International Hospital, Peking University;|Beijing Tian Tan Hospital, Capital Medical University;|Beijing Normal University
http://dx.doi.org/10.1101/241976 2018-01-02 Cell Biology CC BY Phospholipid flipping facilitates annexin translocation across membranes Sarah E Stewart|Avraham Ashkenazi|Athena Williamson|David C Rubinsztein|Kevin Moreau University of Cambridge
http://dx.doi.org/10.1101/241851 2018-01-02 Developmental Biology CC BY-NC-ND Chromosome Removal Via Cellular Fragmentation and Aneuploid Blastomere Exclusion in Primate Embryos Brittany L. Daughtry|Jimi L Rosenkrantz|Nathan H. Lazar|Suzanne S. Fei|Nash Redmayne|Kristof A. Torkenczy|Andrew Adey|Lina Gao|Byung Park|Kimberly A. Nevonen|Lucia Carbone|Shawn L. Chavez Oregon Health & Science University
http://dx.doi.org/10.1101/241927 2018-01-02 Developmental Biology CC BY-ND HMGA1 zebrafish co-orthologue hmga1b can modulate p53-dependent cellular responses but is unable to control the alternative splicing of psen1 Seyyed Hani Moussavi Nik|Morgan Newman|Amanda Lumsden|Tanya Jayne|Michael Lardelli The Univeristy of Adelaide;|Flinders Univeristy
http://dx.doi.org/10.1101/241810 2018-01-02 Biophysics CC BY-NC-ND Pattern, Pathways and Dynamics of EphA2 SAM and SHIP2 SAM Heterodimer Association Revealed by All-Atom Molecular Dynamics Simulation ZHENLU LI|Matthias Buck Case Western Reserve University;|Case Western Reserve University, School of Medicine
http://dx.doi.org/10.1101/239822 2018-01-03 Biochemistry CC BY-ND Methylation of E. coli Class I Release Factors Increases the Accuracy of Translation Termination in vitro Gurkan Korkmaz Department of Cell and Molecular Biology, Uppsala University
http://dx.doi.org/10.1101/242230 2018-01-03 Genomics The genome of the water strider Gerris buenoi reveals expansions of gene repertoires associated with adaptations to life on the water David Armisen|Rajendhran Rajakumar|Markus Friedrich|Joshua B Benoit|Hugh M Robertson|Kristen A Panfilio|Seung-Joon Ahn|Monica F Poelchau|Hsu Chao|Huyen Dinh|HarshaVardhan Doddapaneni|Shannon Dugan-Perez|Richard A Gibbs|Daniel ST Hughes|Yi Han|Sandra L Lee|Shwetha C Murali|Donna M muzny|Jiaxin Qu|Kim C Worley|Monica Munoz-Torres|Ehab Abouheif|Francois Bonneton|Travis Chen|Christopher Childers|Andrew G Cridge|Antonin JJ Crumiere|Amelie Decaras|Elise M Didion|Elizabeth Duncan|Elena N Elpidina|Marie-Julie Fave|Cedric Finet|Chris GC Jacobs|Alys Jarvela|Emily J Jennings|Jeffery W Jones|Maryna P Lesoway|Mackenzie Lovegrove|Alexander Martynov|Brenda Oppert|Angelica Lilico-Ouachour|Arjuna Rajakumar|Peter N Refki|Andrew J Rosendale|Maria Emilia Santos|William Toubiana|Maurijn van der Zee|Iris M Vargas Jentzsch|Aidamalia Vargas Lowman|Severine Viala|Stephen Richards|Abderrahman Khila Institut de Genomique Fonctionnelle de Lyon;|Department of Molecular Genetics & Microbiology and UF Genetics Institute, University of Florida;|Department of Biological Sciences, Wayne State University;|Department of Biological Sciences, McMicken College of Arts and Sciences, University of Cincinnati;|Department of Entomology, University of Illinois at Urbana-Champaign;|School of Life Sciences, University of Warwick;|Department of Crop and Soil Science, Oregon State University;|USDA Agricultural Research Service, National Agricultural Library;|Human Genome Sequencing Center, Baylor College of Medicine;|Howard Hughes Medical Institute, University of Washington;|Lawrence Berkeley National Laboratory,;|Department of Biology, McGill University;|Institut de Genomique Fonctionnelle de Lyon, Universite de Lyon;|Laboratory for Evolution and Development, Department of Biochemistry, University of Otago;|School of Biology, Faculty of Biological Sciences, University of Leeds;|A.N. Belozersky Institute of Physico-Chemical Biology, Moscow State University;|Institute of Biology, Leiden University;|University of Maryland;|Center for Data-Intensive Biomedicine and Biotechnology, Skolkovo Institute of Science and Technolog;|USDA Agricultural Research Service, Center for Grain and Animal Health Research;|Max-Planck-Institut fur Evolutionsbiologie. Department of Evolutionary Genetics.;|Institute for Zoology: Developmental Biology, University of Cologne;|Human Genome Sequencing Center, Department of Human and Molecular Genetics, Baylor College of Medici
http://dx.doi.org/10.1101/242388 2018-01-03 Neuroscience CC BY-NC-ND Power spectrum slope and motor function recovery after focal cerebral ischemia in the rat Susan Leemburg|Bo Gao|Ertugrul Cam|Johannes Sarnthein|Claudio L. Bassetti University of Zurich;|University Clinic for Neurology, Inselspital, Bern, Switzerland;|Department of Neurosurgery, University Hospital Zurich, Switzerland
http://dx.doi.org/10.1101/242263 2018-01-03 Genetics DNA barcodes and insights into the phylogenetic relationships of butter-flies of the genus Eurema (Pieridae) from Uttarakhand, India Ankita Rajpoot|Archana Bahuguna Zoological Survey of India;|-;|Zoological Survey of India,NRC
http://dx.doi.org/10.1101/242198 2018-01-03 Neuroscience Aged blood inhibits hippocampal neurogenesis and activates microglia through VCAM1 at the blood-brain barrier Hanadie Yousef|Cathrin J Czupalla|Davis Lee|Ashley Burke|Michelle Chen|Judith Zandstra|Elisabeth Berber|Benoit Lehallier|Vidhu Mathur|Ramesh V Nair|Liana Bonanno|Taylor Merkel|Markus Schwaninger|Stephen Quake|Eugene C Butcher|Tony Wyss-Coray Stanford University School of Medicine;|Stanford University
http://dx.doi.org/10.1101/242214 2018-01-03 Neuroscience Cross-Modal Cue Effects in Motion Transparency Processing Grant M. Hanada|Jyrki Ahveninen|Finnegan J. Calabro|Aaron Yengo-Kahn|Lucia M. Vaina Brain and Vision Research Laboratory, Department of Biomedical Engineering, Boston University;|Harvard Medical School -- Massachusetts General Hospital
http://dx.doi.org/10.1101/242313 2018-01-03 Systems Biology CC BY-NC-ND Glycolytic repression and reduced GLP-1 secretion by active Farnesoid X Receptor in enteroendocrine L cells achieved via PKLR Kristoffer Niss|Sren Brunak Novo Nordisk Foundation Center for Protein Research
http://dx.doi.org/10.1101/242321 2018-01-03 Systems Biology CC BY-ND Algebraic Shortcuts for Leave-One-Out Cross-Validation in Supervised Network Inference Michiel Stock|Tapio Pahikkala|Antti Airola|Willem Waegeman|Bernard De Baets KERMIT, Department of Data Analysis and Mathematical Modelling, Ghent University;|Department of Future Technologies, University of Turku
http://dx.doi.org/10.1101/242271 2018-01-03 Plant Biology CC BY-NC-ND A Barley Powdery Mildew Fungus Non-Autonomous Retrotransposon Encodes a Peptide that Supports Penetration Success on Barley Mathias Nottensteiner|Bernd Zechmann|Christopher McCollum|Ralph Huckelhoven TU Munich;|Baylor University
http://dx.doi.org/10.1101/242289 2018-01-03 Neuroscience CC BY-ND Time-restricted foraging under natural light/dark condition shifts the molecular clock in the honey bee, Apis mellifera Rikesh Jain|Axel Brockmann SASTRA University, Thirumalaisamudram, Thanjavur-613401, Tamil Nadu, India;|National Centre for Biological Sciences
http://dx.doi.org/10.1101/242636 2018-01-03 CC BY-NC-ND Tracing the History of LINE and SINE Extinction in Sigmodontine Rodents Lei Yang|Holly A Wichman University of Idaho
http://dx.doi.org/10.1101/242495 2018-01-03 Viral gain-of-function experiments uncover residues under diversifying selection in nature Rohan Maddamsetti|Daniel T. Johnson|Stephanie J. Spielman|Katherine L. Petrie|Debora S. Marks|Justin R. Meyer Harvard Medical School;|University of California, San Diego;|Temple University
http://dx.doi.org/10.1101/242941 2018-01-04 CHC22 Clathrin Diverts GLUT4 from the ER-to-Golgi Intermediate Compartment for Intracellular Sequestration Stephane M. Camus|Marine D. Camus|Leigh Amanda Sadacca|Christopher Esk|Gwyn W. Gould|Dimitrios Kioumourtzoglou|Nia J. Bryant|Shaeri Mukherjee|Frances M. Brodsky University College London;|IMBA Institute of Molecular Biotechnology GmbH;|University of Glasgow;|University of York;|University of California San Francisco
http://dx.doi.org/10.1101/242842 2018-01-04 CC BY Phylogenetic distribution of roseobacticides in the Roseobacter group and their effect on microalgae Eva C Sonnenschein|Christopher Broughton William Phippen|Mikkel Bentzon-Tilia|Silas Anselm Rasmussen|Kristian Fog Nielsen|Lone Gram Technical University of Denmark
http://dx.doi.org/10.1101/243006 2018-01-04 CC BY-NC-ND Reward signalling in brainstem nuclei under glycemic flux Tobias Morville|Kristoffer Madsen|Hartwig Siebner|Oliver James Hulme Danish Research Centre for Magnetic Resonance;|Danish Research Ctr for Magnetic Resonance, Dept of Neurology, Copenhagen Univ
http://dx.doi.org/10.1101/242990 2018-01-04 Identifying and exploiting trait-relevant tissues with multiple functional annotations in genome-wide association studies Xingjie Hao|Ping Zeng|Shujun Zhang|Xiang Zhou University of Michigan;|Huazhong Agricultural University
http://dx.doi.org/10.1101/242834 2018-01-04 Evolutionary Biology Symbiont switching and alternative resource acquisition strategies drive mutualism breakdown Gijsbert D.A. Werner|Johannes H.C. Cornelissen|William K Cornwell|Nadejda A Soudzilovskaia|Jens Kattge|Stuart A West|E. Toby Kiers Department of Zoology, University of Oxford;|Dept of Ecological Sciences, Vrije Universiteit Amsterdam, The Netherlands;|School of Biol, Earth & Environmental Sciences, Univ of New South Wales, Australia;|Conservation Biology Dept, Institute of Environmental Sciences, CML, Leiden Univ;|Max Planck Institute for Biogeochemistry, Jena, Germany
http://dx.doi.org/10.1101/242040 2018-01-04 Pathology Targeting the DNM3OS / miR-199a~214 cluster for the treatment of fibroproliferative diseases Gregoire Savary|Matthieu Buscot|Edmone Dewaeles|Serena Diazzi|Nicolas Nottet|Elisabeth Courcot|Julien Fassy|Kevin Lebrigand|Imene Sarah Henaoui|Nihal Martis|Cynthia Van der Hauwaert|Sylvie Leroy|Laurent Plantier|Agnes Paquet|Christian L Lino Cardenas|Georges Vassaux|Bruno Crestani|Benoit Wallaert|Roger Rezzonico|Thierry Brousseau|Francois Glowacki|Saverio Bellusci|Michael Perrais|Franck Broly|Pascal Barbry|Charles-Hugo Marquette|Christelle Cauffiez|Nicolas Pottier|Bernard Mari University Cote d'Azur, CNRS, IPMC, France;|Univ. Lille, EA 4483 - IMPECS, Lille, France;|CHU-Nice, Department of Pneumology, Nice, France;|CEPR, INSERM, UMR1100, University Francois Rabelais, Tours, France;|Hopital Bichat, INSERM U1152, University Paris Diderot, France;|Service de Pneumologie et Immunoallergologie, CHRU Lille, Lille, France;|CHU Lille, Service de Biochimie, Lille, France;|CHU Lille, Service de Nephrologie, Lille, France;|ECCPS, Justus-Liebig-University, Giessen, Germany;|Univ. de Lille, UMR-S 1172 - JPArc - Lille, France;|CHU-Nice, Department of Pneumology, 06000 Nice, France
http://dx.doi.org/10.1101/242685 2018-01-04 Neuroscience Acute Hyperalgesia and Delayed Dry Eye After Corneal Abrasion Injury Deborah M Hegarty|Sam M Hermes|Michael M Morgan|Sue A Aicher Oregon Health & Science University;|Washington State University
http://dx.doi.org/10.1101/242735 2018-01-04 Bioinformatics CC BY-NC-ND Unrelated Donor Selection for Stem Cell Transplants using Predictive Modelling Adarsh Sivasankaran|Eric Williams|Martin Maiers|Vladimir Cherkassky University of Minnesota, MN, USA;|Center for International Blood and Marrow Transplant Research (CIBMTR), MN, USA
http://dx.doi.org/10.1101/242966 2018-01-04 Molecular Biology Transient N-6-methyladensosine Transcriptome sequencing reveals a regulatory role of m6A in splicing efficiency Annita Louloupi|Evgenia Ntini|Thomas Conrad|Ulf Andersson Orom Max Planck Institut for Molecular Genetics;|Max Planck Institute for Molecular Genetics, Berlin, Germany;|Max Delbruck Center, Berlin, Germany;|Aarhus University
http://dx.doi.org/10.1101/242891 2018-01-04 Cancer Biology CC BY-NC-ND Mutational landscape of a chemically-induced mouse model of liver cancer Frances Connor|Tim F Rayner|Christine Feig|Sarah J Aitken|Margus Lukk|Duncan T Odom Cancer Research UK Cambridge Institute, University of Cambridge
http://dx.doi.org/10.1101/242206 2018-01-04 Evolutionary Biology CC BY Mechanism of evolution by genetic assimilation: Equivalence and independence of genetic mutation and epigenetic modulation in phenotypic expression Ken Nishikawa|Akira R. Kinjo National Institute of Genetics;|Institute for Protein Research, Osaka University
http://dx.doi.org/10.1101/242149 2018-01-04 Genetics CC BY-NC-ND Genome-wide association study of 1 million people identifies 111 loci for atrial fibrillation Jonas Bille Nielsen|Rosa B Thorolfsdottir|Lars G Fritsche|Wei Zhou|Morten W Skov|Sarah E Graham|Todd J Herron|Shane McCarthy|Ellen M Schmidt|Gardar Sveinbjornsson|Ida Surakka|Michael R Mathis|Masatoshi Yamazaki|Ryan D Crawford|Maiken E Gabrielsen|Anne Heidi Skogholt|Oddgeir L Holmen|Maoxuan Lin|Brooke N Wolford|Rounak Dey|Havard Dalen|Patrick Sulem|Jonathan H Chung|Joshua D Backman|David O Arnar|Unnur Thorsteinsdottir|Aris Baras|Colm ODushlaine|Anders G Holst|Xiaoquan Wen|Whitney Hornsby|Frederick E Dewey|Michael Boehnke|Sachin Kheterpal|Seunggeun Lee|Hyun M Kang|Hilma Holm|Jacob Kitzman|Jordan A Shavit|Jose Jalife|Chad M Brummett|Tanya M Teslovich|David J Carey|Daniel F Gudbjartsson|Kari Stefansson|Goncalo R Abecasis|Kristian Hveem|Cristen Willer University of Michigan, Ann Arbor, Michigan, United States.;|deCODE genetics/Amgen, Inc., Reykjavik, Iceland.;|Norwegian University of Science and Technology, Levanger, Norway.;|Copenhagen University Hospital, Rigshospitalet, Copenhagen, Denmark.;|Regeneron Genetics Center, Tarrytown, NY, United States.;|The University of Tokyo, Japan.;|St. Olavs University Hospital, Trondheim University Hospital, Norway.;|University of Iceland, Reykjavik, Iceland.;|University of Michigan, Ann Arbor, Michigan.;|Geisinger Health System, Danville, PA, USA.
http://dx.doi.org/10.1101/242404 2018-01-04 Genetics CC BY-NC-ND Generalizing Genetic Risk Scores from Europeans to Hispanics/Latinos Kelsey E Grinde|Qibin Qi|Timothy A Thornton|Simin Liu|Aladdin H Shadyab|Kei Hang K Chan|Alexander P Reiner|Tamar Sofer University of Washington;|Albert Einstein College of Medicine;|Brown University;|University of California San Diego;|Fred Hutchinson Cancer Research Center;|Harvard Medical School, Brigham and Women's Hospital
http://dx.doi.org/10.1101/242719 2018-01-04 Bioinformatics CC BY-NC-ND Machine Learning approach to Predicting Stem-Cell Donor Availability Adarsh Sivasankaran|Eric Williams|Galen E Switzer|Vladimir Cherkassky|Martin Maiers Bioinformatics and Computational Biology, University of Minnesota, MN, USA;|Center for International Blood and Marrow Transplant Research (CIBMTR), MN, USA;|Departments of Medicine, Psychiatry and Clinical and Translational Science, University of Pittsburgh;|Department of Electrical and Computer Engineering, University of Minnesota, MN, USA
http://dx.doi.org/10.1101/242305 2018-01-04 Microbiology CC BY The Tudor protein Veneno assembles the ping-pong amplification complex that produces viral piRNAs in Aedes mosquitoes Joep Joosten|Pascal Miesen|Bas Pennings|Pascal W. Jansen|Martijn A. Huynen|Michiel Vermeulen|Ronald P. Van Rij Radboud University Medical Center
http://dx.doi.org/10.1101/242560 2018-01-04 Ecology CC BY-NC-ND Impacts of a millennium drought on butterfly faunal dynamics Matthew L Forister|James A Fordyce|Chris C Nice|James H Thorne|David P Waetjen|Arthur M Shapiro University of Nevada, Reno;|University of Tennessee, Knoxville;|Texas State University, San Marcos;|University of California, Davis
http://dx.doi.org/10.1101/242982 2018-01-04 Neuroscience CC BY-NC-ND Identifying associations in dense connectomes using structured kernel principal component regression Weikang Gong|Fan Cheng|Edmund T. Rolls|Lingli Zhang|Stefan Gruenewald|Jianfeng Feng Partner Institute for Computational Biology, Chinese Academy of Sciences;|Fudan Uuniversity;|University of Warwick;|Shanghai Jiao Tong University School of Medicine;|Fudan University
http://dx.doi.org/10.1101/242644 2018-01-04 Neuroscience Sleep-like bistability, loss of causality and complexity in the brain of Unresponsive Wakefulness Syndrome patients Mario Rosanova|Matteo Fecchio|Silvia Casarotto|Simone Sarasso|Adenauer G Casali|Andrea Pigorini|Angela Comanducci|Francesca Seregni|Guya Devalle|Olivier Bodart|Melanie Boly|Olivia Gosseries|Steven Laureys|Marcello Massimini Department of Biomedical and Clinical Sciences, University of Milan, Milan, Italy;|Instituto de Ciencia e Tecnologia, Universidade Federal de Sao Paulo, Sao Jose dos Campos, Brazil;|Department of Paediatrics, Cambridge University Hospital NHS Foundation Trust, Cambridge, UK;|IRCCS Fondazione Don Gnocchi Onlus, Milan, Italy;|GIGA-consciousness, Coma Science Group, University and University Hospital of Liege, Liege, Belgium;|Department of Neurology, University of Wisconsin, Madison, Wisconsin 53705
http://dx.doi.org/10.1101/242586 2018-01-04 Immunology CC BY-NC-ND B cell defects observed in Nod2 knockout mice are a consequence of a Dock2 mutation frequently found in inbred strains Serre-Yu Wong|Maryaline Coffre|Deepshika Ramanan|Luis E. Gomez|Lauren Peters|Eric Schadt|Sergei Koralov|Ken Cadwell Icahn School of Medicine at Mount Sinai;|New York University School of Medicine
http://dx.doi.org/10.1101/242412 2018-01-04 Neuroscience The method of modeling the human EEG by calculating radial traveling waves on the folded surface of the human cerebral cortex Vitaly M Verkhlyutov|Vladislav V Balaev IHNA&NPh RAS
http://dx.doi.org/10.1101/242958 2018-01-04 Microbiology CC BY Chromatin Functional States Correlate with HIV Latency Reversal in Infected Primary CD4+ T Cells Emilie Battivelli|Matthew S Dahabieh|Mohamed Abdel-Mohsen|J. Peter Svensson|Israel Tojal Da Silva|Lilian B Cohn|Andrea Gramatica|Steven Deeks|Warner C. Greene|Satish K Pillai|Eric Verdin Buck Institute For Research On Aging, United States;|Gladstone Institute, United States;|Wistar institute, United States;|Karolinska Institutet, Sweden;|Camargo Cancer Center, Brazil;|The Rockefeller University, United States;|Gladstone Institutes, United States;|University of California, San Francisco, United States;|The J. David Gladstone Institutes, United States;|Blood Systems Research Institute, United States
http://dx.doi.org/10.1101/242511 2018-01-04 Neuroscience CC BY-NC Dissociation of immediate and delayed effects of emotional arousal on episodic memory Dirk SchUmann;|Janine Bayer|Deborah Talmi|Tobias Sommer Medical Center Hamburg-Eppendorf;|University of Manchester
http://dx.doi.org/10.1101/242347 2018-01-04 Plant Biology A Comprehensive Tool Set for Inducible, Cell Type-Specific Gene Expression in Arabidopsis Ann-Kathrin Schuerholz|Vadir Lopez-Salmeron|Zhenni Li|Joachim Forner|Christian Wenzl|Christophe Gaillochet|Sebastian Augustin|Amaya Vilches Barro|Michael Fuchs|Michael Gebert|Joop E.M. Vermeer|Jan U. Lohmann|Thomas Greb|Sebastian Wolf Centre for Organismal Studies Heidelberg;|University of Zurich
http://dx.doi.org/10.1101/242297 2018-01-04 Evolutionary Biology CC BY Is the blunderbuss a misleading visual metaphor for stasis and punctuated evolution? John Waller Lund University
http://dx.doi.org/10.1101/242651 2018-01-04 Neuroscience Ongoing, rational calibration of reward-driven perceptual biases Yunshu Fan|Josh I Gold|Long Ding University of Pennsylvania
http://dx.doi.org/10.1101/242503 2018-01-04 Biophysics CC BY-NC-ND The extent of B-form structure in a 6S RNA variant that mimics DNA to bind to the Escherichia coli RNA Polymerase Nilesh Kishor Banavali Wadsworth Center, New York State Department of Health
http://dx.doi.org/10.1101/242131 2018-01-04 Animal Behavior and Cognition CC BY-NC-ND High-magnitude innovators as keystone individuals in the evolution of culture Michal Arbilly Emory University
http://dx.doi.org/10.1101/242768 2018-01-04 Developmental Biology Asymmetric histone incorporation during DNA replication in Drosophila male germline stem cells Matthew Wooten|Zehra Nizami|Xinxing Yang|Jonathan Snedeker|Rajesh Ranjan|Jee Min Kim|Elizabeth Urban|Vuong Tran|Jackson Buss|Joseph Gall|Jie Xiao|Xin Chen Department of Biology, The Johns Hopkins University;|Department of Embryology, Carnegie Institution for Science;|Department of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/242420 2018-01-04 Plant Biology Root Responses to Heterogeneous Nitrate Availability are Mediated by trans-Zeatin in Arabidopsis Shoots Arthur Poitout|Amandine Crabos|Ivan Petrik|Ondrej Novak|Gabriel Krouk|Benoit Lacombe|Sandrine Ruffel Laboratoire de Biochimie et Physiologie Moléculaire des Plantes;|Institute of Experimental Botany CAS and Faculty of Science of Palacký University
http://dx.doi.org/10.1101/241448 2018-01-04 Evolutionary Biology CC BY-NC-ND Synchronous diversification of Sulawesi's iconic artiodactyls driven by recent geological events Laurent Frantz|Anna Rudzinski|Abang Mansyursyah Surya Nugraha|Allowen Evin|James Burton|Ardern Hulme-Beaman|Anna Linderholm|Ross Barnett|Rodrigo Vega|Evan Irving-Pease|James Haile|Richard Allen|Kristin Leus|Jill Shephard|Mia Hillyer|Sarah Gillemot|Jeroen van den Hurk|Sharron Ogle|Cristina Atofanei|Mark Thomas|Friederike Johansson|Abdul Mustari|John Williams|Kusdiantoro Mohamad|Chandramaya Damayanti|Ita Wiryadi|Dagmar Obbles|Hally Day|Muhammad Yasin|Stefan Meker|Jimmy McGuire|Ben Evans|Thomas von Rintelen|Simon Ho|Jeremy Searle|Andrew Kitchener|Alastair Macdonald|Darren Shaw|Robert Hall|Peter Galbusera|Greger Larson Queen Mary University of London;|University College London;|Royal Holloway University of London;|Universite de Montpellier;|University of Edinburgh;|University of Liverpool;|Texas A&M University;|University of Copenhagen;|Canterbury Christ Church University;|University of Oxford;|University of Copenhaguen;|Copenhagen Zoo;|Murdoch University;|Western Australian Museum;|Royal Zoological Society of Antwerp;|Gothenburg Natural History Museum;|Bogor Agricultural University;|University of Adelaide;|KU Leuven;|NA;|State Museum of Natural History Stuttgart;|University of California, Berkeley;|McMaster University;|Leibniz Institute for Evolution and Biodiversity Science;|University of Sydney;|Cornell University;|National Museums Scotland
http://dx.doi.org/10.1101/242867 2018-01-04 Neuroscience CC BY Efficient neural decoding of spatial location with a deep recurrent network Ardi Tampuu|Tambet Matiisen|Hauur Freyja Olafsdottir|Caswell Barry|Raul Vicente Institute of Computer Science, University of Tartu;|Department of Cell and Developmental Biology, University College London
http://dx.doi.org/10.1101/242792 2018-01-04 Genomics CC BY-NC-ND Putative bovine topological association domains and CTCF binding motifs can reduce the search space for causative regulatory variants of complex traits Min Wang|Timothy P Hancock|Amanda J Chamberlain|Christy J Vander Jagt|Jennie E Pryce|Benjamin G Cocks|Mike E Goddard|Benjamin J Hayes Agriculture Victoria
http://dx.doi.org/10.1101/242693 2018-01-04 Neuroscience A polymer probe-based system for high density, long-lasting electrophysiological recordings across distributed neuronal circuits Jason E Chung|Hannah R Joo|Jiang Lan Fan|Daniel F Liu|Alex H Barnett|Supin Chen|Charlotte Geaghan-Breiner|Mattias P Karlsson|Magnus Karlsson|Kye Y Lee|Hexin Liang|Jeremy F Magland|W Hamish Mehaffey|Angela C Tooker|Michael S Brainard|Leslie F Greengard|Vanessa M Tolosa|Loren M Frank University of California, San Francisco;|Center for Computational Biology, Flatiron Institute;|Lawrence Livermore National Laboratory;|SpikeGadgets LLC
http://dx.doi.org/10.1101/242594 2018-01-04 Neuroscience CC BY-NC-ND Uncovering temporal structure in hippocampal output patterns Koroush Maboudi|Etienne Ackermann|Brad E Pfeiffer|David J Foster|Kamran Diba|Caleb Kemere University of Michigan;|Rice University;|University of Texas Southwestern Medical Center;|University of California, Berkeley
http://dx.doi.org/10.1101/242776 2018-01-04 Genetics CC BY-NC-ND The Shared Genetic Basis of Human Fluid Intelligence and Brain Morphology Tian Ge|Chia-Yen Chen|Richard Vettermann|Lauri J. Tuominen|Daphne J. Holt|Mert R. Sabuncu|Jordan W. Smoller Massachusetts General Hospital, Harvard Medical School;|Cornell University
http://dx.doi.org/10.1101/242818 2018-01-04 Bioinformatics Breast Cancer Histopathological Image Classification: A Deep Learning Approach Nima Habibzadeh Motlagh|Mahboobeh Jannesary|HamidReza Aboulkheyr|Pegah Khosravi|Olivier Elemento|Mehdi Totonchi|Iman Hajirasouliha Royan Institute;|Weill Cornell Medicine of Cornell University
http://dx.doi.org/10.1101/242933 2018-01-04 Cancer Biology CC BY-NC-ND Differential regulation of microRNA-15a by radiation affects angiogenesis and tumor growth via modulation of acid sphingomyelinase Shushan Rana|Cristina Espinosa-Diez|Rebecca Ruhl|Charles R Thomas|Sudarshan Anand OHSU
http://dx.doi.org/10.1101/242701 2018-01-04 Bioengineering CC BY-NC-ND An Automated Workflow for Segmenting Single Adult Cardiac Cells from Large-Volume Serial Block-Face Scanning Electron Microscopy Data Akter Hussain|Shouryadipta Ghosh|Siavash Beikoghli Kalkhoran|Derek Hausenloy|Eric Hanssen|Vijay Rajagopal University of Melbourne;|University College London;|University College London, National University of Singapore
http://dx.doi.org/10.1101/242784 2018-01-04 Neuroscience CC BY-NC-ND Inhalation frequency controls reformatting of mitral/tufted cell odor representations in the olfactory bulb Marta Diaz-Quesada|Isaac A. Youngstrom|Yusuke Tsuno|Kyle R. Hansen|Michael Nicholas Economo|Matt Wachowiak University of Utah;|HHMI/Janelia Research Campus
http://dx.doi.org/10.1101/242446 2018-01-04 Biophysics Cryo-EM structure of an early precursor of large ribosomal subunit reveals a half assembled intermediate Dejian Zhou|Xing Zhu|Sanduo Zheng|Dan Tan|Meng-Qiu Dong|Keqiong Ye Institute of Biophysics, Chinese Academy of Sciences;|National Institute of Biological Sciences, Beijing
http://dx.doi.org/10.1101/242438 2018-01-04 Neuroscience CC BY Acetylcholine-dependent phasic dopamine activity signals exploratory locomotion and choices Jeremie Naude|Steve Didienne|Samir Takillah|Clement Prevost-Solie|Uwe Maskos|Philippe Faure Université Pierre et Marie Curie;|French Armed Forces Biomedical Research Institute;|Institut Pasteur
http://dx.doi.org/10.1101/242529 2018-01-04 Cell Biology CC BY-NC Gemin4 is an essential gene in mice, and its overexpression in human cells causes relocalization of the SMN complex to the nucleoplasm Ingo D. Meier|Michael P. Walker|A. Gregory Matera University of North Carolina
http://dx.doi.org/10.1101/242461 2018-01-04 Developmental Biology CC BY-ND An Epiblast Stem Cell derived multipotent progenitor population for axial extension Shlomit Edri|Penelope Hayward|Peter Baillie-Johnson|Benjamin Steventon|Alfonso Martinez Arias University of Cambridge
http://dx.doi.org/10.1101/242370 2018-01-04 Developmental Biology CC BY-NC-ND NvERTx: A gene expression database to compare Embryogenesis and Regeneration in the sea anemone Nematostella vectensis Jacob Warner|Vincent Guerlais|Aldine Amiel|Hereroa Johnston|Karine Nedoncelle|Eric Rottinger University Cote d'Azur / CNRS / INSERM
http://dx.doi.org/10.1101/243154 2018-01-04 CC BY-NC-ND The impact of stimulus size and orientation on individual face decoding in monkey face-selective cortex. Jessica Taubert|Goedele Van Belle|Rufin Vogels|Bruno Rossion The National Institutes of Mental Health;|University of Louvain;|KU Leuven;|Centre Hospitalier Universitaire de Nancy
http://dx.doi.org/10.1101/243162 2018-01-04 CC BY-NC-ND Peripheral, intrareceptor inhibition in mosquito olfaction Pingxi Xu|Young-Moo Choo|Zhou Chen|Fangfang Zeng|Kaiming Tan|Tsung-Yu Chen|Anthony J Cornel|Nannan Liu|Walter S Leal University of California-Davis;|Auburn University
http://dx.doi.org/10.1101/243188 2018-01-04 CC BY-ND MiCoP: Microbial Community Profiling method for detecting viral and fungal organisms in metagenomic samples Nathan LaPierre|Serghei Mangul|Mohammed Alser|Igor Mandric|Nicholas C. Wu|David Koslicki|Eleazar Eskin University of California, Los Angeles;|Bilkent University;|Georgia State University;|The Scripps Research Institute;|Oregon State University
http://dx.doi.org/10.1101/235325 2018-01-04 CC BY-NC-ND Mapping and dynamics of regulatory DNA during seed development Alessandra M Sullivan|Andrej A Arsovski|Agnieszka Thompson|Richard Sandstrom|Robert E Thurman|Shane Neph|Audra K Johnson|Shawn T Sullivan|Peter J Sabo|Fidencio V Neri|Molly Weaver|Morgan Diegel|Jennifer L Nemhauser|John A Stamatoyannopoulos|Kerry L Bubb|Christine Queitsch Altius Institute;|University of Washington;|Seattle Genetics;|Phase Genomics
http://dx.doi.org/10.1101/243139 2018-01-04 CC BY-NC-ND Investigating the viral ecology of global bee communities with high-throughput metagenomics David A Galbraith|Zachary Fuller|Axel Brockmann|Maryann Frazier|Mary W Gikungu|Karen M Kapheim|Jeffrey T Kerby|Sarah D Kocher|Oleksiy Losyev|Elliud Muli|Harland M Patch|Joyce M Sakamoto|Scott Stanley|Anthony D Vaudo|Christina M Grozinger Pennsylvania State University;|Columbia University;|Tata Institute of Fundamental Research;|National Museums of Kenya;|Utah State University;|Dartmouth College;|Princeton University;|The National University of Life and Environmental Sciences of Ukraine;|The International Center of Insect Physiology and Ecology;|Pennsylvania State University Children's Hospital
http://dx.doi.org/10.1101/243204 2018-01-04 A testosterone metabolite 19-hydroxyandrostenedione induces neuroendocrine trans-differentiation of prostate cancer cells via an ectopic olfactory receptor Tatjana Abaffy|James R. Bain|Michel J. Muehlbauer|Ivan Spasojevic|Shweta Lodha|Elisa Bruguera|Sara K. Neal|So Young Kim|Hiroaki Matsunami Duke University
http://dx.doi.org/10.1101/243022 2018-01-04 Anterior thalamic excitation and feed-forward inhibition of presubicular neurons projecting to medial entorhinal cortex Merie Nassar|Jean Simonnet|Li-Wen Huang|Bertrand Mathon|Ivan Cohen|Michael HK Bendels|Mathieu Beraneck|Richard Miles|Desdemona Fricker CNRS UMR 8119, University Paris Descartes, Paris, France;|Inst du Cerveau et de la Moelle Epiniere, UPMC, INSERM U1127, CNRS UMR7225;|Neuroscience Paris Seine, UPMC, CNRS UMR8246, Inserm U1130;|Institut of Occupational, Social & Environ Med, Goethe Univ Frankfurt, Germany
http://dx.doi.org/10.1101/243097 2018-01-04 CC BY-NC-ND The Amyloid Clearance Defect in ApoE4 Astrocytes is Corrected by Epigenetic Restoration of NHE6 Hari Prasad|Rajini Rao Johns Hopkins University School of Medicine
http://dx.doi.org/10.1101/239830 2018-01-04 CC BY-ND Olfactory and Vomeronasal Receptor Feedback Employ Divergent Mechanisms of PERK Activation Ryan Dalton|Elif Karagoz|Jerome Kahiapo|Ruchira Sharma|Lisa Bashkirova|David Lyons|Hiroaki Matsunami|Peter Walter UC Berkeley;|UCSF;|Columbia University;|Duke University
http://dx.doi.org/10.1101/243063 2018-01-04 Long Noncoding RNA-Maternally Expressed Gene 3 Contributes to Hypoxic Pulmonary Hypertension Daling Zhu|Yan Xing|Xiaodong Zheng|Yao Fu|Jing Qi|Minghui Li|Haisheng Peng|Mingfei Ma|Shuang Wang|Shuzhen Li Harbin Medical University-Daqing, China;|Harbin Medical University
http://dx.doi.org/10.1101/243246 2018-01-04 Target Control in Logical Models Using the Domain of Influence of Nodes Gang Yang|Jorge Gomez Tejeda Zanudo|Reka Albert Pennsylvania State University
http://dx.doi.org/10.1101/243048 2018-01-04 CC BY-ND Inferring identical by descent sharing of sample ancestors promotes high resolution relative detection Monica D Ramstetter|Thomas D Dyer|Donna M Lehman|Joanne E. Curran|Ravindranath Duggirala|John Blangero|Jason G Mezey|Amy L Williams Cornell University;|University of Texas Rio Grande Valley;|University of Texas Health San Antonio
http://dx.doi.org/10.1101/243071 2018-01-04 CC BY PARP1 and PARP2 stabilise replication forks at base excision repair intermediates through Fbh1-dependent Rad51 regulation George Ronson|Ann Liza Piberger|Martin Higgs|Anna Olsen|Grant Stewart|Peter McHugh|Eva Petermann|Nicholas Lakin Department of Biochemistry, University of Oxford;|Institute of Cancer and Genomic Sciences, University of Birmingham;|Dept of Oncology, Weatherall Institute of Molecular Medicine, University of Oxford
http://dx.doi.org/10.1101/242008 2018-01-04 CC BY-NC-ND The Trithorax group protein dMLL3/4 instructs the assembly of the zygotic genome at fertilization Pedro Prudencio|Leonardo G. Guilgur|Joao Sobral|Jorg D. Becker|Rui Goncalo Martinho|Paulo Navarro-Costa Center for Biomedical Research, Universidade do Algarve, Faro, Portugal;|Instituto Gulbenkian de Ciência, Oeiras, Portugal
http://dx.doi.org/10.1101/242057 2018-01-04 CC BY UBE3A–mediated p18/LAMTOR1 ubiquitination and degradation regulate mTORC1 activity and synaptic plasticity Jiandong Sun|Yan Liu|Yousheng Jia|Jennifer Tran|Xiaoning Hao|Weiju Lin|Gary Lynch|Michel Baudry|Xiaoning Bi Western University of Health Sciences;|University of California, Irvine
http://dx.doi.org/10.1101/243113 2018-01-04 Phenotypic convergence in the brain: distinct transcription factors regulate common terminal neuronal characters Nikolaos Konstantinides|Katarina Kapuralin|Chaimaa Fadil|Luendreo Barboza|Rahul Satija|Claude Desplan Department of Biology, New York University, New York, NY 10003, USA;|New York University Abu Dhabi, Saadiyat Island, Abu Dhabi, UAE;|New York Genome Center, New York, NY 10013, USA
http://dx.doi.org/10.1101/243014 2018-01-04 CC BY RNA-binding proteins with mixed charge domains self-assemble and aggregate in Alzheimer's Disease Isaac Bishof|Eric B Dammer|Duc M Duong|Marla Gearing|James J Lah|Allan I Levey|Nicholas T Seyfried Emory University School of Medicine
http://dx.doi.org/10.1101/243196 2018-01-05 Methionine metabolism influences the genomic architecture of H3K4me3 with the link to gene expression encoded in peak width Ziwei Dai|Samantha J Mentch|Xia Gao|Sailendra N Nichenametla|Jason W Locasale Duke University, Durham, NC, USA;|Orentreich Foundation for the Advancement of Science, Cold Spring, NY, USA
http://dx.doi.org/10.1101/242883 2018-01-05 CC BY Multiple Linear Regression: Bayesian Inference for Distributed and Big Data in the Medical Informatics Platform of the Human Brain Project Lester Melie-Garcia|Bogdan Draganski|John Ashburner|Ferath Kherif LREN, Dept of Clinical Neurosciences, Lausanne Univ Hospital (CHUV), Switzerland;|Wellcome Trust Centre for Imaging Neuroscience, University College London, UK
http://dx.doi.org/10.1101/243881 2018-01-05 CC BY-NC BOFdat: generating biomass objective function stoichiometric coefficients from experimental data Jean-Christophe Lachance|Jonathan M Monk|Colton J Lloyd|Yara Seif|Bernhard O Palsson|Sebastien Rodrigue|Adam M Feist|Zachary A King|Pierre-Etienne Jacques Université de Sherbrooke;|University of California San Diego
http://dx.doi.org/10.1101/243816 2018-01-05 Population model learned on different stimulus ensembles predicts network responses in the retina Ulisse Ferrari|Stephane Deny|Matthew Chalk|Gasper Tkacik|Olivier Marre|Thierry Mora Institut de la Vision;|Stanford University;|IST Austria;|Ecole normale superieure
http://dx.doi.org/10.1101/243089 2018-01-05 CC BY-NC-ND An empirical, 21st century evaluation of phrenology Oiwi Parker Jones|Fidel Alfaro-Almagro|Saad Jbabdi FMRIB, Wellcome Centre for Integrative Neuroimaging, University of Oxford
http://dx.doi.org/10.1101/243923 2018-01-05 CC BY-NC-ND Is phylogenetic diversity a surrogate for functional diversity across clades and space? Florent Mazel|Matthew Pennell|Marc Cadotte|Sandra Diaz|Giulio Dalla Riva|Richard Grenyer|Fabien Leprieur|Arne Mooers|David Mouillot|Caroline Tucker|William Pearse University of British Columbia;|University of Toronto-Scarborough;|Universidad Nacional de Cordoba;|University of Oxford;|University de Montpellier;|Simon Fraser University;|University of North Carolina-Chapel Hill;|Utah State University
http://dx.doi.org/10.1101/243857 2018-01-05 Maximum entropy models reveal the correlation structure in cortical neural activity during wakefulness and sleep Trang-Anh Nghiem|Bartosz Telenczuk|Olivier Marre|Alain Destexhe|Ulisse Ferrari Unité de Neurosciences, Information et Complexité, CNRS;|Institut de la Vision, INSERM, CNRS and Sorbonne Université, Paris, France
http://dx.doi.org/10.1101/243964 2018-01-05 Multicenter validation of a sepsis prediction algorithm using only vital sign data in the emergency department, general ward and ICU Qingqing Mao|Melissa Jay|Jana Hoffman|Jacob Calvert|Christopher Barton|David Shimabukuro|Lisa Shieh|Uli Chettipally|Grant Fletcher|Yaniv Kerem|Yifan Zhou|Ritankar Das Dascena Inc., Hayward, CA, United States;|Dascena, Inc;|Department of Emergency Medicine, University of California San Francisco;|Dept of Anesthesia and Perioperative Care, University of California San Francisco;|Department of Medicine, Stanford University School of Medicine;|Division of Internal Medicine, University of Washington School of Medicine;|Department of Clinical Informatics, Stanford University School of Medicine
http://dx.doi.org/10.1101/239079 2018-01-05 CC BY Modeling sound attenuation in heterogeneous environments for improved bioacoustic sampling of wildlife populations J. Andrew Royle USGS Patuxent Wildlife Research Center
http://dx.doi.org/10.1101/243758 2018-01-05 Environmental and evolutionary drivers of the modular gene regulatory network underlying phenotypic plasticity for stress resistance in the nematode Caenorhabditis remanei Kristin L. Sikkink|Rose M. Reynolds|Catherine M Ituarte|William A. Cresko|Patrick C Phillips University of Minnesota;|William Jewell College;|Cleveland Clinic Lerner College of Medicine of Case Western Reserve University;|University of Oregon
http://dx.doi.org/10.1101/243782 2018-01-05 CC BY-NC-ND Impacts of Simultaneous Multislice Acquisition on Sensitivity and Specificity in fMRI Benjamin B Risk|Mary C. Kociuba|Daniel Rowe Emory University Rollins School of Public Health;|Marquette University
http://dx.doi.org/10.1101/242222 2018-01-05 CC BY-NC-ND Listeria monocytogenes InlP interacts with afadin and facilitates basement membrane crossing Cristina Faralla|Effie E Bastounis|Fabian E Ortega|Samuel H Light|Gabrielle Rizzuto|Salvatore Nocadello|Wayne F Anderson|Jennifer R Robbins|Julie A Theriot|Anna I Bakardjiev Benioff Children's Hospital, University of California, San Francisco;|Department of Biochemistry, Stanford University School of Medicine;|CSGID, Feinberg School of Medicine, Northwestern University;|Department of Biology, Xavier University
http://dx.doi.org/10.1101/228056 2018-01-05 CC BY-NC Fe oxidation by a fused cytochrome-porin common to diverse Fe-oxidizing bacteria Clara Chan|Sean M McAllister|Arkadiy Garber|Beverly J Hallahan|Sharon Rozovsky University of Delaware
http://dx.doi.org/10.1101/243899 2018-01-05 Reward and punishment differentially recruit cerebellum and medial temporal lobe to facilitate skill memory retention Adam Steel|Edward H Silson|Charlotte J Stagg|Chris I Baker National Institutes of Health;|University of Oxford
http://dx.doi.org/10.1101/242974 2018-01-05 CC BY-NC-ND The Homeostatic Logic of Reward Tobias Morville|Karl Friston|Denis Burdakov|Hartwig R. Siebner|Oliver J. Hulme Danish Research Centre for Magnetic Resonance;|Wellcome Trust Centre for Neuroimaging;|The Francis Crick Institute;|Danish Research Ctr for Magnetic Resonance, Dept of Neurology, Copenhagen Univ
http://dx.doi.org/10.1101/243741 2018-01-05 CC BY-NC-ND Graph theory approaches to functional network organization in brain disorders: A critique for a brave new small-world Michael N Hallquist|Frank G Hillary Penn State University
http://dx.doi.org/10.1101/243949 2018-01-05 Cross-feeding modulates antibiotic tolerance in bacterial communities Elizabeth M Adamowicz|Ryan C Hunter|Jeffrey Flynn|William R Harcombe University of Minnesota
http://dx.doi.org/10.1101/243790 2018-01-05 CC BY-NC-ND The histone variant H2A.Z and chromatin remodeler BRAHMA act coordinately and antagonistically to regulate transcription and nucleosome dynamics in Arabidopsis E. Shannon Torres|Roger B. Deal Emory University
http://dx.doi.org/10.1101/243675 2018-01-05 Homology-directed repair of a defective glabrous gene in Arabidopsis with Cas9-based gene targeting Florian Hahn|Marion Eisenhut|Otho Mantegazza|Andreas P M Weber Heinrich Heine University
http://dx.doi.org/10.1101/243808 2018-01-05 CC BY Contribution of the axon initial segment to action potentials recorded extracellularly Maria Telenczuk|Romain Brette|Alain Destexhe|Bartosz Telenczuk CNRS;|UPMC
http://dx.doi.org/10.1101/243840 2018-01-05 CC BY-NC-ND epiTAD: a web application for visualizing high throughput chromosome conformation capture data in the context of genetic epidemiology Jordan H Creed|Alvaro N Monteiro|Travis A Gerke Moffitt Cancer Center
http://dx.doi.org/10.1101/243956 2018-01-05 CC BY-NC Transcriptome assembly and annotation of johnsongrass (Sorghum halepense) rhizomes identifies candidate rhizome specific genes Nathan Ryder|Kevin M. Dorn|Mark Huitsing|Micah Adams|Jeff Ploegstra|Lee DeHaan|Steve Larson|Nathan Tintle Dordt College, Sioux Center IA 51250;|Kansas State University, Manhattan, KS 66506;|The Land Institute, Salina, KS 67401;|USDA-ARS, Forage & Range Research Laboratory, Utah State University, Logan, UT
http://dx.doi.org/10.1101/243915 2018-01-05 CC BY-ND Spiking network optimized for noise robust word recognition approaches human-level performance and predicts auditory system hierarchy Fatemeh Khatami|Monty Armando Escabi University of Connecticut
http://dx.doi.org/10.1101/243972 2018-01-05 CC BY-NC-ND A new look at multi-stage models of cancer incidence Tyler Lian|Rick Durrett Duke University
http://dx.doi.org/10.1101/243378 2018-01-05 Bioinformatics CC BY Building online genomics applications using BioPyramid Liam Stephenson|Yoshua Wakeham|Nick Seidenman|Jarny Choi Walter and Eliza Hall Institute;|University of Melbourne
http://dx.doi.org/10.1101/243253 2018-01-05 Microbiology Microbiota Accessible Carbohydrates Facilitate Clearance of Clostridium difficile Andrew J Hryckowian|William Van Treuren|Samuel A Smits|Nicole M Davis|Jackson O Gardner|Donna M Bouley|Justin L Sonnenburg Stanford University
http://dx.doi.org/10.1101/243659 2018-01-05 Neuroscience Otx2 signals from the choroid plexus to regulate adult neurogenesis Anabelle Planques|Vanessa Oliveira Moreira|Chantal Dubreuil|Alain Prochiantz|Ariel A Di Nardo Collège de France
http://dx.doi.org/10.1101/243667 2018-01-05 Neuroscience CC BY-ND Neural evidence for representationally specific prediction in language processing Lin Wang|Gina Kuperberg|Ole Jensen Massachusetts General Hospital, Harvard Medical School;|Department of Psychology, Tufts University;|Centre for Human Brain Health, University of Birmingham, Birmingham
http://dx.doi.org/10.1101/243634 2018-01-05 Biophysics Universal temporal rate of DNA replication origin firing: A balance between origin activation and passivation Jean-Michel Arbona|Arach Goldar|Ollivier Hyrien|Alain Arneodo|Benjamin Audit Univ Lyon, Ens de Lyon, Univ Claude Bernard Lyon 1, CNRS, Lab de Physique;|Ibitec-S, CEA, Gif-sur-Yvette, France;|Inst de biologie de l'Ecole normale superieure, CNRS, INSERM;|LOMA, Univ de Bordeaux, CNRS, UMR 5798
http://dx.doi.org/10.1101/243303 2018-01-05 Ecology CC BY-NC-ND Coexistence theory and the frequency dependence of priority effects Po-Ju Ke|Andrew D. Letten Stanford University;|University of Canterbury
http://dx.doi.org/10.1101/243709 2018-01-05 Systems Biology CC BY-NC Comparative Network Reconstruction using Mixed Integer Programming Evert Bosdriesz|Anirudh Prahallad|Bertram Klinger|Anja Sieber|Astrid Bosma|Rene Bernards|Nils Bluthgen|Lodewyk FA Wessels The Netherlands Cancer Institute, Amsterdam, The Netherlands;|The Netherlands Cancer Institute;|Charité;|Charite;|Netherlands Cancer Institute
http://dx.doi.org/10.1101/243683 2018-01-05 Genetics CC BY-NC-ND Efficacy and dynamics of self-targeting CRISPR/Cas constructs for gene editing in the retina. Fan Li|Sandy SC Hung|Jiang-Hui Wang|Vicki Chrysostomou|Vickie HY Wong|James A Bender|Leilei Tu|Alice Pebay|Anna E King|Anthony L Cook|Raymond CB Wong|Bang V Bui|Alex Hewitt|Guei-Sheung Liu Menzies Institute for Medical Research, University of Tasmania,;|Centre for Eye Research Australia, Royal Victorian Eye and Ear Hospital;|Department of Optometry and Vision Sciences, University of Melbourne;|Wicking Dementia Research and Education Centre, University of Tasmania;|University of Tasmania
http://dx.doi.org/10.1101/243733 2018-01-05 Bioinformatics CC BY-NC-ND CCA based multi-view feature selection for multi-omics data integration Yasser EL-Manzalawy Pennsylvania State University
http://dx.doi.org/10.1101/243642 2018-01-05 Genomics CC BY Fine mapping chromatin contacts in capture Hi-C data Chris Eijsbouts|Oliver Burren|Paul Newcombe|Chris Wallace University of Cambridge
http://dx.doi.org/10.1101/243410 2018-01-05 Molecular Biology The brown alga Saccharina japonica features distinct vanadium-dependent bromoperoxidases and iodoperoxidases Shan Chi|Tao Liu|Hongxin Yin|Xin Xu|Weiming Zhu|Yi Wang|Cong Wang|Hui Lv Ocean University of China; Qingdao Haida BlueTek Biotechnology Co., Ltd, Qingdao, P. R. China;|Ocean University of China, Qingdao, P. R. China
http://dx.doi.org/10.1101/242750 2018-01-05 Zoology CC BY-NC-ND Identification of the Goliath beetles Fornasinius fornasini Bertoloni and Fornasinius hauseri Kraatz (Scarabaeidae: Cetoniinae) Michele De Palma|Hitoshi Takano School of Life Sciences, Ecole Polytechnique Federale de Lausanne (EPFL), CH;|Department of Life Sciences, Natural History Museum, London, UK
http://dx.doi.org/10.1101/243592 2018-01-05 Cancer Biology Naa10p promotes metastasis by stabilizing matrix metalloproteinase-2 protein in human osteosarcomas Ming-Hsien Chien|Wei-Jiunn Lee|Yi-Chieh Yang|Peng Tan|Ke-Fan Pan|Hsiao-Chi Tsai|Chun-Hua Hsu|Michael Hsiao|Kuo-Tai Hua College of Medicine, Taipei Medical University;|Department of Urology, Taipei Medical University;|Graduate Institute of Oncology;|College of Medicine, National Taiwan University;|China Medical University;|National Taiwan University;|Academia Sinica
http://dx.doi.org/10.1101/243493 2018-01-05 Genomics CC BY-NC-ND Longitudinal expression profiling of CD4+ and CD8+ cells in patients with active to quiescent Giant Cell Arteritis Elisabeth De Smit|Samuel W Lukowski|Lisa Anderson|Anne Senabouth|Kaisar Dauyey|Sharon Song|Bruce Wyse|Lawrie Wheeler|Christine Y Chen|Khoa Cao|Amy Wong Ten Yuen|Neil Shuey|Linda Clarke|Isabel Lopez Sanchez|Sandy SC Hung|Alice Pebay|David A Mackey|Matthew A Brown|Alex Hewitt|Joseph E Powell Centre for Eye Research Australia, The University of Melbourne;|Institute for Molecular Bioscience, University of Queensland;|Institute of Health and Biomedical Innovation, Queensland University of Technology;|Ophthalmology Department at Monash Health;|Department of Neuro-Ophthalmology, Royal Victorian Eye and Ear Hospital;|Centre for Ophthalmology and Visual Science, University of Western Australia;|University of Tasmania
http://dx.doi.org/10.1101/242552 2018-01-05 Evolutionary Biology CC BY-NC Protein-coding variation and introgression of regulatory alleles drive plumage pattern diversity in the rock pigeon Anna Vickrey|Rebecca Bruders|Zev Kronenberg|Emma Mackey|Ryan J Bohlender|Emily Maclary|Edward J Osborne|Kevin P Johnson|Chad D Huff|Mark Yandell|Michael Shapiro University of Utah;|M.D. Anderson Cancer Center;|University of Illinois;|University of utah
http://dx.doi.org/10.1101/241281 2018-01-05 Plant Biology Cytokinin activity of N6-benzyladenine derivatives assayed by interaction with the receptors in planta, in vitro, and in silico Ekaterina M. Savelieva|Vladimir E. Oslovsky|Dmitry S. Karlov|Nikolay N. Kurochkin|Irina A. Getman|Sergey N. Lomin|Georgy V. Sidorov|Sergey N. Mikhailov|Dmitry I. Osolodkin|Georgy A. Romanov Timiryazev Institute of Plant Physiology, Russian Academy of Sciences;|Engelhardt Institute of Molecular Biology, Russian Academy of Sciences;|Department of Chemistry, Lomonosov Moscow State University;|Institute of Molecular Genetics, Russian Academy of Sciences
http://dx.doi.org/10.1101/243527 2018-01-05 Neuroscience CC BY Theta and gamma oscillations in the rat hippocampus during attentive lever pressing Arto Lipponen|Heikki Tanila|Kestutis Gurevicius RAdboud University;|University of Eastern Finland
http://dx.doi.org/10.1101/243386 2018-01-05 Neuroscience Influence of switching rule on motor learning Ken Takiyama|Koutaro Ishii|Takuji Hayshi Tokyo University of Agriculture and Technology
http://dx.doi.org/10.1101/243600 2018-01-05 Bioinformatics CC BY-NC-ND Modelling Signalling Networks from Perturbation Data Mathurin Dorel|Bertram Klinger|Anja Sieber|Anirudh Prahallad|Torsten Gross|Evert Bosdriesz|Lodewyk Wessels|Nils Bluthgen Charite - Universitatsmedizin Berlin;|The Netherlands Cancer Institute, Amsterdam, Netherlands
http://dx.doi.org/10.1101/243121 2018-01-05 Animal Behavior and Cognition Conditioning nausea in a laboratory setting: A pilot study Kathryne Van Hedger|Joel S. Cavallo|Nicholas A. Ruiz|Harriet de Wit University of Chicago
http://dx.doi.org/10.1101/243170 2018-01-05 Developmental Biology GSK3 Controls Migration of the Neural Crest Lineage Sandra G Gonzalez Malagon|Anna Lopez Munoz|Daniel Doro|Triona Bolger|Evan Poon|Elizabeth Tucker|Hadeel Adel Al-Lami|Matthias Krause|Christopher Phiel|Louis Chesler|Karen J Liu King's College London;|Institute for Cancer Research;|University of Colorado, Denver
http://dx.doi.org/10.1101/243030 2018-01-05 Bioinformatics CC BY Crumble: reference free lossy compression of sequence quality values James K Bonfield|Richard Durbin|Shane A McCarthy Wellcome Trust Sanger Institute
http://dx.doi.org/10.1101/243345 2018-01-05 Immunology Identification of Pre-Existing Adaptive Immunity to Cas9 Proteins in Humans Carsten Trevor Charlesworth|Priyanka S Deshpande|Daniel P Dever|Beruh Dejene|Natalia Gomez-Ospina|Sruthi Mantri|Mara Pavel-Dinu|Joab Camarena|Kenneth I Weinberg|Matthew H Porteus Stanford University;|Stanford University
http://dx.doi.org/10.1101/243469 2018-01-05 Neuroscience CC BY-NC Open source toolkit for temporally controlled rodent behavior suitable for electrophysiology and optogenetic manipulations Nicola Solari|Katalin Sviatko|Tamas Laszlovszky|Panna Hegedus|Balazs Hangya Institute of Experimental Medicine
http://dx.doi.org/10.1101/243220 2018-01-05 Neuroscience CC BY-NC SLO potassium channels antagonize premature decision making in C. elegans Ichiro Aoki|Michihiro Tateyama|Takushi Shimomura|Kunio Ihara|Yoshihiro Kubo|Shunji Nakano|Ikue Mori Nagoya University;|National Institute for Physiological Sciences
http://dx.doi.org/10.1101/243402 2018-01-05 Molecular Biology Characterization of mannitol metabolism genes in Saccharina explains its key role in mannitol biosynthesis and evolutionary significance in Laminariales Shan Chi|Tao Liu|Cui Liu|Yuemei Jin|Hongxin Yin|Xin Xu|Yue Li Ocean University of China; Qingdao Haida BlueTek Biotechnology Co., Ltd, Qingdao, P. R. China;|Ocean University of China, Qingdao, P. R. China;|Qingdao Haida BlueTek Biotechnology Co., Ltd, Qingdao, P. R. China.
http://dx.doi.org/10.1101/243360 2018-01-05 Microbiology CC BY-ND Synaptic transmission may provide an evolutionary benefit to HIV through modulation of latency Cesar Vargas-Garcia|Ryan Zurakowski|Abhyudai Singh University of Delaware
http://dx.doi.org/10.1101/244095 2018-01-06 Synthetic Biology Prokaryotic nanocompartments form synthetic organelles in a eukaryote Yu Heng Lau|Tobias Wolfgang Giessen|Wiggert J Altenburg|Pamela A. Silver Harvard Medical School
http://dx.doi.org/10.1101/244210 2018-01-06 Systems Biology Evolutionary tradeoffs and the structure of allelic polymorphisms Hila Sheftel|Pablo Szekely|Avi Mayo|Guy Sella|Uri Alon Weizmann Institute of Science;|Columbia University
http://dx.doi.org/10.1101/244046 2018-01-06 Developmental Biology Wolbachia control stem cell behavior and stimulate germline proliferation in filarial nematodes Vincent Foray|Mercedes M Perez-Jimenez|Nour Fattouh|Frederic Landmann CRBM, University of Montpellier, CNRS, France;|Centro Andaluz de Biologia del Desarrollo, Univ Pablo de Olavide/CSIC/JA, Sevilla
http://dx.doi.org/10.1101/242354 2018-01-06 Bioinformatics CC BY Modeling Functional Genetic Alteration in Cancer Reveals New Candidate Driver Genes Nadav Brandes|Nathan Linial|Michal Linial Hebrew University of Jerusalem
http://dx.doi.org/10.1101/244103 2018-01-07 CC BY MoB (Measurement of Biodiversity): a method to separate the scale-dependent effects of species abundance distribution, density, and aggregation on diversity change Daniel J McGlinn|Xiao Xiao|Felix May|Nicholas J Gotelli|Shane Blowes|Tiffany Knight|Oliver Purschke|Jonathan Chase|Brian McGill College of Charleston;|University of Maine;|German Centre for Integrative Biodiversity Research;|University of Vermont
http://dx.doi.org/10.1101/244020 2018-01-07 CC BY-NC-ND Real time genetic compensation operationally defines the dynamic demands of feedback control Patrick Harrigan|Hiten Madhani|Hana El-Samad UCSF
http://dx.doi.org/10.1101/244111 2018-01-07 CC BY-NC-ND Rapid sensing of L-leucine by human and murine hypothalamic neurons: neurochemical and mechanistic insights Nicholas Heeley|Peter Kirwan|Tamana Darwish|Marion Arnaud|Mark Evans|Florian Merkle|Frank Reimann|Fiona Gribble|Clemence Blouet University of Cambridge
http://dx.doi.org/10.1101/243907 2018-01-07 CC BY-NC-ND The basis of accumulation differences in plant 21-nt reproductive phasiRNAs, and their cis-directed activity Saleh Tamim|Zhaoxia Cai|Sandra Mathioni|Jixian Zhai|Chong Teng|Qifa Zhang|Blake C. Meyers Center for Bioinformatics and Computational Biology, University of Delaware;|National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural Univ;|Donald Danforth Plant Science Center, St. Louis, MO;|Southern University of Science and Technology, Shenzhen, Guangdong, China;|Donald Danforth Plant Science Center, St. Louis, MO 63132, USA
http://dx.doi.org/10.1101/209056 2018-01-07 CC BY-NC-ND Days Gained: A Simulation-Based, Response Metric in the Assessment of Glioblastoma Gustavo De Leon|Kyle W Singleton|Kristin R Swanson Mayo Clinic
http://dx.doi.org/10.1101/242875 2018-01-07 Inferring Species Trees Using Integrative Models of Species Evolution Huw A Ogilvie|Timothy G Vaughan|Nicholas J Matzke|Graham J Slater|Tanja Stadler|David Welch|Alexei J Drummond Division of Ecology and Evolution, Research School of Biology, Australian National University;|Computational Evolution Group, Department of Biosystems Science and Engineering, ETH Zurich;|School of Biological Sciences, University of Auckland;|Department of the Geophysical Sciences, University of Chicago;|Department of Computer Science, University of Auckland
http://dx.doi.org/10.1101/243998 2018-01-07 Rapid Identification and Validation of Novel Rheumatoid Arthritis Drug Treatments using an Integrative Bioinformatics Platform Aaron C Daugherty|Carl Farrington|Isaac Hakin|Sana Mujahid|Elizabeth S Noblin|Andrew M Radin|Mei-Sze Chua|Mark Rabe|Guy Fernald|Daniel Ford|Marina Sirota|Laura Schaevitz|Andrew A Radin twoXAR, Inc;|Asian Liver Center at Stanford University School of Medicine;|Vium, Inc;|Inst for Computational Health Sciences, Dept of Pediatrics, UCSF School of Med
http://dx.doi.org/10.1101/244244 2018-01-07 Bioengineering Hemicellulose Degradation and Utilization by a Synthetic Saccharomyces cerevisiae Consortium Ian Dominic Tabanag|Shen-Long Tsai National Taiwan University of Science and Technology
http://dx.doi.org/10.1101/244079 2018-01-07 Neuroscience CC BY A computational framework for converting high-throughput DNA sequencing data into neural circuit connectivity. Hassana Oyibo|Cang Cao|Daniel D. Ferrante|Huiqing Zhan|Alexei A. Koulakov|Lynn Enquist|Joshua Dubnau|Anthony Zador Cold Spring Harbor Laboratory;|Princeton University
http://dx.doi.org/10.1101/244160 2018-01-07 Cancer Biology CC BY-NC-ND Genealogies in Growing Solid Tumors Rick Durrett Duke
http://dx.doi.org/10.1101/244152 2018-01-07 Genomics The BAP1 deubiquitinase complex is a general transcriptional co-activator Antoine Campagne|Dina Zielinski|Audrey Michaud|Stephanie Le Corre|Florent Dingli|Hong Chen|Ivaylo Vassilev|Ming-Kang Lee|Nicolas Servant|Damarys Loew|Eric Pasmant|Sophie Postel-Vinay|Michel Wassef|Raphael Margueron Institut Curie, Paris Sciences et Lettres Research University, 75005 Paris, France;|EA7331, Faculty of Pharmacy, University of Paris Paris Descartes;|Gustave Roussy, INSERM U981, Universite Paris-Saclay
http://dx.doi.org/10.1101/244293 2018-01-07 Neuroscience Emergence of Direction Selectivity at the Convergence of Thalamo-Cortical Synapses in Visual Cortex Anthony D Lien|Massimo Scanziani University of California San Francisco;|University of California San Francisco and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/244251 2018-01-07 Bioinformatics A Novel Computational Framework to Predict the Impact of a Point Mutation on PDZ Domain Classification Muhammad Moinuddin|Wasim Aftab|Adnan Memic King Abdulaziz University, Jeddah, Saudi Arabia;|King Abdulaziz University
http://dx.doi.org/10.1101/242727 2018-01-07 Plant Biology CC BY-NC-ND Reproductive phasiRNAs in grasses are compositionally distinct from other classes of small RNAs Parth Patel|Sandra Mathioni|Atul Kakrana|Hagit Shatkay|Blake C. Meyers Center for Bioinformatics and Computational Biology, University of Delaware, Newark, DE 19714, USA;|Donald Danforth Plant Science Center, St. Louis, MO 63132, USA;|Department of Computer and Information Sciences, University of Delaware, Newark, DE 19714, USA
http://dx.doi.org/10.1101/241216 2018-01-07 Different homeostatic plasticity of tinnitus with and without hearing loss in central auditory system Cai Wei Wei|Liang Jian Gang|Li Zhi Hui|Huang Yu lin|Wang Li|Zhang Tao Guangzhou Panyu Central Hospital, Guangzhou, Guangdong 511400, P.R. China;|The First Affiliated Hospital of Jinan University, Guangzhou, Guangdong, China
http://dx.doi.org/10.1101/244418 2018-01-07 Characterization of strawberry (Fragaria vesca) sequence genome Li Ao|Chen Lide|Liu Zhongjie|Cui Mengjie|Shangguan Lingfei|Jia Haifeng|Fang Jinggui Nanjing Agricultural College
http://dx.doi.org/10.1101/244350 2018-01-07 CC BY-NC-ND Emergence of V1 connectivity pattern and Hebbian rule in a performance-optimized artificial neural network Fangzhou Liao|Xiaolin Hu|Sen Song Tsinghua University
http://dx.doi.org/10.1101/244517 2018-01-07 CC BY-NC-ND NanoAmpli-Seq: A workflow for amplicon sequencing from mixed microbial communities on the nanopore sequencing platform Szymon T Calus|Umer Zeeshan Ijaz|Ameet J Pinto University of Glasgow;|Northeastern University
http://dx.doi.org/10.1101/244269 2018-01-07 CC BY-NC-ND Learning optimal decisions with confidence Jan Drugowitsch|Alexandre Pouget Harvard Medical School;|University of Geneva
http://dx.doi.org/10.1101/244277 2018-01-07 Visual cortical entrainment to unheard acoustic speech reflects intelligibility of lip movements and is mediated by dorsal stream regions Anne Hauswald|Chrysa Lithari|Olivier Collignon|Elisa Leonardelli|Nathan Weisz University of Salzburg;|University of Louvain;|University of Trento
http://dx.doi.org/10.1101/244459 2018-01-07 CC BY-NC-ND A novel long noncoding RNA LINC00844 regulates prostate cancer cell migration and invasion through androgen receptor signaling Shreyas Lingadahalli|Sudhir Jadhao|Ying Ying Sung|Mi Chen|Lingling Hu|Xin Chen|Edwin Cheung University of Macau;|Genome institute of Singapore;|Guangdong University of Technology
http://dx.doi.org/10.1101/244343 2018-01-07 Coupling of Rho family GTPases during mesenchymal-to-epithelial-like transitions Christopher Toret|Pruthvi Shivakumar|Pierre-Francois Lenne|Andre LE BIVIC IBDM;|Ibdm
http://dx.doi.org/10.1101/237347 2018-01-07 Cell type-specific CLIP reveals that NOVA regulates cytoskeleton interactions in motoneurons Yuan Yuan|Shirley Xie|Jennifer C Darnell|Andrew J Darnell|Yuhki Saito|Hemali Phatnani|Elisabeth Murphy|Chaolin Zhang|Tom Maniatis|Robert Darnell Rockefeller University;|Rockefeller University / Howard Hughes Medical Institute;|New York Genome Center / Columbia University;|Columbia University
http://dx.doi.org/10.1101/244392 2018-01-07 Genomics CC BY-ND Identification, expression analysis and molecular modeling of Iron deficiency specific clone 3 (Ids3) like gene in hexaploid wheat Priyanka Mathpal|Upendra Kumar|Anuj Kumar|Sanjay Kumar|Sachin Malik|Naveen Kumar|H. S. Dhaliwal|Sundip Kumar GB Pant University of Agriculture & Technology, Pantnagar-263145, Uttarakhand, India;|Ch. Charan Singh Haryana Agricultural University, Hisar-125004 Haryana India;|Uttarakhand Council for Biotechnology, Dehradun-248007, Uttarakhand, India;|Biotech Park, Lucknow;|Akal School of Biotechnology, Eternal University, Baru Sahib, Himachal Pradesh, India
http://dx.doi.org/10.1101/244319 2018-01-07 Systems Biology CC BY Open source tools and standardized data in cancer systems biology Paul Macklin|Samuel H. Friedman Indiana University;|OptoKnowledge Systems;|-
http://dx.doi.org/10.1101/244301 2018-01-07 Cancer Biology Control and the Analysis of Cancer Growth Models Allen R Tannenbaum|Tryphon Georgiou|Joseph Deasy|Larry Norton Stony Brook University;|University of California, Irvine;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/243766 2018-01-07 Evolutionary Biology CC BY-NC-ND Genome-wide signals of drift and local adaptation during rapid lineage divergence in a songbird Guillermo Friis|Guillermo Fandos|Amanda Zellmer|John McCormack|Brant Faircloth|Borja Mila National Museum of Natural Sciences, Spanish National Research Council (CSIC);|Department of Ecology and Evolution, Complutense University of Madrid;|Department of Biology, Occidental College;|Moore Laboratory of Zoology and Department of Biology, Occidental College;|Department of Biological Sciences and Museum of Natural Science, Louisiana State University
http://dx.doi.org/10.1101/244129 2018-01-07 Microbiology Pyrimidine starvation activates a bistable phenotypic switch leading to ribosome provisioning and rapid exit from stationary phase Philippe Remigi|Gayle C. Ferguson|Silvia De Monte|Paul B. Rainey New Zealand Institute for Advanced Study, Massey University, Auckland 0745, New Zealand;|Institute of Natural and Mathematical Sciences, Massey University, Auckland 0745, New Zealand;|Institut de Biologie de l Ecole Normale Superieure, UMR CNRS 8197 INSERM 1024, F-75005 Paris, France
http://dx.doi.org/10.1101/244475 2018-01-07 Genomics CC BY-NC-ND Genome-wide enhancer - gene regulatory maps in two vertebrate genomes Yves Clement|Patrick Torbey|Pascale Gilardi-Hebenstreit|Hugues Roest Crollius Institut de Biologie de l'ENS
http://dx.doi.org/10.1101/244616 2018-01-08 Biochemistry Electron transfer dictates metabolic reprogramming in proliferating cells under hypoxia Yuanyuan Wang|Miao Liu|Yuxia Ruan|Qiaoyun Chu|Yanfen Cui|Guoguang Ying|Binghui Li Capital Medical University, Beijing 100069, P.R. China.;|Tianjin Medical University Cancer Institute and Hospital, Tianjin 300060, P. R. China.;|Tianjin Medical University Cancer Institute and Hospital
http://dx.doi.org/10.1101/244558 2018-01-08 Cancer Biology CC BY HOTAIR primes the Ewing sarcoma family of tumors for tumorigenesis via epigenetic dysregulation involving LSD1 Hasan Siddiqui|Julia Selich-Anderson|Joshua Felgenhauer|James Fitch|Vijay Nadella|Cenny Taslim|Laura Tomino|Emily Theisen|Satoru Otsuru|Edwin Horwitz|Stephen L Lessnick|Peter White|Nilay Shah Nationwide Children's Hospital, United States;|Huntsman Cancer Institute, University of Utah, United States
http://dx.doi.org/10.1101/244657 2018-01-08 Microbiology CC BY-NC-ND Agricultural Pollution Risks Influence Microbial Ecology in Honghu Lake Maozhen Han|Melissa Dsouza|Chunyu Zhou|Hongjun Li|Junqian Zhang|Chaoyun Chen|Qi Yao|Chaofang Zhong|Hao Zhou|Jack A Gilbert|Zhi Wang|Kang Ning Huazhong University of Science and Technology;|Department of Surgery, University of Chicago;|Institute of Hydrobiology, Chinese Academy of Sciences;|University of Chicago;|Institute of Geodesy and Geophysics, Chinese Academy of Sciences
http://dx.doi.org/10.1101/244665 2018-01-08 Biochemistry CC BY-NC-ND Role of dynamic cooperativity in the mechanism of hexameric M17 aminopeptidases. Nyssa Drinkwater|Wei Yang|Blake T Riley|Komagal Kannan Sivaraman|Itamar Kass|Ashley M Buckle|Sheena McGowan Monash University
http://dx.doi.org/10.1101/244236 2018-01-08 Systems Biology Expression variation and covariation impair analog and enable binary signaling control Kyle M Kovary|Brooks Taylor|Michael L Zhao|Mary N Teruel Stanford University
http://dx.doi.org/10.1101/244533 2018-01-08 Biophysics Fidaxomicin jams M. tuberculosis RNA polymerase motions needed for initiation via RbpA contacts Hande Boyaci|James Chen|Mirjana Lilic|Margaret Palka|Rachel Anne Mooney|Robert Landick|Seth A Darst|Elizabeth A Campbell The Rockefeller University;|Department of Biochemistry, University of Wisconsin-Madison, Madison;|Departments of Biochemistry and Bacteriology, University of Wisconsin-Madison
http://dx.doi.org/10.1101/244483 2018-01-08 Genomics Genome-wide Meta-analysis of 158,000 Individuals of European Ancestry Identifies Three Loci Associated with Chronic Back Pain Pradeep Suri|Melody R Palmer|Yakov A Tsepilov|Maxim B Freidin|Cindy G Boer|Michelle Yau|Daniel S Evans|Andrea Gelemanovic|Traci M Bartz|Maria Nethander|Liubov Arbeeva|Lennart Karssen|Tuhina Neogi|Archie Campbell|Dan Mellstrom|Claes Ohlsson|Lynn M Marshall|Eric Orwoll|Andre Uitterlinden|Gordon Lauc|Bruce M Psaty|Magnus K Karlsson|Nancy E Lane|Gail P Jarvik|Ozren Polasek|Marc Hochberg|Joanne M Jordan|Joyce B Van Meurs|Rebecca Jackson|Carrie M Nielson|Braxton D Mitchell|Blair H Smith|Caroline Hayward|Nicholas Smith|Yurii S Aulchenko|Frances M Williams Seattle Epidemiologic Research and Information Center, Dept of Veterans Affairs;|Department of Medicine (Medical Genetics), University of Washington;|Polyomica;|Department of Twin Research and Genetic Epidemiology, Kings College London;|Department of Internal Medicine, Erasmus Medical Center;|Institute for Aging Research, Hebrew SeniorLife;|California Pacific Medical Center Research Institute;|Department of Public Health, University of Split Medical School;|Cardiovascular Health Research Unit and Dept of Medicine, Univ of Washington;|Department of Medicine, University of Goteborg;|Department of Medicine, School of Medicine, University of North Carolina;|Dept of Medicine, Clinical Epidemiology Unit, Boston Univ School of Medicine;|Division of Population Health Sciences, School of Medicine, University of Dundee;|Osteoporosis and Metabolic Bone Disease Unit, University of Goteborg;|Institute of Medicine, Sahlgrenska Academy;|Dept of Orthopedics and Rehabilitation, Oregon Health and Science University;|Department of Medicine, Oregon Health and Science University;|Faculty of Pharmacy and Biochemistry, University of Zagreb;|Department of Orthopedics, Skane University Hospital, Lund University;|Departments of Medicine and Rheumatology, University of California Davis;|Depts of Medicine (Medical Genetics) and Genome Sciences, Univ of Washington;|Depts of Medicine and Epidemiology, University of Maryland, Baltimore;|Department of Medicine, The Ohio State University, Columbus;|School of Public Health, Oregon Health and Science University;|Geriatric Research, Education & Clinical Ctr, Veterans Affairs Med Ctr, Baltimore, MD;|MRC Human Genetics Unit, MRC Inst of Genetics & Molec Med, Univ of Edinburgh
http://dx.doi.org/10.1101/244608 2018-01-08 Neuroscience Neural substrates of navigational decision-making in Drosophila larva anemotaxis Tihana Jovanic|James W Truman|Marc Gershow|Marta Zlatic Janelia Research Campus;|Janelia Research Campus, University of Washington;|New York University
http://dx.doi.org/10.1101/241570 2018-01-08 Evolutionary Biology Molecular phylogeny of Odontosyllis (Annelida, Syllidae): A recent and rapid radiation of marine bioluminescent worms. Aida Verdes|Patricia Alvarez-Campos|Arne Nygren|Guillermo San Martin|Greg Rouse|Dimitri D. Deheyn|David F. Gruber|Mande Holford City University of New York;|Institut Jacques Monod;|University of Gothenburg;|Universidad Autonoma de Madrid;|Scripps Institution of Oceanography
http://dx.doi.org/10.1101/244566 2018-01-08 Evolutionary Biology CC BY-NC-ND Building superfast muscles: insights from molecular parallelism in fast-twitch muscle proteins in echolocating mammals Jun-Hoe Lee|Kevin M Lewis|Timothy W Moural|Bogdan Kirilenko|Barbara Borgonovo|Gisa Prange|Manfred Koessl|Stefan Huggenberger|ChulHee Kang|Michael Hiller Uppsala University;|Department of Chemistry, Washington State University, Pullman, USA;|Max Planck Institute of Molecular Cell Biology and Genetics, Dresden, Germany;|Goethe University, Frankfurt, Germany;|University of Cologne, Cologne, Germany
http://dx.doi.org/10.1101/243352 2018-01-08 Cell Biology Observing the Cell in Its Native State: Imaging Subcellular Dynamics in Multicellular Organisms Tsung-li Liu|Srigokul Upadhyayula|Daniel E Milkie|Ved Singh|Kai Wang|Ian A Swinburne|Kishore R Mosaliganti|Zach M Collin|Tom W Hiscock|Jamien Shea|Abraham Q Kohrman|Taylor N Medwig|Daphne Dambournet|Ryan Forster|Brian Cunniff|Yuan Ruan|Hanako Yashiro|Steffen Scholpp|Elliot M Meyerowitz|Dirk Hockemeyer|David G Drubin|Benjamin L Martin|David Q Matus|Minoru Koyama|Sean G Megason|Tom Kirchhausen|Eric Betzig Janelia Research Campus, Howard Hughes Medical Institute;|Harvard Medical School / Boston Children's Hospital;|Institute of Neuroscience, Chinese Academy of Sciences;|Harvard Medical School;|Cancer Research UK, Cambridge Institute;|Stony Brook University;|University of California, Berkeley;|University of Vermont;|California Institute of Technology;|University of Exeter;|Howard Hughes Medical Institute, California Institute of Technology;|Janelia Farm Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/245167 2018-01-08 CC BY-NC-ND The human Ska complex and Ndc80 complex interact to form a load-bearing assembly that strengthens kinetochore-microtubule attachments Luke A. Helgeson|Alex Zelter|Michael Riffle|Michael J. MacCoss|Charles L. Asbury|Trisha N. Davis University of Washington
http://dx.doi.org/10.1101/245134 2018-01-08 Visualization of PRC2-Dinucleosome Interactions Leading to Epigenetic Repression Simon Poepsel|Vignesh Kasinath|Eva Nogales University of California, Berkeley, California
http://dx.doi.org/10.1101/244582 2018-01-08 Three-dimensional experiments and individual based simulations show that cell proliferation drives melanoma nest formation in human skin tissue Parvathi Haridas|Alexander Browning|Jacqui McGovern|Sean McElwain|Matthew Simpson Queensland University of Technology
http://dx.doi.org/10.1101/245225 2018-01-08 CC BY-NC-ND Multiple sources of variability drive a stochastic cell fate decision in C. elegans Jason R Kroll|Jasonas Tsiaxiras|Jeroen S van Zon AMOLF
http://dx.doi.org/10.1101/244715 2018-01-08 CC BY-NC-ND Comparative genomics of Pseudomonas syringae reveals convergent gene gain and loss associated with specialisation onto cherry (Prunus avium) Michelle T Hulin|Andrew D Armitage|Joana G Vicente|Eric B Holub|Laura Baxter|Helen P Bates|John W Mansfield|Robert W Jackson|Richard J Harrison NIAB EMR;|University of Warwick;|Imperial College London;|University of Reading
http://dx.doi.org/10.1101/245118 2018-01-08 PET Brain imaging of α7-nAChR with [18F]ASEM Reproducibility, occupancy, receptor density, and changes in schizophrenia Dean F. Wong|Hiroto Kuwabara|Andrew G. Horti|Joshua Roberts|Ayon Nandi|Nicola Cascella|James R. Brasic|Elise Weerts|Kelly Kitzmiller|Jenny A Phan|Lorena Gapasin|Akira Sawa|Heather Valentine|Gary Wand|Noble George|Michael McDonald|William Kem|Robert Freedman|Albert Gjedde Johns Hopkins University School of Medicine;|Sheppard-Pratt Hospital;|Aarhus University;|University of Florida;|University of Colorado;|University of Southern Denmark
http://dx.doi.org/10.1101/245191 2018-01-08 First spikes in visual cortex enable perceptual discrimination Arbora Resulaj|Sarah Ruediger|Shawn R Olsen|Massimo Scanziani Department of Physiology, University of California, San Francisco;|Allen Institute for Brain Science;|University of California San Francisco and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/245092 2018-01-08 CC BY-NC-ND Controlling for temporal discounting shifts rats from geometric to human-like arithmetic bisection Charles D Kopec|Carlos D Brody Princeton Universtiy;|Princeton University and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/244905 2018-01-08 Neuron-specific cTag-CLIP reveals cell-specific diversity of functional RNA regulation in the brain Yuhki Saito|Yuan Yuan|Ilana Zucker-Scharff|John J Fak|Yoko Tajima|Donny D Licatalosi|Robert B Darnell The Rockefeller University;|Case Western Reserve University;|The Rockefeller University/HHMI
http://dx.doi.org/10.1101/244848 2018-01-08 Varicella-zoster virus CNS vasculitis and RNA polymerase III gene mutation in identical twins Madalina Carter-Timofte|Anders Fogh Hansen|Maibritt Mardahl|Sebastien Fribourg|Franck Rapaport|Shen-Ying Zhang|Jean-Laurent Casanova|Sren R Paludan|Mette Christiansen|Carsten S Larsen|Trine H Mogensen Aarhus University Hospital;|IECB - INSERM;|Rockefeller;|The Rockefeller University;|Aarhus University
http://dx.doi.org/10.1101/244913 2018-01-08 CC BY-NC-ND Hidden partners: Using cross-docking calculations to predict binding sites for proteins with multiple interactions Nathalie Lagarde|Alessandra Carbone|Sophie Sacquin-Mora Molecules Therapeutiques in silico, Universite Paris Diderot - Inserm UMR-S 973;|Universite Pierre et Marie Curie;|Laboratoire de Biochimie Theorique, CNRS UPR9080
http://dx.doi.org/10.1101/244749 2018-01-08 Integration of Brassinosteroid and Phytosulfokine Signalling Controls Vascular Cell Fate in the Arabidopsis Root Eleonore Holzwart|Apolonio Ignacio Huerta|Nina Gloeckner|Borja Garnelo Gomez|Friederike Ladwig|Sebastian Augustin|Jana Christin Askani|Ann-Kathrin Schuerholz|Klaus Harter|Sebastian Wolf Centre for Organismal Studies Heidelberg;|ZMBP Tuebingen
http://dx.doi.org/10.1101/244442 2018-01-08 Deep Learning Based Proarrhythmia Analysis Using Field Potentials Recorded from Human Pluripotent Stem Cells Derived Cardiomyocytes Zeinab Golgooni|Sara Mirsadeghi|Mahdieh Soleymani Baghshah|Pedram Ataee|Hossein Baharvand|Sara Pahlavan|Hamid R. Rabiee Sharif University of Technology;|Royan Institute for Stem Cell Biology and Technology
http://dx.doi.org/10.1101/242545 2018-01-08 Evaluation of gene-based family-based methods to detect novel genes associated with familial late onset Alzheimer disease Carlos Cruchaga|Maria Victoria Feranndez|John Budde|Jorge Del-Aguila|Laura Ibanez|Yuetiva Deming|Oscar Harari|Joanne Norton|John C Morris|Alison Goate Washington University School of Medicine;|Washington University in St Louis;|Knight Alzheimer's Disease Research Center, Washington Univ School of Medicine;|Ronald M. Loeb Ctr for Alzheimers Disease, Icahn School of Medicine at Mt. Sinai
http://dx.doi.org/10.1101/244962 2018-01-08 CC BY-ND Prohlatype: A Probabilistic Framework for HLA Typing. Leonid Rozenberg|Jeffrey Hammerbacher Department of Genetics and Genomic Sciences, Icahn School of Medicine at Mount Sinai;|Department of Microbiology and Immunology, Medical University of South Carolina
http://dx.doi.org/10.1101/244772 2018-01-08 Dynamic compartmentalization in neurons enables branch specific learning. Willem A.M. Wybo|Benjamin Torben-Nielsen|Marc-Oliver Gewaltig Ecole Polytechnique Federale de Lausanne;|University of Hertfordshire
http://dx.doi.org/10.1101/244426 2018-01-08 Functional mapping of the mouse hairless gene promoter region Eric G Folco|Stefan Nonchev Universite de Lyon, IGFL, CNRS UMR 5242, ENS-Lyon, Universite Claude Bernard I, Lyon, France;|Institut for Advanced Biosciences, INSERM 1209, UMR CNRS 5309, Univ.Grenoble-Alpes, Grenoble, France
http://dx.doi.org/10.1101/244889 2018-01-08 CC BY-NC-ND Yeast transformation efficiency is enhanced by TORC1- and eisosome-dependent signalling Sheng-Chun Yu|Florian Kuemmel|Maria-Nefeli Skoufou-Papoutsaki|Pietro D Spanu Imperial College London
http://dx.doi.org/10.1101/244731 2018-01-08 CC BY Validation of a 14-drug microtitre plate that includes delamanid and bedaquiline for susceptibility testing of M. tuberculosis Paola MV Rancoita|Federica Cugnata|Ana Luiza Gibertoni Cruz|Emanuele Borroni|Sarah J Hoosdally|Timothy M Walker|Clara Grazian|Timothy J Davies|Timothy EA Peto|Derrick W Crook|Philip W Fowler|Daniela Maria Cirillo Vita-Salute San Raffaele University;|University of Oxford;|IRCCS San Raffaele Scientific Institute;|-
http://dx.doi.org/10.1101/244764 2018-01-08 The smallest intestine (TSI) - a low volume in vitro model of the small intestine with increased throughput Tomasz Cieplak|Maria Wiese|Sebastian Nielsen|Tom Van de Wiele|Frans van den Berg|Dennis Sandris Nielsen Dept of Food Science, Faculty of Science, Univ of Copenhagen, Frederiksberg C;|Dept of Plant & Environ Sci, Precision Engineering Workshop, Univ of Copenhagen;|Faculty of Bioscience Engineering, Ghent University, Gent, Belgium
http://dx.doi.org/10.1101/244921 2018-01-08 Galleria mellonella as an Insect Model for P. destructans, the Cause of White-Nose Syndrome in Bats Chapman N Beekman|Lauren Meckler|Eleanor Kim|Richard J. Bennett Department of Molecular Microbiology and Immunology, Brown University, Providence, RI, 02912, USA.
http://dx.doi.org/10.1101/244707 2018-01-08 CC BY-NC-ND A Diverse Range of Factors Affect the Nature of Neural Representations Underlying Short-Term Memory Emin Orhan|Wei Ji Ma Baylor College of Medicine;|New York University
http://dx.doi.org/10.1101/244814 2018-01-08 CC BY-NC-ND Oscillating bacterial expression states generate herd immunity to viral infection Christopher J. R. Turkington|Andrey Morozov|Martha R. J. Clokie|Christopher D. Bayliss University of Leicester
http://dx.doi.org/10.1101/245001 2018-01-08 CC BY-NC-ND Neural responses in the pain matrix when observing pain of others are unaffected by testosterone administration Sarah Heany|David Terburg|Dan Stein|Jack van Honk|Peter A Bos Univerity of Cape Town;|Utrecht University;|University of Cape Town
http://dx.doi.org/10.1101/244897 2018-01-08 mTOR complex 1 pathway activation in severe keratoconus; the functional implications of GWAS identified loci. Robert PL Wisse|Jonas JW Kuiper|Gijsbert M de Veij Mestdagh|Catharina GK Wichers|Sanne Hiddingh|Nadia Vazirpanah|Saskia M Imhof|Timothy RDJ Radstake|Jasper CA Broen Department of Ophthalmology, University Medical Center Utrecht;|Ophthalmo-Immunology group, University Medical Center Utrecht;|Laboratory of Translational Immunology, University Medical Center Utrecht
http://dx.doi.org/10.1101/245068 2018-01-08 CC BY A Portable Structural Analysis Library for Reaction Networks Yosef M Bedaso|Frank Bergmann|Kiri M Choi|Herbert M Sauro University of Washington;|University of Heidelberg
http://dx.doi.org/10.1101/245035 2018-01-08 CC BY-NC-ND Genotype Imputation Performance of Three Reference Panels Using African Ancestry Individuals Candelaria Vergara|Margaret M Parker|Liliana Franco|Michael H Cho|Ana V Valencia-Duarte|Terri H Beaty|Priya Duggal Johns Hopkins University, School of Medicine, Baltimore, MD,USA;|Channing Division of Network Medicine, Brigham and Womens Hospital, Boston, Massachusetts, USA;|Universidad Pontificia Bolivariana, School of Medicine, Medellin, Colombia;|Johns Hopkins University, Bloomberg School of Public Health, Baltimore, MD,USA
http://dx.doi.org/10.1101/244780 2018-01-08 Phylogenomics and barcoding of Panax: toward the identification of ginseng species Vincent Manzanilla|Anneleen Kool|Linh Nguyen Nhat|Hai Nong Van|Le Thi Thu Hien|Hugo de Boer University of Oslo, Natural History Museum;|Institute of Genome Research, Vietnam Academy of Science and Technology
http://dx.doi.org/10.1101/244806 2018-01-08 Transcriptomic response to host and non-host plants during oviposition in two closely related moth species Marion Orsucci|Philippe Audiot|Sabine Nidelet|Franck Dorkeld|Alexandra Pommier|Marin Vabre|Dany Severac|Marine Rohmer|Bernhard Gschloessl|Rejane Streiff Evolutionary Biology Centre;|INRA;|INSERM;|CNRS
http://dx.doi.org/10.1101/244939 2018-01-08 CONFLICTING AUXIN-PHOSPHATE SIGNALS IMPACT ON RSL2 EXPRESSION AND ROS-HOMEOSTASIS LINKED TO ROOT HAIR GROWTH IN ARABIDOPSIS Silvina Mangano|Silvina Denita Juarez|Eliana Marzol|Cecilia Borassi|Jose Estevez Fundacion Instituto Leloir and Instituto de Investigaciones Bioquimicas de Buenos Aires (IIBBA)
http://dx.doi.org/10.1101/245076 2018-01-08 Dynamic Flux Balance Analysis Models in SBML Leandro Watanabe|Matthias Konig|Chris Myers University of Utah, Electrical and Computer Engineering;|Humboldt Universität zu Berlin
http://dx.doi.org/10.1101/244178 2018-01-08 CC BY-NC-ND Malaria during pregnancy and newborns outcome in an unstable transmission area in Brazil: a population-based record linkage study Jamille Gregorio Dombrowski|Rodrigo Medeiros Souza|Natercia Regina Mendes Silva|Andre Barateiro|Sabrina Epiphanio|Ligia Antunes Goncalves|Claudio Romero Farias Marinho Department of Parasitology, Institute of Biomedical Sciences, University of São Paulo, Brazil;|School of Pharmaceutical Sciences, University of São Paulo, Brazil
http://dx.doi.org/10.1101/242172 2018-01-08 Heterogeneous susceptibility to rotavirus infection and gastroenteritis in two birth cohort studies: parameter estimation and epidemiological implications Joseph A Lewnard|Benjamin A Lopman|Umesh D Parashar|Aisleen Bennett|Naor Bar-Zeev|Nigel A Cunliffe|Prasanna Samuel|M Lourdes Guerrero|Guillermo M Ruiz-Palacios|Gagandeep Kang|Virginia E Pitzer Harvard TH Chan School of Public Health, Boston, MA, USA;|Emory University Rollins School of Public Health, Atlanta, GA, USA;|US Centers for Disease Control and Prevention, Atlanta, GA, USA;|Malawi-Liverpool-Wellcome Trust Clinical Research Programme, Blantyre, Malawi;|Johns Hopkins Bloomberg School of Public Health, Baltimore, MD, USA;|Christian Medical College, Vellore, India;|Instituto Nacional de Ciences Medicas y Nutricion Salvador Zubiran, Mexico City, Mexico;|Yale School of Public Health, New Haven, CT, USA
http://dx.doi.org/10.1101/244822 2018-01-08 Evolutionary Biology CC BY Speciation genes are more likely to have discordant gene trees Richard J Wang|Matthew W Hahn Indiana University
http://dx.doi.org/10.1101/244947 2018-01-08 Plant Biology Root meristem growth factor 1 controls root meristem size through reactive oxygen species signaling Masashi Yamada|Xinwei Han|Philip N Benfey Department of Biology and HHMI, Duke University, Durham, NC 27710, USA.
http://dx.doi.org/10.1101/244327 2018-01-08 Neuroscience Radial glial lineage progression and differential intermediate progenitor amplification underlie striatal compartments and circuit organization Sean Michael Kelly|Miao He|Jannifer Lee|Yongsoo Kim|Leif Garrison Gibb|Priscilla Wu|Katie Matho|Pavel Osten|Ann Martin Graybiel|Z. Josh Huang Cold Spring Harbor Laboratory;|Fudan University;|Massachusetts Institute of Technology;|Pennsylvania State University
http://dx.doi.org/10.1101/244871 2018-01-08 Molecular Biology Quantification of double stranded DNA breaks and telomere length as proxies for corneal damage and replicative stress in 64 human keratoconus corneas The role of DNA damage in the development of keratoconus Robert PL Wisse|Jonas JW Kuiper|Timothy RDJ Radstake|Jasper CA Broen Department of Ophthalmology, University Medical Center Utrecht;|Ophthalmo-Immunology group, University Medical Center Utrecht;|Lab of Translational Immunology, Dept of Immunology, Univ Medical Center Utrecht
http://dx.doi.org/10.1101/245043 2018-01-08 Genetics CC BY An ancient fecundability-associated polymorphism creates a new GATA2 binding site in a distal enhancer of HLA-F Katelyn M. Mika|Xilong Li|Francesco J DeMayo|Vincent J Lynch The University of Chicago;|Feed Research Institute, Chinese Academy of Agricultural Sciences;|National Inst of Environ Health Sciences, Dept of Reprod & Developmental Biology
http://dx.doi.org/10.1101/234294 2018-01-08 Genetics Genome-wide association analysis of lifetime cannabis use (N=184,765) identifies new risk loci, genetic overlap with mental health, and a causal influence of schizophrenia on cannabis use Joelle A. Pasman|Karin J.H. Verweij|Zachary Gerring|Sven Stringer|Sandra Sanchez-Roige|Jorien L. Treur|Abdel Abdellaoui|Michel G. Nivard|Bart M.L. Baselmans|Jue-Sheng Ong|Hill F. Ip|Matthijs D. van der Zee|Meike Bartels|Felix R. Day|Pierre Fontanillas|Sarah L. Elson|Harriet de Wit|Lea K. Davis|James MacKillop|Jaime L. Derringer|Susan J.T. Branje|Catharina A. Hartman|Andrew C. Heath|Pol A.C. van Lier|Pamela A.F. Madden|Reedik Magi|Wim Meeus|Grant W. Montgomery|A. J. Oldehinkel|Zdenka Pausova|Josep A. Ramos-Quiroga|Thomas Paus|Marta Ribases|Jaakko Kaprio|Marco P.M. Boks|Jordana T. Bell|Tim D. Spector|Joel Gelernter|Dorret I. Boomsma|Nicholas G. Martin|Stuart MacGregor|John R.B. Perry|Abraham A. Palmer|Danielle Posthuma|Marcus R. Munafo|Nathan A. Gillespie|Eske M. Derks|Jacqueline M. Vink Behavioural Science Institute, Radboud University, Nijmegen, NL;|QIMR Berghofer Medical Research Institute, Brisbane, AU;|Department of Complex Trait Genetics, Vrije Universiteit Amsterdam, Amsterdam, NL;|Department of Psychiatry, University of California San Diego, La Jolla, US;|MRC Integrative Epidemiology Unit, University of Bristol, Bristol, UK;|Department of Biological Psychology/Netherlands Twin Register, Vrije Universiteit Amsterdam, NL;|Institute of Metabolic Science, University of Cambridge School of Clinical Medicine, Cambridge, UK;|23andMe, Inc., Mountain View, USA;|-;|Department of Psychiatry and Behavioral Neuroscience, University of Chicago, Chicago, USA;|Vanderbilt Genetics Institute, Vanderbilt University, Nashville, USA;|McMaster University/St. Josephs Healthcare Hamilton, Hamilton, CA;|Department of Psychology, University of Illinois Urbana-Champaign, Champaign, IL, USA;|Department of Youth and Family, Utrecht University, Utrecht, NL;|Department of Psychiatry, Universiteit Groningen, Groningen, NL;|Department of Psychiatry, Washington University School of Medicine, St. Louis (MO), USA;|Department of Developmental Psychology and EMGO Institute, Vrije Universiteit Amsterdam, NL;|Estonian Genome Center, University of Tartu, Tartu, Estonia;|Institute for Molecular Bioscience, The University of Queensland, Brisbane, Queensland, AU;|University of Groningen, University Medical Center Groningen, Groningen, NL;|Hospital for Sick Children, Toronto, CA;|Vall dHebron Research Institute (VHIR), Universitat Autonoma de Barcelona, Barcelona, ES;|Rotman Research Institute, Baycrest/ University of Toronto, Toronto, CA;|Institute for Molecular Medicine Finland FIMM, HiLIFE Unit, University of Helsinki, Helsinki, FI;|Department of Psychiatry, University Medical Center Utrecht, Utrecht, NL;|Department of Twin Research and Genetic Epidemiology, Kings College London, London, UK;|Department of Psychiatry, Yale University School of Medicine, New Haven (CT), USA;|Department of Biological Psychology/Netherlands Twin Register, VU University, Amsterdam, NL;|Department of Psychiatry, University of California San Diego, La Jolla, USA;|Department of Complex Trait Genetics, VU Amsterdam, Amsterdam, NL;|MRC Integrative Epidemiology Unit (IEU), University of Bristol, Bristol, UK;|Behavioral Science Institute, Radboud University, Nijmegen, NL
http://dx.doi.org/10.1101/243980 2018-01-08 Developmental Biology CC BY-ND The chick caudo-lateral epiblast acts as a permissive niche for generating neuromesodermal progenitor behaviours Peter Baillie-Johnson|Octavian Voiculescu|Penny Hayward|Benjamin Steventon University of Cambridge
http://dx.doi.org/10.1101/244590 2018-01-08 Neuroscience CC BY-NC Expression of the Eight GABAA Receptor α Subunits in the Developing Zebrafish Central Nervous System Bryan Monesson-Olson|Jon J. McClain|Abigail E. Case|Hanna E. Dorman|Daniel R. Turkewitz|Aaron B. Steiner|Gerald Downes University of Massachusetts Amherst;|Pace University
http://dx.doi.org/10.1101/238436 2018-01-08 Evolutionary Biology A compromised gsdf signaling leads to gamatogenesis confusion and subfertility in medaka Guijun Guan|Shumei Xu|Anning Guo|Xiaomiao Zhao|Yingqing Zhang|Kaiqing Sun|Yi Kang|Yuyang Chang|Xiaowen Wu|Liangbiao Chen Shanghai Ocean University;|Sun Yat-sen University
http://dx.doi.org/10.1101/245431 2018-01-09 Genomics CC BY-NC-ND Comparison of two African rice species through a new pan-genomic approach on massive data Cecile Monat|Christine Tranchand|Stefan Engelen|Karine Labadie|Emmanuel Paradis|Ndomassi Tando|Francois Sabot Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) Gatersleben;|DIADE IRD, Univ of Montpellier;|CEA, Genoscope;|ISE-M, Univ of Montpellier, CNRS, IRD, EPHE
http://dx.doi.org/10.1101/245522 2018-01-09 Microbiology CC BY Septal Secretion of Protein A in Staphylococcus aureus Requires SecA and Lipoteichoic Acid Synthesis Wenqi Yu|Dominique M Missiakas|Olaf Schneewind University of Chicago, United States
http://dx.doi.org/10.1101/245290 2018-01-09 Microbiology CC BY A metaproteomics method to determine carbon sources and assimilation pathways of species in microbial communities Manuel Kleiner|Xiaoli Dong|Tjorven Hinzke|Juliane Wippler|Erin Thorson|Bernhard Mayer|Marc Strous North Carolina State University;|University of Calgary;|University of Greifswald;|Max Planck Institute for Marine Microbiology
http://dx.doi.org/10.1101/245597 2018-01-09 Cell Biology CENP-B dynamics at centromeres is regulated by a SUMOylation/ubiquitination and proteasomal-dependent degradation mechanism involving the SUMO-targeted ubiquitin E3 ligase RNF4 Jhony El Maalouf|Pascale Texier|Indri Erliandri|Camille Cohen|Armelle Corpet|Frederic Catez|Chris Boutell|Patrick Lomonte University Claude Bernard Lyon 1;|University of Glasgow
http://dx.doi.org/10.1101/245506 2018-01-09 Genomics CC BY Fine-mapping of an expanded set of type 2 diabetes loci to single-variant resolution using high-density imputation and islet-specific epigenome maps Anubha Mahajan|Daniel Taliun|Matthias Thurner|Neil R Robertson|Jason M Torres|N William Rayner|Valgerdur Steinthorsdottir|Robert A Scott|Niels Grarup|James P Cook|Ellen M Schmidt|Matthias Wuttke|Chloe Sarnowski|Reedik Magi|Jana Nano|Christian Gieger|Stella Trompet|Cecile Lecoeur|Michael Preuss|Bram Peter Prins|Xiuqing Guo|Lawrence F Bielak|Amanda J Bennett|Jette Bork-Jensen|Chad M Brummett|Mickael Canouil|Kai-Uwe Eckardt|Krista Fischer|Sharon LR Kardia|Florian Kronenberg|Kristi Lall|Ching-Ti Liu|Adam E Locke|Jian'an Luan|Ioanna Ntalla|Vibe Nylander|Sebastian Schonherr|Claudia Schurmann|Loic Yengo|Erwin P Bottinger|Ivan Brandslund|Cramer Christensen|George Dedoussis|Jose C Florez|Ian Ford|Oscar H Franco|Timothy M Frayling|Vilmantas Giedraitis|Sophie Hackinger|Andrew T Hattersley|Christian Herder|M Arfan Ikram|Martin Ingelsson|Marit E Jrgensen|Torben Jrgensen|Jennifer Kriebel|Johanna Kuusisto|Symen Ligthart|Cecilia M Lindgren|Allan Linneberg|Valeriya Lyssenko|Vasiliki Mamakou|Thomas Meitinger|Karen L Mohlke|Andrew D Morris|Girish Nadkarni|James S Pankow|Annette Peters|Naveed Sattar|Alena Stancakova|Konstantin Strauch|Kent D Taylor|Barbara Thorand|Gudmar Thorleifsson|Unnur Thorsteinsdottir|Jaakko Tuomilehto|Daniel R Witte|Josee Dupuis|Patricia A Peyser|Eleftheria Zeggini|Ruth J F Loos|Philippe Froguel|Erik Ingelsson|Lars Lind|Leif Groop|Markku Laakso|Francis S Collins|J Wouter Jukema|Colin N A Palmer|Harald Grallert|Andres Metspalu|Abbas Dehghan|Anna Kottgen|Goncalo Abecasis|James B Meigs|Jerome I Rotter|Jonathan Marchini|Oluf Pedersen|Torben Hansen|Claudia Langenberg|Nicholas J Wareham|Kari Stefansson|Anna L Gloyn|Andrew P Morris|Michael Boehnke|Mark I McCarthy Wellcome Trust Ctr for Human Genetics, Nuffield Dept of Medicine, Univ of Oxford;|Dept of Biostatistics & Ctr for Statistical Genetics, University of Michigan, Ann Arbor;|deCODE Genetics, Amgen inc., Reykjavik, Iceland;|MRC Epidemiology Unit, Institute of Metabolic Science, University of Cambridge;|Novo Nordisk Found Ctr for Basic Metabol Res, Fac of Health and Medical Science;|Department of Biostatistics, University of Liverpool, Liverpool, UK;|Institute of Genetic Epidemiology, Medical Center, University of Freiburg;|Department of Biostatistics, Boston University School of Public Health;|Estonian Genome Center, University of Tartu;|Department of Epidemiology, Erasmus University Medical Center;|Institute of Epidemiology II, Helmholtz Zentrum Munchen Research Center;|Section of Gerontology & Geriatrics, Dept of Internal Medicine, Leiden Univ Med Ctr;|CNRS-UMR8199, Lille University, Lille Pasteur Institute;|Charles Bronfman Inst for Personalized Medicine, Icahn School of Med at Mt Sinai;|Dept of Human Genetics, Wellcome Trust Sanger Institute;|Dept of Pediatrics, Inst for Translational Genomics & Population Sci, LABioMed;|Dept of Epidemiology, School of Public Health, Univ of Michigan, Ann Arbor;|-;|Oxford Ctr for Diabetes, Endocrinology & Metabolism, Radcliffe Dept of Medicine;|Department of Anesthesiology, University of Michigan Medical School, Ann Arbor;|CNRS-UMR8199, Lille University, Lille Pasteur Institute, Lille, France;|Department of Nephrology and Medical Intensive Care, University Medicine Berlin;|Dept of Epidemiology, School of Public Health, University of Michigan, Ann Arbor;|Div of Genetic Epidemiology, Medical University of Innsbruck;|McDonnell Genome Institute, Washington University School of Medicine;|William Harvey Res Inst, Barts and London School of Medicine & Dentistry;|Division of Genetic Epidemiology, Medical University of Innsbruck;|Institute of Regional Health Research, University of Southern Denmark;|Medical Department, Lillebaelt Hospital Vejle;|Department of Nutrition and Dietetics, Harokopio University of Athens;|Department of Medicine, Harvard Medical School;|Robertson Centre for Biostatistics, University of Glasgow;|Dept of Epidemiology, Erasmus Univ Medical Center;|Genetics of Complex Traits, Univ of Exeter Medical School, University of Exeter;|Dept of Public Health & Caring Sciences, Geriatrics, Uppsala University;|Department of Human Genetics, Wellcome Trust Sanger Institute;|University of Exeter Medical School, University of Exeter;|German Center for Diabetes Research (DZD), Munchen-Neuherberg, Germany;|Department of Public Health and Caring Sciences, Geriatrics, Uppsala University;|Steno Diabetes Center Copenhagen, Gentofte, Denmark;|Research Centre for Prevention and Health, Capital Region of Denmark;|Inst of Clinical Medicine, Internal Medicine, Univ of Eastern Finland and Kuopio Univ;|Department of Clinical Sciences, Diabetes and Endocrinology, Lund University;|Dromokaiteio Psychiatric Hospital, National and Kapodistrian University of Athens;|Institute of Human Genetics, Technische Universitat Munchen;|Department of Genetics, University of North Carolina, Chapel Hill;|Clinical Res Ctr, Ctr for Molecular Medicine, Ninewells Hospital and Medical School;|Div of Nephrology, Dept of Medicine, Icahn School of Medicine at Mt Sinai;|Div of Epidemiology & Community Health, Univ of Minnesota;|German Center for Diabetes Research (DZD), Neuherberg, Germany;|Institute of Cardiovascular and Medical Sciences, University of Glasgow;|Faculty of Medicine, University of Iceland, Reykjavik, Iceland;|Department of Health, National Institute for Health and Welfare, Helsinki, Finland;|Department of Public Health, Aarhus University, Aarhus, Denmark;|National Heart, Lung, & Blood Inst's Framingham Heart Study;|Dept of Medicine, Div of Cardiovascular Medicine, Stanford Univ School of Medicine;|Department of Medical Sciences, Uppsala University, Uppsala, Sweden;|Clinical Sciences, Diabetes & Endocrinology, Lund University Diabetes Centre;|Genome Technology Branch, National Human Genome Research Institute, NIH;|Department of Cardiology, Leiden University Medical Center;|Pat Macpherson Centre for Pharmacogenetics and Pharmacogenomics;|Estonian Genome Center, University of Tartu, Tartu, Estonia;|General Med Div, Massachusetts General Hosp & Dept of Med, Harvard Med School;|Depts of Pediatrics & Medicine, Inst for Translational Genomics & Population Sci
http://dx.doi.org/10.1101/245308 2018-01-09 Animal Behavior and Cognition CC BY-NC-ND An entropic barriers diffusion theory of decision-making in multiple alternative tasks Diego Fernandez Slezak|Mariano Sigman|Guillermo Cecchi Universidad de Buenos Aires;|UTDT;|T.J. Watson Research, IBM
http://dx.doi.org/10.1101/245472 2018-01-09 Evolutionary Biology CC BY-NC-ND Exploring the role of cellular homologous of the 30K-superfamily of plant virus movement proteins Jose L. Carrasco|Jesus A. Sanchez-Navarro|Santiago F. Elena Instituto de Biologia Molecular y Celular de Plantas (IBMCP), CSIC-UPV
http://dx.doi.org/10.1101/242081 2018-01-09 Plant Biology CC BY Targeted epigenomic changes to the maize methylome resulting from tissue culture Zhaoxue Han|Peter A Crisp|Scott Stelpflug|Shawn Kaeppler|Qing Li|Nathan M Springer Northwest A&F University;|University of Minnesota;|Monsanto Company;|University of Wisconsin-Madison;|Huazhong Agricultural University
http://dx.doi.org/10.1101/245324 2018-01-09 Microbiology CC BY Commensal-Pathogen Competition Impacts Host Viability David Fast|Benjamin Kostiuk|Edan Foley|Stefan Pukatzki University of Alberta;|University of Colorado School of Medicine
http://dx.doi.org/10.1101/245514 2018-01-09 Genomics Genus-wide sequencing supports a two-locus model for sex-determination in Phoenix Maria F Torres|Lisa S Mathew|Ikhlak Ahmed|Iman K Al-Azwani|Robert Krueger|Diego Rivera|Yasmin A. Mohamoud|Andrew G. Clark|Karsten Suhre|Joel A. Malek Weill Cornell Medicine in Qatar, now University of Cincinnati, Cincinnati, OH;|Weill Cornell Medicine in Qatar;|USDA-ARS National Clonal Germplasm Repository for Citrus and Dates;|Department of Plant Biology, Faculty of Biology, University of Murcia;|Genomics Laboratory, Weill Cornell Medicine in Qatar;|Department of Molecular Biology and Genetics, Cornell University, Ithaca, NY;|Department of Physiology, Weill Cornell Medicine-Qatar, Doha, Qatar;|Dept of Genetic Medicine & Genomics Lab, Weill Cornell Medicine in Qatar
http://dx.doi.org/10.1101/245241 2018-01-09 Genetics CC BY-NC-ND PacBio library preparation using blunt-end adapter ligation produces significant artefactual fusion DNA sequences Paul M Griffith|Castle Raley|David Sun|Yongmei Zhao|Zhonghe Sun|Monika Mehta|Bao Tran|Xiaolin Wu Leidos Biomedical Research Inc.
http://dx.doi.org/10.1101/245365 2018-01-09 Biochemistry CC BY-NC-ND Quantum chemistry reveals the thermodynamic principles of redox biochemistry Adrian Jinich|Avi Flamholz|Haniu Ren|Sung-Jin Kim|Benjamin Sanchez-Lengeling|Charles A. R. Cotton|Elad Noor|Alan Aspuru-Guzik|Arren Bar-Even Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA;|Department of Molecular and Cellular Biology, University of California, Berkeley, Berkeley, CA;|Center for Systems Biology, Massachusetts General Hospital, Boston, MA;|Max Planck Institute of Molecular Plant Physiology, Am Muhlenberg 1, 14476 Potsdam-Golm, Germany;|Institute of Molecular Systems Biology, ETH Zurich, Auguste-Piccard-Hof 1, 8093 Zurich, Switzerland
http://dx.doi.org/10.1101/245381 2018-01-09 Neuroscience CC BY-NC-ND Impairment in updating spatial representations in Parkinson's disease correlates with dopaminergic deficiency Henry Railo|Henri Olkoniemi|Enni Eeronheimo|Oona Paakkonen|Juho Joutsa|Valtteri Kaasinen University of Turku and Turku University Hospital;|University of Turku;|Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/245464 2018-01-09 Bioinformatics CC BY-NC-ND In silico design of ligand triggered RNA switches Sven Findei|Stefan Hammer|Michael T. Wolfinger|Felix Kuhnl|Christoph Flamm|Ivo L. Hofacker Universität Leipzig;|Universität Wien
http://dx.doi.org/10.1101/245274 2018-01-09 Neuroscience Manipulation of central amygdala neurotensin neurons alters alcohol consumption Maria Luisa Torruella-Suarez|Jessica R Vandenberg|Gregory J Tipton|Brennon R Luster|Kedar Dange|Gunjan K Patel|Jenna A McHenry|J. Andrew Hardaway|Pranish A Kantak|Nicole A Crowley|Jeffrey F DiBerto|Sara P Faccidomo|Clyde W Hodge|Garret D Stuber|Zoe A McElligott University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/245373 2018-01-09 Evolutionary Biology CC BY-NC-ND Long read sequencing reveals poxvirus evolution through rapid homogenization of gene arrays Thomas A. Sasani|Kelsey R. Cone|Aaron R. Quinlan|Nels C. Elde University of Utah
http://dx.doi.org/10.1101/245589 2018-01-09 Cell Biology CC BY A conserved function for pericentromeric satellite DNA Yukiko M Yamashita|Madhav Jagannathan|Ryan Cummings University of Michigan, Ann Arbor, HHMI, United States;|University of Michigan Ann Arbor, United States
http://dx.doi.org/10.1101/245258 2018-01-09 Bioengineering CC BY-NC-ND Muscle stem cell intramuscular delivery within hyaluronan methylcellulose improves engraftment efficiency and dispersion Sadegh Davoudi|Chih-Ying Chin|Michael C. Cooke|Roger Y. Tam|Molly S. Shoichet|Penney M. Gilbert University of Toronto
http://dx.doi.org/10.1101/245407 2018-01-09 Biochemistry CC BY-NC-ND Molecular Dynamics Investigation of the Role of Residues D137 and S315 to INH Binding in KatG Matt Bawn|Richard S Magliozzo Brooklyn College, CUNY
http://dx.doi.org/10.1101/245266 2018-01-09 Biophysics Minimizing activation of overlying axons with epiretinal stimulation: The role of fiber orientation and electrode configuration Timothy B Esler|Robert R Kerr|Bahman Tahayori|David B Grayden|Hamish Meffin|Anthony N Burkitt The University of Melbourne;|Australian College of Optometry
http://dx.doi.org/10.1101/245357 2018-01-09 Biophysics CC BY-NC-ND A mixed quantum chemistry/machine learning approach for the fast and accurate prediction of biochemical redox potentials and its large-scale application to 315,000 redox reactions Adrian Jinich|Benjamin Sanchez-Lengeling|Haniu Ren|Rebecca Harman|Alan Aspuru-Guzik Department of Chemistry and Chemical Biology, Harvard University, Cambridge, MA, 02138;|Harvard University
http://dx.doi.org/10.1101/244541 2018-01-09 Developmental Biology Insect wings and body wall evolved from ancient leg segments Heather S Bruce|Nipam H Patel UC Berkeley
http://dx.doi.org/10.1101/245332 2018-01-09 Cell Biology Transcription factor dynamics reveals a circadian code for fat cell differentiation Zahra Bahrami-Nejad|Michael L Zhao|Stefan Tholen|Devon Hunerdosse|Karen M Tkach|Sabine van Schie|Mingyu Chung|Mary N Teruel Stanford University
http://dx.doi.org/10.1101/245142 2018-01-09 Developmental Biology CC BY-NC-ND A three-dimensional staging system of mouse endometrial gland morphogenesis Zer Vue|Gabriel Gonzalez|C. Allison Stewart|Shyamin Mehra|Richard R. Behringer Baylor College of Medicine;|University of Texas MD Anderson Cancer Center
http://dx.doi.org/10.1101/245613 2018-01-09 Neuroscience CC BY-NC-ND Collicular circuits for flexible sensorimotor routing Chunyu A Duan|Marino Pagan|Alex T Piet|Charles D Kopec|Athena Akrami|Alexander J Riordan|Jeffrey C Erlich|Carlos D Brody Inst of Neuroscience, State Key Lab of Neuroscience, Chinese Acad of Sciences;|Princeton University;|Princeton University and Howard Hughes Medical Institute;|NYU Shanghai
http://dx.doi.org/10.1101/245571 2018-01-09 Systems Biology CC BY-NC-ND Multi-regional Neurodegeneration in Alzheimer's disease: Meta-analysis and data integration of transcriptomics data Reza Karbalaei|Bahareh Torkzaban|Mostafa Rezaei-Tavirani|Sadegh Azimzadeh Proteomics Res Ctr, Faculty of Paramed Sci, Shahid Beheshti University of Med Sci;|National Institute of Genetic Engineering and Biotechnology;|Chemical Injuries Research Center, Baqiyatallah University of Medical Sciences
http://dx.doi.org/10.1101/244038 2018-01-09 Biophysics CC BY-NC-ND Heterochromatin drives organization of conventional and inverted nuclei Martin Falk|Yana Feodorova|Natasha Naumova|Maxim Imakaev|Bryan R. Lajoie|Heinrich Leonhardt|Boris Joffe|Job Dekker|Geoffrey Fudenberg|Irina Solovei|Leonid Mirny Massachusetts Institute of Technology, Cambridge, MA, USA;|Medical University-Plovdiv, Plovdiv, Bulgaria;|Epinomics Inc, Menlo Park, CA, USA;|Illumina Incorporated, San Diego, CA, USA;|Ludwig-Maximilians University Munich, Germany;|Howard Hughes Medical Institute, Univ of Massachusetts Medical School;|Gladstone Institutes, University of California, San Francisco
http://dx.doi.org/10.1101/243568 2018-01-09 Bioinformatics Identifying biomarkers of anti-cancer drug synergy using multi-task learning Nanne Aben|Julian R. de Ruiter|Evert Bosdriesz|Yongsoo Kim|Gergana Bounova|Daniel J. Vis|Lodewyk F.A. Wessels|Magali Michaut Netherlands Cancer Institute, Oncode Institute & Delft University of Technology;|Netherlands Cancer Institute & Oncode Institute
http://dx.doi.org/10.1101/245423 2018-01-09 Cell Biology The abnormal, mis-localizated HR bmh protein associates with members of the protein processing machinery in the cytoplasm Eric G Folco|Maud-Virginie Brancaz-Bouvier|Agnes Belly|Stefan Nonchev Universite de Lyon, IGFL, CNRS UMR 5242, ENS-Lyon, Univ. Claude Bernard I, Lyon, France;|Institut for Advanced Biosciences, INSERM 1209, UMR CNRS 5309, Univ Grenoble-Alpes, Grenoble, France;|Grenoble Institut des Neurosciences, INSERM U1216, Univ. Grenoble Alpes, Grenoble, France
http://dx.doi.org/10.1101/237834 2018-01-09 Cell Biology CC BY-NC-ND A quantitative map of human Condensins provides new insights into mitotic chromosome architecture Nike Walther|M. Julius Hossain|Antonio Z. Politi|Birgit Koch|Moritz Kueblbeck|Oeyvind Oedegaard-Fougner|Marko Lampe|Jan Ellenberg European Molecular Biology Laboratory (EMBL);|Max Planck Institute for Medical Research;|Eurpean Molecular Biology Laboratory (EMBL)
http://dx.doi.org/10.1101/245605 2018-01-09 Molecular Biology Evaluation of a Chlamydia trachomatis-specific, commercial, real-time PCR for use with ocular swabs Harry Pickering|Martin J Holland|Anna R Last|Matthew J Burton|Sarah E Burr London School of Hygiene & Tropical Medicine
http://dx.doi.org/10.1101/245340 2018-01-09 Biochemistry CC BY-NC-ND Novel phosphorylation states of the yeast spindle pole body Kimberly K. Fong|Alex Zelter|Beth Graczyk|Jill M. Hoyt|Michael Riffle|Richard Johnson|Michael J. MacCoss|Trisha N. Davis University of Washington, Department of Biochemistry;|University of Washington, Department of Genome Sciences
http://dx.doi.org/10.1101/245704 2018-01-09 Developmental Biology CC BY CDK1 and CDK2 regulate phosphorylation-dependent NICD1 turnover and the periodicity of the segmentation clock J Kim Dale|Francesca Anna Carrieri|Philip Murray|Paul Davies University of Dundee, United Kingdom
http://dx.doi.org/10.1101/244830 2018-01-09 Genomics CC BY-NC-ND Whole body transcriptomes and new insights into the biology of the tick Ixodes ricinus Pierre N. Charrier|Marjorie Couton|Maarten J. Voordouw|Olivier Rais|Axelle Durand-Hermouet|Caroline Hervet|Olivier Plantard|Claude Rispe INRA, Oniris;|Université de Neuchâtel
http://dx.doi.org/10.1101/245829 2018-01-10 Neuroscience CC BY-ND Subgoal- and Goal-Related Prediction Errors in Medial Prefrontal Cortex Jose J. F. Ribas Fernandes|Danesh Shahnazian|Clay B. Holroyd|Matthew M. Botvinick Department of Psychology, University of Victoria;|DeepMind, and Gatsby Computational Neuroscience Unit, Univ College London
http://dx.doi.org/10.1101/245316 2018-01-10 Neuroscience CC BY-NC-ND Causal contribution and dynamical encoding in the striatum during evidence accumulation Michael M Yartsev|Timothy D Hanks|Alice M Yoon|Carlos D Brody UC Berkeley;|UC Davis;|Princeton University;|Princeton University and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/246132 2018-01-10 Neuroscience Flexible information coding in frontoparietal cortex across the functional stages of cognitive processing. Joyce MG Vromen|Stefanie I Becker|Oliver Baumann|Jason B Mattingley|Roger W Remington University of Oxford;|University of Queensland
http://dx.doi.org/10.1101/246215 2018-01-10 Neuroscience CC BY ErbB4 deletion in noradrenergic neurons in the locus coeruleus induces mania-like behavior via elevated catecholamines Shu-Xia Cao|Ying Zhang|Xing-Yue Hu|Bin Hong|Peng Sun|Hai-Yang He|Hong-Yan Geng|Ai-Min Bao|Shumin Duan|Jian-Ming Yang|Tian-Ming Gao|Hong Lian|Xiao-Ming Li Zhejiang University School of Medicine, China;|Southern Medical University, China
http://dx.doi.org/10.1101/246033 2018-01-10 Microbiology CC BY-NC-ND Data-mining of Antibiotic Resistance Genes Provides Insight into the Community Structure of Ocean Microbiome Shiguang Hao|Pengshuo Yang|Maozhen Han|Junjie Xu|Shaojun Yu|Chaoyun Chen|Wei-Hua Chen|Houjin Zhang|Kang Ning Huazhong University of Science and Technology，College of Life Science and Technology
http://dx.doi.org/10.1101/244434 2018-01-10 Neuroscience Functionally asymmetric motor neurons coordinate locomotion of Caenorhabditis elegans Oleg Tolstenkov|Petrus Van der Auwera|Jana F. Liewald|Wagner Steuer Costa|Olga Bazhanova|Tim M. Gemeinhardt|Amelie C. F. Bergs|Alexander Gottschalk Buchmann Institute for Molecular Life Sciences, Goethe University;|Goethe University
http://dx.doi.org/10.1101/245670 2018-01-10 Genomics Identification of differentially expressed small RNAs and prediction of target genes in Italian Large White pigs with divergent backfat deposition Roberta Davoli|Enrico Gaffo|Martina Zappaterra|Stefania Bortoluzzi|Paolo Zambonelli Department of Agricultural and-Food Sciences (DISTAL), University of Bologna;|Department of Molecular Medicine, University of Padova
http://dx.doi.org/10.1101/245480 2018-01-10 Bioinformatics CC BY-NC-ND TOGGLe, a flexible framework for easily building complex workflows and performing robust large-scale NGS analyses Christine Tranchant-Dubreuil|Sebastien Ravel|Cecile Monat|Gautier Sarah|Abdoulaye Diallo|Laura Helou|Alexis Dereeper|Ndomassi Tando|Julie Orjuela-Bouniol|Francois Sabot DIADE IRD, Univ of Montpellier, South Green Bioinform Platform, CIRAD, INRA, IRD;|BGPI CIRAD, INRA, S. Green Bioinform Platform, BIOVERSITY, CIRAD, INRA, IRD;|IPK Leibniz Institute of Plant Genetics and Crop Plant Research Gatersleben;|AGAP CIRAD, INRA, SupAgro, S. Green Bioinform Platform, CIRAD, INRA, IRD;|DIADE IRD, Univ of Montpellier, S. Green Bioinform Platform, CIRAD, INRA, IRD;|IPME IRD, Univ of Montpellier, S. Green Bioinform Platform, CIRAD, INRA, IRD;|ADNid-QualTech;|IRD - French institute for Sustainable Development
http://dx.doi.org/10.1101/245886 2018-01-10 Neuroscience Differential 3′ Processing of Specific Transcripts Expands Regulatory and Protein Diversity Across Neuronal Cell Types Sasa Jereb|Hun-Way Hwang|Eric Van Otterloo|Eve-Ellen Govek|John J Fak|Yuan Yuan|Mary E Hatten|Robert B Darnell The Rockefeller University;|University of Colorado Anschutz Medical Campus
http://dx.doi.org/10.1101/245985 2018-01-10 Synthetic Biology CC BY-NC-ND Exploring protein orthogonality in immune space: a case study with AAV and Cas9 orthologs Ana M Moreno|Nathan Palmer|Fernando Aleman|Genghao Chen|Andrew Pla|Wei Leong Chew|Mansun Law|Prashant Mali University of California San Diego;|The Scripps Research Institute;|Genome Institute of Singapore
http://dx.doi.org/10.1101/245688 2018-01-10 Genomics CC BY-NC-ND Easy Hi-C: A simple efficient protocol for 3D genome mapping in small cell populations Leina Lu|Xiaoxiao Liu|Jun Peng|Yan Li|Fulai Jin Case Western Reserve University
http://dx.doi.org/10.1101/245811 2018-01-10 Systems Biology CC BY-NC-ND The thermodynamic landscape of carbon redox biochemistry Adrian Jinich|Benjamin Sanchez-Lengeling|Haniu Ren|Joshua E. Goldford|Elad Noor|Jacob N. Sanders|Daniel Segre|Alan Aspuru-Guzik Department of Chemistry and Chemical Biology, Harvard University, Cambridge MA;|Bioinformatics Program and Biological Design Center, Boston University, Boston, MA;|Institute of Molecular Systems Biology, ETH Zurich, Auguste-Piccard-Hof 1, 8093 Zurich, Switzerland;|Department of Chemistry and Biochemistry, University of California, Los Angeles, CA;|Boston University
http://dx.doi.org/10.1101/246017 2018-01-10 Plant Biology Arabidopsis HB52 mediates the crosstalk between ethylene and auxin signaling pathways by regulating PIN2, WAG1, and WAG2 during primary root elongation Zi-Qing Miao|Ping_Xia Zhao|Jie-Li Mao|Lin-Hui Yu|Yang Yuan|Hui Tang|Chengbin Xiang USTC;|School of Life Sciences
http://dx.doi.org/10.1101/245654 2018-01-10 Zoology The Impact of fodder on Bombyx Mori Victor Flores|Katherine Medina University of Valparaiso
http://dx.doi.org/10.1101/245878 2018-01-10 Molecular Biology CC BY Liquid-like P granules require ATP hydrolysis to avoid solidification Jarrett Smith|Geraldine Seydoux Johns Hopkins Medical Institute
http://dx.doi.org/10.1101/238386 2018-01-10 CC BY-NC-ND A temporally dynamic Foxp3 autoregulatory transcriptional circuit controls the effector Treg programme David Bending|Alina Paduraru|Paz Prieto Martin|Tessa Crompton|Masahiro Ono Imperial College London;|University College London
http://dx.doi.org/10.1101/246272 2018-01-10 CC BY-NC-ND Count does not recover major events of gene flux in real biological data Nils Kapust|Shijulal Nelson-Sathi|Barbara Schoenfeld|Einat Hazkani-Covo|David Bryant|Peter J Lockhart|Mayo Roettger|Joana C. Xavier|William F. Martin Heinrich Heine University;|Rajiv Gandhi Centre for Biotechnology;|University of Tasmania;|The Open University of Israel;|University of Otago;|Massey University
http://dx.doi.org/10.1101/246264 2018-01-10 CC BY Edge Factors: Scientific Frontier Positions of Nations Mikko Packalen University of Waterloo
http://dx.doi.org/10.1101/246371 2018-01-10 CC BY-NC-ND Thalamostriatal Interactions in Human Reversal Learning Tiffany Bell|Angela Langdon|Michael Lindner|William Lloyd|Anastasia Christakou University of Reading;|Princeton University;|University of Manchester
http://dx.doi.org/10.1101/246330 2018-01-10 CC BY-NC-ND A Transcriptomic Analysis of Xylan Mutants Does Not Support the Existence of A Secondary Cell Wall Integrity System in Arabidopsis Nuno Faria-Blanc|Jenny Mortimer|Paul Dupree University of Cambridge;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/246306 2018-01-10 CC BY SUCCESSIVE BLOODMEALS ENHANCE VIRUS DISSEMINATION WITHIN MOSQUITOES AND INCREASE TRANSMISSION POTENTIAL Philip M Armstrong|Hanna Ehrlich|Angela Bransfield|Joshua L Warren|Virginia E Pitzer|Doug E Brackney The Connecticut Agricultural Experiment Station;|Yale School of Public Health
http://dx.doi.org/10.1101/246249 2018-01-10 CC BY-NC-ND 216 GHz Electron Paramagnetic Resonance of Mycobacterium Tuberculosis Catalase-Peroxidase: The Role of the Arg418 Residue Matt Bawn|Jurek Krzystek|Richard S Magliozzo Brooklyn College, CUNY;|National High Magnetic Field Laboratory, Florida State University
http://dx.doi.org/10.1101/246454 2018-01-10 CC BY-NC-ND Oncogenic role of sFRP2 in P53-mutant osteosarcoma development via autocrine and paracrine mechanism Huen Suk Kim|Seungyeul Yoo|Jeffrey M Bernitz|Ye Yuan|Andreia M Gomes|Michael G Daniel|Jie Su|Elizabeth G Demicco|Jun Zhu|Kateri A Moore|Dung-Fang Lee|Ihor R Lemischka|Christoph Schaniel Icahn School of Medicine at Mount Sinai;|Icahn School of Medicine at Mount Sinai & University of Coimbra;|Icahn School of Medicine at Mount Sinai & Memorial Sloan Kettering Cancer Center;|Icahn School of Medicine at Mount Sinai & Mount Sinai Hospital;|Icahn School of Med at Mount Sinai & Univ of Texas Health Science Ctr at Houston
http://dx.doi.org/10.1101/246140 2018-01-10 CC BY Firing-Rate Based Network Modeling of the dLGN Circuit: Effects of Cortical Feedback on Spatiotemporal Response Properties of Relay Cells Milad Hobbi Mobarhan|Geir Halnes|Pablo Martinez-Canada|Torkel Hafting|Marianne Fyhn|Gaute Einevoll University of Oslo;|Norwegian University of Life Sciences, Aas, Norway;|University of Granada, Granada, Spain;|University of Oslo, Oslo, Norway
http://dx.doi.org/10.1101/245209 2018-01-10 Whole brain comparative anatomy using connectivity blueprints Rogier B. Mars|Stamatios N. Sotiropoulos|Richard E. Passingham|Jerome Sallet|Lennart Verhagen|Alexandr A. Krapitchev|Nicola Sibson|Saad Jbabdi University of Oxford;|University of Nottingham
http://dx.doi.org/10.1101/246108 2018-01-10 GtTR: Bayesian estimation of absolute tandem repeat copy number using sequence capture and high throughput sequencing Devika Ganesamoorthy|Minh Duc Cao|Tania Duarte|Wenhan Chen|Lachlan J M Coin University of Queensland;|The University of Queensland
http://dx.doi.org/10.1101/246439 2018-01-10 A cluster-aware, weighted ensemble clustering method for cell-type detection Daphne Tsoucas|Guo-Cheng Yuan Harvard University;|Dana Farber Cancer Institue, Harvard University
http://dx.doi.org/10.1101/246165 2018-01-10 CC BY Noise propagation in an integrated model of bacterial gene expression and growth Istvan T. Kleijn|Laurens H.J. Krah|Rutger Hermsen Imperial College London;|Utrecht University
http://dx.doi.org/10.1101/189811 2018-01-10 CC BY-NC-ND Three-stage processing of category information by interactive mechanisms of peri-occipital and peri-frontal cortices Hamid Karimi-Rouzbahani Shahid Rajaee Teacher Training University
http://dx.doi.org/10.1101/246298 2018-01-10 CC BY-NC-ND DETERMINATION OF THE THERMODYNAMICS OF β-LACTOGLOBULIN AGGREGATION USING ULTRA VIOLET LIGHT SCATTERING SPECTROSCOPY James I Austerberry|Daniel Belton University of Manchester;|University of Huddersfield
http://dx.doi.org/10.1101/246116 2018-01-10 CC BY Using paired serology and surveillance data to quantify dengue transmission and control during a large outbreak in Fiji Adam J Kucharski|Mike Kama|Conall H Watson|Maite Aubry|Sebastian Funk|Alasdair D Henderson|Oliver Brady|Jessica Vanhomwegen|Jean-Claude Manuguerra|Colleen L Lau|John Edmunds|John Aaskov|Eric James Nilles|Van-Mai Cao-Lormeau|Stephane Hue|Martin Hibberd London School of Hygiene and Tropical Medicine;|Ministry of Health;|London School of Hygiene & Tropical Medicine;|Institut Louis Malarde;|Institut Pasteur;|Australian National University;|Queensland University of Technology;|World Health Organization
http://dx.doi.org/10.1101/246181 2018-01-10 CC BY Cigarette smoking and personality: Investigating causality using Mendelian randomization Hannah M Sallis|George Davey Smith|Marcus R Munafo University of Bristol
http://dx.doi.org/10.1101/245720 2018-01-10 Neuroscience CC BY-ND Value Representations in Orbitofrontal Cortex Drive Learning, but not Choice Kevin J Miller|Matthew M Botvinick|Carlos D Brody Princeton University;|DeepMind and University College London;|Princeton University and Howard Hughes Medical Institute
http://dx.doi.org/10.1101/245795 2018-01-10 Systems Biology Time-scale separation and stochasticity conspire to impact phenotypic dynamics in the canonical and inverted Bacillus subtilis core genetic regulation circuits. Lijjie Hao|Zhuoqin Yang|Marc Turcotte School of Mathematics & Systems Science & LMIB, Beihang Univ, Beijing, China;|University of Texas at Dallas
http://dx.doi.org/10.1101/245779 2018-01-10 Evolutionary Biology CC BY-NC-ND Extrapolating Weak Selection in Evolutionary Games Zhuoqun Wang|Rick Durrett Nanjing U;|Duke
http://dx.doi.org/10.1101/245944 2018-01-10 Neuroscience CC BY-NC-ND Action-outcome knowledge dissociates from behavior in obsessive-compulsive disorder following contingency degradation Matilde M. Vaghi|Rudolf N. Cardinal|Annemieke M. Apergis-Schoute|Naomi A. Fineberg|Akeem Sule|Trevor W. Robbins University of Cambridge;|Hertfordshire Partnership Univ NHS Foundation Trust and Univ of Hertfordshire;|Cumbria Partnership NHS Foundation Trust
http://dx.doi.org/10.1101/246009 2018-01-10 Neuroscience CC BY-NC-ND No Evidence for Systematic White Matter Correlates of Dyslexia: An Activation Likelihood Estimation Meta-Analysis David Moreau|Josephine Stonyer|Nicole McKay|Karen Waldie University of Auckland
http://dx.doi.org/10.1101/245845 2018-01-10 Neuroscience CC BY-NC-ND Sleep deprivation selectively up-regulates an amygdala-hypothalamic circuit involved in food reward Julia Rihm|Mareike M Menz|Heidrun Schultz|Luca Bruder|Leonhard Schilbach|Sebastian M Schmid|Jan Peters University of Cologne;|University Medical Center Hamburg-Eppendorf;|University of Birmingham;|Max Planck Institute for Psychiatry;|University Hospital Schleswig-Holstein
http://dx.doi.org/10.1101/245761 2018-01-10 Genomics CC BY-ND Genetic architecture of gene expression traits across diverse populations Lauren S Mogil|Angela Andaleon|Alexa Badalamenti|Scott P Dickinson|Xiuqing Guo|Jerome I Rotter|W. Craig Johnson|Hae Kyung Im|Yongmei Liu|Heather E Wheeler Department of Biology, Loyola University Chicago, Chicago, IL, USA;|Program in Bioinformatics, Loyola University Chicago, Chicago, IL, USA;|Section of Genetic Medicine, Department of Medicine, University of Chicago;|Inst for Translational Genomics & Population Sci, Los Angeles Biomed Res Inst;|Department of Biostatistics, University of Washington, Seattle, WA, USA;|Department of Epidemiology & Prevention, Wake Forest School of Medicine;|Department of Biology, Program in Bioinformatics, Loyola University Chicago
http://dx.doi.org/10.1101/244285 2018-01-10 Genomics 5C-ID: Increased resolution Chromosome-Conformation-Capture-Carbon-Copy with in situ 3C and double alternating primer design Ji Hun Kim|Katelyn Titus|Wanfeng Gong|Jonathan Beagan|Zhendong Cao|Jennifer E Phillips-Cremins University of Pennsylvania
http://dx.doi.org/10.1101/245175 2018-01-10 Systems Biology CC BY-NC-ND Neuraminidase inhibitors - is it time to call it a day? Cesar Parra-Rojas|Van Kinh Nguyen|Gustavo Hernandez-Mejia|Esteban Hernandez-Vargas Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/245696 2018-01-10 Neuroscience Native experience modulates neural timing: plasticity in language prediction hierarchies Francesco Giannelli|Nicola Molinaro University of Barcelona;|BCBL
http://dx.doi.org/10.1101/245738 2018-01-10 Neuroscience CC BY A scalable method to improve gray matter segmentation at ultra high field MRI Omer Faruk Gulban|Marian Schneider|Ingo Marquardt|Roy A.M. Haast|Federico De Martino Maastricht University, Department of Cognitive Neuroscience
http://dx.doi.org/10.1101/245936 2018-01-10 Neuroscience CC BY-NC-ND Causal Discovery of Feedback Networks with Functional Magnetic Resonance Imaging Ruben Sanchez-Romero|Joseph D. Ramsey|Kun Zhang|Madelyn R. K. Glymour|Biwei Huang|Clark Glymour Carnegie Mellon University
http://dx.doi.org/10.1101/245928 2018-01-10 Neuroscience A master regulatory network restoring brain glutamate homeostasis is coordinately activated in stroke Mariko Kobayashi|Corey Anderson|Corinne Benakis|Michael J Moore|Aldo Mele|John J Fak|Christopher Y Park|Ping Zhou|Josef Anrather|Costantino Iadecola|Robert B Darnell Rockefeller University;|Weill Cornell Medicine
http://dx.doi.org/10.1101/245217 2018-01-10 Bioinformatics CC BY Guidance on filtering DNA methylation microarray probes by detection p-values Jonathan A Heiss|Allan C Just Icahn School of Medicine at Mt Sinai, Dept of Environmental Med & Public Health
http://dx.doi.org/10.1101/246082 2018-01-10 Biophysics Green function of correlated genes and the mechanical evolution of protein Sandipan Dutta|Jean-Pierre Eckmann|Albert Libchaber|Tsvi Tlusty Institute for Basic Science;|University of Geneva;|Rockefeller University
http://dx.doi.org/10.1101/245662 2018-01-10 Immunology BRD4 Deficiency Selectively Affects a Unique Developmental Subpopulation in Thymocytes Anne Gegonne|Qing-Rong Chen|Anup Dey|Ruth Etzensperger|Xuguang Tai|Alfred Singer|Daoud Meerzaman|Keiko Ozato|Dinah Singer National Cancer Institute, NIH;|Eunice Kennedy Shriver Natl Inst of Child Health & Human Development, NIH
http://dx.doi.org/10.1101/246066 2018-01-10 Genomics CC BY-NC-ND IsoCon: Deciphering highly similar multigene family transcripts from Iso-Seq data Kristoffer Sahlin|Marta Tomaszkiewicz|Kateryna D Makova|Paul Medvedev Penn State University
http://dx.doi.org/10.1101/245647 2018-01-10 Cell Biology CC BY-NC-ND Local Protein Dynamics During Microvesicle Exocytosis in Neuroendocrine Cells Agila Somasundaram|Justin W Taraska National Institutes of Health
http://dx.doi.org/10.1101/246199 2018-01-10 Cell Biology Src-transformed cells hijack mitosis to extrude from the epithelium Katarzyna A Anton|Mihoko Kajita|Rika Narumi|Yasuyuki Fujita|Masazumi Tada University College London;|Hokkaido University
http://dx.doi.org/10.1101/246231 2018-01-10 Biophysics CC BY-NC-ND Chromatin configuration affects the dynamics and distribution of a transiently interacting protein Assaf Amitai Massachusetts Institute of Technology
http://dx.doi.org/10.1101/246579 2018-01-11 Task-Related EEG Source Localization via Graph Regularized Low-Rank Representation Model Feng Liu|Jay Rosenberger|Yifei Lou|Jing Qin|Shouyi Wang UT Arlington;|UT Dallas;|Montana State Univerisity
http://dx.doi.org/10.1101/247007 2018-01-11 A simulation study on the relative role of age groups under differing pertussis transmission scenarios Ana I Bento|Aaron A King|Pejman Rohani University of Georgia;|University of Michigan
http://dx.doi.org/10.1101/246462 2018-01-11 CC BY Vascular risk factors for male and female urgency urinary incontinence at age 68 from a British birth cohort study Alex Tsui|Diana Kuh|Linda Cardozo|Daniel Davis MRC Unit for Lifelong Health and Ageing at UCL;|King's College Hospital
http://dx.doi.org/10.1101/247056 2018-01-11 CC BY-NC-ND A genomic island of Streptomyces coelicolor harbors the self-contained regulon of an ECF sigma factor Camilla M. Kao|Nitsara Karoonuthaisiri|David Weaver|Jonathan A. Vroom|Shuning A. Gai|Mai-Lan Ho|Kedar G. Patel Stanford University;|National Center for Engineering and Biotechnology, Pathum Thani, Thailand;|ERM: Environmental Resources Management;|Codexis;|Prothena Biosciences;|Mayo Clinic
http://dx.doi.org/10.1101/246611 2018-01-11 Larger legume plants host a greater diversity of symbiotic nitrogen-fixing bacteria Russell Dinnage|Anna K Simonsen|Marcel Cardillo|Peter H Thrall|Luke G Barrett|Suzanne M Prober Australian National University;|CSIRO Agriculture and Foods;|CSIRO Land and Water
http://dx.doi.org/10.1101/246827 2018-01-11 NET-prism enables RNA polymerase-dedicated transcriptional interrogation at nucleotide resolution Constantine Mylonas|Peter Tessarz Max Planck Institute for Biology of Ageing
http://dx.doi.org/10.1101/246900 2018-01-11 Bioinformatic analysis of endogenous and exogenous small RNAs on lipoproteins Ryan M Allen|Shilin Zhao|Marisol A. Ramirez-Solano|Danielle L. Michell|Yuhuan Wang|Yu Shyr|Praveen Sethupathy|MacRae F Linton|Greg A Graf|Quanhu Sheng|Kasey C Vickers Vanderbilt University Medical Center;|University of Kentucky;|Cornell University;|Vandebilt University Medical Center;|Vanderbilt Univ. Medical Center
http://dx.doi.org/10.1101/246256 2018-01-11 CC BY-NC Quantification of gene expression patterns to reveal the origins of abnormal morphogenesis Neus Martinez-Abadias|Roger Mateu Estivill|Jaume Sastre Tomas|Susan Motch Perrine|Melissa Yoon|Alex Robert-Moreno|Jim Swoger|Lucia Russo|Kazuhiko Kawasaki|Joan Richtsmeier|James Sharpe European Molecular Biology Lab (EMBL);|Universitat de Barcelona (UB);|Universitat de les Illes Balears (UIB);|Pennsylvania State University;|Center for Genomic Regulation (CRG)
http://dx.doi.org/10.1101/247015 2018-01-11 FoxN1-dependent thymic epithelial cells promote T-cell leukemia development Marinella N Ghezzo|Monica T Fernandes|Rui S Machado|Ivette Pacheco-Leyva|Marta A Araujo|Ravi Kiran Reddy Kalathur|Matthias E Futschik|Nuno L Alves|Nuno Rodrigues dos Santos Centre for Biomedical Research (CBMR), University of Algarve, Portugal;|Instituto de Investigacao e Inovacao em Saude (i3S), University of Porto, Portugal;|School of Biomedical and Healthcare Sciences, Plymouth University
http://dx.doi.org/10.1101/247072 2018-01-11 CC BY-ND From Armament to Ornament: Performance Trade-Offs in the Sexual Weaponry of Neotropical Electric Fishes Kory M. Evans|Maxwell J. Bernt|Matthew A. Kolmann|Kassandra L. Ford|James S. Albert University of Minnesota;|University of Louisiana at Lafayette;|University of Washington Friday Harbor Labs
http://dx.doi.org/10.1101/247023 2018-01-11 CC BY-NC-ND Zebrafish type I collagen mutants faithfully recapitulate human type I collagenopathies Charlotte Gistelinck|Ronald Y Kwon|Fransiska Malfait|Sofie Symoens|Matthew P Harris|Katrin Henke|Shannon Fisher|Patrick Sips|Brecht Guillemyn|Jan Willem Beck|Petra Vermassen|Hanna De Saffel|MaryAnn Weis|Anne De Paepe|David R Eyre|Andy Willaert|Paul Coucke University of Washington;|Ghent University;|Harvard Medical School;|Boston University School of Medicine
http://dx.doi.org/10.1101/246488 2018-01-11 CC BY Quantitative super-resolution single molecule microscopy dataset of YFP-tagged growth factor receptors Tomas Lukes|Jakub Pospisil|Karel Fliegel|Theo Lasser|Guy M Hagen Laboratoire d'Optique Biomedicale, Ecole Polytechnique Federale de Lausanne;|Dept of Radioelectronics, Faculty of Electrical Engineering, Czech Technical Univ;|BioFrontiers Center, University of Colorado - Colorado Springs
http://dx.doi.org/10.1101/246967 2018-01-11 CC BY Limitation of alignment-free tools in total RNA-seq quantification Douglas C Wu|Jun Yao|Kevin S Ho|Alan M Lambowitz|Claus O Wilke The University of Texas at Austin
http://dx.doi.org/10.1101/246793 2018-01-11 CC BY-NC-ND RMalign: an RNA structural alignment tool based on a size independent scoring function Zheng Jinfang|Juan Xie|Xu Hong|Shiyong Liu Huazhong University of Science and Technology
http://dx.doi.org/10.1101/247031 2018-01-11 Reducing False Positives in CRISPR/Cas9 Screens from Copy Number Variations Alexander Wu|Tengfei Xiao|Teng Fei|Shirley X Liu|Wei Li Program in Computational Biol & Quant Genetics, Harvard School of Public Health;|Center for Functional Cancer Epigenetics, Dana-Farber Cancer Institute;|College of Life and Health Sciences, Northeastern University;|Dept of Biostatistics and Computational Biology, Dana-Farber Cancer Institute;|Center for Generic Medicine Research, Children's National Health System
http://dx.doi.org/10.1101/246413 2018-01-11 Evidence for hyper-reductive redox in a subset of heart failure patients Thiagarajan Sairam|Amit N Patel|Meenu Subrahmanian|Rajendran Gopalan|Steven M Pogwizd|Sudha Ramalingam|Sankaran Ramalingam|Rajasekaran Namakkal-Soorappan PSG Center for Molecular Medicine and Therapeutics, PSG IMSR, Tamilnadu, India;|Division of Cardiothoracic Surgery, University of Miami Miller School of Medicine, FL, USA.;|Dept. of Cardiology, PSG Center for Molecular Medicine and Therapeutics, PSG IMSR, Tamilnadu, India;|Department of Medicine, University of Alabama at Birmingham, Birmingham, AL, USA;|Department of Pathology, University of Alabama at Birmingham, Birmingham, USA
http://dx.doi.org/10.1101/246389 2018-01-11 CC BY-NC-ND Direct Imaging of the circular chromosome of a live bacterium Fabai Wu|Aleksandre Japaridze|Xuan Zheng|Jacob W.J. Kerssemakers|Cees Dekker California Institute of Technology;|Delft University of Technology
http://dx.doi.org/10.1101/246496 2018-01-11 CC BY-NC-ND SpaRC: Scalable Sequence Clustering using Apache Spark Lizhen Shi|Xiandong Meng|Elizabeth Tseng|Michael Mascagni|Zhong Wang Florida State University;|DOE Joint Genome Institute;|Pacific Biosciences Inc;|Floria State University
http://dx.doi.org/10.1101/229484 2018-01-11 CC BY-NC-ND Open Source Brain: a collaborative resource for visualizing, analyzing, simulating and developing standardized models of neurons and circuits Padraig Gleeson|Matteo Cantarelli|Boris Marin|Adrian Quintana|Matt Earnshaw|Eugenio Piasini|Justas Birgiolas|Robert C Cannon|N Alex Cayco-Gajic|Sharon Crook|Andrew P Davison|Salvador Dura-Bernal|Andras Ecker|Michael L Hines|Giovanni Idili|Stephen Larson|William W Lytton|Amit Majumdar|Robert A McDougal|Subhashini Sivagnanam|Sergio Solinas|Rokas Stanislovas|Sacha J van Albada|Werner Van Geit|R Angus Silver University College London;|University College London, MetaCell Limited;|University College London, Universidade de São Paulo;|University College London, University of Pennsylvania;|Arizona State University;|Annotate Limited;|Centre National de la Recherche Scientifique, France;|Kings County Hospital and Downstate Medical Center, Brooklyn;|EPFL, Switzerland;|Yale School of Medicine;|MetaCell Limited;|OpenWorm Foundation;|University of California San Diego;|University of Sassari, University of Zurich and ETH Zurich;|Julich Research Centre
http://dx.doi.org/10.1101/246603 2018-01-11 Identification of an immune gene expression signature associated with favorable clinical features in Treg-enriched patient tumor samples Kevin B. Givechian|Kamil Wnuk|Chad Garner|Stephen Benz|Hermes Garban|Shahrooz Rabizadeh|Kayvan Niazi|Patrick Soon-Shiong NantOmics;|NantOmics, NantBioscience;|NantBioscience
http://dx.doi.org/10.1101/246090 2018-01-11 CC BY-NC-ND Genome-wide scans of selection highlight the impact of biotic and abiotic constraints in natural populations of the model grass Brachypodium distachyon. Yann Bourgeois|Christoph Stritt|Jean-Claude Walser|Sean P Gordon|John P Vogel|Anne C Roulin NYUAD;|University of Zurich;|ETH Zurich;|DOE Joint Genome Institute
http://dx.doi.org/10.1101/246520 2018-01-11 CC BY-NC-ND Factor Structure and Heritability of Obsessive-Compulsive Traits in Children and Adolescents in the General Population Christie L Burton|Laura S Park|Elizabeth C Corfield|Nadine Forget-Dubois|Annie Dupuis|Vanessa M Sinopoli|Janet Shan|Tara Goodale|S-M Shaheen|Jennifer Crosbie|Russell J Schachar|Paul D Arnold Hospital for Sick Children;|Hospital for Sick Children; University of Toronto;|Universite Laval;|Mathison Centre for Mental Health Research and Education; University of Calgary
http://dx.doi.org/10.1101/244574 2018-01-11 CC BY-NC-ND Data-driven approaches improve Tau-PET biomarkers in Alzheimer's disease Jacob W Vogel|Niklas Mattsson|Yasser Iturria-Medina|T. Olof Strandberg|Michael Scholl|Christian Dansereau|Sylvia Villeneuve|Wiesje M van der Flier|Philip Scheltens|Pierre Bellec|Alan C Evans|Oskar Hansson|Rik Ossenkoppele McGill University;|Clinical Memory Research Unit, Lund University, Lund, Sweden;|Montreal Neurological Institute, McGill University;|Wallenberg Centre for Molecular and Translational Medicine, University of Gothenburg, Gothenburg, Sw;|Department of Computer Science and Operations research, Universite de Montreal, Montreal, QC, Canada;|Department of Psychiatry, McGill University, Montreal, QC, Canada;|Alzheimer Center and Department of Neurology, VU University medical center, Amsterdam Neuroscience,;|-
http://dx.doi.org/10.1101/246124 2018-01-11 Characterization of P. falciparum dipeptidyl aminopeptidase 3 specificity identifies different amino acid preferences between peptide-based substrates and inhibitors. Edgar Deu|Laura E de Vries|Mateoa Isidrio Sanchez|Katarzyna Groborz|Laurie Kuppens|Marcin Poreba|Christine Lehmann|Fang Yuan|Shirin Arastu-Kapur|Matthew Bogyo|Marcin Drag The Francis Crick Institute;|Universidad de Santiago de Compostela;|Wroclaw University;|Wroclaw university;|Stanford University School of Medicine;|Stanford Univesity School of Medicine
http://dx.doi.org/10.1101/246314 2018-01-11 Inhibitors of lysosomal function or serum starvation in control or LAMP2 deficient cells do not modify the cellular levels of Parkinson disease-associated DJ-1/PARK7 protein Raul Sanchez-Lanzas|Jose G. Castano Universidad Autonoma de Madrid
http://dx.doi.org/10.1101/245449 2018-01-11 Developmental Biology E-cadherin bridges cell polarity and spindle orientation to ensure prostate epithelial integrity and prevent carcinogenesis in vivo Xue Wang|Kai Zhang|Zhongzhong Ji|Chaping Cheng|Huifang Zhao|Yaru Sheng|Xiaoxia Li|Liancheng Fan|Baijun Dong|Wei Xue|Wei-Qiang Gao|Helen Zhu Shanghai Jiao Tong University
http://dx.doi.org/10.1101/246587 2018-01-11 Biochemistry CC BY-NC-ND An integrated, pipeline-based approach for cryo-EM structure determination and atomic model refinement in the cloud Michael A Cianfrocco|Indrajit Lahiri|Frank DiMaio|Andres E Leschziner University of Michigan;|University of California - San Diego;|University of Washington
http://dx.doi.org/10.1101/246538 2018-01-11 Ecology CC BY-NC-ND Development and worldwide use of a non-lethal and minimal population-level impact protocols for the isolation of chytrids from amphibians Matthew C Fisher|Pria Ghosh|Jennifer M. G. Shelton|Kieran Bates|Lola Brookes|Claudia Wierzbicki|Goncalo M Rosa|Rhys A Farrer|David M Aanensen|Mario Alvarado-Rybak|Arnaud Bataille|Lee Berger|Susanne Boell|Jaime Bosch|Frances Clare|Elodie Courtois|Angelica Crottini|Andrew Cunningham|Thomas Doherty-Bone|Fikirte Gebresenbet|David Gower|Jacob Hoglund|Thomas Jenkinson|Tiffany Kosch|Timothy James|Carolina Lambertini|Anssi Laurila|Chun-Fu Lin|Adeline Loyau|An Martel|Sara Meurling|Claude Miaud|Pete Minting|Serge Ndriantsoa|Luisa Ribeiro|Frank Pasmans|Tsanta Rakotonanahary|Faly Rabemananjara|Dirk Schmeller|Benedikt Schmidt|Lee Skerratt|Freya Smith|Claudio Soto-Azat|Giulia Tessa|Luis Toledo|Andres Valenzuela-Sanchez|Ruhan Verster|Judit Voros|Bruce Waldman|Rebecca Webb|Che Weldon|Emma Wombwell|Kelly Zamudio|Joyce E Longcore|Trenton W.J. Garner Imperial College London;|Institute of Zoology;|Wellcome Genome Campus;|Universidad Andres Bello;|Seoul National University;|James Cook University;|Agency for Population Ecology and Nature Conservancy;|Museo Nacional de Ciencias Naturales;|Universite de Guyane;|Universidade do Porto;|Royal Zoological Society of Scotland;|Oklahoma State University;|The Natural History Museum;|Uppsala University;|University of Michigan;|Universidade Estadual de Campinas;|Endemic Species Research Institute;|Helmholtz Centre for Environmental Research;|Ghent University;|Universite de Toulouse;|Amphibian and Reptile Conservation (ARC) Trust;|Durrell Wildlife Conservation Trust;|University of Ghent;|IUCN SSC Amphibian Specialist Group-Madagascar;|University of Zurich;|National Wildlife Management Centre;|Sardinia Wildlife Conservation;|North-West University;|Hungarian Natural History Museum;|Cornell University;|University of Maine
http://dx.doi.org/10.1101/246074 2018-01-11 Plant Biology CC BY Population structure of the Brachypodium species complex and genome wide association of agronomic traits in response to climate. Pip B Wilson|Jared C Streich|Kevin D Murray|Steven R Eichten|Riyan Cheng|Niccy C Aitken|Kurt Spokas|Norman Warthmann|Justin O Borevitz Australian National University;|United States Department of Agriculture;|-
http://dx.doi.org/10.1101/246322 2018-01-11 Animal Behavior and Cognition Monkey Facial Dynamics in "Minimal Interactions" Stephen V Shepherd Independent Researcher
http://dx.doi.org/10.1101/247221 2018-01-12 Microbiology CC BY-ND Single Cell Observations Show Persister Cells Wake Based on Ribosome Content Jun-Seob Kim|Thomas K Wood Pennsylvania State University
http://dx.doi.org/10.1101/247148 2018-01-12 Bioinformatics CC BY-NC-ND Assembly of Long Error-Prone Reads Using Repeat Graphs Mikhail Kolmogorov|Jeffrey Yuan|Yu Lin|Pavel Pevzner Dept of Computer Science and Engineering, University of California, San Diego;|Graduate Program in Bioinformatics & Systems Biol, Univ of California, San Diego;|Research School of Computer Science, Australian National University
http://dx.doi.org/10.1101/246801 2018-01-11 Genomics CC BY-NC-ND Shared transcriptional control and disparate gain and loss of aphid parasitism genes and loci acquired via horizontal gene transfer Peter Thorpe|Carmen Escudero-Martinez|Peter Cock|Dominik Laetsch|Sebastian Eves-van den Akker|Jorunn Bos The James Hutton Institute;|The University of Dundee;|University of Edinburgh
http://dx.doi.org/10.1101/246843 2018-01-11 Neuroscience CC BY-NC Stimulus prediction in the hippocampus Peter Kok|Nicholas B. Turk-Browne Yale University
http://dx.doi.org/10.1101/244004 2018-01-11 Evolutionary Biology CC BY-NC-ND High accuracy haplotype-derived allele frequencies from ultra-low coverage pool-seq samples Susanne Tilk|Alan O Bergland|Aaron Goodman|Paul Schmidt|Dmitri Petrov|Sharon Greenblum Stanford University;|University of Virginia;|University of Pennsylvania
http://dx.doi.org/10.1101/247080 2018-01-11 Neuroscience Association between peripheral neuroinflammation and DATSCAN data of the striatal nuclei in Parkinson Disease Hossein Sanjari Moghaddam|Mahtab Mojtahed Zadeh|Farzaneh Ghazi Sherbaf|Mohammad Hadi Aarabi Tehran University of Medical Sciences
http://dx.doi.org/10.1101/246884 2018-01-11 Immunology HCMV glycoprotein B subunit vaccine efficacy was mediated by non-neutralizing antibody effector functions Cody S Nelson|Tori Huffman|Eduardo Cisneros de la Rosa|Guanhua Xi|Nathan Vandergrift|Robert F Pass|Justin Pollara|Sallie R Permar Duke University;|University of Alabama Birmingham
http://dx.doi.org/10.1101/247064 2018-01-11 Ecology CC BY-ND Planned missing data design: stronger inferences, increased research efficiency and improved animal welfare in ecology and evolution Daniel W.A. Noble|Shinichi Nakagawa University of New South Wales;|UNSW
http://dx.doi.org/10.1101/247114 2018-01-11 Bioinformatics A computational method to aid the design and analysis of single cell RNA-seq experiments for cell type identification Douglas Abrams|Parveen Kumar|Krishna Murthy Karuturi|Joshy George Colby College, Waterville, Maine, USA;|The Jackson Laboratory for Genomic Medicine, Farmington, CT, USA 06030
http://dx.doi.org/10.1101/246751 2018-01-11 Developmental Biology Efficient production of erythroid, megakaryoid and myeloid cells, using a single cell-derived iPSC colony differentiation Marten Hansen|Eszter Varga|Cathelijn Aarts|Tatjana Wust|Taco Kuijpers|Marieke von Lindern|Emile van den Akker Sanquin
http://dx.doi.org/10.1101/246736 2018-01-11 Evolutionary Biology CC BY-NC-ND Comparative Phylogenomic Synteny Network Analysis of Mammalian and Angiosperm Genomes Tao Zhao|Eric Schranz Wageningen University
http://dx.doi.org/10.1101/246744 2018-01-11 Neuroscience Spatial cell firing during virtual navigation of open arenas by head-restrained mice Guifen Chen|John A King|Yi Lu|Francesca Cacucci|Neil Burgess University College London
http://dx.doi.org/10.1101/246660 2018-01-11 Neuroscience CC BY-NC-ND Speech intelligibility predicted from neural entrainment of the speech envelope Jonas Vanthornhout|Lien Decruy|Jan Wouters|Jonathan Simon|Tom Francart KU Leuven;|UMD
http://dx.doi.org/10.1101/246280 2018-01-11 Genomics CC BY-NC-ND Signatures of host specialization and a recent transposable element burst in the dynamic one-speed genome of the fungal barley powdery mildew pathogen Lamprinos Frantzeskakis|Barbara Kracher|Stefan Kusch|Makoto Yoshikawa-Maekawa|Saskia Bauer|Carsten Pesersen|Pietro D Spanu|Takaki Maekawa|Paul Schulze-Lefert|Ralph Panstruga RWTH Aachen Uiversity;|Max Planck Institute for Plant Breeding Research;|RWTH Aachen University;|Copenhagen University;|Imperial College London
http://dx.doi.org/10.1101/247049 2018-01-11 Biochemistry CC BY-ND Automated map sharpening by maximization of detail and connectivity Thomas C. Terwilliger|Oleg Sobolev|Pavel V Afonine|Paul D Adams Los Alamos National Laboratory;|Lawrence Berkeley National Laboratory
http://dx.doi.org/10.1101/246629 2018-01-11 Bioinformatics CC BY Stochastic exits from dormancy give rise to heavy-tailed distributions of descendants in bacterial populations Erik S Wright|Kalin Vetsigian University of Pittsburgh, United States;|University of Wisconsin-Madison, United States
http://dx.doi.org/10.1101/246405 2018-01-11 Neuroscience Widespread and targeted gene expression by systemic AAV vectors: Production, purification, and administration Rosemary C Challis|Sripriya Ravindra Kumar|Ken Y Chan|Collin Challis|Min J Jang|Pradeep S Rajendran|John D Tompkins|Kalyanam Shivkumar|Benjamin E Deverman|Viviana Gradinaru California Institute of Technology;|University of California, Los Angeles
http://dx.doi.org/10.1101/246561 2018-01-11 Neuroscience Deciphering the contribution of oriens-lacunosum/moleculare (OLM) cells to intrinsic theta rhythms using biophysical local field potential (LFP) models Alexandra Chatzikalymniou|Frances Skinner Krembil Research Institute, University Health Network;|Krembil Research Institute
http://dx.doi.org/10.1101/247403 2018-01-12 Mixing is required for uniform reconstitution of filter-dried protein antigens in a single-injection vaccine formulation Napawan Thangsupanimitchai|Alexander Edwards University of Reading
http://dx.doi.org/10.1101/247452 2018-01-12 CC BY-NC-ND Cancer exosomes induce tumor neo-neurogenesis potentiating tumor growth Marianna Madeo|Paul L. Colbert|Daniel W. Vermeer|Christopher T. Lucido|Elisabeth G. Vichaya|Aaron J. Grossberg|Jacob T. Cain|DesiRae Muirhead|Alex P. Rickel|Zhongkui Hong|William C. Spanos|John H. Lee|Robert Dantzer|Paola D. Vermeer Sanford Research;|MD Anderson Cancer Center;|Sanford Health;|University of South Dakota;|NantKwest
http://dx.doi.org/10.1101/232850 2018-01-12 Genome analysis and data sharing informs timing of molecular events in pancreatic neuroendocrine tumour Rene Quevedo|Anna Spreafico|Anna Spreafico|Jeff Bruce|Arnavaz Danesh|Amanda Giesler|Youstina Hanna|Cherry Have|Tiantian Li|S.Y. Cindy Yang|Tong Zhang|Sylvia L. Asa|Benjamin Haibe-Kains|Suzanne Kamel-Reid|Monika Krzyzanowska|Adam Smith|Simron Singh|Lillian L. Siu|Trevor J. Pugh Princess Margaret Cancer Centre, University Health Network, Toronto, Canada;|Laboratory Medicine Program, University Health Network, Toronto, Canada;|Susan Leslie Clin for Neuroendocrine Cancer, Sunnybrook Odette Cancer Ctr
http://dx.doi.org/10.1101/246702 2018-01-12 SYSTEMATIC ANALYSES OF AUTOSOMAL RECOMBINATION RATES FROM THE 1000 GENOMES PROJECT UNCOVERS THE GLOBAL RECOMBINATION LANDSCAPE IN HUMANS Shivakumara Manu|Kshitish K Acharya|Saravanamuthu Thiyagarajan Institute of Bioinformatics and Applied Biotechnology;|Inst of Bioinformatics & Applied Biotechnology; Shodhaka Life Sciences Pvt. Ltd.
http://dx.doi.org/10.1101/246876 2018-01-12 CC BY-NC-ND Structural and functional influences of urban and rural childhoods on the medial prefrontal cortex Xiao Zhang|Hao Yan|Hao Yu|Xin Zhao|Shefali Shah|Zheng Dong|Guang Yang|Xiaoxi Zhang|Qiang Chen|Jing Li|Sisi Jiang|Timothy Muse|Jinmin Liao|Yuyanan Zhang|Weihua Yue|Daniel R Weinberger|Dai Zhang|Hao Yang Tan Institute of Mental Health, The Sixth Hospital, Peking University;|Lieber Institute for Brain Development
http://dx.doi.org/10.1101/247353 2018-01-12 CC BY-NC-ND Genome-wide gene-environment analyses of depression and reported lifetime traumatic experiences in UK Biobank Jonathan R I Coleman|Thalia C Eley|Gerome Breen Institute of Psychiatry, Psychology and Neuroscience, King's College London;|-
http://dx.doi.org/10.1101/246991 2018-01-12 CC BY-NC-ND Coronavirus S protein-induced fusion is blocked prior to hemifusion by Abl kinase inhibitors Jeanne Sisk|Matthew B Frieman|Carolyn E Machamer Johns Hopkins University School of Medicine;|University of Maryland School of Medicine
http://dx.doi.org/10.1101/246637 2018-01-12 Secondary contacts between European white oaks reveal genes underlying reproductive isolation Thibault Leroy|Quentin Rougemont|Catherine Bodenes|Celine Lalanne|Caroline Belser|Karine Labadie|Gregoire Le Provost|Jean-Marc Aury|Antoine Kremer|Christophe Plomion INRA;|Universite Laval;|CEA
http://dx.doi.org/10.1101/247460 2018-01-12 CC BY-ND Focused learning promotes continual task performance in humans Timo Flesch|Jan Balaguer|Ronald Dekker|Hamed Nili|Christopher Summerfield University of Oxford
http://dx.doi.org/10.1101/246975 2018-01-12 The influence of everyday events on prospective timing “in the moment” Ashley S. Bangert|Christopher A. Kurby|Jeffrey M. Zacks The University of Texas at El Paso;|Grand Valley State University;|Washington University in St. Louis
http://dx.doi.org/10.1101/245548 2018-01-12 A mathematical model of the hypothalamic network controlling the ultradian secretion of reproductive hormones. Margaritis Voliotis|Xiao-Feng Li|Kevin T O'Byrne|Krasimira Tsaneva-Atanasova University of Exeter;|King's College London
http://dx.doi.org/10.1101/247189 2018-01-12 CC BY-NC-ND Heritability, selection, and the response to selection in the presence of phenotypic measurement error: effects, cures, and the role of repeated measurements Erica Ponzi|Timothee Bonnet|Lukas Keller|Stefanie Muff University of Zurich;|Australian National University Research School of Biology
http://dx.doi.org/10.1101/247163 2018-01-12 A laboratory demand optimisation project in primary care Magda Bucholc|Maurice O'Kane|Brendan O'Hare|Ciaran Mullan|Paul Cavanagh|Siobhan Ashe|KongFatt Wong-Lin Intelligent Systems Research Centre, University of Ulster;|Altnagelvin Area Hospital, Western Health and Social Care Trust;|Western Local Commissioning Group
http://dx.doi.org/10.1101/247437 2018-01-12 CC BY Physical Principles of HIV Integration Davide Michieletto|Marina Lusic|Davide Marenduzzo|Enzo Orlandini University of Edinburgh;|Heidelberg;|Edinburgh;|Padova
http://dx.doi.org/10.1101/223198 2018-01-12 CC BY Fast automated reconstruction of genome-scale metabolic models for microbial species and communities Daniel Machado|Sergej Andrejev|Melanie Tramontano|Kiran Raosaheb Patil European Molecular Biology Laboratory
http://dx.doi.org/10.1101/246850 2018-01-12 CC BY-NC-ND Association between schizophrenia and both loss of function and missense mutations in paralog conserved sites of voltage-gated sodium channels Elliott Rees|Noa Carrera|Joanne Morgan|Kirsty Hambridge|Valentina Escott-Price|Andrew J Pocklington|Alexander L Richards|Antonio F Pardinas|Colm McDonald|Gary Donohoe|Derek W Morris|Elaine Kenny|Eric Kelleher|Michael Gill|Aiden Corvin|George Kirov|James T. R. Walters|Peter Holmans|Michael J Owen|Michael C O'Donovan Cardiff University;|-;|National University of Ireland Galway;|Trinity College Dublin
http://dx.doi.org/10.1101/247445 2018-01-12 CC BY-NC-ND Impact of DNA polymerase choice on assessment of bacterial communities by a Legionella genus-specific next-generation sequencing approach Rui P. A. Pereira|Jorg Peplies|Ingrid Brettar|Manfred G. Hoefle Helmholtz Centre for Infection Research, Braunschweig, Germany;|Ribocon GmbH, Bremen, Germany
http://dx.doi.org/10.1101/247130 2018-01-12 Consistency in predicting functions from anatomical and functional connectivity profiles across the cortical cortex Dongya Wu|Lingzhong Fan|Tianzi Jiang Brainnetome Center, Institute of Automation, Chinese Academy of Sciences
http://dx.doi.org/10.1101/247429 2018-01-12 Small interfering RNAs based on huntingtin trinucleotide repeats are highly toxic to cancer cells Andrea E Murmann|Quan Q Gao|William Putzbach|Monal Patel|Elizabeth T Bartom|Calvin Law|Bryan Bridgeman|Siquan Chen|Kaylin M McMahon|C Shad Thaxton|Marcus Ernst Peter Northwestern University;|University of Chicago
http://dx.doi.org/10.1101/247395 2018-01-12 CC BY-NC-ND MITOMIX, an Algorithm to Reconstruct Population Admixture Histories Indicates Ancient European Ancestry of Modern Hungarians Zoltan Maroti|Tibor Torok|Endre Neparaczki|Istvan Rasko|Istvan Nagy|Miklos Maroti|Tamas Varga|Peter Bihari|Zsolt Boldogkoi|Dora Tombacz|Tibor Kalmar Department of Pediatrics and Pediatric Health Center, University of Szeged, Hungary;|Department of Genetics, University of Szeged, Hungary;|Institute of Genetics, Biological Research Centre, Szeged, Hungary;|Institute of Biochemistry, Biological Research Centre, Szeged, Hungary;|Department of Algebra and Number Theory, Bolyai Institute, University of Szeged, Hungary;|Bolyai Institute, University of Szeged, Hungary;|SeqOmics Biotechnology Ltd., Morahalom, Hungary;|Department of Medical Biology, University of Szeged, Hungary
http://dx.doi.org/10.1101/247171 2018-01-12 Type-2 CD8+ T lymphocytes responsive to PGD2 and LTE4 in severe eosinophilic asthma Bart Hilvering|Timothy SC Hinks|Linda Stoger|Emanuele Marchi|Maryam Salimi|Rahul Shrimanker|Wie Liu|Wentao Chen|Jian Luo|Simei Go|Timothy Powell|Jennifer Cane|Samantha Thulborn|Ayako Kurioka|Tianqi Leng|Jamie Matthews|Clare Connolly|Catherine Borg|Mona Bafadhel|Christian Willberg|Adaikalavan Ramasamy|Ratko Djukanovic|Graham Ogg|Ian D Pavord|Paul Klenerman|Luzheng Xue University of Oxford;|University of Southampton
http://dx.doi.org/10.1101/247379 2018-01-12 A robust method for RNA extraction and purification from a single adult mouse tendon Mor Grinstein|Heather L Dingwall|Rishita R Shah|Terence D Capellini|Jenna L Galloway Ctr for Regenerative Med, Dept Orthopaedic Surgery, Massachusetts General Hosp;|Department of Human Evolutionary Biology, Harvard University
http://dx.doi.org/10.1101/247312 2018-01-12 Messenger RNA biomarker signatures for forensic body fluid identification revealed by targeted RNA sequencing Erin Hanson|Sabrina Ingold|Cordula Haas|Jack Ballantyne University of Central Florida;|Zurich Institute of Forensic Medicine
http://dx.doi.org/10.1101/247346 2018-01-12 CC BY RNA-seq transcript quantification from reduced-representation data in recount2 Jack Fu|Kai Kammers|Abhinav Nellore|Leonardo Collado-Torres|Jeffrey T Leek|Margaret A Taub Johns Hopkins Bloomberg School of Public Health;|Johns Hopkins University School of Medicine;|Oregon Health and Science University;|Lieber Institute for Brain Development
http://dx.doi.org/10.1101/247536 2018-01-12 SVEngine: an efficient and versatile simulator of genome structural variations with features of cancer clonal evolution Li Charlie Xia|Dongmei Ai|Hojoon Lee|Noemi Andor|Chao Li|Nancy R Zhang|Hanlee P Ji Stanford University;|University of Science and Technology Beijing;|University of Pennsylvania
http://dx.doi.org/10.1101/247304 2018-01-12 CC BY-NC-ND How the Central American Seaway and an ancient northern passage affected Flatfish diversification Lisa Byrne|Francois Chapleau|Stephane Aris-Brosou University of Ottawa
http://dx.doi.org/10.1101/247270 2018-01-12 Interactome Analysis Reveals Regulator of G Protein Signaling 14 (RGS14) is a Novel Calmodulin (CaM) Effector in Mouse Brain Paul R Evans|Kyle J Gerber|Eric B. Dammer|Duc M Duong|Devrishi Goswami|Daniel J Lustberg|Juan Zou|Jenny J Yang|Serena M Dudek|Patrick R Griffin|Nicholas T Seyfried|John R Hepler Max Plank Institute-Florida;|Emory University School of Medicine;|Amgen Biotechnology Company, Inc;|Georgia State University;|National Institute of Environmental Health Sciences, National Institutes of Health;|The Scripps Research Institute, Jupiter, FL
http://dx.doi.org/10.1101/236745 2018-01-12 Wnt signalling drives context-dependent differentiation or proliferation in neuroblastoma Marianna Szemes|Alexander Greenhough|Zsombor Melegh|Sally Malik|Aysen Yuksel|Daniel Catchpoole|Kelli Gallacher|Madhu Kollareddy|Ji Hyun Park|Karim Malik University of Bristol;|The Childrens Hospital at Westmead
http://dx.doi.org/10.1101/247288 2018-01-12 Engineering of a Polydisperse Small Heat-Shock Protein Reveals Conserved Motifs of Oligomer Plasticity Sanjay Mishra|Shane A. Chandler|Dewight Williams|Derek P. Claxton|Hanane A. Koteiche|Phoebe L. Stewart|Justin L.P. Benesch|Hassane S. Mchaourab Chemical & Physical Biology Program, Vanderbilt University;|Department of Chemistry, University of Oxford;|John M. Cowley Center for High Resolution Electron Microscopy, Arizona State Univ;|Department of Molecular Physiology and Biophysics, Vanderbilt University;|Department of Pharmacology Case Western Reserve University
http://dx.doi.org/10.1101/247361 2018-01-12 CC BY De novo origin of multicellularity in response to predation Matthew D. Herron|Josh M. Borin|Jacob C. Boswell|Jillian Walker|Charles A. Knox|Margrethe Boyd|Frank Rosenzweig|William C. Ratcliff Georgia Institute of Technology;|University of Montana
http://dx.doi.org/10.1101/247320 2018-01-12 Cause and consequences of genome duplication in haploid yeast populations Kaitlin J. Fisher|Sean W. Buskirk|Ryan C. Vignogna|Daniel A. Marad|Gregory I Lang Lehigh University
http://dx.doi.org/10.1101/247296 2018-01-12 CC BY-NC Accurate detection of convergent substitutions Carine Rey|Marie Semon|Laurent Gueguen|Bastien Boussau LBMC, ENS Lyon;|LBBE, UMR CNRS 5558, Universite Lyon 1;|CNRS, LBBE, UMR CNRS 5558, Universite Lyon 1
http://dx.doi.org/10.1101/247155 2018-01-12 Molecular Biology CC BY-NC-ND Circulating small non-coding RNAs associated with age, sex, smoking, body mass and physical activity Trine B Rounge|Sinan U Umu|Andreas Keller|Eckart Meese|Giske Ursin|Steinar Tretli|Robert Lyle|Hilde Langseth Cancer Registry of Norway;|Saarland University;|Oslo University Hospital and University of Oslo
http://dx.doi.org/10.1101/246983 2018-01-12 Cell Biology CC BY Cell transformation disrupts the efficiency of chromosome segregation through microtubule detyrosination Virginia Silio|Jonathan B Millar|Andrew D McAinsh University of Warwick
http://dx.doi.org/10.1101/235077 2018-01-12 Cell Biology CC BY Basal mitophagy is widespread in Drosophila but minimally affected by loss of Pink1 or parkin Juliette J. Lee|Alvaro Sanchez-Martinez|Aitor Martinez Zarate|Cristiane Beninca|Ugo Mayor|Michael J. Clague|Alexander J. Whitworth University of Cambridge;|University of Liverpool;|University of the Basque Country
http://dx.doi.org/10.1101/247544 2018-01-13 Highly efficient and versatile plasmid-based gene editing in primary T cells Mara Kornete|Romina Marone|Lukas T Jeker Basel University Hospital and University of Basel
http://dx.doi.org/10.1101/247650 2018-01-13 Animal Behavior and Cognition CC BY-NC A systematic review and meta-analysis of Drosophila short-term-memory genetics: robust reproducibility, but little independent replication Tayfun Tumkaya|Stanislav Ott|Adam Claridge-Chang Institute of Molecular and Cell Biology;|Duke-NUS Medical School
http://dx.doi.org/10.1101/247643 2018-01-13 Evolutionary Biology Molecular evolution of DNMT1 in vertebrates: duplications in marsupials followed by positive selection David Alvarez-Ponce|Maria Torres-Sanchez|Felix Feyertag|Asmita Kulkarni|Taylen Nappi University of Nevada, Reno
http://dx.doi.org/10.1101/247619 2018-01-13 Neuroscience CC BY-NC-ND Descending pathways from the lateral accessory lobe and posterior slope in the brain of the silkmoth Bombyx mori Shigehiro Namiki|Ryohei Kanzaki The University of Tokyo
http://dx.doi.org/10.1101/247569 2018-01-14 Epidemiology CC BY The 2017 plague outbreak in Madagascar: data descriptions and epidemic modelling Van Kinh Nguyen|Cesar Parra Rojas|Esteban Hernandez-Vargas Frankfurt Institute for Advanced Studies
http://dx.doi.org/10.1101/247627 2018-01-14 Synthetic Biology CC BY-NC-ND Microfluidic device for on-chip mixing and encapsulation of lysates Jui-Cha Chang|Zoe Swank|Oliver Keiser|Sebastian Josef Maerkl|Esther Amstad Ecole Polytechnique Federale de Lausanne;|Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/247577 2018-01-14 Bioinformatics Link Prediction through Deep Learning Xu-Wen Wang|Yize Chen|Yang-Yu Liu Channing Div of Network Med, Brigham & Women's Hospital; Harvard Med School;|Department of Electrical Engineering, University of Washington
http://dx.doi.org/10.1101/241349 2018-01-14 Molecular Biology CC BY Beyond the ribosome: proteome-wide secretability studies using SECRiFY Morgane Boone|Pathmanaban Ramasamy|Davy Maddelein|Demet Turan|Lennart Martens|Elien Vandermarliere|Wim Vranken|Nico Callewaert Univeristy of California, San Francisco;|Ghent University/VIB, VUB;|Ghent University/VIB;|Ghent Univeristy/VIB;|VUB/VIB
http://dx.doi.org/10.1101/247254 2018-01-14 Biochemistry Classification of Single Particles from Human Cell Extract Reveals Distinct Structures Eric J Verbeke|Anna L Mallam|Kevin Drew|Edward M Marcotte|David W Taylor University of Texas at Austin
http://dx.doi.org/10.1101/247213 2018-01-14 Neuroscience Two distinct proprioceptive representations of voluntary movements in primate spinal neurons Saeka Tomatsu|Geehee Kim|Confais Joachim|Tomohiko Takei|Kazuhiko Seki National Institute of Neuroscience, NCNP;|Queen's University
http://dx.doi.org/10.1101/247585 2018-01-14 Neuroscience CC BY-NC-ND Aberrant calcium signaling in astrocytes inhibits neuronal excitability in a human Down syndrome stem cell model Lin Tian|Grace Or|Yinxue Wang|Guilai Shi|Yizhi Wang|Junqing Sun|Stelios Papadopoulos|Gerard Broussard|Elizabeth Unger|Wenbin Deng|Jason Weick|Anita Bhattacharyya|Chao-Yin Chen|Guoqiang Yu|Loren Looger UC Davis;|Virginia Polytechnic Institute and State University;|University of New Mexico;|University of Wisconsin;|Howard Hughes Medical Institute
http://dx.doi.org/10.1101/247502 2018-01-14 Cell Biology CC BY-NC-ND The effects of mechanical strain on mouse eye lens capsule and cellular microstructure Justin Parreno|Catherine Cheng|Roberta B Nowak|Velia M Fowler The Scripps Research Institute
http://dx.doi.org/10.1101/247668 2018-01-14 Molecular Biology ZFP36 RNA-binding proteins restrain T-cell activation and anti-viral immunity Michael J Moore|Nathalie E Blachere|John J Fak|Christopher Y Park|Kirsty Sawicka|Salina Parveen|Ilana Zucker-Scharff|Bruno Moltedo|Alexander Rudensky|Robert Darnell The Rockefeller University;|The Rockefeller University and Howard Hughes Medical Institute;|Memorial Sloan Kettering Cancer Center;|Rockefeller Univeristy
http://dx.doi.org/10.1101/247601 2018-01-14 Molecular Biology CC BY-NC-ND Precise temporal regulation of alternative splicing during neural development Sebastien M Weyn-Vanhentenryck|Huijuan Feng|Dmytro Ustianenko|Rachel Duffie|Qinghong Yan|Martin Jacko|Jose C Martinez|Marianne Goodwin|Xuegong Zhang|Ulrich Hengst|Stavros Lomvardas|Maurice S Swanson|Chaolin Zhang Columbia University;|University of Florida;|Tsinghua University
http://dx.doi.org/10.1101/248393 2018-01-15 CC BY-NC-ND Spindly is Required for Rapid Migration of Human Cells. Claudia Conte|Michelle Baird|Michael W Davidson|Eric Ross Griffis University of Dundee, Centre for Gene Regulation and Expression;|Department of Biological Science, National High Magnetic Field Laboratory, Florida State University
http://dx.doi.org/10.1101/248369 2018-01-15 Caenorhabditis elegans locomotion dynamics is affected by internally localized magnetic fields Eleni Gourgou|Yang Zhang|Ehsan Mirzakhalili|Bogdan Epureanu University of Michigan;|University of Michigan and Shanghai Jiao Tong University Joint Institution
http://dx.doi.org/10.1101/248120 2018-01-15 CC BY-ND Improved cortical boundary registration for locally distorted fMRI scans Tim van Mourik|Peter J Koopmans|David G Norris Radboud University Nijmegen, Donders Institute for Brain, Cognition and Behaviour;|Erwin L. Hahn Institute for Magnetic Resonance Imaging, Essen, Germany
http://dx.doi.org/10.1101/248344 2018-01-15 Systems Biology Chronic inflammation delays cell migration to villi in the intestinal epithelium Daniele Muraro|Aimee Parker|Laura Vaux|Sarah Filippi|Alexander Fletcher|Alastair Watson|Carmen Pin|Philip Maini|Helen Byrne Wellcome Trust Sanger Institute;|Institute of Food Research;|Imperial College London;|University of Sheffield;|University of East Anglia;|University of Oxford
http://dx.doi.org/10.1101/248385 2018-01-15 Neuroscience CC BY Sampling Neuron Morphologies Roozbeh Farhoodi|Konrad P Kording University of Pennsylvania
http://dx.doi.org/10.1101/248336 2018-01-15 Neuroscience Influence of learning strategy on response time during complex value-based learning and choice Shiva Farashahi|Katherine Rowe|Zohra Aslami|M Ida Gobbini|Alireza Soltani Dartmouth College
http://dx.doi.org/10.1101/248260 2018-01-15 Genomics Identification of loci where DNA methylation potentially mediate genetic risk of type 1 diabetes Jody Ye|Tom G Richardson|Wendy McArdle|Caroline Relton|Kathleen M Gillespie|Matthew Suderman|Gibran Hemani Diabetes and Metabolism, Translational Health Sciences, University of Bristol, UK;|MRC Integrative Epidemiology Unit, Population Health Sciences, University of Bristol, UK
http://dx.doi.org/10.1101/247973 2018-01-15 Bioinformatics CC BY Direct-To-Consumer DNA testing of 6,000 dogs reveals 98.6-kb duplication causing blue eyes and heterochromia in Siberian Huskies Petra E. Deane-Coe|Erin T. Chu|Adam R. Boyko|Aaron J. Sams Embark Veterinary LLC
http://dx.doi.org/10.1101/247908 2018-01-15 Ecology CC BY-NC-ND Nonlinear averaging of thermal experience predicts population growth rates in a thermally variable environment Joey R. Bernhardt|Jennifer M. Sunday|Patrick L. Thompson|Mary I. O'Connor University of British Columbia
http://dx.doi.org/10.1101/247593 2018-01-15 Synthetic Biology CC BY-NC-ND Loop Assembly: a simple and open system for recursive fabrication of DNA circuits Bernardo Pollak|Ariel Cerda|Mihails Delmans|Simon Alamos|Tomas Moyano|Anthony West|Rodrigo A Gutierrez|Nicola Patron|Fernan Federici|Jim Haseloff Department of Plant Sciences, University of Cambridge, Cambridge, UK;|Facultad de Ciencias Biologicas, Pontificia Univ Catolica de Chile, Santiago, Chile;|Dept of Plant & Microbial Biology, University of California, Berkeley, California, USA;|Earlham Institute, Norwich Research Park, Norwich, UK
http://dx.doi.org/10.1101/248146 2018-01-15 Genomics Resistance gene discovery and cloning by sequence capture and association genetics Sanu Arora|Burkhard Steuernagel|Sutha Chandramohan|Yunming Long|Oadi Matny|Ryan Johnson|Jacob Enk|Sambasivam Periyannan|M. Asyraf Md Hatta|Naveenkumar Athiyannan|Jitender Cheema|Guotai Yu|Ngonidzashe Kangara|Sreya Ghosh|Les J. Szabo|Jesse Poland|Harbans Bariana|Jonathan D. G. Jones|Alison R. Bentley|Mick Ayliffe|Eric Olson|Steven S. Xu|Brian J. Steffenson|Evans Lagudah|Brande B.H. Wulff John Innes Centre, NR4 7UH, Norwich Research Park, Norwich, NR4 7UH, UK;|Commonwealth Scientific & Industrial Research Org Agriculture & Food, Canberra;|Department of Plant Sciences, North Dakota State University, Fargo, ND, USA;|Department of Plant Pathology, University of Minnesota, St. Paul, Minnesota, USA;|Arbor Biosciences, 5840 Interface Dr, Suite 101, Ann Arbor, MI, USA;|USDA, Agriculture Research Service, Cereal Disease Laboratory, St. Paul, MN, USA;|WGRC, Dept of Plant Pathology, Kansas State University, Manhattan KS, USA;|University of Sydney, Plant Breeding Institute, Cobbity, NSW, Australia;|The Sainsbury Laboratory, Norwich Research Park, NR4 7UH, UK;|The John Bingham Laboratory, NIAB, Huntingdon Road, Cambridge CB3 0LE, UK;|Michigan State University, East Lansing, MI 48824, USA;|USDA, Cereal Crops Res Unit, Red River Valley Agricultural Res Ctr, Fargo, ND, USA
http://dx.doi.org/10.1101/248294 2018-01-15 Neuroscience CC BY Dissociable medial temporal pathways for encoding emotional item and context information Maureen Ritchey|Shao-Fang Wang|Andrew P Yonelinas|Charan Ranganath Boston College;|Stanford University;|University of California - Davis
http://dx.doi.org/10.1101/248237 2018-01-15 Evolutionary Biology CC BY-NC Strong hybrid male incompatibilities impede the spread of a selfish chromosome between populations of a fly. Rudi Verspoor|Jack ML Smith|Natasha LM Mannion|Gregory DD Hurst|Tom Price University of Liverpool;|University of Cambridge;|University of Oxford
http://dx.doi.org/10.1101/248070 2018-01-15 Zoology Seasonal physiological responses to heat in an alpine range-restricted bird: the Cape Rockjumper Krista Natasha Oswald|Alan Tristram Kenneth Lee|Ben Smit Nelson Mandela Metropolitan University;|University of Cape Town;|Rhodes University
http://dx.doi.org/10.1101/244756 2018-01-15 Genomics CC BY-NC-ND Identifying long indels in exome sequencing data of patients with intellectual disability Sander Pajusalu|Rolph Pfundt|Lisenka E.L.M. Vissers|Michael P Kwint|Tiia Reimand|Katrin Ounap|Joris A Veltman|Jayne Hehir-Kwa Dept of Clinical Genetics, United Laboratories, Tartu University Hospital, Estonia;|Dept of Human Genetics, Donders Inst, Radboudumc, Nijmegen, The Netherlands;|Institute of Genetic Medicine, International Centre for Life, Newcastle University;|Prinses Maxima Centrum
http://dx.doi.org/10.1101/248229 2018-01-15 Bioinformatics CC BY-NC-ND Characterizing functional consequences of DNA copy number alterations in breast and ovarian tumors by spaceMap Christopher J Conley|Umut Ozbek|Pei Wang|Jie Peng Huntsman Cancer Institute at the University of Utah;|Dept of Population Health Sci & Policy, Icahn School of Medicine at Mount Sinai;|Dept of Genetics & Genomic Sciences, Icahn School of Medicine at Mount Sinai;|Department of Statistics, University of California at Davis
http://dx.doi.org/10.1101/248286 2018-01-15 Neuroscience CC BY-NC-ND Sex chromosome trisomies are not associated with atypical lateralisation for language Alexander C. Wilson|Dorothy V. M. Bishop University of Oxford
http://dx.doi.org/10.1101/248252 2018-01-15 Neuroscience Quantifying the performance of MEG source reconstruction using resting state data Simon J Little|James Bonaiuto|Sofie Meyer|Jose Lopez|Sven Bestmann|Gareth Barnes University College London;|Centre de Neuroscience Cognitive, Lyon;|Wellcome Centre for Human Neuroimaging, UCL Institute of Neurology, UK;|Electronic Engineering Department, Universidad de Antioquia, Columbia;|Institute of Neurology, University College London
http://dx.doi.org/10.1101/247759 2018-01-15 Microbiology CC BY-NC-ND Microbial biogeography of 1,000 geothermal springs in New Zealand Jean F Power|Carlo R Carere|Charles K Lee|Georgia LJ Wakerley|David W Evans|Mathew Button|Duncan White|Melissa D Climo|Annika M Hinze|Xochitl C Morgan|Ian R McDonald|S Craig Cary|Matthew B Stott GNS Science/University of Waikato;|GNS Science;|University of Waikato;|University of Otago;|GNS Science/University of Canterbury
http://dx.doi.org/10.1101/248096 2018-01-15 Bioinformatics CC BY-NC Data-driven characterization of molecular phenotypes across heterogenous sample collections Juha Mehtonen|Petri Polonen|Sergei Hayrynen|Jake Lin|Thomas Liuksiala|Kirsi Granberg|Olli Lohi|Ville Hautamaki|Matti Nykter|Merja Heinaniemi University of Eastern Finland;|University of Tampere
http://dx.doi.org/10.1101/247940 2018-01-15 Synthetic Biology CC BY HEx: a heterologous expression platform for the discovery of fungal natural products Colin JB Harvey|Mancheng Tang|Ulrich Schlecht|Joe Horecka|Curt R Fischer|Hsiao-ching Lin|Jian Li|Brian Naughton|James Cherry|Molly Miranda|Yong Fuga Li|Angela M Chu|James R Hennessy|Gergana A Vandova|Diane Inglis|Raeka Aiyar|Lars M Steinmetz|Ronald W Davis|Marnix H Medema|Elizabeth Sattely|Chaitan Khosla|Robert P St. Onge|Yi Tang|Maureen E Hillenmeyer Stanford Genome Technology Center;|UCLA;|Stanford University
http://dx.doi.org/10.1101/247775 2018-01-15 Evolutionary Biology CC BY-ND Reproducible, flexible and high throughput data extraction from primary literature: The metaDigitise R package Joel L Pick|Shinichi WA Nakagawa|Daniel WA Noble University of Edinburgh;|UNSW;|University of New South Wales
http://dx.doi.org/10.1101/248153 2018-01-15 Microbiology CC BY-NC Comparative genomics and phylogeny unveil lineage diversification of Citrobacter rodentium polyvalent bacteriophage Carolina M Mizuno|Laurent Debarbieux|Dwayne R Roach Institut Pasteur, Department of Microbiology
http://dx.doi.org/10.1101/248039 2018-01-15 Neuroscience CC BY-NC-ND Lempel-Ziv complexity of the EEG predicts long-term functional recovery after stroke in rats Susan Leemburg|Claudio L. Bassetti University of Zurich;|University of Bern
http://dx.doi.org/10.1101/246397 2018-01-15 Evolutionary Biology CC BY-NC-ND The mammalian decidual cell evolved from a cellular stress response Eric M Erkenbrack|Jamie D Maziarz|Oliver W Griffith|Cong Liang|Arun R Chavan|Gunter P Wagner Yale University
http://dx.doi.org/10.1101/247841 2018-01-15 Genetics CC BY-NC-ND Combining high-throughput micro-CT-RGB phenotyping and genome-wide association study to dissect the genetic architecture of tiller growth in rice Di Wu|Zilong Guo|Junli Ye|Jianxiao Liu|Guoxing Chen|Jingshan Zheng|Dongmei Yan|Xiaoquan Yang|Xiong Xiong|Qian Liu|Zhiyou Niu|Lizhong Xiong|Wanneng Yang Huazhong Agricultural University;|Huazhong University of Science and Technology
http://dx.doi.org/10.1101/248161 2018-01-15 Biochemistry CC BY-NC-ND FANCM-family branchpoint translocases remove co-transcriptional R-loops Charlotte Hodson|Julienne J O'Rourke|Sylive van Twest|Vincent J Murphy|Elyse Dunn|Andrew J Deans St Vincent's Institute, Australia
http://dx.doi.org/10.1101/248088 2018-01-15 Biochemistry Systems pathology analysis identifies neurodegenerative nature of age-related retinal diseases Tiina Ohman|Fitsum Tamene|Helka Goos|Sirpa Loukovaara|Markku Varjosalo University of Helsinki;|Helsinki University Hospital
http://dx.doi.org/10.1101/248104 2018-01-15 Bioinformatics CC BY-NC-ND Motion Sensing Superpixels (MOSES): A systematic framework to quantify and discover cellular motion phenotypes Felix Yuran Zhou|Carlos Ruiz-Puig|Richard P. Owen|Michael J. White|Jens Rittscher|Xin Lu University of Oxford
http://dx.doi.org/10.1101/247825 2018-01-15 Neuroscience Control of non-homeostatic feeding in sated mice using associative learning of contextual food cues Sarah A Stern|Katherine R Doerig|Estefania P Azevedo|Elina Stoffel|Jeffrey M Friedman Rockefeller University;|Rockefeller University, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/247924 2018-01-15 Systems Biology CC BY Hierarchical optimization for the efficient parametrization of ODE models Carolin Loos|Sabrina Krause|Jan Hasenauer Institute of Computational Biology, Helmholtz Zentrum Muenchen
http://dx.doi.org/10.1101/248138 2018-01-15 Immunology CC BY-NC-ND Drosophila Toll links systemic immunity to long-term intestinal epithelial integrity Magda Atilano|Marcus Glittenberg|Anna Hoyle|Petros Ligoxygakis University of Oxford
http://dx.doi.org/10.1101/247742 2018-01-15 Animal Behavior and Cognition CC BY-NC-ND Correlation Detection with and without the Theory of Conditionals: A model update of Hattori & Oaksford (2007) Tatsuji Takahashi|Kuratomo Oyo|Akihiro Tamatsukuri Tokyo Denki University;|Kwansei Gakuin University
http://dx.doi.org/10.1101/247700 2018-01-15 Evolutionary Biology CC BY-NC-ND Mutation accumulation differentially impacts ageing in mammalian tissues Zeliha Gozde Turan|Poorya Parvizi|Handan Melike Donertas|Jenny Tung|Philipp Khaitovich|Mehmet Somel Department of Biological Sciences, METU, Ankara, Turkey;|EMBL-EBI, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK;|Department of Evolutionary Anthropology, Duke University, Durham, NC, USA;|CAS-MPG Partner Institute for Computational Biology, Shanghai, PRC
http://dx.doi.org/10.1101/230433 2018-01-15 Cancer Biology Accelerated lipid catabolism and autophagy are cancer survival mechanisms under inhibited glutaminolysis Anna Halama|Michal Kulinski|Shaima S. Dib|Shaza B. Zaghlool|Kodappully S. Siveen|Ahmad Iskandarani|Noothan J. Satheesh|Aditya M. Bhagwat|Shahab Uddin|Gabi Kastenmueller|Olivier Elemento|Steven S. Gross|Karsten Suhre Dept of Physiology and Biophysics, Weill Cornell Medicine Qatar, Education City, PO 24144 Doha;|Translational Research Institute, Academic Health System, Hamad Medical Corporation, PO 3050, Doha;|Dept of Physiology and Biophysics, Weill Cornell Medicine Qatar, Education City, PO 24144 Doha;|Translational Research Institute, Academic Health System, Hamad Medical Corporation, PO 3050, Doha,;|Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum Munchen, German Research Center;|Caryl and Israel Englander Institute for Precision Medicine, Institute for Computational Biomedicine;|Department of Pharmacology, Weill Cornell Medicine, Cornell University, New York, NY, USA
http://dx.doi.org/10.1101/248062 2018-01-15 Biochemistry Simulations of higher-order protein assemblies using a fuzzy framework BOLDIZSAR Tuu Szabo|Laszlo Koczy|MONIKA FUXREITER Department of Information Technology, Szechenyi Istvan University, Gyor, Hungary;|Budapest University of Technology and Economy, HUngary;|Dept. of Biochemistry and Molecular Biology, University of Debrecen, Hungary
http://dx.doi.org/10.1101/247718 2018-01-15 Cancer Biology CC BY-NC-ND Integration and analysis of CPTAC proteomics data in the context of cancer genomics in the cBioPortal Pamela Wu|Zachary J Heins|James T Muller|Adam A Abeshouse|Yichao Sun|Nikolaus Schultz|David Fenyo|Jianjiong Gao New York University School of Medicine;|Memorial Sloan Kettering Cancer Center
http://dx.doi.org/10.1101/247882 2018-01-15 Biochemistry CC BY-ND Functional interaction of low-homology FRPs from different cyanobacteria with Synechocystis OCP Yury B Slonimskiy|Eugene G Maksimov|Evgeny P Lukashev|Marcus Moldenhauer|Cy M Jeffries|Dmitri I Svergun|Thomas Friedrich|Nikolai N. Sluchanko A.N. Bach Inst of Biochem, Fed Res Ctr of Biotechnol of the Russian Acad of Sci;|M.V. Lomonosov Moscow State Univ, Dept of Biophysics, Faculty of Biology;|Technical University of Berlin, Institute of Chemistry PC 14, Berlin, Germany;|European Molecular Biology Laboratory, Hamburg Outstation, Germany;|A.N. Bach Institute of Biochemistry, FRC of Biotechnology of RAS
http://dx.doi.org/10.1101/247890 2018-01-15 Neuroscience A pupillary index of susceptibility to decision biases Eran Eldar|Valkyrie Felso|Jonathan D. Cohen|Yael Niv University College London;|Princeton University
http://dx.doi.org/10.1101/247858 2018-01-15 Evolutionary Biology CC BY-NC-ND Early diverging insect pathogenic fungi of the order Entomophthorales possess diverse and unique subtilisin-like serine proteases Jonathan A Arnesen|Joanna Malagocka|Andrii Gryganskyi|Igor V Grigoriev|Kerstin Voigt|Jason E Stajich|Henrik Hjarvard H De Fine Licht Department of Plant and Environmental Sciences, University of Copenhagen;|Department of Biology, Duke University, Durham, North Carolina, USA;|US Department of Energy Joint Genome Institute, Walnut Creek, California, USA.;|Institute of Microbiology, Friedrich Schiller University, and Hans Knoell Institute, Jena, Germany;|Department of Plant Pathology and Microbiology, University of California, Riverside, California, USA
http://dx.doi.org/10.1101/248203 2018-01-15 Microbiology CC BY Viromic analysis of wastewater input to a river catchment reveals a diverse assemblage of RNA viruses Evelien Adriaenssens|Kata Farkas|Christian Harrison|David Jones|Heather E Allison|Alan J McCarthy University of Liverpool;|School of Environment, Natural Resources and Geography, Bangor University, UK;|Microbiology Research Group, Inst of Integrative Biology, Univ of Liverpool, UK
http://dx.doi.org/10.1101/241760 2018-01-15 Microbiology Arabidopsis thaliana populations support long-term maintenance and parallel expansions of related Pseudomonas pathogens Talia L Karasov|Juliana Almario|Claudia Friedemann|Wei Ding|Michael Giolai|Darren Heavens|Sonja Kersten|Derek S Lundberg|Manuela Neumann|Julian Regalado|Richard A Neher|Eric Kemen|Detlef Weigel Max Planck Institute for Developmental Biology;|Max Planck Institute for Plant Breeding Research;|Earlham Institute;|University of Basel
http://dx.doi.org/10.1101/247692 2018-01-15 Biophysics Fast and Flexible GPU Accelerated Binding Free Energy Calculations within the AMBER Molecular Dynamics Package Daniel J. Mermelstein|Charles Lin|Gard Nelson|Rachael Kretsch|J. Andrew McCammon|Ross C. Walker UC San Diego;|UC San Diego, GlaxoSmithKline;|NantBioscience Inc;|UC San Diego, Harvey Mudd College
http://dx.doi.org/10.1101/248195 2018-01-15 Evolutionary Biology CC BY-NC-ND Patterns of polymorphism, selection and linkage disequilibrium in the subgenomes of the allopolyploid Arabidopsis kamchatica Timothy Paape|Roman V. Briskine|Heidi E.L Lischer|Gwyneth Halstead-Nussloch|Rie Shimizu-Inatsugi|Masaomi Hatekayama|Kenta Tanaka|Tomoaki Nishiyama|Renat Sabirov|Jun Sese|Kentaro K. Shimizu University of Zurich;|ETH Zurich;|Sugadaira Montane Research Center, University of Tsukuba, Ueda, Nagano, Japan;|Advanced Science Research Center, Kanazawa University, Japan;|Inst of Marine Geology & Geophysics, Far East Branch, Russian Acad of Sciences;|Artificial Intelligence Res Ctr, Natl Inst of Advanced Industrial Science & Technol;|Dept of Evol Biol & Environ Studies; Dept of Plant & Microbial Biol, Univ of Zurich
http://dx.doi.org/10.1101/247932 2018-01-15 Molecular Biology CC BY-NC-ND miRNAs play important roles in aroma weakening during the shelf life of 'Nanguo' pear after cold storage Fei Shi|Xin Zhou|Miaomiao Yao|Zhuo Tan|Qian Zhou|Lei Zhang|Shujuan Ji Department of Food Science, Shenyang Agricultural University
http://dx.doi.org/10.1101/247783 2018-01-15 Developmental Biology Noise-resistant developmental reproducibility in vertebrate somite formation Honda Naoki|Ryutaro Akiyama|Shin Ishii|Yasumasa Bessho|Takaaki Matsui Kyoto University;|Nara Institute of Science and Technology
http://dx.doi.org/10.1101/246934 2018-01-15 Genetics CC BY-NC-ND Inherited BRCA1 epimutation as a novel cause of breast and ovarian cancer D Gareth R Evans|Elke M van Veen|Helen J Byers|Andrew J Wallace|Jamie M Ellingford|Glenda Beaman|Javier Santoyo-Lopez|Timothy J Aitman|Diana M Eccles|Fiona I Lalloo|Miriam J Smith|William G Newman University of Manchester;|Manchester Ctr for Genomic Med, St. Marys Hosp, Manchester Univ NHS Fnd Trust;|Ctr for Genomic & Experimental Med, and Edinburgh Genomics, Univ of Edinburgh;|Cancer Sci Acad Unit, Southampton Clinical Trials Unit, Univ of Southampton
http://dx.doi.org/10.1101/248013 2018-01-15 Evolutionary Biology Establishment of locally adapted mutations under divergent selection Matteo Tomasini|Stephan Peischl University of Bern
http://dx.doi.org/10.1101/247726 2018-01-15 Molecular Biology CC BY-NC-ND Epigenetic Drift of H3K27me3 in Aging Links Glycolysis to Healthy Longevity Zaijun Ma|Hui Wang|Yuping Cai|Han Wang|Kongyan Niu|Xiaofen Wu|Huanhuan Ma|Yun Yang|Wenhua Tong|Feng Liu|Zhandong Liu|Yaoyang Zhang|Rui Liu|Zheng-Jiang Zhu|Nan Liu Chinese Academy of Sciences;|Shanghai Jiao Tong University School of Medicine;|Baylor College of Medicine;|Singlera Genomics
http://dx.doi.org/10.1101/248112 2018-01-15 Evolutionary Biology Evolution of sexually-transferred steroids in Anopheles mosquitoes Emilie Pondeville|Nicolas Puchot|Michael Lang|Floriane Cherrier|Francis Schaffner|Chantal Dauphin-Villemant|Emmanuel Bischoff|Catherine Bourgouin MRC-University of Glasgow Centre for Virus Research, Scotland;|Functional Genetics of Infectious Diseases, Institut Pasteur, France;|Inst Jacques Monod, CNRS, Univ Paris Diderot, Sorbonne Paris Cité;|CNRS, URA 3012, Institut Pasteur, 75724 Paris, Cedex 15, France;|Francis Schaffner Consultancy, Riehen, Switzerland;|Université Pierre et Marie Curie-Paris 6, CNRS, France;|Institut Pasteur, Unit of Genetics and Genomics of Insect Vectors, France
http://dx.doi.org/10.1101/234757 2018-01-15 Evolutionary Biology CC BY-NC-ND Metabolic co-dependence drives the evolutionary ancient Hydra-Chlorella symbiosis Mayuko Hamada|Katja Schroder|Jay Bathia|Ulrich Kurn|Sebastian Fraune|Mariia Khalturina|Konstantin Khalturin|Chuya Shinzato|Nori Satoh|Thomas C.G. Bosch Okayama University;|Kiel University;|Okinawa Institute of Science and Technology Graduate University
http://dx.doi.org/10.1101/246223 2018-01-15 Genetics GWAS on family history of Alzheimer's disease Riccardo Marioni|Sarah E Harris|Allan F McRae|Qian Zhang|Saskia P Hagenaars|William David Hill|Gail Davies|Craig W Ritchie|Catharine Gale|John M Starr|Alison Goate|David J Porteous|Jian Yang|Kathryn L Evans|Ian J Deary|Naomi R. Wray|Peter M Visscher University of Edinburgh;|Queensland Institute of Medical Research;|University of Queensland;|King's College London;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/248807 2018-01-16 Cancer Biology CC BY Interfering with MIF-CD74 signalling on macrophages and dendritic cells with a peptide-based approach restores the immune response against metastatic melanoma. Carlos R Figueiredo|Ricardo A Azevedo|Sasha Mousdell|Pedro T Resende-Lara|Lucy Ireland|Almudena Santos|Natalia Girola|Rodrigo L.O.R Cunha|Michael Schmid|Luciano Polonelli|Luiz R. Travassos|Ainhoa Mielgo University of Liverpool, UK;|Federal University of Sao Paulo (UNIFESP), Brazil;|Federal University of ABC, Santo Andre, Sao Paulo, Brazil;|Universita degli Studi di Parma, Italy
http://dx.doi.org/10.1101/248724 2018-01-16 Bioinformatics MaREA: Metabolic feature extraction, enrichment and visualization of RNAseq data Alex Graudenzi|Davide Maspero|Claudio Isella|Marzia Di Filippo|Giancarlo Mauri|Enzo Medico|Marco Antoniotti|Chiara Damiani Dept. of Informatics, Systems and Communication, University of Milan-Bicocca;|Dept. of Biotecnology and Bioscience, University of Milano-Bicocca, Milano, Italy;|Candiolo Cancer Institute FPO IRCCS, Department of Oncology, University of Torino;|Dept. of Informatics, Systems and Communication, University of Milan-Bicocca; SYSBIO Centre of SB;|Dept. of Informatics, Systems and Communication, University of Milan-Bicocca; Milan Center for NS
http://dx.doi.org/10.1101/247965 2018-01-16 Genomics Variation in Genome-wide NF-kappaB RELA Binding Sites upon Microbial Stimuli and Identification of a Virus Response Profile Lisa Borghini|Jinhua Lu|Martin Hibberd|Sonia Davila Genome Institute of Singapore;|Department of Microbiology, National University of Singapore;|Pathogen Molecular Biology, London School of Hygiene & Tropical Medicine;|SingHealth Duke-NUS Institute of Precision Medicine (PRISM)
http://dx.doi.org/10.1101/246785 2018-01-16 Microbiology CC BY-NC-ND The Viral protein Corona Directs Viral Pathogenesis and Amyloid Aggregation Kariem Ezzat|Maria Pernemalm|Sandra Palsson|Thomas C. Roberts|Peter Jarver|Aleksandra Dondalska|Burcu Bestas|Michal J. Sobkowiak|Bettina Levanen|Magnus Skold|Elizabeth A. Thompson|Matthew J.A. Wood|Ultan F. Power|Sergej Masich|Anders Linden|Johan K. Sandberg|Janne Lehtio|Anna-Lena Spetz|Samir EL Andaloussi Karolinska Institutet;|Stockholm University;|University of Oxford;|Queens' University Belfast
http://dx.doi.org/10.1101/248690 2018-01-16 Cancer Biology CC BY-NC Recapitulation of human germline coding variation in an ultra-mutated infant leukemia Alexander M Gout|Rishi S Kotecha|Parwinder Kaur|Ana Abad|Bree Foley|Kim W Carter|Catherine H Cole|Charles S Bond|Ursula Kees|Jason Waithman|Mark Cruickshank Telethon Kids Institute;|Princess Margaret Hospital for Children;|University of Western Australia
http://dx.doi.org/10.1101/248518 2018-01-16 Neuroscience CC BY Predicting age from cortical structure across the lifespan Christopher Madan|Elizabeth A. Kensinger University of Nottingham;|Boston College
http://dx.doi.org/10.1101/248591 2018-01-16 Animal Behavior and Cognition CC BY Estradiol treatment in a nonhuman primate model of menopause preserves affective reactivity Eliza Bliss-Moreau|Mark G. Baxter University of California, Davis;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/248484 2018-01-16 Genetics CC BY-NC-ND Utility of Attention-Deficit/Hyperactivity Disorder Trait Measure in Population Genetics: A Polygenic Risk Study Christie L Burton|Leah Wright|Janet Shan|Bowei Xiao|Annie Dupuis|Tara Goodale|S-M Shaheen|Elizabeth C. Corfield|Paul D Arnold|Russell J Schachar|Jennifer Crosbie Hospital for Sick Children;|Hospital for Sick Children; University of Toronto;|Mathison Centre for Mental Health Research and Education, University of Calgary;|Hospital for Sick Children, University of Toronto
http://dx.doi.org/10.1101/248666 2018-01-16 Developmental Biology Zebrabase: An intuitive tracking solution for aquatic model organisms Jana Oltova|Jindrich Jindrich|Ctibor Skuta|Ondrej Svoboda|Olga Machonova|Petr Bartunek Institute of Molecular Genetics AS CR v.v.i., Prague
http://dx.doi.org/10.1101/248542 2018-01-16 Ecology CC BY-NC Long-term prevalence data reveals spillover dynamics in a multi-host (Artemia), multi-parasite (Microsporidia) community Eva J. P. Lievens|Nicolas O. Rode|Julie Landes|Adeline Segard|Roula Jabbour-Zahab|Yannis Michalakis|Thomas Lenormand CEFE, CNRS-Universite de Montpellier-Universite P. Valery-EPHE;|MIVEGEC, CNRS-IRD-Universite de Montpellier
http://dx.doi.org/10.1101/248682 2018-01-16 Systems Biology CC BY-NC-ND Antagonistic regulation with a unique setpoint, integral and double integral action Kristian Thorsen|Peter Ruoff|Tormod Drengstig University of Stavanger
http://dx.doi.org/10.1101/246710 2018-01-16 Neuroscience Non-linear transfer characteristics of stimulation and recording hardware account for spurious low-frequency artifacts during amplitude modulated transcranial alternating current stimulation (AM-tACS) Florian H. Kasten|Ehsan Negahbani|Flavio Frohlich|Christoph S. Herrmann Department of Psychology, Carl von Ossietzky University, Oldenburg, Germany;|Department of Psychiatry, University of North Carolina, Chapel Hill, NC, USA
http://dx.doi.org/10.1101/248633 2018-01-16 Genomics CC BY-ND Statistical Significance of Cluster Membership Neo Christopher Chung University of Warsaw
http://dx.doi.org/10.1101/248443 2018-01-16 Genetics Whole Genome Sequencing and Rare Variant Analysis in Essential Tremor Families Zagaa Odgerel|Nora Hernandez|Jemin Park|Ruth Ottman|Elan Louis|Lorraine Clark Columbia University;|Yale University
http://dx.doi.org/10.1101/248468 2018-01-16 Genetics CC BY-ND A genomic region containing REC8 and RNF212B is associated with individual recombination rate variation in a wild population of red deer (Cervus elaphus) Susan E Johnston|Jisca Huisman|Josephine M Pemberton University of Edinburgh
http://dx.doi.org/10.1101/248419 2018-01-16 Systems Biology CC BY Complexity-Aware Simple Modeling Mariana Gomez-Schiavon|Hana El-Samad University of California San Francisco
http://dx.doi.org/10.1101/248179 2018-01-16 Biochemistry CC BY-ND Efficient Homology Directed Repair by Cas9:DNA Localization and Cationic Polymeric Transfection in Mammalian Cells Philip JR Roche|Heidi Gytz|Faiz Hussain|Christopher JF Cameron|Denis Paquette|Mathieu Blanchette|Josee Dostie|Bhushan Nagar|Uri David Akavia McGill University
http://dx.doi.org/10.1101/248427 2018-01-16 Cancer Biology USP7 cooperates with NOTCH1 to drive the oncogenic transcriptional program in T cell leukemia Panagiotis Ntziachristos|Kelly Arcipowski|Qi Jin|Carlos Alberto Martinez|Yixing Zhu|Blanca Teresa Gutierrez Diaz|Kenneth Wang|Megan Johnson|Andrew Guerin Volk|Feng Wang|Jian wu|Hui Wang|Ivan Sokirniy|Paul Thomas|Young Ah Goo|Nebiyu Abshiru|Nobuko Hijiya|Sofie Peirs|Niels Vandamme|Geert Berx|Steven Goosens|Stacy Ann Marshall|Emily Jane Randleman|Yoh-hei Takahashi|Lu Wang|Elizabeth Bartom|Clayton Collings|Pieter Van Vlierberghe|Alexandros strikoudis|Stephen kelly|Beatrix Ueberheide|Christine Mantis|Irawati Kandela|Jean-Pierre Bourquin|Beat Bornhauser|Valentina Serafin|Silvia Bresolin|Maddalena Paganin|Benedetta Accordi|Giuseppe Basso|Neil L. Kelleher|Joseph Weinstock|Suresh Kumar|John D. Crispino|Ali Shilatifard Northwestern University;|Progenra Inc.;|Ghent University Hospital;|New York University;|University of Zurich;|University of Padova
http://dx.doi.org/10.1101/248435 2018-01-16 Bioinformatics CC BY-NC Distribution-based measures of tumor heterogeneity are sensitive to mutation calling and lack strong clinical predictive power Javad Noorbakhsh|Hyunsoo Kim|Sandeep Namburi|Jeff Chuang The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/248567 2018-01-16 Ecology CC BY-NC Risk Factors for Fouling Biomass: Evidence from Small Vessels in Australia Stephen Lane|Tracey Hollings|Keith R Hayes|Felicity R McEnnulty|Mark Green|Andrew P Robinson The University of Melbourne;|Commonwealth Scientific and Industrial Research Organisation
http://dx.doi.org/10.1101/248401 2018-01-16 Systems Biology CC BY-NC-ND Reimplementation of the Potjans-Diesmann cortical microcircuit model: from NEST to Brian Renan Oliveira Shimoura|Nilton Liuji Kamiji|Rodrigo Felipe de Oliveira Pena|Vinicius Lima Cordeiro|Cesar Celis Ceballos|Cecilia Romaro|Antonio Carlos Roque University of Sao Paulo
http://dx.doi.org/10.1101/248617 2018-01-16 Immunology Microbiota-independent antiviral protection conferred by aminoglycoside antibiotics Smita Gopinath|Myoungjoo V. Kim|Tasfia Rakib|Patrick W. Wong|Michael van Zandt|Natasha A. Barry|Tsuneyasu Kaisho|Andrew L. Goodman|Akiko Iwasaki Howard Hughes Medical Institute, Department of Immunobiology, Yale University;|Department of Immunobiology, Yale University;|New England Discovery Partners;|Department of Microbial Pathogenesis and Microbial Sciences Institute, Yale University;|Department of Immunology, Institute of Advanced Medicine, Wakayama Medical University
http://dx.doi.org/10.1101/248500 2018-01-16 Bioinformatics CC BY-ND Efficient pedigree recording for fast population genetics simulation Jerome Kelleher|Kevin Thornton|Jaime Ashander|Peter Ralph University of Oxford;|University of California, Irvine;|University of California, Los Angeles;|University of Oregon
http://dx.doi.org/10.1101/248583 2018-01-16 Neuroscience Finding decodable information that is read out in behaviour Tijl Grootswagers|Radoslaw Martin Cichy|Thomas Carlson University of Sydney;|Free University Berlin
http://dx.doi.org/10.1101/207399 2018-01-16 Evolutionary Biology CC BY-NC-ND The evolution, distribution and diversity of endogenous circoviral elements Tristan P.W Dennis|William Marciel Souza|Soledad Marsile-Medun|Joshua B Singer|Sam J Wilson|Robert James Gifford MRC-University of Glasgow Centre for Virus Research;|Virology Research Center, School of Medicine of Ribeirao Preto of Univ of Sao Paulo;|Agrocampus Ouest;|MRC-University of Glasgow Centre for Virus Research, Glasgow, UK
http://dx.doi.org/10.1101/248450 2018-01-16 Bioinformatics CC BY-NC Efficient computation of co-transcriptional RNA-ligand interaction dynamics Michael T Wolfinger|Christoph Flamm|Ivo L Hofacker Department of Theoretical Chemistry, University of Vienna, Austria
http://dx.doi.org/10.1101/248906 2018-01-16 CC BY-NC-ND ExomeSlicer: a resource for the development and validation of exome-based clinical panels Rojeen Niazi|Michael A Gonzalez|Jorune Balciuniene|Perry Evans|Mahdi Sarmady|Ahmad N Abou Tayoun Division of Genomic Diagnostics, The Children's Hospital of Philadelphia;|The Children's Hospital of Philadelphia and the University of Pennsylvania
http://dx.doi.org/10.1101/249300 2018-01-16 In search of non-coding driver mutations by deep sequencing of regulatory elements in colorectal cancer Rebecca C Poulos|Dilmi Perera|Deborah Packham|Anushi Shah|Caroline Janitz|John E Pimanda|Nicholas Hawkins|Robyn L Ward|Luke B Hesson|Jason WH Wong UNSW Sydney;|Western Sydney University;|University of Queensland
http://dx.doi.org/10.1101/248849 2018-01-16 CC BY-ND Comparative transcriptomics reveals a conserved Bacterial Adaptive Phage Response (BAPR) to viral predation Bob G Blasdel|Pieter-Jan Ceyssens|Anne Chevallereau|Laurent Debarbieux|Rob Lavigne KU Leuven;|Scientific Institute of Public Health (WIV-ISP);|University of Exeter;|Institute Pasteur
http://dx.doi.org/10.1101/248914 2018-01-16 CC BY-NC-ND Phosphorylation of GMFγ by c-Abl coordinates lamellipodial and focal adhesion dynamics Brennan D Gerlach|Guoning Liao|Kate Tubbesing|Alyssa C. Rezey|Ruping Wang|Margarida Barroso|Dale D Tang Albany Medical College
http://dx.doi.org/10.1101/249060 2018-01-16 Proteasome Substrate Capture and Gate Activation by Mycobacterium tuberculosis PafE Kuan Hu|Jordan B Jastrab|Susan Zhang|Amanda Kovach|Gongpu Zhao|K Heran Darwin|Huilin Li Van Andel Research Institute;|New York University School of Medicine;|NYU School of Medicine
http://dx.doi.org/10.1101/249227 2018-01-16 TMEM16F activation by Ca2+ triggers plasmalemma expansion and directs PD-1 trafficking Christopher Bricogne|Michael Fine|Pedro M. Pereira|Julia Sung|Maha Tijani|Ricardo Henriques|Mary K. Collins|Donald Hilgemann University College London;|UT Southwestern Medical Center
http://dx.doi.org/10.1101/248641 2018-01-16 miR-10b Deficiency Affords Atherosclerosis Resistance Masako Nakahara|Norihiko Kobayashi|Masako Oka|Kenta Nakano|Tadashi Okamura|Akira Yuo|Kumiko Saeki National Center for Global Health and Medicine, Research Institute
http://dx.doi.org/10.1101/249292 2018-01-16 CC BY-NC-ND ORBIT: a new paradigm for genetic engineering of mycobacterial chromosomes Kenan C. Murphy|Samantha J. Nelson|Subhalaxmi Nambi|Kadamba Papavinasasundaram|Christina E. Baer|Christopher M. Sassetti University of Massachusetts Medical School
http://dx.doi.org/10.1101/211011 2018-01-16 Multiplex Assessment of Protein Variant Abundance by Massively Parallel Sequencing Kenneth A Matreyek|Lea M Starita|Jason J Stephany|Beth Martin|Melissa A Chiasson|Vanessa E Gray|Martin Kircher|Arineh Khechaduri|Jennifer N Dines|Ronald J Hause|Smita Bhatia|William E Evans|Mary V Relling|Wenjian Yang|Jay Shendure|Douglas M Fowler Department of Genome Sciences, University of Washington, Seattle, Washington, USA;|Department of Medical Genetics, University of Washington, Seattle, Washington, USA;|School of Medicine, University of Alabama at Birmingham, Birmingham, Alabama, USA;|Department of Pharmaceutical Sciences, St. Jude Children's Research Hospital, Memphis, Tennessee, US;|Howard Hughes Medical Institute, Seattle, Washington, USA
http://dx.doi.org/10.1101/246363 2018-01-16 Single-cell transcriptome analysis reveals estrogen signaling augments the mitochondrial folate pathway to coordinately fuel purine and polyamine synthesis in breast cancer cells Detu Zhu|Xianglan Zhaozu|Guimei Cui|Shiehong Chang|Yi Xiang See|Michelle Gek Liang Lim|Dajiang Guo|Xin Chen|Paul Robson|Yumei Luo|Edwin Cheung University of Macau;|Genome Institute of Singapore, A*STAR;|The Third Affiliated Hospital of Guangzhou Medical University
http://dx.doi.org/10.1101/248823 2018-01-16 Clinical and MRI changes of puborectalis and iliococcygeus after a short period of intensive pelvic floor muscles training with or without instrumentation. A randomized study Frederic Dierick|Ekaterina Galtsova|Clara Lauer|Fabien Buisseret|Anne-France Bouche|Laurent Martin Haute Ecole Louvain en Hainaut;|Le Richemont;|Grand Hôpital de Charleroi
http://dx.doi.org/10.1101/247387 2018-01-16 CC BY-NC-ND Using Network Analysis to Localize the Epileptogenic Zone from Invasive EEG Recordings in Intractable Focal Epilepsy Adam Li|Bhaskar Chennuri|Sandya Subramanian|Robert Yaffe|Steve Gliske|William Stacey|Robert Norton|Austin Jordan|Kareem A Zaghloul|Sara K Inati|Shubhi Agrawal|Jennifer Haagensen|Jennifer Hopp|Chalita Atallah|Emily Johnson|Nathan Crone|William S Anderson|Zach Fitzgerald|Juan Bulacio|John T Gale|Sridevi V Sarma|Jorge Gonzalez-Martinez Johns Hopkins University;|Johns Hopkin University;|University of Michigan;|Uptake Technologies Inc.;|National Institute of Health;|University of Maryland Clinical Center;|Johns Hopkins Hospital;|Cleveland Clnic;|Cleveland Clinic
http://dx.doi.org/10.1101/248054 2018-01-16 CC BY-NC-ND Pulsed ELDOR Measurement of the Distance Between a Spin-Label and Copper (II) Centre in the Copper Loaded R48C Mutant of N. gonorrhoeae Ferric Binding Protein Matt Bawn|Justin Bradley|Fraser MacMillan University of East Anglia;|School of Chemistry, University of East Anglia
http://dx.doi.org/10.1101/248708 2018-01-16 CC BY-NC-ND CityNet - Deep Learning Tools for Urban Ecoacoustic Assessment Alison J Fairbrass|Michael Firman|Carol Williams|Gabriel J Brostow|Helena Titheridge|Kate E Jones University College London;|Bat Conservation Trust
http://dx.doi.org/10.1101/247197 2018-01-16 Methyl-CpG binding domain 2 (Mbd2) deficiency causes cognitive, social and emotional functional deficits Elad Lax|Sonia Do-Carmo|Yehoshua Enuka|Niaz Mahmood|Shafaat Rabbani|Liqing Wang|Claudio Cuello|Wayne W Hancock|Yosef Yarden|Moshe Szyf McGill University;|Dept of Pharmacology & Therapeutics, Faculty of Medicine, McGill University;|Dept of Biological Regulation, Weizmann Institute of Science;|Department of Medicine, McGill University Health Center;|Children's Hosp of Philadelphia, Perelman School of Medicine, Univ of Pennsylvania;|Department of Biological Regulation, Weizmann Institute of Science
http://dx.doi.org/10.1101/245530 2018-01-16 CC BY-NC-ND Analysis of functional connectivity and oscillatory power using DICS: from raw MEG data to group-level statistics in Python Marijn van Vliet|Mia Liljestrom|Susanna Aro|Riitta Salmelin|Jan Kujala Aalto University
http://dx.doi.org/10.1101/248781 2018-01-16 Identifying differentially methylated sites in samples with varying tumor purity Antti Hakkinen|Amjad Alkodsi|Chiara Facciotto|Kaiyang Zhang|Katja Kaipio|Sirpa Leppa|Olli Carpen|Seija Grenman|Johanna Hynninen|Sakari Hietanen|Rainer Lehtonen|Sampsa Hautaniemi University of Helsinki;|University of Turku;|Helsinki University Central Hospital;|Helsinki Univ Hospital, Univ of Helsinki; Univ of Turku, Turku University Hospital;|University of Turku and Turku University Hospital
http://dx.doi.org/10.1101/248526 2018-01-16 Scientific Communication and Education CC BY-ND Impact of Human Behavioral Papers at Journal of Neuroscience David J Herzfeld|Reza Shadmehr Johns Hopkins University
http://dx.doi.org/10.1101/248302 2018-01-16 Microbiology Metatranscriptome analysis of the vaginal microbiota reveals potential mechanisms for recurrence and protection against metronidazole in bacterial vaginosis Zhi-Luo Deng|Cornelia Gottschick|Sabin Bhuju|Clarissa Masur|Christoph Abels|Irene Wagner-Doebler Helmholtz Centre for Infection Research;|Inst for Med Epidemiol, Biometrics & Comp Sci, Martin-Luther-Univ Halle-Wittenberg;|Dr. August Wolff GmbH & Co. KG Arzneimittel
http://dx.doi.org/10.1101/249003 2018-01-16 Cell Biology CC BY-NC Odd skipped-related 1 (Osr1) identifies muscle-interstitial fibro-adipogenic progenitors (FAPs) activated by acute injury Juergen Stumm|Pedro Vallecillo Garcia|Sophie vom Hofe-Schneider|David Ollitrault|Heinrich Schrewe|Aris Economides|Giovanna Marazzi|David Sassoon|Sigmar Stricker Institute for Chemistry and Biochemistry, Freie Universitaet Berlin;|Stem Cells & Regenerative Med, ICAN-UMRS 1166, Univ de Pierre et Marie Curie;|Max Planck Institute for Molecular Genetics;|Regeneron Pharmaceuticals
http://dx.doi.org/10.1101/247684 2018-01-16 Cell Biology Emergent memory in cell signaling: Persistent adaptive dynamics in cascades can arise from the diversity of relaxation time-scales Tanmay Mitra|Shakti N. Menon|Sitabhra Sinha The Institute of Mathematical Sciences
http://dx.doi.org/10.1101/249177 2018-01-16 Cancer Biology MicroRNA-92a negatively regulates neurofibromin 2 and inhibits its tumor suppressive function Krizelle Mae M. Alcantara|Reynaldo L Garcia University of the Philippines Diliman
http://dx.doi.org/10.1101/249144 2018-01-16 Cell Biology CC BY Lattice defects induce microtubule self-renewal Manuel Thery|Laura Schaedel|Denis Chretien|Charlotte Aumeier|Jeremie Gaillard|Laurent Blanchoin|Karin John CEA;|Univ. Rennes 1;|Laboratoire de Physiologie Cellulaire Vegetal;|Univ. Grenoble-Alpes
http://dx.doi.org/10.1101/248765 2018-01-16 Cell Biology CC BY-NC-ND Luminal MCF-12A and myoepithelial-like Hs 578Bst cells form bilayered acini similar to human breast Anne Weber-Ouellette|Melanie Busby|Isabelle Plante Institut National de la recherche scientifique
http://dx.doi.org/10.1101/248831 2018-01-16 Physiology Loss of mitochondrial SIRT4 shortens lifespan and leads to a decline in physical activity Sweta Parik|Sandipan Tewary|Champakali Ayyub|Ullas Kolthur-Seetharam Tata Institute of Fundamental Research
http://dx.doi.org/10.1101/248740 2018-01-16 Microbiology CC BY-NC-ND A high-throughput in vitro translation screen towards discovery of novel antimalarial protein translation inhibitors Hella Baumann|Holly Matthews|Mengqiao Li|Jenny J Hu|Keith R Willison|Jake Baum Imperial College London
http://dx.doi.org/10.1101/249151 2018-01-17 Enabling the hypothesis-driven prioritization of ligand candidates in big databases: Screenlamp and its application to GPCR inhibitor discovery for invasive species control Sebastian Raschka|Anne M. Scott|Nan Liu|Santosh Gunturu|Mar Huertas|Weiming Li|Leslie A. Kuhn Michigan State University
http://dx.doi.org/10.1101/249516 2018-01-17 Homologous recombination and transposon propagation shapes the population structure of an organism from the deep subsurface with minimal metabolism Alexander J Probst|Jillian F Banfield Department of Earth and Planetary Science, University of California, Berkeley, CA 94720, USA
http://dx.doi.org/10.1101/249482 2018-01-17 CC BY-NC The genome of the biting midge Culicoides sonorensis and gene expression analyses of vector competence for Bluetongue virus Ramiro Morales Hojas|Malcolm Hinsley|Irina M Armean|Rhiannon Silk|Lara E Harrup|Asier Gonzalez-Uriarte|Eva Veronesi|Lahcen Campbell|Dana Nayduch|Christopher Saski|Walter J Tabachnick|Paul Kersey|Simon Carpenter|Mark Fife Rothamsted Research;|EBI;|The Pirbright Institute;|National Centre for Vector Entomology, University of Zurich;|USDA-ARS;|Clemson University Genomics Institute;|University of Florida
http://dx.doi.org/10.1101/249532 2018-01-17 CC BY-NC-ND Extensive genomic diversity among Mycobacterium marinum strains revealed by whole genome sequencing Sarbashis Das|Fredrik Pettersson|Phani Rama Krishna Behra|Amrita Mallick|Martin Cheramie|Lisa Shirreff|Tanner Tanner DuCote|Santanu Dasgupta|Don G Ennis|Leif Kirsebom Department of Cell and Molecular Biology;|Department of Biology, University of Louisiana
http://dx.doi.org/10.1101/249276 2018-01-17 Ecology Global fingerprint of humans on the distribution of Bartonella bacteria in mammals Hannah K Frank|Elizabeth A Hadly Stanford University
http://dx.doi.org/10.1101/249474 2018-01-17 Bioinformatics CC BY Accurate analysis of genuine CRISPR editing events with ampliCan Kornel Labun|Xiaoge Guo|Alejandro Chavez|George Church|James A Gagnon|Eivind Valen Computational Biology Unit, Department of Informatics, University of Bergen, 5008 Bergen, Norway;|Wyss Institute for Biologically Inspired Engineering, Harvard University, Cambridge, MA 02115, USA.;|Department of Pathology and Cell Biology, Columbia University, New York, NY 10032, USA.;|Department of Biology, University of Utah, Salt Lake City, UT 84112, USA.;|Sars International Centre for Marine Molecular Biology, University of Bergen, 5008 Bergen, Norway.
http://dx.doi.org/10.1101/248997 2018-01-17 Microbiology Diverse spatial organization of photosynthetic membranes among purple nonsulfur bacteria Breah LaSarre|David T Kysela|Barry D Stein|Adrien Ducret|Yves V Brun|James B McKinlay Indiana University;|Molecular Microbiology and Structural Biochemistry, CNRS
http://dx.doi.org/10.1101/249334 2018-01-17 Bioinformatics CC BY-NC-ND Partially methylated domains are hallmarks of a cell specific epigenome topology Abdulrahman Salhab|Karl Nordstrom|Kathrin Kattler|Peter Ebert|Fidel Ramirez|Laura Arrigoni|Fabian Muller|Cristina Cadenas|Jan Hengstler|Thomas Lengauer|Thomas Manke|Jorn Walter Department of Genetics, University of Saarland, 66123 Saarbrücken, Germany;|Dept of Computational Biol & Applied Algorithmics, Max Planck Inst for Informatics;|Max Planck Institute of Immunobiology and Epigenetics, 78108 Freiburg, Germany;|Leibniz Res Ctr for Working Environ & Human Factors, Technical Univ Dortmund;|-
http://dx.doi.org/10.1101/249052 2018-01-17 Cell Biology Ostreococcus tauri is a high-lipid content green algae that extrudes clustered lipid droplets Chuck R Smallwood|William Chrisler|Jian-Hua Chen|Emma Patello|Mathew Thomas|Rosanne Boudreau|Axel Ekman|Hongfei Wang|Gerry McDermott|James E Evans Pacific Northwest National Laboratory;|UCSF School of Medicine
http://dx.doi.org/10.1101/249037 2018-01-17 Biophysics CC BY-NC-ND Substrate deformations induce directed keratinocyte migration Hoda Zarkoob|Sathivel Chinnathambi|John C Selby|Edward A Sander University of Iowa
http://dx.doi.org/10.1101/249524 2018-01-17 Molecular Biology Growing oocyte specific transcription-dependent de novo DNA methylation at the imprinted Zrsr1-DMR Keiichiro Joh|Fumikazu Matsuhisa|Shuji Kitajima|Kenichi Nishioka|Ken Higashimoto|Hitomi Yatsuki|Tomohiro Kono|Haruhiko Koseki|Hidenobu Soejima Saga University, Faculty of Medicine, Japan;|Saga University, Japan;|Faculty of Medicine, Saga University;|Tokyo University of Agriculture, Japan;|RIKEN, Japan
http://dx.doi.org/10.1101/248971 2018-01-17 Bioengineering A novel system for online fertility monitoring based on milk progesterone Ines Adriaens|Wouter Saeys|Tjebbe Huybrechts|Chris Lamberigts|Liesbeth Francois|Katleen Geerinckx|Jo Leroy|Bart De Ketelaere|Ben Aernouts -;|KU Leuven, Department of Biosystems, MeBioS;|KU Leuven, Department of Biosystems, Livestock Physiology;|KU Leuven, Department of Biosystems, Livestock Genetics;|Province of Antwerp, Hooibeekhoeve;|Univ of Antwerp, Faculty of Pharmaceutical, Biomedical and Veterinary Sciences;|KU Leuven, Dept of Microbial & Molecular Syst, Cluster for Bioengineering Technol
http://dx.doi.org/10.1101/248716 2018-01-17 Bioinformatics CC BY-NC Simulation based benchmarking of isoform quantification in single-cell RNA-seq Jennifer Westoby|Marcela Sjoberg|Anne Ferguson-Smith|Martin Hemberg Department of Genetics, University of Cambridge, Cambridge, United Kingdom;|Dept of Cell and Molecular Biology, Pontificia Universidad Catolica de Chile, Chile;|Wellcome Genome Campus, Hinxton, Cambridgeshire, United Kingdom
http://dx.doi.org/10.1101/248864 2018-01-17 Neuroscience CC BY-NC Spike sorting with Gaussian mixture models Bryan C Souza|Vitor Lopes-dos-Santos|Joao Bacelo|Adriano BL Tort Federal University of Rio Grande do Norte
http://dx.doi.org/10.1101/248955 2018-01-17 Microbiology CC BY-ND A host-pathogen interaction screen identifies ada2 as a mediator of Candida glabrata defences against reactive oxygen species Ilias Kounatidis|Lauren Ames|Rupal Mistry|Hsueh-lui Ho|Ken Haynes|Petros Ligoxygakis University of Oxford;|University of Exeter
http://dx.doi.org/10.1101/249375 2018-01-17 Cell Biology A centrosome asymmetry switch in fly neural stem cells Emmanuel Gallaud|Anjana Ramdas Nair|Arnaud Monnard|Priyanka Singh|Tri Pham|David Salvador Garcia|Alexia Ferrand|Clemens Cabernard Biozentrum, University of Basel;|NYU Abu Dhabi, Saadiyat Campus;|Department of Biology, University of Washington;|Department of Bioscience & Bioengineering, Indian Institute of Technology Jodhpur;|Division of Cell Biology, MRC Laboratory of Molecular Biology;|University of Washington
http://dx.doi.org/10.1101/248989 2018-01-17 Neuroscience CC BY-NC-ND Astrocyte networks and intercellular calcium propagation Jules Lallouette|Maurizio De Pitta|Hugues Berry EPI BEAGLE, INRIA Rhône-Alpes, Villeurbanne, France
http://dx.doi.org/10.1101/248757 2018-01-17 Systems Biology Loss of Trem2 in microglia leads to widespread disruption of cell co-expression networks in mouse brain Guillermo Carbajosa|Karim Malki|Nathan Lawless|Hong Wang|John W. Ryder|Eva Wozniak|Kristie Wood|Charles A. Mein|Richard J. B. Dobson|David A. Collier|Michael J. O'Neill|Angela K. Hodges|Stephen J. Newhouse King's College London;|Eli Lilly and Company, Erl Wood Manor, UK;|Eli Lilly and Company, Indianapolis, USA;|Barts and the London School of Medicine and Dentistry, London, UK;|King's College London, London, UK; University College London, London UK;|King's College London, London, UK
http://dx.doi.org/10.1101/249250 2018-01-17 Developmental Biology CC BY-NC Increased PHGDH expression uncouples hair follicle cycle progression and promotes inappropriate melanin accumulation Katherine R Mattaini|Mark R Sullivan|Allison N Lau|Brian P Fiske|Roderick T Bronson|Matthew G Vander Heiden Massachusetts Institute of Technology;|Rodent Histopathology Core, Harvard Medical School
http://dx.doi.org/10.1101/248559 2018-01-17 CC BY The Delirium and Population Health Informatics Cohort study protocol: ascertaining the determinants and outcomes from delirium in a whole population. Daniel Davis|Sarah Richardson|Joanne Hornby|Helen Bowden|Katrin Hoffmann|Maryse Weston-Clarke|Fenella Green|Nishi Chaturvedi|Alun Hughes|Diana Kuh|Elizabeth Sampson|Ruth Mizoguchi|Khai Lee Cheah|Melanie Romain|Abhi Sinha|Rodric Jenkin|Carol Brayne|Alasdair MacLulllich MRC Unit for Lifelong Health and Ageing at UCL;|Newcastle University;|Division of Psychiatry, UCL;|Royal Free London NHS Foundation Trust;|Central and North West London NHS Foundation Trust;|Wye Valley NHS Trust;|University of Cambridge;|University of Edinburgh
http://dx.doi.org/10.1101/249102 2018-01-17 CC BY-NC-ND Mutations in efflux pump Rv1258c (Tap) cause resistance to pyrazinamide and other drugs in M. tuberculosis Jiayun Liu|Wanliang Shi|Shuo Zhang|Gail Cassell|Dmitry Maslov|Kirill Shur|Olga Bekker|Valery Danilenko|Xiaoke Hao|Ying Zhang Xijing Hospital, Fourth Military Medical University;|Johns Hopkins University;|Harvard Medical School;|Vavilov Institute of General Genetics
http://dx.doi.org/10.1101/249201 2018-01-17 CC BY-NC-ND Identification of novel mutations in LprG (rv1411c), rv0521, rv3630, rv0010c, ppsC, cyp128 associated with pyrazinoic acid/pyrazinamide resistance in Mycobacterium tuberculosis Wanliang Shi|Jiazhen Chen|Shuo Zhang|Wenhong Zhang|Ying Zhang Johns Hopkins University;|Huashan Hospital, Fudan University
http://dx.doi.org/10.1101/249607 2018-01-17 Real-space refinement in Phenix for cryo-EM and crystallography Pavel V Afonine|Billy K Poon|Randy J Read|Oleg V Sobolev|Thomas C Terwilliger|Alexandre Urzhumtsev|Paul D Adams LBNL;|Cambridge Institute for Medical Research, Univ of Cambridge, Wellcome Trust/MRC;|LANL, New Mexico Consortium;|IGBMC, Université de Lorraine;|LBNL, UCB
http://dx.doi.org/10.1101/240267 2018-01-17 CC BY-NC-ND Deep learning using EEG spectrograms for prognosis in idiopathic rapid eye movement behavior disorder (RBD) Giulio Ruffini|David Ibanez Soria|Laura Dubreuil|Jean-Francois Gagnon|Aureli Soria-Frisch Neuroelectrics;|Starlab Barcelona;|Hopital du Sacre-Coeur de Montreal
http://dx.doi.org/10.1101/249748 2018-01-17 Prenatal aromatase inhibition alters postnatal immune function in domestic chickens (Gallus gallus) Jeffrey William Simkins|Frances Bonier|Z Morgan Benowitz-Fredericks Montana State University;|Queen's University;|Bucknell University
http://dx.doi.org/10.1101/249441 2018-01-17 Genetic Diversity and Distributional Pattern of Ammonia Oxidizing Archaea Lineages in the Global Oceans Shun Yan Cheung|Wingkwan Mak|Xiaomin Xia|Yanhong Lu|Hongbin Liu Div of Life Science, Hong Kong Univ of Science & Technology, Hong Kong, China;|Zhejiang Ocean University, Zhoushan, Zhejiang, China
http://dx.doi.org/10.1101/249565 2018-01-17 Nuclear and mitochondrial genomes of the hybrid fungal plant pathogen Verticillium longisporum display a mosaic structure Jasper Depotter|Fabian van Beveren|Grardy van den Berg|Tom Wood|Bart Thomma|Michael Seidl Wageningen University;|NIAB Cambridge
http://dx.doi.org/10.1101/248187 2018-01-17 PDE5 inhibition improves symptom-free survival and restores transverse tubule loss and catecholamine responsiveness in heart failure Michael Lawless|Jessica L Caldwell|Emma J Radcliffe|George WP Madders|David C Huthchings|Lori S Woods|Stephanie J Church|Richard D Unwin|Graeme J Kirkwood|Lorenz K Becker|Charles M Pearman|Rebecca F Taylor|David A Eisner|Katharine M Dibb|Andrew W Trafford University of Manchester
http://dx.doi.org/10.1101/249599 2018-01-17 The Innate Immune Response to Ischemic Injury: a Multiscale Modeling Perspective Elena Dimitrova|Leslie Ann Caromile|Reinhard C. Laubenbacher|Linda H Shapiro Clemson University;|University of Connecticut School of Medicine;|University of Connecticut Medical School
http://dx.doi.org/10.1101/249706 2018-01-17 Locally coordinated synaptic plasticity shapes cell-wide plasticity of visual cortex neurons in vivo Sami El-Boustani|Jacque Pak Kan Ip|Vincent Breton-Provencher|Hiroyuki Okuno|Haruhiko Bito|Mriganka Sur Massachusetts Institute of Technology, Picower Institute;|Kyoto University, Medical Innovation Center;|The University of Tokyo, Department of Neurochemistry
http://dx.doi.org/10.1101/245183 2018-01-17 CC BY FAIRsharing: working with and for the community to describe and link data standards, repositories and policies Susanna-Assunta Sansone|Peter McQuilton|Philippe Rocca-Serra|Alejandra Gonzalez-Beltran|Massimiliano Izzo|Allyson Lister|Milo Thurston Oxford e-Research Centre, Dept of Engineering Science, University of Oxford, UK;|-
http://dx.doi.org/10.1101/248310 2018-01-17 CC BY Dynamic action of the Sec machinery during initiation, protein translocation and termination revealed by single molecule fluorescence Tomas Fessl|Daniel Watkins|Peter Oatley|William John Allen|Robin A Corey|Jim Horne|Stephen A Baldwin|Sheena E Radford|Ian Collinson|Roman Tuma University of Leeds and University of South Bohemia;|University of Bristol;|University of Leeds
http://dx.doi.org/10.1101/249656 2018-01-17 CC BY-NC-ND Stochastic methods for inferring states of cell migration Richard J Allen|Christopher Welch|Neha Pankow|Klaus Hahn|Timothy C Elston Department of Pharmacology, University of North Carolina
http://dx.doi.org/10.1101/249649 2018-01-17 Male-specific CREB signaling in the hippocampus controls spatial memory deficits in a mouse model of autism and intellectual disability Marta Zamarbide|Adele Mossa|Molly K Wilkinson|Heather L Pond|Adam W Oaks|M. Chiara Manzini George Washington University
http://dx.doi.org/10.1101/241489 2018-01-17 Genome-wide association meta-analysis of PR interval identifies 47 novel loci associated with atrial and atrioventricular electrical activity Jessica van Setten|Jennifer A. Brody|Yalda Jamshidi|Brenton R. Swenson|Anne M. Butler|Harry Campbell|Fabiola M. Del Greco|Daniel S. Evans|Quince Gibson|Daniel F. Gudbjartsson|Kathleen F. Kerr|Bouwe P. Krijthe|Leo-Pekka Lyytikainen|Christian Muller|Martina Muller-Nurasyid|Ilja M. Nolte|Sandosh Padmanabhan|Marylyn D. Ritchie|Antonietta Robino|Albert V. Smith|Maristella Steri|Toshiko Tanaka|Alexander Teumer|Stella Trompet|Sheila Ulivi|Niek Verweij|Xiaoyan Yin|David O. Arnar|Folkert W. Asselbergs|Joel S. Bader|John Barnard|Josh Bis|Stefan Blankenberg|Eric Boerwinkle|Yuki Bradford|Brendan M. Buckley|Mina K. Chung|Dana Crawford|Marcel den Hoed|Josh Denny|Anna F. Dominiczak|Georg B. Ehret|Mark Eijgelsheim|Patrick T. Ellinor|Stephan B. Felix|Oscar H. Franco|Lude Franke|Tamara B. Harris|Hilma Holm|Gandin Ilaria|Annamaria Iorio|Mika Kahonen|Ivana Kolcic|Jan A. Kors|Edward G. Lakatta|Lenore J. Launer|Honghuang Lin|Henry J. Lin|Ruth J.F. Loos|Steven A. Lubitz|Peter W. Macfarlane|Jared W. Magnani|Irene Mateo Leach|Thomas Meitinger|Braxton D. Mitchell|Thomas Munzel|George J. Papanicolaou|Annette Peters|Arne Pfeufer|Peter P. Pramstaller|Olli T. Raitakari|Jerome I. Rotter|Igor Rudan|Nilesh J. Samani|David Schlessinger|Claudia T. Silva Aldana|Moritz F. Sinner|Jonathan D. Smith|Harold Snieder|Elsayed Z. Soliman|Timothy D. Spector|David J. Stott|Konstantin Strauch|Kirill V. Tarasov|Andre G. Uitterlinden|David R. van Wagoner|Uwe Volker|Henry Volzke|Melanie Waldenberger|Harm Jan Westra|Philipp S. Wild|Tanja Zeller|Alvaro Alonso|Christy L. Avery|Stefania Bandinelli|Emelia J. Benjamin|Francesco Cucca|Marcus Dorr|Luigi Ferrucci|Paolo Gasparini|Vilmundur Gudnason|Caroline Hayward|Susan R. Heckbert|Andrew A. Hicks|J. Wouter Jukema|Stefan Kaab|Terho Lehtimaki|Yongmei Liu|Patricia B. Munroe|Afshin Parsa|Ozren Polasek|Bruce M. Psaty|Dan M. Roden|Renate B. Schnabel|Gianfranco Sinagra|Kari Stefansson|Bruno H. Stricker|Pim van der Harst|Cornelia M. van Duijn|James F. Wilson|Sina Gharib|Paul I.W. de Bakker|Aaron Isaacs|Dan E. Arking|Nona Sotoodehnia University Medical Center Utrecht, Utrecht, the Netherlands;|University of Washington, Seattle, WA USA;|St Georges University of London, UK;|Washington University School of Medicine St. Louis, MO;|University of Edinburgh, Edinburgh, UK;|Institute for Biomedicine, Eurac Research, Bolzano, Italy;|California Pacific Medical Center Research Institute, San Francisco, CA, USA;|University of Alabama Birmingham Hospital, Birmingham, AL, USA;|deCODE genetics/Amgen, Inc., Reykjavik, Iceland;|Erasmus Medical Center, Rotterdam, The Netherlands;|Fimlab Laboratories, Tampere 33520, Finland;|University Heart Center Hamburg-Eppendorf, Germany;|Helmholtz Zentrum Munchen, German Res Ctr for Environ Health, Neuherberg;|University of Groningen, Groningen, The Netherlands;|University of Glasgow, Glasgow, Scotland, UK;|Biomedical and Translational Informatics Institute, Geisinger, Danville PA;|Intitute for Maternal and Child Health - IRCCS;|Icelandic Heart Association, Kopavogur, Iceland;|Istituto di Ricerca Genetica e Biomedica, Monserrato, Cagliari, Italy;|NIA, Baltimore, MD, USA;|University Medicine Greifswald, Germany;|Leiden University Medical Center, Leiden, The Netherlands;|University of Groningen, the Netherlands;|Boston University School of Medicine, Boston, MA, USA;|University of Utrecht, Utrecht, the Netherlands;|Johns Hopkins University, Baltimore, Maryland, USA;|Cleveland Clinic, Cleveland, Ohio, USA;|University of Washington, Seattle, WA, USA;|University of Texas Health Science Center at Houston, Houston, TX, USA;|University College Cork, Ireland;|Case Western Reserve University, Cleveland, OH;|Uppsala University, Uppsala, Sweden;|Vanderbilt University, Nashville, TN;|Johns Hopkins University School of Medicine, Baltimore, MD, USA;|University Medical Center Groningen, Groningen, The Netherlands;|The Broad Institute of MIT and Harvard, Cambridge, MA, USA;|University Medicine Greifswald, Greifswald, Germany;|University Medical Center Groningen, Groningen, the Netherlands;|National Institutes of Health, Bethesda, Maryland, USA;|University of Trieste, Trieste, Italy;|Ospedali Riuniti and University of Trieste, Trieste, Italy;|Tampere University Hospital, Tampere 33521, Finland;|University of Split, Split, Croatia;|Erasmus University Medical Center, Rotterdam, the Netherlands;|National Institute on Aging, National Institutes of Health, Baltimore, MD, USA;|Los Angeles Biomedical Res Inst at Harbor-UCLA Medical Center, Torrance, CA;|Icahn School of Medicine at Mount Sinai, New York, NY, USA;|University of Glasgow, Glasgow, UK;|University of Pittsburgh, Pittsburgh, PA, USA;|University of Maryland, MD, USA;|Univ Medical Center of the Johannes Gutenberg-University Mainz, Mainz, Germany;|National Heart, Lung, and Blood Institute, NIH, Bethesda, MD, USA;|MVZ fur Molekulardiagnostik, Munich, Germany;|Turku University Hospital, Turku 20521, Finland;|University of Leicester, Leicester, UK;|National Institute on Aging, National Institute of Health, Baltimore, MD, USA;|Ludwig-Maximilians-Universitat, Munich, Germany;|Wake Forest School of Medicine, Winston-Salem, NC, USA;|St Thomas Hospital, King's College London, UK;|Helmholtz Zentrum Munchen, Neuherberg, Germany;|Univ of Groningen, Univ Medical Center Groningen, Groningen, the Netherlands;|Emory University, Atlanta, GA, USA;|University of North Carolina at Chapel Hill, Chapel Hill, NC, USA;|Geriatric Unit, Azienda Sanitaria Firenze (ASF), Florence, Italy;|Consiglio Nazionale delle Ricerche (CNR), Monserrato, Cagliari, Italy;|Translational Gerontology Branch, NIA, Baltimore, MD, USA;|University of Tampere, Tampere 33014, Finland;|Wake Forest University, Winston-Salem, NC, USA;|Queen Mary University of London, London, UK;|Univ of Maryland School of Medicine, Baltimore VA Medical Center, Baltimore, MD;|University of Groningen, Groningen, the Netherlands;|Maastricht University, Maastricht, the Netherlands
http://dx.doi.org/10.1101/249680 2018-01-17 CC BY-NC-ND Mutations in Bcl9 and Pygo genes cause congenital heart defects by tissue-specific perturbation of Wnt/β-catenin signaling Claudio Cantu|Anastasia Felker|Dario Zimmerli|Elena Chiavacci|Elena Maria Cabello|Lucia Kirchgeorg|Tomas Valenta|George Hausmann|Jorge Ripoll|Natalie Vilain|Michel Aguet|Konrad Basler|Christian Mosimann Institute of Molecular Life Sciences, University of Zurich, Switzerland;|Dept of Bioengineering & Aerospace Engineering, Univ Carlos III de Madrid, Spain;|Swiss Institute for Experimental Cancer Research, EPFL, Lausanne, Switzerland
http://dx.doi.org/10.1101/249631 2018-01-17 Neuroscience CC BY-NC In vivo Effects of Temperature on the Heart and Pyloric Rhythms in the Crab, Cancer borealis Dahlia Kushinsky|Eve Marder Weizmann Institute of Science;|Brandeis University
http://dx.doi.org/10.1101/249219 2018-01-17 Cancer Biology CC BY-NC-ND Detection and benchmarking of somatic mutations in cancer genomes using RNA-seq data Alexandre Coudray|Anna M Battenhouse|Philipp Bucher|Vishwanath R Iyer Swiss Federal Institute of Technology (EPFL);|University of Texas at Austin
http://dx.doi.org/10.1101/245852 2018-01-17 Biochemistry CC BY-NC-ND A structural mechanism for directing inverse agonism of PPARγ Richard Brust|Jinsai Shang|Jakob Fuhrmann|Jared Bass|Andrew Cano|Zahra Heidari|Ian Chrisman|Anne-Laure Blayo|Patrick Griffin|Theodore Kamenecka|Travis Hughes|Douglas Kojetin The Scripps Research Institute;|University of Montana
http://dx.doi.org/10.1101/248948 2018-01-17 Synthetic Biology CC BY-NC-ND Engineering Translational Resource Allocation Controllers: Mechanistic Models, Design Guidelines, and Potential Biological Implementations Alexander P.S. Darlington|Juhyun Kim|Jose I. Jimenez|Declan Bates University of Warwick;|University of Surrey
http://dx.doi.org/10.1101/249268 2018-01-17 Bioinformatics CC BY marge: An API for Analysis of Motifs Using HOMER in R Robert A Amezquita Fred Hutchinson Cancer Research Institute
http://dx.doi.org/10.1101/249367 2018-01-17 Systems Biology CC BY-NC-ND Methionine coordinates a hierarchically organized anabolic program through GCN4 Adhish Walvekar|Rajalakshmi Srinivasan|Ritu Gupta|Sunil Laxman Institute for Stem Cell Biology and Regenerative Medicine (inStem)
http://dx.doi.org/10.1101/248963 2018-01-17 Neuroscience CC BY Timing of Cyclic Estradiol Treatment Differentially Affects Cognition in Aged Female Rhesus Monkeys Mark G Baxter|Anthony C Santistevan|Eliza Bliss-Moreau|John H Morrison Icahn School of Medicine at Mount Sinai;|University of California - Davis and California National Primate Research Center
http://dx.doi.org/10.1101/248856 2018-01-17 Neuroscience CC BY Mathematical modeling of navigational decisions based on intensity versus directionality in Drosophila larval phototaxis Lucia de Andres-Bragado|Christian Mazza|Walter Senn|Simon Sprecher University of Fribourg;|University of Bern
http://dx.doi.org/10.1101/247635 2018-01-17 Animal Behavior and Cognition CC BY-NC-ND Do long-tailed macaques engage in intuitive statistics? Sarah Placi|Johanna Eckert|Hannes Rakoczy|Julia Fischer Deutsches Primatenzentrum;|University of Goettingen
http://dx.doi.org/10.1101/249326 2018-01-17 Neuroscience CC BY-NC-ND Attentional set to safety recruits the medial prefrontal cortex Shuxia Yao|Song Qi|Keith Kendrick|Dean Mobbs University of Electronic Science and Technology of China;|California Institute of Technology
http://dx.doi.org/10.1101/248872 2018-01-17 Microbiology Conserved collateral susceptibility networks in diverse clinical strains of Escherichia coli. Nicole L Podnecky|Elizabeth GA Fredheim|Julia Kloos|Vidar Sorum|Raul Primicerio|Adam P Roberts|Daniel E Rozen|Orjan Samuelsen|Pal J Johnsen UiT- The Arctic University of Norway;|Liverpool School of Tropical Medicine;|Leiden University;|UiT- The Arctic University of Norway, University Hospital of North Norway
http://dx.doi.org/10.1101/249110 2018-01-17 Evolutionary Biology CC BY-NC An evolutionary innovation is contingent on maintaining adaptive potential until competition subsides Dacia Leon|Simon D'Alton|Erik M. Quandt|Jeffrey E. Barrick The University of Texas at Austin
http://dx.doi.org/10.1101/249128 2018-01-17 Microbiology CC BY Structure of the Core of the Type Three Secretion System Export Apparatus Lucas Kuhlen|Patrizia Abrusci|Steven Johnson|Joseph Gault|Justin Deme|Joseph Caesar|Tobias Dietsche|Mehari Tesfazgi Mebrhatu|Tariq Ganief|Boris Macek|Sam Wagner|Carol V Robinson|Susan M Lea University of Oxford;|University of Tubingen
http://dx.doi.org/10.1101/249417 2018-01-17 Neuroscience CC BY-NC-ND Multi-scale mapping along the auditory hierarchy using high-resolution functional UltraSound in the awake ferret Celian Bimbard|Charlie Demene|Constantin Girard|Susanne Radtke-Schuller|Shihab Shamma|Mickael Tanter|Yves Boubenec Ecole Normale Superieure;|Ecole Superieure de Physique et Chimie Industrielle de Paris
http://dx.doi.org/10.1101/249169 2018-01-17 Bioengineering Linking heat attentions and the moment of LH surge in dairy cows − how close can we get? Ines Adriaens|Wouter Saeys|Chris Lamberigts|Mario Berth|Katleen Geerinckx|Jo Leroy|Bart De Ketelaere|Ben Aernouts KU Leuven, Department of Biosystems, MeBioS;|KU Leuven, Department of Biosystems, Livestock Physiology;|Algemeen Medisch Laboratorium, Department of Immunology;|Province of Antwerp, Hooibeekhoeve;|University of Antwerp, Faculty of Pharmaceutical, Biomedical and Veterinary Sciences;|KU Leuven, Department of Microbial and Molecular Systems, Cluster for Bioengineering Technology
http://dx.doi.org/10.1101/248898 2018-01-17 Pharmacology and Toxicology CC BY-NC-ND Navigating in vitro bioactivity data: investigating available resources using model compounds Sten Ilmjarv|Fiona Augsburger|Jerven Tjalling Bolleman|Robin Liechti|Alan Bridge|Jenny Sandstrom|Vincent Jaquet|Ioannis Xenarios|Karl-Heinz Krause Department of Pathology and Immunology, University of Geneva, Switzerland;|Swiss-Prot group, SIB Swiss Institute of Bioinformatics, Geneva, Switzerland;|Vital-IT, Swiss Institute of Bioinformatics, University of Lausanne, Switzerland;|SCAHT Swiss Centre for Applied Human Toxicology, Basel, Switzerland;|Vital-IT Group, SIB Swiss Institute of Bioinformatics, Lausanne, Switzerland
http://dx.doi.org/10.1101/249011 2018-01-17 Neuroscience Intrinsic dynamics enhance decodability of neurons in a model of avian auditory cortex Margot Bjoring|C Daniel Meliza University of Virginia
http://dx.doi.org/10.1101/248930 2018-01-17 Neuroscience CC BY-NC-ND Trait and state patterns of basolateral amygdala connectivity at rest are related to endogenous testosterone and aggression in healthy young women Macia Buades-Rotger|Christin Engelke|Ulrike M. Kraemer Department of Neurology & Institute of Psychology II, University of Luebeck;|Department of Neurology, University of Luebeck
http://dx.doi.org/10.1101/249615 2018-01-17 Microbiology CC BY Identification of human vaccinees that possess antibodies targeting the egg-adapted hemagglutinin receptor binding site of an H1N1 influenza vaccine strain Tyler A. Garretson|Joshua G. Petrie|Emily T. Martin|Arnold S. Monto|Scott E. Hensley University of Pennsylvania;|University of Michigan
http://dx.doi.org/10.1101/249045 2018-01-17 Neuroscience CC BY-NC-ND Adaptation decorrelates shape representations Marcelo Gomes Mattar|Maria Olkkonen|Russell A Epstein|Geoffrey K Aguirre Princeton University;|Durham University;|University of Pennsylvania
http://dx.doi.org/10.1101/246355 2018-01-17 Evolutionary Biology CC BY-NC-ND Coevolution of male and female mate choice can hamper speciation Thomas G. Aubier|Hanna Kokko|Mathieu Joron Centre d'Ecologie Fonctionnelle et Evolutive, UMR 5175 CNRS;|Institute of Evolutionary Biology and Environmental Studies, University of Zurich
http://dx.doi.org/10.1101/249029 2018-01-17 Neuroscience CC BY-NC-ND Higher performing older adults upregulate brain signal variability in response to feature-rich sensory input Douglas D. Garrett|Samira M Epp|Maike Kleemeyer|Ulman Lindenberger|Thad Polk Max Plank UCL Centre for Computational Psychiatry and Ageing Research;|Center for Lifespan Psychology, Max Planck Institute for Human Development;|University of Michigan
http://dx.doi.org/10.1101/249243 2018-01-17 Bioinformatics CC BY-NC-ND CWL-Airflow: a lightweight pipeline manager supporting Common Workflow Language Michael Kotliar|Andrey Kartashov|Artem Barski CCHMC
http://dx.doi.org/10.1101/248880 2018-01-17 Biophysics Enhanced photon collection enables four dimensional fluorescence nanoscopy of living systems Luciano Masullo|Andreas Boden|Francesca Pennacchietti|Giovanna Coceano|Michael Ratz|Ilaria Testa KTH-SciLifeLab;|KI
http://dx.doi.org/10.1101/249284 2018-01-17 Cell Biology Massive surface membrane expansion without involvement of classical exocytic mechanisms. Michael Fine|Christopher Bricogne|Donald W. Hilgemann UT Southwestern Medical Center;|University College London
http://dx.doi.org/10.1101/249508 2018-01-17 Genetics CC BY Human CCL3L1 copy number variation, gene expression, and the role of the CCL3L1-CCR5 axis in lung function Adeolu B Adewoye|Nick Shrine|Linda Odenthal-Hesse|Samantha Welsh|Anders Malarstig|Scott Jelinsky|Iain Kilty|Martin D Tobin|Edward J Hollox|Louise V Wain University of Leicester;|UK Biobank;|Pfizer Worldwide Research and Development
http://dx.doi.org/10.1101/249805 2018-01-18 Electrical Excitability of the Endoplasmic Reticulum Membrane Drives Electrical Bursting and the Pulsatile Secretion of Insulin in a Pancreatic Beta Cell Model Javier Gomez-Barriocanal Private Research
http://dx.doi.org/10.1101/249540 2018-01-18 CC BY-ND The PrEP Care Continuum and Racial Disparities in HIV Incidence among Men Who Have Sex with Men Samuel M Jenness|Kevin M Maloney|Dawn K Smith|Karen W Hoover|Steven M Goodreau|Eli S Rosenberg|Kevin M Weiss|Albert Y Liu|Darcy Rao|Patrick S Sullivan Emory University;|Centers for Disease Control and Prevention;|University of Washington;|University at Albany School of Public Health;|San Francisco Department of Public Health
http://dx.doi.org/10.1101/248476 2018-01-18 CC BY-NC Micro-hotspots of Risk in Urban Cholera Epidemics Andrew Azman|Francisco Javier Luquero Alcalde|Henrik Salje|Nathan Naibei|Ngandwe Adalbert|Mohammad Ali|Enrico Bertuzzo|Flavio Finger|Brahima Toure|Louis Albert Massing|Romain Ramazani|Amelie Cardon|Bansaga Saga|Maya Allan|David Olson|Jerome Leglise|Klaudia Porten|Justin Lessler Johns Hopkins Bloomberg School of Public Health;|Epicentre;|Institut Pasteur;|Ministry of Health, Kalemie, Democratic Republic of the Congo;|University Ca Foscari Venice;|London School of Hygiene & Tropical Medicine;|Medecins sans Frontieres (France), Kinshasa, Democratic Republic of the Congo;|Solidarites International;|Medecins sans Frontieres, Paris, France
http://dx.doi.org/10.1101/247734 2018-01-18 Epidemiology CC BY Estimating the distance to an epidemic threshold Eamon B. O'Dea|Andrew W. Park|John M. Drake University of Georgia
http://dx.doi.org/10.1101/249847 2018-01-18 Epidemiology Design principles for TB vaccines' clinical trials based on spreading dynamics Sergio Arregui|Dessislava Marinova|Carlos Martin|Joaquin Sanz|Yamir Moreno Institute for Biocomputation and Physics of Complex Systems (BIFI), University of Zaragoza, Spain;|Microbiology Department Faculty of Medicine, University of Zaragoza, Spain;|Sainte-Justine Hospital Research Centre, Montreal, Canada
http://dx.doi.org/10.1101/250126 2018-01-18 Bioinformatics CC BY Observation weights to unlock bulk RNA-seq tools for zero inflation and single-cell applications Koen Van den Berge|Fanny Perraudeau|Charlotte Soneson|Michael I Love|Davide Risso|Jean-Philippe Vert|Mark D Robinson|Sandrine Dudoit|Lieven Clement Ghent University;|University of California, Berkeley;|University of Zurich;|The University of North Carolina at Chapel Hill;|Weill Cornell Medicine;|MINES ParisTech
http://dx.doi.org/10.1101/249961 2018-01-18 Plant Biology CC BY-NC-ND The expa1-1 mutant reveals a new biophysical lateral root organogenesis checkpoint Priya Ramakrishna|Graham A. Rance|Lam D. Vu|Evan Murphy|Kamal Swarup|Kamaljit Moirangthem|Bodil Jorgensen|Brigitte van de Cotte|Tatsuaki Goh|Zhefeng Lin|Ute Voss|Tom Beeckman|Malcolm J. Bennett|Kris Gevaert|Ive De Smet University of Nottingham;|VIB-UGent;|University of Copenhagen
http://dx.doi.org/10.1101/249995 2018-01-18 Bioinformatics CC BY-NC-ND HCAtk and pyHCA: A Toolkit and Python API for the Hydrophobic Cluster Analysis of Protein Sequences. Tristan Bitard-Feildel|Isabelle Callebaut Sorbonne University, CNRS, IBPS, UMR 7238, Laboratoire de Biologie Computationnelle et Quantitative;|CNRS UMR7590, Sorbonne University, Paris 6, MNHN, IRD, IUC
http://dx.doi.org/10.1101/249722 2018-01-18 Genetics Accounting for Errors in Low Coverage High-Throughput Sequencing Data when Constructing Genetic Maps using Biparental Outcrossed Populations Timothy P. Bilton|Matthew R. Schofield|Michael A. Black|David Chagne|Phillip L. Wilcox|Ken G. Dodds University of Otago;|New Zealand Institute for Plant & Food Research Limited;|AgResearch
http://dx.doi.org/10.1101/249763 2018-01-18 Genomics CC BY TAS2R38 predisposition to bitter taste associated with differential changes in vegetable intake in response to a community-based dietary intervention Larissa Calancie|Thomas C Keyserling|Lindsey Smith-Taillie|Kimberly Robasky|Cam Patterson|Alice S Ammerman|Jonathan C Schisler The University of North Carolina at Chapel Hill;|Presbyterian Hospital/Weill-Cornell Medical Center
http://dx.doi.org/10.1101/247999 2018-01-18 Genomics CC BY-NC-ND Genetic potential for disease resistance in a critically endangered frog decimated by chytridiomycosis. Tiffany Alison Kosch|Catarina N.S. Silva|Laura A. Brannelly|Alexandra Roberts|Quintin Lau|Lee Berger|Lee F. Skerratt James Cook University;|University of Pittsburgh;|Sokendai
http://dx.doi.org/10.1101/249086 2018-01-18 Genomics CC BY-NC-ND An improved mitochondrial reference genome for Arabidopsis thaliana Col-0 Daniel B Sloan|Zhiqiang Wu|Joel Sharbrough Colorado State University
http://dx.doi.org/10.1101/249797 2018-01-18 Cancer Biology Evolution of an intratumoral ecology susceptible to successive treatment in breast cancer xenografts Hyunsoo Kim|Pooja Kumar|Francesca Menghi|Javad Noorbakhsh|Eliza Cerveira|Mallory Ryan|Qihui Zhu|Guruprasad Ananda|Joshy George|Henry Chen|Susan Mockus|Chengsheng Zhang|Yan Yang|James Keck|R. Krishna Murthy Karuturi|Carol J Bult|Charles Lee|Edison T Liu|Jeffrey H Chuang The Jackson Laboratory for Genomic Medicine;|The Jackson Laboratory, In Vivo Services;|The Jackson Laboratory
http://dx.doi.org/10.1101/249938 2018-01-18 Plant Biology CC BY-ND In vivo monitoring of plant small GTPase activation using a Förster resonance energy transfer biosensor Hann Ling Won|Akira Akamatsu|Qiong Wang|Masayuki Higuchi|Tomonori Matsuda|Jun Okuda|Ken-ichi Kosami|Noriko Inada|Tsutomu Kawasaki|Shingo Nagawa|Li Tan|Yoji Kawano|Ko Shimamoto Tunku Abdul Rahman, Jalan Universiti;|Nara Institute of Science and Technology;|Chinese Academy of Sciences;|Kinki University
http://dx.doi.org/10.1101/202051 2018-01-18 Bioinformatics Panama: a tool for ion channel biophysics simulation Anuj Guruacharya University of Oklahoma
http://dx.doi.org/10.1101/249573 2018-01-18 Plant Biology CC BY Quantitative Trait Loci Controlling Phytophthora cactorum Resistance in the Cultivated Octoploid Strawberry (Fragaria x ananassa) Charlotte F Nellist|Robert Vickerstaff|Maria K Sobczyk|Cesar Marina-Montes|Philip Brain|Fiona M Wilson|David W Simpson|Adam B Whitehouse|Richard Harrison NIAB EMR
http://dx.doi.org/10.1101/196485 2018-01-18 Pathology CC BY-NC-ND Identification of powdery mildew resistance QTL in Fragaria x ananassa Helen M Cockerton|Robert J Vickerstaff|Fiona Wilson|Amanda Karlstrom|Maria Sobczyk|Andy J Passey|Joe Q He|Kirsty J McLeary|Daniel J Sargent|Katalin Pakozdi|Nicola Harrison|Maria Lumbreras Martinez|Laima Antanaviciute|David W Simpson|Richard J Harrison NIAB EMR;|Driscolls Genetics
http://dx.doi.org/10.1101/249862 2018-01-18 Evolutionary Biology CC BY-ND Brown rat demography reveals pre-commensal structure in eastern Asia prior to expansion into Southeast Asia during the Song dynasty Emily E Puckett|Jason Munshi-South Fordham University
http://dx.doi.org/10.1101/250001 2018-01-18 Plant Biology PILS6 is a temperature-sensitive regulator of nuclear auxin input and organ growth in Arabidopsis thaliana Elena Feraru|Mugurel I. I Feraru|Elke Barbez|Lin Sun|Angelika Gaidora|Juergen Kleine-Vehn BOKU University
http://dx.doi.org/10.1101/249714 2018-01-18 Molecular Biology An origin of the immunogenicity of in vitro transcribed RNA Xin Mu|Emily Greenwald|Sadeem Ahmad|Sun Hur BCMP in Harvard Medical School, PCMM in BCH;|Program in Cellular and Molecular Medicine BCH
http://dx.doi.org/10.1101/249755 2018-01-18 Evolutionary Biology CC BY-NC-ND Shallow evolutionary divergence between two Andean hummingbirds: Speciation with gene flow? Catalina Palacios|Silvana Garcia-R|Juan Luis Parra|Andres M. Cuervo|F. Gary Stiles|John E. McCormack|Carlos Daniel Cadena Laboratorio de Biología Evolutiva de Vertebrados, Universidad de los Andes;|Grupo de Ecología y Evolución de Vertebrados, Univ de Antioquia;|Inst de Investigación de Recursos Biol Alexander von Humboldt;|Instituto de Ciencias Naturales, Universidad Nacional de Colombia;|Moore Laboratory of Zoology, Occidental College
http://dx.doi.org/10.1101/250076 2018-01-18 CC BY-NC-ND Exploring the context of diacidic motif D-E as a signal for unconventional protein secretion in eukaryotic proteins Sreedevi Padmanabhan|Malay Ranjan Biswal|Ravi Manjithaya|Meher K Prakash JNCASR
http://dx.doi.org/10.1101/250159 2018-01-18 Parallels between experimental and natural evolution of legume symbionts Camille Clerissi|Marie Touchon|Delphine Capela|Mingxing Tang|Stephane Cruveiller|Matthew A. Parker|Lionel Moulin|Catherine Masson-Boivin|Eduardo P.C. Rocha Microbial Evolutionary Genomics, Institut Pasteur, Paris, France;|LIPM, Universite de Toulouse, INRA, CNRS, Castanet-Tolosan, France;|CEA/FAR, Institut de Genomique, Evry, France;|Department of Biological Sciences, State University of New York, Binghamton, NY;|IRD, Cirad, Universite de Montpellier, IPME, Montpellier, France
http://dx.doi.org/10.1101/250266 2018-01-18 CC BY-NC-ND Host range expansion and genetic plasticity drive the trade-off between integrative and extrachromosomal mobile genetic elements Jean Cury|Pedro Oliveira|Fernando de la Cruz|Eduardo Rocha Institut Pasteur;|Universidad de Cantabria
http://dx.doi.org/10.1101/250241 2018-01-18 CC BY-ND Exploiting regulatory heterogeneity to systematically identify enhancers with high accuracy Hamutal Arbel|William W. Fisher|Ann S. Hammonds|Kenneth H. Wan|Soo Park|Richard Weiszmann|Soile Keranen|Clara Henriquez|Omid Shams Solari|Peter J. Bickel|Mark Biggin|Susan E Celniker|James Bentley Brown UC Berkeley;|Lawrence Berkeley National Laboratory;|University of California, Berkeley
http://dx.doi.org/10.1101/249979 2018-01-18 CC BY Experimental Directory Structure (Exdir): An alternative to HDF5 without introducing a new file format Svenn-Arne Dragly|Milad Hobbi Mobarhan|Mikkel Lepperd|Simen Tenne|Torkel Hafting|Marianne Fyhn|Anders Malthe-Srenssen University of Oslo
http://dx.doi.org/10.1101/250175 2018-01-18 Dynein catch bond as a mediator of codependent bidirectional cellular transport Palka Puri|Nisha Gupta|Sameep Chandel|Supriyo Naskar|Anil Nair|Abhishek Chaudhuri|Mithun K Mitra|Sudipto Muhuri Indian Institute of Technology, Bombay;|Indian Institute of Science Education and Research, Mohali;|Indian Institute of Science, Bangalore;|Savitribai Phule Pune University, Pune
http://dx.doi.org/10.1101/250142 2018-01-18 CC BY-NC-ND Laboratory and Molecular Surveillance of Paediatric Typhoidal Salmonella in Nepal: Antimicrobial Resistance and Implications for Vaccine Policy Carl Britto|Zoe Anne Dyson|Sebastian Duchene|Michael Carter|Meeru Gurung|Dominic Kelly|David Murdoch|Imran Ansari|Stephen Thorson|Shrijana Shrestha|Neelam Adhikari|Gordon Dougan|Kathryn Holt|Andrew Pollard University of Oxford;|University of Melbourne;|Patan Academy of Health Sciences, Nepal;|University of Otago, Christchurch
http://dx.doi.org/10.1101/250217 2018-01-18 Therapeutic ICOS blockade reduces T follicular helper cells and improves allergic airway disease Faith I Uwadiae|Chloe J Pyle|Simone A Walker|Clare M Lloyd|James A Harker Imperial College London
http://dx.doi.org/10.1101/250258 2018-01-18 CC BY Classifying Bladder Cancer Subtypes Cihan Kaya|Nicolas Arcenio Pabon University of Pittsburgh Department of Computational and Systems Biology
http://dx.doi.org/10.1101/250308 2018-01-18 Neuroscience CC BY-ND Passive Audio Vocal Capture and Measurement in the Evaluation of Selective Mutism Helen Xu|Jacob Stroud|Renee Jozanovic|Jon Clucas|Jake Son|Bonhwang Koo|Juliet Schwarz|Arno Klein|Rachel Busman|Michael P Milham Thomas Jefferson University;|Northeastern University;|Child Mind Institute
http://dx.doi.org/10.1101/250183 2018-01-18 Developmental Biology CC BY-ND PRC1-dependent compaction of Hox gene clusters prevents transcriptional derepression during early Drosophila embryogenesis Thierry Cheutin|Giacomo Cavalli CNRS
http://dx.doi.org/10.1101/250134 2018-01-18 Biophysics The Principle of Similitude in Biology: From Allometry to the Formulation of Dimensionally Homogenous 'Laws' Andres Escala Universidad de Chile
http://dx.doi.org/10.1101/249078 2018-01-18 Neuroscience Audio-tactile and peripersonal space processing around the trunk in human parietal and temporal cortex: an intracranial EEG study Fosco Bernasconi|Jean-Paul Noel|Hyeongdong Park|Nathan Faivre|Margitta Seeck|Laurent Spinelli|Karl Schaller|Olaf Blanke|Andrea Serino Swiss Federal Institute of Technology Lausanne;|Vanderbilt University;|Geneva University Hospital;|University Hospital of Lausanne
http://dx.doi.org/10.1101/249904 2018-01-18 Neuroscience CC BY Locally distributed abstraction of temporal distance in human parietal cortex Qun Ye|Yi Hu|Yixuan Ku|Kofi Appiah|Sze Chai Kwok East China Normal University, China;|Sheffield Hallam University, China
http://dx.doi.org/10.1101/250167 2018-01-18 Systems Biology Multi-region proteome analysis quantifies spatial heterogeneity of prostate tissue biomarkers Tiannan Guo|Li Li|Qing Zhong|Niels J Rupp|Konstantina Charmpi|Christie E Wong|Ulrich Wagner|Jan H Rueschoff|Wolfram Jochum|Christian Fankhauser|Karim Saba|Cedric Poyet|Peter J Wild|Ruedi Aebersold|Andreas Beyer Westlake Institute for Advanced Study, CHINA;|University of Cologne, GERMANY;|Children's Medical Research Institute, AUSTRALIA;|University Hospital Zurich, SWITZERLAND;|Cantonal Hospital St. Gallen, GERMANY;|Institute of Surgical Pathology Zurich, SWITZERLAND;|ETH Zurich, SWITZERLAND
http://dx.doi.org/10.1101/250084 2018-01-18 Neuroscience Emotion lies in the eye of the listener: emotional arousal to novel sounds is reflected in the sympathetic contribution to the pupil dilation response and the P3 Andreas Widmann|Erich Schroger|Nicole Wetzel Cognitive and Biological Psychology, Institute of Psychology, University of Leipzig;|Leibniz Institute for Neurobiology; CBBS Magdeburg; University of Leipzig
http://dx.doi.org/10.1101/250050 2018-01-18 Neuroscience CC BY-NC-ND 22-hydroxycholesterol leads to efficient dopaminergic specification of human Mesenchymal Stem Cells Manisha Singh|Amit Kumar Dinda|Balram Airan|Sujata Mohanty All India Institute of Medical Sciences, India
http://dx.doi.org/10.1101/250092 2018-01-18 Animal Behavior and Cognition CC BY-ND A Hidden Markov Model to Estimate the Feeding Time of Dairy Cows Based on Indoor Positioning Data Matti Pastell|Lilli Frondelius Natural Resources Institute Finland (Luke)
http://dx.doi.org/10.1101/249888 2018-01-18 Systems Biology CC BY-ND A Toolbox for Discrete Modelling of Cell Signalling Dynamics Yasmin Z Paterson|David Shorthouse|Markus W Pleijzier|Nir Piterman|Claus Bendtsen|Benjamin A Hall|Jasmin Fisher University of Cambridge;|University of Leicester;|AstraZeneca
http://dx.doi.org/10.1101/250019 2018-01-18 Biochemistry CC BY-ND The molecular recognition of phosphatidic acid by an amphipathic helix in Opi1 Robert Ernst|Michael Gecht|Sabine Fischer|Anja Seybert|Achilleas S Frangakis|Ernst Stelzer|Roberto Covino|Gerhard Hummer|Harald F Hofbauer Saarland University, Germany;|Max-Planck-Institute of Biophysics;|Goethe University, Germany;|Institut fur Biophysik, Germany;|Goethe University Frankfurt;|Buchmann Institute for Molecular Life Sciences, Germany
http://dx.doi.org/10.1101/249870 2018-01-18 Neuroscience CC BY Affective bonding explains post-traumatic behavioral development in adult mice Ray X. Lee|Greg J Stephens|Bernd Kuhn Okinawa Institute of Science and Technology Graduate University, Japan;|Vrije Universiteit Amsterdam, Netherlands;|OIST Graduate University, Japan
http://dx.doi.org/10.1101/250100 2018-01-18 Cell Biology CC BY Reduced expression of C/EBPβ-LIP extends health- and lifespan in mice Christine Muller|Laura M Zidek|Tobias Ackermann|Tristan de Jong|Peng Liu|Verena Kliche|Mohamad Amr Zaini|Gertrud Kortman|Liesbeth Harkema|Dineke S Verbeek|Jan P. Tuckermann|Julia von Maltzahn|Alain de Bruin|Zhao-Qi Wang|Victor Guryev|Cornelis F. Calkhoven University Medical Center Groningen;|Leibniz Institute on Ageing - Fritz Lipmann Institute;|Ulm University;|University of Utrecht;|University of Groningen, UMCG
http://dx.doi.org/10.1101/250969 2018-01-19 Assessing Combinability of Phylogenomic Data using Bayes Factors Suman Neupane|Karolina Fucikova|Louise A. Lewis|Lynn Kuo|Ming-Hui Chen|Paul Lewis Dept of Ecology & Evolutionary Biology, University of Connecticut, Storrs, CT;|Department of Statistics, University of Connecticut, Storrs, CT
http://dx.doi.org/10.1101/250928 2018-01-19 CC BY HIF-2α is essential for carotid body development and function Randall Johnson|David Macias|Jose Lopez-Barneo|Andrew S Cowburn|Hortensia Torres-Torrelo|Patricia Ortega-Saenz University of Cambridge;|University of Seville
http://dx.doi.org/10.1101/250753 2018-01-19 CC BY Fine-tuning of substrate preferences of the Src-family kinase Lck revealed through a high-throughput specificity screen Neel H Shah|Mark Lobel|Arthur Weiss|John Kuriyan University of California, Berkeley;|Howard Hughes Medical Institute, University of California, San Francisco
http://dx.doi.org/10.1101/250696 2018-01-19 CC BY-NC Seidr: A toolkit for calculation of crowd networks Bastian Schiffthaler|Alonso Serrano|Nicolas Delhomme|Nathaniel R Street Umea Plant Science Center
http://dx.doi.org/10.1101/250837 2018-01-19 CC BY-NC-ND AlphaMate: a program for optimising selection, maintenance of diversity, and mate allocation in breeding programs Gregor Gorjanc|John M Hickey The Roslin Institute, University of Edinburgh
http://dx.doi.org/10.1101/250514 2018-01-19 CITGeneDB: A comprehensive database of human and mouse genes enhancing or suppressing cold-induced thermogenesis validated by perturbation experiments in mice Jin Li|Su-Ping Deng|Gang Wei|Peng Yu Department of Electrical and Computer Engineering,Texas A&M University;|Shanghai Jiao-Tong University Affiliated Sixth Peoples Hospital
http://dx.doi.org/10.1101/250811 2018-01-19 CC BY-NC Sharq, a versatile preprocessing and QC pipeline for Single Cell RNA-seq Tito Candelli|Philip Lijnzaad|Mauro J Muraro|Alexander van Oudenaarden|Thanasis Margaritis|Frank Holstege Princess Maxima Center;|Hubrecht Institute;|Prinses Maxima Center
http://dx.doi.org/10.1101/250647 2018-01-19 CC BY-NC-ND TNscope: Accurate Detection of Somatic Mutations with Haplotype-based Variant Candidate Detection and Machine Learning Filtering Donald Freed|Renke Pan|Rafael Aldana Sentieon Inc.;|Sentieon Inc
http://dx.doi.org/10.1101/250910 2018-01-19 CC BY RNA polymerase II pausing regulates a quiescence-dependent transcriptional program, priming cells for cell cycle reentry Hardik P Gala|Debarya Saha|Nisha Venugopal|Ajoy Aloysius|Jyotsna Dhawan Centre for Cellular and Molecular Biology;|National Centre for Biological Sciences
http://dx.doi.org/10.1101/250662 2018-01-19 CC BY-NC-ND Molecular crypsis by pathogenic fungi using human factor H. A numerical model Stefan N. Lang|Sebastian Germerodt|Christina Glock|Christine Skerka|Peter Zipfel|Stefan Schuster Friedrich Schiller University Jena;|Leibniz Institute for Natural Product Research and Infection Biology;|Friedrich-Schiller-University Jena
http://dx.doi.org/10.1101/250548 2018-01-19 CC BY-NC-ND Pathogenic mycobacteria manipulate host low density lipoprotein metabolism Matt D Johansen|Elinor Hortle|Joshua Kasparian|Alejandro Romero|Beatriz Novoa|Antonio Figueras|Warwick Britton|Kumidika de Silva|Auriol C Purdie|Stefan H Oehlers The University of Sydney and Centenary Institute;|Centenary Institute;|Institute of Marine Research;|Centenary Institute and The University of Sydney;|The University of Sydney
http://dx.doi.org/10.1101/250506 2018-01-19 CC BY-NC-ND FoodEstNet: Estimating True Food Consumption with Machine Learning Darlington Ahiale Akogo|Joseph B Danquah minoHealth AI Labs;|LD, RD
http://dx.doi.org/10.1101/251025 2018-01-19 CC BY-NC-ND Quantitative analysis of synaptic pathology and neuroinflammation: an initial study in a female rhesus monkey model of the "synaptic" phase of Alzheimer's Disease Danielle Beckman|Kristine Donis-Cox|Sean Ott|Mary Roberts|Lisa Novik|William G. Janssen|Eliza Bliss-Moreau|Peter H. Rudebeck|Mark G. Baxter|John H. Morrison California National Primate Research Center, UC Davis;|Dept of Neuroscience and Friedman Brain Inst, Icahn School of Medicine at Mt Sinai;|California National Primate Research Center, UC Davis, Davis
http://dx.doi.org/10.1101/250688 2018-01-19 CC BY-NC-ND Mitogenomic data indicate admixture components of Asian Hun and Srubnaya origin in the Hungarian Conquerors Endre Neparaczki|Zoltan Maroti|Tibor Kalmar|Klaudia Kocsy|Kitti Maar|Peter Bihari|Istvan Nagy|Erzsebet Fothi|Ildiko Pap|Agnes Kustar|Gyorgy Palfi|Istvan Rasko|Albert Zink|Tibor Torok Department of Genetics, University of Szeged, Hungary;|Dept of Pediatrics & Pediatric Health Center, Univ of Szeged, Faculty of Medicine;|SeqOmics Biotechnology Ltd. Morahalom, Hungary;|Institute of Biochemistry, Biological Research Centre, Szeged, Hungary;|Dept of Anthropology, Hungarian Natural History Museum Budapest, Hungary;|Department of Biological Anthropology University of Szeged, Hungary;|Institute of Genetics, Biological Research Centre, Szeged, Hungary;|Institute for Mummies and the Iceman EURAC Bolzano, Italy
http://dx.doi.org/10.1101/250639 2018-01-19 CC BY-NC-ND Differential Antiviral Activities of RSV Inhibitors in Human Airway Epithelium Carmen Mirabelli|Martine Jaspers|Mieke Boon|Mark Jorissen|Mohamed Koukni|Dorothee Bardiot|Patrick Chaltin|Arnaud Marchand|Johan Neyts|Dirk Jochmans KU Leuven - Rega Institute;|KU Leuven - Research Group Oto-Rhino-Laryngology;|KU Leuven - Department of Development and Regeneration;|Cistim Leuven;|KU Leuven - Center for Drug Design and Development
http://dx.doi.org/10.1101/250522 2018-01-19 CC BY Fatigue influences the recruitment, but not structure, of muscle synergies Pablo Ortega-Auriol|Thor F Besier|Winston D Byblow|Angus JC McMorland Department of Exercise Sciences, University of Auckland;|Auckland Bioengineering Institute, University of Auckland
http://dx.doi.org/10.1101/250845 2018-01-19 CC BY-NC-ND Virulence evolution in the opportunistic bacterial pathogen Pseudomonas aeruginosa Elisa T Granato|Christoph Ziegenhain|Rasmus L Marvig|Rolf Kummerli University of Oxford, United Kingdom;|Karolinska Institutet, Stockholm, Sweden;|Rigshospitalet, Copenhagen, Denmark;|University of Zurich, Switzerland
http://dx.doi.org/10.1101/250993 2018-01-19 CC BY-NC-ND Metagenomics reveals diet-specific specialization in fungus gardens of grass- and dicot-cutter ants Lily Khadempour|Huan Fan|Ken Keefover-Ring|Camila Carlos|Nilson S Nagamoto|Miranda A Dam|Monica T Pupo|Cameron R Currie University of Wisconsin-Madison;|Department of Bacteriology, University of Wisconsin-Madison, Madison, WI;|Departments of Botany and Geography, University of Wisconsin-Madison;|Department of Bacteriology, University of Wisconsin-Madison;|Dept of Plant Protection, UNESP - Sao Paulo State Univ, Botucatu, SP, Brazil;|Department of Nutritional Sciences, University of Wisconsin-Madison;|School of Pharmaceutical Sciences of Ribeirao Preto, University of Sao Paulo
http://dx.doi.org/10.1101/250779 2018-01-19 CC BY-NC-ND miRge 2.0: An updated tool to comprehensively analyze microRNA sequencing data YIn Lu|Alexander S Baras|Marc K Halushka Johns Hopkins University SOM
http://dx.doi.org/10.1101/247122 2018-01-19 CC BY-NC-ND Neonate gut and respiratory microbiota: coordinated development through time and space Alex Grier|Andrew McDavid|Bokai Wang|Xing Qui|James Java|Sanjukta Bandyopadhyay|Jeanne Holden-Wiltse|Haeja A Kessler|Ann L Gill|Heidie Huyck|Ann R Falsey|David J Topham|Kristin M Scheible|Mary T Caserta|Gloria S Pryhuber|Steven R Gill University of Rochester Genomics Research Center, Rochester, NY, USA;|University of Rochester Biostatistics & Computational Biology, Rochester, NY, USA;|University of Rochester Microbiology and Immunology, Rochester, NY, USA;|University of Rochester Medicine-Infectious Disease, Rochester, NY, USA;|Univ of Rochester Div of Neonatology, Department of Pediatrics, Rochester, NY;|Univ of Rochester Div of Infectious Disease, Dept of Pediatrics, Rochester, NY;|Univ of Rochester Div of Neonatology, Dept of Pediatrics, Rochester, NY
http://dx.doi.org/10.1101/250977 2018-01-19 CC BY-NC-ND Gene flow and Andean uplift shape the diversification of Gasteracantha cancriformis (Araneae: Araneidae) in Northern South America Fabian Camilo Salgado-Roa|Carolina Pardo-Diaz|Eloisa Lasso|Carlos F. Arias|Vera Solferini|Camilo Salazar Universidad del Rosario; Universidad de los Andes;|Universidad del Rosario;|Universidad de los Andes;|Smithsonian Tropical Research Institute;|University of Campinas
http://dx.doi.org/10.1101/250654 2018-01-19 CC BY-NC-ND Data-driven models of dominantly-inherited Alzheimer's disease progression Neil P Oxtoby|Alexandra L Young|David M Cash|Tammie L S Benzinger|Anne M Fagan|John C Morris|Randall J Bateman|Nick C Fox|Jonathan M Schott|Daniel C Alexander University College London;|Washington University in Saint Louis
http://dx.doi.org/10.1101/250787 2018-01-19 CC BY-NC-ND Identification of rare de novo epigenetic variations in congenital disorders Mafalda Barbosa|Ricky S Joshi|Paras Garg|Alejandro Martin-Trujillo|Nihir Patel|Bharati Jadhav|Corey T Watson|William Gibson|Kelsey Chetnik|Chloe Tessereau|Hui Mei|Silvia de Rubeis|Jennifer Reichert|Fatima Lopes|Lisenka Vissers|Tjitske Kleefstra|Dorothy E Grice|Lisa Edelmann|Gabriela Soares|Patricia Maciel|Han G Brunner|Joseph D Buxbaum|Bruce D Gelb|Andrew Sharp Icahn School of Medicine at Mount Sinai, NY, USA;|Ramapo College of New Jersey;|Life and Health Sciences Research Institute, University of Minho, Portugal;|Radboud University Medical Center, Nijmegen, The Netherlands;|Porto Hospital Center, Porto, Portugal;|Mount Sinai School of Medicine
http://dx.doi.org/10.1101/251017 2018-01-19 CC BY-ND Branch angle responses to photosynthesis are partially dependent on TILLER ANGLE CONTROL 1 Jessica Marie Guseman|Chris Dardick USDA-ARS Appalachian Fruit Research Station
http://dx.doi.org/10.1101/251033 2018-01-19 CC BY-NC-ND Human local adaptation of the TRPM8 cold receptor along a latitudinal cline Felix M. Key|Muslihudeen A. Abdul-Aziz|Roger Mundry|Benjamin Peter|Aarthi Sekar|Mauro D Amato|Megan Y. Dennis|Joshua M. Schmidt|Aida M. Andres Dept of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology;|Australian Ctr for Ancient DNA, School of Biol Sci, Environ Inst, Univ of Adelaide;|Department of Primatology, Max Planck Institute for Evolutionary Anthropology;|Department of Human Genetics, University of Chicago;|Genome Ctr, MIND Institute; Dept of Biochemistry & Molecular Medicine, UC Davis
http://dx.doi.org/10.1101/250068 2018-01-19 The effect of education on adult mortality, health, and income: triangulating across genetic and policy reforms Neil M Davies|Matt Dickson|George Davey Smith|Frank Windmeijer|Gerard J van den Berg University of Bristol;|University of Bath
http://dx.doi.org/10.1101/250449 2018-01-19 CSF biomarkers are differentially related to structural and functional changes in dementia of the Alzheimer's type Charles B Malpas|Michael M Saling|Dennis Velakoulis|Patricia Desmond|Rodney J Hicks|Henrik Zetterberg|Kaj Blennow|Terence J O'Brien The University of Melbourne;|University of Gothenburg;|Monash University
http://dx.doi.org/10.1101/250316 2018-01-19 CC BY-NC-ND Near Perfect Neural Critic from Motor Cortical Activity Toward an Autonomously Updating Brain Machine Interface Junmo An|Taruna Yadav|Mohammad Badri Ahmadi|Venkata Aditya Tarigoppula|Joseph Thachil Francis University of Houston
http://dx.doi.org/10.1101/249391 2018-01-19 CC BY-NC Treemmer: a tool to reduce large phylogenetic datasets with minimal loss of diversity Fabrizio Menardo|Chloe Loiseau|Daniela Brites|Mireia Coscolla|Sebastian Gygli|Liliana Rutaihwa|Andrej Trauner|Christian Beisel|Sonia Borrell|Sebastien Gagneux Swiss Tropical and Public Health Institute, University of Basel;|ETH Zurich
http://dx.doi.org/10.1101/248278 2018-01-19 Baculovirus AC102 is a nucleocapsid protein that is crucial for nuclear actin polymerization and nucleocapsid morphogensis Susan E Hepp|Gina M Borgo|Simina Ticau|Taro Ohkawa|Matthew D Welch University of California, Berkeley
http://dx.doi.org/10.1101/250464 2018-01-19 CC BY-NC-ND Improved prediction of fungal effector proteins from secretomes with EffectorP 2.0 Jana Sperschneider|Peter N Dodds|Donald M Gardiner|Karam B Singh|Jennifer M Taylor CSIRO
http://dx.doi.org/10.1101/250738 2018-01-19 CC BY-NC-ND Expression of SULTR2;2 in the Arabidopsis bundle sheath is mediated by a highly conserved positive regulator Sandra Kirschner|Helen Woodfield|Katharina Prusko|Maria Koczor|Udo Gowik|Julian M Hibberd|Peter Westhoff Heinrich-Heine-Universitat Dusseldorf;|University of Cambridge;|Carl von Ossietzky University Oldenburg
http://dx.doi.org/10.1101/250381 2018-01-19 Single Cell Molecular Alterations Reveal Pathogenesis and Targets of Concussive Brain Injury Douglas Arneson|Yumei Zhuang|Hyae Ran Byun|In Sook Ahn|Zhe Ying|Guanglin Zhang|Fernando Gomez-Pinilla|Xia Yang UCLA
http://dx.doi.org/10.1101/245894 2018-01-19 Intracranial fluid dynamics changes in idiopathic intracranial hypertension: pre and post therapy Nivedita Agarwal|Christian Contarino|Nicola Limbucci|Laura Bertazzi|Eleuterio Toro Hospital Santa Maria del Carmine, APSS;|University of Trento;|Careggi University Hospital
http://dx.doi.org/10.1101/240689 2018-01-19 CC BY-NC-ND Prodiginine Production in Streptomyces coelicolor Correlates Temporally and Spatially to Programmed Cell Death Elodie Tenconi|Matthew Traxler|Charline Hoebreck|Gilles P van Wezel|Sebastien Rigali Liege University;|Berkeley University of California;|Leiden University
http://dx.doi.org/10.1101/250274 2018-01-19 CC BY-NC-ND The Healthy Nevada Project: rapid recruitment for population health study Joseph J Grzymski|Max J Coppes|Jim Metcalf|Christos Galanopoulos|Chris Rowan|Michele Henderson|Robert W Read|Harry Reed|Bruce Lipp|Dave Miceli|Susan Rybarski|Anthony Slonim Desert Research Institute;|University of Nevada Reno School of Medicine;|Renown Health
http://dx.doi.org/10.1101/247510 2018-01-19 A Reactive Inelasticity Theoretical Framework for modeling Viscoelasticity, Plastic Deformation, and damage in Soft Tissue Babak N. Safa|Michael H. Santare|Dawn M. Elliott University of Delaware
http://dx.doi.org/10.1101/250712 2018-01-19 Genetics CC BY Genomic risk prediction of coronary artery disease in nearly 500,000 adults: implications for early screening and primary prevention Michael Inouye|Gad Abraham|Christopher P Nelson|Angela M Wood|Michael J Sweeting|Frank Dudbridge|Florence Y Lai|Stephen Kaptoge|Marta Brozynska|Tingting Wang|Shu Ye|Thomas R Webb|Martin K Rutter|Ioanna Tzoulaki|Riyaz S Patel|Ruth JF Loos|Bernard Keavney|Harry Hemingway|John Thompson|Hugh Watkins|Panos Deloukas|Emanuele Di Angelantonio|Adam S Butterworth|John Danesh|Nilesh J Samani Baker Heart and Diabetes Institute / University of Cambridge;|University of Leicester;|University of Cambridge;|University of Cambridge / University of Leicester;|Baker Heart and Diabetes Institute;|University of Manchester;|Imperial College London;|University College London;|Icahn School of Medicine at Mount Sinai;|University of Oxford;|Queen Mary University of London
http://dx.doi.org/10.1101/250399 2018-01-19 Systems Biology CC BY-NC-ND Charting the cross-functional map between transcription factors and cancer metabolism Karin Ortmayr|Sebastien Dubuis|Mattia Zampieri ETH Zurich
http://dx.doi.org/10.1101/250852 2018-01-19 Evolutionary Biology The genetic basis of inter-island mating behavior divergence Thomas Blankers|Kevin P Oh|Kerry L Shaw Cornell University
http://dx.doi.org/10.1101/250365 2018-01-19 Evolutionary Biology CC BY-NC-ND The genome-wide rate and spectrum of spontaneous mutations differs between haploid and diploid yeast Nathaniel P Sharp|Linnea Sandell|Christopher G. James|Sarah P. Otto University of British Columbia
http://dx.doi.org/10.1101/249987 2018-01-19 Plant Biology CC BY-NC-ND Criteria for evaluating molecular markers: Comprehensive quality metrics to improve marker-assisted selection John Damien Platten|Joshua Nathaniel Cobb|Rochelle Endegado Zantua International Rice Research Institute
http://dx.doi.org/10.1101/230136 2018-01-19 Plant Biology CC BY-NC-ND Synergistic binding of bHLH transcription factors to the promoter of the maize NADP-ME gene used in C4 photosynthesis is based on an ancient code found in the ancestral C3 state Ana Rita Borba|Tania S Serra|Alicja Gorska|Paulo Gouveia|Andre M Cordeiro|Ivan Reyna-Llorens|Jana Knerova|Pedro M Barros|Isabel A Abreu|M Margarida Oliveira Oliveira|Julian M Hibberd|Nelson J.M. Saibo Inst de Tecnologia Quimica e Biologica Antonio Xavier, Univ Nova de Lisboa;|Department of Plant Sciences, University of Cambridge
http://dx.doi.org/10.1101/250332 2018-01-19 Neuroscience BDNF-TrkB signaling in oxytocin neurons contributes to maternal behavior Kristen R Maynard|John W Hobbs|BaDoi N Phan|Amolika Gupta|Sumita Rajpurohit|Courtney Williams|Nina Rajpurohit|Joo Heon Shin|Andrew E Jaffe|Keri Martinowich Lieber Institute for Brain Development;|Lieber Institute for Brain Development; Johns Hopkins University
http://dx.doi.org/10.1101/250480 2018-01-19 Bioinformatics CC BY Predicting E. coli concentrations using limited qPCR deployments at Chicago beaches Nick Lucius|Kevin Rose|Callin Osborn|Matt E Sweeney|Renel Chesak|Daniel Y Little|Scott Beslow|Tom Schenk City of Chicago;|Chi Hack Night;|DePaul University
http://dx.doi.org/10.1101/250407 2018-01-19 Genomics CC BY-ND Assessment of the CTCF Binding Sites and Repeat-Positions Upstream the Human H19 Gene Minou Bina Department of Chemistry, Purdue University, West Lafayette IN 47907 USA
http://dx.doi.org/10.1101/250431 2018-01-19 Bioinformatics CC BY Evaluating Cell Identity from Transcription Profiles Nancy Mah|Katerina Taskova|Khadija El Amrani|Krithika Hariharan|Andreas Kurtz|Miguel A. Andrade-Navarro Charité - Universitätsmedizin Berlin;|Johannes-Gutenberg University of Mainz
http://dx.doi.org/10.1101/250597 2018-01-19 Evolutionary Biology Genetic Signatures of Lipid Metabolism Evolution in Cetacea Yoshinori Endo|Ken-ichiro Kamei|Miho Inoue-Murayama Kyoto University, Wildlife Research Center;|Kyoto University, Institute for Integrated Cell-Material Sciences (WPI- iCeMS)
http://dx.doi.org/10.1101/250761 2018-01-19 Evolutionary Biology Conserved and ubiquitous expression of piRNAs and PIWI genes in mollusks antedates the origin of somatic PIWI/piRNA expression to the root of bilaterians Julia Jehn|Daniel Gebert|Frank Pipilescu|Sarah Stern|Julian Simon Thilo Kiefer|Charlotte Hewel|David Rosenkranz Institute of Organismic and Molecular Evolution
http://dx.doi.org/10.1101/250746 2018-01-19 Molecular Biology MicroRNA-122 supports robust innate immunity in hepatocytes by suppressing STAT3 phosphorylation Hui Xu|Shi-Jun Xu|Shu-Juan Xie|Yin Zhang|Jian-Hua Yang|Wei-Qi Zhang|Man-Ni Zheng|Hui Zhou|Liang-Hu Qu Sun Yat-sen University, China
http://dx.doi.org/10.1101/250340 2018-01-19 Cancer Biology CC BY Discovery and optimization of piperazine-1-thiourea-based human phosphoglycerate dehydrogenase inhibitors Jason M Rohde|Kyle R Brimacombe|Li Liu|Michael E Pacold|Adam Yasgar|Dorian M Cheff|Tobie D Lee|Ganesha Rai|Bolormaa Baljinnyam|Zhuyin Li|Anton Simeonov|Matthew D Hall|Min Shen|David M Sabatini|Matthew B Boxer National Center for Advancing Translational Sciences, NIH, Rockville, Maryland, USA;|Whitehead Institute for Biomedical Research, Cambridge, Massachusetts, USA
http://dx.doi.org/10.1101/248328 2018-01-19 Neuroscience Genome-encoded Cytoplasmic Double-Stranded RNAs, Found in C9ORF72 ALS-FTD Brain, Provoke Propagated Neuronal Death Steven Rodriguez|Benjamin R Schrank|Asli Sahin|Hawra Al-Lawati|Isabel Constantino|Eric Benz|Darian Fard|Alefiya D Albers|Luxiang Cao|Alexis C Gomez|Elena Ratti|Merit Cudkowicz|Matthew P Frosch|Michael Talkowski|Peter K Sorger|Bradley T Hyman|Mark W Albers Department of Neurology, Massachusetts General Hospital, Boston, MA;|Department of Pathology, Massachusetts General Hospital, Boston, MA;|Center for Human Genomic Medicine, Massachusetts General Hospital, Boston, MA;|Laboratory of Systems Pharmacology, Harvard Medical School, Boston, MA
http://dx.doi.org/10.1101/250589 2018-01-19 Cell Biology CC BY-NC-ND Unexpected erosion of chromosome cohesion by a mitotic prophase-like pathway in yeast meiosis Kiran Challa|Miki Shinohara|Franz Klein|Susan M Gasser|Akira Shinohara Institute for Protein Research, Osaka University;|Max F. Perutz Laboratories, University of Vienna;|Friedrich Miescher Institute for Biomedical Research
http://dx.doi.org/10.1101/250605 2018-01-19 Cancer Biology CC BY-NC-ND 5-hydroxy-4'-nitro-7-propionyloxy-genistein inhibited invasion and metastasis via inactivating wnt/β-catenin signal pathway in human endometrial carcinoma JEC cells Jun Bai|Binjian Yang|Xin Luo The First Clinical School of Jinan University
http://dx.doi.org/10.1101/250373 2018-01-19 Cell Biology Size-dependent segregation controls macrophage phagocytosis of antibody-opsonized targets Matthew H Bakalar|Aaron M Joffe|Eva Schmid|Sungmin Son|Marija Podolski|Daniel A Fletcher University of California, Berkeley
http://dx.doi.org/10.1101/250704 2018-01-19 Cancer Biology CC BY-NC Single-Cell Transcriptome Analysis of Lineage Diversity and Microenvironment in High-Grade Glioma Jinzhou Yuan|Hanna Mendes Levitin|Veronique Frattini|Erin C. Bush|Jorge Samanamud|Michele Ceccarelli|Athanassios Dovas|George Zanazzi|Peter Canoll|Jeffrey N. Bruce|Anna Lasorella|Antonio Iavarone|Peter A. Sims Columbia University Medical Center
http://dx.doi.org/10.1101/250944 2018-01-20 Biochemistry CC BY-NC-ND Atomic force microscopy of phase separation on ruptured, giant unilamellar vesicles Yanfei Jiang|Guy M Genin|Kenneth M Pryse|Elliot L Elson Washington University, School of Medicine, Department of Biochemistry and Molecular Biophysics;|Washington University in St. Louis, Department of Mechanical Engineering and Materials Science
http://dx.doi.org/10.1101/251124 2018-01-20 Biophysics CC BY-NC-ND Irreversible temperature gating in trpv1 sheds light on channel activation Ana Sanchez-Moreno|Eduardo Guevara-Hernandez|Ricardo Contreras-Cervera|Gisela Rangel-Yescas|Ernesto Ladron-de-Guevara|Tamara Rosenbaum|Leon D Islas UNAM
http://dx.doi.org/10.1101/251058 2018-01-20 Bioinformatics CC BY-NC-ND Prediction of Accurate Binding Modes using Combination of classical and accelerated Molecular dynamics and Free Energy Perturbation Calculations: An Application to Toxicity Studies Filip Fratev|Thomas Steinbrecher|Svava Osk Jonsdottir The University of Texas at El Paso, School of Pharmacy;|Schrödinger LLC;|insilTox ApS
http://dx.doi.org/10.1101/251116 2018-01-20 Evolutionary Biology Improved phylogenetic resolution within Siphonophora (Cnidaria) with implications for trait evolution Catriona Munro|Stefan Siebert|Felipe Zapata|Mark Howison|Alejandro Damian-Serrano|Samuel H. Church|Freya E. Goetz|Philip R. Pugh|Steven H.D. Haddock|Casey W. Dunn Brown University;|University of California Davis;|University of California Los Angeles;|Yale University;|Harvard University;|Smithsonian Institution, National Museum of Natural History;|National Oceanography Centre, Southampton;|Monterey Bay Aquarium Research Institute
http://dx.doi.org/10.1101/251090 2018-01-20 Cancer Biology Cell-type specific expression of oncogenic and tumor suppressive microRNAs in the human prostate and prostate cancer Binod Kumar|Avi Z Rosenberg|Su Mi Choi|Karen Fox-Talbot|Angelo M De Marzo|Larisa Nonn|W. Nathaniel Brennen|Luigi Marchionni|Marc K Halushka|Shawn E Lupold Johns Hopkins University School of Medicine;|University of Illinois, Chicago
http://dx.doi.org/10.1101/251082 2018-01-20 Bioinformatics CC BY-NC-ND Inference of CRISPR Edits from Sanger Trace Data Timothy Hsiau|Travis Maures|Kelsey Waite|Joyce Yang|Reed Kelso|Kevin Holden|Rich Stoner Synthego
http://dx.doi.org/10.1101/250324 2018-01-20 CC BY-NC-ND Metagenomic analysis uncovers strong relationship between periodontal pathogens and vascular dysfunction in American Indian population Prathik K Vijay Kumar|Roberta A Gottlieb|Suzanne Lindsay|Nicole Delange|Tanya E Penn|Dan Calac|Scott T. Kelley San Diego State University, Department of Biology;|Cedars-Sinai Heart Institute;|San Diego State University, Institute for Public Health;|Southern California American Indian Health Center
http://dx.doi.org/10.1101/250985 2018-01-20 CC BY-NC-ND HDL-AuNPs-BMS nanoparticle conjugates as molecularly targeted therapy for leukemia Na Shen|Fei Yan|Jiuxia Pang|Zhe Gao|Aref Al-Kali|Christy L. Haynes|Mark R. Litzow|Shujun Liu University of Minnesota;|Mayo Clinic
http://dx.doi.org/10.1101/250894 2018-01-20 CC BY-NC-ND Quantifying differences between passive and task-evoked intrinsic functional connectivity in a large-scale brain simulation Antonio Ulloa|Barry Horwitz Neural Bytes LLC;|National Institute on Deafness and Other Communication Disorders, National Institutes of Health
http://dx.doi.org/10.1101/250902 2018-01-20 CC BY Generation of a novel growth-enhanced and reduced environmental impact transgenic pig strain Xianwei Zhang|Zicong Li|Huaqiang Yang|Dewu Liu|Gengyuan Cai|Guoling Li|Jianxin Mo|Dehua Wang|Cuili Zhong|Haoqiang Wang|Yue Sun|Junsong Shi|Enqin Zheng|Fanming Meng|Mao Zhang|Xiaoyan He|Rong Zhou|Jian Zhang|Miaorong Huang|Ran Zhang|Ning Li|Fanming Zhe|Jinzeng Yang|Zhenfang Wu South China Agricultural University;|Guangdong Wens Foodstuff Group Co., Ltd;|College of Animal Science;|China Agricultural University;|University of Guelph;|University of Hawaii at Manoa
http://dx.doi.org/10.1101/250563 2018-01-20 Cell Biology The Chlamydia type III effector TarP alters the dynamics and organization of host cell focal adhesions Antonio T. Pedrosa|Ana T. Nogueira|Tristan R. Thwaites|Jesse Aaron|Teng-Leong Chew|Rey A. Carabeo Washington State University;|University of Aberdeen;|Janelia Research Campus, Howard Hughes Medical Institute
http://dx.doi.org/10.1101/251132 2018-01-20 Developmental Biology Basal constriction during midbrain-hindbrain boundary morphogenesis is mediated by Wnt5b and Focal Adhesion Kinase. Jennifer H Gutzman|Ellie Graeden|Isabel Brachmann|Sayumi Yamazoe|James K Chen|Hazel Sive Whitehead Institute for Biomedical Research;|Whitehead Institute for Biomedical Research/MIT;|Stanford University School of Medicine;|Whitehead Institute/ MIT
http://dx.doi.org/10.1101/250795 2018-01-21 Parallel holographic illumination enables sub-millisecond two-photon optogenetic activation in mouse visual cortex in vivo I-Wen Chen|Emiliano Ronzitti|Brian R. Lee|Tanya L. Daigle|Hongkui Zeng|Eirini Papagiakoumou|Valentina Emiliani CNRS UMR8250, Paris Descartes University;|Allen Institute for Brain Science
http://dx.doi.org/10.1101/251207 2018-01-21 Topographer Reveals Stochastic Dynamics of Cell Fate Decisions from Single-Cell RNA-Seq Data Jiajun Zhang|Tianshou Zhou Sun Yat-Sen University
http://dx.doi.org/10.1101/251231 2018-01-21 Ecology CC BY-NC-ND Effects of shade-coffee certification programs on bird, trees and butterfly diversity in Colombia Juan Pablo Gomez|Elena Ortiz|Jorge Eduardo Botero University of Florida;|Florida Museum of Natural History;|CENICAFE
http://dx.doi.org/10.1101/251264 2018-01-21 Ecology CC BY-NC-ND Climatic effects on turnover of lowland forest bird communities across a precipitation gradient Juan Pablo Gomez|Jose Miguel Ponciano|Scott Robinson University of Florida;|Florida Museum of Natural History
http://dx.doi.org/10.1101/224204 2018-01-21 Microbiology CC BY-NC-ND E. coli translation strategies differ across nutrient conditions Sophia Hsin-Jung Li|Zhiyuan Li|Junyoung O Park|Christopher G King|Joshua D Rabinowitz|Ned S Wingreen|Zemer Gitai Princeton University;|Massachusetts Institute of Technology
http://dx.doi.org/10.1101/250621 2018-01-22 CC BY-NC-ND HOTAIR ancient sequence suggests regulatory roles both in cis and trans Chirag Nepal|Yavor Hadzheiv|Sachin Pundhir|Piotr Mydel|Boris Lenhard|Ferenc Mueller|Jesper B Andersen Biotech Research and Innovation Centre, Department of Health and Medical SciUniversity of Copenhagen;|Institute of Cancer and Genomics Sciences, University of Birmingham;|Biotech Research and Innovation Centre, Department of Health and Medical Sciences, University of;|Broegelmann Research Laboratory, Department of Clinical Science, University of Bergen;|Imperial College London
http://dx.doi.org/10.1101/251280 2018-01-22 Replication timing shapes the cancer epigenome and the nature of chromosomal rearrangements Qian Du|Saul A Bert|Nicola J Armstrong|C Elizabeth Caldon|Jenny Z Song|Shalima S Nair|Cathryn M Gould|Phuc Loi Luu|Amanda Khoury|Wenjia Qu|Elena Zotenko|Clare Stirzaker|Susan Clark Epigenetics Laboratory, Garvan Institute of Medical Research, Sydney 2010, Australia;|School of Engineering and Information Technology, Murdoch University, Murdoch, Western Australia;|Replication and Genome Stability, Garvan Institute of Medical Research, Sydney 2010, Australia;|The Garvan Inst. of Medical Research
http://dx.doi.org/10.1101/251629 2018-01-22 CC BY A label-free approach to detect ligand binding to cell surface proteins in real time Verena Burtscher|Matej Hotka|Yang Li|Michael Freissmuth|Walter Sandtner Medical University of Vienna, Austria
http://dx.doi.org/10.1101/251371 2018-01-22 Genomics Functional repurposing of regulatory element activity during mammalian evolution Francesco N Carelli|Angelica Liechti|Jean Halbert|Maria Warnefors|Henrik Kaessmann Gurdon Institute - University of Cambridge;|University of Lausanne;|University of Heidelberg
http://dx.doi.org/10.1101/251306 2018-01-22 Synthetic Biology CC BY-NC-ND Anomalous Scaling of Gene Expression in Confined Cell-Free Reactions Ryota Sakamoto|Vincent Noireaux|Yusuke T Maeda Kyushu University, Department of Physics;|Minnesota University, School of Physics and Astronomy
http://dx.doi.org/10.1101/251926 2018-01-22 CC BY-NC-ND A constraint-based model reveals hysteresis in island biogeography Joseph R Burger|Robert P. Anderson|Meghan A. Balk|Trevor S. Fristoe University of North Carolina at Chapel Hill;|City College of New York;|Smithsonian Institution;|Washington University in St. Louis
http://dx.doi.org/10.1101/251975 2018-01-22 Fine-tuning of ABA responses by the protein kinase WNK8 Rainer Waadt|Kenji Hashimoto|Esther Jawurek|Melanie Krebs|Martin Scholz|Anne Hong-Hermesdorf|Yan Li|Michael Hippler|Erwin Grill|Joerg Kudla|Karin Schumacher Heidelberg University;|Tokyo University of Science;|Westfaelische-Wilhelms-Universitaet Muenster;|University of California, Los Angeles;|Technische Universitaet Muenchen
http://dx.doi.org/10.1101/251835 2018-01-22 CC BY-NC From preliminary to definitive plans: two classes of neurons in frontal eye field Joshua I Glaser|Daniel K Wood|Patrick N Lawlor|Mark A Segraves|Konrad P Kording Northwestern University;|University of Pennsylvania
http://dx.doi.org/10.1101/251942 2018-01-22 CC BY-NC-ND Molecular control of gene expression by Brucella BaaR, an IclR-family repressor Julien Herrou|Daniel M Czyc|Aretha Fiebig|Jonathan W Willett|Youngchang Kim|Ruiying Wu|Gyorgy Babnigg|Sean Crosson University of Chicago;|Argonne National Laboratory
http://dx.doi.org/10.1101/251611 2018-01-22 The repressive and alleviating nature of FACT shapes the transcriptional landscape in ES cells Peter Tessarz|Constantine Mylonas Max Planck Institute for Biology of Ageing, Germany
http://dx.doi.org/10.1101/252072 2018-01-22 Quantitative Assessment of Protein Activity in Orphan Tissues and Single Cells Using the metaVIPER Algorithm Hongxu Ding|Eugene F Douglass|Adam M Sonabend|Angeliki Mela|Sayantan Bose|Christian Gonzalez|Peter D Canoll|Peter A Sims|Mariano J Alvarez|Andrea Califano Department of Systems Biology, Columbia University;|Department of Pathology and Cell Biology, Columbia University;|DarwinHealth Inc
http://dx.doi.org/10.1101/251884 2018-01-22 CC BY-NC-ND Is reading automatic? Are the ERP correlates of masked priming really lexical? Dennis Norris|Sachiko Kinoshita|Jane Hall|Richard Henson MRC Cognition and Brain Sciences Unit, University of Cambridge, Cambridge, UK;|ARC Ctr of Excellence in Cognition & its Disorders, Dept of Psychol, Macquarie Univ
http://dx.doi.org/10.1101/252056 2018-01-22 Loss of PRMT5 promotes PDGFRα degradation during oligodendrocyte differentiation and myelination Sara Calabretta|Gillian Vogel|Zhenbao Yu|Karine Choquet|Lama Darbelli|Thomas B. Nicholson|Claudia L. Kleinman|Stephane Richard Lady Davis Inst for Med Res; McGill Univ, Montréal, Québec, Canada;|Novartis Institute for Biomedical Research, Cambridge, Massachusetts, USA
http://dx.doi.org/10.1101/251223 2018-01-22 CC BY Effect of head volume conduction on directed connectivity estimated between reconstructed EEG sources Alessandra Anzolin|Paolo Presti|Frederik Van de Steen|Laura Astolfi|Stefan Haufe|Daniele Marinazzo Neuroelec Imaging & Brain-Computer Interface Lab, Fondazione Santa Lucia IRCCS;|Dept of Computer, Control & Management Engineering, Sapienza Univ of Rome;|Ghent University;|Technische Universitat Berlin
http://dx.doi.org/10.1101/252064 2018-01-22 The actin cytoskeleton of the mouse sperm flagellum is organized in a helical structure Maria Gracia Gervasi|Xinran Xu|Blanca Carbajal-Gonzalez|Mariano G Buffone|Pablo Visconti|Diego Krapf University of Massachusetts;|Colorado State University;|Mount Holyoke College;|Instituto de Biologia y Medicina Experimental;|University of Massachusettes
http://dx.doi.org/10.1101/251397 2018-01-22 Comparative analysis of molecular signatures suggests the use of gabapentin for the management of endometriosis-associated pain Brice Bellessort|Anne Bachelot|Virginie Grouthier|Camille De Lombares|Nicolas Narboux-Neme|Paolo Garagnani|Chiara Pirazzini|Simonetta Astigiano|Luca Mastracci|Anastasia Fontaine|Gladys Alfama|Evelyne Duvernois-Berthet|Giovanni Levi Evolution of Endocrine Regulations, CNRS/MNHN UMR 7221, Paris 75005 - France;|AP-HP, PITIE-SALPETRIERE Hospital and CNRS/MNHN UMR7221 - Paris - France;|AP-HP, Dept. of Endoc. and Reprod. Med., PITIE-SALPETRIERE Hospital. Paris;|Dept. of Exp., Diagnostic and Specialty Medicine; Center;|Dipart di Terapie Oncologiche Integrate, Ospedale Policlinico San Martino, Genova;|Division of Anatomic Pathology, Dept. DISC - University of Genoa - Genova, Italy
http://dx.doi.org/10.1101/251991 2018-01-22 CC BY-NC-ND BMP Signaling Downstream of the Highwire E3 Ligase Sensitizes Nociceptors. W. Daniel Tracey|Ken Honjo Indiana University;|University of Tsukuba
http://dx.doi.org/10.1101/251983 2018-01-22 CC BY-NC-ND A non-canonical role for dynamin-1 in regulating early stages of clathrin-mediated endocytosis in non-neuronal cells Saipraveen Srinivasan|Christoph J. Burckhardt|Madhura Bhave|Zhiming Chen|Ping-Hung Chen|Xinxin Wang|Gaudenz Danuser|Sandra L. Schmid UT Southwestern Medical Center
http://dx.doi.org/10.1101/251793 2018-01-22 CC BY The neural representation of missing speech and the influence of prior knowledge on cortical fidelity and latency Francisco Cervantes Constantino|Jonathan Z. Simon University of Maryland, College Park
http://dx.doi.org/10.1101/251496 2018-01-22 CC BY-NC-ND Large differences in small RNA composition between human biofluids Paula Maria Godoy|Nirav R Bhakta|Andrea J Barczak|Hakan Cakmak|Susan Fisher|Tippi C Mackenzie|Tushar Patel|Richard W Price|James F Smith|Prescott G Woodruff|David J Erle UC San Francisco;|Mayo Clinic
http://dx.doi.org/10.1101/251876 2018-01-22 Genomics CC BY-NC-ND Rapid and dynamic alternative splicing impacts the Arabidopsis cold response transcriptome Cristiane P G Calixto|Wenbin Guo|Allan B James|Nikoleta A Tzioutziou|Juan C Entizne|Paige E Panter|Heather Knight|Hugh G Nimmo|Runxuan Zhang|John Brown University of Dundee;|University of Glasgow;|Durham University;|James Hutton Institute
http://dx.doi.org/10.1101/251868 2018-01-22 Ecology CC BY-NC Modeling Avian Full Annual Cycle Distribution and Population Trends with Citizen Science Data Daniel Fink|Tom Auer|Viviana Ruiz-Gutierrez|Wesley M. Hochachka|Alison Johnston|Frank A. La Sorte|Steve Kelling Cornell Lab of Ornithology
http://dx.doi.org/10.1101/251843 2018-01-22 Neuroscience CC BY nNOS-expressing neurons in the ventral tegmental area and substantia nigra pars compacta Eleanor Paul|Eliza Kalk|Kyoko Tossell|Elaine Irvine|Dominic Withers|James Leiper|Mark A Ungless Imperial College London
http://dx.doi.org/10.1101/251827 2018-01-22 Neuroscience CC BY Network-based asymmetry of the human auditory system Bratislav Misic|Richard F. Betzel|Alessandra Griffa|Marcel A. de Reus|Ye He|Xi-Nian Zuo|Martijn P. van den Heuvel|Patric Hagmann|Olaf Sporns|Robert J. Zatorre Montreal Neurological Institute, McGill University;|Department of Bioengineering, University of Pennsylvania;|Brain Center Rudolf Magnus, UMC Utrecht;|CAS Key Laboratory of Behavioral Science, Institute of Psychology;|Ecole Polytechnique Federale de Lausanne;|Department of Psychological and Brain Sciences, Indiana University
http://dx.doi.org/10.1101/251801 2018-01-22 Neuroscience CC BY-NC-ND Neuromodulation Influences Synchronization and Intrinsic Read-out Gabriele Scheler Carl Correns Foundation for Mathematical Biology
http://dx.doi.org/10.1101/251819 2018-01-22 Immunology Interaction of septin 7 and DOCK8 in equine lymphocytes reveals novel insights into signaling pathways associated with autoimmunity Melanie Schauer|Kristina J.H. Kleinwort|Roxane L. Degroote|Carmen Wiedemann|Elisabeth Kremmer|Stefanie M. Hauck|Cornelia A. Deeg Chair for Animal Physiology, Department of Veterinary Sciences, LMU Munich;|Inst for Molec Immunol, Helmholtz Ctr Munich, German Res Ctr for Environ Health;|Res Unit Protein Science, Helmholtz Ctr Munich, German Res Ctr for Environ Heath
http://dx.doi.org/10.1101/252007 2018-01-22 Cell Biology A meta-analysis of Planarian: an animal model useful to understand the effect of magnetic field Liliana Gomez Luna|Vivian de la Puente Lopez CNEA
http://dx.doi.org/10.1101/251777 2018-01-22 Systems Biology CC BY-NC-ND Higher transcriptome stability during aging in long-lived giant mole-rats compared to short-lived rats Arne Sahm|Martin Bens|Yoshiyuki Henning|Christiane Vole|Marco Groth|Matthias Schwab|Matthias Platzer|Karol Szafranski|Philip Dammann Leibniz Institute on Aging - Fritz Lipmann Institute (FLI);|Dept of General Zoology, Faculty of Biology, University of Duisburg-Essen, Germany;|Leibniz Institute on Aging, Fritz Lipmann Institute (FLI);|Dept of Neurology; Jena University Hospital-Friedrich Schiller University, Germany;|University Hospital, Central Animal Laboratory, Univ of Duisburg-Essen, Germany
http://dx.doi.org/10.1101/251694 2018-01-22 Cell Biology CC BY-NC-ND Dynein-2 is required for a functional transition zone and bidirectional ciliary trafficking Laura Vuolo|Nicola L Stevenson|Kate Heesom|David J Stephens University of Bristol
http://dx.doi.org/10.1101/251561 2018-01-22 Physiology CC BY-NC-ND In vivo multiphoton microscopy of cardiomyocyte calcium dynamics in the beating mouse heart David M Small|Jason S Jones|Nozomi Nishimura Cornell University
http://dx.doi.org/10.1101/251892 2018-01-22 Genomics CC BY-NC-ND Elimination of PCR duplicates in RNA-seq and small RNA-seq using unique molecular identifiers Yu Fu|Pei-Hsuan Wu|Timothy Beane|Phillip D. Zamore|Zhiping Weng Boston University;|UMMS;|University of Massachusetts Medical School
http://dx.doi.org/10.1101/251272 2018-01-22 Epidemiology CC BY Key components of the delirium syndrome and mortality: greater impact of acute change and disorganised thinking in a prospective cohort study Rachel Diwell|Daniel Davis|Victoria Vickerstaff|Elizabeth Sampson UCL;|MRC Unit for Lifelong Health and Ageing at UCL
http://dx.doi.org/10.1101/251769 2018-01-22 Synthetic Biology CC BY-ND A Chemogenetic Platform for Spatio-temporal Control of β-arrestin Translocation and Signaling at G protein-Coupled Receptors Bryan L Roth|Yusuke Gotoh|Patrick Giguere|David Nichols UNC Chapel Hill Medical School;|Platform Technology Research Unit, Sumitomo Dainippon Pharma, Osaka, Japan;|University of North Carolina Chapel Hill School of Medicine
http://dx.doi.org/10.1101/250670 2018-01-22 Systems Biology CC BY-NC-ND A framework for large-scale dynamic metabolome drug profiling in mammalian cells: a case study analysis of the anti-cancer drug dichloroacetate Sebastien Dubuis|Karin Ortmayr|Mattia Zampieri ETH Zurich
http://dx.doi.org/10.1101/225474 2018-01-22 Neuroscience CC BY-NC-ND Selective Reporting, Analytical Flexibility and Multiple Comparisons in ERP Research: The case of Pain Empathy Michel-Pierre Coll University of Oxford
http://dx.doi.org/10.1101/251256 2018-01-22 Neuroscience Synthetic stimuli reveal a predictive and switch-like activation of the songbird's vocal motor program Alan Bush|Juan F Doppler|Franz Goller|Gabriel B Mindlin Physics Dept, FCEyN, Univ of Buenos Aires; IFIBA, CONICET, Buenos Aires;|Department of Biology, University of Utah, Salt Lake City, UT
http://dx.doi.org/10.1101/251488 2018-01-22 Synthetic Biology Feasibility of clinician-facilitated 3D printing of synthetic cranioplasty flaps Sandip S Panesar|Joao Tiago A Belo|Rhett N D'Souza University of Pittsburgh Department of Neurological Surgery
http://dx.doi.org/10.1101/251447 2018-01-22 Neuroscience CC BY-NC-ND The Neural Architecture of Executive Functions Is Established by Middle Childhood Laura E Engelhardt|Kathryn P Harden|Elliot M Tucker-Drob|Jessica A Church The University of Texas at Austin
http://dx.doi.org/10.1101/251710 2018-01-22 Evolutionary Biology CC BY Comparing phylogenetic trees according to tip label categories Michelle Kendall|Vegard Eldholm|Caroline Colijn Imperial College London;|Norwegian Institute of Public Health
http://dx.doi.org/10.1101/251462 2018-01-22 Bioinformatics CC BY-NC-ND Autometa: Automated extraction of microbial genomes from individual shotgun metagenomes Ian J. Miller|Evan R Rees|Jennifer Ross|Izaak Miller|Jared Baxa|Juan Lopera|Robert L. Kerby|Federico E. Rey|Jason C. Kwan University of Wisconsin-Madison
http://dx.doi.org/10.1101/251140 2018-01-22 Bioinformatics CC BY NormExpression: an R package to normalize gene expression data using evaluated methods Zhenfeng Wu|Weixiang Liu|Haishuo Ji|Deshui Yu|Hua Wang|Lin Liu|Shouruan Ji|Gao Shan Nankai University;|Shenzhen University
http://dx.doi.org/10.1101/249912 2018-01-22 Neuroscience CC BY-NC-ND The frontal aslant tract (FAT) and its role in speech, language and executive function Anthony Steven Dick|Dea Garic|Paulo Graziano|Pascale Tremblay Florida International University;|Universite Laval
http://dx.doi.org/10.1101/194498 2018-01-22 Neuroscience CC BY-NC-ND Linear-Nonlinear-Time-Warp-Poisson models of neural activity Patrick N Lawlor|Matthew G Perich|Lee E Miller|Konrad P Kording Northwestern University;|University of Geneva;|University of Pennsylvania
http://dx.doi.org/10.1101/242107 2018-01-22 Physiology First evidence that intrinsic fetal heart rate variability exists and is affected by chronic hypoxia Martin G Frasch|Christophe Herry|Yui Niu|Dino A. Giussani University of Washington;|Ottawa Hospital Research Institute, Ottawa, ON, Canada;|Department of Physiology and Developmental Neuroscience, Cambridge University, Cambridge, UK
http://dx.doi.org/10.1101/251603 2018-01-22 Plant Biology Elongator is required for root stem cell maintenance by regulating SHORT ROOT transcription Qian Chen|Chuanyou Li|Linlin Qi|Xiaoyue Zhang|Huawei Zhai|Jian Liu|Fangming Wu Shandong Agricultural University;|State Key Laboratory of Plant Genomics;|Institute of Genetics and Developmental Biology, Chinese Academy of Sciences;|State Key Lab of Crop Biology, College of Agronomy, Shandong Agricultural Univ
http://dx.doi.org/10.1101/249409 2018-01-22 Neuroscience Facilitated event-related power-modulations during transcranial alternating current stimulation (tACS) revealed by concurrent tACS-MEG Florian H. Kasten|Burkhard Maess|Christoph S. Herrmann Department of Psychology, Carl von Ossietzky University, Oldenburg, Germany;|Max Planck Institute for Human Cognitive and Brain Sciences, Leipzig, Germany
http://dx.doi.org/10.1101/251520 2018-01-22 Evolutionary Biology CC BY-NC-ND The soft explosive model of placental mammal evolution Matthew J Phillips|Carmelo Fruciano Queensland University of Technology
http://dx.doi.org/10.1101/251405 2018-01-22 Cell Biology CC BY The universal mechanism of intermediate filament transport Amelie Robert|Peirun Tian|Stephen A. Adam|Robert D Goldman|Vladimir I Gelfand Northwestern University;|Northwestern University Feinberg School of Medicine
http://dx.doi.org/10.1101/251512 2018-01-22 Neuroscience Unbiased construction of a temporally consistent morphological atlas of neonatal brain development Andreas Schuh|Antonios Makropoulos|Emma C. Robinson|Lucilio Cordero-Grande|Emer Hughes|Jana Hutter|Anthony Price|Maria Murgasova|Rui Pedro A. G. Teixeira|Nora Tusa|Johannes Steinweg|Suresh Victor|Mary A. Rutherford|Joseph V. Hajnal|David A. Edwards|Daniel Rueckert Imperial College London;|King's College London
http://dx.doi.org/10.1101/251652 2018-01-22 Pathology Severely impaired bone material quality in Chihuahua zebrafish resembles classical dominant human osteogenesis imperfecta Imke Astrid Kristina Fiedler|Felix Nikolai Schmidt|Christine Plumeyer|Petar Milovanovic|Roberta Gioia|Francesca Tonelli|Antonella Forlino|Bjoern Busse University Medical Center Hamburg-Eppendorf;|University of Pavia
http://dx.doi.org/10.1101/251249 2018-01-22 Ecology CC BY-NC-ND Asymmetric effects of environmental filtering on the assembly of tropical bird communities along a moisture gradient Juan Pablo Gomez|Scott Robinson|Jose Miguel Ponciano University of Florida;|Florida Museum of Natural History
http://dx.doi.org/10.1101/251363 2018-01-22 Neuroscience CC BY-NC-ND EEG-triggered TMS reveals stronger brain state-dependent modulation of motor evoked potentials at weaker stimulation intensities Natalie Schaworonkow|Jochen Triesch|Ulf Ziemann|Christoph Zrenner Frankfurt Institute for Advanced Studies;|Hertie Institute for Clinical Brain Research & University of Tuebingen
http://dx.doi.org/10.1101/251108 2018-01-22 Neuroscience A probabilistic atlas of the human pyramidal tract in 410 healthy participants Quentin Chenot|Nathalie Tzourio-Mazoyer|Francois Rheault|Maxime Descoteaux|Fabrice Crivello|Laure Zago|Emmanuel Mellet|Gael Jobard|Marc Joliot|Bernard Mazoyer|Laurent Petit GIN-IMN, UMR 5293, CNRS, CEA, University of Bordeaux, France;|Sherbrooke Connectivity Imaging Lab, University of Sherbrooke, Canada
http://dx.doi.org/10.1101/251322 2018-01-22 Evolutionary Biology CC BY-NC-ND The Evolutionary History and Impact of Bacterial tRNA Modifications Gaurav D Diwan|Deepa Agashe National Centre for Biological Sciences, Tata Institute of Fundamental Research, Bengaluru, India
http://dx.doi.org/10.1101/249094 2018-01-22 Immunology A hypermorphic Nfkbid allele represents an Idd7 locus gene contributing to impaired thymic deletion of autoreactive diabetogenic CD8+ T-cells in NOD mice. Maximiliano Presa|Jeremy J Racine|Deanna Lamont|Jennifer Dwyer|Jeremy Ratiu|Vishal Kumar Sarsani|Yi-Guang Chen|Aron Geurts|Ingo Schmitz|Timothy Stearns|Jennifer Allocco|Harold D Chapman|David V Serreze The Jackson Laboratory;|Medical College of Wisconsin;|Helmholtz Centre for Infection Research
http://dx.doi.org/10.1101/251314 2018-01-22 Neuroscience CC BY-NC-ND Challenging the point neuron dogma: FS basket cells as 2-stage nonlinear integrators Alexandra Tzilivaki|Panayiota Poirazi Foundation for Research and Technology-Hellas (FORTH)
http://dx.doi.org/10.1101/251595 2018-01-22 Neuroscience CC BY Choice history biases subsequent evidence accumulation Anne E. Urai|Jan Willem de Gee|Tobias H. Donner University Medical Center Hamburg-Eppendorf, Germany
http://dx.doi.org/10.1101/251579 2018-01-22 Bioengineering Local Delivery of Stromal Cell-Derived Factor-1α Improves the Pregnancy Rate of Injured Uterus through the Promotion of Endometrial and Vascular Regeneration Hongxai Cai|Bingbing Wu|Yixiao Liu|Yu Li|Libing Shi|Lin Gong|Yaxian Xia|BoonChin Heng|Huiling Wu|Hongwei Ouyang|Zhenghua Zhu|Xiaohui Zou Dept of Gynecology, First Affiliated Hospital, School of Medicine, Zhejiang Univ, PRC;|Zhejiang Provincial Key Lab of Tissue Engineering & Regen Med, Hangzhou, PRC;|Dr. Li Dak Sum & Yip Yio Chin Ctr for Stem Cell & Regeneration Med, Zhejiang Univ;|The First Affiliated Hospital, School of Medicine, Zhejiang University, PRC;|Dept of Endodontology, Faculty of Dentistry, Univ of Hong Kong, Pokfulam;|Collaborative Innovation Ctr for Diagn & Treatment of Infectious Diseases, Hangzhou;|Dept of Applied Engineering, Zhejiang Economics & Trade Polytechnic, Hangzhou
http://dx.doi.org/10.1101/251421 2018-01-22 Genetics CC BY-ND Including phenotypic causal networks in genome-wide association studies using mixed effects structural equation models Mehdi Momen|Ahmad A Mehrgardi|Mahmoud A Roudbar|Andreas Kranis|Renan M Pinto|Bruno D Valente|Gota Morota|Guilherme JM Rosa|Daniel Gianola Dept of Animal Science, Faculty of Agriculture, Shahid Bahonar Univ of Kerman, Iran;|Roslin Institute, University of Edinburgh, Midlothian, UK, EH25 9PS;|Dept of Exact Sciences, Univ of São Paulo - ESALQ, Piracicaba-SP, Brazil;|Department of Animal Sciences, University of Wisconsin, Madison, WI, USA;|Dept of Animal Science, University of Nebraska-Lincoln, Lincoln, Nebraska, USA
http://dx.doi.org/10.1101/251538 2018-01-22 Ecology CC BY-NC-ND New mining concessions will severely decrease biodiversity and ecosystem services in Ecuador Bitty A. Roy|Martin Zorrilla|Lorena Endara|Daniel C. Thomas|Roo Vandegrift|Jesse M. Rubenstein|Tobias Policha|Blanca Rios-Touma Institute of Ecology and Evolution, University of Oregon, Eugene, OR 97403;|Nutrition Technol Ltd.; Research Inst of Biotech. & Env., Ho Chi Minh City, Vietnam;|Department of Biology, University of Florida, Gainesville, FL 32611;|Department of Geography, University at Buffalo, Buffalo, NY 14261;|Grupo de Investigación en BIOMAS, Univ de Las Américas, Quito
http://dx.doi.org/10.1101/251728 2018-01-22 Evolutionary Biology CC BY-NC Timing malaria transmission with mosquito fluctuations Romain Pigeault|Quentin Caudron|Antoine Nicot|Ana Rivero|Sylvain Gandon University of Lausanne, Department of Ecology and Evolution;|Princeton University;|CEFE, Montpellier;|MIVEGEC, Montpellier
http://dx.doi.org/10.1101/251645 2018-01-22 Microbiology Staphylococcus aureus toxin LukSF dissociates from its membrane receptor target to enable renewed ligand sequestration Karita Haapasalo|Adam Wollman|Carla de Haas|Kok van Kessel|Jos van Strijp|Mark C Leake Dept of Medical Microbiology, University Medical Center Utrecht, Utrecht University;|Biological Physical Sciences Inst, Depts of Physics and Biology, University of York
http://dx.doi.org/10.1101/251389 2018-01-22 Molecular Biology CC BY-NC-ND How Do Telomeres Block Checkpoint Activation? Kurt Runge|Julien Audry|Jinyu Wang|Jessica Eisenstatt|Steven L. Sanders|Kathleen L. Berkner Cleveland Clinic Lerner Research Institute
http://dx.doi.org/10.1101/251686 2018-01-22 Neuroscience CC BY-NC-ND Ciliary and rhabdomeric photoreceptor-cell circuits form a spectral depth gauge in marine zooplankton Csaba Veraszto|Martin Guhmann|Huiyong Jia|Vinoth Babu Veedin Rajan|Luis A Bezares-Calderon|Cristina Pineiro Lopez|Nadine Randel|Reza Shahidi|Nico K Michiels|Shozo Yokoyama|Kristin Tessmar-Raible|Gaspar Jekely Living Systems Institute, University of Exeter, Exeter, UK;|Max Planck Institute for Developmental Biology, Tubingen, Germany;|Department of Biology, Emory University, Atlanta, GA, USA;|Max F. Perutz Laboratories, University of Vienna, Austria;|EMBL Heidelberg Meyerhofstrasse 1, Germany;|Janelia Research Campus, USA;|Department of Biology, University of Tubingen, Germany
http://dx.doi.org/10.1101/250118 2018-01-22 Neuroscience CC BY-NC-ND Imaging neural activity in the ventral nerve cord of behaving adult Drosophila Chin-Lin Chen|Laura Hermans|Meera C Viswanathan|Denis Fortun|Michael Unser|Anthony Cammarato|Michael H Dickinson|Pavan Ramdya EPFL;|Johns Hopkins University;|California Institute of Technology
http://dx.doi.org/10.1101/250829 2018-01-22 Neuroscience CC BY-NC-ND A sleep-regulatory circuit integrating circadian, homeostatic and environmental information in Drosophila Angelique Lamaze|Patrick Kratschmer|James E.C Jepson UCL Institute of Neurology
http://dx.doi.org/10.1101/250613 2018-01-22 Scientific Communication and Education CC BY Open access policies of high impact medical journals: a cross-sectional study Tim Ellison|Tim Koder|Laura Schmidt|Amy Williams|Christopher Winchester Oxford PharmaGenesis
http://dx.doi.org/10.1101/251637 2018-01-22 Developmental Biology Bovine mammary gland development: new insights into the epithelial hierarchy Laurence Finot|Eric Chanat|Frederic Dessauge INRA UMR PEGASE
http://dx.doi.org/10.1101/252353 2018-01-23 CC BY EssC is a specificity determinant for Staphylococcus aureus type VII secretion Franziska Jager|Holger Kneuper|Tracy Palmer University of Dundee
http://dx.doi.org/10.1101/252312 2018-01-23 CC BY-NC-ND Ethylene mitigates waterlogging stress by regulating glutathione biosynthesis-related transcripts in soybeans Yoonha Kim|Chang-Woo Seo|Abdul Latif Khan|Bong-Gyu Mun|Raheem Shahzad|Jung-Woo Ko|Byung-Wook Yun|In-Jung Lee Kyungpook National University;|University of Nizwa
http://dx.doi.org/10.1101/245860 2018-01-23 CC BY Male mice with large inversions or deletions of X-palindrome arms are fertile and express their associated genes post-meiosis. Alyssa N Kruger|Quinn Ellison|Michele A Brogley|Emma R Gerlinger|Jacob L Mueller University of Michigan Medical School, Dept. of Human Genetics
http://dx.doi.org/10.1101/252379 2018-01-23 An NAD+-dependent sirtuin depropionylase and deacetylase (Sir2La) from the probiotic bacterium Lactobacillus acidophilus NCFM Sita V Olesen|Nima Rajabi|Birte Svensson|Christian Adam Olsen|Andreas Stahl Madsen Technical University of Denmark;|University of Copenhagen
http://dx.doi.org/10.1101/252387 2018-01-23 CC BY Cellular tolerance at the μ-opioid receptor is phosphorylation dependent John T Williams|Seksiri Arttamangkul|Daniel A Heinze|James R Bunzow|Xianqiang Song Oregon Health & Science University, United States;|OHSU, United States;|UCSD, United States
http://dx.doi.org/10.1101/252320 2018-01-23 CC BY-NC-ND Altered Developmental Trajectories in Intrinsic Function between Default, Salience, and Executive Networks in High-Functioning Autism Liu Yang|Xiao Chen|Xue Li|Yang-Qian Shen|Hui Wang|Jing-Ran Liu|Ting Mei|Zhao-Zheng Ji|Yan-Qing Guo|Fei-Fei Wang|Ling-Zi Xu|Xin-Zhou Tang|Zeng-Hui Ma|Li-Qi Wang|Jing Liu|Qing-Jiu Cao|Chao-Gan Yan Peking Univ Sixth Hosp, Inst of Mental Health, Natl Clin Res Ctr for Mental Disorders;|CAS Key Laboratory of Behavioral Science, Institute of Psychology, Beijing, China
http://dx.doi.org/10.1101/252155 2018-01-23 Latin Americans show wide-spread Converso ancestry and the imprint of local Native ancestry on physical appearance Juan C. Chacon-Duque|Kaustubh Adhikari|Macarena Fuentes-Guajardo|Javier Mendoza-Revilla|Victor Acuna-Alonzo|Rodrigo Barquera Lozano|Mirsha Quinto-Sanchez|Jorge Gomez-Valdes|Paola Everardo Martinez|Hugo Villamil-Ramirez|Tabita Hunemeier|Virginia Ramallo|Caio C. Silva de Cerqueira|Malena Hurtado|Valeria Villegas|Vanessa Granja|Mercedes Villena|Rene Vasquez|Elena Llop|Jose R. Sandoval|Alberto A. Salazar-Granara|Maria-Laura Parolin|Karla Sandoval|Rosenda I. Penaloza-Espinosa|Hector Rangel-Villalobos|Cheryl Winkler|William Klitz|Claudio Bravi|Julio Molina|Daniel Corach|Ramiro Barrantes|Veronica Gomes|Carlos Resende|Leonor Gusmao|Antonio Amorim|Yali Xue|Jean-Michel Dugoujon|Pedro Moral|Rolando Gonzalez-Jose|Lavinia Schuler-Faccini|Francisco M. Salzano|Maria-Catira Bortolini|Samuel Canizales-Quinteros|Giovanni Poletti|Carla Gallo|Gabriel Bedoya|Francisco Rothhammer|David Balding|Garrett Hellenthal|Andres Ruiz-Linares University College London;|Escuela Nacional de Antropologia e Historia;|Universidad Nacional Autonoma de Mexico;|Universidade de Sao Paulo;|Inst Patagonico de Ciencias Sociales y Humanas-Centro Nacl Patagonico, CONICET;|Universidade Federal do Rio Grande do Sul;|Universidad Peruana Cayetano Heredia;|Universidad Mayor de San Andres;|Thorek Hospital and Medical Center;|Universidad de Chile;|Universidad de San Martin de Porres;|CINVESTAV;|Universidad Autonoma Metropolitana-Xochimilco;|Universidad de Guadalajara;|National Cancer Institute;|University of California;|CONICET;|Centro de Investigaciones Biomedicas de Guatemala;|Universidad de Buenos Aires;|Universidad de Costa Rica;|Instituto de Patologia e Inmunologia Molecular da Universidade do Porto;|Sanger Institute;|Universite Toulouse 3 Paul Sabatier;|Universitat de Barcelona;|University of Melbourne;|Fudan University
http://dx.doi.org/10.1101/251967 2018-01-23 A multi-omic atlas of the human frontal cortex for aging and Alzheimer's disease research Phillip De Jager|Yiyi Ma|Cristin McCabe|Jishu Xu|Badri N. Vardarajan|Daniel Felsky|Hans-Ulrich Klein|Charles C. White|Mette A. Peters|Ben Lodgson|Parham Nejad|Anna Tang|Lara M. Mangravite|Lei Yu|Chris Gaiteri|Sara Mostafavi|Julie A. Schneider|David A. Bennett Ctr for Translational & Computational Neuroimmunol, Dept. of Neurol, Columbia Univ;|Cell Circuits Program, Broad Institute;|Sage Bionetworks;|Rush Alzehimer Disease Center, RUSH University;|University of British Columbia
http://dx.doi.org/10.1101/252460 2018-01-23 CC BY Control of artefactual variation in reported inter-sample relatedness during clinical use of a Mycobacterium tuberculosis sequencing pipeline David Wyllie|Nicholas D Sanderson|Richard Myers|Tim EA Peto|Esther Robinson|Derrick W Crook|Grace Smith|A Sarah Walker University of Oxford;|Public Health England
http://dx.doi.org/10.1101/252338 2018-01-23 CC BY-NC-ND Brain network segregation and integration during an epoch-related working memory fMRI experiment Peter Fransson|Bjoern C Schiffler|William H Thompson Karolinska Institutet
http://dx.doi.org/10.1101/252429 2018-01-23 Neuroscience CC BY-NC Lrfn2-mutant mice display suppressed synaptic plasticity and inhibitory synapse development and abnormal social communication and startle response Yan Li|Ryunhee Kim|Yi Sul Cho|Doyoun Kim|Kyungdeok Kim|Junyeop Daniel Roh|Hanwool Park|Esther Yang|Soo-Jeong Kim|Jaewon Ko|Hyun Kim|Yong-Chul Bae|Eunjoon Kim Institute for Basic Science (IBS);|Department of Biological Sciences, KAIST;|Dept of Anatomy & Neurobiology, School of Dentistry, Kyungpook National Univ;|Graduate School of Medical Science & Engineering, KAIST;|Department of Anatomy, Biomedical Science, College of Medicine, Korea University;|Dept of Brain & Cognitive Sciences, Daegu Gyeongbuk Inst of Science and Technol
http://dx.doi.org/10.1101/251900 2018-01-23 Biochemistry CC BY-NC-ND Insights into the effect of the J-domain on the substrate binding domain (SBD) of the 70 kDa heat shock protein, Hsp70, from a chimeric human J-SBD polypeptide Ana O. Tiroli-Cepeda|Thiago V Seraphim|Julio C Borges|Carlos H.I. Ramos University of Campinas UNICAMP;|Sao Carlos Institute of Chemistry, University of Sao Paulo
http://dx.doi.org/10.1101/252445 2018-01-23 CC BY-NC-ND Feedback control of neurogenesis by tissue packing Tom W. Hiscock|Joel B. Miesfeld|Kishore R. Mosaliganti|Brian A. Link|Sean G. Megason Department of Systems Biology, Harvard Medical School, Boston, MA, 02115;|Dept of Cell Biology, Neurobiology & Anatomy, Med Coll of Wisconsin, Milwaukee
http://dx.doi.org/10.1101/248021 2018-01-23 CC BY-NC-ND Analysis of human immunoglobulin VDJ and DJ rearrangements shows N region synthesis by concatenation of cytosine-rich strands preferentially originating from trimmed germline gene segments Tina Funck|Mike Bogetofte Barnkob|Nanna Holm|Line Ohm-Laursen|Camilla Slot Mehlum|Soren Moller|Torben Barington Odense University Hospital;|King's College London
http://dx.doi.org/10.1101/246470 2018-01-23 Harmonizing semantic annotations for computational models in biology Maxwell L Neal|Matthias Konig|David Nickerson|Goksel Msrl|Reza Kalbasi|Andreas Drager|Koray Atalag|Vijayalakshmi Chelliah|Michael Cooling|Daniel L Cook|Sharon Crook|Miguel de Alba|Samuel H Friedman|Alan Garny|John H Gennari|Padraig Gleeson|Martin Golebiewski|Michael Hucka|Nick Juty|Nicolas Le Novere|Chris Myers|Brett G Olivier|Herbert M Sauro|Martin Scharm|Jacky L Snoep|Vasundra Toure|Anil Wipat|Olaf Wolkenhauer|Dagmar Waltemath Center for Infectious Disease Research;|Deptartment of Biology, Humboldt-University Berlin, Institute for Theoretical Biology;|Auckland Bioengineering Institute, University of Auckland;|School of Computing and Mathematics, Keele University;|Appl Bioinform Grp, Ctr for Bioinformatics Tübingen, Univ of Tübingen;|European Molecular Biology Laboratory, European Bioinformatics Institute;|Department of Physiology and Biophysics, University of Washington;|School of Mathematical and Statistical Sciences, Arizona State University;|German Federal Institute for Risk Assessment;|Opto-Knowledge Systems, Inc.;|Dept of Biomedical Informatics and Medical Education, University of Washington;|Dept of Neuroscience, Physiology and Pharmacology, University College London;|Heidelberg Institute for Theoretical Studies (HITS gGmbH);|Dept of Computing and Mathematical Sciences, California Institute of Technology;|Babraham Institute;|Department of Electrical and Computer Engineering, University of Utah;|Systems Bioinformatics, Vrije Universiteit Amsterdam;|Department of Bioengineering, University of Washington;|Department of Systems Biology and Bioinformatics, University of Rostock;|Department of Biochemistry, Stellenbosch University;|Department of Biology, Norwegian University of Science and Technology;|School of Computing Science, Newcastle University
http://dx.doi.org/10.1101/252130 2018-01-23 CC BY-NC Rhythmic neural spiking and attentional sampling arising from cortical receptive field interactions Ricardo Kienitz|Joscha T Schmiedt|Katharine A Shapcott|Kleopatra Kouroupaki|Richard Saunders|Michael C Schmid Ernst Strungmann Institute for Neuroscience;|NIMH;|Newcastle University
http://dx.doi.org/10.1101/252304 2018-01-23 CC BY An atlas of silencer elements for the human and mouse genomes Naresh Doni Jayavelu|Ajay Jajodia|Arpit Mishra|R. David Hawkins University of Washington
http://dx.doi.org/10.1101/251298 2018-01-23 CC BY-NC-ND Dynamic compensation and homeostasis: a feedback control perspective Michel Fliess|Cedric Join Ecole Polytechnique;|Universite de Lorraine
http://dx.doi.org/10.1101/251181 2018-01-23 CC BY-NC-ND Transcriptomic analyses with the progress of symbiosis in 'crack-entry' legume Arachis hypogaea highlight its contrast with 'Infection thread' adapted legumes Kanchan Karmakar|Anindya Kundu|Ahsan Z Rizvi|Emeric Dubois|Dany Severac|Pierre Czernic|Fabienne Cartieaux|Maitrayee DasGupta Department of Biochemistry, University of Calcutta;|INSERM U981, Batiment Medecine Moleculaire (B2M), Villejuif Cedex-France;|Montpellier GenomiX (MGX), Montpellier Cedex 05, France;|LSTM, Univ. Montpellier, CIRAD, INRA, IRD, SupAgro, Montpellier, France
http://dx.doi.org/10.1101/252270 2018-01-23 CC BY-NC-ND Polygenic scores without external summary statistics Timothy Mak|Robert Milan Porsch|Shing Wan Choi|Pak Chung Sham University of Hong Kong;|King's College London
http://dx.doi.org/10.1101/249342 2018-01-23 Decoding digits and dice with Magnetoencephalography: Evidence for a shared representation of magnitude Lina Teichmann|Tijl Grootswagers|Thomas Carlson|Anina Rich Macquarie University;|University of Sydney
http://dx.doi.org/10.1101/252213 2018-01-23 Water stress and CO2 concentration interactions affect carbon isotope signatures of leaf and phloem organic matter Yonge Zhang|Xinxiao Yu|Lihua Chen|Guodong Jia|Hanzhi Li Beijing Forestry University
http://dx.doi.org/10.1101/251959 2018-01-23 CC BY-NC-ND Crystal structures of two tandem malectin-like receptor kinases involved in plant reproduction Julia Santiago|Steven Moussu|Sebastian Augustin|Andra Octavia Roman|Caroline Broyart University of Lausanne
http://dx.doi.org/10.1101/252163 2018-01-23 Selection-free, high frequency genome editing by homologous recombination of human pluripotent stem cells using Cas9 RNP and AAV6 Renata Martin|Kazuya Ikeda|Nobuko Uchida|M. Kyle Cromer|Toshinobu Nishimura|Daniel P Dever|Joab Camarena|Rasmus Bak|Anders Lausten|Martin R Jakobsen|Volker Wiebking|Vittorio Sebastiano|Hiromitsu Nakauchi|Matthew H Porteus Stanford University;|BOCO Silicon Valley;|Aarhus University
http://dx.doi.org/10.1101/252452 2018-01-23 phospho-ERK is a response biomarker to a combination of sorafenib and MEK inhibition in liver cancer Rene R Bernards|Cun Wang|Haojie Jin|Dongmei Gao|Bastiaan Evers|Guangzhi Jin|Zheng Xue|Liqin Wang|Roderick Beijersbergen|Wen-Xin Qin The Netherlands Cancer Institute;|Netherlands Cancer Institute;|Zhongshan Hospital;|Eastern Hepatobiliary Surgery Hospital, Second Military Medical University;|Shanghai Cancer Inst, Renji Hospital, Shanghai Jiao Tong Univ School of Medicine
http://dx.doi.org/10.1101/248245 2018-01-23 CC BY-NC Enzyme-based synthesis of single molecule RNA FISH probes Christian Lanctot Charles University
http://dx.doi.org/10.1101/252288 2018-01-23 CC BY-NC-ND Human hippocampal high-gamma activity during rest periods in a virtual navigation task Yi Pu|Brian Cornwell|Douglas Cheyne|Blake Johnson Department of Cognitive Science, Macquarie University;|Brain and Psychological Sciences Research Centre, Swinburne University of Technology;|Program in Neurosciences and Mental Health, Hospital for Sick Children
http://dx.doi.org/10.1101/249821 2018-01-23 2-APB arrests human keratinocyte proliferation and inhibits cutaneous squamous cell carcinoma in vitro Aislyn M Nelson|Yalda Moayedi|Sophie A Greenberg|Marlon E Ruiz|Uffe B Jensen|David M Owens|Ellen A Lumpkin Department of Dermatology, Columbia University;|Department of Physiology and Cellular Biophysics, Columbia University;|Institute of Clinical Medicine, Aarhus University and Department of Clinical Genetics
http://dx.doi.org/10.1101/252247 2018-01-23 High precision automated detection of labeled nuclei in terabyte-scale whole-brain volumetric image data of mouse Girraj Pahariya|Sukhendu Das|Jaikishan Jayakumar|Samik Bannerjee|Venu Vangala|Keerthi Ram|Partha P Mitra Indian Institute of Technology- Madras;|Cold Spring Harbor Laboratory
http://dx.doi.org/10.1101/252189 2018-01-23 CC BY-NC-ND Spatiotemporal mosaic patterning of pluripotent stem cells using CRISPR interference Ashley R.G. Libby|David A. Joy|Po-Lin Po|Mohammad A. Mandegar|Jonathon M. Muncie|Valerie M. Weaver|Bruce R. Conklin|Todd C. McDevitt UC San Francisco Developmental and Stem Cell Biology Graduate Program, San Francisco;|UC Berkeley-UC San Francisco Graduate Program in Bioengineering, San Francisco;|Gladstone Institute of Cardiovascular Disease, San Francisco;|Department of Surgery, Center for Bioengineering and Tissue Regeneration, University of California,;|University of California, San Francisco ; Gladstone Institute of Cardiovascular Disease
http://dx.doi.org/10.1101/252080 2018-01-22 High-resolution wide-field human brain tumor margin detection and in vivo murine neuroimaging Derek Yecies|Orly Liba|Elliott SoRelle|Rebecca Dutta|Edwin Yuan|Hannes Vogel|Gerald Grant|Adam de la Zerda Stanford University Departments of Neurosurgery and Structural Biology;|Stanford University Deparments of Structural Biology and Electrical Engineering;|Stanford University Department of Structural Biology;|Stanford University Department of Pathology;|Stanford University Department of Neurosurgery;|Stanford University Department of Structural Biology, Chan Zuckerberg Biohub
http://dx.doi.org/10.1101/252122 2018-01-22 CC BY-NC-ND A conserved mechanism for regulation of endo-lysosomal pH by histone deacetylases Rajini Rao|Hari Prasad Johns Hopkins University
http://dx.doi.org/10.1101/251553 2018-01-22 CC BY-NC-ND Cyclic dominance emerges from the evolution of two cooperative behaviors in the social amoeba Shota Shibasaki|Masakazu Shimada Department of General System studies, Graduate School of Arts and Sciences, the University of Tokyo
http://dx.doi.org/10.1101/252148 2018-01-22 CC BY-NC-ND Receptive field center-surround interactions mediate context-dependent spatial contrast encoding in the retina Maxwell H Turner|Gregory W Schwartz|Fred Rieke University of Washington;|Northwestern University
http://dx.doi.org/10.1101/252593 2018-01-23 CC BY-NC-ND Using normative age modelling to isolate subsets of individuals with autism expressing highly age-atypical cortical thickness features Richard A.I. Bethlehem|Jakob Seidlitz|Rafael Romero-Garcia|Michael V. Lombardo University of Cambridge;|National Institute of Mental Health;|University of Cyprus
http://dx.doi.org/10.1101/252601 2018-01-23 Microtubule acetylation is required for mechanosensation in Drosophila Connie Yan|Fei Wang|Yun Peng|Claire R Williams|Brian Jenkins|Jill Willdonger|John C Tuthill|Yang Xiang|Stephen L Rogers|Jay Z Parrish Department of Biology, University of Washington, Seattle, WA;|Department of Neurobiology, University of Massachusetts Medical School, Worcester, MA;|Department of Biology, University of Washington, Seattle;|Department of Biochemistry, University of Wisconsin, Madison, WI;|Department of Physiology and Biophysics, University of Washington, Seattle, WA;|Department of Biology, The University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/252502 2018-01-23 CC BY-NC-ND Chiral cilia orientation in the left-right organizer Rita Rua Ferreira|Guillaume Pakula|Andrej Vilfan|Willy Supatto|Julien Vermot IGBMC;|Laboratory for Optics and Biosciences, Ecole Polytechnique, Centre National de la Recherche Scienti;|J. Stefan Institute, Ljubljana, Slovenia
http://dx.doi.org/10.1101/252544 2018-01-23 CC BY-NC-ND Evidence for subsoil specialization in arbuscular mycorrhizal fungi Moises A. Sosa-Hernandez|Julien Roy|Stefan Hempel|Matthias C. Rillig Plant Ecology, Institute of Biology, Freie Universitaet Berlin
http://dx.doi.org/10.1101/252221 2018-01-23 CC BY-NC-ND Whole-genome resequencing and pan-transcriptome reconstruction highlight the impact of genomic structural variation on secondary metabolism gene clusters in the grapevine Esca pathogen Phaeoacremonium minimum Melanie Massonnet|Abraham Morales-Cruz|Andrea Minio|Rosa Figueroa-Balderas|Daniel P Lawrence|Renaud Travadon|Philippe E. Rolshausen|Kendra Baumgartner|Dario Cantu University of California Davis;|University of California Riverside;|USDA ARS
http://dx.doi.org/10.1101/252536 2018-01-23 CC BY-NC-ND The Effect of Dissociation between Proprioception and Vision on Perception and Grip Force Control in a Stiffness Judgment Task Stephanie Hu|Raz Leib|Ilana Nisky Massachusetts Institute of Technology;|Ben-Gurion University of the Negev
http://dx.doi.org/10.1101/245993 2018-01-23 Neuroscience NRSF−mediated repression of neuronal genes in developing brain persists in the absence of NRSF−Sin3 interaction Alicia M Hall|Annabel K Short|Akanksha Singh-Taylor|Jennifer Daglian|Tadashi Mishina|William K Schmidt|Hiroyuki Kouji|Tallie Z Baram University of California, Irvine;|PRISM BioLab Co., Ltd., Nagatsuda-cho, Midori-ku, Yokohama, Japan;|PRISM BioLab Co., Ltd., Nagatsuda-cho, Midori-ku, Yokohama, Japan and Oita University, Faculty of Me
http://dx.doi.org/10.1101/252395 2018-01-23 Evolutionary Biology CC BY-NC The fitness landscape of the codon space across environments Ines Fragata|Sebastian Matuszweski|Mark A. Schmitz|Thomas Bataillon|Jeffrey D. Jensen|Claudia Bank Instituto Gulbenkian de Ciência;|School of Life Sciences, Ecole Polytechnique Federale de Lausanne (EPFL), Lausanne Switzerland;|Aarhus University;|School of Life Sciences, Arizona State University, Tempe, USA
http://dx.doi.org/10.1101/245159 2018-01-23 Cell Biology CC BY-NC-ND Rapid Identification of Epithelial Cell Types in Forensic Samples Using Intrinsic Fluorescence and Morphological Signatures Emily R Brocato|M.Katherine Philpott|Catherine C Connon|Christopher J Ehrhardt Virginia Commonwealth University
http://dx.doi.org/10.1101/252106 2018-01-23 Genomics Enhancing resolution of natural methylome reprogramming behavior in plants Robersy Sanchez|Xiaodong Yang|Hardik Kundariya|Jose Raul Barreras|Yashitola Wamboldt|Sally Mackenzie Pennsylvania State University
http://dx.doi.org/10.1101/252551 2018-01-23 Biophysics Measurement of the Persistence Length of Cytoskeletal Filaments using Curvature Distributions Pattipong Wisanpitayakorn|Keith J Mickolajczyk|William O Hancock|Luis Vidali|Erkan Tuzel Worcester Polytechnic Institute;|Pennsylvania State University
http://dx.doi.org/10.1101/252692 2018-01-24 CC BY-NC-ND Reference-dependent preferences arise from structure learning Lindsay E Hunter|Samuel J Gershman Princeton University;|Harvard University
http://dx.doi.org/10.1101/253542 2018-01-24 CC BY The Immune Deficiency Pathway Attenuates Insulin Signaling to Protect Against Infection. Saeideh Davoodi|Meghan Ferguson|Rujuta Despahnde|Savraj Grewal|Edan Foley University of Alberta;|University of Calgary
http://dx.doi.org/10.1101/253484 2018-01-24 Role of IQGAP1 in Head and Neck Carcinogenesis Tao Wei|Suyong Choi|Darya Buehler|Alan Rapraeger|Richard Anderson|Paul Lambert University of Wisconsin
http://dx.doi.org/10.1101/250936 2018-01-24 The Specificity of IQGAP1 Toward the PI3K-Akt Pathway is Dependent on the IQ3 motif Mo Chen|Tianmu Wen|Suyong Choi|Narendra Thapa|Oisun Jung|Paul Lambert|Alan C. Rapraeger|Richard A Anderson University of Wisconsin-Madison;|University of Wisconsin School of Medicine and Public Health;|University of Wiscosin-Madison
http://dx.doi.org/10.1101/252957 2018-01-24 CC BY-NC-ND Charcot-Leyden Crystals activate the NLRP3 inflammasome and cause IL-1β inflammation Juan Francisco Rodrigues-Alcazar|Marco A Ataide|Gudrun Engels|Christine Schmitt-Mabmunyo|Natalio Garbi|Wolfgang Kastenmueller|Eicke Latz|Bernardo S Franklin Institute of Innate Immunity, University Hospitals, University of Bonn, Bonn, Germany;|Institute of Experimental Immunology, University Hospitals, University of Bonn, Bonn, Germany
http://dx.doi.org/10.1101/253195 2018-01-24 CC BY-ND Reliability of Whole-Exome Sequencing for Assessing Intratumor Genetic Heterogeneity Weiwei Shi|Charlotte K.Y. Ng|Raymond S Lim|Tingting Jiang|Sushant Kumar|Xiaotong Li|Vikram B Wali|Salvatore Piscuoglio|Mark B Gerstein|Anees B Chagpar|Britta Weigelt|Lajos Pusztai|Jorge S Reis-Filho|Christos Hatzis Yale School of Medicine;|University of Basel;|Memorial Sloan Kettering Cancer Center;|Yale University
http://dx.doi.org/10.1101/253096 2018-01-24 CC BY-NC-ND Structure-guided design of a cell penetrating peptide preventing cAMP modulation of HCN channels Anna Moroni|Andrea Saponaro|Francesca Cantini|Alessandro Porro|Annalisa Bucchi|Dario DiFrancesco|Vincenzo Maione|Chiara Donadoni|Bianca Introini|Pietro Mesirca|Matteo E. Mangoni|Gerhard Thiel|Lucia Banci|Bina Santoro Università degli Studi di Milano;|University of Florence;|Univ. Milano;|IGF;|Institut de Genomique Fonctionnelle, CNRS UMR5203 Universitá de Montpellier;|Darmstadt University of Technology;|Columbia University
http://dx.doi.org/10.1101/253344 2018-01-24 CC BY-NC-ND Gene Expression-Based Drug Repurposing to Target Ageing Handan Melike Donertas|Matias Fuentealba Valenzuela|Linda Partridge|Janet Thornton EMBL-EBI;|IHA - UCL
http://dx.doi.org/10.1101/253294 2018-01-24 CC BY-NC-ND Proteomic Profiling of Mammalian COPII Vesicles Frank Adolf|Manuel Rhiel|Bernd Hessling|Andrea Hellwig|Felix T. T. Wieland Heidelberg University Biochemistry Center (BZH), Heidelberg University, Germany;|CFMP at the Center for Molecular Biology (ZMBH), Heidelberg University, Germany;|Interdisciplinary Center for Neurosciences (IZN), Heidelberg University, Germany
http://dx.doi.org/10.1101/253203 2018-01-24 CC BY-NC-ND Modelling mitosis with multiple phenotypes: relation to Haeckels biogenetic recapitulation law Yuriy Alexandrov Imperial College London
http://dx.doi.org/10.1101/252650 2018-01-24 CC BY-NC Exploring Approximate Bayesian Computation for inferring recent demographic history with genomic markers in non-model species Joane S Elleouet|Sally N Aitken Centre for Forest Conservation Genetics
http://dx.doi.org/10.1101/252783 2018-01-24 CC BY-NC Guiding Vaccine Efficacy Trial Design During Public Health Emergencies: An interactive web-based decision support tool Steven E Bellan|Rosalind M Eggo|Pierre-Stephane Gsell|Adam Kucharski|Natalie Dean|Richard Donohue|Matt Zook|Frank Odhiambo|Ira Longini|Marc Brisson|Barbara Mahon|Ana Maria Henao-Restrepo University of Georgia;|London School of Hygiene and Tropical Medicine;|World Health Organization;|University of Florida;|University of Kentucky;|Kenya Medical Research Institute;|University of Laval;|CDC;|WHO
http://dx.doi.org/10.1101/253286 2018-01-24 Natural Secretory Immunoglobulins Enhance Norovirus Infection Holly Turula|Juliana Bragazzi-Cunha|Sadeesh Ramakrishnan|Carol Wilke|Mariam Gonzalez-Hernandez|Alexandra Pry|Julianne Fava|Sophia Svoboda|Yatrik Shah|Blaise Corthesy|Bethany Moore|Christiane E Wobus University of Michigan;|University State Hospital (CHUV), Lausanne
http://dx.doi.org/10.1101/252858 2018-01-24 CC BY Detection of HPV E7 transcription at single-cell resolution in epidermis Samuel Lukowski|Kelvin Tuong|Katherina Noske|Anne Senabouth|Quan Nguyen|Peter Soyer|Ian Frazer|Joseph Powell University of Queensland
http://dx.doi.org/10.1101/252791 2018-01-24 A novel distance measure for the unsupervised clustering of temporal patterns in high-dimensional neuronal ensembles Lukas Grossberger|Francesco P Battaglia|Martin Vinck Ernst Struengmann Institute for Neuroscience in Cooperation with Max Planck Society;|Donders Institute for Brain, Cognition and Behaviour, Radboud Universiteit, Nijmegen, The Netherland
http://dx.doi.org/10.1101/250415 2018-01-24 CC BY-ND Endotoxin Tolerance Induced by Different TLR Ligands Suzanne Kathryn Butcher|Christine O'Carroll|Christine Anne Wells|Ruaidhri Carmody University of Melbourne;|University College Cork;|University of Glasgow
http://dx.doi.org/10.1101/252742 2018-01-24 MST1R/RON and EGFR in a complex with syndecans sustain carcinoma S-phase progression by preventing p38MAPK activation DeannaLee M. Beauvais|Kristin Short|Noah Stueven|Scott E. Nelson|Denis Lee|Oisun Jung|Richard A. Anderson|Paul F. Lambert|Alan C. Rapraeger University of Wisconsin-Madison
http://dx.doi.org/10.1101/253088 2018-01-24 CC BY-NC-ND SSPIM: a beam shaping toolbox for structured selective plane illumination microscopy Mostafa Aakhte|Ehsan A. Akhlaghi|Hans-Arno J Muller Institute for Biology, Developmental Genetics, University of Kassel, Germany;|Department of Physics, Institute for Advanced Studies in Basic Sciences (IASBS), Zanjan , Iran;|Institute for Biology, Division of Developmental Genetics, University of Kassel, Germany
http://dx.doi.org/10.1101/252726 2018-01-24 CC BY Characterizing concentration-dependent neural dynamics of 4-aminopyridine-induced epileptiform activity Timothy L Myers|Oscar C Gonzalez|Jacob B Stein|Maxim Bazhenov University of California, Riverside;|University of California, San Diego
http://dx.doi.org/10.1101/253120 2018-01-24 Beyond synthetic lethality: multiple gene interaction types play a key functional role in cancer Assaf Magen|Avinash Das|Joo Sang Lee|Mahfuza Sharmin|Alexander Lugo|Silvio Gutkind|Eytan Ruppin|Sridhar Hannenhalli University of Maryland, College Park;|University of California, San Diego
http://dx.doi.org/10.1101/251918 2018-01-24 CC BY-NC-ND Whole genome sequencing for predicting Mycobacterium abscessus drug susceptibility Sam Innes William Lipworth|Natasha Hough|Laura Leach|Marcus Morgan|Katie Jeffrey|Monique Andersson|Esther Robinson|Grace Smith|Derrick Crook|Tim Peto|Timothy Walker University of Oxford;|Oxford University Hospitals NHS Foundation Trust;|Public Health England Birmingham Regional Mycobacterial Reference Laboratory
http://dx.doi.org/10.1101/253278 2018-01-24 CC BY Loss of E-cadherin enhances IGF1-IGF1R pathway activation and sensitizes breast cancers to anti-IGF1R inhibitors Alison Nagle|Kevin M Levine|Nilgun Tasdemir|Julie A Scott|Kara Burlbaugh|Justin Kehm|Tiffany A Katz|David N Boone|Britta M Jacobsen|Jennifer M Atkinson|Steffi Oesterreich|Adrian V Lee University of Pittsburgh;|Baylor College of Medicine;|University of Colorado Anschutz Medical Campus
http://dx.doi.org/10.1101/253104 2018-01-24 CC BY-NC-ND Chromosome evolution at the origin of the ancestral vertebrate genome Christine Sacerdot|Alexandra Louis|Celine Bon|Hugues ROEST CROLLIUS Ecole Normale Superieure;|Museum National d'Histoire Naturelle
http://dx.doi.org/10.1101/252841 2018-01-24 CC BY Optogenetically induced low-frequency correlations impair perception Anirvan Nandy|Jonathan J Nassi|John Reynolds Salk Institute for Biological Studies, United States;|The Salk Institute for Biological Studies, United States
http://dx.doi.org/10.1101/252817 2018-01-24 CC BY-NC-ND Coincident binding of synthetic and natural ligands to the nuclear receptor PPARγ Jinsai Shang|Richard Brust|Sarah A. Mosure|Jared Bass|Paola Munoz-Tello|Hua Lin|Travis S. Hughes|Miru Tang|Qingfeng Ge|Theodore M Kamekencka|Douglas J Kojetin The Scripps Research Institute;|University of Montana;|Southern Illinois University
http://dx.doi.org/10.1101/252619 2018-01-24 CC BY-NC-ND Whole genome sequence of Mapuche-Huilliche Native Americans Elena A Vidal|Tomas C Moyano|Bernabe I Bustos|Eduardo Perez-Palma|Carol Moraga|Alejandro Montecinos|Lorena Azocar|Daniela C Soto|Eleodoro Riveras|Mabel Vidal|Alex Di Genova|Klaus Puschel|Peter Nuernberg|Stephan Buch|Jochen Hampe|Miguel L Allende|Veronica Cambiazo|Mauricio Gonzalez|Christian Hodar|Martin Montecino|Claudia Munoz-Espinoza|Ariel Orellana|Angelica Reyes-Jara|Dante Travisany|Paula Vizoso|Mauricio Moraga|Susana Eyheramendy|Alejandro Maass|Giancarlo V De Ferrari|Juan Francisco Miquel|Rodrigo A Gutierrez Departamento de Genetica Molecular y Microbiologia, Pontificia Universidad Catolica de Chile;|Centro de Investigaciones Biomedicas, Universidad Andres Bello;|Departamento de Gastroenterologia, Pontificia Universidad Catolica de Chile;|Departamento de Ingenieria Matematica, Universidad de Chile;|Departamento de Medicina Familiar, Pontificia Universidad Catolica de Chile;|Cologne Center for Genomics (CCG), University of Cologne;|Medical department I, University Hospital Dresden;|Departamento de Biologia, Universidad de Chile;|Instituto de Nutricion y Tecnologia de los Alimentos, Universidad de Chile;|Plant Biotechnology Center, Department of Biological Science, Universidad Andres Bello;|Instituto de Ciencias Biomedicas, Universidad de Chile;|Department of Statistics, Pontificia Universidad Catolica de Chile.
http://dx.doi.org/10.1101/253237 2018-01-24 SlARF10, an auxin response factor, is required for chlorophyll and sugar accumulation during tomato fruit development Lihua Mei|Yujin Yuan|Mengbo Wu|Zehao Gong|Qiang Zhang|Fengqing Yang|Qian Zhang|Yingqing Luo|Xin Xu|Wenfa Zhang|Mingjun Miao|Zhengguo Li|Wei Deng Chongqing University;|Sichuan Academy of Agricultural Sciences
http://dx.doi.org/10.1101/252775 2018-01-24 CC BY-NC-ND Electron Paramagnetic Resonance Investigation of Nitrite Binding in Myoglobin Matt Bawn|Fraser MacMillan Earlham Institute;|School of Chemistry, University of East Anglia
http://dx.doi.org/10.1101/252478 2018-01-24 CC BY Canopy cover and structural complexity affect the phylogenetic composition of a pond-dwelling Neotropical anuran metacommunity Diogo B. Provete Universidade Federal de Mato Grosso do Sul
http://dx.doi.org/10.1101/252890 2018-01-24 CC BY-NC Species richness, habitat association and odonata diversity of the south-western region of Bangladesh. Md Kawsar Khan|Md. Sajjad Hossain Tuhin Macquarie University;|Khulna University
http://dx.doi.org/10.1101/252767 2018-01-24 Highly efficient chondrogenic differentiation of human iPSCs and purification via a reporter allele generated by CRISPR-Cas9 genome editing Shaunak S Adkar|Chia-Lung Wu|Vincent P Willard|Amanda Dicks|Adarsh Ettyreddy|Nancy Steward|Nidhi Bhutani|Charles A Gersbach|Farshid Guilak Department of Cell Biology, Duke University Medical Center, Durham, NC 27710;|Department of Orthopaedic Surgery, Washington University, St. Louis, MO 63110;|Cytex Therapeutics, Inc., Durham NC, 27705;|Department of Biomedical Engineering, Duke University, Durham NC 27708;|Department of Orthopaedic Surgery, Stanford University School of Medicine, Stanford, CA
http://dx.doi.org/10.1101/252833 2018-01-24 CC BY-NC-ND Detection of de novo copy number deletions from targeted sequencing of trios Jack M Fu|Elizabeth J Leslie|Alan F Scott|Jeffrey C Murray|Mary L Marazita|Terri H Beaty|Robert B Scharpf|Ingo Ruczinski Johns Hopkins University;|Emory University;|Johns Hopkins School of Medicine;|University of Iowa;|University of Pittsburgh
http://dx.doi.org/10.1101/252718 2018-01-24 CC BY Representation of real-world event schemas during narrative perception Christopher Baldassano|Uri Hasson|Kenneth A Norman Princeton University
http://dx.doi.org/10.1101/253021 2018-01-24 CC BY-NC-ND Natural variation in stomata size contributes to the local adaptation of water-use efficiency in Arabidopsis thaliana Hannes Dittberner|Arthur Korte|Tabea Mettler-Altmann|Andreas Weber|Grey Monroe|Juliette de Meaux University of Cologne, Institute of Botany;|Julius-Maximilians-University Wurzburg, Center for Computational and Theoretical Biology;|Heinrich-Heine-University Dusseldorf Institute for Plant Biochemistry;|Colorado State University College of Agricultural Sciences
http://dx.doi.org/10.1101/253013 2018-01-24 The Folding Pathway of an Ig Domain is Conserved On and Off the Ribosome Pengfei Tian|Annette Steward|Renuka Kudva|Ting Su|Patrick J Shilling|Adrian A Nickson|Jeffrey J Hollins|Roland Beckmann|Gunnar Von Heijne|Robert Best|Jane Clarke NIH;|University of Cambridge;|Stockholm University;|Ludwig Maximilian University
http://dx.doi.org/10.1101/252734 2018-01-24 CC BY A quantitative evaluation of MIRU-VNTR typing against whole-genome sequencing for identifying Mycobacterium tuberculosis transmission: A prospective observational cohort study David Wyllie|Jennifer Davidson|Timothy Walker|Priti Rathod|Tim Peto|Esther Robinson|Derrick W Crook|Grace Smith|Colin Campbell University of Oxford;|Public Health England
http://dx.doi.org/10.1101/252759 2018-01-24 CC BY Task-Evoked Functional Connectivity Does Not Explain Functional Connectivity Differences Between Rest and Task Conditions Lauren K. Lynch|Kun-Han Lu|Haiguang Wen|Yizhen Zhang|Andrew J. Saykin|Zhongming Liu Purdue University;|Indiana University School of Medicine
http://dx.doi.org/10.1101/252668 2018-01-24 CC BY-NC-ND Physiological and transcriptional response of the diatom Corethron hystrix under robust UVR irradiation Robert W Read|David C Vuono|Iva Neveux|Carl Staub|Joseph J Grzymski Desert Research Institute;|Agtron Inc
http://dx.doi.org/10.1101/252684 2018-01-24 Natural Gaze Data Driven Wheelchair Lou-Ann Raymond|Margherita Piccini|Mahendran Subramanian|Pavel Orlov|Aldo Faisal imperial college London;|Imperial College London
http://dx.doi.org/10.1101/250803 2018-01-24 CC BY-NC-ND Structural variability of EspG chaperones from mycobacterial ESX-1, ESX-3 and ESX-5 type VII secretion systems Anne T. Tuukkanen|Diana Freire|Sum Chan|Mark A. Arbing|Robert W. Reed|Timothy J. Evans|Grasilda Zenkeviciute|Jennifer Kim|Sara Kahng|Michael R. Sawaya|Matthias Wilmanns|David Eisenberg|Annabel H.A. Parret|Konstantin V Korotkov European Molecular Biology Laboratory;|UCLA-DOE Institute, University of California Los Angeles;|University of Kentucky
http://dx.doi.org/10.1101/243055 2018-01-24 Cell adhesion and fluid flow jointly initiate genotype spatial distribution in biofilms Ricardo Martinez-Garcia|Carey D. Nadell|Raimo Hartmann|Knut Drescher|Juan A. Bonachela Princeton University;|Dartmouth College;|Max Planck Institute for Terrestrial Microbiology;|Rutgers University
http://dx.doi.org/10.1101/245902 2018-01-24 CC BY-NC-ND The Streptococcus pneumoniae Competence-Induced BriC Peptide Promotes Nasopharyngeal Colonization and Impacts Biofilm Development Surya D. Aggarwal|Rory Eutsey|Jacob West-Roberts|Arnau Domenech|Wenjie Xu|Iman T. Abdullah|Aaron P. Mitchell|Jan-Willem Veening|Hasan Yesilkaya|N. Luisa Hiller Carnegie Mellon University;|University of Lausanne;|University of Leicester & University of Kirkuk;|University of Leicester;|Carnegie Mellon University & Center of Excellence in Biofilm Research, Allegheny Health Network
http://dx.doi.org/10.1101/253153 2018-01-24 Cell Biology High aggregation sensitivity of mammalian mitochondrial elongation factor Tu (Tufm) as a sensor for organellar stress Anne Wilkening|Cornelia Rub|Marc Sylvester|Wolfgang Voos IBMB, University of Bonn, Germany
http://dx.doi.org/10.1101/253583 2018-01-25 Quality control-based signal drift correction and interpretations of metabolomics/proteomics data using random forest regression Hemi Luan|Fenfen Ji|Yu Chen|Zongwei Cai Department of Chemistry, Hong Kong Baptist University, Kowloon Tong, Hong Kong SAR, China;|Max Planck Institute for Terrestrial Microbiology & LOEWE Research Center for Synthetic Microbiology
http://dx.doi.org/10.1101/253724 2018-01-25 CC BY-NC Robust colony recognition for high-throughput growth analysis from suboptimal low-magnification brightfield micrographs Shuang Li|Yevgeniy Plavskin|Naomi Ziv|Sasha F Levy|Mark L Siegal Center for Genomics and Systems Biology, Department of Biology, New York University;|Department of Microbiology and Immunology, University of California, San Francisco;|Joint Initiative for Metrology in Biology
http://dx.doi.org/10.1101/253112 2018-01-25 Plant Biology Developmental genetics of corolla tube formation: role of the tasiRNA-ARF pathway Baoqing Ding|Rui Xia|Vandana Gurung|Janelle M. Sagawa|Lauren E. Stanley|Matthew Strobel|Qiaoshan Lin|Pamela K. Diggle|Blake C. Meyers|Yao-Wu Yuan Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, CT 06269, USA;|State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, South China;|Donald Danforth Plant Science Center, St. Louis, MO 63132, USA
http://dx.doi.org/10.1101/253419 2018-01-25 Biophysics CC BY-ND qFit-ligand reveals widespread conformational heterogeneity of drug-like molecules in X-ray electron density maps Gydo CP van Zundert|Brandi M Hudson|Daniel A Keedy|Rasmus Fonseca|Amelie Heliou|Pooja Suresh|Kenneth Borrelli|Tyler Day|James S Fraser|Henry van den Bedem Schrodinger;|University of California, San Francisco;|Stanford University;|Ecole Polytechnique;|SLAC National Accelerator Laboratory / Stanford University
http://dx.doi.org/10.1101/253146 2018-01-25 Microbiology Metabarcoding analysis on European coastal samples reveals new molecular metazoan diversity David Lopez-Escardo|Jordi Paps|Colomban de Vargas|Ramon Massana|Inaki Ruiz-Trillo|Javier del Campo Institut de Biologia Evolutiva (CSIC-Universitat Pompeu Fabra);|University of Essex;|Station Biologique de Roscoff (CNRS-UPMC);|Institut de Ciencies del Mar (CSIC)
http://dx.doi.org/10.1101/253179 2018-01-25 Pharmacology and Toxicology Inhibition of CaOx crystals by Neolamarckia cadamba: An in vivo approach Prathibha Nair MAR IVANIOS TRIVANDRUM
http://dx.doi.org/10.1101/253138 2018-01-25 Neuroscience I judge you by your profit: Judgments of effort exerted by self and others are influenced by task contingent rewards Max Rollwage|Franziska Pannach|Ulf Toelch|Igor Kagan|Arezoo Pooresmaeili Wellcome Trust Centre for Neuroimaging, University College London, London, United Kingdom;|Perception and Cognition Group, European Neuroscience Institute, Goettingen Medical University;|Berlin Institute of Health, Berlin, Germany;|Decision and Awareness Group, German Primate Center (DPZ), Goettingen, Germany
http://dx.doi.org/10.1101/252999 2018-01-25 Ecology CC BY Vascular plants are strong predictors of multi-taxon species richness Ane Kirstine Brunbjerg|Hans Henrik Bruun|Lars Dalby|Camilla Fljgaard|Tobias Frslev|Toke T. Hoye|Irina Goldberg|Thomas Lsse|Morten D. D. Hansen|Lars Brndum|Lars Skipper|Kare Fog|Rasmus Ejrns Department of Bioscience, Aarhus University, 8410 Rønde, Denmark;|Department of Biology, University of Copenhagen, 2100 Copenhagen, Denmark;|Natural History Museum Aarhus, 8000 Aarhus C, Denmark
http://dx.doi.org/10.1101/253161 2018-01-25 Bioinformatics CC BY-NC-ND INSaFLU: an automated open web-based bioinformatics suite 'from-reads' for influenza whole-genome-sequencing-based surveillance Vitor Borges|Miguel Pinheiro|Pedro Pechirra|Raquel Guiomar|Joao Paulo Gomes National Institute of Health, Portugal;|Centro de Medicina Laboratorial Germano de Sousa
http://dx.doi.org/10.1101/252965 2018-01-25 Biophysics In Vivo Measurements of the Frequency-Dependent Impedance of the Spinal Cord Marcel Utz|John W Miller|Chandan G Reddy|Saul Wilson|kingsley O Abode-Iyamah|Douglas C Fredericks|George T Gillies|Matthew A Howard University of Southampton;|University of Iowa;|University of Virginia
http://dx.doi.org/10.1101/253047 2018-01-25 Neuroscience CC BY A perceptual decision making EEG/fMRI data set Yasmin Kim Georgie|Camillo Porcaro|Stephen Mayhew|Andrew P Bagshaw|Dirk Ostwald Freie Universitaet Berlin;|Institute of Cognitive Sciences and Technologies;|University of Birmingham
http://dx.doi.org/10.1101/252916 2018-01-25 Bioinformatics CC BY-NC-ND UniLoc: A universal protein localization site predictor for eukaryotes and prokaryotes Hsin-Nan Lin|Ching-Tai Chen|Ting-Yi Sung|Wen-Lian Hsu Academia Sinica;|Wen-Lian
http://dx.doi.org/10.1101/252973 2018-01-25 Bioinformatics CC BY-NC-ND Mind your gaps: Overlooking assembly gaps confounds statistical testing in genome analysis Diana Domanska|Chakravarthi Kanduri|Boris Simovski|Geir Kjetil Sandve Univeristy of Oslo;|University of Oslo
http://dx.doi.org/10.1101/252932 2018-01-25 Neuroscience CC BY-NC-ND Noradrenaline modulates decision urgency during sequential information gathering Tobias U. Hauser|Michael Moutoussis|Nina Purg|Peter Dayan|Ray J Dolan University College London;|0000-0001-9356-761X
http://dx.doi.org/10.1101/253328 2018-01-25 Neuroscience CC BY-NC-ND Neuromagnetic signatures of the spatiotemporal transformation for reaching Gunnar Blohm|Hooman Alikhanian|William Gaetz|Herb C Goltz|Joseph FX DeSouza|Douglas O Cheyne|J. Douglas Crawford Queen's University;|University of Pennsylvania;|University of Toronto;|York University;|The Hospital for Sick Children Research Institute, Toronto
http://dx.doi.org/10.1101/253351 2018-01-25 Neuroscience CC BY-NC Spiking allows neurons to estimate their causal effect Benjamin Lansdell|Konrad Kording University of Pennsylvania
http://dx.doi.org/10.1101/253310 2018-01-25 Neuroscience CC BY-NC-ND Sex-specific impact of prenatal androgens on intrinsic functional connectivity between social brain default mode subsystems Michael V. Lombardo|Bonnie Auyeung|Tiziano Pramparo|Angelique Quartier|Jeremie Courraud|Rosemary J Holt|Jack Waldman|Amber Ruigrok|Natasha Mooney|Meng-Chuan Lai|Prantik Kundu|Edward T Bullmore|Jean-Louis Mandel|Amelie Piton|Simon Baron-Cohen University of Cyprus;|University of Edinburgh;|University of California, San Diego;|Institut de Genetique et de Biologie Moleculaire et Cellulaire;|University of Cambridge;|University of Toronto;|Icahn School of Medicine at Mount Sinai
http://dx.doi.org/10.1101/253443 2018-01-25 Bioinformatics A structural equation model for imaging genetics using spatial transcriptomics Sjoerd M.H. Huisman|Ahmed Mahfouz|Nematollah K. Batmanghelich|Boudewijn P.F. Lelieveldt|Marcel J.T. Reinders Delft University of Technology;|Leiden Univeristy Medical Center;|University of Pittsburgh
http://dx.doi.org/10.1101/253054 2018-01-25 Neuroscience CC BY Dendritic spikes in hippocampal granule cells are necessary for long-term potentiation at the perforant path synapse Sooyun Kim|Yoonsub Kim|Suk-Ho Lee|Won-Kyung Ho Seoul National University College of Medicine, Korea (South), Republic of;|Seoul National University Medical Research Center, Korea (South), Republic of
http://dx.doi.org/10.1101/252205 2018-01-25 Neuroscience CC BY-NC-ND A compact head-mounted endoscope for in vivo calcium imaging in freely-behaving mice Alexander D Jacob|Adam I Ramsaran|Andrew J Mocle|Lina M Tran|Chen Yan|Paul W Frankland|Sheena A Josselyn University of Toronto, Hospital for Sick Children;|University of Toronto;|Hospital for Sick Children
http://dx.doi.org/10.1101/253369 2018-01-25 Bioengineering Three-dimensional human axon tracts derived from cerebral organoids D. Kacy Cullen|Laura A. Struzyna|Dennis Jgamadze|Wisberty J. Gordian-Velez|James Lim|Kathryn L. Wofford|Kevin D. Browne|H. Isaac Chen University of Pennsylvania;|Drexel University
http://dx.doi.org/10.1101/253567 2018-01-25 Genetics Loss of mCHH islands in maize chromomethylase and DDM1-type nucleosome remodeler mutants Fang-Fang Fu|R. Kelly Dawe|Jonathan I. Gent University of Georgia
http://dx.doi.org/10.1101/252940 2018-01-25 Neuroscience CC BY Large-scale two-photon imaging revealed super-sparse population codes in V1 superficial layer of awake monkeys Shiming Tang|Yimeng Zhang|Zhihao Li|Ming Li|Fang Liu|Hongfei Jiang|Tai Sing Lee Peking University, China;|Carnegie Mellon University, United States
http://dx.doi.org/10.1101/253401 2018-01-25 Systems Biology CC BY-NC-ND Influenza Virus Infection Model With Density Dependence Supports Biphasic Viral Decay Amanda Smith|David Moquin|Veronika Bernhauerova|Amber M Smith University of Tennessee Health Science Center;|Pasteur Institute
http://dx.doi.org/10.1101/250951 2018-01-25 Evolutionary Biology CC BY Markov katana: a novel method for Bayesian resampling of parameter space applied to phylogenetic trees Stephen Pollard|Kenji Fukushima|Zhengyuan O Wang|Todd A Castoe|David Pollock UC Denver School of Medicine;|Washington University School of Medicine;|University of Texas Arlington
http://dx.doi.org/10.1101/253260 2018-01-25 Neuroscience CC BY-NC-ND Neural engagement with online educational videos predicts learning performance for individual students Samantha Syd Cohen|Jens Madsen|Gad Touchan|Denise Robles|Stella F. A. Lima|Simon Henin|Lucas C Parra The Graduate Center of the City University of New York;|The City College of the City University of New York
http://dx.doi.org/10.1101/252924 2018-01-25 Bioinformatics WEADE: a workflow for enrichment analysis and data exploration Nils Trost|Eugen Rempel|Olga Ermakova|Srividya Tamirisa|Letitia Parcalabescu|Michael Boutros|Jan U Lohmann|Ingrid Lohmann Centre for Organismal Studies, Heidelberg University;|German Cancer Research Center (DKFZ)
http://dx.doi.org/10.1101/253518 2018-01-25 Ecology CC BY-NC-ND Exotic species dominate due to niche overlap in a complex grassland community Lawrence H Uricchio|S Caroline Daws|Erin R Spear|Erin A Mordecai Stanford University
http://dx.doi.org/10.1101/252809 2018-01-25 Neuroscience CC BY-NC Prediction and information integration determine subtle anticipatory fixation biases Giuseppe Notaro|Wieske van Zoest|David Paul Melcher|Uri Hasson The University of Trento;|University of Trento
http://dx.doi.org/10.1101/253641 2018-01-25 Neuroscience Dynamic combination of sensory and reward information under time pressure Shiva Farashahi|Chih-Chung Ting|Chang-Hao Kao|Shih-Wei Wu|Alireza Soltani Dartmouth College;|University of Amsterdam, Netherlands;|University of Pennsylvania;|National Yang-Ming University, Taiwan
http://dx.doi.org/10.1101/253625 2018-01-25 Bioinformatics CC BY-NC-ND A MinION-based pipeline for fast and cost-effective DNA barcoding Amrita Srivathsan|Bilgenur Baloglu|Wendy Wang|Wei Xin Tan|Denis Bertrand|Amanda Hui Qi Ng|Esther Jia Hui Boey|Jayce Jia Yu Koh|Niranjan Nagarajan|Rudolf Meier National University of Singapore;|Genome Institute of Singapore
http://dx.doi.org/10.1101/253591 2018-01-25 Molecular Biology CC BY Valproic acid attenuates hyperglycemia-induced complement and coagulation cascade gene expression Marina Barreto Felisbino|Mark Ziemann|Ishant Khurana|Camila Borges Martins de Oliveira|Maria Luiza S Mello|Assam El-Osta Department of Structural and Functional Biology, Institute of Biology, University of Campinas;|Department of Diabetes, Monash University, Melbourne, Australia
http://dx.doi.org/10.1101/253740 2018-01-25 Neuroscience CC BY-NC-ND Attention periodically samples competing stimuli during binocular rivalry Matthew James Davidson|David Alais|Jeroen J.A. van Boxtel|Naotsugu Tsuchiya Monash University;|University of Sydney
http://dx.doi.org/10.1101/253716 2018-01-25 Cell Biology Graphene-oxide quenching-based molecular beacon imaging of exosome-mediated transfer of neurogenic miR-193a on microfluidic platform Hyun Jeong Oh|Hyejin Park|Dayoung Yoon|Seok Chung|Do Won Hwang|Dong Soo Lee School of Mechanical Engineering, Korea University;|KU-KIST Graduate School of Converging Science and Technology, Korea University;|Department of Nuclear Medicine, Seoul National University College of Medicine;|Department of Molecular Medicine and Biopharmaceutical Sciences
http://dx.doi.org/10.1101/253674 2018-01-25 Bioengineering Vagus Nerve Stimulation Promotes Gastric Emptying by Increasing Pyloric Opening Measured with Magnetic Resonance Imaging Kun-Han Lu|Jiayue Cao|Steven Oleson|Matthew P Ward|Terry L Powley|Zhongming Liu Purdue University
http://dx.doi.org/10.1101/252049 2018-01-25 Genomics Multiplex Chromatin Interaction Analysis with Single-Molecule Precision Meizhen Zheng|Simon Zhongyuan Tian|Rahul Maurya|Byoungkoo Lee|Minji Kim|Daniel Capurso|Emaly Piecuch|Liang Gong|Jacqueline Jufen Zhu|Chee Hong Wong|Chew Yee Ngan|Ping Wang|Xiaoan Ruan|Chia-Lin Wei|Yijun Ruan The Jackson Laboratory for Genomic Medicine
http://dx.doi.org/10.1101/253492 2018-01-24 Bioinformatics CC BY-NC-ND Comparing complex variants in family trios Berke Cagkan Toptas|Goran Rakocevic|Peter Komar|Deniz Kural Seven Bridges Inc.
http://dx.doi.org/10.1101/254367 2018-01-25 Proteome-scale detection of drug-target interactions using correlations in transcriptomic perturbations Nicolas A Pabon|Yan Xia|Samuel K. Estabrooks|Zhaofeng Ye|Amanda K. Herbrand|Evelyn Sub|Ricardo M. Biondi|Victoria A. Assimon|Jason E. Gestwicki|Jeffrey L. Brodsky|Carlos J. Camacho|Ziv Bar-Joseph Department of Computational and Systems Biology, University of Pittsburgh;|Machine Learning Department, Carnegie Mellon University;|Department of Biological Sciences, University of Pittsburgh;|School of Medicine, Tsinghua University;|Department of Internal Medicine I, Universitatsklinikum Frankfurt;|Department of Pharmaceutical Chemistry, University of California, San Francisco;|Carnegie Mellon University
http://dx.doi.org/10.1101/254409 2018-01-25 CC BY Comprehensive characterization of transcript diversity at the human NODAL locus Scott D Findlay|Lynne-Marie Postovit University of Alberta
http://dx.doi.org/10.1101/254268 2018-01-25 CC BY-ND Acute antidepressant effect of ayahuasca in juvenile non-human primate model of depression. Flavia Santos da Silva|Erick Allan dos Santos Silva|Geovan Menezes de Sousa Junior|Joao Paulo Maia-de-Oliveira|Vanessa de Paula Soares Rachetti|Draulio Barros de Araujo|Maria Bernardete Cordeiro de Sousa|Bruno Lobao Soares|Nicole Leite Galvao-Coelho Universidade Federal do Rio Grande do Norte;|Instituto do Cerebro
http://dx.doi.org/10.1101/253989 2018-01-25 CC BY Dawn and photoperiod sensing by phytochrome A Daniel Seaton|Gabriela Toledo-Ortiz|Akane Kubota|Ashwin Ganpudi|Takato Imaizumi|Karen Halliday European Bioinformatics Institute;|Lancaster University;|University of Washington;|University of Edinburgh
http://dx.doi.org/10.1101/253849 2018-01-25 Systematic meta-analyses identify differentially expressed microRNAs in Parkinson's disease Jessica Schulz|Petros Takousis|Inken Wohlers|Ivie Itua|Valerija Dobricic|Harald Binder|Lefkos Middleton|John Ioannidis|Robert Perneczky|Lars Bertram|Christina Lill Genetic and Molecular Epidemiology Group;|School of Public Health, Imperial College London;|Luebeck Interdisciplinary Platform of Genome Analytics, University of Luebeck;|Institute for Medical Biometry and Statistics;|Stanford University;|Institute of Neurogenetics, University of Luebeck
http://dx.doi.org/10.1101/254201 2018-01-25 Exposure to the oral host niche yields rapid phenotypic and genotypic diversification in Candida albicans Anja Forche|Gareth Cromie|Aleeza C Gerstein|Norma V Solis|Tippapha Pisithkul|Waracharee Srifa|Eric Jeffery|Scott G Filler|Aimee Dudley|Judith Berman Bowdoin College;|Pacific Northwest Research Institute;|University of Minnesota;|Los Angeles Biomedical Research Institute at Harbor-UCLA Medical Center;|Tel Aviv University
http://dx.doi.org/10.1101/253732 2018-01-25 CC BY-NC-ND Efficient lentiviral transduction of different human and mouse cells Gang Zhang|Taihua Wang Interventional Hospital of Shandong Red Cross Society
http://dx.doi.org/10.1101/254359 2018-01-25 Antagonism between the dynein and Ndc80 complexes at kinetochores controls the stability of kinetochore-microtubule attachments during mitosis Mohammed A. Amin|Richard J. McKenney|Dileep Varma Northwestern University;|UC - Davis
http://dx.doi.org/10.1101/254318 2018-01-25 DeepNeuron: An Open Deep Learning Toolbox for Neuron Tracing Zhi Zhou|Hsien-Chi Kuo|Hanchuan Peng|Fuhui Long Allen Institute for Brain Science
http://dx.doi.org/10.1101/254169 2018-01-25 Reduced-nutrient leachates in cash cover crop-soybean systems Matthew Thom|Frank Forcella|Carrie Eberle|Heather Matthees|Sharon Weyers|Russ Gesch|Matthew Ott|Gary Feyereisen|Jeffrey Strock|Donald Wyse University of Minnesota;|UMN;|University of Wyoming;|United States Department of Agriculture
http://dx.doi.org/10.1101/245712 2018-01-25 TuBA: Tunable Biclustering Algorithm Reveals Clinically Relevant Tumor Transcriptional Profiles in Breast Cancer Amartya Singh|Gyan Bhanot|Hossein Khiabanian Rutgers University
http://dx.doi.org/10.1101/254383 2018-01-25 CC BY-ND Genetically encoded ratiometric indicators for potassium ion Yi Shen|Sheng-Yi Wu|Vladimir Rancic|Yong Qian|Shin-Ichiro Miyashita|Klaus Ballanyi|Robert E. Campbell|Min Dong Department of Urology, Boston Childrens Hospital; Department of Chemistry, University of Alberta;|Department of Chemistry, University of Alberta;|Department of Physiology, University of Alberta;|Department of Urology, Boston Childrens Hospital
http://dx.doi.org/10.1101/254326 2018-01-25 CC BY Functional gradients of the cerebellum: a fundamental movement-to-thought principle Xavier Guell|Jeremy D Schmahmann|John DE Gabrieli|Satrajit S Ghosh Massachusetts Institute of Technology;|Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/253963 2018-01-25 Dissecting historical changes of selective pressures in the evolution of human pigmentation Xin Huang|Sijia Wang|Li Jin|Yungang He Shanghai Institutes for Biological Sciences
http://dx.doi.org/10.1101/254151 2018-01-25 CC BY-NC Individual repeatability and heritability of divorce in a wild population Ryan R Germain|Jane M Reid|Matthew Wolak Cornell University;|University of Aberdeen;|Auburn University
http://dx.doi.org/10.1101/254243 2018-01-25 Whole genome sequence of an edible and potential medicinal fungus, Cordyceps guangdongensis Chenghua Zhang|Wangqiu Deng|Wenjuan Yan|Taihui Li Guangdong Institute of Microbiology
http://dx.doi.org/10.1101/253781 2018-01-25 Pathology CC BY-NC-ND Profile of Molecular Subtypes of Breast Cancer Among Bangladeshi Women - Audit of Initial Experience Md. Zillur RAHMAN|Md Anwarul Karim Department of Pathology, Chittagong Medical College Hospital, Bangladesh;|The University of Hong Kong
http://dx.doi.org/10.1101/253393 2018-01-25 Neuroscience Fast Memory Integration Facilitated by Schema Consistency Qiong Zhang|Vencislav Popov|Griffin E. Koch|Regina C. Calloway|Marc N. Coutanche Carnegie Mellon University;|University of Pittsburgh
http://dx.doi.org/10.1101/253831 2018-01-25 Neuroscience CC BY-NC-ND Conditional upregulation of KCC2 selectively enhances neuronal inhibition during seizures Chelsea S Goulton|Miho Watanabe|Dennis L Cheung|Kristy W Wang|Tatsuka Oba|Ashor Khoshaba|Daniel Lai|Hiroyuki Inada|Kei Eto|Kayo Nakamura|John M Power|Trevor M Lewis|Gary D Housley|Hiroake Wake|Junichi Nabekura|Andrew J Moorhouse Department of Physiology, School of Medical Sciences, UNSW Sydney, Australia;|National Institutes for Physiological Sciences, Okazaki, Japan;|Department of Physiology, School of Medical Sciences, UNSW Sydney, Australia;;|Division of System Neuroscience, Kobe University Graduate School of Medicine
http://dx.doi.org/10.1101/253468 2018-01-25 Neuroscience CC BY Idiosyncratic, retinotopic bias in face identification modulated by familiarity Matteo Visconti di Oleggio Castello|Morgan Taylor|Patrick Cavanagh|Maria Ida Gobbini Dartmouth College
http://dx.doi.org/10.1101/247866 2018-01-25 Microbiology CC BY-NC-ND Toxoplasma gondii infection triggers chronic cachexia and sustained commensal dysbiosis in mice Jessica A Hatter|Stephane J Melchore|Moi Kouch|Katherine Ng|Donna W Bouley|John C Boothroyd|Sarah E Ewald University of Virginia;|Stanford University
http://dx.doi.org/10.1101/253997 2018-01-25 Genomics CC BY-NC-ND Assembly and validation of conserved long non-coding RNAs in the ruminant transcriptome Stephen J Bush|Charity Muriuki|Mary E B McCulloch|Iseabail L Farquhar|Emily Louise Clark|David A Hume University of Edinburgh Roslin Institute;|University of Edinburgh;|University of Queensland
http://dx.doi.org/10.1101/254003 2018-01-25 Systems Biology Parametric and Non-parametric Gradient Matching for Network Inference Leander Dony|Fei He|Michael Stumpf Imperial College London
http://dx.doi.org/10.1101/253211 2018-01-25 Plant Biology CC BY-NC-ND Quantitative variation within a species for traits underpinning C4 photosynthesis Gregory Reeves|Pallavi Singh|Timo A. Rossberg|Deedi Sogbohossou|Eric Schranz|Julian Hibberd University of Cambridge;|Wageningen University
http://dx.doi.org/10.1101/254136 2018-01-25 Evolutionary Biology CC BY-NC-ND Ecological feedback on diffusion dynamics Hye Jin Park|Chaitanya S Gokhale Max Planck Institute for Evolutionary Biology
http://dx.doi.org/10.1101/254078 2018-01-25 Zoology CC BY-ND Woolly ash aphid Prociphilus fraxinifolii (Riley, 1879) (Hemiptera: Eriosomatidae), a new invasive alien pest of ash trees (Fraxinus) in Russia. Andrzej O Bienkowski|Marina J Orlova-Bienkowskaja A.N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences
http://dx.doi.org/10.1101/254144 2018-01-25 Biophysics The yeast GRASP Grh1 displays a high polypeptide backbone mobility along with an amyloidogenic behavior Natalia A Fontana|Raquel Fonseca-Maldonado|Luis F. S. Mendes|L P Meleiro|Antonio J Costa-Filho University of São Paulo;|Instituto Federal de Ciência e Tecnologia de São Paulo
http://dx.doi.org/10.1101/253807 2018-01-25 Plant Biology PIN7 auxin carrier is a terminator of radial root expansion in Arabidopsis thaliana Michel Ruiz Rosquete|Jurgen Kleine-Vehn Department of Applied Genetics and Cell Biology, University of Natural Resources and Life Sciences
http://dx.doi.org/10.1101/253906 2018-01-25 Evolutionary Biology Seasonal plasticity for anti-predatory strategies: matching colour and colour preference for effective crypsis Erik van Bergen|Patricia Beldade Instituto Gulbenkian de Ciencia
http://dx.doi.org/10.1101/254235 2018-01-25 Microbiology CC BY-NC-ND Genetics behind the biosynthesis of nonulosonic acid containing lipooligosaccharides in Campylobacter coli Alejandra Culebro|Michel Gilbert|Jacek Stupak|Jianju Li|Warren W Wakarchuk|Mirko Rossi University of Helsinki;|National Research Council Canada;|Ryerson University
http://dx.doi.org/10.1101/253872 2018-01-25 Biochemistry CC BY OGT binds a conserved C-terminal domain of TET1 toregulate TET1 activity and function in development Joel Hrit|Cheng Li|Elizabeth Allene Martin|Eric Simental|Mary Goll|Barbara Panning UCSF, United States;|Weill Cornell Graduate School of Medical Sciences, United States;|University of California San Francisco, United States;|University of Georgia, United States
http://dx.doi.org/10.1101/253708 2018-01-25 Molecular Biology Monitoring the 5-methoxycarbonylmethyl-2-thiouridine (mcm5s2U) modification in eukaryotic tRNAs via the gamma-toxin endonuclease Jenna M Lentini|Jillian Ramos|Dragony Fu University of Rochester
http://dx.doi.org/10.1101/254110 2018-01-25 Neuroscience CC BY Triple representation of language, working memory, social and emotion processing in the cerebellum: convergent evidence from task and seed-based resting-state fMRI analyses in a single large cohort Xavier Guell|John DE Gabrieli|Jeremy D Schmahmann Massachusetts Institute of Technology;|Massachusetts General Hospital and Harvard Medical School
http://dx.doi.org/10.1101/253815 2018-01-25 Plant Biology CC BY-NC-ND A molecular framework for functional versatility of HECATE transcription factors Christophe Gaillochet|Suraj Jamge|Froukje van der Wal|Gerco Angenent|Richard Immink|Jan U. Lohmann Department of Stem Cell Biology, Centre for Organismal Studies, Heidelberg University;|Wageningen Plant Research, Wageningen University, PO Box 16, 6700AA Wageningen, The Netherlands
http://dx.doi.org/10.1101/253930 2018-01-25 Genomics Patterns of microsatellite distribution reflect the evolution of biological complexity Surabhi Surabhi|Akshay Kumar Avvaru|Divya Tej Sowpati|Rakesh K Mishra Centre for Cellular and Molecular BIology
http://dx.doi.org/10.1101/254086 2018-01-25 Systems Biology CC BY-NC-ND Deciphering noise amplification and reduction in open chemical reaction networks Fabrizio Pucci|Marianne Rooman Université Libre de Bruxelles, Belgium
http://dx.doi.org/10.1101/254045 2018-01-25 Genomics CC BY-NC-ND Genome-wide analysis of RNA editing levels in human blood identified interactions with mRNA processing genes and suggested correlations with biological and drug-related variables Edoardo Giacopuzzi|Massimo Gennarelli|Chiara Sacco|Chiara Magri|Alessandro Barbon University of Brescia
http://dx.doi.org/10.1101/254052 2018-01-25 Biochemistry CC BY-NC-ND Core Proteome and Architecture of COPI Vesicles Manuel Rhiel|Bernd Hessling|Qi Gao|Andrea Hellwig|Frank Adolf|Felix T. Wieland Heidelberg University Biochemistry Center (BZH), Heidelberg University, Germany;|CFMP, Center for Molecular Biology of Heidelberg University (ZMBH), Heidelberg University, Germany;|CellNetworks and Biomedical Computer Vision Group, BioQuant, Heidelberg University, Germany;|Interdisciplinary Center for Neurosciences (IZN), Heidelberg University, Germany
http://dx.doi.org/10.1101/253948 2018-01-25 Neuroscience Understanding the role of alterations in cortical D1 receptor sensitivity in shaping working memory maintenance through mesocortical dynamics Melissa Reneaux|Rahul Gupta Jawaharlal Nehru University
http://dx.doi.org/10.1101/246959 2018-01-25 Neuroscience Human posterior insula to posterior cingulate functional connectivity is related to the subjective intensity of acute pain Christopher J Becker|Keith M Vogt|James W Ibinson University of Michigan, Ann Arbor;|University of Pittsburgh
http://dx.doi.org/10.1101/252403 2018-01-25 Bioengineering CC BY Using imaging photoplethysmography for heart rate estimation in non-human primates Anton M. Unakafov|Sebastian Moeller|Igor Kagan|Alexander Gail|Stefan Treue|Fred Wolf Georg-Elias-Mueller-Institute of Psychology, University of Goettingen, Goettingen, Germany;|German Primate Center - Leibniz Institute for Primate Research, Goettingen, Germany;|Max Planck Institute for Dynamics and Self-Organization, Goettingen, Germany
http://dx.doi.org/10.1101/252825 2018-01-25 Neuroscience Structure, Asymmetry and Segmentation of the Human Parietal Aslant and Vertical Occipital Fasciculi Sandip S Panesar|Joao Tiago A Alves|Fang Cheng Yeh|Juan C Fernandez-Miranda University of Pittsburgh Department of Neurological Surgery
http://dx.doi.org/10.1101/251751 2018-01-25 Neuroscience CC BY-NC-ND Pain-related fear - From different fear constructs to dissociable neural sources Michael Lukas Meier|Barry Kim Humphreys|Andrea Vrana|Erich Seifritz|Philipp Staempfli|Petra Schweinhardt Balgrist University Hospital;|University of Zurich;|University Hospital Balgrist, McGill University
http://dx.doi.org/10.1101/254375 2018-01-26 Cancer Biology CC BY-NC-ND Building a tumor atlas: integrating single-cell RNA-Seq data with spatial transcriptomics in pancreatic ductal adenocarcinoma Reuben Moncada|Marta Chiodin|Joseph C. Devlin|Maayan Baron|Cristina H. Hajdu|Diane Simeone|Itai Yanai Institute for Computational Medicine, NYU Langone Health, New York;|Pancreatic Cancer Center, NYU Langone Health, New York
http://dx.doi.org/10.1101/253609 2018-01-26 Evolutionary Biology CC BY Multiple large-scale gene and genome duplications during the evolution of hexapods Zheng Li|George Tiley|Sally Galuska|Chris Reardon|Thomas Kidder|Rebecca Rundell|Michael S. Barker University of Arizona;|University of Florida;|State University of New York College of Environmental Science and Forestry
http://dx.doi.org/10.1101/254441 2018-01-26 Genomics CC BY-NC-ND Insights from deconvolution of cell subtype proportions enhance the interpretation of functional genomic data. Yu Kong|Deepa Rastogi|Cathal Seoighe|John M Greally|Masako Suzuki Albert Einstein College of Medicine;|National University of Ireland, Galway
http://dx.doi.org/10.1101/254508 2018-01-26 Genomics CC BY-NC-ND Base-pair resolution detection of transcription factor binding site by deep deconvolutional network Sirajul Salekin|Jianqiu (Michelle) Zhang|Yufei Huang University of Texas at San Antonio
http://dx.doi.org/10.1101/254524 2018-01-26 Genetics CC BY Genetic contribution to theory of mind in adolescence Varun Warrier|Simon Baron-Cohen University of Cambridge
http://dx.doi.org/10.1101/254433 2018-01-26 Physiology CC BY-NC-ND Gradual repression of selenoprotein W ensures physiological bone remodelling Hyunsoo Kim|Kyunghee Lee|Jin Man Kim|Jae-Ryong Kim|Han-Woong Lee|Youn Wook Chung|Hong-In Shin|Eui-Soon Park|Jaerang Rho|Seoung Hoon Lee|Nacksung Kim|Soo Young Lee|Yongwon Choi|Daewon Jeong Yeungnam University College of Medicine;|Yonsei University;|Yonsei University College of Medicine;|Kyungpook National University;|Chungnam National University;|Wonkwang University School of Dentistry;|Chonnam National University Medical;|Ewha Womans University;|University of Pennsylvania School of Medicine
http://dx.doi.org/10.1101/254490 2018-01-26 Neuroscience CC BY-NC-ND A genetically encoded biosensor reveals location bias of opioid drug action Miriam Stoeber|Damien Jullie|Toon Laeremans|Jan Steyaert|Peter W. Schiller|Aashish Manglik|Mark von Zastrow Department of Psychiatry, University of California San Francisco, San Francisco, CA, USA;|Structural Biology Brussels, Vrije Universiteit Brussel, Belgium;|VIB-VUB Center for Structural Biology, VIB, Belgium;|Clinical Research Institute of Montreal, Montreal, QC, Canada;|Department of Pharmaceutical Chemistry, University of California San Francisco, San Francisco, CA;|Department of Cellular and Molecular Pharmacology, University of California San Francisco, CA
http://dx.doi.org/10.1101/254425 2018-01-26 Bioinformatics CC BY-NC-ND Exploring morphological motifs for a single neuron based on multiple 3D reconstructions Jian Yang|Yishan He|Zhi Zhou|Ning Zhong|Hanchuan Peng Beijing University of Technology;|Allen Institute for Brain Science;|Maebashi Institute of Technology
http://dx.doi.org/10.1101/254615 2018-01-26 Developmental Biology CC BY-ND Heat shock factor 5 is conserved in vertebrates and essential for spermatogenesis in zebrafish Laszlo Orban|Jolly M Saju|Mohammed Sorowar Hossain|Woei C Liew|Ajay Pradhan|Natascha M Thevasagayam|Amit Anand|Per-Erik Olsson Georgikon Faculty, University of Pannonia;|Temasek Life Sciences Laboratory;|Chronic Disease Research Group, Biomedical Research Foundation;|The Life Science Center, School of Science and Technology, Örebro University
http://dx.doi.org/10.1101/254805 2018-01-26 Genetics CC BY-ND Optimizing CRISPR/Cas9 System to Precisely Model Plasminogen Activator Inhibitor-1 Point Mutations in Mice Yang Liu|Thomas L Saunders|Thomas Sisson|Robert Blackburn|David S Ginsberg|Duane Day Molecular Innovations;|University of Michigan
http://dx.doi.org/10.1101/254342 2018-01-26 Clinical Trials Signaling pathway screening platforms are an efficient approach to identify therapeutic targets in precision-medicine oriented early phase clinical trials Sudhakar Sahoo|Melanie Galvin|Hui S Leong|Kristopher K Frese|Natalie Cook|Andrew Hughes|Richard Marais|Caroline Dive|Matthew G Krebs|John Brognard -;|Cancer Research UK Manchester Institute;|The University of Manchester and Experimental Cancer Medicine Team,The Christie NHS Foundation Trust;|CCR/NCI
http://dx.doi.org/10.1101/242677 2018-01-26 Bioinformatics CC BY Fluidigm2PURC: automated processing and haplotype inference for double-barcoded PCR amplicons Paul D Blischak|Maribeth Latvis|Diego F Morales-Briones|Jens C Johnson|Veronica S Di Stilio|Andrea D Wolfe|David C Tank The Ohio State University;|South Dakota State University;|University of Minnesota;|University of Washington;|University of Idaho
http://dx.doi.org/10.1101/253062 2018-01-26 Developmental Biology CC BY-NC-ND Ventricular chamber-specific Pitx2 insufficiency leads to cardiac hypertrophy and arrhythmias Ana Chinchilla|Francisco J Esteban|Estefania Lozano-Velasco|Francisco Hernandez-Torres|Jorge N Dominguez|Amelia E Aranega|Diego Franco University of Jaen
http://dx.doi.org/10.1101/253633 2018-01-26 Epidemiology CC BY-NC-ND Socioeconomic status associated with carpal tunnel syndrome: A retrospective nationwide 11-year population-based cohort study in South Korea Hong-Jae Lee|Hyun Sun Lim|Hyoung Seop Kim Dept of Physical Med and Rehabilitation, Ilsan Paik Hospital, Inje University, Republic of Korea;|Department of Policy Research Affairs, National Health Insurance Service, Ilsan Hospital;|Dept of Physical Medicine and Rehabilitation, National Health Insurance Service, Ilsan Hospital
http://dx.doi.org/10.1101/253690 2018-01-26 Epidemiology CC BY-NC-ND Risk Factors Associated with Parkinson's Disease: An 11-Year Population-Based South Korean Study Hyoung Seop Kim|Hong-Jae Lee|Jiook Cha|Junbeom Kwon|Hyunsun Lim Department of Physical Medicine and Rehabilitation, National Health Insurance Service Ilsan Hospital;|Department of Physical Medicine and Rehabilitation, Ilsanpaik Hospital, Inje University;|Department of Psychiatry, Columbia University Medical Center;|Department of Rehabilitation Medicine, Yonsei University College of Medicine & Severance Hospital;|Research and Analysis Team, National Health Insurance Service Ilsan Hospital
http://dx.doi.org/10.1101/253617 2018-01-26 Epidemiology CC BY-NC-ND Onset, Time to Recurrence, and Recurrence Risk Factors of Myocardial Infarction and Ischemic Stroke: 10-Year Nationwide one-Million Population Database Kang Jae Jung|Hyun Sun Lim|Hyoung Seop Kim Department of Physical Medicine and Rehabilitation, Eulji University Hospital;|3Department of Reaserch Center, National Health Insurance Service Ilsan Hospita;|Department of Physical medicine and Rehabilitation, National Health Insurance Service Ilsan Hospital
http://dx.doi.org/10.1101/253666 2018-01-26 Epidemiology CC BY-NC-ND Validation of known risk factors associated with carpal tunnel syndrome: A retrospective nationwide 11-year population-based cohort study in South Korea Hong-Jae Lee|Hyun Sun Lim|Hyoung Seop Kim Department of Physical Medicine and Rehabilitation, Ilsanpaik Hospital, Inje University;|Department of Policy Research Affairs, National Health Insurance Service Ilsan Hospital;|Department of Physical medicine and Rehabilitation, National Health Insurance Service Ilsan Hospital
http://dx.doi.org/10.1101/253534 2018-01-26 Clinical Trials CC BY-NC-ND Rapid Whole Genome Sequencing Decreases Morbidity and Healthcare Cost of Hospitalized Infants Lauge Farnaes|Amber Hildreth|Nathaly Sweeney|Michelle Clark|Shimul Chowdhury|Shareef Nahas|Julie Cakici|Wendy Benson|Robert Kaplan|Richard Kronick|Matthew Bainbridge|Jennifer Friedman|Jeffrey Gold|Yan Ding|Narayanan Veeraraghavan|David Dimmock|Stephen kingsmore Rady Childrens Institute for Genomic Medicine, San Diego, CA, USA;|Torrey Pines Health Group Inc., San Diego, CA, USA;|Department of Family Medicine and Public Health, University of California San Diego, San Diego, C;|-
http://dx.doi.org/10.1101/253682 2018-01-26 Epidemiology CC BY-NC-ND 10 Year Epidemiologic data of Parkinson`s Disease: A Nationwide Population-based Retrospective Cohort of South Korea Hyoung Seop Kim|Joon-Byum Kwon|Hyun Sun Lim|jiook Cha|Hye Won Kim Department of Physical Medicine and Rehabilitation, National Health Insurance Service Ilsan Hospital;|Department and Research Institute of Rehabilitation Medicine, Yonsei University College of Medicine;|Research and Analysis Team, National Health Insurance Service Ilsan Hospital;|dDepartment of Psychiatry, New York State Psychiatric Institute, Columbia University Medical Center;|Rehabilitation Medicine, Bucheon St. Mary`s Hospital, The Catholic University of Korea
http://dx.doi.org/10.1101/252411 2018-01-26 Epidemiology Modelling longitudinal binary outcomes with outcome-dependent observation times: an application to a malaria cohort study Levicatus Mugenyi|Sereina Annik Herzog|Niel Hens|Steven Abrams Interuniversity Institute for Biostatistics and Statistical Bioinformatics, UHasselt;|Inst for Medical Informatics, Statistics & Documentation, Medical University of Graz
http://dx.doi.org/10.1101/253476 2018-01-26 Epidemiology CC BY-NC-ND Temporal evolution of immunity distributions in a population with waning and boosting Maria Vittoria Barbarossa|Monika Polner|Gergely Rost Heidelberg University;|University of Szeged;|Oxford University / University of Szeged
http://dx.doi.org/10.1101/254722 2018-01-27 Bioinformatics CC BY Comprehensive functional profiling of long non-coding RNAs through a novel pan-cancer integration approach and modular analysis of their protein-coding gene association networks Kevin Walters|Radmir Sarsenov|Wen S Too|Roseanna K Hare|Ian C Paterson|Daniel W Lambert|Stephen Brown|James R Bradford University of Sheffield;|University of Malaya
http://dx.doi.org/10.1101/254888 2018-01-27 Physiology CC BY-ND The anthelmintic niclosamide is a potent TMEM16A antagonist that fully bronchodilates airways Kent Miner|Benxian Liu|Paul Wang|Katja Labitzke|Kevin Gaida|Jian Jeffrey Chen|Longbin Liu|Anh Leith|Robin Elliott|Kathryn Henckels|Esther Trueblood|Kelly Hensley|Xing-Zhong Xia|Oliver Homann|Brian Bennett|Mike Fiorino|John Whoriskey|Sabine Escobar|Gang Yu|Joe McGivern|Min Wong|Teresa L. Born|Alison Budelsky|Mike Comeau|Dirk Smith|Jonathan Phillips|James A. Johnston|Kerstin Weikl|David Powers|Deanna Mohn|Andreas Hochheimer|John K. K. Sullivan Amgen Inc., Thousand Oaks, CA, USA.;|Clariant Produkte (Deutschland) GmbH , Planegg, Germany.;|CHDI Management, CHDI Foundation, Los Angeles, CA, USA.;|Dept. Genome Sciences, University of Washington, Seattle, WA, USA.;|Seattle Genetics, Bothell, WA, USA.;|Amgen Inc., South San Francisco, CA, USA.;|Amgen Inc., Seattle, WA, USA;|Sartorius Stedim BioOutsource, Cambridge, MA, USA.;|Immunology Research, Lilly Research Laboratories, San Diego, CA, USA.;|Insight Bioconsulting, Bainbridge Island, WA, USA.;|Assay.Works GmbH, Regensburg, Germany.;|ISAR Bioscience GmbH, Planegg, Germany.;|PolestarBio LLC, Newbury Park, CA, USA.
http://dx.doi.org/10.1101/253450 2018-01-27 Microbiology CC BY-NC-ND Gut microbiome transition across a lifestyle gradient in Himalaya Aashish R Jha|Emily R Davenport|Yoshina Gautam|Dinesh Bhandari|Sarmila Tandukar|Katharine Ng|Susan Holmes|Guru Prasad Gautam|Jeevan Bahadur Sherchand|Carlos Bustamante|Justin Sonnenburg Stanford University;|Cornell University;|The Himalayan Diversity Project;|Public Health Research Laboratory, Institute of Medicine, Maharajgunj, Kathmandu, Nepal;|Department of Geography, Tribhuvan University, Nepalganj, Nepal
http://dx.doi.org/10.1101/254664 2018-01-27 Genomics CC BY-NC Experimental analysis of exome-scale mutational signature of glycidamide, the reactive metabolite of acrylamide Maria Zhivagui|Maude Ardin|Alvin W.T. Ng|Mona Churchwell|Manuraj Pandey|Stephanie Villar|Vincent Cahais|Alexis Robitaille|Liacine Bouaoun|Adriana Heguy|kathryn Guyton|Martha Stampfer|James McKay|Monica Hollstein|Magali Olivier|Steven Rozen|Frederick Beland|Michael Korenjak|Jiri Zavadil International Agency of Research on Cancer;|Duke-NUS Graduate Medical School;|National Center for Toxicological Research;|New York University-Langone Medical Center;|Berkeley National Laboratory,;|University of Leeds
http://dx.doi.org/10.1101/254631 2018-01-27 Systems Biology CC BY-NC-ND Thermodynamic analysis of mitochondrial DNA breakpoints reveals mechanistic details of deletion mutagenesis Lakshmi Narayanan Lakshmanan|Zhuangli Yee|Jan Gruber|Barry Halliwell|Rudiyanto Gunawan ETH Zurich;|National University of Singapore;|Yale-NUS College, Singapore
http://dx.doi.org/10.1101/252023 2018-01-27 Bioinformatics Atlas of Transcription Factor Binding Sites from ENCODE DNase Hypersensitivity Data Across 27 Tissue Types Cory C Funk|Segun Jung|Matthew A Richards|Alex Rodriguez|Paul Shannon|Rory Donovan|Ben Heavner|Kyle Chard|Yukai Xiao|Gustavo Glusman|Nilufer Erteskin-Taner|Todd Golde|Arthur Toga|Leroy Hood|John D Van Horn|Carl Kesselman|Ian Foster|Seth Ament|Ravi Madduri|Nathan D Price Institute for Systems Biology, Seattle WA;|University of Chicago, Chicago IL;|Allen Institute for Cell Science, Seattle WA;|University of Washington;|Institute for Systems Biology;|Mayo Clinic, Department of Neuroscience, Jacksonville, FL;|University of Florida, Department of Neuroscience, Gainesville, FL;|USC Mark and Mary Stevens Neuroimaging and Informatics Institute, Los Angeles, CA;|USC Information Sciences Institute, Los Angeles, CA;|Institute for Genome Sciences, University of Maryland School of Medicine, Baltimore, MD
http://dx.doi.org/10.1101/254706 2018-01-27 Genomics CC BY-NC-ND Genetic factors and age are the strongest predictors of humoral immune responses to common pathogens and vaccines Petar Scepanovic|Cecile Alanio|Christian Hammer|Flavia Hodel|Jacob Bergstedt|Etienne Patin|Christian Wandall Thorball|Nimisha Chaturvedi|Bruno Charbit|Laurent Abel|Lluis Quintana-Murci|Darragh Duffy|Matthew L. Albert|Jacques Fellay Êcole polytechnique féd érale de Lausanne;|Institut Pasteur;|Genentech;|Lund University;|Inserm;|-
http://dx.doi.org/10.1101/254672 2018-01-27 Microbiology Inter- and intra-domain functional redundancy in the rumen microbiome during plant biomass degradation Andrea Soellinger|Alexander T Tveit|Morten Poulsen|Samantha J Noel|Mia Bengtsson|Joerg Bernhardt|Anne L Frydendahl Hellwing|Peter Lund|Katharina Riedel|Christa Schleper|Ole Hojberg|Tim Urich Institute of Microbiology;|UiT, The Arctic University of Norway;|Aarhus University;|University of Greifswald;|University of Vienna
http://dx.doi.org/10.1101/254623 2018-01-27 Microbiology CC BY A role for a conserved kinase in the transcriptional control of methionine biosynthesis in Escherichia coli experiencing sustained nitrogen starvation Amy Switzer|Dimitrios Evangelopoulos|Rita Figueira|Luiz de Carvalho|Daniel Brown|Sivaramesh Wigneshweraraj MRC Centre for Molecular Bacteriology and Infection, Imperial College London, London, UK;|Mycobacterial Metabolism and Antibiotic Research Laboratory, The Francis Crick Institute, London, UK
http://dx.doi.org/10.1101/254698 2018-01-27 Plant Biology Engineering Plant Architecture via CRISPR/Cas9-mediated Alteration of Strigolactone Biosynthesis Haroon Butt|Muhammad Jamil|Jian You Wang|Salim Al-Babili|Magdy Mahfouz KAUST
http://dx.doi.org/10.1101/254276 2018-01-27 Molecular Biology CC BY A comprehensive model of DNA fragmentation for the preservation of High Molecular Weight DNA Tomas Klingstrom|Erik Bongcam-Rudloff|Olga Vinnere Pettersson SLU-Global Bioinformatics Centre, Department of Animal Breeding and Genetics, Swedish University of;|Uppsala Genome Center, Science for Life Laboratory, Dept. of Immunology, Genetics and Pathology, Upp
http://dx.doi.org/10.1101/252296 2018-01-27 Genomics CC BY-NC-ND An atypical CRISPR-Cas locus in Symbiobacterium thermophilum flanked by a transposase, a reverse transcriptase, the endonuclease MutS2 and a putative Cas9-like protein Sandeep Chakraborty Celia Engineers
http://dx.doi.org/10.1101/255042 2018-01-27 Plant Biology CC BY-NC-ND Rehydration rates and the prevalence of xylem-hydration of flowers Adam Roddy|Craig Brodersen Yale University
http://dx.doi.org/10.1101/254854 2018-01-27 Evolutionary Biology CC BY Genome-wide selection scans integrated with association mapping reveal mechanisms of physiological adaptation across a salinity gradient in killifish Reid S. Brennan|Timothy M. Healy|Heather J. Bryant|Man Van La|Patricia M. Schulte|Andrew Whitehead University of Vermont;|Scripps Institution of Oceanography, University of California, San Diego;|University of British Columbia;|University of California, Davis
http://dx.doi.org/10.1101/254920 2018-01-27 Genetics CC BY-NC Global analysis of gene expression dynamics identifies factors required for accelerated mRNA degradation Darach Miller|Nathan Brandt|David Gresham Center for Genomics and Systems Biology, Biology Department, New York University
http://dx.doi.org/10.1101/254771 2018-01-27 Biophysics Exposure of zebra mussels to extracorporeal shock waves demonstrates formation of new mineralized tissue inside and outside the focus zone Katharina Sternecker|Juergen Geist|Sebastian Beggel|Kristin Dietz-Laursonn|Matias de la Fuente|Hans-Georg Frank|John P Furia|Stefan Milz|Christoph Schmitz Chair of Neuroanatomy, Institute of Anatomy, LMU Munich, Munich, Germany;|Technical University of Munich, Dept. Ecol. Ecosyst. Management, Freising, Germany;|Chair of Medical Engineering, RWTH Aachen University, Aachen, Germany;|SUN Orthop. Sports Med., Div. Evangelical Commun. Hosp., Lewisburg, PA, USA
http://dx.doi.org/10.1101/254979 2018-01-27 Cell Biology Spindle assembly in egg extracts of the Marsabit clawed frog, Xenopus borealis Maiko Kitaoka|Rebecca Heald|Romain Gibeaux University of California, Berkeley
http://dx.doi.org/10.1101/254714 2018-01-27 Biophysics CC BY An Adaptive Flagellar Photoresponse Determines the Dynamics of Accurate Phototactic Steering in Chlamydomonas Kyriacos C Leptos|Maurizio Chioccioli|Silvano Furlan|Adriana I Pesci|Raymond E Goldstein University of Cambridge
http://dx.doi.org/10.1101/254680 2018-01-27 Biophysics CC BY-NC-ND Mechanical evolution of DNA double-strand breaks in the nucleosome Fabrizio Cleri|Fabio Landuzzi|Ralf Blossey IEMN, University of Lille;|UGSF, University of Lille
http://dx.doi.org/10.1101/254896 2018-01-27 Biophysics Automatic error control during forward flux sampling of rare events in master equation models Max C Klein|Elijah Roberts Johns Hopkins University
http://dx.doi.org/10.1101/254847 2018-01-27 Cancer Biology Tumor regression mediated by oncogene withdrawal or erlotinib stimulates infiltration of inflammatory immune cells in EGFR mutant lung tumors Deborah Ayeni|Braden Miller|Alexandra Kuhlmann|Ping-Chih Ho|Camila Robles-Oteiza|Mmaserame Gaefele|Stellar Levy|Fernando de Miguel|Curtis Perry|Tianxia Guan|Daniel Zelterman|Robert Homer|Zongzhi Liu|Susan Kaech|Katerina Politi Yale University;|University of Lausanne
http://dx.doi.org/10.1101/254656 2018-01-27 Neuroscience CC BY-NC-ND Microglia inhibition rescues developmental hypofrontality in a mouse model of mental illness Mattia Chini|Christoph Lindemann|Jastyn A. Poepplau|Xiaxia Xu|Joachim Ahlbeck|Sebastian H. Bitzenhofer|Christoph Mulert|Ileana L. Hanganu-Opatz Developmental Neurophysiology,Institute of Neuroanatomy,University Medical Center Hamburg-Eppendorf;|Psychiatry Neuroimaging Branch, Department of Psychiatry,University Medical Center Hamburg-Eppendorf
http://dx.doi.org/10.1101/254813 2018-01-27 Cancer Biology Truncation and Motif Based Pan-Cancer Analysis Highlights Novel Tumor Suppressing Kinases. Andrew Hudson|Natalie Stepehnson|Cynthia Li|Eleanor Trotter|Adam Fletcher|Gitta Katona|Patrycja Bieniasz-Krzywiec|MAtthew Howell|Chris Wirth|Crispin Miller|John Brognard CRUK Manchester Institute;|CRUK Manchester Institute and National Cancer Institute
http://dx.doi.org/10.1101/255125 2018-01-27 Schistosomiasis Induces Persistent DNA Methylation and Tuberculosis-specific Immune Changes Andrew R DiNardo|Tomoki Nishiguchi|Emily M Mace|Kimal Rajapakshe|Godwin Mtetwa|Alexander Kay|Gugu Maphalala|W Evan Secor|Rojelio A Mejia|Cristian Coarfa|Kapil N Bhalla|Edward A Graviss|Jordan S Orange|George Makedonas|Anna M Mandalakas Baylor College of Medicine;|Baylor-Swaziland Children's Foundation;|Swaziland Ministry of Health;|Center for Disease Control;|MD Anderson Cancer Center;|Houston Methodist Hospital Research Institute
http://dx.doi.org/10.1101/255059 2018-01-27 CC BY-NC Genetically increased serum calcium levels reduce Alzheimer's disease risk Qinghua Jiang|Yang Hu|Shuilin Jin|Guiyou Liu School of Life Science and Technology, Harbin Institute of Technology, Harbin, China;|Department of Mathematics, Harbin Institute of Technology, Harbin, China
http://dx.doi.org/10.1101/255109 2018-01-27 CC BY-NC-ND Genomic dissection of Systemic Lupus Erythematosus: Distinct Susceptibility, Activity and Severity Signatures Nikolaos I Panousis|George Bertsias|Halit Ongen|Irini Gergianaki|Maria Tektonidou|Maria Trachana|Luciana Romano-Palumbo|Deborah Bielser|Cedric Howald|Cristina Pamfil|Antonis Fanouriakis|Despoina Kosmara|Argyro Repa|Prodromos Sidiropoulos|Emmanouil T Dermitzakis|Dimitrios T Boumpas University of Geneva;|University of Crete;|National and Kapodistrian University of Athens;|Aristotle University of Thessaloniki;|Iuliu Haţieganu University of Medicine and Pharmacy Cluj-Napoca;|Foundation for Research and Technology - Hellas (FORTH)
http://dx.doi.org/10.1101/250860 2018-01-27 CC BY Metabolic mechanisms of interaction within a defined gut microbiota Gregory Leonard Medlock|Maureen A Carey|Dennis G McDuffie|Michael B Mundy|Natasa Giallourou|Jonathan R Swann|Glynis Kolling|Jason A Papin University of Virginia;|Mayo Clinic;|Imperial College
http://dx.doi.org/10.1101/255190 2018-01-27 CC BY-NC-ND Effects of inhibitors on Hsp90's conformational dynamics, cochaperone and client interactions Sonja Schmid|Markus Goetz|Thorsten Hugel University of Freiburg
http://dx.doi.org/10.1101/254011 2018-01-27 CC BY-NC-ND A comprehensive manually-curated Compendium of Bovine Transcription Factors Marcela Maria de Souza|Juan Manuel Vaquerizas|Adhemar Zerlotini|Ludwig Geistlinger|Benjamin Hernandez-Rodriguez|Polyana Tizioto|Jeremy F Taylor|Marina Ibelli Rocha|Wellison Jarles Diniz|Luiz Coutinho|Luciana Correia de Almeida Regitano Embrapa Pecuária Sudeste, Sao Carlos, Brazil;|Max Planck Institute for Molecular Biomedicine, Munster, Germany;|Embrapa Informática Agropecuária, Campinas, Brazil;|Division of Animal Science, University of Missouri,;|Federal University of Sao Carlos, Brazil;|University of Sao Paulo, Piracicaba SP Brazil;|Embrapa Pecuária Sudeste, Sao Carlos SP Brazil
http://dx.doi.org/10.1101/255083 2018-01-27 CC BY-ND To jump or not to jump: The Bereitschaftspotential required to jump into 192-meter abyss Marius Nann|Leonardo G. Cohen|Luder Deecke|Surjo R. Soekadar University Hospital of Tübingen;|National Institute of Neurological Disorders and Stroke;|Medical University Vienna
http://dx.doi.org/10.1101/255158 2018-01-27 CC BY-NC-ND Two contractile pools of actomyosin distinctly load and tune E-cadherin levels during morphogenesis Girish R Kale|Xingbo Yang|Jean-Marc Philippe|Madhav Mani|Pierre-Francois Lenne|Thomas Lecuit Aix Marseille Universite, CNRS, IBDM - UMR7288, 13009 Marseille, France;|Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA;|Northwestern University, 2145 Sheridan Road, Evanston, IL 60208, USA;|College de France, 11 Place Marcelin Berthelot, 75005 Paris, France
http://dx.doi.org/10.1101/253377 2018-01-27 Taxonomic identification from metagenomic and metabarcoding data using any genetic marker Johan Bengtsson-Palme|Rodney T Richardsson|Marco Meola|Christian Wurzbacher|Emilie D Tremblay|Kaisa Thorell|Kart Kanger|Martin Eriksson|Guillaume J Bilodeau|Reed M Johnson|Martin Hartmann|Henrik Nilsson University of Wisconsin-Madison and University of Gothenburg;|Ohio State University;|Agroscope;|University of Gothenburg;|Canadian Food Inspection Agency;|Karolinska Institutet;|University of Tartu;|Chalmers University of Technology;|Swiss Federal Research Institute WSL
http://dx.doi.org/10.1101/255133 2018-01-27 Viral diversity is an obligate consideration in CRISPR/Cas9 designs for HIV cure Pavitra Roychoudhury|Harshana De Silva Feelixge|Daniel B Reeves|Bryan T Mayer|Daniel Stone|Joshua T Schiffer|Keith R Jerome University of Washington;|Fred Hutchinson Cancer Research Center
http://dx.doi.org/10.1101/255182 2018-01-27 CC BY-NC The Eighty Five Percent Rule for Optimal Learning Robert C Wilson|Amitai Shenhav|Mark Straccia|Jonathan D Cohen University of Arizona;|Brown University;|UCLA;|Princeton University
http://dx.doi.org/10.1101/255349 2018-01-28 Gene composition as a potential barrier to large recombinations in the bacterial pathogen Klebsiella pneumoniae Francesco Comandatore|Davide Sassera|Sion C Bayliss|Erika Scaltriti|Stefano Gaiarsa|Xiaoli Cao|Ana Gales|Ryoichi Saito|Stefano Pongolini|Sylvain Brisse|Edward Feil|Claudio Bandi University of Milan, Milan, Italy;|University of Pavia, Pavia, Italy;|University of Bath, Bath, UK;|Istituto Zooprofilattico Sperimentale della Lombardia e dell Emilia Romagna, Parma, Italy;|Fondazione IRCCS Policlinico San Matteo, Pavia, Italy;|Nanjing Drum Tower Hospital, Nanjing, China;|Universidade Federal de Sao Paulo, Sao Paulo, Brazil;|Tokyo Medical and Dental University, Tokyo, Japan;|Institut Pasteur, Paris, France
http://dx.doi.org/10.1101/255273 2018-01-28 The biogenesis of extracellular vesicles from Staphylococcus aureus and their application as a novel vaccine platform Xiaogang Wang|Christopher Weidenmaier|Jean C Lee Division of Infectious Diseases, Brigham and Women's Hospital and Harvard Medical School;|Interfaculty Institute for Microbiology and Infection Medicine, University of Tuebingen
http://dx.doi.org/10.1101/255364 2018-01-28 Multicolor single particle reconstruction of protein complexes Christian Sieben|Niccolo Banterle|Kyle Douglass|Pierre Gonczy|Suliana Manley Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/255380 2018-01-28 Single-molecule dynamics and genome-wide transcriptomics reveal that NF-kB (p65)-DNA binding times can be decoupled from transcriptional activation Andrea Callegari|Christian Sieben|Alexander Benke|David Suter|Beat Fierz|Davide Mazza|Suliana Manley Ecole Polytechinique Federale de Lausanne (EPFL);|Experimental Imaging Center, IRCCS San Raffaele Scientific Institute, 20132, Milano, Italy
http://dx.doi.org/10.1101/255224 2018-01-28 Genetics CC BY-ND Interrogation of human hematopoiesis at single-cell and single-variant resolution Caleb A Lareau|Jacob C Ulirsch|Erik L Bao|Leif S Ludwig|Michael H Guo|Christian Benner|Ansuman T Satpathy|Rany Salem|Joel N Hirschhorn|Hilary K Finucane|Martin J Aryee|Jason D Buenrostro|Vijay G Sankaran Broad Institute of MIT and Harvard;|Institute for Molecular Medicine Finland;|Department of Pathology, Stanford University School of Medicine
http://dx.doi.org/10.1101/254839 2018-01-28 Bioinformatics CC BY Valection: Design Optimization for Validation and Verification Studies Christopher I Cooper|Delia Yao|Dorota H Sendorek|Takafumi N Yamaguchi|Christine P'ng|Kathleen E Houlahan|Cristian Caloian|Michael Fraser|Kyle Ellrott|Adam A Margolin|Robert G Bristow|Joshua M Stuart|Paul C Boutros Ontario Institute for Cancer Research;|Ontario Insitute for Cancer Research;|-;|Oregon Health & Science University;|Princess Margaret Cancer Centre;|University of California Santa Cruz
http://dx.doi.org/10.1101/254789 2018-01-28 Bioinformatics CC BY-ND Improving intermolecular contact prediction through protein-protein interaction prediction using coevolutionary analysis with expectation-maximization Miguel Correa Marrero|Richard G.H. Immink|Dick de Ridder|Aalt D.J. van Dijk Wageningen University
http://dx.doi.org/10.1101/254987 2018-01-28 Bioinformatics CC BY-NC-ND De novo haplotype reconstruction in viral quasispecies using paired-end read guided path finding Jiao Chen|Yingchao Zhao|Yanni Sun Michigan State University;|Caritas Institute of Higher Education, Hong Kong
http://dx.doi.org/10.1101/254763 2018-01-28 Systems Biology CC BY-NC-ND Intrinsic noise modulation in closed oligomerization-type systems Marianne Rooman|Fabrizio Pucci Université Libre de Bruxelles, Belgium
http://dx.doi.org/10.1101/247981 2018-01-28 Plant Biology Partial correlation analysis of transcriptomes helps detangle the growth and defense network in spruce Ilga Porth|Richard White|Barry Jaquish|Kermit Ritland Laval University;|University of British Columbia;|British Columbia Ministry of Forests, Lands and Natural Resource Operations
http://dx.doi.org/10.1101/255018 2018-01-28 Bioinformatics CC BY-NC-ND MicroPheno: Predicting environments and host phenotypes from 16S rRNA gene sequencing using a k-mer based representation of shallow sub-samples Ehsaneddin Asgari|Kiavash Garakani|Alice Carolyn McHardy|Mohammad R.K. Mofrad University of California, Berkeley;|Helmholtz Centre for Infection Research
http://dx.doi.org/10.1101/254094 2018-01-28 Neuroscience CC BY Analysis of proteins in computational models of synaptic plasticity Katharina F Heil|Emilia Wysocka|Oksana Sorokina|Jeanette Hellgren Kotaleski|T Ian Simpson|J Douglas Armstrong|David C Sterratt University of Edinburgh;|KTH Royal Institute of Technology
http://dx.doi.org/10.1101/255174 2018-01-28 Biophysics From 1D sequence to 3D chromatin dynamics and cellular functions: a phase separation perspective Sirui Liu|Ling Zhang|Hui Quan|Hao Tian|Luming Meng|Lijiang Yang|Huajie Feng|Yi Qin Gao College of Chemistry and Molecular Engineering, Peking University
http://dx.doi.org/10.1101/254797 2018-01-28 Genomics CC BY-NC The Juicebox Assembly Tools module facilitates de novo assembly of mammalian genomes with chromosome-length scaffolds for under $1000 Olga Dudchenko|Muhammad S. Shamim|Sanjit Batra|Neva C. Durand|Nathaniel T. Musial|Ragib Mostofa|Melanie Pham|Brian Glenn St Hilaire|Weijie Yao|Elena Stamenova|Marie Hoeger|Sarah K. Nyquist|Valeriya Korchina|Kelcie Pletch|Joseph P. Flanagan|Ania Tomaszewicz|Denise McAloose|Cynthia Perez Estrada|Ben J. Novak|Arina D. Omer|Erez Lieberman Aiden The Center for Genome Architecture, Baylor College of Medicine;|Department of Computer Science, University of California, Berkeley;|Erik Jonsson School of Engineering and Computer Science, University of Texas at Dallas;|Department of Computer Science, Rice University;|Broad Institute of Harvard and Massachusetts Institute of Technology (MIT);|Computational and Systems Biology, Massachusetts Institute of Technology;|DMU College of Osteopathic Medicine, Des Moines University;|Houston Zoo;|Wildlife Conservation Society;|Revive and Restore
http://dx.doi.org/10.1101/254755 2018-01-28 Plant Biology CC BY The coming of age of EvoMPMI: evolutionary molecular plant-microbe interactions across multiple timescales Jessica L Upson|Erin K Zess|Aleksandra Bialas|Chih-Hang Wu|Sophien Kamoun The Sainsbury Laboratory, Norwich Research Park, Norwich, United Kingdom
http://dx.doi.org/10.1101/255281 2018-01-28 Cancer Biology CC BY-NC-ND Parp3 promotes long-range end-joining in murine cells Jacob V Layer|J. Patrick Cleary|Alexander J Brown|Kristen E Stevenson|Sara N Morrow|Alexandria Van Scoyk|Rafael B Blasco|Elif Karaca|Fei-Long Meng|Richard L Frock|Trevor Tivey|Sunhee S Kim|Hailey Fuchs|Roberto Chiarle|Frederick W Alt|Steven A Roberts|David M Weinstock|Tovah Day Dana-Farber Cancer Institute;|Washington State University;|Boston Children's Hospital;|Children's Hospital Boston;|Shanghai Institutes for Biological Sciences;|Stanford University;|Dana Farber Cancer Institute
http://dx.doi.org/10.1101/255075 2018-01-28 Bioinformatics CC BY-NC-ND CoNekT: an open-source framework for comparative genomic and transcriptomic network analyses Sebastian Proost|Marek Mutwil Max Planck Institute of Molecular Plant Physiology;|School of Biological Sciences, Nanyang Technological University
http://dx.doi.org/10.1101/255067 2018-01-28 Bioinformatics CC BY-NC-ND PhytoNet: Comparative co-expression network analyses across phytoplankton and land plants Camilla Ferrari|Sebastian Proost|Colin Ruprecht|Marek Mutwil Max Planck Institute of Molecular Plant Physiology;|Max Planck Institute of Colloids and Interfaces;|School of Biological Sciences, Nanyang Technological University
http://dx.doi.org/10.1101/255943 2018-01-29 CC BY-NC Systematic detection of amino acid substitutions in proteome reveals a mechanistic basis of ribosome errors Ernest Mordret|Avia Yehonadav|Georgina D Barnabas|Jurgen Cox|Orna Dahan|Tamar Geiger|Ariel B Lindner|Yitzhak Pilpel Weizmann Institute of Science;|Tel Aviv University;|Max Planck Institute;|Institut National de la Santé et de la Recherche Médicale
http://dx.doi.org/10.1101/255331 2018-01-29 Is IκBζ constitutively expressed in mammalian airway epithelium? Kruthika Sundaram|Srabani Mitra|Florinda Jaynes|Sebastian Lorscheid|Haley Steiner|Alan Flechtner|Anasuya Sarkar|Konstantin Shilo|Prosper N. Boyaka|Klaus Schulze-Osthoff|Mark D Wewers Viapath;|Ohio State University Medical Center;|The Ohio State University;|University of Tubingen;|The Ohio State University College of Medicine
http://dx.doi.org/10.1101/255901 2018-01-29 CC BY Investigating the shared genetics of non-syndromic cleft lip/palate and facial morphology Laurence J Howe|Myoung Keun Lee|Gemma C Sharp|George Davey Smith|Beate St Pourcain|John R Shaffer|Mary L Marazita|Eleanor Feingold|Alexei Zhurov|Evie Stergiakouli|Jonathan Sandy|Stephen Richmond|Seth M Weinberg|Gibran Hemani|Sarah J Lewis University of Bristol, UK;|University of Pittsburgh, USA;|University of Bristol;|Max Planck Institute for Psycholinguistics, Netherlands;|University of Pittsburgh;|University of Cardiff
http://dx.doi.org/10.1101/255562 2018-01-29 Molecular Biology CC BY-NC-ND Caenorhabditis elegans heterochromatin factor SET-32 plays an essential role in transgenerational establishment of nuclear RNAi-mediated epigenetic silencing Natallia Kalinava|Julie Ni|Zoran Gajic|Helen Ushakov|Sam Gu Rutgers University
http://dx.doi.org/10.1101/255620 2018-01-29 Neuroscience Lost in Space: The Impact of Traditional Neuroimaging Methods on the Spatial Localization of Cortical Areas Timothy S Coalson|David C Van Essen|Matthew Glasser Washington University in St. Louis
http://dx.doi.org/10.1101/255679 2018-01-29 Neuroscience CC BY-NC Individual differences in functional brain connectivity predict temporal discounting preference in the transition to adolescence Jeya Anandakumar|Kathryn Mills|Eric Earl|Lourdes Irwin|Oscar Miranda-Dominguez|Damion V Demeter|Alexandra Walton-Weston|Sarah Karalunas|Joel Nigg|Damien A Fair Oregon Health & Science University;|University of Oregon
http://dx.doi.org/10.1101/255505 2018-01-29 Bioinformatics CC BY Identifying Antimicrobial Peptides using Word Embedding with Deep Recurrent Neural Networks Md Nafiz Hamid|Iddo Friedberg Iowa State University
http://dx.doi.org/10.1101/255810 2018-01-29 Molecular Biology CC BY-NC-ND Cotranslational folding of a pentarepeat β-helix protein Luigi Notari|Markel Martinez-Carranza|Pal Stenmark|Gunnar Von Heijne Department of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden
http://dx.doi.org/10.1101/255372 2018-01-29 Developmental Biology CC BY-NC-ND Optochemical control of cell contractility at single cell resolution during tissue morphogenesis Deqing Kong|Fred Wolf|Joerg Grosshans University of Goettingen;|Max Planck Institute for Dynamics and Self-Organization
http://dx.doi.org/10.1101/255471 2018-01-29 Molecular Biology CC BY-NC-ND Genomic copy-number loss is rescued by self-limiting production of DNA circles Andres R Mansisidor|Temistocles Molinar|Priyanka Srivastava|Hannah Blitzblau|Hannah Klein|Andreas Hochwagen Department of Biology, New York University, New York, NY 10003;|Biology Department, Massachusetts Institute of Technology, Cambridge, MA 02139;|Dept of Biochemistry and Molecular Pharmacology, New York University School of Medicine
http://dx.doi.org/10.1101/255661 2018-01-29 Neuroscience CC BY Primacy model and the evolution of the olfactory receptor repertoire Hamza Giaffar|Dmitry Rinberg|Alexei A. Koulakov Cold Spring Harbor Laboratory;|New York University
http://dx.doi.org/10.1101/255711 2018-01-29 Bioinformatics CC BY-NC-ND ClusterMine: a Knowledge-integrated Clustering Approach based on Expression Profiles of Gene Sets Hongdong Li|Yunpei Xu|Xiaoshu Zhu|Quan Liu|Gilbert S. Omenn|Jianxin Wang Central South University;|University of Michigan, Ann Arbor
http://dx.doi.org/10.1101/255539 2018-01-29 Microbiology CC BY-NC-ND Harnessing a Novel P450 Fatty Acid Decarboxylase from Macrococcus caseolyticus for Microbial Biosynthesis of Odd Chain Terminal Alkenes Jongwon Lee|Narayan Niraula|Cong T. Trinh University of Tennessee Knoxville
http://dx.doi.org/10.1101/255752 2018-01-29 Evolutionary Biology CC BY-ND Allele Phasing Greatly Improves the Phylogenetic Utility of Ultraconserved Elements Tobias Andermann|Alexandre M. Fernandes|Urban Olsson|Mats Topel|Bernard Pfeil|Bengt Oxelman|Alexandre Aleixo|Brant C. Faircloth|Alexandre Antonelli Department of Biological and Environmental Sciences, University of Gothenburg, Sweden;|Universidade Federal Rural de Pernambuco, Serra Talhada, Brazil;|Department of Marine Sciences, University of Gothenburg, Sweden;|Museu Paraense Emilio Goeldi, Collection of Birds, Belem, Brazil;|Department of Biological Sciences and Museum of Natural Science, Louisiana State University, USA
http://dx.doi.org/10.1101/255588 2018-01-29 Immunology Gut bacterial metabolite Urolithin A (UA) mitigates Ca2+ 1 entry in T cells by regulating miR-10a-5p Shaqiu Zhang|Tamer Maghout|Hang Cao|Lisann Pelzl|Madhuri Salkere|Anchun Cheng|Florian Lang|Yogesh Singh Institute of Preventive Veterinary Medicine Sichuan Agricultural University Wenjiang Chengdu Sic;|Department of Vegetative Physiology Tubingen University Wilhelmstraβe 56 72076 Tubingen Germany;|Department of Vegetative Physiology Tubingen University Wilhelmstraβe 56 72074 Tubingen, German;|Department of Vegetative Physiology Tubingen University Wilhelmstraβe 56 72074 Tubingen Germany;|Institute of Womens Health Tubingen University Calwerstraβe 7 72076 Tubingen Germany;|Institute of Medical Genetics and Applied Genomics Tubingen University Calwerstraβe 7 72076,
http://dx.doi.org/10.1101/255786 2018-01-29 Plant Biology CC BY Identification and comparison of individual chromosomes of three Hordeum chilense accessions, Hordeum vulgare and Triticum aestivum by FISH Maria-Dolores Rey|Graham Moore|Azahara Carmen Martin John Innes Centre
http://dx.doi.org/10.1101/255513 2018-01-29 Biophysics CC BY-NC-ND Halogen-aromatic π-interactions modulate inhibitor residence time Christina Heroven|Victoria Georgi|Gaurav K Ganotra|Paul E Brennan|Finn Wolfreys|Rebecca C Wade|Amaury E Fernandez-Montalvan|Apirat Chaikuad|Stefan Knapp University of Oxford;|Bayer AG;|HITS;|Goethe-University Frankfurt
http://dx.doi.org/10.1101/255604 2018-01-29 Bioinformatics CC BY-NC-ND Genome-wide prediction of bacterial effectors across six secretion system types using a feature-based supervised learning framework Andi Dhroso|Samantha Eidson|Dmitry Korkin Worcester Polytechnic Institute;|Fontbonne University
http://dx.doi.org/10.1101/254599 2018-01-29 Immunology Identification of Variable and Joining germline genes and alleles for Rhesus macaque from B-cell receptor repertoires Wei Zhang|Xinyue Li|Longlong Wang|Jianxiang Deng|Liya Lin|Lei Tian|Jinghua Wu|Huanming Yang|Jian Wang|Ping Qiu|Tong-Ming Fu|Nitin K Saksena|I-Ming Wang|Xiao Liu BGI;|Merck
http://dx.doi.org/10.1101/255836 2018-01-29 Evolutionary Biology CC BY-NC-ND Soft song: help thine enemy! Szabolcs Szamado MTA Centre for Social Sciences
http://dx.doi.org/10.1101/255596 2018-01-29 Bioinformatics CC BY-NC-ND Phylodynamic model adequacy using posterior predictive simulations Sebastian Duchene|Remco Bouckaert|David A Duchene|Tanja Stadler|Alexei J Drummond University of Melbourne;|University of Auckland;|University of Sydney;|ETH Zurich
http://dx.doi.org/10.1101/255695 2018-01-29 Bioengineering Sub-voxel light-sheet microscopy for high-resolution, high-throughput volumetric imaging of large biomedical specimens Peng Fei|Jun Nie|Juhyun Lee|Yichen Ding|Shuoran Li|Zhilong Yu|Hao Zhang|Masaya Hagiwara|Tingting Yu|Tatiana Segura|Chih-Ming Ho|Dan Zhu|Tzung K. Hsiai School of Optical and Electronic Information, Huazhong University of Science and Technology;|Department of Bioengineering, University of California, Los Angeles, Los Angeles, 90095, U.S.A;|Chemical and Biomolecular Engineering Department, University of California, Los Angeles;|College of Engineering, Peking University;|Nanoscience and Nanotechnology Research Center, Research Organization for the 21st Century;|Britton Chance Center for Biomedical Photonics, Wuhan National Laboratory for Optoelectronics;|Mechanical and Aerospace Engineering Department, University of California, Los Angeles;|Department of Bioengineering, University of California, Los Angeles
http://dx.doi.org/10.1101/255570 2018-01-29 Neuroscience CC BY-NC-ND Neural circuitry of a polycystin-mediated hydrodynamic startle response for predator avoidance Luis A. Bezares-Calderon|Juergen Berger|Sanja Jasek|Csaba Veraszto|Sara Mendes|Martin Guehmann|Rodrigo Almeda|Reza Shahidi|Gaspar Jekely Living Systems Institute, University of Exeter, Exeter, UK;|Max Planck Institute for Developmental Biology, Tuebingen, Germany;|Centre for Ocean Life, DTU-Aqua, Technical University of Denmark, Denmark
http://dx.doi.org/10.1101/255356 2018-01-29 Biophysics Membrane bending energy and tension govern mitochondrial division Lina Carlini|Dora Mahecic|Tatjana Kleele|Aurelien Roux|Suliana Manley Ecole Polytechinique Federale de Lausanne (EPFL);|University of Geneva
http://dx.doi.org/10.1101/255646 2018-01-29 Genetics The chromatin modifiers SET-25 and SET-32 are required for initiation but not long-term maintenance of transgenerational epigenetic inheritance Rachel M Woodhouse|Gabrielle Buchmann|Matthew Hoe|Dylan Harney|Mark Larance|Peter R Boag|Alyson Ashe University of Sydney;|Monash University
http://dx.doi.org/10.1101/255547 2018-01-29 Neuroscience CC BY-NC-ND Environmental adaptation of olfactory receptor distributions Tiberiu Tesileanu|Simona Cocco|Remi Monasson|Vijay Balasubramanian CUNY Graduate Center;|Laboratoire de Physique Statistique, ENS;|Laboratoire de Physique Theorique, ENS;|University of Pennsylvannia
http://dx.doi.org/10.1101/255737 2018-01-29 Cell Biology CC BY An efficient and scalable pipeline for epitope tagging in mammalian stem cells using Cas9 ribonucleoprotein Pooran Singh Dewari|Benjamin Southgate|Katrina Mccarten|German Monogarov|Eoghan O'Duibhir|Niall Quinn|Ashley Tyrer|Colin Plumb|Carla Blin|Rebecca Finch|Raul Bardini Bressan|Gillian Morrison|Ashley M Jacobi|Mark A Behlke|Alex von Kriegsheim|Simon Tomlinson|Jeroen Krijgsveld|Steven M Pollard The University of Edinburgh, United Kingdom;|German Cancer Research Center (DKFZ), United Kingdom;|Integrated DNA Technologies, Inc., United Kingdom;|University of Edinburgh, Germany
http://dx.doi.org/10.1101/255703 2018-01-29 Cell Biology Effects of Parathyroid Hormone, Alendronate and Odanacatib on the mineralisation process in intracortical and endocortical Haversian bone of ovariectomized rabbits Christina Vrahnas|Pascal Buenzli|Thomas A Pearson|Brenda L Pennypacker|Mark J Tobin|Keith R Bambery|Le T Duong|Natalie A Sims St. Vincent's Institute, The University of Melbourne;|School of Mathematical Sciences, Queensland University of Technology, Brisbane, Australia;|St. Vincent's Institute;|MRL, Merck & Co., Inc., West Point, PA, USA;|The Australian Synchrotron, Clayton, Victoria, Australia
http://dx.doi.org/10.1101/255851 2018-01-29 Developmental Biology CC BY-NC In addition to being a marker for muscle connective tissue, Odd skipped-related 2 (OSR2) is expressed in differentiated muscle cells during chick development Sonya Nassari|Mickael Orgeur|Cedrine Blavet|Sigmar Stricker|Claire Fournier-Thibault|Delphine Duprez CNRS;|Freie Universitat Berlin
http://dx.doi.org/10.1101/245399 2018-01-29 Intrinsic functional reorganization of the attention network in the blind Wen Qin|Yong Liu|Tianzi Jiang|Chunshui Yu Tianjin Medical University General Hospital;|Brainnetome Center and National Laboratory of Pattern Recognition, Institute of Automation
http://dx.doi.org/10.1101/254961 2018-01-29 CC BY Visual and auditory brain areas share a neural code for perceived emotion Beau Sievers|Thalia Wheatley Dartmouth College
http://dx.doi.org/10.1101/255257 2018-01-29 Bioinformatics COSSMO: Predicting Competitive Alternative Splice Site Selection using Deep Learning Hannes Bretschneider|Shreshth Gandhi|Khalid Zuberi|Amit G Deshwar|Brendan J Frey Deep Genomics Inc., Toronto ON
http://dx.doi.org/10.1101/254193 2018-01-29 Neuroscience CC BY-NC-ND Preserved functional connectivity in the default mode and salience networks is associated with youthful memory in superaging Jiahe Zhang|Joseph Andreano|Bradford C Dickerson|Alexandra Touroutoglou|Lisa F Barrett Northeastern University;|MGH/HST Athinoula A. Martinos Center for Biomedical Imaging;|Massachusetts General Hospital/Harvard Medical School;|Harvard Medical School
http://dx.doi.org/10.1101/255091 2018-01-29 Neuroscience Causal explanation of individual differences in human sensorimotor memory formation Pierre Petitet|Jill X O'Reilly|Ana M Goncalves|Piergiorgio Salvan|Shigeru Kitazawa|Heidi Johansen-Berg|Jacinta O'Shea University of Oxford;|Osaka University
http://dx.doi.org/10.1101/255729 2018-01-29 Cell Biology Regulation of global translation during the cell cycle Vilte Stonyte|Erik Boye|Beata Grallert Institute for Cancer Research, Oslo University Hospital
http://dx.doi.org/10.1101/256644 2018-01-30 Integration of single-cell RNA-seq data into metabolic models to characterize tumour cell populations Chiara Damiani|Davide Maspero|Marzia Di Filippo|Riccardo Colombo|Dario Pescini|Alex Graudenzi|Hans Victor Westerhof|Lilia Alberghina|Marco Ercole Vanoni|Giancarlo Mauri Dept. of Informatics, Systems and Communication, University of Milan-Bicocca;|Dept. of Biotechnology and Biosciences, University Milan-Bicocca;|Dept. of Statistics and Quantitative Methods, University Milan-Bicocca;|Dept. of Molecular Cell Physiology, Faculty of Earth and Life Sciences, VU University, Amsterdam
http://dx.doi.org/10.1101/255406 2018-01-30 CC BY-NC-ND Motion regions are modulated by scene content Didem Korkmaz Hacialihafiz|Andreas Bartels Center for Integrative Neuroscience, University of Tuebingen, Germany
http://dx.doi.org/10.1101/256826 2018-01-30 CC BY-ND Cryo-EM structure of Escherichia coli σ70 RNAP and promoter DNA complex revealed a role of σ nonconserved region during the open complex formation Anoop Narayanan|Frank S. Vago|Kungpeng Li|M. Zuhaib Qayyum|Dinesh Yernool|Wen Jiang|Katsuhiko Murakami The Pennsylvania State University;|Purdue University;|Penn State University
http://dx.doi.org/10.1101/254557 2018-01-30 EEG-based personal identification: comparison of different functional connectivity metrics Matteo Fraschini|Gian Luca Marcialis|Luca Didaci University of Cagliari
http://dx.doi.org/10.1101/255992 2018-01-30 CC BY-NC-ND Crop domestication and pathogen virulence: Interactions of tomato and Botrytis genetic diversity Nicole E Soltis|Susanna Atwell|Gongjun Shi|Rachel Fordyce|Raoni Gwinner|Dihan Gao|Aysha Shafi|Dan Kliebenstein UC Davis;|North Dakota State University;|Universidade Federal de Lavras;|University of California
http://dx.doi.org/10.1101/256776 2018-01-30 Estimating the statistical performance of different approaches to meta-analysis of data from animal studies in identifying the impact of aspects of study design Qianying Wang|Jing Liao|Kaitlyn Hair|Alexandra Bannach-Brown|Zsanett Bahor|Gillian L Currie|Sarah K McCann|David W Howells|Emily S Sena|Malcolm R Macleod The University of Edinburgh;|The University of Tasmania
http://dx.doi.org/10.1101/256560 2018-01-30 CC BY-NC-ND CozEa and CozEb play overlapping and essential roles in controlling cell division in Staphylococcus aureus Gro Anita Stamsas|Ine Myrbraten|Daniel Straume|Zhian Salehian|Jan-Willem Veening|Leiv Sigve Havarstein|Morten Kjos Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences;|Department of Fundamental Microbiology, Faculty of Biology and Medicine, University of Lausanne
http://dx.doi.org/10.1101/256750 2018-01-30 CC BY-NC-ND Computational modelling of atherosclerosis: developing a community resource Andrew Parton|Victoria McGilligan|Maurice O'Kane|Steven Watterson University of Ulster;|Western Health and Social Care Trust
http://dx.doi.org/10.1101/256081 2018-01-30 Offline coil position denoising enhances detection of TMS effects Leonardo Claudino|Sara J Hussain|Ethan R Buch|Leonardo G Cohen Human Cortical Physiology and Neurorehabilitation Section, NINDS, NIH
http://dx.doi.org/10.1101/256537 2018-01-30 Escherichia coli β-clamp slows down DNA polymerase I dependent nick translation while accelerating ligation Amit Bhardwaj|Debarghya Ghose|Krishan Gopal Thakur|Dipak Dutta CSIR Institute of Microbial Technology
http://dx.doi.org/10.1101/256818 2018-01-30 Bend-Induced Twist Waves and the Structure of Nucleosomal DNA Enrico Skoruppa|Stefanos K Nomidis|John F Marko|Enrico Carlon KU Leuven;|Northwestern University
http://dx.doi.org/10.1101/256016 2018-01-30 CC BY-NC-ND Subjective confidence reveals the hierarchical nature of learning under uncertainty Micha Heilbron|Florent Meyniel CEA
http://dx.doi.org/10.1101/256420 2018-01-30 CC BY-NC-ND Predicting Human Protein Function with Multi-task Deep Neural Networks Rui Fa|Domenico Cozzetto|Cen Wan|David T. Jones The Francis Crick Institute
http://dx.doi.org/10.1101/256040 2018-01-30 CC BY-ND RNAi screening of the tyrosine kinome in primary patient samples of acute myeloid leukemia David Edwards|Fatma Eryildiz|Jeffrey W Tyner Oregon Health & Science University;|Oregon Heatlh & Science University
http://dx.doi.org/10.1101/256651 2018-01-30 AMPKi overcomes the paradoxical activation of CRAF driven by RAF inhibitors through blocking the 14-3-3 binding to its carboxyl-terminus Jimin Yuan|Wan Hwa Ng|Jiajun Yap|Brandon Chia|Xuchao Huang|Mei Wang|Jiancheng Hu National Cancer Centre Singapore;|Duke-NUS Medical School
http://dx.doi.org/10.1101/256636 2018-01-30 CC BY-ND The contribution of non-canonical splicing mutations to severe dominant developmental disorders Jenny Lord|Giuseppe Gallone|Patrick J. Short|Jeremy F. McRae|Holly Ironfield|Elizabeth H. Wynn|Sebastian S. Gerety|Liu He|Bronwyn Kerr|Diana S. Johnson|Emma McCann|Esther Kinning|Frances Flinter|I. Karen Temple|Jill Clayton-Smith|Meriel McEntagart|Sally Ann Lynch|Shelagh Joss|Sofia Douzgou|Tabib Dabir|Virginia Clowes|Vivienne P. M. McConnell|Wayne Lam|Caroline F. Wright|David R. FitzPatrick|Helen V. Firth|Jeffrey C. Barrett|Matthew E. Hurles Wellcome Sanger Institute;|Manchester University Hospitals NHS Foundation Trust; University of Manchester;|Sheffield Children's Hospital;|Liverpool Women's Hospital Foundation Trust;|West of Scotland Regional Genetics Service;|South East Thames Regional Genetics Centre;|University of Southampton; Wessex Clinical Genetics Service;|South West Thames Regional Genetics Centre;|Temple Street Children's Hospital;|Northern Ireland Regional Genetics Centre;|North West Thames Regional Genetics Service;|Northern Ireland Regional Genetics Service;|MRC Human Genetics Unit, University of Edinburgh;|Institute of Biomedical and Clinical Science, University of Exeter;|East Anglian Medical Genetics Service; Wellcome Sanger Institute;|-
http://dx.doi.org/10.1101/255489 2018-01-30 The emotional valence and features of subliminal priming images impact conscious perception of facial expressions Melissa A. Huang|Kunjan D. Rana|Lucia Maria Vaina Boston University
http://dx.doi.org/10.1101/254748 2018-01-30 CC BY-NC-ND Transient fibrosis resolves via fibroblast inactivation in the regenerating zebrafish heart Hector Sanchez-Iranzo|Maria Galardi-Castilla|Andres Sanz-Morejon|Juan Manuel Gonzalez-Rosa|Ricardo Costa|Alexander Ernst|Julio Sainz de Aja|Javier Langa|Nadia Mercader Development of the Epicardium Group, CNIC, Madrid, Spain;|Development of the Epicardium Group, CNIC, Madrid, Spain; University of Bern, Switzerland;|Cardiovascular Research Center, Massachusetts General Hospital and Harvard Medical School, Boston;|Tech Transfer activities at CRAG, Barcelona, Spain;|University of Bern, Switzerland;|Functional Genomics Group, CNIC, Madrid, Spain
http://dx.doi.org/10.1101/255935 2018-01-30 CC BY-NC-ND Visualizing BDNF cell-to-cell transfer reveals astrocytes are the primary recipient of neuronal BDNF Markus A. Stahlberg|Sebastian Kuegler|Camin Dean European Neuroscience Institute Goettingen;|University Medical Center Goettingen
http://dx.doi.org/10.1101/256693 2018-01-30 CC BY-NC-ND Spatio-Temporal Gene Discovery For Autism Spectrum Disorder Utku Norman|A. Ercument Cicek Bilkent University
http://dx.doi.org/10.1101/256768 2018-01-30 CC BY Limb bone scaling in hopping diprotodonts and quadrupedal artiodactyls Michael Doube|Alessandro A Felder|Melissa Ying Chua|Kalyani Lodhia|Micha M Kosowski|John R Hutchinson|Sandra J Shefelbine The Royal Veterinary College;|Imperial College London;|Northeastern University
http://dx.doi.org/10.1101/256263 2018-01-30 What is an archaeon and are the Archaea really unique? Ajith Harish Uppsala University
http://dx.doi.org/10.1101/256677 2018-01-30 CC BY-NC-ND SPADIS: An Algorithm for Selecting Predictive and Diverse SNPs in GWAS Serhan Yilmaz|Oznur Tastan|A. Ercument Cicek Bilkent University;|Sabanci University
http://dx.doi.org/10.1101/256602 2018-01-30 Neuroscience CC BY-NC-ND Inhibition of Hsp70 suppresses neuronal hyperexcitability and attenuates seizures by enhancing A-type potassium currents Fang Hu|Jingheng Zhou|Yanxin Lu|Lizhao Guan|Ningning Wei|Zhuo Huang|Yiquan Tang|KeWei Wang Qingdao University, China;|Peking University, China;|Peking University Health Science Center, China
http://dx.doi.org/10.1101/254821 2018-01-30 Neuroscience Combinatorial Tissue Engineering Partially Restores Function after Spinal Cord Injury Jeffrey Hakim|Brian Rodysill|Bingkun K Chen|Ann Schmeichel|Michael J Yaszemski|Anthony Windebank|Nicolas Madigan Mayo Clinic
http://dx.doi.org/10.1101/254953 2018-01-30 Plant Biology CC BY-NC FlowPot axenic plant growth system for microbiota research James M. Kremer|Bradley C. Paasch|David Rhodes|Caitlin Thireault|John E. Froehlich|Paul Schulze-Lefert|James M. Tiedje|Sheng Yang He Michigan State University, East Lansing, MI 48824, USA;|Max Planck Institute for Plant Breeding Research, 50829 Cologne, Germany
http://dx.doi.org/10.1101/256578 2018-01-30 Physiology CC BY A phenomenological model of the time course of maximal voluntary isometric contraction force for optimization of complex loading schemes Johannes L. Herold|Christian Kirches|Johannes P. Schloder Heidelberg University, Heidelberg, Germany;|Technische Universität Carolo-Wilhelmina zu Braunschweig, Braunschweig, Germany
http://dx.doi.org/10.1101/256156 2018-01-30 Bioinformatics CC BY Asymptotically optimal minimizers schemes Guillaume Marcais|Dan DeBlasio|Carleton Kingsford Carnegie Mellon University
http://dx.doi.org/10.1101/255554 2018-01-30 Evolutionary Biology CC BY-NC-ND Evolution at two time frames: polymorphisms from an ancient singular divergence event fuel contemporary parallel evolution Steven Van Belleghem|Carl Vangestel|Katrien De Wolf|Zoe De Corte|Markus Moest|Pasi Rastas|Luc De Meester|Frederik Hendrickx Cambridge University;|Royal Belgian Institute of Natural Sciences;|Institute of Ecology, University of Innsbruck;|Ecological Genetics Research Unit, Department of Biosciences, University of Helsinki;|Laboratory of Aquatic Ecology, Evolution and Conservation, KU Leuven
http://dx.doi.org/10.1101/256669 2018-01-30 Pharmacology and Toxicology CC BY-NC-ND Antimalarial pantothenamide metabolites target acetyl-CoA synthesis in Plasmodium falciparum Erik L Allman|Christien A Beuckens-Schortinghuis|Richard H Blaauw|Judith M Bolscher|Roger Bonnert|Peter NM Botman|Brice Campo|Koen J Dechering|Cristophe Fischli|Pedro HH Hermkens|Suzanne Jockowski|Patrick AM Jansen|Taco WA Kooij|Karin M Koolen|Karen Miller|Manuel Llinas|Helmi Pett|Stacy Reeves|Floris PJT Rutjes|Robert Sauerwein|Sibylle Sax|Joost Schalkwijk|Christian Scheurer|Graham Trevitt|Martijn W Vos|Laura E De Vries|Sergio Wittlin|Gabrielle Josling Pennsylvania State University;|Chiralix;|TropIQ Health Sciences;|Medicines for Malaria Venture;|Swiss Tropical and Public Health Institute;|Hermkens Pharma Consultancy;|St. Jude Children's Research Hospital;|Radboud University Nijmegen Medical Center;|Radboud University;|XenoGesis Ltd
http://dx.doi.org/10.1101/256248 2018-01-30 Evolutionary Biology CC BY-NC-ND Honesty needs no cost: beneficial signals can be honest and evolutionarily stable Szabolcs Szamado MTA Centre for Social Sciences
http://dx.doi.org/10.1101/256719 2018-01-30 Genomics CC BY A complete nanonpore-only assembly of an XDR Mycobacterium tuberculosis Beijing lineage strain identifies novel genetic variation in repetitive PE/PPE gene regions Arnold Bainomugisa|Tania Duarte|Evelyn Lavu|Sushil Pandey|Chris Coulter|Ben Marais|Lachlan Coin The University of Queensland;|Central Public Health Laboratory, Port Moresby, Papua New Guinea;|Queensland Mycobacteria Reference Laboratory, Brisbane, Australia;|Marie Bashir Institute for Infectious Diseases and Biosecurity, University of Sydney
http://dx.doi.org/10.1101/256412 2018-01-30 Genetics CC BY-NC-ND Reconciling S-LDSC and LDAK functional enrichment estimates Steven Gazal|Hilary K Finucane|Alkes L Price Harvard T.H. Chan School of Public Health; Broad Institute of MIT and Harvard;|Broad Institute of MIT and Harvard
http://dx.doi.org/10.1101/256594 2018-01-30 Genomics CC BY-NC-ND Time- and cost-efficient high-throughput transcriptomics enabled by Bulk RNA Barcoding and sequencing Daniel Alpern|Vincent Gardeux|Julie Russeil|Bart Deplancke Institute of Bioengineering, Ecole Polytechnique Federale de Lausanne (EPFL)
http://dx.doi.org/10.1101/256149 2018-01-30 Microbiology CC BY-NC Infection By A Giant Virus Induces Widespread Physiological Reprogramming In Aureococcus anophagefferens – A Harmful Bloom Algae Mohammad Moniruzzaman|Eric R. Gann|Steven W. Wilhelm Department of Microbiology, The University of Tennessee
http://dx.doi.org/10.1101/256354 2018-01-30 Bioinformatics CC BY DREAM-Yara: An implementation of an exact read mapper for very large databases Temesgen Hailemariam Dadi|Vitor Piro|Andreas Andrusch|Enrico Seiler|Bernhard Renard|Knut Reinert Freie Universitaet Berlin;|Robert Koch Institute
http://dx.doi.org/10.1101/255653 2018-01-30 Neuroscience CC BY-NC High-throughput automatic training system for odor-based learned behaviors in head-fixed mice Zhe Han|Xiaoxing Zhang|Jia Zhu|Yulei Chen|Chengyu Li Institute of Neuroscience, State Key Laboratory of Neuroscience, Chinese Academy of Sciences
http://dx.doi.org/10.1101/255745 2018-01-30 Biochemistry CC BY iTAP, a novel iRhom interactor, controls TNF secretion by policing the stability of iRhom/TACE Ioanna Oikonomidi|Emma Burbridge|Miguel Cavadas|Graeme Sullivan|Danielle Clancy|Blanka Collis|Jana Brezinova|Jana Humpolickova|Tianyi Hu|Andrea Bileck|Christopher Gerner|Alfonso Bolado|Alex von Kriegsheim|Kvido Strisovsky|Seamus J Martin|Colin Adrain Instituto Gulbenkian de Ciência;|Trinity College, Dublin;|Institute of Organic Chemistry and Biochemistry AS CR;|IGC;|University of Vienna;|University of Edinburgh;|Instituto Gulbenkian de Ciência (IGC)
http://dx.doi.org/10.1101/256123 2018-01-30 Systems Biology CC BY-NC-ND Lineage space and the propensity of bacterial cells to undergo growth transitions Arnab Bandyopadhyay|Christian Ray University of Kansas
http://dx.doi.org/10.1101/255299 2018-01-30 Genomics CC BY-ND A meta-analysis of the diagnostic sensitivity and clinical utility of genome sequencing, exome sequencing and chromosomal microarray in children with suspected genetic diseases Michelle M Clark|Zornitza Stark|Lauge Farnaes|Tiong Y Tan|Susan M White|David Dimmock|Stephen F Kingsmore Rady Childrens Institute for Genomic Medicine;|Murdoch Childrens Research Institute, Melbourne, Australia;|Rady Childrens Institute for Genomic Medicine, San Diego, CA, USA;|Rady Childrens Institute for Genomic Medicine, San Diego, CA
http://dx.doi.org/10.1101/255323 2018-01-30 Neuroscience Sleep problems are associated with hypersensitivity to touch in children with autism Orna Tzischinsky|Gal Meiri|Liora Manelis|Asif Bar-Sinai|Hagit Fluser|Analya Michaelovski|Orit Zivan|Michal Ilan|Michal Faroy|Idan Menashe|Ilan Dinstein Emek Yesreel College;|Soroka University Medical Center;|Ben Gurion University
http://dx.doi.org/10.1101/255802 2018-01-30 Biochemistry CC BY FRMD8 promotes inflammatory and growth factor signalling by stabilising the iRhom/ADAM17 sheddase complex Ulrike Kunzel|Adam Graham Grieve|Yao Meng|Sally A Cowley|Matthew Freeman University of Oxford
http://dx.doi.org/10.1101/255448 2018-01-30 Bioengineering A robot-based gait training therapy for pediatric population with Cerebral Palsy: goal setting, proposal and preliminary clinical implementation Cristina Bayon|Teresa Martin-Lorenzo|Beatriz Moral-Saiz|Oscar Ramirez|Alvaro Perez-Somarriba|Sergio Lerma-Lara|Ignacio Martinez-Caballero|Eduardo Rocon Spanish National Research Council;|Hospital Niño Jesus;|Universidad de La Salle
http://dx.doi.org/10.1101/256347 2018-01-30 Neuroscience CC BY-NC-ND Prospective control of movement in the basal ganglia David Lee|Apostolos Georgopoulos|Gert-Jan Pepping University of Edinburgh;|University of Minnesota;|Australian Catholic University
http://dx.doi.org/10.1101/255166 2018-01-30 Neuroscience Reactivation of neural patterns during memory reinstatement supports encoding specificity Tobias Staudigl|Simon Hanslmayr Donders Centre for Cognitive Neuroimaging;|University of Birmingham, School of Psychology
http://dx.doi.org/10.1101/255893 2018-01-30 Bioinformatics CC BY-NC-ND LFMM 2.0: Latent factor models for confounder adjustment in genome and epigenome-wide association studies Kevin Caye|Olivier Francois Univ. Grenoble Alpes
http://dx.doi.org/10.1101/255794 2018-01-30 Neuroscience CC BY Binding during sequence learning does not alter cortical representations of individual actions Patrick Beukema|Jorn Diedrichsen|Timothy Verstynen University of Pittsburgh;|University of Western Ontario;|Carnegie Mellon University
http://dx.doi.org/10.1101/255455 2018-01-30 Neuroscience Cocaine Self-Administration and Time-dependent Decreases in Prelimbic Activity Torry S Dennis|Thomas C Jhou|Jacqueline F McGinty St Mary's College of Maryland;|Medical University of South Carolina
http://dx.doi.org/10.1101/255141 2018-01-30 Neuroscience Accurate Prediction of Alzheimer's Disease Using Multi-Modal MRI and High-Throughput Brain Phenotyping Yun Wang|Chenxiao Xu|Seonjoo Lee|Yaakov Stern|Jong Hun Kim|Shinjae Yoo|Hyoung Seop Kim|Jiook Cha Department of Psychiatry, Columbia University Medical Center, New York, NY, USA;|Department of Applied Mathematics, Stony Brook University, Stony Brook, NY, USA;|Department of Biostatistics, School of Public Health, Columbia University Medical Center, New York;|Department of Neurology, Columbia University Medical Center, New York, NY, USA;|Dept of Neurology; Dept of Rehabilitation Medicine, Natl Health Ins Service Ilsan Hospital, ROK;|Computational Science Initiative, Brookhaven National Laboratory, Upton, NY, USA
http://dx.doi.org/10.1101/255315 2018-01-30 Bioinformatics CC BY-NC-ND Imputation of posterior linkage probability relations reveals a significant influence of structural 3D constraints on linkage disequilibrium Susanne Gerber|David Fournier|Charlotte Hewel|Illia Horenko Johannes Gutenberg University of Mainz;|Universita della svizzera italiana
http://dx.doi.org/10.1101/254102 2018-01-30 Genomics A high-quality sequence of Rosa chinensis to elucidate genome structure and ornamental traits Laurence Hibrand|Tom Ruttink|Latifa Hamama|Ilya Kirov|Deepika Lakhwani|Ning-Ning Zhou|Peter Bourke|Nicolas Daccord|Leen Leus|Dietmar Schulz|Henri Van deGeest|Thamara Hesselink|Katrijn Van Laere|Sandrine Balzergue|Tatiana Thouroude|Annie Chastellier|Julien Jeauffre|Linda Voisine|Sylvain Gaillard|Theo Borm|Paul Arens|Roeland Voorrips|Chris Maliepaard|Enzo Neu|Marcus Linde|Marie-Christine Le Paslier|Aurelie Berard|Remi Bounon|Jeremy Clotault|Nathalie Choisne|Hadi Quesneville|Koji Kawamura|Sebastien Aubourg|Soulaiman Sakr|Rene Smulder|Elio Schijlen|Etienne Bucher|Thomas Debener|Jan De Riek|Fabrice Foucher INRA, Institut de Recherche en Horticulture et Semences, Angers, France;|ILVO, Flanders Research Institute for Agriculture, Melle, Belgium;|University of Angers, Institut de Recherche en Horticulture et Semences, Angers, France;|Russian State Agrarian University-Moscow Timiryazev Agricultural Academy, Moscow, Russia;|Plant Breeding, Wageningen University & Research, Wageningen, The Netherlands;|ILVO, Flanders Research Institute for Agriculture, Fisheries and Food, Plant Sciences Unit, Belgium;|Leibniz Universitat, Hannover, Germany;|Wageningen University & Research, business unit Bioscience, Wageningen, The Netherlands;|INRA, US 1279 EPGV, Universite Paris-Saclay, F-91000 Evry, France;|URGI, INRA, Universite Paris-Saclay, 78026, Versailles, France;|Osaka Institute of Technology, Osaka, Japan;|Agrocampus-Ouest, Institut de Recherche en Horticulture et Semences, Angers, France
http://dx.doi.org/10.1101/253955 2018-01-30 Plant Biology CC BY-NC-ND Paleochronic reversion in Psophocarpus: Dynamics II, rhizogeny on floral anatomic fields Edward G F Benya UNISINOS (Univeridade do Vale do Rio dos Sinos)
http://dx.doi.org/10.1101/256370 2018-01-30 Evolutionary Biology CC BY-NC-ND The role of equilibrium cost in the evolution of honest signalling: waste or optimal investment? Szabolcs Szamado|Dustin J. Penn MTA Centre for Social Sciences;|Konrad Lorenz Inst of Ethology, Dept of Integrative Biology & Evolution, Univ of Vet Med, Vienna
http://dx.doi.org/10.1101/252510 2018-01-30 Ecology CC BY-ND Alien leaf beetles of European Russia: native ranges, invasion history, biology and vectors of dispersal Andrzej O Bienkowski|Marina J Orlova-Bienkowskaja A.N. Severtsov Institute of Ecology and Evolution, Russian Academy of Sciences
http://dx.doi.org/10.1101/256305 2018-01-30 Evolutionary Biology Opposing effects of population density and stress on Escherichia coli mutation rate Rok Krasovec|Huw Richards|Danna R Gifford|Roman V Belavkin|Alastair Channon|Elizabeth Aston|Andrew J McBain|Christopher G Knight The University of Manchester;|Middlesex University;|Keele University
http://dx.doi.org/10.1101/256404 2018-01-30 Ecology CC BY-NC-ND Durability of environment-recruitment relationships in aquatic ecosystems: insights from long-term monitoring in a highly modified estuary and implications for management Natascia Tamburello|Brendan M. Connors|David Fullerton|Corey C. Phillis ESSA Technologies Ltd.;|Fisheries and Oceans Canada;|Metropolitan Water District of Southern California
http://dx.doi.org/10.1101/256396 2018-01-30 Genetics CC BY-NC-ND SciLMM: Computing heritability with millions of individuals Tal Shor|Dan Geiger|Yaniv Erlich|Omer Weissbrod Technion - Israel Institute of Science;|Technion - Israel Institute of Technology;|MyHeritage Ltd;|Harvard School of Public Health
http://dx.doi.org/10.1101/256024 2018-01-29 Cell Biology Hematopoietic stem cells differentiate into restricted myeloid progenitors before cell division Tatyana Grinenko|Anne Eugster|Lars Thielecke|Beata Ramazs|Anja Krueger|Sevina Dietz|Ingmar Glauche|Alexander Gerbaulet|Malte von Bonin|Onur Basak|Hans Clevers|Triantafyllos Chavakis|Ben Weilockx Dept of Clin Pathobiochemistry, Inst for Clin Chem & Laboratory Med, Technische Univ, Dresden;|DFG Res Ctr & Cluster of Excellence for Regenerative Therapies Dresden, Technische Univ, Dresden;|Institute for Medical Informatics and Biometry (IMB), Technische University Dresden, Germany;|Institute for Immunology, Technische University, Dresden, Germany;|Medical Clinic & Policlinic I, University Hospital Carl Gustav Carus, Technische Univ Dresden;|Hubrecht Inst, Royal Netherlands Acad of Arts & Sciences; Univ Medical Ctr Utrecht
http://dx.doi.org/10.1101/254995 2018-01-29 Neuroscience CC BY-NC-ND Linking signal detection theory and encoding models to reveal independent neural representations from neuroimaging data Fabian A. Soto|Lauren E. Vucovich|F. Gregory Ashby Florida International University;|University of California, Santa Barbara
http://dx.doi.org/10.1101/255638 2018-01-29 Genomics CC BY Frequent sgRNA-barcode Recombination in Single-cell Perturbation Assays Shiqi Xie|Anne Cooley|Daniel Armendariz|Pei Zhou|Gary Hon UT Southwestern Medical Center
http://dx.doi.org/10.1101/256271 2018-01-29 Biochemistry CC BY-ND Artefactual formation of pyruvate from in-source conversion of lactate Nathaniel W Snyder|Sophie Trefely|Clementina Mesaros|Pening Xu|Mary Doan|Helen Jiang|Oya Altinok|Zulfiya Orynbayeva A.J. Drexel Autism Institute, Drexel University;|University of Pennsylvania;|Department of Surgery, Drexel University College of Medicine
http://dx.doi.org/10.1101/256065 2018-01-29 Bioinformatics CC BY-NC-ND Assessment of an organ-specific de novo transcriptome of the nematode trap-crop, Solanum sisymbriifolium Alexander Q Wixom|Carol Casavant|Joseph C Kuhl|Fangming Xiao|Louise-Marie Dandurand|Allan B Caplan University of Idaho, United States
http://dx.doi.org/10.1101/256313 2018-01-29 Evolutionary Biology CC BY Massively parallel dissection of human accelerated regions in human and chimpanzee neural progenitors Hane Ryu|Fumitaka Inoue|Sean Whalen|Alex Williams|Martin Kircher|Beth Martin|Beatriz Alvarado|Md. Abul Hassan Samee|Kathleen Keough|Sean Thomas|Arnold Kriegstein|Jay Shendure|Alex Pollen|Nadav Ahituv|Katherine Pollard University of California, San Francisco;|Gladstone Institutes;|Gladstone Instistutes;|University of Washington & Berlin Institute of Health;|University of Washington;|Gladstone Institutes & University of California, San Francisco
http://dx.doi.org/10.1101/256073 2018-01-29 Immunology CC BY-NC-ND Immune cellular homeostasis in early life is determined by genetic variants of cellular production and turnover Tania Dubovik|Elina Starosvetsky|Benjamin LeRoy|Rachelly Normand|Yasmin Admon|Ayelet Alpert|Yishai Ofran|Max G'Sell|Shai S. Shen-Orr Technion - Israel Institute of Technology, Haifa, Israel;|Department of Statistics, Carnegie Mellon University, Pittsburgh, USA;|Department of Hematology, Rambam Health Care Campus, Haifa, Israel
http://dx.doi.org/10.1101/255265 2018-01-29 Genomics A saturation mutagenesis approach to understanding PTEN lipid phosphatase activity and genotype-phenotypes relationships Taylor L Mighell|Sara Evans-Dutson|Brian O'Roak Oregon Health & Science University;|Oregon Health and Science University
http://dx.doi.org/10.1101/255885 2018-01-29 Systems Biology CC BY-NC-ND When metabolism meets physiology: Harvey and Harvetta Ines Thiele|Swagatika Sahoo|Almut Heinken|Laurent Heirendt|Maike K. Aurich|Alberto Noronha|Ronan M. T. Fleming University of Luxembourg, Luxembourg Centre for Systems Biomedicine
http://dx.doi.org/10.1101/256362 2018-01-29 Plant Biology Kinetics of winter deacclimation in response to temperature determines dormancy status and quantifies chilling requirement in grapevines (Vitis spp.) Alisson P Kovaleski|Bruce I Reisch|Jason P Londo Cornell University;|United States Department of Agriculture, Agricultural Research Service, Grape Genetics Research Unit
http://dx.doi.org/10.1101/254334 2018-01-29 Genomics CC BY-ND On the design of CRISPR-based single cell molecular screens Andrew J Hill|Jose L McFaline-Figueroa|Lea M Starita|Molly J Gasperini|Kenneth A Matreyek|Jonathan Packer|Dana Jackson|Jay Shendure|Cole Trapnell University of Washington
http://dx.doi.org/10.1101/256487 2018-01-29 Biophysics CC BY-NC-ND Sequence-dependent Three Interaction Site (TIS) Model for Single and Double-stranded DNA Debayan Chakraborty|Naoto Hori|Dave Thirumalai The University of Texas at Austin;|University of Texas at Austin
http://dx.doi.org/10.1101/255844 2018-01-29 Cancer Biology Genome-wide identification of CDC34 that stabilizes EGFR and promotes lung carcinogenesis Xin-Chun Zhao|Gui-Zhen Wang|Yong-Chun Zhou|Jie Liu|Liang Ma|Chen Zhang|Da-Lin Zhang|San-Hui Gao|Li-Wei Qu|Bin Zhang|Chang-Li Wang|Yun-Chao Huang|Liang Chen|Guang-Biao Zhou University of Science and Technology of China;|Institute of Zoology, Chinese Academy of Sciences;|The Third Affiliated Hospital of Kunming Medical University;|Tianjin Lung Cancer Center;|Jinan University
http://dx.doi.org/10.1101/255976 2018-01-29 Cell Biology A role for RNA and DNA:RNA hybrids in the modulation of DNA repair by homologous recombination Giuseppina D'Alessandro|Marek Adamowicz|Donna Whelan|Sean Michael Howard|Corey Winston Jones-Weinert|Valentina Matti|Eli Rothenberg|Petr Cejka|Fabrizio d'Adda di Fagagna IFOM, the FIRC Institute of Molecular Oncology, Via Adamello 16, 20139 Milan, Italy;|Genome Damage and Stability Centre, School of Life Sciences, University of Sussex, Falmer, Brighton;|Department of Biochemistry and Molecular Pharmacology, NYU School of Medicine, New York, USA;|Department of Biology, Institute of Biochemistry, Swiss Federal Institute of Technology, Zurich
http://dx.doi.org/10.1101/255950 2018-01-29 Biophysics Homeostasis of protein and mRNA concentrations in growing cells Jie Lin|Ariel Amir Harvard University
http://dx.doi.org/10.1101/254946 2018-01-29 Cancer Biology Targeting the SUMO pathway primes all-trans-retinoic acid-induced differentiation of non promyelocytic Acute Myeloid Leukemias Hayeon Baik|Mathias Boulanger|Mohsen Hosseini|Julie Kowalczyk|Sonia Zaghdoudi|Tamara Salem|Jean-Emmanuel Sarry|Yosr Hicheri|Guillaume Cartron|Marc Piechaczyk|guillaume bossis IGMM, CNRS, UNIV.MONTPELLIER, MONTPELLIER, FRANCE;|CRCT, Inserm, Toulouse University;|Service d'hematologie Cinique, CHU de Montpellier
http://dx.doi.org/10.1101/254730 2018-01-29 Systems Biology CC BY-NC-ND Capturing context-specific regulation in molecular interaction networks Stephen Rush|Dirk Repsilber Oerebro Universitet
http://dx.doi.org/10.1101/256214 2018-01-29 Biophysics CC BY-NC-ND Determining a reasonable range of relative numerical tolerance values for simulating deterministic models of biochemical reactions Ming Yang|Louis Z. Yang Oklahoma State University;|University of Southern California
http://dx.doi.org/10.1101/257253 2018-01-30 CC BY Modeling the mutation and reversal of engineered underdominance gene drives Matthew Edgington|Luke Alphey The Pirbright Institute, United Kingdom
http://dx.doi.org/10.1101/257220 2018-01-30 CC BY-NC-ND Quantifying Waddington's epigenetic landscape: a comparison of single-cell potency measures Jifan Shi|Andrew Teschendorff|Weiyan Chen|Luonan Chen|Tiejun Li Peking University;|University College London and Chinese Academy of Sciences;|Shanghai Institute of Biological Sciences
http://dx.doi.org/10.1101/257246 2018-01-30 Inferring the probability of the derived versus the ancestral allelic state at a polymorphic site Peter D. Keightley|Benjamin Jackson University of Edinburgh, United Kingdom
http://dx.doi.org/10.1101/257048 2018-01-30 CC BY Unsupervised embedding of single-cell Hi-C data Jie Liu|Dejun Lin|Gurkan Yardimci|William Noble University of Washington
http://dx.doi.org/10.1101/256008 2018-01-30 CC BY Machine learning models in electronic health records can outperform conventional survival models for predicting patient mortality in coronary artery disease Andrew J. Steele|S. Aylin Cakiroglu|Anoop D. Shah|Spiros C. Denaxas|Harry Hemingway|Nicholas M. Luscombe Francis Crick Institute;|Farr Institute of Health Informatics Research
http://dx.doi.org/10.1101/254870 2018-01-30 CC BY-NC-ND Data mining and classification of polycystic ovaries in pelvic ultrasound reports Jay Jojo Cheng|Shruthi Mahalingaiah Boston University School of Medicine
http://dx.doi.org/10.1101/256032 2018-01-30 CC BY-NC-ND Analog Signalling with 'Digital' Molecular Switches Stephen E Clarke Stanford University
http://dx.doi.org/10.1101/214973 2018-01-30 CC BY-NC-ND Genome-wide Analysis of Insomnia (N=1,331,010) Identifies Novel Loci and Functional Pathways Philip R Jansen|Kyoko Watanabe|Sven Stringer|Nathan Skene|Julien Bryois|Anke R Hammerschlag|Chrstiaan A de Leeuw|Jeroen Benjamins|Ana B Munoz-Manchado|Mats Nagel|Jeanne E Savage|Henning Tiemeier|Tonya White|Joyce Y Tung|David A Hinds|Vladimir Vacic|Patrick F Sullivan|Sophie van der Sluis|Tinca JC Polderman|August B Smit|Jens Hjerling-Leffler|Eus JW van Someren|Danielle Posthuma VU University;|Karolinska Institutet;|Utrecht University;|Erasmus University Medical Center;|23andMe, Inc.;|University of North Carolina;|Netherlands Institute for Neuroscience
http://dx.doi.org/10.1101/257105 2018-01-30 Biochemistry Intron-mediated enhancement boosts Rtn4 circRNA expression: A robust method for exploring circRNA function Dingding Mo|Xinping Li Max Planck Institute for Biology of Ageing
http://dx.doi.org/10.1101/256438 2018-01-30 Synthetic Biology CC BY-NC-ND On a Robust, Sensitive Cell-Free Method for Pseudomonas Sensing and Quantification Jong Seto|Paul Buske|Matthew Laurie University of California, San Francisco
http://dx.doi.org/10.1101/256529 2018-01-30 Bioinformatics CC BY-NC-ND Ontology-based validation and identification of regulatory phenotypes Maxat Kulmanov|Paul N Schofield|Georgios V Gkoutos|Robert Hoehndorf King Abdullah University of Science and Technology;|University of Cambridge;|University of Birmingham
http://dx.doi.org/10.1101/257014 2018-01-30 Cancer Biology CC BY-NC Deconvolution and phylogeny inference of structural variations in tumor genomic samples Jesse Eaton|Jingyi Wang|Russell Schwartz Carnegie Mellon University
http://dx.doi.org/10.1101/257097 2018-01-30 Animal Behavior and Cognition CC BY-NC-ND Social behavior and anxiety contribute to nicotine self-administration in adolescent outbred rats Tengfei Wang|Wenyan Han|Apurva Chitre|Oksana Polesskaya|Leah C. Solberg Woods|Abraham A Palmer|Hao Chen University of Tennessee Health Science Center;|University of California, San Diego;|Wake Forest School of Medicine, Winston-Salem
http://dx.doi.org/10.1101/256180 2018-01-30 Bioinformatics CC BY Label-free assessment of red blood cell storage lesions by deep learning Minh Doan|Joseph A. Sebastian|Pinto N. Pinto|Claire McQuin|Allen Goodman|Olaf Wolkenhauer|Michael J. Parsons|Jason P. Acker|Paul Rees|Holger Hennig|Michael C. Kolios|Anne E. Carpenter Imaging Platform, Broad Institute of MIT and Harvard, Cambridge, Massachusetts, United States;|Department of Electrical and Computer Engineering, Ryerson University, Toronto, Canada;|Department of Physics, Ryerson University, Toronto, Canada;|Department of Systems Biology & Bioinformatics, University of Rostock, Rostock, Germany;|Flow Cytometry Core Facilities, Lunenfeld-Tanenbaum Research Institute, Toronto, Canada;|Department of Laboratory Medicine and Pathology, University of Alberta, Edmonton, Alberta, Canada;|College of Engineering, Swansea University, Singleton Park, Swansea, United Kingdom
http://dx.doi.org/10.1101/256917 2018-01-30 Genetics CC BY-NC-ND Inherited DNA Repair Defects in Colorectal Cancer Saud AlDubayan|Marios Giannakis|Nathanael Moore|G. Celine Han|Brendan Reardon|Tsuyoshi Hamada|Xinmeng Jasmine|Reiko Nishihara|Zhirong Qian|Matthew Yurgelun|Sapna Syngal|Levi Garraway|Shuji Ogino|Charles Fuchs|Eliezer Van Allen Dana-Farber Cancer Institute; Harvard Medical School;|Dana-Farber Cancer Institute
http://dx.doi.org/10.1101/256974 2018-01-30 Evolutionary Biology CC BY-NC Decomposing parasite fitness in a two-host, two-parasite system reveals the underpinnings of parasite specialization Eva J.P. Lievens|Julie M.A. Perreau|Philip Agnew|Yannis Michalakis|Thomas Lenormand CEFE, CNRS-Universite de Montpellier-Universite P. Valery-EPHE;|MIVEGEC, CNRS-IRD-Universite de Montpellier
http://dx.doi.org/10.1101/256701 2018-01-30 Bioengineering Deep Learning personalised, closed-loop Brain-Computer Interfaces for multi-way classification Pablo Ortega|Cedric Colas|Aldo Faisal Imperial College London
http://dx.doi.org/10.1101/255497 2018-01-30 Genomics CC BY LiMMBo: a simple, scalable approach for linear mixed models in high-dimensional genetic association studies Meyer Verena Hannah|Francesco Paolo Casale|Oliver Stegle|Ewan Birney European Molecular Biology Laboratory - European Bioinformatics Institute;|Microsoft Research New England
http://dx.doi.org/10.1101/256867 2018-01-30 Bioengineering CC BY-NC-ND Wavelet for binocular vision modeling Louis Gaudart|Jean Gaudart Aix Marseille University
http://dx.doi.org/10.1101/256800 2018-01-30 Microbiology CC BY-NC-ND A proposal for a standardized bacterial taxonomy based on genome phylogeny Donovan H Parks|Maria Chuvochina|David W Waite|Christian Rinke|Adam Skarshewski|Pierre-Alain Chaumeil|Philip Hugenholtz School of Chemistry and Molecular Biosciences, The University of Queensland
http://dx.doi.org/10.1101/256198 2018-01-30 Immunology CC BY-NC-ND A contribution of FcγRIIIa cosignaling in TFH subset development in Systemic Lupus Erythematosus Anil K Chauhan Saint Louis University School of Medicine
http://dx.doi.org/10.1101/256883 2018-01-30 Microbiology CC BY-NC-ND Characterization of flagellar and toxin phase variation in Clostridium difficile ribotype 012 isolates Brandon R Anjuwon-Foster|Natalia Maldonado-Vazquez|Rita Tamayo University of North Carolina at Chapel Hill
http://dx.doi.org/10.1101/256057 2018-01-30 Microbiology Efficient enrichment cloning of TAL effector genes from Xanthomonas Tuan Tu Tran|Hinda Doucoure|Mathilde Hutin|Boris Szurek|Sebastien Cunnac|Ralf Koebnik IRD, Cirad, University of Montpellier, IPME, Montpellier, France
http://dx.doi.org/10.1101/256842 2018-01-30 Genetics CC BY DNA methylation mediates genetic liability to non-syndromic cleft lip/palate Laurence J Howe|Tom G Richardson|Ryan Arathimos|Lucas Alvizi|Maria-Rita Passos-Bueno|Philip Stanier|Ellen Nohr|Kerstin U Ludwig|Elisabeth Mangold|Michael Knapp|Evie Stergiakouli|Beate St Pourcain|George Davey Smith|Jonathan Sandy|Caroline L Relton|Sarah J Lewis|Gibran Hemani|Gemma C Sharp University of Bristol;|Universidade de Sao Paulo;|University College London;|Aarhus University;|University of Bonn;|Max Planck Institute for Psycholinguistics
http://dx.doi.org/10.1101/256834 2018-01-30 Bioinformatics CC BY-NC-ND Determining rewiring effects of alternatively spliced isoforms on protein-protein interactions using a computational approach Oleksandr Narykov|Nathan Johnson|Dmitry Korkin Worcester Polytechnic Institute
http://dx.doi.org/10.1101/256875 2018-01-30 Genomics CC BY Transcriptomic analyses reveal tissue-specific selection on genes related to apoptotic processes in the subterranean rodent, Ctenomys sociabilis Andrew Lang|Lauren Kordonowy|Eileen Lacey|Matthew MacManes University of New Hampshire;|University of California, Berkley
http://dx.doi.org/10.1101/256859 2018-01-30 Bioinformatics CC BY Sequence Alignment Through the Looking Glass Raja Appuswamy|Jacques Fellay|Nimisha Chaturvedi Data Science Department, EURECOM, France;|School of Life Sciences, EPFL, Switzerland
http://dx.doi.org/10.1101/257568 2018-01-31 Data-driven analysis of motor activity implicated 5-HT2A neurons in backward locomotion of larval Drosophila Jeonghyuk Park|Shu Kondo|Hiromu Tanimoto|Hiroshi Kohsaka|Akinao Nose University of Tokyo;|National Institute of Genetics;|Tohoku University
http://dx.doi.org/10.1101/256784 2018-01-31 clusterProfiler: universal enrichment tool for functional and comparative study Guangchuang Yu The University of Hong Kong
http://dx.doi.org/10.1101/257006 2018-01-31 CC BY-NC-ND The evolutionary dynamics of microRNAs in domestic mammals Luca Penso Dolfin|Simon Moxon|Wilfried Haerty|Federica Di Palma Earlham Institute;|University of East Anglia
http://dx.doi.org/10.1101/257675 2018-01-31 CC BY Caterpillars Count! A citizen science project for monitoring foliage arthropod abundance and phenology Allen H. Hurlbert|Tracie E. Hayes|Tara N. McKinnon|Christine L. Goforth University of North Carolina;|North Carolina Museum of Natural Sciences
http://dx.doi.org/10.1101/257717 2018-01-31 Pcdh18a-positive tip cells instruct notochord formation in zebrafish Bernadett Bosze|Benjamin Mattes|Claude Sinner|Kathrin Stricker|Victor Gourain|Thomas Thumberger|Sham Tlili|Sabrina Weber|Joachim Wittbrodt|Timothy E Saunders|Uwe Straehle|Alexander Schug|Steffen Scholpp Institute of Toxicology and Genetics, Karlsruhe Institute of Technology, Germany;|Steinbuch Centre for Computing, Karlsruhe Institute of Technology, Germany;|Centre for Organismal Studies, Heidelberg University, Germany;|Mechanobiology Institute, National University of Singapore, Singapore;|Living Systems Institute, Biosciences, University of Exeter, UK
http://dx.doi.org/10.1101/257592 2018-01-31 Regulation of (p)ppGpp hydrolysis by a conserved archetypal regulatory domain Severin Ronneau|Julien Caballero-Montes|Aurelie Mayard|Abel Garcia-Pino|Regis Hallez University of Namur;|ULB
http://dx.doi.org/10.1101/257642 2018-01-31 CC BY-NC ANIMA: Association Network Integration for Multiscale Analysis Armin Deffur|Robert J Wilkinson|Bongani M Mayosi|Nicola M Mulder University of Cape Town;|Francis Crick Institute, London
http://dx.doi.org/10.1101/255307 2018-01-31 Evolutionary Biology Ecological advantages and evolutionary limitations of aggregative multicellular development Jennifer T Pentz|Pedro Marquez-Zacarias|Peter J Yunker|Eric Libby|William C Ratcliff Georgia Institute of Technology;|Umeå University
http://dx.doi.org/10.1101/257519 2018-01-31 Plant Biology CC BY-NC A role for phylloquinone biosynthesis in the plasma membrane as revealed in a non-photosynthetic parasitic plant Xi Gu|Scott Harding|Batbayar Nyamdari|Kavita Aulakh|Kristen Clermont|James Westwood|Chung-Jui Tsai University of Georgia;|Virginia Polytechnic Institute and State University
http://dx.doi.org/10.1101/257543 2018-01-31 Plant Biology CC BY-NC-ND Mechanistic analysis of the SERK3 elongated allele defines a role for BIR ectodomains in brassinosteroid signaling Ulrich Hohmann|Joel Nicolet|Andrea Moretti|Ludwig A Hothorn|Michael Hothorn Department of Botany and Plant Biology, University of Geneva, Switzerland;|Institute of Biostatistics, Leibniz University, Hannover, Germany
http://dx.doi.org/10.1101/256933 2018-01-31 Neuroscience CC BY-ND Relationships between Human Brain Structural Connectomes and Traits Zhengwu Zhang|Genevera Allen|Hongtu Zhu|David Dunson University of Rochester;|Rice University;|University of Texas MD Anderson Cancer Center;|Duke University
http://dx.doi.org/10.1101/249383 2018-01-31 Microbiology Molecular determinants of Yellow Fever Virus pathogenicity in Syrian Golden Hamsters: one mutation away from virulence Raphaelle Klitting|Laura Roth|Felix Rey|Xavier de Lamballerie UMR EPV: "Emergence des Pathologies Virales", Aix-Marseille University, IRD 190, Inserm 1207;|Structural Virology Unit, Virology Department and CNRS UMR3569, Institut Pasteur
http://dx.doi.org/10.1101/257238 2018-01-31 Physiology CC BY-ND A Single Dose Of Ayahuasca Modulates Salivary Cortisol In Treatment-Resistant Depression Ana Cecilia Menezes Galvao|Raissa Nobrega Almeida|Erick Allan dos Santos Silva|Fulvio Aurelio de Morais Freire|Fernanda Palhano-Fontes|Heloisa Onias|Emerson Arcoverdee|Joao Paulo Maia-de-Oliveira|Draulio Araujo|Bruno Lobao-Soares|Nicole Leite Galvao-Coelho Universidade Federal do Rio Grande do Norte
http://dx.doi.org/10.1101/257378 2018-01-31 Neuroscience Anatomical, Physiological, and Functional Heterogeneity of the Dorsal Raphe Serotonin System Jing Ren|Drew Friedmann|Jing Xiong|Cindy D. Liu|Katherine E. DeLoach|Chen Ran|Albert Pu|Yanwen Sun|Brandon Weissbourd|Rachael L. Neve|Mark Horowitz|Liqun Luo Department of Biology, Stanford University;|Department of Electrical Engineering, Stanford University;|Department of Physics, Stanford University;|Delivery Technology Core, Massachusetts General Hospital;|Department of Biology, Stanford University; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/257303 2018-01-31 Genomics DNA Topoisomerase I differentially modulates R-loops across the human genome Stefano Manzo|Stella Regina Hartono|Lionel Sanz|Sara De Biasi|Andrea Cossarizza|Giovanni Capranico|Frederic Chedin University of Bologna, Bologna, Italy;|UC Davis;|University of Modena and Reggio Emilia, Modena, Italy
http://dx.doi.org/10.1101/257402 2018-01-31 Molecular Biology The plasma miR-122 basal levels respond to circulating catecholamine in rats Xu Peng|Qiao Li|Song Lu|Xueling He|Sisi Yu|Zhihui Zhang|Guohui Xu|Lu Li|Tinghan Yang|Jiang Zhu|Wenli Zhu|Zhigang Wu|Delun Luo|Jue Zhu|Binghe Xu|Jian Huang|Hailin Yin|Kai Xu Sichuan University;|Chinese Academy of Medical Sciences and Peking Union Medical College;|Sichuan Cancer Hospital & Institute;|Chengdu University of Traditional Chinese Medicine;|University of Electronic Science and Technology of China
http://dx.doi.org/10.1101/256610 2018-01-31 Microbiology Exploratory re-encoding of Yellow Fever Virus genome: analysis of in vitro and in vivo replicative phenotypes Raphaelle Klitting|Toilhata Riziki|Gregory Moureau|Geraldine Piorkowski|Xavier de Lamballerie UMR EPV: "Emergence des Pathologies Virales", Aix-Marseille University, IRD 190, Inserm 1207
http://dx.doi.org/10.1101/257204 2018-01-31 Developmental Biology Fragile X mental retardation protein is a size-dependent translational activator Ethan J Greenblatt|Allan C Spradling Carnegie Institution for Science;|Carnegie Institution of Washington
http://dx.doi.org/10.1101/257287 2018-01-31 Microbiology CC BY-NC-ND Ferroptosis-like signaling facilitates a potent innate defense against Plasmodium infection Heather S Kain|Nadia Arang|Elizabeth Glennon|Alyse N Douglass|Denali R Dudgeon|Jarrod S Johnson|Alan Aderem|Alexis Kaushansky Center for Infectious Disease Research
http://dx.doi.org/10.1101/257147 2018-01-31 Bioinformatics CC BY-NC-ND A Survey of Orbitrap All Ion Fragmentation Analysis Assessed by an R MetaboList Package to Study Small-molecule Metabolites Enrique Sentandreu|Manuel D Peris-Diaz|Shannon R Sweeney|Jennifer Chiou|Nathalie Munoz|Stefano Tiziani The University of Texas at Austin;|University of Wrocław
http://dx.doi.org/10.1101/256461 2018-01-31 Bioinformatics Pleiotropic Mapping and Annotation Selection in Genome-wide Association Studies with Pe-nalized Gaussian Mixture Models Ping Zeng|Xinjie Hao|Xiang Zhou Xuzhou Medical University;|University of Michigan
http://dx.doi.org/10.1101/257337 2018-01-31 Neuroscience CC BY-NC-ND Motor Cortex Encodes A Value Function Consistent With Reinforcement Learning Venkata S Aditya Tarigoppula|John S Choi|Jack H Hessburg|David B McNiel|Brandy T Marsh|Joseph Thachil Francis University of Houston;|SUNY Downstate Medical School;|SUNY Downstate medical school
http://dx.doi.org/10.1101/257162 2018-01-31 Genetics CC BY Bayesian model comparison for rare variant association studies of multiple phenotypes Christopher DeBoever|Matthew Aguirre|Yosuke Tanigawa|Chris C. A. Spencer|Timothy Poterba|Mark J. Daly|Matti Pirinen|Manuel A Rivas Stanford University;|Genomics plc;|Broad Institute of MIT and Harvard;|University of Helsinki
http://dx.doi.org/10.1101/257196 2018-01-31 Genomics Rapid multiplex small DNA sequencing on the MinION nanopore sequencing platform Shan Wei|Zev Williams|Zachary R Weiss Columbia University Medical Center, United States
http://dx.doi.org/10.1101/257451 2018-01-31 Molecular Biology CC BY-NC A stable mode of bookmarking by TBP recruits RNA Polymerase II to mitotic chromosomes Sheila S Teves|Luye An|Aarohi Bhargava-Shah|Liangqi Xie|Xavier Darzacq|Robert Tjian UC Berkeley;|Cornell University
http://dx.doi.org/10.1101/257170 2018-01-31 Neuroscience CC BY-NC-ND The behavioral and neurobiological effects of reduced Brd1 expression in mice are sex-biased and implicate gender dependent dysregulation of nuclear receptor mediated signaling in mental disorders Anto Praveen Rajkumar|Per Qvist|Sanne Hage Larsen|Ross Lazarus|Jonatan Pallesen|Nicoletta Nava|Gudrun Winther|Nico Liebenberg|Veerle Paternoster|Tue Fryland|Johan Palmfeldt|Kim Fejgin|Arne Mrk|Mette Nyegaard|Bente Pakkenberg|Michael Didriksen|Jens Randel Nyengaard|Gregers Wegener|Ole Mors|Jane Hvarregaard Christensen|Anders Dupont Brglum Aarhus University;|Baker IDI Heart and Diabetes Institute;|Aarhus University Hospital;|H. Lundbeck A/S;|Bispebjerg University Hospital
http://dx.doi.org/10.1101/257154 2018-01-31 Ecology CC BY-NC-ND Using river temperature to optimize fish incubation metabolism and survival: a case for mechanistic models James J Anderson University of Washington
http://dx.doi.org/10.1101/257295 2018-01-31 Ecology Predatory Behavior is Primary Predictor of Movement of Wildland-Urban Cougars Frances E Buderman|Mevin B Hooten|Mat Alldredge|Ephraim M Hanks|Jacob S Ivan Colorado State University;|U.S. Geological Survey, Colorado Cooperative Fish and Wildlife Research Unit;|Colorado Parks and Wildlife;|Pennsylvania State University
http://dx.doi.org/10.1101/257188 2018-01-31 Neuroscience Association of a lincRNA postmortem with suicide by violent means and in vivo with aggressive phenotypes Giovanna Punzi|Gianluca Ursini|Giovanna Viscanti|Eugenia Radulescu|Joo Heon Shin|Tiziana Quarto|Roberto Catanesi|Giuseppe Blasi|Andrew Jaffe|Amy Deep-Soboslay|Thomas Hyde|Joel Kleinman|Alessandro Bertolino|Daniel Weinberger Lieber Institute for Brain Development;|Aldo Moro University, Bari, Italy
http://dx.doi.org/10.1101/257410 2018-01-31 Microbiology CC BY-ND N6-methyladenosine Binding Proteins Negatively Regulate HIV-1 Infectivity and Viral Production Wuxun Lu|Nagaraja Tirumuru|Pratibha C. Koneru|Chang Liu|Mamuka Kvaratskhelia|Chuan He|Li Wu The Ohio State University;|University of Colorado School of Medicine;|The University of Chicago; Howard Hughes Medical Institute
http://dx.doi.org/10.1101/257428 2018-01-31 Evolutionary Biology CC BY-NC-ND Conservation of sex-linked markers among conspecific populations of a viviparous skink, Niveoscincus ocellatus, exhibiting genetic and temperature dependent sex determination Peta L Hill|Christopher P Burridge|Tariq Ezaz|Erik Wapstra University of Tasmania;|University of Canberra
http://dx.doi.org/10.1101/254904 2018-01-31 Neuroscience Genome-wide translating mRNA analysis following ketamine reveals novel targets for antidepressant treatment Oliver H. Miller|Nils Grabole|Isabelle Wells|Benjamin Hall Hoffman-La Roche
http://dx.doi.org/10.1101/256941 2018-01-31 Bioinformatics CC BY-NC PROSSTT: probabilistic simulation of single-cell RNA-seq data for complex differentiation processes Nikolaos Papadopoulos|Rodrigo Gonzalo Parra|Johannes Soeding Max-Planck Institute for Biophysical Chemistry
http://dx.doi.org/10.1101/257121 2018-01-31 Neuroscience CC BY-NC-ND Human POMC processing in vitro and in vivo revealed by quantitative peptidomics Peter Kirwan|Richard G Kay|Bas Brouwers|Vicente Herranz Perez|Magdalena Jura|Pierre Larraufie|Jason Pembroke|Theresa Bartels|Anne White|Fiona Gribble|Frank Reimann|I. Sadaf Farooqi|Stephen O'Rahilly|Florian T Merkle University of Cambridge;|University of Valencia;|LGC Ltd;|University of Manchester
http://dx.doi.org/10.1101/252031 2018-01-31 Genetics Next generation CRISPR/Cas9 transcriptional activation in Drosophila using flySAM Yu Jia|Rong-Gang Xu|Xingjie Ren|Ben Ewen-Campen|Rajendhran Rajakumar|Jonathan Zirin|Donghui Yang-Zhou|Ruibao Zhao|Fang Wang|Decai Mao|Ping Peng|Huan-Huan Qiao|Xia Wang|Lu-Ping Liu|Bowen Xu|Jun-Yuan Ji|Qingfei Lu|Jin Sun|Norbert Perrimon|Jian-Quan Ni Gene Regulatory Lab, School of Medicine, Tsinghua University, Beijing 100084, China;|Institute for Human Genetics and Department of Neurology, UCSF San Francisco, California 94143, USA;|Department of Genetics, Harvard Medical School, Boston, MA 02115;|Drosophila RNAi Screening Center, Department of Genetics, Harvard Medical School, Boston, MA 02115;|Howard Hughes Medical Institute, Boston, MA 02115;|Department of Molecular and Cellular Medicine, College of Medicine, Texas A&M Health Science Center;|School of Pharmaceutical Sciences, Tsinghua University, Beijing 100084, China
http://dx.doi.org/10.1101/256743 2018-01-31 Plant Biology Arabidopsis Lunapark proteins are involved in ER cisternae formation Verena Kriechbaumer|Emily Breeze|Charlotte Pain|Frances Tolmie|Lorenzo Frigerio|Chris Hawes Oxford Brookes University;|University of Warwick
http://dx.doi.org/10.1101/255778 2018-01-31 Immunology CC BY-NC-ND A Gender-Dependent Molecular Switch of Inflammation via MyD88/Estrogen Receptor-alpha Interaction Rana El Sabeh|Melanie Bonnet|Katy Le Corf|Kevin Lang|Alain Kfoury|Bassam Badran|Nader Hussein|Francois Virard|Isabelle Treilleux|Muriel Le Romancer|Serge Lebecque|Serge Manie|Isabelle Coste|Toufic Renno Centre de Recherche en Cancerologie de Lyon, France;|Lebanese University, Hadath, Lebanon;|Centre Leon Berard, Lyon, France
http://dx.doi.org/10.1101/257527 2018-01-31 Biochemistry Crystal structure of chromo barrel domain of RBBP1 Ming Lei|Yue Feng|Mengqi Zhou|Yuan Yang|Peter Loppnau|Yanjun Li|Yi Yang|Yanli Liu Central China Normal University;|University of Toronto;|Wuhan Sports University
http://dx.doi.org/10.1101/257485 2018-01-31 Biochemistry Structural and histone binding studies of the chromo barrel domain of TIP60 Yuzhe Zhang|Ming Lei|Xiao Liang|Peter Loppnau|Yanjun Li|Jinrong Min|Yanli Liu Central China Normal University;|University of Toronto
http://dx.doi.org/10.1101/258061 2018-01-31 CC BY-NC-ND Seave: a comprehensive web platform for storing and interrogating human genomic variation Velimir Gayevskiy|Tony Roscioli|Marcel E Dinger|Mark J Cowley Garvan Institute of Medical Research;|Sydney Children's Hospital, Sydney, Australia
http://dx.doi.org/10.1101/258020 2018-01-31 Controlling load-dependent contractility of the heart at the single molecule level Chao Liu|Masataka Kawana|Dan Song|Kathleen M Ruppel|James Spudich Stanford University School of Medicine
http://dx.doi.org/10.1101/257840 2018-01-31 Pregnancy associated plasma protein-aa (Pappaa) regulates photoreceptor synaptic development to mediate visually guided behavior Andrew Miller|Hollis Howe|Bryan Krause|Scott Friedle|Matthew Banks|Brian Perkins|Marc Wolman University of Wisconsin-Madison;|Cole Eye Institute, Cleveland Clinic Foundation
http://dx.doi.org/10.1101/258053 2018-01-31 CC BY Biased competition in the absence of input bias: predictions from corticostriatal computation Salva Ardid|Jason S Sherfey|Michelle M McCarthy|Joachim Hass|Benjamin R Pittman-Polletta|Nancy Kopell Department of Mathematics and Statistics, Boston University
http://dx.doi.org/10.1101/256982 2018-01-31 Ethical Shades of Gray: Questionable Research Practices in Health Professions Education Anthony R Artino|Erik A Driessen|Lauren A Maggio Uniformed Services University;|Maastricht University
http://dx.doi.org/10.1101/257790 2018-01-31 Mitochondrial targeting of glycolysis in a major lineage of eukaryotes Carolina Rio Bartulos|Matthew Brian Rogers|Tom A Williams|Eleni Gentekaki|Henner Brinkmann|Rudiger Cerff|Marie-Francoise Liaud|Adrian B Hehl|Nigel R Yarlett|Ansgar Gruber|Peter G Kroth|Mark van der Giezen Universität Konstanz;|University of Exeter;|University of Bristol;|Dalhousie University;|Université de Montréal;|University of Braunschweig;|University of Zurich;|Pace University
http://dx.doi.org/10.1101/257808 2018-01-31 CC BY-NC-ND Genomic prediction accounting for genotype by environment interaction offers an effective framework for breeding simultaneously for adaptation to an abiotic stress and performance under normal cropping conditions in rice Manel Ben Hassen|Jerome Bartholome|Giampiero Vale|Tuong-Vi Cao|Nourollah Ahmadi CREA;|CIRAD
http://dx.doi.org/10.1101/253799 2018-01-31 CC BY-NC-ND A survey on information sources used by academic researchers to evaluate scientific instruments Carsten Bergenholtz|Samuel C MacAulay|Christos Kolympiris|Inge Seim Aarhus University;|University of Technology Sydney;|University of Bath;|Queensland University of Technology
http://dx.doi.org/10.1101/257865 2018-01-31 A distributed brain network predicts general intelligence from resting-state human neuroimaging data Julien C Dubois|Paola Galdi|Lynn K Paul|Ralph Adolphs Cedars-Sinai Medical Center;|University of Salerno;|California Institute of Technology
http://dx.doi.org/10.1101/256255 2018-01-31 In vivo topology converts competition for cell-matrix adhesion into directional migration Fernanda Bajanca|Nadege Gouignard|Charlotte Colle|Maddy Parsons|Roberto Mayor|Eric Theveneau Centre de Biologie du Developpement (UMR5547), CNRS, UPS, France;|Cell and Developmental Biology Department, University College London, London, UK;|Randall Division for Biophysics, Kings College London, London, UK
http://dx.doi.org/10.1101/257394 2018-01-31 CC BY-NC-ND Honest and cheating strategies in a simple model of aggressive communication: the role of spatial correlations Szabolcs Szamado|Andras Szanto MTA Centre for Social Sciences;|Evolutionary Systems Research Group, MTA, Centre for Ecological Research
http://dx.doi.org/10.1101/257915 2018-01-31 Comprehensive antibiotic-linked mutation assessment by Resistance Mutation Sequencing (RM-seq) Romain Guerillot|Lucy Li|Sarah Baines|Brian O Howden|Mark Schultz|Torsten Seemann|Ian Monk|Sacha J Pidot|Wei Gao|Stefano Giulieri|Anders Goncalves da Silva|Anthony D'Agata|Takehiro Tomita|Anton Y Peleg|Timothy P Stinear|Benjamin P Howden University of Melbourne;|Monash University
http://dx.doi.org/10.1101/257949 2018-01-31 Visualizing structure-mediated interactions in supercoiled DNA molecules Shane Scott|Zhi M. Xu|Fedor Kouzine|Daniel J. Berard|Cynthia Shaheen|Barbara Gravel|Laura Saunders|Alexander Hofkirchner|Catherine Leroux|Jill Laurin|David Levens|Craig J Benham|Sabrina R. Leslie McGill University;|Center for Cancer Research, National Cancer Institute;|University of California - Davis
http://dx.doi.org/10.1101/257691 2018-01-31 Microfluidics for Electrophysiology, Imaging, and Behavioral Analysis of Hydra Krishna Badhiwala|Daniel L. Gonzales|Daniel G. Vercosa|Benjamin Avants|Jacob Robinson Rice University
http://dx.doi.org/10.1101/257329 2018-01-31 CC BY-NC-ND Attention seeking in a spatially explicit game of mate choice and the evolution of dimorphic ornaments Szabolcs Szamado MTA Centre for Social Sciences
http://dx.doi.org/10.1101/256586 2018-01-31 Modelling coinfections to detect within-host interactions from genotype combination prevalences Samuel Alizon|Carmen Lia Murall|Emma Saulnier|Mircea T Sofonea CNRS
http://dx.doi.org/10.1101/257279 2018-01-31 Leveraging allele-specific expression to refine fine-mapping for eQTL studies Jennifer Zou|Farhad Hormozdiari|Brandon Jew|Jason Ernst|Jae Hoon Sul|Eleazar Eskin University of California, Los Angeles;|Harvard University
http://dx.doi.org/10.1101/257980 2018-01-31 Synaptic release of acetylcholine rapidly suppresses cortical activity by recruiting muscarinic receptors in layer 4 Rajan Dasgupta|Frederik M Seibt|Michael Beierlein McGovern Medical School at UTHealth
http://dx.doi.org/10.1101/257857 2018-01-31 CC BY-NC mol2sphere: Spherical Decomposition of Multi-Domain Molecules for Visualization and Coarse Grained Spatial Modeling Joseph Masison|Paul J. Michalski|Leslie M. Loew|Adam D. Schuyler University of Connecticut School of Medicine
http://dx.doi.org/10.1101/257618 2018-01-31 CC BY cisTEM: User-friendly software for single-particle image processing Nikolaus Grigorieff|Timothy Grant|Alexis Rohou Howard Hughes Medical Institute, United States;|Janelia Research Campus, Howard Hughes Medical Institute, United States
http://dx.doi.org/10.1101/257022 2018-01-31 CC BY-NC-ND KLF6 activates complementary gene modules relevant to axon growth and promotes corticospinal tract regeneration after spinal injury Zimei Wang|Ishwariya Venkatesh|Vatsal Mehra|Matthew Simpson|Brian Maunze|Erik Eastwood|Lyndsey Holan|Murray Blackmore Marquette University
http://dx.doi.org/10.1101/257931 2018-01-31 CC BY-NC PopPhy-CNN: A Phylogenetic Tree Embedded Architecture for Convolution Neural Networks for Metagenomic Data Derek Reiman|Ahmed A Metwally|Yang Dai University of Illinois at Chicago
http://dx.doi.org/10.1101/257352 2018-01-31 CC BY Big data and single cell transcriptomics: implications for ontological representation Brian D. Aevermann|Mark Novotny|Trygve Bakken|Jeremy A. Miller|Alexander D. Diehl|David Osumi-Sutherland|Roger S. Lasken|Ed Lein|Richard H. Scheuermann J. Craig Venter Institute;|Allen Institute for Brain Science;|University at Buffalo;|European Bioinformatics Institute;|Allen Institute
http://dx.doi.org/10.1101/256453 2018-01-31 Cross-type Biomedical Named Entity Recognition with Deep Multi-Task Learning Xuan Wang|Yu Zhang|Xiang Ren|Yuhao Zhang|Marinka Zitnik|Jingbo Shang|Curtis Langlotz|Jiawei Han University of Illinois at Urbana-Champaign;|University of Southern California;|Stanford University
http://dx.doi.org/10.1101/255919 2018-01-31 CC BY-NC-ND The age-regulated zinc finger factor ZNF367 is a new modulator of embryonic neurogenesis Valentina Naef|Sara Monticelli|Debora Corsinovi|Maria Teresa Mazzetto|Alessandro Cellerino|Michela Ori University of Pisa;|Scuola Normale Superiore Pisa
http://dx.doi.org/10.1101/252437 2018-01-31 CC BY Transmission of and susceptibility to seasonal influenza in Switzerland from 2003-2015 Jon Brugger|Christian Althaus University of Bern
http://dx.doi.org/10.1101/257899 2018-01-31 CC BY-NC-ND Functional wiring of the human medial temporal lobe Ethan A Solomon|Joel M Stein|Sandhitsu Das|Richard Gorniak|Michael R Sperling|Gregory Worrell|Robert E Gross|Bradley Lega|Barbara C Jobst|Daniel S Rizzuto|Michael J Kahana University of Pennsylvania;|Thomas Jefferson University Hospital;|Mayo Clinic;|Emory School of Medicine;|University of Texas Southwestern;|Dartmouth Medical Center
http://dx.doi.org/10.1101/257766 2018-01-31 CC BY-NC-ND Genetic basis of transgressive segregation in rice heading phenotypes Yohei Koide|Takashi Uchiyama|Yuya Ota|Shuntaro Sakaguchi|Ayumi Tezuka|Atsushi J. Nagano|Seiya Ishiguro|Itsuro Takamure|Yuji Kishima Hokkaido University;|Ryukoku University
http://dx.doi.org/10.1101/258004 2018-01-31 Why multiple infections favour virulent parasites Mircea T. Sofonea|Samuel Alizon|Yannis Michalakis MIVEGEC, CNRS, IRD, UM
http://dx.doi.org/10.1101/257923 2018-01-31 CC BY-NC-ND Partially Overlapping Brain Networks for Singing and Cello Playing Melanie Segado|Avrum Hollinger|Joseph Thibodeau|Virginia Penhune|Robert Zatorre Montreal Neurological Institute, BRAMS, CIRMMT;|Montreal Neurological Institute, CIRMMT, IDMIL;|BRAMS, CIRMMT, IDMIL;|Montreal Neurological Institute, BRAMS, Concordia University
http://dx.doi.org/10.1101/257261 2018-01-31 Rbfox splicing factors maintain skeletal muscle mass by regulating calpain3 and proteostasis Ravi K Singh|Arseniy M. Kolonin|Marta L. Fiorotto|Thomas A. Cooper Department of Pathology and Immunology, Baylor College of Medicine;|Department of Molecular Physiology & Biophysics, Baylor College of Medicine
http://dx.doi.org/10.1101/257907 2018-01-31 CC BY Conserved noncoding elements influence the transposable element landscape in Drosophila. Manee M. Manee|John Jackson|Casey M. Bergman King Abdulaziz City for Science and Technology, Riyadh, Saudi Arabia.;|University of Sheffield;|University of Georgia
http://dx.doi.org/10.1101/257709 2018-01-31 CC BY-NC-ND A bacterial growth law out of steady-state Yael Korem Kohanim|Dikla Levi|Ghil Jona|Anat Bren|Uri Alon Weizmann Institute of Science
http://dx.doi.org/10.1101/257055 2018-01-31 CC BY-NC-ND Learning to read increases the informativeness of distributed ventral temporal responses Marisa Nordt|Jesse Gomez|Vaidehi Natu|Brianna Jeska|Michael Barnett|Kalanit Grill-Spector Ruhr-University Bochum;|Stanford University
http://dx.doi.org/10.1101/257444 2018-01-31 CC BY-NC GEOMetaCuration: A web-based application for accurate manual curation of Gene Expression Omnibus metadata Zhao Li|Jin Li|Peng Yu Texas A&M University
http://dx.doi.org/10.1101/257634 2018-01-31 CC BY-NC-ND Frequent variants in the Japanese population determine quasi-Mendelian inheritance of rare retinal ciliopathy Konstantinos Nikopoulos|Katarina Cisarova|Hanna Koskiniemi-Kuendig|Noriko Miyake|Pietro Farinelli|Mathieu Quinodoz|Muhammad Imran|Andrea Prunotto|Masato Akiyama|Yoichiro Kamatani|Chikashi Terao|Fuyuki Miya|Yasuhiro Ikeda|Shinji Ueno|Nobuo Fuse|Akira Murakami|Hiroko Terasaki|Koh-Hei Sonoda|Tatsuro Ishibashi|Michiaki Kubo|Frans P.M. Cremers|Naomichi Matsumoto|Koji M Nishiguchi|Toru Nakazawa|Carlo Rivolta University of Lausanne;|Yokohama City University Graduate School of Medicine;|Radboud University Medical Center;|RIKEN Center for Integrative Medical Sciences;|Tokyo Medical and Dental University;|Kyushu University;|Nagoya University Graduate School of Medicine;|Tohoku University;|Juntendo University School of Medicine;|Tohoku University Graduate School of Medicine
http://dx.doi.org/10.1101/252528 2018-01-31 CC BY Dopamine signaling modulates the stability and integration of intrinsic brain networks Golia Shafiei|Yashar Zeighami|Crystal A Clark|Jennifer T Coull|Atsuko Nagano-Saito|Marco Leyton|Alain Dagher|Bratislav Misic Montreal Neurological Institute, McGill University;|Laboratoire des Neurosciences Cognitives UMR 7291, Federation 3C, Aix-Marseille University, France
http://dx.doi.org/10.1101/256321 2018-01-31 Nucleosome turnover is sufficient to establish varied histone methylation states Emma J Chory|Joseph P Calarco|Nathaniel A Hathaway|Oliver Bell|Dana Neel|Gerald R Crabtree Stanford University;|University of North Carolina;|Institute of Molecular Biotechnology of the Austrian Academy of Sciences (IMBA)
http://dx.doi.org/10.1101/255760 2018-01-31 Neuroscience CC BY-NC The use of text-mining and machine learning algorithms in systematic reviews: reducing workload in preclinical biomedical sciences and reducing human screening error Alexandra Bannach-Brown|Piotr Przybya|James Thomas|Andrew S.C. Rice|Sophia Ananiadou|Jing Liao|Malcolm Robert Macleod University of Edinburgh;|National Centre for Text Mining, School of Computer Science, University of Manchester;|EPPI-Centre, Department of Social Science, University College London;|Pain Research, Department of Surgery and Cancer, Imperial College;|Centre for Clinical Brain Sciences, University of Edinburgh
http://dx.doi.org/10.1101/257550 2018-01-31 Bioinformatics CC BY-NC CALISTA: Clustering And Lineage Inference in Single-Cell Transcriptional Analysis Nan Papili Gao|Thomas Hartmann|Rudiyanto Gunawan ETH Zurich
http://dx.doi.org/10.1101/257535 2018-01-31 Neuroscience CC BY-NC-ND Asymmetric Overlap in Neuronal Sensation Constraints Rational Choice in C. elegans Dror Cohen|Meshi Volovich|Yoav Zeevi|Kenway Louie|Dino Jarden Levy|Oded Rechavi Tel Aviv University;|New York University
http://dx.doi.org/10.1101/257683 2018-01-31 Systems Biology CC BY Reproducible model development in the Cardiac Electrophysiology Web Lab Aidan C Daly|Michael Clerx|Kylie A Beattie|Jonathan Cooper|David J Gavaghan|Gary R Mirams University of Oxford;|University College London;|University of Nottingham
http://dx.doi.org/10.1101/257741 2018-01-31 Animal Behavior and Cognition CC BY Liberal Detection Bias in the Unattended Periphery during Simulated Driving Musen Kingsley Li|Hakwan Lau|Brian Odegaard Tsinghua University;|University of California-Los Angeles
http://dx.doi.org/10.1101/258400 2018-02-01 Cancer Biology Identification of endogenous Adenomatous polyposis coli interaction partners and β-catenin-independent targets by proteomics Olesja Popow|Michael Tatham|Joao Paulo|Alejandro Rojaa|Nicholas Loyer|Ian P Newton|Jens Januschke|Kevin Haigis|Inke Nathke Beth Deaconess Medical Centre Harvard University;|University of Dundee;|Universidad Austral de Chile
http://dx.doi.org/10.1101/258111 2018-02-01 Neuroscience Fatherhood alters gene expression within the MPOA Adele M H Seelke|Jessica M Bond|Trenton C Simmons|Danielle Stolzenberg|Mijke Rhemtulla|Karen L Bales University of California, Davis
http://dx.doi.org/10.1101/258285 2018-02-01 Immunology Peroxiredoxin-mediated HMGB1 oxidation and secretion in response to inflammatory stimuli Man Sup Kwak|Hee Sue Kim|Khulan Lkhamsuren|Young Hun Kim|Myung Gil Hahn|Jae Min Shin|In Ho Park|Se Kyung Lee|Sue Goo Rhee|Jeon-Soo Shin Yonsei University College of Medicine, Korea, Republic of
http://dx.doi.org/10.1101/257824 2018-02-01 Cancer Biology A Comprehensive Overview Of Genomic Imprinting In Breast & Its Deregulation In Cancer Tine Goovaerts|Sandra Steyaert|Chari A Vandenbussche|Jeroen Galle|Olivier Thas|Wim Van Criekinge|Tim De Meyer Ghent University
http://dx.doi.org/10.1101/258194 2018-02-01 Biochemistry CC BY-NC-ND Structure of Zip2:Spo16, a conserved XPF:ERCC1-like complex critical for meiotic crossover formation Kanika Arora|Kevin D Corbett Ludwig Institute for Cancer Research;|University of California, San Diego; Ludwig Institute for Cancer Research
http://dx.doi.org/10.1101/257386 2018-02-01 Bioinformatics PTMscape: an open source tool to predict generic post-translational modifications and map hotspots of modification crosstalk Ginny Xiaohe Li|Christine Vogel|Hyungwon Choi National University of Singapore;|New York University
http://dx.doi.org/10.1101/258095 2018-02-01 Neuroscience CC BY-NC-ND Single Session Real-time fMRI Neurofeedback has a Lasting Impact on Cognitive Behavioral Therapy Strategies Katherine E MacDuffie|Jeff MacInness|Kathryn C Dickerson|Kari M Eddington|Timothy J Strauman|R Alison Adcock University of Washington;|Duke University;|University of North Carolina at Greensboro
http://dx.doi.org/10.1101/258178 2018-02-01 Biochemistry Analysis of global and site-specific radiation damage in cryo-EM Johan Hattne|Dan Shi|Calina Glynn|Chih-Te Zee|Marcus Gallagher-Jones|Michael Martynowycz|Jose Rodriguez|Tamir Gonen Howard Hughes Medical Institute;|University of California, Los Angeles;|Howard Hughes Medical Institute and University of California, Los Angeles
http://dx.doi.org/10.1101/258152 2018-02-01 Bioinformatics CC BY-ND DeepHINT: Understanding HIV-1 integration via deep learning with attention Hailin Hu|An Xiao|Sai Zhang|Yangyang Li|Xuanling Shi|Tao Jiang|Linqi Zhang|Lei Zhang|Jianyang Zeng Tsinghua University;|Stanford University
http://dx.doi.org/10.1101/250878 2018-02-01 Neuroscience CC BY-NC-ND Functional organization of motion and disparity sensitivity in human visual cortex Peter J Kohler|Wesley Meredith|Anthony M. Norcia Stanford University
http://dx.doi.org/10.1101/258129 2018-02-01 Systems Biology CC BY-NC-ND Regulation by competition: a hidden layer of gene regulatory network Ye Yuan|Lei Wei|Tao Hu|Shuailin Li|Tianrun Cheng|Jinzhi Lei|Zhen Xie|Michael Q. Zhang|Xiaowo Wang Tsinghua University;|The University of Texas; Tsinghua University
http://dx.doi.org/10.1101/258038 2018-02-01 Ecology Habitat loss is information loss: Species distribution models are compromised in anthropogenic landscapes Russell Dinnage|Marcel Cardillo Australian National University
http://dx.doi.org/10.1101/256958 2018-01-31 Biochemistry Ferrous iron mediates translation Marcus S Bray|Jessica C Bowman|Anton S Petrov|Loren D Williams|Jennifer B Glass Georgia Institute of Technology
http://dx.doi.org/10.1101/258087 2018-01-31 Cell Biology SAC1 Degrades its Lipid Substrate PtdIns4P in the Endoplasmic Reticulum to Maintain a Steep Chemical Gradient with Donor Membranes James P Zewe|Rachel C Wills|Sahana Sangappa|Brady Goulden|Gerald Hammond University of Pittsburgh